Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 62
Found at i:7575690 original size:21 final size:21
Alignment explanation
Indices: 7575664--7575704 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7575654 ACGTTAACAT
7575664 AAGAAAACATAGTTAAAATAA
1 AAGAAAACATAGTTAAAATAA
* *
7575685 AAGAAATCATAGTTCAAATA
1 AAGAAAACATAGTTAAAATA
7575705 CTTAAACACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (21 bp):
AAGAAAACATAGTTAAAATAA
Found at i:7577133 original size:14 final size:14
Alignment explanation
Indices: 7577114--7577144 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7577104 ACTATTTAAA
7577114 ATTATTATTTATTT
1 ATTATTATTTATTT
7577128 ATTATTATTTATTT
1 ATTATTATTTATTT
7577142 ATT
1 ATT
7577145 TAAATAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTATTATTTATTT
Found at i:7577532 original size:12 final size:11
Alignment explanation
Indices: 7577511--7577553 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
7577501 TGAACAAAAT
7577511 TAATTAAATAA
1 TAATTAAATAA
7577522 TAATATAAATAA
1 TAAT-TAAATAA
*
7577534 TAATTAAGAAAA
1 TAATTAA-ATAA
7577546 TAATTAAA
1 TAATTAAA
7577554 AATGTCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATTAAATAA
Found at i:7583467 original size:111 final size:110
Alignment explanation
Indices: 7583332--7583536 Score: 329
Period size: 111 Copynumber: 1.9 Consensus size: 110
7583322 GTCACTAATG
* * *
7583332 GAAATTATCGATCGATTTTATTTAATGCATAACTGTGCATTTTCGGCATAAAAGGTACCACCCAT
1 GAAATTATCGATCGATTTTATTTAATGCATAACAGTGCATTATCGGAATAAAAGGTACCACCCAT
*
7583397 GGTATTCATAAAAGGTGAATTACCATTTCAACATATCTCATGTAT
66 GGTATTCATAAAAGGTGAATGACCATTTCAACATATCTCATGTAT
* * * *
7583442 GAAAGTTATCGATTGATTTTGTTTAATGCATAACAGTGCATTATCGGAATAAAAGGTGCCACTCA
1 GAAA-TTATCGATCGATTTTATTTAATGCATAACAGTGCATTATCGGAATAAAAGGTACCACCCA
7583507 TGGTATTCATAAAAGGTGAATGACCATTTC
65 TGGTATTCATAAAAGGTGAATGACCATTTC
7583537 GACACTTCGA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
110 4 0.05
111 82 0.95
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (110 bp):
GAAATTATCGATCGATTTTATTTAATGCATAACAGTGCATTATCGGAATAAAAGGTACCACCCAT
GGTATTCATAAAAGGTGAATGACCATTTCAACATATCTCATGTAT
Found at i:7584405 original size:20 final size:19
Alignment explanation
Indices: 7584356--7584409 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
7584346 ATATTGTACT
7584356 CTTT-AGTATCGATACTTC
1 CTTTGAGTATCGATACTTC
* * *
7584374 ATGTGGGATATCGATACTTCC
1 CTTTGAG-TATCGATACTT-C
7584395 CTTTGAGTATCGATA
1 CTTTGAGTATCGATA
7584410 ATGATTTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 19 0.70
21 5 0.19
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (19 bp):
CTTTGAGTATCGATACTTC
Found at i:7584615 original size:21 final size:21
Alignment explanation
Indices: 7584567--7584618 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
7584557 TGCCTCATAC
7584567 GAGTATCGATACCCTGTGAAT
1 GAGTATCGATACCCTGTGAAT
7584588 G-GTATCGATACCCAT-TGAAT
1 GAGTATCGATACCC-TGTGAAT
7584608 GAGTATCGATA
1 GAGTATCGATA
7584619 ATTCTAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (21 bp):
GAGTATCGATACCCTGTGAAT
Found at i:7586091 original size:20 final size:20
Alignment explanation
Indices: 7586068--7586111 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7586058 AGGTCAATAG
* *
7586068 TCAATGGTCAAAGTCAACGA
1 TCAATAGTCAAAATCAACGA
*
7586088 TCAATAGTTAAAATCAACGA
1 TCAATAGTCAAAATCAACGA
7586108 TCAA
1 TCAA
7586112 CGGTTTTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (20 bp):
TCAATAGTCAAAATCAACGA
Found at i:7591727 original size:20 final size:21
Alignment explanation
Indices: 7591702--7591741 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
7591692 CTTTGTATAG
7591702 TAGTATCGATACCA-AAGGCA
1 TAGTATCGATACCATAAGGCA
7591722 TAGTATCGATACCATAAGGC
1 TAGTATCGATACCATAAGGC
7591742 CCTAATGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
TAGTATCGATACCATAAGGCA
Found at i:7594898 original size:19 final size:20
Alignment explanation
Indices: 7594874--7594912 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
7594864 ATTGAATTTA
*
7594874 TTCAAAAAT-TTTCAAAGTT
1 TTCAAAAATAATTCAAAGTT
7594893 TTCAAAAATAATTCAAAGTT
1 TTCAAAAATAATTCAAAGTT
7594913 CTTAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
TTCAAAAATAATTCAAAGTT
Found at i:7595173 original size:20 final size:21
Alignment explanation
Indices: 7595148--7595187 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
7595138 CTTTGTATAG
7595148 TAGTATCGATACCA-AAGGCA
1 TAGTATCGATACCATAAGGCA
7595168 TAGTATCGATACCATAAGGC
1 TAGTATCGATACCATAAGGC
7595188 CCCAACGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (21 bp):
TAGTATCGATACCATAAGGCA
Found at i:7598397 original size:21 final size:21
Alignment explanation
Indices: 7598371--7598412 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7598361 GATCATTTGG
7598371 AAGAGTTATTACTTCTTCCTT
1 AAGAGTTATTACTTCTTCCTT
7598392 AAGAGTTATTACTTCTTCCTT
1 AAGAGTTATTACTTCTTCCTT
7598413 CGATGTGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.48
Consensus pattern (21 bp):
AAGAGTTATTACTTCTTCCTT
Found at i:7598527 original size:18 final size:18
Alignment explanation
Indices: 7598506--7598546 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
7598496 CAAGATGAAG
7598506 CATTTGAACACCAAAGGA
1 CATTTGAACACCAAAGGA
7598524 CATTTGAACACCAAAGGA
1 CATTTGAACACCAAAGGA
7598542 CATTT
1 CATTT
7598547 ATTCATCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (18 bp):
CATTTGAACACCAAAGGA
Found at i:7600159 original size:19 final size:19
Alignment explanation
Indices: 7600132--7600169 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7600122 ACGTTTTTAA
*
7600132 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
7600151 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
7600170 TCAAAATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:7600223 original size:21 final size:21
Alignment explanation
Indices: 7600197--7600252 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
7600187 ATCTTACAAT
7600197 CGCGTTGCGAATTTTGATATC
1 CGCGTTGCGAATTTTGATATC
7600218 CGCGTTGCGAATTTTGATATC
1 CGCGTTGCGAATTTTGATATC
7600239 CGCGTTGCGAATTT
1 CGCGTTGCGAATTT
7600253 GGAAACTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.38
Consensus pattern (21 bp):
CGCGTTGCGAATTTTGATATC
Found at i:7611022 original size:2 final size:2
Alignment explanation
Indices: 7611009--7611064 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
7610999 TTTTAAGAAA
7611009 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7611049 AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT A
7611065 AATAAGATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7611464 original size:21 final size:24
Alignment explanation
Indices: 7611411--7611470 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 24
7611401 TATATATGTT
7611411 TATATAACTACATAATAATAATTAAA
1 TATATAA--ACATAATAATAATTAAA
7611437 TATATAAACAT-ATAA-AATTAAA
1 TATATAAACATAATAATAATTAAA
*
7611459 -ATATAAATATAA
1 TATATAAACATAA
7611471 ATAAACAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 9 0.28
22 8 0.25
23 4 0.12
24 4 0.12
26 7 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (24 bp):
TATATAAACATAATAATAATTAAA
Found at i:7612964 original size:3 final size:3
Alignment explanation
Indices: 7612958--7613007 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
7612948 ATATATTATT
* *
7612958 TAA TAA TAA TAA -AA TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7613002 TAA TAA
1 TAA TAA
7613008 ATAAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7612986 original size:22 final size:22
Alignment explanation
Indices: 7612958--7613015 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7612948 ATATATTATT
*
7612958 TAATAATAATAAAATAATATAA
1 TAATAATAATAAAATAAAATAA
* *
7612980 TAATAATATTAAAACAAAATAA
1 TAATAATAATAAAATAAAATAA
7613002 TAAT-A-AATAAAATA
1 TAATAATAATAAAATA
7613016 TAAGAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 23 0.74
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAATAATAATAAAATAAAATAA
Found at i:7613034 original size:30 final size:29
Alignment explanation
Indices: 7612968--7613026 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
7612958 TAATAATAAT
*
7612968 AAAATAATATAATAATAATATTAAAACAA
1 AAAATAATATAATAATAATATAAAAACAA
7612997 AATAATAATA-AATAA-AATATAAGAAACAA
1 AA-AATAATATAATAATAATATAA-AAACAA
7613026 A
1 A
7613027 TGAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 6 0.22
29 14 0.52
30 7 0.26
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (29 bp):
AAAATAATATAATAATAATATAAAAACAA
Found at i:7613710 original size:123 final size:117
Alignment explanation
Indices: 7613445--7613902 Score: 445
Period size: 123 Copynumber: 3.9 Consensus size: 117
7613435 TTATCTCCTT
* * * * *
7613445 CTGTGATGTAATC-TAGCAAAAAGTTGAATAAATTTTTCTCATTATGAATTTCTTCTTT-TTCAG
1 CTGTGATG-AATCAT-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCAG
* * ** * * *
7613508 ATGAGTTCTTTTCATTATGAACACT-TCTGGAAAAGTTAATGTTGATATATCTC
64 ATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
* * * *
7613561 CTGTGATAGAGTTATGCAAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTTCGCTTTA
1 CTGTGAT-GAATCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTT--CTTCA
*
7613626 GATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTAATCTATCTCC
63 GATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCT-C
* * *
7613682 TTCTGTGATAGAGTCATGCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCTTCTT
1 --CTGTGAT-GAATCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT--TTCTT
* * * *
7613747 CAGATGAGTTCTTCTCATTATGAACTCTAC-CTGG--CA----ATGCTGATCCA--TC
61 CAGATAAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATGCTGATCTATCTC
** * *
7613796 GAGTGATGAATTAGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCA
1 CTGTGATGAATCA-TGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT--TCTTCA
7613861 GATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT
63 GATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT
7613903 CCATCGATGA
Statistics
Matches: 284, Mismatches: 36, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
110 1 0.00
111 6 0.02
112 77 0.27
114 2 0.01
115 1 0.00
116 47 0.17
117 11 0.04
118 2 0.01
119 25 0.09
120 23 0.08
121 2 0.01
123 83 0.29
124 2 0.01
125 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (117 bp):
CTGTGATGAATCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTCAGAT
AAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTC
Found at i:7613823 original size:112 final size:111
Alignment explanation
Indices: 7613699--7613918 Score: 336
Period size: 112 Copynumber: 2.0 Consensus size: 111
7613689 ATAGAGTCAT
* *
7613699 GCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTATTC-TCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCC-TCTTCAGATAAGTTCTTCTC
* *
7613763 ATTATGAACTCTAC-CTGGCAATGCTGATCCATCGAGTGATGAATTAGA
65 ATTATGAACT-TACTCTGGAAAAGCTGATCCATCGA-TGATGAATTAGA
*
7613811 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCA
* *
7613876 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGATGATGAATT
66 TTATGAACTTACTCTGGAAAAGCTGATCCATCGATGATGAATT
7613919 CGAATCTTTG
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
111 11 0.11
112 85 0.86
113 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCA
TTATGAACTTACTCTGGAAAAGCTGATCCATCGATGATGAATTAGA
Found at i:7614218 original size:22 final size:22
Alignment explanation
Indices: 7614193--7614243 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
7614183 AAATCCAATA
* *
7614193 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
*
7614215 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
7614237 AATCTAT
1 AATCTAT
7614244 TATATTTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:7614251 original size:22 final size:22
Alignment explanation
Indices: 7614204--7614256 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7614194 ATCTTTCTTC
*
7614204 TTTGAAAAGAGAATCTATCATC
1 TTTGAAAAGAGAATCTATCATA
* *
7614226 TTTGAAGAGAGAATCTATTATA
1 TTTGAAAAGAGAATCTATCATA
7614248 TTTGGAAAA
1 TTT-GAAAA
7614257 TGTAGATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.34
Consensus pattern (22 bp):
TTTGAAAAGAGAATCTATCATA
Found at i:7614867 original size:18 final size:18
Alignment explanation
Indices: 7614844--7614881 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
7614834 TATATAAAAG
7614844 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
*
7614862 AATAAATTGAATTTCTAA
1 AATAAATTGAATTTCGAA
7614880 AA
1 AA
7614882 GATAAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:7626403 original size:2 final size:2
Alignment explanation
Indices: 7626390--7626423 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7626380 ATTTTAAGAA
7626390 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7626424 TATTTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7626828 original size:8 final size:7
Alignment explanation
Indices: 7626817--7626907 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 7
7626807 CAATAATAAT
7626817 TAAATATA
1 TAAA-ATA
7626825 TAAACATA
1 TAAA-ATA
7626833 TAAAAT-
1 TAAAATA
7626839 TAAAATA
1 TAAAATA
7626846 T-AAATA
1 TAAAATA
7626852 T-AAATA
1 TAAAATA
7626858 -AACAATGA
1 TAA-AAT-A
7626866 CTAAAATAAA
1 -TAAAAT--A
7626876 TAAAAT-
1 TAAAATA
7626882 TAAAACTA
1 TAAAA-TA
**
7626890 TAGTAT-
1 TAAAATA
7626896 TAAAATA
1 TAAAATA
7626903 TAAAA
1 TAAAA
7626908 AGTAATAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 21
0.71 0.06 0.22
Matches are distributed among these distances:
6 27 0.40
7 13 0.19
8 15 0.22
9 9 0.13
10 3 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (7 bp):
TAAAATA
Found at i:7626846 original size:21 final size:22
Alignment explanation
Indices: 7626805--7626849 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
7626795 TAATAATAAT
7626805 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
7626827 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
7626848 AA
1 AA
7626850 TATAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:7626858 original size:23 final size:23
Alignment explanation
Indices: 7626808--7626859 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
7626798 TAATAATAAC
7626808 AATAATAATTAAATATATAAACAT
1 AATAA-AATTAAATATATAAACAT
*
7626832 -ATAAAATTAAA-ATATAAATAT
1 AATAAAATTAAATATATAAACAT
7626853 AAATAAA
1 -AATAAA
7626860 CAATGACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 9 0.36
22 7 0.28
23 9 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAATTAAATATATAAACAT
Found at i:7628314 original size:3 final size:3
Alignment explanation
Indices: 7628308--7628357 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
7628298 ATTTATTATT
* *
7628308 TAA TAA TAA TAA -AA TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7628352 TAA TAA
1 TAA TAA
7628358 ATAAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7628336 original size:22 final size:22
Alignment explanation
Indices: 7628308--7628365 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
7628298 ATTTATTATT
*
7628308 TAATAATAATAAAATAATATAA
1 TAATAATAATAAAATAAAATAA
* *
7628330 TAATAATATTAAAACAAAATAA
1 TAATAATAATAAAATAAAATAA
7628352 TAAT-A-AATAAAATA
1 TAATAATAATAAAATA
7628366 TAAGAAACAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 23 0.74
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAATAATAATAAAATAAAATAA
Found at i:7628384 original size:30 final size:29
Alignment explanation
Indices: 7628318--7628376 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
7628308 TAATAATAAT
*
7628318 AAAATAATATAATAATAATATTAAAACAA
1 AAAATAATATAATAATAATATAAAAACAA
7628347 AATAATAATA-AATAA-AATATAAGAAACAA
1 AA-AATAATATAATAATAATATAA-AAACAA
7628376 A
1 A
7628377 TGAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 6 0.22
29 14 0.52
30 7 0.26
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (29 bp):
AAAATAATATAATAATAATATAAAAACAA
Found at i:7632107 original size:44 final size:44
Alignment explanation
Indices: 7632057--7632144 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
7632047 TTTTAAAACT
* *
7632057 AAGGATTTTTTTCCTAGGAGATAAGGGTCCTTGTAGATAAGTTC
1 AAGGATTATTTTCCTAGGAGATAAGAGTCCTTGTAGATAAGTTC
* *
7632101 AAGGATTATTTTCTTAGGTGATAAGAGTCCTTGTAGATAAGTTC
1 AAGGATTATTTTCCTAGGAGATAAGAGTCCTTGTAGATAAGTTC
7632145 TTAGCCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (44 bp):
AAGGATTATTTTCCTAGGAGATAAGAGTCCTTGTAGATAAGTTC
Found at i:7648681 original size:84 final size:81
Alignment explanation
Indices: 7648535--7648691 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 81
7648525 ATCCCAAATT
* ** *
7648535 AATTTCAATTAATTAAATATTTTAATTAATTTGAAATAAAAATTCTTATATGATAGGGTAACTTG
1 AATTCCAATTAATTAAATATTTTAATTAATTTGAAATAAAAACCCTAATAT-ATAGGGTAACTTG
7648600 GATATAAAGGATTATTA
65 GATATAAAGGATTATTA
7648617 AATTCCAATTAATTAAATATAGATTTAATTAATTTG-AATAATAAAACCCTAATAT-TAGGGTAA
1 AATTCCAATTAATTAAATAT---TTTAATTAATTTGAAAT-A-AAAACCCTAATATATAGGGTAA
*
7648680 CTTGGCTATAAA
61 CTTGGATATAAA
7648692 AGGGTGTGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
82 19 0.29
84 22 0.34
85 14 0.22
86 10 0.15
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (81 bp):
AATTCCAATTAATTAAATATTTTAATTAATTTGAAATAAAAACCCTAATATATAGGGTAACTTGG
ATATAAAGGATTATTA
Found at i:7655558 original size:87 final size:86
Alignment explanation
Indices: 7655403--7655562 Score: 243
Period size: 87 Copynumber: 1.8 Consensus size: 86
7655393 ATTTAATTTT
* *
7655403 AATTAATTAAATATATATTAATTAATTTGAATAATAAAATCCTAATATGATAGGGTAACTTGGAT
1 AATTAATTAAATATAGATTAATTAATTTGAATAATAAAACCCTAATATGATAGGGTAACTTGGAT
7655468 ATAAAAGGATTATTAAATTCC
66 ATAAAAGGATTATTAAATTCC
*
7655489 AATTAATTAAATATAGATTTAATTAATTTG-A-AATAAAAACCCTAATATGATTATGGTAACTTG
1 AATTAATTAAATATAGA-TTAATTAATTTGAATAAT-AAAACCCTAATATGA-TAGGGTAACTTG
*
7655552 GCTATAAAAGG
63 GATATAAAAGG
7655563 GTGTGTTAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
85 3 0.04
86 31 0.46
87 33 0.49
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (86 bp):
AATTAATTAAATATAGATTAATTAATTTGAATAATAAAACCCTAATATGATAGGGTAACTTGGAT
ATAAAAGGATTATTAAATTCC
Found at i:7657688 original size:13 final size:13
Alignment explanation
Indices: 7657670--7657699 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7657660 TATTTATTTC
*
7657670 TGATTTGTTTGAT
1 TGATTTGGTTGAT
7657683 TGATTTGGTTGAT
1 TGATTTGGTTGAT
7657696 TGAT
1 TGAT
7657700 ACAAGTTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.57
Consensus pattern (13 bp):
TGATTTGGTTGAT
Found at i:7659881 original size:26 final size:26
Alignment explanation
Indices: 7659851--7659919 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
7659841 AATCATAGTC
*
7659851 CAGTAAATCTCATAAAAATTATACTG
1 CAGTAAATCTCATAAAAATTATACTA
*
7659877 TAGTAAATCTCATAAAAATTATACTA
1 CAGTAAATCTCATAAAAATTATACTA
7659903 CAGTAAATCTCATAAAA
1 CAGTAAATCTCATAAAA
7659920 GAGTTACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (26 bp):
CAGTAAATCTCATAAAAATTATACTA
Found at i:7661002 original size:30 final size:29
Alignment explanation
Indices: 7660948--7661076 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
7660938 TACATTCAAA
*
7660948 AATTCCCAAAATATCACCTTTTTCAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
7660977 AATTCCCAGAATGTCACCTTTTTTCAAAAT
1 AATTCCCAAAATGTCACC-TTTTTCAAAAT
*
7661007 AATTCCCAAAATATCACCTTTTT----AT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
* * *
7661032 AATTCCCAGAATGTCACTTTTTTTAAAAT
1 AATTCCCAAAATGTCACCTTTTTCAAAAT
*
7661061 AATTCTCAAAATGTCA
1 AATTCCCAAAATGTCA
7661077 TCGGGTCGGG
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
25 22 0.26
29 37 0.43
30 27 0.31
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (29 bp):
AATTCCCAAAATGTCACCTTTTTCAAAAT
Found at i:7661101 original size:13 final size:13
Alignment explanation
Indices: 7661083--7661114 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
7661073 GTCATCGGGT
7661083 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
7661096 CGGGTC-GGTCAA
1 CGGGTCGGGTCAA
7661108 CGGGTCG
1 CGGGTCG
7661115 TGACAGACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:7662516 original size:60 final size:58
Alignment explanation
Indices: 7662388--7662517 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 58
7662378 TGAGCCCACT
* *
7662388 AACTATTAAAAGTCGTAAAATGATCATTGATTATAGGGTACTACTTTGTTGAGTCATTC
1 AACTATTAAAAGTC-TAAAATGATCATTGACTATAAGGTACTACTTTGTTGAGTCATTC
* * *
7662447 AATTTTTAAAAGT-TACAAATTGATCCCTTGACTATAAGGTACTACTTTGTTGAGTCATTC
1 AACTATTAAAAGTCTA-AAA-TGAT-CATTGACTATAAGGTACTACTTTGTTGAGTCATTC
*
7662507 GACTATTAAAA
1 AACTATTAAAA
7662518 TTTTAAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.03
58 3 0.05
59 15 0.25
60 40 0.67
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (58 bp):
AACTATTAAAAGTCTAAAATGATCATTGACTATAAGGTACTACTTTGTTGAGTCATTC
Found at i:7662737 original size:28 final size:28
Alignment explanation
Indices: 7662684--7662738 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
7662674 CTCTATTTTA
* *
7662684 ATTATGTCATCGAGCCAGTTCTTGAAAT
1 ATTATGTCATCGAGCCAGTACCTGAAAT
*
7662712 ATTATGTCGTCGAGCCAGTACCTGAAA
1 ATTATGTCATCGAGCCAGTACCTGAAA
7662739 GCAAAGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (28 bp):
ATTATGTCATCGAGCCAGTACCTGAAAT
Found at i:7663371 original size:5 final size:5
Alignment explanation
Indices: 7663361--7663393 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
7663351 TCCCCAAAGC
7663361 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCT
1 CCTCT CCTCT CCTCT CCTCT CCTCT CCTCT CCT
7663394 TCTCTGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CCTCT
Found at i:7666782 original size:15 final size:17
Alignment explanation
Indices: 7666751--7666783 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
7666741 TGCCTATTCT
7666751 AGATATAAATGACATAA
1 AGATATAAATGACATAA
7666768 AGATAT-AAT-ACATAA
1 AGATATAAATGACATAA
7666783 A
1 A
7666784 AGAGTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (17 bp):
AGATATAAATGACATAA
Found at i:7684868 original size:28 final size:28
Alignment explanation
Indices: 7684814--7684870 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7684804 ATCTTCGTTT
* * *
7684814 ACATTATGTTGTTGAGTCAGTGCTTGAA
1 ACATTATATTGTCGAGTCAGTACTTGAA
*
7684842 ACATTATATTGTCGAGTCAGTATTTGAA
1 ACATTATATTGTCGAGTCAGTACTTGAA
7684870 A
1 A
7684871 GCAACGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.39
Consensus pattern (28 bp):
ACATTATATTGTCGAGTCAGTACTTGAA
Found at i:7687259 original size:47 final size:46
Alignment explanation
Indices: 7687183--7687271 Score: 133
Period size: 47 Copynumber: 1.9 Consensus size: 46
7687173 AGGGATGGGC
* *
7687183 GCTGTTGTCGGGCATGGTGTGGCGTGGGGAACAACAAAGTATAGGA
1 GCTGCTGTCGGGCAGGGTGTGGCGTGGGGAACAACAAAGTATAGGA
* *
7687229 GCTGCTGTCGGGCAGGGTGCTTGCGTGGGGAACAACAAGGTAT
1 GCTGCTGTCGGGCAGGGTG-TGGCGTGGGGAACAACAAAGTAT
7687272 GGTCAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 17 0.45
47 21 0.55
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (46 bp):
GCTGCTGTCGGGCAGGGTGTGGCGTGGGGAACAACAAAGTATAGGA
Found at i:7687520 original size:19 final size:18
Alignment explanation
Indices: 7687496--7687535 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
7687486 TCTAGCTTAT
*
7687496 TTTCCTATTCCTTTTAACG
1 TTTCCTATTCCTATT-ACG
*
7687515 TTTCCTTTTCCTATTACG
1 TTTCCTATTCCTATTACG
7687533 TTT
1 TTT
7687536 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.12, C:0.25, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTCCTATTCCTATTACG
Found at i:7688501 original size:24 final size:24
Alignment explanation
Indices: 7688467--7688521 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
7688457 CCCACCTCTA
* * *
7688467 ACCACACAGAAAATGTTAGTGAGG
1 ACCACATAGAAAATGTTAGGGAAG
*
7688491 ACCACATAGAAACTGTTAGGGAAG
1 ACCACATAGAAAATGTTAGGGAAG
7688515 ACCACAT
1 ACCACAT
7688522 TATTGTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (24 bp):
ACCACATAGAAAATGTTAGGGAAG
Found at i:7689272 original size:18 final size:18
Alignment explanation
Indices: 7689251--7689289 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7689241 GGTGAAATAA
7689251 TTAGGAATATTGAAACTG
1 TTAGGAATATTGAAACTG
* *
7689269 TTAGGATTGTTGAAACTG
1 TTAGGAATATTGAAACTG
7689287 TTA
1 TTA
7689290 ATTTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (18 bp):
TTAGGAATATTGAAACTG
Found at i:7690444 original size:21 final size:21
Alignment explanation
Indices: 7690418--7690478 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
7690408 ATGTGAAATT
*
7690418 TGTCCCGAAGGACCTCATGTA
1 TGTCCCGAAGGACCTCATATA
7690439 TGTCCCGAAGGACCTCATATA
1 TGTCCCGAAGGACCTCATATA
*
7690460 TGTCCCGAATGACCTCATA
1 TGTCCCGAAGGACCTCATA
7690479 CAATCCCTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (21 bp):
TGTCCCGAAGGACCTCATATA
Found at i:7692595 original size:123 final size:125
Alignment explanation
Indices: 7692376--7692623 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 125
7692366 CCAAGTTTTC
7692376 CTTTTCATCCAAATCTCAACACTTTCTTCCACGGAGATACTTTTAGAAACACTTTATCTCCAATT
1 CTTTTCATCCAAATCTCAACACTTTCTTCCACGGAGATACTTTTAGAAACACTTTATCTCCAATT
7692441 TGAAACTCGATTTCTTTCCTCTTGAGACCATCATACGA-TTCTGTCGA-TAGTTATTGCT
66 TGAAACTCGATTTCTTTCCTCTTGAGACCATCATACGATTTCTGTCGATTAGTTATTGCT
7692499 CTTTTCATCCAAATCTCAACACTTTCTTCCACGGAGATACTTTTAGAAACACTTTATCTCCAATT
1 CTTTTCATCCAAATCTCAACACTTTCTTCCACGGAGATACTTTTAGAAACACTTTATCTCCAATT
7692564 TGAAACTCGATTTCTTTCCTCTTGAGACCATCATACGATTTCTGTCGATTAGTTATTGCT
66 TGAAACTCGATTTCTTTCCTCTTGAGACCATCATACGATTTCTGTCGATTAGTTATTGCT
7692624 TTCAGATTGT
Statistics
Matches: 123, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
123 103 0.84
124 9 0.07
125 11 0.09
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (125 bp):
CTTTTCATCCAAATCTCAACACTTTCTTCCACGGAGATACTTTTAGAAACACTTTATCTCCAATT
TGAAACTCGATTTCTTTCCTCTTGAGACCATCATACGATTTCTGTCGATTAGTTATTGCT
Found at i:7697495 original size:21 final size:21
Alignment explanation
Indices: 7697469--7697531 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
7697459 ATGTGAAATT
* *
7697469 TGTCCCAAAAGACCTCGTGTA
1 TGTCCCAAAGGACCTCGTATA
*
7697490 TGTCCCGAAGGACCTCGTATA
1 TGTCCCAAAGGACCTCGTATA
*
7697511 TGTCCCAAAGGACCTCATATA
1 TGTCCCAAAGGACCTCGTATA
7697532 ATCCCTCAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
TGTCCCAAAGGACCTCGTATA
Found at i:7703229 original size:22 final size:21
Alignment explanation
Indices: 7703204--7703247 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
7703194 AATTAGCTTA
*
7703204 AATTCATAATATTTTATATATT
1 AATTCAAAATATTTTA-ATATT
*
7703226 AATTTAAAATATTTTAATATT
1 AATTCAAAATATTTTAATATT
7703247 A
1 A
7703248 TCTTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTCAAAATATTTTAATATT
Found at i:7703303 original size:2 final size:2
Alignment explanation
Indices: 7703298--7703323 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7703288 AGTAATTTAA
7703298 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
7703324 GTTAAAATAT
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:7703405 original size:30 final size:29
Alignment explanation
Indices: 7703345--7703415 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
7703335 TTGAAGTTAG
7703345 GATAAGAATA-AATTATATTTAATAATTTAA
1 GATAA-AATATAA-TATATTTAATAATTTAA
* *
7703375 GGTAATAATATAATATATTTAGTACA-TTAA
1 GATAA-AATATAATATATTTAATA-ATTTAA
7703405 GATAAAATATA
1 GATAAAATATA
7703416 TACTTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.17
30 26 0.74
31 3 0.09
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.38
Consensus pattern (29 bp):
GATAAAATATAATATATTTAATAATTTAA
Found at i:7703504 original size:23 final size:24
Alignment explanation
Indices: 7703478--7703536 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
7703468 AGAATGAAAT
7703478 ATATTTTTAAAT-AAAAAAACTAA
1 ATATTTTTAAATAAAAAAAACTAA
7703501 ATATTTTTAAATAAAAAAAACTAA
1 ATATTTTTAAATAAAAAAAACTAA
7703525 ATATTTTTAAAT
1 ATATTTTTAAAT
7703537 CAAATTACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 12 0.34
24 23 0.66
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATTTTTAAATAAAAAAAACTAA
Found at i:7705690 original size:160 final size:160
Alignment explanation
Indices: 7705426--7705745 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
7705416 GACATGAAGA
7705426 GAGTCAAGTTATAATCTGTTATTTGTTATCTTTTTAAGAGAAAATTGTAAGTTTGAGCTTTTTGT
1 GAGTCAAGTTATAATCTGTTATTTGTTATCTTTTTAAGAGAAAATTGTAAGTTTGAGCTTTTTGT
7705491 CACAACCCCAAATAAAAAATAAAATAAATGTAAAATTTAATTTGGTTGAAATTTAGGGGCCAAAT
66 CACAACCCCAAATAAAAAATAAAATAAATGTAAAATTTAATTTGGTTGAAATTTAGGGGCCAAAT
7705556 TGCAAGTTTGTAAAACTGACAGCTCGTTTT
131 TGCAAGTTTGTAAAACTGACAGCTCGTTTT
7705586 GAGTCAAGTTATAATCTGTTATTTGTTATCTTTTTAAGAGAAAATTGTAAGTTTGAGCTTTTTGT
1 GAGTCAAGTTATAATCTGTTATTTGTTATCTTTTTAAGAGAAAATTGTAAGTTTGAGCTTTTTGT
7705651 CACAACCCCAAATAAAAAATAAAATAAATGTAAAATTTAATTTGGTTGAAATTTAGGGGCCAAAT
66 CACAACCCCAAATAAAAAATAAAATAAATGTAAAATTTAATTTGGTTGAAATTTAGGGGCCAAAT
7705716 TGCAAGTTTGTAAAACTGACAGCTCGTTTT
131 TGCAAGTTTGTAAAACTGACAGCTCGTTTT
7705746 AGAAGCTGCA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (160 bp):
GAGTCAAGTTATAATCTGTTATTTGTTATCTTTTTAAGAGAAAATTGTAAGTTTGAGCTTTTTGT
CACAACCCCAAATAAAAAATAAAATAAATGTAAAATTTAATTTGGTTGAAATTTAGGGGCCAAAT
TGCAAGTTTGTAAAACTGACAGCTCGTTTT
Found at i:7712479 original size:40 final size:40
Alignment explanation
Indices: 7712424--7712505 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
7712414 ACCATAGTGC
7712424 TACACATAAGGTCGTGCCCACCATATACAACGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACAACGAAGTGTAT
* * *
7712464 TACACATATGGTCGTGCCCACCATATACACCGAAGTTTAT
1 TACACATAAGGTCGTGCCCACCATATACAACGAAGTGTAT
7712504 TA
1 TA
7712506 TAAACCTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACAACGAAGTGTAT
Found at i:7716334 original size:14 final size:14
Alignment explanation
Indices: 7716287--7716337 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7716277 GGTCTGAATC
7716287 GAGTCAACTC-ATCT
1 GAGTCAACTCGAT-T
* * *
7716301 AAGTCAACCTGGACT
1 GAGTCAA-CTCGATT
7716316 GAGTCAACTCGATT
1 GAGTCAACTCGATT
7716330 GAGTCAAC
1 GAGTCAAC
7716338 CCGTTGAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 19 0.66
15 9 0.31
16 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (14 bp):
GAGTCAACTCGATT
Found at i:7718293 original size:16 final size:16
Alignment explanation
Indices: 7718269--7718300 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7718259 CATCTTTGCA
*
7718269 TTCTGCATTTGCATTT
1 TTCTACATTTGCATTT
7718285 TTCTACATTTGCATTT
1 TTCTACATTTGCATTT
7718301 ATCATGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.09, T:0.56
Consensus pattern (16 bp):
TTCTACATTTGCATTT
Found at i:7721284 original size:13 final size:13
Alignment explanation
Indices: 7721266--7721299 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7721256 GTGTAACATA
7721266 TAAATATCTATTT
1 TAAATATCTATTT
*
7721279 TAAATACCTATTT
1 TAAATATCTATTT
*
7721292 GAAATATC
1 TAAATATC
7721300 ACGTGCACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (13 bp):
TAAATATCTATTT
Found at i:7725261 original size:19 final size:19
Alignment explanation
Indices: 7725237--7725289 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
7725227 CAAAGTCAAC
7725237 CCGTTAATCGTTGAC-CTGA
1 CCGTTAA-CGTTGACTCTGA
*
7725256 CCGTTAACTTTGACTCTGA
1 CCGTTAACGTTGACTCTGA
* *
7725275 CCGTTGACTTTGACT
1 CCGTTAACGTTGACT
7725290 AAAAAGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (19 bp):
CCGTTAACGTTGACTCTGA
Found at i:7725767 original size:11 final size:10
Alignment explanation
Indices: 7725742--7725767 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7725732 AAAACATAAT
7725742 ATTTTTCTAA
1 ATTTTTCTAA
7725752 ATTTTTCTAA
1 ATTTTTCTAA
7725762 ATTTTT
1 ATTTTT
7725768 GAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTCTAA
Found at i:7734303 original size:41 final size:41
Alignment explanation
Indices: 7734257--7734395 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 41
7734247 CGTTTTTTCA
* *
7734257 ACAAACGTCGCAAGAGAGTAGTACTTTAGCGGCGTTTTTAT
1 ACAAACGTCGCAATAGAGTAGTACTTTAGCGGTGTTTTTAT
* * *
7734298 ACAAACGCCGCAATAG-GT--TCATCTATAGTGGTGTTTTT-T
1 ACAAACGTCGCAATAGAGTAGT-A-CTTTAGCGGTGTTTTTAT
* *
7734337 CAAAAAATGTCGCAATAGAGTAGTACTTTAGCGGTGTTTTTAT
1 --ACAAACGTCGCAATAGAGTAGTACTTTAGCGGTGTTTTTAT
* *
7734380 ACAAATGTCGTAATAG
1 ACAAACGTCGCAATAG
7734396 GGTTCATCTA
Statistics
Matches: 78, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 15 0.19
41 41 0.53
42 16 0.21
43 2 0.03
44 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (41 bp):
ACAAACGTCGCAATAGAGTAGTACTTTAGCGGTGTTTTTAT
Found at i:7734350 original size:82 final size:82
Alignment explanation
Indices: 7734126--7734477 Score: 339
Period size: 82 Copynumber: 4.3 Consensus size: 82
7734116 TTTAATGTCA
* ** * * * * * ** *
7734126 TTTTTATACAAAAGCCACAATAGGTTCACCCATAGTGGTATTTTATT-AACAAACGACGTGACAA
1 TTTTTATACAAACGCCGTAATAGGTTCATCTATAGTGGTGTTTT-TTCAAAAAACGTCGCAACAG
*
7734190 AGTAGTATTTTAGCGGCG
65 AGTAGTACTTTAGCGGCG
* * * * * * * * *
7734208 TTTGTATAAAAATGTCATAATAGGGTTCATATATAGTGGCGTTTTTTCAACAAACGTCGCAAGAG
1 TTTTTATACAAACGCCGTAATA-GGTTCATCTATAGTGGTGTTTTTTCAAAAAACGTCGCAACAG
7734273 AGTAGTACTTTAGCGGCG
65 AGTAGTACTTTAGCGGCG
* * *
7734291 TTTTTATACAAACGCCGCAATAGGTTCATCTATAGTGGTGTTTTTTCAAAAAATGTCGCAATAGA
1 TTTTTATACAAACGCCGTAATAGGTTCATCTATAGTGGTGTTTTTTCAAAAAACGTCGCAACAGA
*
7734356 GTAGTACTTTAGCGGTG
66 GTAGTACTTTAGCGGCG
* * ** ** *
7734373 TTTTTATACAAATGTCGTAATAGGGTTCATCTATAGTGG-CATTTTTCAAAAAACACCCCAACAG
1 TTTTTATACAAACGCCGTAATA-GGTTCATCTATAGTGGTGTTTTTTCAAAAAACGTCGCAACAG
* *
7734437 AGTAGTACTTTAACGGCA
65 AGTAGTACTTTAGCGGCG
* *
7734455 TTTTTTTACAAACACCGTAATAG
1 TTTTTATACAAACGCCGTAATAG
7734478 TTTGCTATGT
Statistics
Matches: 222, Mismatches: 45, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.00
82 143 0.64
83 78 0.35
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (82 bp):
TTTTTATACAAACGCCGTAATAGGTTCATCTATAGTGGTGTTTTTTCAAAAAACGTCGCAACAGA
GTAGTACTTTAGCGGCG
Found at i:7734361 original size:165 final size:164
Alignment explanation
Indices: 7734106--7734477 Score: 431
Period size: 165 Copynumber: 2.3 Consensus size: 164
7734096 ATGTCATGAT
* * * * *
7734106 AGAGTATTACTTTAATGTCATTTTTATACAAAAGCCACAATAGGTTCACCCATAGTGGTATTTTA
1 AGAGTAGTACTTTAACGGCATTTTTATACAAACGCCGCAATAGGTTCACCCATAGTGGTATTTTA
* ** *
7734171 TTAACAAACGACGTGACAAAGTAGTATTTTAGCGGCGTTTGTATAAAAATGTCATAATAGGGTTC
66 TTAAAAAACGACGCAACAAAGTAGTACTTTAGCGGCGTTTGTATAAAAATGTCATAATAGGGTTC
* * ** * *
7734236 ATATATAGTGGCGTTTTTTCAACAAACGTCGCAAG
131 ATATATAGTGGC-ATTTTTCAAAAAACACCCCAAC
* * * * *
7734271 AGAGTAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGTTCATCTATAGTGGTGTTTT-
1 AGAGTAGTACTTTAACGGCATTTTTATACAAACGCCGCAATAGGTTCACCCATAGTGGTATTTTA
* * * * * * * *
7734335 TTCAAAAAATGTCGCAATAGAGTAGTACTTTAGCGGTGTTTTTATACAAATGTCGTAATAGGGTT
66 TT-AAAAAACGACGCAACAAAGTAGTACTTTAGCGGCGTTTGTATAAAAATGTCATAATAGGGTT
*
7734400 CATCTATAGTGGCATTTTTCAAAAAACACCCCAAC
130 CATATATAGTGGCATTTTTCAAAAAACACCCCAAC
* * *
7734435 AGAGTAGTACTTTAACGGCATTTTTTTACAAACACCGTAATAG
1 AGAGTAGTACTTTAACGGCATTTTTATACAAACGCCGCAATAG
7734478 TTTGCTATGT
Statistics
Matches: 172, Mismatches: 34, Indels: 3
0.82 0.16 0.01
Matches are distributed among these distances:
164 56 0.33
165 116 0.67
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (164 bp):
AGAGTAGTACTTTAACGGCATTTTTATACAAACGCCGCAATAGGTTCACCCATAGTGGTATTTTA
TTAAAAAACGACGCAACAAAGTAGTACTTTAGCGGCGTTTGTATAAAAATGTCATAATAGGGTTC
ATATATAGTGGCATTTTTCAAAAAACACCCCAAC
Found at i:7735517 original size:43 final size:43
Alignment explanation
Indices: 7735467--7735863 Score: 462
Period size: 43 Copynumber: 9.2 Consensus size: 43
7735457 TGAGAACAAA
* * * * *
7735467 AAACGCCGCCATAGGTCAACATCTATAGCAGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * * *
7735510 ATACGCCGTAAAAGGTCGATATCTATAGCGGCGTTTTTAGAAA
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
7735553 AAACACCGCAAAAGGTCGAGATATATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
7735596 AAACGCTGCAAAATGTCGAGATCTATAGTGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* * *
7735639 AAACGTCGCAAAAGGTCGAGATCTATAGCGGCATTATTGGACAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-AC
* * *
7735683 AAACGTCGCAAAAAGTC-AGATCTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
7735725 AAACGCCGCAAAAGGT-TAGAT-TAATAGCGGCGCTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCT-ATAGCGGCGTTTTTGGA-AC
* *
7735768 AAACGCCACAAAAAGGTC-AGATCTATAGCGGCATTTTTGGACAC
1 AAACGCCGC-AAAAGGTCGAGATCTATAGCGGCGTTTTTGGA-AC
* *
7735812 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGGTTTTGGGTAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGC-GTTTTTGGAAC
7735855 AAACGCCGC
1 AAACGCCGC
7735864 TAATTACCAT
Statistics
Matches: 305, Mismatches: 41, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
41 1 0.00
42 35 0.11
43 208 0.68
44 60 0.20
45 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:7735992 original size:18 final size:19
Alignment explanation
Indices: 7735958--7735993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7735948 TTTATATAAA
*
7735958 TAACAACAATCATAAATTT
1 TAACAACAATAATAAATTT
7735977 TAACAACAA-AATAAATT
1 TAACAACAATAATAAATT
7735994 AAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (19 bp):
TAACAACAATAATAAATTT
Found at i:7738621 original size:41 final size:41
Alignment explanation
Indices: 7738557--7738897 Score: 297
Period size: 41 Copynumber: 8.2 Consensus size: 41
7738547 TTGTAAACTT
* *
7738557 GCGGCGTTTGTAAATACAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGT--ATAAAAACGCCACTAAAGTACAAGTCTATA
** *
7738600 GCGGCGTAAGTATATAAACGCCACTAAAGTACAAG-CGTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTC-TATA
* * * * * *
7738641 ACGACATTTGTTTAAAACCGCCACTAAAGTACAAGTGTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * * *
7738682 ACAGCGTTTGTAAAAATAAACGCCACAAAATTACAAGTCTATA
1 GCGGCGTTTGT-ATAA-AAACGCCACTAAAGTACAAGTCTATA
* ** * *
7738725 GCGGCGTTTGTATAAAAATGCCACTAAAGTATGAGCCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * * * * *
7738766 GCGGCGTTTTTATACAAACGCCGCTAAAGTACTACTCTGTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * * *
7738807 GTGGTGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * *
7738848 GCGGCGTTTGTATAAAAACGTCACTAAAGTACTACTCTATT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
7738889 GCGGCGTTT
1 GCGGCGTTT
7738898 ATTGAAAAAA
Statistics
Matches: 234, Mismatches: 60, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
40 1 0.00
41 188 0.80
42 5 0.02
43 40 0.17
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
Found at i:7738825 original size:82 final size:82
Alignment explanation
Indices: 7738719--7738959 Score: 290
Period size: 82 Copynumber: 2.9 Consensus size: 82
7738709 AAATTACAAG
* *
7738719 TCTATAGCGGCGTTTGTATAAAAATGCCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATACAAA
1 TCTATTGCGGCGTTTGTATAAAAATGCCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATAAAAA
7738784 CGCCGCTAAAGTACTAC
66 CGCCGCTAAAGTACTAC
* * * * * *
7738801 TCTGTTGTGGTGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAA
1 TCTATTGCGGCGTTTGTATAAAAATGCCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATAAAAA
* *
7738866 CGTCACTAAAGTACTAC
66 CGCCGCTAAAGTACTAC
* * * * *
7738883 TCTATTGCGGCGTTTAT-TGAAAAAACGCCGCTATAG-ATGAACCTATT-GCGGCGTTTTTATAA
1 TCTATTGCGGCGTTTGTAT--AAAAATGCCACTAAAGTATGAGCCT-TTAGCGGCGTTTTTATAA
*
7738945 AAACACCGCTAAAGT
63 AAACGCCGCTAAAGT
7738960 TACCATTTTG
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
81 1 0.01
82 116 0.88
83 15 0.11
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (82 bp):
TCTATTGCGGCGTTTGTATAAAAATGCCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATAAAAA
CGCCGCTAAAGTACTAC
Found at i:7738957 original size:123 final size:122
Alignment explanation
Indices: 7738555--7738959 Score: 311
Period size: 125 Copynumber: 3.3 Consensus size: 122
7738545 AATTGTAAAC
* * ** *
7738555 TTGCGGCGTTTGTAAATACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTAAGTATATAAACG
1 TTGCGGCGTTTGT--ATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
** * * * * * * * * *
7738620 CCACTAAAGTACAAGCGTATAACGACATTTGTT-TAAAACCGCCACTAAAGTACAAGTGTA
64 CCACTAAAGTATGAGCCTTTAGCGGCGTTT-TTATAAAAACGCCGCTAAAGTAC-ACTCTA
** * * * * * * *
7738680 TAACAGCGTTTGTAAAAATAAACGCCACAAAATTACAAGTCTATAGCGGCGTTTGTATAAAAATG
1 TTGCGGCGTTTGT-ATAA-AAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACG
* *
7738745 CCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATACAAACGCCGCTAAAGTACTACTCTG
64 CCACTAAAGTATGAGCCTTTAGCGGCGTTTTTATAAAAACGCCGCTAAAGTAC-ACTCTA
* * ** * *
7738805 TTGTGGTGTTTGTATAAAAATGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGTC
1 TTGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
*
7738870 ACTAAAGTACT-A-CTCTATT-GCGGCGTTTATTGA-AAAAACGCCGCTATAGATGA-AC-CTA
66 ACTAAAGTA-TGAGC-CT-TTAGCGGCGTTT-TT-ATAAAAACGCCGCTAAAG-T-ACACTCTA
* *
7738928 TTGCGGCGTTTTTATAAAAACACCGCTAAAGT
1 TTGCGGCGTTTGTATAAAAACACCACTAAAGT
7738960 TACCATTTTG
Statistics
Matches: 223, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
122 1 0.00
123 90 0.40
124 29 0.13
125 102 0.46
126 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (122 bp):
TTGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
ACTAAAGTATGAGCCTTTAGCGGCGTTTTTATAAAAACGCCGCTAAAGTACACTCTA
Found at i:7740505 original size:18 final size:19
Alignment explanation
Indices: 7740484--7740552 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
7740474 TATAAATTAT
7740484 ATAAATTAT-TTATTAAAA
1 ATAAATTATATTATTAAAA
*
7740502 ATAAA-AATATTATTACAATA
1 ATAAATTATATTATTA-AA-A
*
7740522 ATAAATTATAATATT-AAA
1 ATAAATTATATTATTAAAA
*
7740540 AT-AATCATATTAT
1 ATAAATTATATTAT
7740553 ATTATATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 11 0.26
18 14 0.33
19 4 0.10
20 6 0.14
21 7 0.17
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATTATATTATTAAAA
Found at i:7740524 original size:20 final size:19
Alignment explanation
Indices: 7740465--7740526 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
7740455 TTATTAAGAT
*
7740465 AAAATATTATATAAATTATA
1 AAAATATTAT-TAAATAATA
*
7740485 TAAATTATTTATTAAA-AATA
1 -AAAATA-TTATTAAATAATA
7740505 AAAATATTATTACAATAATA
1 AAAATATTATTA-AATAATA
7740525 AA
1 AA
7740527 TTATAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 6 0.17
19 7 0.20
20 9 0.26
21 9 0.26
22 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATATTATTAAATAATA
Found at i:7740541 original size:38 final size:39
Alignment explanation
Indices: 7740456--7740554 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 39
7740446 CTATATACTT
* *
7740456 TATTAAGAT-AAAATATTATATAAATTATATAAATTATT
1 TATTAAAATAAAAATATTATATAAATTATATAAATTATA
7740494 TATTAAAAATAAAAATATTAT-TACAA-TA-ATAAATTATAA
1 TATT-AAAATAAAAATATTATATA-AATTATATAAATTAT-A
**
7740533 TATTAAAATAATCATATTATAT
1 TATTAAAATAAAAATATTATAT
7740555 TATATTTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
38 27 0.52
39 13 0.25
40 12 0.23
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (39 bp):
TATTAAAATAAAAATATTATATAAATTATATAAATTATA
Found at i:7740560 original size:24 final size:21
Alignment explanation
Indices: 7740484--7740553 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
7740474 TATAAATTAT
*
7740484 ATAAATTAT-TTATTAAAAATA
1 ATAAATTATAATATT-AAAATA
*
7740505 A-AAA-TAT--TATTACAATA
1 ATAAATTATAATATTAAAATA
7740522 ATAAATTATAATATTAAAATA
1 ATAAATTATAATATTAAAATA
*
7740543 ATCATATTATA
1 AT-AAATTATA
7740554 TTATATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 6 0.15
20 3 0.07
21 12 0.29
22 7 0.17
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATTATAATATTAAAATA
Found at i:7744275 original size:23 final size:22
Alignment explanation
Indices: 7744251--7744295 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7744241 CTTCGATATT
7744251 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
7744275 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
7744296 TTTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:7744591 original size:28 final size:26
Alignment explanation
Indices: 7744559--7744613 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
7744549 TGAAAATATT
*
7744559 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
7744587 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
7744613 T
1 T
7744614 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:7745817 original size:15 final size:15
Alignment explanation
Indices: 7745799--7745830 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7745789 AATAATTATT
7745799 ATTATTATAATAATA
1 ATTATTATAATAATA
7745814 ATTATTATAATAATA
1 ATTATTATAATAATA
7745829 AT
1 AT
7745831 AAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATTATAATAATA
Found at i:7745823 original size:12 final size:12
Alignment explanation
Indices: 7745747--7745827 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 12
7745737 TTTGGGCTTG
* *
7745747 TAATTTTTATTA
1 TAATTATTATAA
*
7745759 TTATTATATATATA
1 TAATTAT-TATA-A
7745773 TATATATATTAATAA
1 TA-AT-TATT-ATAA
* *
7745788 TAATAATTATTA
1 TAATTATTATAA
* *
7745800 TTATTATAATAA
1 TAATTATTATAA
7745812 TAATTATTATAA
1 TAATTATTATAA
7745824 TAAT
1 TAAT
7745828 AATAAATAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
12 30 0.58
13 6 0.12
14 4 0.08
15 6 0.12
16 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTATTATAA
Found at i:7745831 original size:18 final size:18
Alignment explanation
Indices: 7745755--7745832 Score: 84
Period size: 18 Copynumber: 4.1 Consensus size: 18
7745745 TGTAATTTTT
*
7745755 ATTATTATTATATATATATA
1 ATTATTATAATA-ATA-ATA
*
7745775 TATATATTAATAATAATAATT
1 -AT-TATT-ATAATAATAATA
*
7745796 ATTATTATTATAATAATA
1 ATTATTATAATAATAATA
7745814 ATTATTATAATAATAATA
1 ATTATTATAATAATAATA
7745832 A
1 A
7745833 ATAAATAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
18 28 0.56
19 4 0.08
20 2 0.04
21 4 0.08
22 7 0.14
23 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTATAATAATAATA
Found at i:7746211 original size:124 final size:118
Alignment explanation
Indices: 7745993--7746266 Score: 343
Period size: 124 Copynumber: 2.3 Consensus size: 118
7745983 ATCCTTCTCT
* * * *
7745993 TCCTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGGGGATGATGTTGACCTATTTCCTTCT
1 TCCTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGGGGATGATGCTAACCTATCTCCTTAT
* * * *
7746058 GTGATAGAGTCATTCAAAAGATTGAATAAGCTCTTCTCATTTTGAACTTCTTCTTTC
66 GTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTGTGAA---ATT-TTTC
* * * *
7746115 TCCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGTTGATGCTAATCTATCTGCT
1 TCCTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGG---GGATGATGCTAACCTATCTCCT
* *
7746179 TATGTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCATTGTGAAATTTTTC
63 TATGTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTGTGAAATTTTTC
*
7746235 TTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 TCCTTCAGATGAGTTCTTCTCATTATGAACTT
7746267 CTTCTTCTTC
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
120 35 0.26
121 7 0.05
122 33 0.25
124 59 0.44
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (118 bp):
TCCTTCAGATGAGTTCTTCTCATTATGAACTTTCCACTGGGGATGATGCTAACCTATCTCCTTAT
GTGATAGAATCATGCAAAAGATTGAATAAGCTCTTCTCATTGTGAAATTTTTC
Found at i:7746270 original size:17 final size:17
Alignment explanation
Indices: 7746248--7746304 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
7746238 TTCAGATGAG
7746248 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
7746265 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
7746284 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
7746301 TTCT
1 TTCT
7746305 CTGGAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 15 0.47
18 6 0.19
19 11 0.34
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:7746272 original size:36 final size:36
Alignment explanation
Indices: 7746213--7746304 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 36
7746203 TTGAATAAGC
* * *
7746213 TCTTCTCATTGTGAAATTTTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
7746249 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
7746285 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
7746305 CTGGAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.49
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:7746446 original size:113 final size:111
Alignment explanation
Indices: 7746248--7746553 Score: 458
Period size: 113 Copynumber: 2.7 Consensus size: 111
7746238 TTCAGATGAG
7746248 TTCTTCTCATTATGAA--CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
1 TTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG-
* *
7746310 AAAAACTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
65 AAAAGCTGATCCATCAAGGGATGGATTTGAGCAAAAAGTTGAACAAA
*
7746357 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACT
1 TTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCT
* *
7746421 GGAAAAGCTGATCCATCAAGGGATGGATTTGAGCAAAAGGTTGAATAAA
63 GGAAAAGCTGATCCATCAAGGGATGGATTTGAGCAAAAAGTTGAACAAA
* *
7746470 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTTTTTCT
1 TTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TTCTCT
7746535 GGAAAAGCTGATCCATCAA
63 GGAAAAGCTGATCCATCAA
7746554 ATGATGAATT
Statistics
Matches: 179, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
109 16 0.09
112 8 0.04
113 129 0.72
114 25 0.14
116 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (111 bp):
TTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGA
AAAGCTGATCCATCAAGGGATGGATTTGAGCAAAAAGTTGAACAAA
Found at i:7747514 original size:93 final size:93
Alignment explanation
Indices: 7747355--7747738 Score: 705
Period size: 93 Copynumber: 4.1 Consensus size: 93
7747345 CTTATTTCTA
* * *
7747355 CTATGATCATATTTATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
7747420 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* *
7747448 CTATGAGCACATTCATATTTCAAATCCAATGATTGGTTTTTGGGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
7747513 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
*
7747541 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGAGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
7747606 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
*
7747634 CTATGAGTACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
7747699 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
7747727 CTATGAGCACAT
1 CTATGAGCACAT
7747739 GGCACTTGTT
Statistics
Matches: 280, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 280 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTCGGGGTTCATATCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:7748747 original size:7 final size:7
Alignment explanation
Indices: 7748735--7748813 Score: 72
Period size: 7 Copynumber: 11.4 Consensus size: 7
7748725 TCTTGACCCC
7748735 CTTTTTT
1 CTTTTTT
7748742 CTTTTTT
1 CTTTTTT
*
7748749 CTTTTCT
1 CTTTTTT
7748756 CTTTTTT
1 CTTTTTT
* *
7748763 CCTTTCT
1 CTTTTTT
7748770 CTTTTTT
1 CTTTTTT
*
7748777 C-CTTTT
1 CTTTTTT
*
7748783 -TTTTCT
1 CTTTTTT
*
7748789 CTCTTTT
1 CTTTTTT
7748796 CTTTTTT
1 CTTTTTT
*
7748803 TTTTATTT
1 CTTT-TTT
7748811 CTT
1 CTT
7748814 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
6 7 0.13
7 43 0.78
8 5 0.09
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (7 bp):
CTTTTTT
Found at i:7752356 original size:18 final size:19
Alignment explanation
Indices: 7752330--7752366 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7752320 ATTTATGAAA
*
7752330 TAAATAAATGTAAA-AATG
1 TAAAAAAATGTAAAGAATG
7752348 TAAAAAAATGTAAAGAATG
1 TAAAAAAATGTAAAGAATG
7752367 ATTGCCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
TAAAAAAATGTAAAGAATG
Found at i:7756172 original size:15 final size:15
Alignment explanation
Indices: 7756149--7756180 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7756139 TGAAATGAAT
7756149 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
7756164 AATGTATGTATGCAA
1 AATGAATGTATGCAA
7756179 AA
1 AA
7756181 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:7760141 original size:23 final size:22
Alignment explanation
Indices: 7760117--7760161 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7760107 CTTCGATATT
7760117 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
7760141 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
7760162 TTTTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:7760456 original size:28 final size:26
Alignment explanation
Indices: 7760424--7760478 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
7760414 TGAAAATATT
*
7760424 TAAAATTAATTACTAAATTATAATCTAA
1 TAAAATTAAATACTAAATT-TAAT-TAA
*
7760452 TAAAATTAAATACTTAATTTAATTAA
1 TAAAATTAAATACTAAATTTAATTAA
7760478 T
1 T
7760479 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 17 0.68
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAAATTAAATACTAAATTTAATTAA
Found at i:7761648 original size:3 final size:3
Alignment explanation
Indices: 7761640--7761690 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
7761630 ATATATATTT
* * * * *
7761640 TAA TAA TAA TAA TAA TTA TTA TTA TTA TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7761688 TAA
1 TAA
7761691 ATAAATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:7761698 original size:44 final size:44
Alignment explanation
Indices: 7761608--7761690 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
7761598 TTTGGGCTTG
* **
7761608 TAATTTTTATTATTATATATATATATATATTTTAATAATAATAA
1 TAATTATTATTATTATATATATATATATATAATAATAATAATAA
7761652 TAATTATTATTATTATA-ATA-ATA-ATTATAATAATAATAA
1 TAATTATTATTATTATATATATATATA-TATAATAATAATAA
7761691 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 15 0.43
43 3 0.09
44 16 0.46
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (44 bp):
TAATTATTATTATTATATATATATATATATAATAATAATAATAA
Found at i:7761702 original size:15 final size:15
Alignment explanation
Indices: 7761666--7761698 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7761656 TATTATTATT
*
7761666 ATAATAATAATTATA
1 ATAATAATAAATATA
7761681 ATAATAATAAATA-A
1 ATAATAATAAATATA
7761695 ATAA
1 ATAA
7761699 ATAAAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATAATAAATATA
Found at i:7761890 original size:24 final size:24
Alignment explanation
Indices: 7761863--7761910 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
7761853 AAAAGAACAC
*
7761863 AAATAAGTACAAAATCACATATAT
1 AAATAAGTAAAAAATCACATATAT
7761887 AAATAAGTAAAAAATCACATATAT
1 AAATAAGTAAAAAATCACATATAT
7761911 TATAAATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATAAGTAAAAAATCACATATAT
Found at i:7762780 original size:31 final size:31
Alignment explanation
Indices: 7762745--7762820 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
7762735 AGTGCAGACA
7762745 ATAATTTAAATTGTCTTATCATCACCAAAAC
1 ATAATTTAAATTGTCTTATCATCACCAAAAC
* *
7762776 ATAATTTAATTTGTCTTATCATCACCAACAC
1 ATAATTTAAATTGTCTTATCATCACCAAAAC
*
7762807 ATAATCTAAATTGT
1 ATAATTTAAATTGT
7762821 ACGTGCATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (31 bp):
ATAATTTAAATTGTCTTATCATCACCAAAAC
Found at i:7770091 original size:2 final size:2
Alignment explanation
Indices: 7770072--7770111 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
7770062 TTTACGTTAT
7770072 TA TA T- TA T- TA TA -A 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
7770111 T
1 T
7770112 TTACACTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7771308 original size:7 final size:7
Alignment explanation
Indices: 7771296--7771356 Score: 67
Period size: 7 Copynumber: 9.1 Consensus size: 7
7771286 TTTAATCCTT
7771296 TTTATTA
1 TTTATTA
7771303 TTTATTA
1 TTTATTA
7771310 -TTATTA
1 TTTATTA
7771316 -TTATTA
1 TTTATTA
7771322 TTTATT-
1 TTTATTA
7771328 TTT-TTA
1 TTTATTA
*
7771334 TTTTAATA
1 -TTTATTA
7771342 TTTATTA
1 TTTATTA
*
7771349 TTTTTTA
1 TTTATTA
7771356 T
1 T
7771357 ACCTTGTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 2 0.04
6 15 0.32
7 28 0.60
8 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:7771343 original size:23 final size:23
Alignment explanation
Indices: 7771294--7771354 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 23
7771284 AATTTAATCC
*
7771294 TTTTTATTATTTATTATTATTATTA
1 TTTTTATT-TTT-TTATTATTAATA
7771319 TTATTTATTTTTTTATT-TTAATA
1 TT-TTTATTTTTTTATTATTAATA
7771342 TTTATTATTTTTT
1 TTT-TTATTTTTT
7771355 ATACCTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.03
23 16 0.48
24 5 0.15
25 5 0.15
26 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTTTTATTATTAATA
Found at i:7771407 original size:12 final size:13
Alignment explanation
Indices: 7771370--7771423 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
7771360 TTGTTTAAAG
7771370 TTATTATATA-TA
1 TTATTATATACTA
*
7771382 TTTTTATATAACTA
1 TTATTATAT-ACTA
7771396 TTATTAT-TACTA
1 TTATTATATACTA
*
7771408 TTTATT-TTTACTA
1 -TTATTATATACTA
7771421 TTA
1 TTA
7771424 ATGTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 16 0.44
13 12 0.33
14 8 0.22
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATATACTA
Found at i:7771525 original size:9 final size:9
Alignment explanation
Indices: 7771502--7771583 Score: 55
Period size: 9 Copynumber: 9.4 Consensus size: 9
7771492 ATTTTACCTT
*
7771502 TTTTCATTA
1 TTTTCTTTA
7771511 TTTTCTTTA
1 TTTTCTTTA
*
7771520 TTTTCTGTA
1 TTTTCTTTA
* *
7771529 ATTT-TATA
1 TTTTCTTTA
* *
7771537 TTTT-TATC
1 TTTTCTTTA
*
7771545 TTTTCTTTG
1 TTTTCTTTA
*
7771554 TCTTCATTTA
1 TTTTC-TTTA
7771564 TTTTC--TA
1 TTTTCTTTA
7771571 TTTTCTTTA
1 TTTTCTTTA
7771580 TTTT
1 TTTT
7771584 TTTCTTATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
7 7 0.12
8 13 0.22
9 31 0.53
10 7 0.12
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTCTTTA
Found at i:7771569 original size:19 final size:18
Alignment explanation
Indices: 7771545--7771589 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
7771535 TATTTTTATC
7771545 TTTTCTTTGTCTTCATTT
1 TTTTCTTTGTCTTCATTT
* *
7771563 ATTTTCTATTTTCTTTATTT
1 -TTTTCT-TTGTCTTCATTT
7771583 TTTTCTT
1 TTTTCTT
7771590 ATTGTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTCTTTGTCTTCATTT
Found at i:7771582 original size:20 final size:20
Alignment explanation
Indices: 7771545--7771607 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
7771535 TATTTTTATC
* *
7771545 TTTTCT-TTGTCTTCATTTA
1 TTTTCTATTTTCTTTATTTA
7771564 TTTTCTATTTTCTTTATTT-
1 TTTTCTATTTTCTTTATTTA
*
7771583 TTTTCTTATTGTTGTTTTATTTA
1 TTTTC-TATT-TT-CTTTATTTA
7771606 TT
1 TT
7771608 CATTTGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.31
20 14 0.39
21 2 0.06
22 7 0.19
23 2 0.06
ACGTcount: A:0.11, C:0.10, G:0.05, T:0.75
Consensus pattern (20 bp):
TTTTCTATTTTCTTTATTTA
Found at i:7782098 original size:12 final size:12
Alignment explanation
Indices: 7782081--7782124 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
7782071 TAAGTCAAAG
7782081 AAAGAACAAGAA
1 AAAGAACAAGAA
7782093 AAAGAACAA-AA
1 AAAGAACAAGAA
*
7782104 AAGGAA-AATGAA
1 AAAGAACAA-GAA
7782116 AAAGAACAA
1 AAAGAACAA
7782125 AAGAGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
12 16 0.59
13 2 0.07
ACGTcount: A:0.75, C:0.07, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAGAACAAGAA
Found at i:7782116 original size:23 final size:24
Alignment explanation
Indices: 7782090--7782135 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
7782080 GAAAGAACAA
7782090 GAAAAAGAACAAAAAAG-GAAAAT
1 GAAAAAGAACAAAAAAGAGAAAAT
*
7782113 GAAAAAGAACAAAAGAGAGAAAA
1 GAAAAAGAACAAAAAAGAGAAAA
7782136 AACATTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.02
Consensus pattern (24 bp):
GAAAAAGAACAAAAAAGAGAAAAT
Found at i:7782189 original size:7 final size:7
Alignment explanation
Indices: 7782177--7782223 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
7782167 TTAAATTGAA
7782177 AAAAAAG
1 AAAAAAG
7782184 AAAAAAG
1 AAAAAAG
7782191 AGAAAAACG
1 A-AAAAA-G
7782200 AACAAAAG
1 AA-AAAAG
7782208 -AAAAAG
1 AAAAAAG
7782214 -AAAAAG
1 AAAAAAG
7782220 AAAA
1 AAAA
7782224 TGTGGGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 11 0.31
7 12 0.33
8 7 0.19
9 6 0.17
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:7782809 original size:42 final size:42
Alignment explanation
Indices: 7782762--7782845 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
7782752 AAAGAACAAA
7782762 GAACATCAGAGTTGAACATTTGAAGAATTCAAGATCAGGGAT
1 GAACATCAGAGTTGAACATTTGAAGAATTCAAGATCAGGGAT
*
7782804 GAACATCAGAGTTGAACATTTGAAGAATTTAAGATCAGGGAT
1 GAACATCAGAGTTGAACATTTGAAGAATTCAAGATCAGGGAT
7782846 CAAAACTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (42 bp):
GAACATCAGAGTTGAACATTTGAAGAATTCAAGATCAGGGAT
Found at i:7785784 original size:29 final size:29
Alignment explanation
Indices: 7785752--7785819 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
7785742 AAATTATGAA
7785752 AATAACACCCTTTTCAAAATAATTACCAG
1 AATAACACCCTTTTCAAAATAATTACCAG
** * *
7785781 AATAGTACCTTTTTCTAAATAATTACCAG
1 AATAACACCCTTTTCAAAATAATTACCAG
7785810 AATAACACCC
1 AATAACACCC
7785820 GGTCAACGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (29 bp):
AATAACACCCTTTTCAAAATAATTACCAG
Found at i:7788454 original size:17 final size:16
Alignment explanation
Indices: 7788423--7788456 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7788413 CACGTGAGGA
7788423 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
7788439 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
7788456 T
1 T
7788457 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:7794823 original size:23 final size:23
Alignment explanation
Indices: 7794797--7794865 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 23
7794787 CTCCCAAATT
7794797 TTTAACTTTTTATTTTCTCTTTC-
1 TTTAACTTTTT-TTTTCTCTTTCG
* *
7794820 TTTATTCATTTTTTTTCTCTTTCG
1 TTTA-ACTTTTTTTTTCTCTTTCG
7794844 TGTTAACTTTTACTTTTTCTCT
1 T-TTAACTTTT--TTTTTCTCT
7794866 CTCTCTTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 15 0.41
24 10 0.27
25 3 0.08
26 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (23 bp):
TTTAACTTTTTTTTTCTCTTTCG
Found at i:7798706 original size:17 final size:16
Alignment explanation
Indices: 7798675--7798708 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7798665 CACGTGAGGA
7798675 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
7798691 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
7798708 T
1 T
7798709 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:7805021 original size:28 final size:28
Alignment explanation
Indices: 7804989--7805059 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
7804979 TTTTTTTAAA
*
7804989 AATTACGAAAATA-ACACCTTTTCAAAAT
1 AATTACCAAAATAGAC-CCTTTTCAAAAT
* *
7805017 AATTACCAGAATAGTACCCTTTTCCAAAT
1 AATTACCAAAATAG-ACCCTTTTCAAAAT
*
7805046 AATTACCAGAATAG
1 AATTACCAAAATAG
7805060 CACTCAGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.29
29 25 0.66
30 2 0.05
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (28 bp):
AATTACCAAAATAGACCCTTTTCAAAAT
Found at i:7816826 original size:110 final size:110
Alignment explanation
Indices: 7816633--7817051 Score: 635
Period size: 110 Copynumber: 3.8 Consensus size: 110
7816623 TAGCTAGGGC
*
7816633 CAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
7816698 GGACGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
66 GGACGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
7816743 CAATTTCAACTTCACAGCAAAGGATATTAGG-CTTGAGACAACACAAGCTCAACTTCACAGCGAA
1 CAATTTCAACTTCACAGCAAAGGATATT-GGACTCGAGACAACACAAGCTCAACTTCACAGCGAA
* *
7816807 GGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGT
65 GGGACGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * ** * *
7816853 CAATTTCAATTTCACAGCGAAGTATATTATACTCGAGATAACACAAGCTCAACTTCACAGTGAAG
1 CAATTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
* *
7816918 TGACGACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
66 GGACGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * *
7816963 CAATTTCAACTTCACAGCGAATGATATTGGACTAGAGACAACACAAGCTCAACTTCATAGCGAAG
1 CAATTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
* *
7817028 GGGCGACT-AGCTATCAACAAACAA
66 GGACGACTGA-CTGTCAACAAACAA
7817052 TTTCCTAGTT
Statistics
Matches: 278, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.00
110 275 0.99
111 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (110 bp):
CAATTTCAACTTCACAGCAAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAG
GGACGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
Found at i:7819115 original size:14 final size:14
Alignment explanation
Indices: 7819096--7819165 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
7819086 TTTAATCCTT
7819096 TTTATTATTATTTA
1 TTTATTATTATTTA
7819110 TTTATTATTA-TTA
1 TTTATTATTATTTA
* *
7819123 TTTTTGTTTTATTT-
1 TTTAT-TATTATTTA
7819137 TTT-TTATT-TTAATA
1 TTTATTATTATT--TA
*
7819151 TTTATTATTTTTTA
1 TTTATTATTATTTA
7819165 T
1 T
7819166 ACCTTGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.04
12 3 0.07
13 9 0.20
14 23 0.50
15 7 0.15
16 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTATTATTATTTA
Found at i:7819119 original size:17 final size:16
Alignment explanation
Indices: 7819097--7819165 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
7819087 TTAATCCTTT
7819097 TTATTATTATTTATTTA
1 TTATTATTATTT-TTTA
*
7819114 TTATTATTATTTTTGTT
1 TTATTATTATTTTT-TA
* *
7819131 TTATTTTTTTTATTTTA
1 TTATTATTATT-TTTTA
*
7819148 ATATTTATTATTTTTTA
1 TTA-TTATTATTTTTTA
7819165 T
1 T
7819166 ACCTTGTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
16 2 0.05
17 30 0.73
18 9 0.22
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.75
Consensus pattern (16 bp):
TTATTATTATTTTTTA
Found at i:7819120 original size:20 final size:19
Alignment explanation
Indices: 7819097--7819159 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
7819087 TTAATCCTTT
7819097 TTATTATTATTTATTTATTA
1 TTATTATT-TTTATTTATTA
* *
7819117 TTATTATTTTTGTTTTATTT
1 TTATTATTTTT-ATTTATTA
*
7819137 TTTTTATTTTAATATTTATTA
1 TTATTATTTT--TATTTATTA
7819158 TT
1 TT
7819160 TTTTATACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.09
20 23 0.66
21 8 0.23
22 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTATTTTTATTTATTA
Found at i:7819217 original size:25 final size:25
Alignment explanation
Indices: 7819179--7819231 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
7819169 TTGTTTAAAG
7819179 TTATTATATATATTT-TTTATAACTA
1 TTATTATATATATTTATTT-TAACTA
*
7819204 TTATTAT-TACTATTTATTTTTACTA
1 TTATTATATA-TATTTATTTTAACTA
7819229 TTA
1 TTA
7819232 ATGTATATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 20 0.80
26 3 0.12
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTATATATATTTATTTTAACTA
Found at i:7819220 original size:13 final size:13
Alignment explanation
Indices: 7819179--7819230 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
7819169 TTGTTTAAAG
7819179 TTATTATATA-TAT
1 TTATTAT-TACTAT
* *
7819192 TTTTTATAACTA-
1 TTATTATTACTAT
7819204 TTATTATTACTAT
1 TTATTATTACTAT
*
7819217 TTATTTTTACTAT
1 TTATTATTACTAT
7819230 T
1 T
7819231 AATGTATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:7825237 original size:23 final size:23
Alignment explanation
Indices: 7825203--7825256 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7825193 TCTCGAAGGA
* *
7825203 CCACATAGGTTTGCACTAAAGTG
1 CCACATAAGTTTGCACCAAAGTG
* * *
7825226 CCACATAAGTTTGTACCGAAGTT
1 CCACATAAGTTTGCACCAAAGTG
7825249 CCACATAA
1 CCACATAA
7825257 TTATCTCGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (23 bp):
CCACATAAGTTTGCACCAAAGTG
Found at i:7831249 original size:23 final size:23
Alignment explanation
Indices: 7831223--7831278 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
7831213 TAATTATTAG
7831223 AATATTTAA-AATATATTTATAAT
1 AATA-TTAATAATATATTTATAAT
* *
7831246 AATATTAATATTATATTTTTAAT
1 AATATTAATAATATATTTATAAT
*
7831269 ATTA-TAATAA
1 AATATTAATAA
7831279 AATAATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTAATAATATATTTATAAT
Found at i:7831274 original size:31 final size:30
Alignment explanation
Indices: 7831239--7831344 Score: 83
Period size: 31 Copynumber: 3.4 Consensus size: 30
7831229 TAAAATATAT
7831239 TTATAATAATATTAATATTATATTTTTAATA
1 TTATAATAA-ATTAATATTATATTTTTAATA
* *
7831270 TTATAATAAAATAATCAATTATA-TTATAATA
1 TTATAATAAATTAAT--ATTATATTTTTAATA
* * * *
7831301 ATATAAGATATT-ATATT-TTTATTTTAATAA
1 TTATAATAAATTAATATTATAT-TTTTAAT-A
7831331 TATATAATAAATTA
1 T-TATAATAAATTA
7831345 TTAATAAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 6 0.11
30 8 0.14
31 33 0.58
32 6 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TTATAATAAATTAATATTATATTTTTAATA
Found at i:7831418 original size:19 final size:19
Alignment explanation
Indices: 7831394--7831462 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
7831384 ATATTATTAA
7831394 ATTATTAATAATGAATAAT
1 ATTATTAATAATGAATAAT
* *
7831413 ATTATTTATATATTGAATATT
1 ATTA-TTA-ATAATGAATAAT
* *
7831434 AATA-TAATAATCTAATAAT
1 ATTATTAATAAT-GAATAAT
7831453 ATT-TTAATAA
1 ATTATTAATAA
7831463 AGATATTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.10
19 19 0.49
20 3 0.08
21 13 0.33
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTATTAATAATGAATAAT
Found at i:7831483 original size:23 final size:23
Alignment explanation
Indices: 7831457--7831504 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
7831447 AATAATATTT
7831457 TAATAAAGATATTTAAAATATAA
1 TAATAAAGATATTTAAAATATAA
* * *
7831480 TAATTAATATTTTTAAAATATAA
1 TAATAAAGATATTTAAAATATAA
7831503 TA
1 TA
7831505 TAATACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAA
Done.