Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 38
Found at i:4630147 original size:14 final size:14
Alignment explanation
Indices: 4630128--4630184 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4630118 TTTGGTTTCG
4630128 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4630142 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4630161 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4630175 CGTTGCGATT
1 CGTTGCGATT
4630185 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4630160 original size:33 final size:33
Alignment explanation
Indices: 4630112--4630192 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
4630102 AAAATCGCAA
**
4630112 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4630145 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4630178 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
4630193 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4630195 original size:21 final size:21
Alignment explanation
Indices: 4630169--4630244 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
4630159 CGCGTTGCGA
4630169 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
4630190 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
4630210 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
4630231 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
4630245 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:4630225 original size:41 final size:41
Alignment explanation
Indices: 4630168--4630245 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
4630158 TCGCGTTGCG
*
4630168 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
4630209 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
4630246 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:4630366 original size:33 final size:33
Alignment explanation
Indices: 4630324--4630394 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4630314 AATACTAACT
*
4630324 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4630357 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4630390 TGAAA
1 TGAAA
4630395 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4630628 original size:22 final size:22
Alignment explanation
Indices: 4630576--4630630 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4630566 TGGTTGTGAG
**
4630576 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4630598 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4630620 GGATTTCTTCG
1 GGATTTCTTCG
4630631 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4630802 original size:20 final size:20
Alignment explanation
Indices: 4630777--4630930 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
4630767 CTTTAAATAT
4630777 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4630797 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4630819 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4630838 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
4630858 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4630878 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4630898 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4630918 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4630931 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4630904 original size:40 final size:40
Alignment explanation
Indices: 4630776--4630930 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
4630766 GCTTTAAATA
*
4630776 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
4630817 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
4630857 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
4630897 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
4630931 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:4630931 original size:20 final size:20
Alignment explanation
Indices: 4630897--4630973 Score: 91
Period size: 21 Copynumber: 3.8 Consensus size: 20
4630887 ATTTATGTGT
*
4630897 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAA
* *
4630917 TCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTT-CATAA
* *
4630938 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTC-ATAA
4630959 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4630974 GGAAACTGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 15 0.31
21 33 0.69
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAA
Found at i:4630946 original size:21 final size:21
Alignment explanation
Indices: 4630897--4631013 Score: 98
Period size: 20 Copynumber: 5.7 Consensus size: 21
4630887 ATTTATGTGT
* * *
4630897 TCGCGTTGCGATTTT-CATAT
1 TCGCGTTGCGATTTTGGAAAA
4630917 TCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGGAAAA
* *
4630938 TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGGAA-AA
*
4630959 TCGCGTTGCGATTTTGGAAAC
1 TCGCGTTGCGATTTTGGAAAA
** * **
4630980 T-GATTTGCGATTCTGG-GGA
1 TCGCGTTGCGATTTTGGAAAA
4630999 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4631014 TATTTCGCGT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.01
20 39 0.51
21 34 0.45
22 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTGGAAAA
Found at i:4630988 original size:41 final size:41
Alignment explanation
Indices: 4630897--4631013 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 41
4630887 ATTTATGTGT
* * *
4630897 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTCAGAATCGCGTTGCGATTTTGGAAAA
*
4630938 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAAC
1 TCGCATTGCGATTTTC-AGAATCGCGTTGCGATTTTGGAAAA
* ** *
4630980 T-G-ATTTGCGATTCTGGGGATCGCGTTGCGATTTT
1 TCGCA-TTGCGATTTTCAGAATCGCGTTGCGATTTT
4631014 TATTTCGCGT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 18 0.27
41 25 0.38
42 23 0.35
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTTTCAGAATCGCGTTGCGATTTTGGAAAA
Found at i:4631013 original size:40 final size:42
Alignment explanation
Indices: 4630917--4631013 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
4630907 ATTTTCATAT
*
4630917 TCGCGTTGCGATTTTGGAAAATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGGAAAATCGCATTGCGATTCTCAAGAA
* ** *
4630959 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCT-GGGGA
1 TCGCGTTGCGATTTTGGAAAATCGCA-TTGCGATTCTCAAGAA
4630999 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
4631014 TATTTCGCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 18 0.37
41 10 0.20
42 21 0.43
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (42 bp):
TCGCGTTGCGATTTTGGAAAATCGCATTGCGATTCTCAAGAA
Found at i:4636574 original size:21 final size:21
Alignment explanation
Indices: 4636550--4636593 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4636540 TTTGCATCTT
4636550 TACATTAGCAT-ATATACATTG
1 TACATTA-CATGATATACATTG
*
4636571 TACATTACATGGTATACATTG
1 TACATTACATGATATACATTG
4636592 TA
1 TA
4636594 TCTCAACGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TACATTACATGATATACATTG
Found at i:4638002 original size:18 final size:18
Alignment explanation
Indices: 4637960--4638002 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4637950 AAGAAGACAA
*
4637960 AAGAGAAAAAGATAAAAG
1 AAGAAAAAAAGATAAAAG
*
4637978 AAAAAAAAAAGA-AAAAGG
1 AAGAAAAAAAGATAAAA-G
4637996 AAGAAAA
1 AAGAAAA
4638003 TAAACAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAAGATAAAAG
Found at i:4640147 original size:110 final size:111
Alignment explanation
Indices: 4639964--4640240 Score: 325
Period size: 110 Copynumber: 2.5 Consensus size: 111
4639954 TTGATATGGT
* ** * *
4639964 TTTCAAACGAATTTGAAAGAAACTAAG-CCAGATTTTCAGGGGTTTCTTA--ATGATTTCAAAAG
1 TTTCAAAAGAATTTTTAAGAAACTAAGCCCA-ATTTTTAGGGGTTTCTTATGATAATTTCAAAAG
* ** * *
4640026 AATTTTGAAAGAAGCTAAGCCTAATTTTTATGGGTTTCTTGATG-T-
65 AATTTTGAAAGAAACTAAGCCTAATTTCCAGGGGTTTCTTAATGATA
*
4640071 TTTCAAAATGAGA-TTTT-AGAAACTAAGCCCAATTTTTAGGGGTTTCTTGATGATAATTTCCAA
1 TTTCAAAA-GA-ATTTTTAAGAAACTAAGCCCAATTTTTAGGGGTTTCTT-ATGATAATTTCAAA
*
4640134 AGAATTTTTAAAGAAACTAAGCCTAATTTCCAGGGGTTTCTTAATGATTA
63 AGAATTTTGAAAGAAACTAAGCCTAATTTCCAGGGGTTTCTTAATGA-TA
*
4640184 TTTCAAAAGAATTTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTAATGATAA
1 TTTCAAAAGAATTTTT-AAGAAACTAAGCCCAATTTTTAGGGGTTTCTT-ATGATAA
4640241 CTGTAAACGA
Statistics
Matches: 144, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
107 33 0.23
108 8 0.06
109 1 0.01
110 49 0.34
111 1 0.01
112 7 0.05
113 8 0.06
114 37 0.26
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (111 bp):
TTTCAAAAGAATTTTTAAGAAACTAAGCCCAATTTTTAGGGGTTTCTTATGATAATTTCAAAAGA
ATTTTGAAAGAAACTAAGCCTAATTTCCAGGGGTTTCTTAATGATA
Found at i:4640162 original size:57 final size:57
Alignment explanation
Indices: 4639939--4640240 Score: 322
Period size: 57 Copynumber: 5.4 Consensus size: 57
4639929 GCTAGGTTTG
* ** * *
4639939 ATTTTCAGAGGTTTCTTGAT-ATGGTTTTCAAACGAA-TTTGAAAGAAACTAAGCC-A
1 ATTTTCAGGGGTTTCTTGATGAT-AATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
* * *
4639994 GATTTTCAGGGGTTTCTT-A--ATGATTTCAAAAGAATTTTGAAAGAAGCTAAGCCTA
1 -ATTTTCAGGGGTTTCTTGATGATAATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
* * *
4640049 ATTTTTATGGGTTTCTTGATG-T--TTTCAAAATGAGA-TTTT--AGAAACTAAGCCCA
1 ATTTTCAGGGGTTTCTTGATGATAATTTCAAAA-GA-ATTTTTAAAGAAACTAAGCCTA
* *
4640102 ATTTTTAGGGGTTTCTTGATGATAATTTCCAAAGAATTTTTAAAGAAACTAAGCCTA
1 ATTTTCAGGGGTTTCTTGATGATAATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
* * *
4640159 ATTTCCAGGGGTTTCTTAATGATTATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
1 ATTTTCAGGGGTTTCTTGATGATAATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
* *
4640216 ATTTTTAGGGGTTTCTTAATGATAA
1 ATTTTCAGGGGTTTCTTGATGATAA
4640241 CTGTAAACGA
Statistics
Matches: 213, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
53 43 0.20
54 44 0.21
55 14 0.07
56 25 0.12
57 87 0.41
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (57 bp):
ATTTTCAGGGGTTTCTTGATGATAATTTCAAAAGAATTTTTAAAGAAACTAAGCCTA
Found at i:4642086 original size:136 final size:136
Alignment explanation
Indices: 4641231--4642029 Score: 1100
Period size: 136 Copynumber: 5.9 Consensus size: 136
4641221 AAGATTAACC
* * * * * *
4641231 GATTGAAATTTCTAATGGAGAGTTCATAATGAAAAGAACTTATCTGACAGAAGGAGAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* *
4641296 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGTAACGCCTAGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCGC
*
4641361 TTAAGG
131 TTGAGG
* *
4641367 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTTATCCGACTGAGGGAGAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* *
4641432 ATAATGAGAAGAACATT-TTTGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGGCTCG
66 ATAATGAGAAGAAC-TTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCG
4641496 CTTGAGG
130 CTTGAGG
* *
4641503 GATTGACATTTCCAATGGAGATTTCATAATGAGAAGAACCCATCCGACAGAGGGAGAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * *
4641568 ATAATCAGAAGAACTTGTTCGACCTATTGCTCGATTCACAAAACTTTGAATCAGTAACGCCTCGC
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCGC
4641633 TTGAGG
131 TTGAGG
* * * * *
4641639 AATTTG-TATTGCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGATAAGAAGTT
1 GA-TTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTT
* *
4641703 CATAATAAGAAGAACTTGTTCGACCTATTGCTCGATTCACAAAACTTCGAATCAGCAACGCCTCG
65 CATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCG
4641768 CTTGAGG
130 CTTGAGG
** * * * * * * *
4641775 GATTGGTATTGCCAATAGAGATTTTATAATTAGAAGAACTCATCCGACAGAGGTAGAGGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * *
4641840 ATAATGATAAGAACTTGTAT-GACCTATTGCTAGATTCACAACACTTCGGATCAGCAACGCCTCG
66 ATAATGAGAAGAACTTGT-TCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCG
4641904 CTTGAGG
130 CTTGAGG
* * * * **
4641911 GATTAACATTTCCAATGAAGAGTTCCTAAAGAGAAGAACTGGTCCGACAGAGGGAGAAGAAGTTC
1 GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
* * * * * *
4641976 ATAATGAGAAGAACTTGTTCGACCTATCGATAGTTTCACAATACTTTGAATCAG
66 ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAG
4642030 TGATGCATCA
Statistics
Matches: 590, Mismatches: 67, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
135 6 0.01
136 578 0.98
137 6 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (136 bp):
GATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTC
ATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAACACTTCGAATCAGCAACGCCTCGC
TTGAGG
Found at i:4645128 original size:14 final size:14
Alignment explanation
Indices: 4645109--4645138 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4645099 GAAGAAAAGA
4645109 GATCTGTCCCCTTT
1 GATCTGTCCCCTTT
4645123 GATCTGTCCCCTTT
1 GATCTGTCCCCTTT
4645137 GA
1 GA
4645139 AGCTATCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.33, G:0.17, T:0.40
Consensus pattern (14 bp):
GATCTGTCCCCTTT
Found at i:4649191 original size:2 final size:2
Alignment explanation
Indices: 4649184--4649300 Score: 84
Period size: 2 Copynumber: 60.5 Consensus size: 2
4649174 TAAATACCTT
4649184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * ** *
4649225 TCA AA GA T- TGA TG TT TA -A TA AA AA TA -A TA -A CA TA CG TA AA
1 T-A TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4649265 T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4649301 TCGTATTTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
1 6 0.07
2 85 0.92
3 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:4649425 original size:2 final size:2
Alignment explanation
Indices: 4649420--4649454 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
4649410 TCCTACATAC
*
4649420 TA TA TA TA GCA 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
4649455 AACACTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 29 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:4651144 original size:134 final size:134
Alignment explanation
Indices: 4650905--4651390 Score: 701
Period size: 134 Copynumber: 3.6 Consensus size: 134
4650895 ATAATAGATC
* * ** * * *
4650905 TGTTCTGCTGTCACTCAGGGAATATCAGATC-T-AGGGATGAGTGATATGTTCCGCTTCTTCTGA
1 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGA-GAATGATTTGTTCCGCCTCTTCTGA
*
4650968 AGGGAATATCAGATCTGGATGAGTTGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGTGGT
65 AGGGAATATCAGATCTGGATGAGTCGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGTGGT
4651033 AGACT
130 AGACT
* * * *
4651038 TGTTCCGCTGTCACTAAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCTGCCTCTTTTAAA
1 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCCGCCTCTTCTGAA
4651103 GGGAATATCAGATCTGGATGAGTCGATCCATTCTGCTGTCACTCAGGGAATG-TTGAATCGTGGT
66 GGGAATATCAGATCTGGATGAGTCGATCCATTCTGCTGTCACTCAGGGAA-GATTGAATCGTGGT
4651167 AGACT
130 AGACT
* *
4651172 TGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTT-TTTCGCCTCTTCTGA
1 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGAT-TTGTTCCGCCTCTTCTGA
* * * * *
4651236 AGGAAATATCATATCTGGATGAGTCGATTCATTCCGCTGTCACTCGGGGAAGATTGAATCGTGGT
65 AGGGAATATCAGATCTGGATGAGTCGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGTGGT
4651301 AGACT
130 AGACT
* * *
4651306 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCACTTCTTCTGAA
1 TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCCGCCTCTTCTGAA
* *
4651371 TGGAATATCAGATCTAGATG
66 GGGAATATCAGATCTGGATG
4651391 TGCTTCATTA
Statistics
Matches: 315, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
133 30 0.10
134 279 0.89
135 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (134 bp):
TGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCCGCCTCTTCTGAA
GGGAATATCAGATCTGGATGAGTCGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGTGGTA
GACT
Found at i:4653656 original size:17 final size:17
Alignment explanation
Indices: 4653625--4653681 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
4653615 GGGTTTCTTC
*
4653625 TTCTTCTTC-CTTTTTT
1 TTCTTTTTCACTTTTTT
4653641 TTCTTTTTCACTTTTTT
1 TTCTTTTTCACTTTTTT
* * *
4653658 CTCATTTTCTATTTTTTT
1 TTCTTTTTC-ACTTTTTT
4653676 TTCTTT
1 TTCTTT
4653682 CTTTTCTATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 8 0.24
17 14 0.42
18 11 0.33
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTTTCACTTTTTT
Found at i:4653677 original size:20 final size:21
Alignment explanation
Indices: 4653652--4653706 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
4653642 TCTTTTTCAC
4653652 TTTTTTCTCATTTTCTAT-TT
1 TTTTTTCTCATTTTCTATCTT
4653672 TTTTTTCTTTC-TTTTCTATCTT
1 TTTTTTC--TCATTTTCTATCTT
*
4653694 TTTCTT-TCATTTT
1 TTTTTTCTCATTTT
4653707 TTTGTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 8 0.27
22 9 0.30
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTCTCATTTTCTATCTT
Found at i:4653976 original size:2 final size:2
Alignment explanation
Indices: 4653969--4653994 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4653959 ACCATAAGGG
4653969 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
4653995 TTAAAAGGCT
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:4661035 original size:2 final size:2
Alignment explanation
Indices: 4661028--4661083 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
4661018 ATACGTAAAT
4661028 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
4661070 TA TA -A TA -A TA TA TA
1 TA TA TA TA TA TA TA TA
4661084 CATGAAGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4663026 original size:28 final size:29
Alignment explanation
Indices: 4662995--4663055 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
4662985 ATATATTTAT
4662995 ATTTGGTAGATCACATAAATCTATTAA-G
1 ATTTGGTAGATCACATAAATCTATTAATG
*
4663023 ATTTGGTAGATCATATAAATCTATTAATG
1 ATTTGGTAGATCACATAAATCTATTAATG
4663052 ATTT
1 ATTT
4663056 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (29 bp):
ATTTGGTAGATCACATAAATCTATTAATG
Found at i:4663982 original size:8 final size:8
Alignment explanation
Indices: 4663971--4664017 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
4663961 AAAACATAAA
4663971 AAAAATAT
1 AAAAATAT
4663979 AAAAATAT
1 AAAAATAT
4663987 AAAAAT-T
1 AAAAATAT
*
4663994 AAAAGATCT
1 AAAA-ATAT
4664003 AGAAAATACT
1 A-AAAATA-T
4664013 AAAAA
1 AAAAA
4664018 GTGACAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 16 0.47
9 8 0.24
10 5 0.15
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:4668262 original size:14 final size:14
Alignment explanation
Indices: 4668243--4668282 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4668233 CTTATTAGGG
*
4668243 TTAGAGTTTAGGAA
1 TTAGAGTTTAAGAA
*
4668257 TTAGAGTTTAAGAT
1 TTAGAGTTTAAGAA
*
4668271 TTAGAATTTAAG
1 TTAGAGTTTAAG
4668283 GTTTAAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (14 bp):
TTAGAGTTTAAGAA
Found at i:4668747 original size:10 final size:10
Alignment explanation
Indices: 4668718--4668748 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4668708 CGGACCTGCT
*
4668718 AAAAACCGGA
1 AAAAACCGGG
4668728 AAAAACCGGG
1 AAAAACCGGG
4668738 AAAAACCGGG
1 AAAAACCGGG
4668748 A
1 A
4668749 TTTTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.55, C:0.19, G:0.26, T:0.00
Consensus pattern (10 bp):
AAAAACCGGG
Found at i:4670588 original size:3 final size:3
Alignment explanation
Indices: 4670580--4670677 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
4670570 ATATTATAAA
* *
4670580 TAT TAT TAT TAT TGT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
4670628 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4670676 TA
1 TA
4670678 AATATATATT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4670689 original size:11 final size:10
Alignment explanation
Indices: 4670673--4670713 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
4670663 TTATTATTAT
4670673 TATTAAATATA
1 TATTAAATA-A
4670684 TATTAAATACA
1 TATTAAATA-A
4670695 TATATAAATAA
1 TAT-TAAATAA
4670706 TATTAAAT
1 TATTAAAT
4670714 TACAAAGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:4671148 original size:12 final size:14
Alignment explanation
Indices: 4671111--4671137 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4671101 AAAAAAAAAA
4671111 AGAACACAGAGAGG
1 AGAACACAGAGAGG
4671125 AGAACACAGAGAG
1 AGAACACAGAGAG
4671138 AGATACAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAACACAGAGAGG
Found at i:4672886 original size:13 final size:15
Alignment explanation
Indices: 4672855--4672891 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4672845 TTATATGTTT
4672855 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
4672870 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
4672883 TA-TTTATTT
1 TATTTTATTT
4672892 TTCTATCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:4683508 original size:1 final size:1
Alignment explanation
Indices: 4683502--4683554 Score: 88
Period size: 1 Copynumber: 53.0 Consensus size: 1
4683492 ATGCTTGAAG
* *
4683502 AAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4683555 GGGGGGTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:4683893 original size:16 final size:16
Alignment explanation
Indices: 4683867--4683911 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4683857 TTTGAATACA
*
4683867 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
4683884 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
4683899 ATTCAATTTATTT
1 ATTCAATTTATTT
4683912 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:4684852 original size:83 final size:83
Alignment explanation
Indices: 4684713--4685214 Score: 887
Period size: 83 Copynumber: 6.0 Consensus size: 83
4684703 TAATGGGCTC
* * * *
4684713 ATAGCATCTTTTTGAAGTGTTCTTTAAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
4684778 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
*
4684796 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCATAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
4684861 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
4684879 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
* * *
4684944 TAGAAGATGAATGTGCTC
66 TGGAAGATGAATTTGCTA
4684962 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
* *
4685027 TGGAAGATGAATGTGCTC
66 TGGAAGATGAATTTGCTA
4685045 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
4685110 TGGAAGATGAATTTGCTA
66 TGGAAGATGAATTTGCTA
* *
4685128 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTAAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
*
4685193 TGGAAGATGAATTTGCTC
66 TGGAAGATGAATTTGCTA
4685211 ATAG
1 ATAG
4685215 TAGAAATAAG
Statistics
Matches: 404, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 404 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAGCAGAACCAATCATTGAATT
TGGAAGATGAATTTGCTA
Found at i:4686210 original size:114 final size:114
Alignment explanation
Indices: 4686010--4686561 Score: 752
Period size: 114 Copynumber: 4.8 Consensus size: 114
4686000 AATCTATCAT
* * *
4686010 TTGATAGATTAGCTTTTCCAGAAAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAACTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
4686075 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
*
4686124 TTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAACTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
4686189 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
* * *
4686238 TTGATGGATTATCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATTAACTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * * * *
4686303 AGTTCATAATGAGAAGAACTTATTCAATCTTTTGCTTGAATTAATC-AT
66 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
* * *
4686351 TTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATTAACTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* * * *
4686415 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT-TAT
62 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * *
4686467 TTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATATGAAGAAGGAAG
1 TTGATGGATTAACTTTTCCAGAGAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
*
4686531 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAGTTCATAATGAGAAGAACTTGTTCAA
4686562 TAATTCTATC
Statistics
Matches: 409, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
112 2 0.00
113 35 0.09
114 214 0.52
115 1 0.00
116 157 0.38
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (114 bp):
TTGATGGATTAACTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:4686895 original size:3 final size:3
Alignment explanation
Indices: 4686887--4686953 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
4686877 ATATTATAAA
* * *
4686887 TAT TAT TAT TAT TGT TAT TAT AAT TAT TA- TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4686934 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
4686954 AAATAATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4687436 original size:12 final size:14
Alignment explanation
Indices: 4687399--4687425 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4687389 CAAAAAAAAA
4687399 AGAACACAGAGAGG
1 AGAACACAGAGAGG
4687413 AGAACACAGAGAG
1 AGAACACAGAGAG
4687426 AGATACAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAACACAGAGAGG
Found at i:4687514 original size:15 final size:15
Alignment explanation
Indices: 4687494--4687535 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4687484 ATCATTCAGC
*
4687494 AAAGAAACAG-AATAG
1 AAAGAAA-AGAAAAAG
4687509 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
4687524 AAAGAAGAGAAA
1 AAAGAAAAGAAA
4687536 CTTACTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:4687519 original size:20 final size:20
Alignment explanation
Indices: 4687494--4687535 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4687484 ATCATTCAGC
*
4687494 AAAGAAACAGAATAGAA-AGA
1 AAAGAAAAAGAA-AGAAGAGA
4687514 AAAGAAAAAGAAAGAAGAGA
1 AAAGAAAAAGAAAGAAGAGA
4687534 AA
1 AA
4687536 CTTACTGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAAAGAAGAGA
Found at i:4689694 original size:21 final size:21
Alignment explanation
Indices: 4689660--4689738 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
4689650 TTTATTTATC
*
4689660 TTAATAATTGTTTTATTCAAAT
1 TTAATAA-TATTTTATTCAAAT
**
4689682 TTAATAATATTTT-TAT-ATTT
1 TTAATAATATTTTAT-TCAAAT
* *
4689702 TTAATATATATTTTACTCAAAA
1 TTAATA-ATATTTTATTCAAAT
4689724 TTAATAATATTTTAT
1 TTAATAATATTTTAT
4689739 ATATCTTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
20 9 0.20
21 22 0.49
22 14 0.31
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (21 bp):
TTAATAATATTTTATTCAAAT
Found at i:4689748 original size:42 final size:42
Alignment explanation
Indices: 4689648--4689748 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
4689638 AATATTTTAA
* * * *
4689648 ATTTTATTTATCTTAATAATTGTTTTATTCAAATTTAATAAT
1 ATTTTATATATCTTAATAATTATTTTACTCAAAATTAATAAT
*
4689690 ATTTT-TATATTTTTAAT-ATATATTTTACTCAAAATTAATAAT
1 ATTTTATATA-TCTTAATAAT-TATTTTACTCAAAATTAATAAT
4689732 ATTTTATATATCTTAAT
1 ATTTTATATATCTTAAT
4689749 TTTTAAAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
41 5 0.10
42 41 0.82
43 4 0.08
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (42 bp):
ATTTTATATATCTTAATAATTATTTTACTCAAAATTAATAAT
Found at i:4689850 original size:2 final size:2
Alignment explanation
Indices: 4689843--4689870 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4689833 TTTTTAATCA
4689843 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
4689871 TATTTTTATC
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:4690054 original size:29 final size:28
Alignment explanation
Indices: 4690021--4690093 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
4690011 TTAATATTAG
*
4690021 AATAAAATATGTTTTCAAATGAAGATAAA
1 AATAAAATATATTTTCAAATGAA-ATAAA
* * *
4690050 GATAAAATTATATTTTTAATTGAAATAAA
1 AATAAAA-TATATTTTCAAATGAAATAAA
*
4690079 AATAAAATATTTTTT
1 AATAAAATATATTTT
4690094 GATAAGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 7 0.19
29 17 0.46
30 13 0.35
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (28 bp):
AATAAAATATATTTTCAAATGAAATAAA
Found at i:4693153 original size:7 final size:7
Alignment explanation
Indices: 4693141--4693195 Score: 78
Period size: 7 Copynumber: 8.1 Consensus size: 7
4693131 CTTCCTTTAT
4693141 TTCCTTC
1 TTCCTTC
4693148 TTCCTTC
1 TTCCTTC
4693155 TTCCTTC
1 TTCCTTC
4693162 TTCCTTC
1 TTCCTTC
4693169 TTCCTTC
1 TTCCTTC
* *
4693176 CTCCTCC
1 TTCCTTC
4693183 TT-CTTC
1 TTCCTTC
4693189 TT-CTTC
1 TTCCTTC
4693195 T
1 T
4693196 AGAACTGACG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 10 0.23
7 34 0.77
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
TTCCTTC
Found at i:4694734 original size:21 final size:21
Alignment explanation
Indices: 4694708--4694872 Score: 168
Period size: 21 Copynumber: 7.6 Consensus size: 21
4694698 CATAGAATTA
*
4694708 TCCCGAAGGATCACATATATG
1 TCCCGAAGGACCACATATATG
4694729 TCCCGAAGGACCACATATATG
1 TCCCGAAGGACCACATATATG
* * *
4694750 TCCCGAATGACCACGTAGAAATG
1 TCCCGAAGGACCAC--ATATATG
4694773 TCCCGAAGGACCACATATATG
1 TCCCGAAGGACCACATATATG
* * *
4694794 TTCCAAAGGACCAAATATATG
1 TCCCGAAGGACCACATATATG
* *
4694815 TCTCGAAGGACCAACCGTAAATATG
1 TCCCGAAGGACC-A-C--ATATATG
* * *
4694840 TTCCAAAGGATCACATATATG
1 TCCCGAAGGACCACATATATG
4694861 TCCCGAAGGACC
1 TCCCGAAGGACC
4694873 GCGTAGAACC
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
21 80 0.70
22 1 0.01
23 19 0.17
24 1 0.01
25 14 0.12
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:4694788 original size:65 final size:65
Alignment explanation
Indices: 4694683--4694872 Score: 238
Period size: 65 Copynumber: 2.9 Consensus size: 65
4694673 CATATAAAAT
* * * * *
4694683 TGTCCCGAATGACCTCATAGAATTATCCCGAAGGATCACATATATGTCCCGAAGGACCACATATA
1 TGTCCCGAATGACCACGTAGAAATGTCCCGAAGGATCACATATATGTCCCGAAGGACCAAATATA
* * *
4694748 TGTCCCGAATGACCACGTAGAAATGTCCCGAAGGACCACATATATGTTCCAAAGGACCAAATATA
1 TGTCCCGAATGACCACGTAGAAATGTCCCGAAGGATCACATATATGTCCCGAAGGACCAAATATA
* * * *
4694813 TGTCTCGAAGGACCAACCGTA-AATATGTTCCAAAGGATCACATATATGTCCCGAAGGACC
1 TGTCCCGAATGACC-A-CGTAGAA-ATGTCCCGAAGGATCACATATATGTCCCGAAGGACC
4694873 GCGTAGAACC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
65 69 0.64
66 3 0.03
67 35 0.33
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (65 bp):
TGTCCCGAATGACCACGTAGAAATGTCCCGAAGGATCACATATATGTCCCGAAGGACCAAATATA
Found at i:4698992 original size:23 final size:23
Alignment explanation
Indices: 4698966--4699077 Score: 129
Period size: 23 Copynumber: 5.0 Consensus size: 23
4698956 TGCCATATAA
*
4698966 AATTATCCCGAAGGACCTCATAG
1 AATTATCCCGAAGGACCACATAG
4698989 AATTATCCCGAAGGACCACATA-
1 AATTATCCCGAAGGACCACATAG
* * **
4699011 TA-TGTCCCGAAGGACCATGTAG
1 AATTATCCCGAAGGACCACATAG
* *
4699033 AAATATCCCGAATGACCACATAG
1 AATTATCCCGAAGGACCACATAG
* *
4699056 AATTGTCCCTAAGGACCACATA
1 AATTATCCCGAAGGACCACATA
4699078 TATGTTCCAA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
21 16 0.22
22 2 0.03
23 55 0.75
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (23 bp):
AATTATCCCGAAGGACCACATAG
Found at i:4699026 original size:44 final size:46
Alignment explanation
Indices: 4698966--4699077 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 46
4698956 TGCCATATAA
* *
4698966 AATTATCCCGAAGGACCTCATAGAATTATCCCGAAGGACCACATA-
1 AATTGTCCCGAAGGACCTCATAGAAATATCCCGAAGGACCACATAG
* * *
4699011 TA-TGTCCCGAAGGACCAT-GTAGAAATATCCCGAATGACCACATAG
1 AATTGTCCCGAAGGACC-TCATAGAAATATCCCGAAGGACCACATAG
* *
4699056 AATTGTCCCTAAGGACCACATA
1 AATTGTCCCGAAGGACCTCATA
4699078 TATGTTCCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
44 36 0.67
45 3 0.06
46 15 0.28
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (46 bp):
AATTGTCCCGAAGGACCTCATAGAAATATCCCGAAGGACCACATAG
Found at i:4699094 original size:67 final size:67
Alignment explanation
Indices: 4698969--4699094 Score: 189
Period size: 67 Copynumber: 1.9 Consensus size: 67
4698959 CATATAAAAT
* *
4698969 TATCCCGAAGGACCTCATAGAATTATCCCGAAGGACCACATATATGTCCCGAAGGACCATGTAGA
1 TATCCCGAAGGACCACATAGAATTATCCCGAAGGACCACATATATGTCCCAAAGGACCATGTAGA
4699034 AA
66 AA
* * * * *
4699036 TATCCCGAATGACCACATAGAATTGTCCCTAAGGACCACATATATGTTCCAAATGACCA
1 TATCCCGAAGGACCACATAGAATTATCCCGAAGGACCACATATATGTCCCAAAGGACCA
4699095 AATATATGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 52 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (67 bp):
TATCCCGAAGGACCACATAGAATTATCCCGAAGGACCACATATATGTCCCAAAGGACCATGTAGA
AA
Found at i:4706480 original size:21 final size:21
Alignment explanation
Indices: 4706427--4706486 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
4706417 CCCCCCATGA
4706427 GGGAACCGATTCCCCCTTTGA-AG
1 GGGAACCGATTCCCCC--T-ACAG
4706450 GGGAACCGATTCCCCCTACAG
1 GGGAACCGATTCCCCCTACAG
* *
4706471 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
4706487 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 17 0.50
23 16 0.47
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTACAG
Found at i:4706877 original size:2 final size:2
Alignment explanation
Indices: 4706870--4706899 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4706860 GAAATTAAAA
4706870 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
4706900 TGTTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4710324 original size:2 final size:2
Alignment explanation
Indices: 4710317--4710367 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
4710307 CCCCCACATG
4710317 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
4710359 TA TA TA TA T
1 TA TA TA TA T
4710368 CCATTAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4710813 original size:3 final size:3
Alignment explanation
Indices: 4710805--4710857 Score: 52
Period size: 3 Copynumber: 16.0 Consensus size: 3
4710795 CGTCAGTTTT
*
4710805 AGA AGA AGA AGAA AGA AGGA AGA ATGA AGAA AGA ATGC AGA AGA AGA
1 AGA AGA AGA AG-A AGA A-GA AGA A-GA AG-A AGA A-GA AGA AGA AGA
4710852 AGA AGA
1 AGA AGA
4710858 CCAGGGGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 29 0.67
4 14 0.33
ACGTcount: A:0.62, C:0.02, G:0.32, T:0.04
Consensus pattern (3 bp):
AGA
Found at i:4711532 original size:18 final size:18
Alignment explanation
Indices: 4711511--4711548 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4711501 TTGTTTTTAT
*
4711511 TTTTTTTCTTTTTTTTTC
1 TTTTTTTCTTTTTTGTTC
4711529 TTTTTTTCTTTTTTGTTC
1 TTTTTTTCTTTTTTGTTC
4711547 TT
1 TT
4711549 ACGAGATTTG
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:0.00, C:0.11, G:0.03, T:0.87
Consensus pattern (18 bp):
TTTTTTTCTTTTTTGTTC
Found at i:4711542 original size:10 final size:10
Alignment explanation
Indices: 4711510--4711548 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
4711500 TTTGTTTTTA
4711510 TTTTTTTTCT
1 TTTTTTTTCT
4711520 TTTTTTTTC-
1 TTTTTTTTCT
4711529 -TTTTTTTCT
1 TTTTTTTTCT
*
4711538 TTTTTGTTCT
1 TTTTTTTTCT
4711548 T
1 T
4711549 ACGAGATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 8 0.31
10 18 0.69
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:4716119 original size:23 final size:23
Alignment explanation
Indices: 4716073--4716125 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4716063 AAATTGCCAA
*
4716073 AAAAAAACAGAGATAAACGCGTC
1 AAAAAAACAGAGATAAACACGTC
* *
4716096 AAAAAGACAGAGATAAACATGTC
1 AAAAAAACAGAGATAAACACGTC
*
4716119 ATAAAAA
1 AAAAAAA
4716126 TATAATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.60, C:0.13, G:0.15, T:0.11
Consensus pattern (23 bp):
AAAAAAACAGAGATAAACACGTC
Found at i:4717630 original size:17 final size:17
Alignment explanation
Indices: 4717595--4717632 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4717585 TAAAAGTTTT
*
4717595 ATTAGAAATATATATAA
1 ATTAGAAATATATAAAA
4717612 ATTAGAAATA-ATAGAAA
1 ATTAGAAATATATA-AAA
4717629 ATTA
1 ATTA
4717633 TAATAAGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (17 bp):
ATTAGAAATATATAAAA
Found at i:4717674 original size:24 final size:25
Alignment explanation
Indices: 4717600--4717674 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 25
4717590 GTTTTATTAG
*
4717600 AAATATATATAAATTAGAAATAATAGA
1 AAATATA-ATAAATTAAAAAT-ATAGA
* ****
4717627 AAATTATAATAAGTTATTTGTATA-A
1 AAA-TATAATAAATTAAAAATATAGA
4717652 AAATATAATAAATTAAAAATATA
1 AAATATAATAAATTAAAAATATA
4717675 TTTATAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
24 15 0.41
25 4 0.11
26 3 0.08
27 11 0.30
28 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (25 bp):
AAATATAATAAATTAAAAATATAGA
Found at i:4718015 original size:30 final size:30
Alignment explanation
Indices: 4717980--4718053 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
4717970 TCGTCCTCTG
4717980 AAATTTTATAAGTTCAAGTTCGCCTTCCTA
1 AAATTTTATAAGTTCAAGTTCGCCTTCCTA
4718010 AAATTTTATAAGTTCAAGTTCGCCTTCCTA
1 AAATTTTATAAGTTCAAGTTCGCCTTCCTA
*
4718040 ATATTTTATAAGTT
1 AAATTTTATAAGTT
4718054 AAAATTCACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (30 bp):
AAATTTTATAAGTTCAAGTTCGCCTTCCTA
Found at i:4722190 original size:80 final size:80
Alignment explanation
Indices: 4722058--4722327 Score: 353
Period size: 80 Copynumber: 3.4 Consensus size: 80
4722048 TCTTTGAGCT
* * * * * * *
4722058 ACAAGTTCTTCTTATTACGAACTTCTTCTCTTAGAAATGCTT-ATCTAACTCCTTCTATGATGGA
1 ACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATG-TTGATCCAACTCCTTCTATGGTGGA
4722122 ATCGAGCAAAGGTTGA
65 ATCGAGCAAAGGTTGA
* *
4722138 ACATGTTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAACTCCTTCTATGGTTGAA
1 ACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAACTCCTTCTATGGTGGAA
*
4722203 TTGAGCAAAGGTTGA
66 TCGAGCAAAGGTTGA
* * * * * * *
4722218 ACAAGTTCTTCTCATTTTGAACTTCTTCTCTTGGGAATGTTGATCGAATTCGTTCTATGGTGGAA
1 ACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAACTCCTTCTATGGTGGAA
*
4722283 TCGAGCAAAGGTTAA
66 TCGAGCAAAGGTTGA
*
4722298 ATAAGTTATTCTCATTATGAACTTATTCTC
1 ACAAGTTATTCTCATTATGAACTTATTCTC
4722328 ATTATGAACT
Statistics
Matches: 164, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
79 2 0.01
80 162 0.99
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (80 bp):
ACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAACTCCTTCTATGGTGGAA
TCGAGCAAAGGTTGA
Found at i:4722322 original size:160 final size:160
Alignment explanation
Indices: 4722058--4722510 Score: 505
Period size: 177 Copynumber: 2.7 Consensus size: 160
4722048 TCTTTGAGCT
* * * *
4722058 ACAAGTTCTTCTTATTACGAACTTCTTCTCTTAGAAATGCTT-ATCTAACTCCTTCTATGATGGA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGAATG-TTGATCTAACTCCTTCTATGATGGA
* * *
4722122 ATCGAGCAAAGGTTGAACATGTTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAAC
65 ATCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAAC
* * * *
4722187 TCCTTCTATGGTTGAATTGAGCAAAGGTTGA
130 TCCTTCTATGATAGAATCGAGAAAAGGTTGA
* * * * *
4722218 ACAAGTTCTTCTCATTTTGAACTTCTTCTCTTGGGAATGTTGATCGAATTCGTTCTATGGTGGAA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGAATGTTGATCTAACTCCTTCTATGATGGAA
*
4722283 TCGAGCAAAGGTTAAATAAGTTATTCTCATTATGAACTTATTCTCATTATGAACTTATTCTCTTA
66 TCGAGCAAAGG-T---T--G--A---ACA--A-G---TTATTCTCATTATGAACTTATTCTCTTA
*
4722348 GGAATATTAATCCAACTCCTTCTGTGATAGAATCGAGAAAAGGTTGA
114 GGAATATTAATCCAACTCCTTCTATGATAGAATCGAGAAAAGGTTGA
* * *
4722395 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGG-ATGTTGATCTAACTCCTTTTGTTATGGAA
1 ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGAATGTTGATCTAACTCCTTCTATGATGGAA
* * * *
4722459 TCAAGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGAA
66 TCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAA
4722511 CGTTACTCTT
Statistics
Matches: 244, Mismatches: 31, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
159 31 0.13
160 64 0.26
161 1 0.00
162 1 0.00
163 1 0.00
164 1 0.00
165 2 0.01
166 1 0.00
168 2 0.01
170 1 0.00
171 2 0.01
172 1 0.00
174 1 0.00
175 1 0.00
176 32 0.13
177 102 0.42
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (160 bp):
ACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGAATGTTGATCTAACTCCTTCTATGATGGAA
TCGAGCAAAGGTTGAACAAGTTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACT
CCTTCTATGATAGAATCGAGAAAAGGTTGA
Found at i:4722325 original size:17 final size:17
Alignment explanation
Indices: 4722303--4722344 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
4722293 GTTAAATAAG
4722303 TTATTCTCATTATGAAC
1 TTATTCTCATTATGAAC
4722320 TTATTCTCATTATGAAC
1 TTATTCTCATTATGAAC
4722337 TTATTCTC
1 TTATTCTC
4722345 TTAGGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (17 bp):
TTATTCTCATTATGAAC
Found at i:4722365 original size:177 final size:176
Alignment explanation
Indices: 4722143--4722503 Score: 533
Period size: 177 Copynumber: 2.0 Consensus size: 176
4722133 GTTGAACATG
* * * * *
4722143 TTATTCTCATTATGAACTTATTCTCTTAGGAATGTTGATCCAACTCCTTCTATGGTTGAATTGAG
1 TTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAG
* * * *
4722208 CAAAGGTTGAACAAGTTCTTCTCATTTTGAACTTCTTCTCTTGGGAATGTTGATCGAATTCGTTC
66 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGG-ATGTTGATCGAACTCCTTC
* * *
4722273 TATGGTGGAATCGAGCAAAGGTTAAATAAGTTATTCTCATTATGAAC
130 TATGATGGAATCAAGCAAAGGTTAAACAAGTTATTCTCATTATGAAC
*
4722320 TTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTGTGATAGAATCGAG
1 TTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAG
* *
4722385 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGATGTTGATCTAACTCCTTTT
66 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGATGTTGATCGAACTCCTTCT
* * * *
4722450 GTTATGGAATCAAGCAAAGGTTGAACAAGTTCTTCTCATTATGAAC
131 ATGATGGAATCAAGCAAAGGTTAAACAAGTTATTCTCATTATGAAC
*
4722496 TTCTTCTC
1 TTATTCTC
4722504 TTGGGAACGT
Statistics
Matches: 164, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
176 62 0.38
177 102 0.62
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (176 bp):
TTATTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAG
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTTGGGATGTTGATCGAACTCCTTCT
ATGATGGAATCAAGCAAAGGTTAAACAAGTTATTCTCATTATGAAC
Found at i:4722392 original size:97 final size:97
Alignment explanation
Indices: 4722226--4722424 Score: 254
Period size: 97 Copynumber: 2.1 Consensus size: 97
4722216 GAACAAGTTC
* * * * * * * * * * *
4722226 TTCTCATTTTGAACTTCTTCTCTTGGGAATGTTGATCGAATTCGTTCTATGGTGGAATCGAGCAA
1 TTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAGAAA
*
4722291 AGGTTAAATAAGTTATTCTCATTATGAACTTA
66 AGGTTAAACAAGTTATTCTCATTATGAACTTA
*
4722323 TTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTGTGATAGAATCGAGAAA
1 TTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAGAAA
* * *
4722388 AGGTTGAACAAGTTCTTCTCATTATGAACTTC
66 AGGTTAAACAAGTTATTCTCATTATGAACTTA
4722420 TTCTC
1 TTCTC
4722425 TTGGGATGTT
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
97 86 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (97 bp):
TTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTATGATAGAATCGAGAAA
AGGTTAAACAAGTTATTCTCATTATGAACTTA
Found at i:4722474 original size:79 final size:79
Alignment explanation
Indices: 4722323--4722509 Score: 275
Period size: 79 Copynumber: 2.4 Consensus size: 79
4722313 TATGAACTTA
* * *
4722323 TTCTCATTATGAACTTATTCTCTTAGGAATATTAATCCAACTCCTTCTGTGATAGAATCGAGAAA
1 TTCTCATTATGAACTTCTTCTCTT-GGGATATTAATCCAACTCCTTCTGTGATAGAATCAAGAAA
4722388 AGGTTGAACAAGTTC
65 AGGTTGAACAAGTTC
* * * * * * *
4722403 TTCTCATTATGAACTTCTTCTCTTGGGATGTTGATCTAACTCCTTTTGTTATGGAATCAAGCAAA
1 TTCTCATTATGAACTTCTTCTCTTGGGATATTAATCCAACTCCTTCTGTGATAGAATCAAGAAAA
4722468 GGTTGAACAAGTTC
66 GGTTGAACAAGTTC
4722482 TTCTCATTATGAACTTCTTCTCTTGGGA
1 TTCTCATTATGAACTTCTTCTCTTGGGA
4722510 ACGTTACTCT
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 74 0.76
80 23 0.24
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (79 bp):
TTCTCATTATGAACTTCTTCTCTTGGGATATTAATCCAACTCCTTCTGTGATAGAATCAAGAAAA
GGTTGAACAAGTTC
Found at i:4729197 original size:13 final size:13
Alignment explanation
Indices: 4729179--4729226 Score: 96
Period size: 13 Copynumber: 3.7 Consensus size: 13
4729169 TGCGTCATAA
4729179 ATTTATGACACGC
1 ATTTATGACACGC
4729192 ATTTATGACACGC
1 ATTTATGACACGC
4729205 ATTTATGACACGC
1 ATTTATGACACGC
4729218 ATTTATGAC
1 ATTTATGAC
4729227 TTACATTGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:4729312 original size:2 final size:2
Alignment explanation
Indices: 4729305--4729359 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4729295 TTTCGTAAAT
4729305 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
4729347 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
4729360 GTAGATTGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4729578 original size:10 final size:10
Alignment explanation
Indices: 4729563--4729591 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
4729553 TGTACACAAG
4729563 AAATAATTGA
1 AAATAATTGA
4729573 AAATAATTGA
1 AAATAATTGA
4729583 AAATAATTG
1 AAATAATTG
4729592 TAACAGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (10 bp):
AAATAATTGA
Found at i:4733910 original size:45 final size:45
Alignment explanation
Indices: 4733846--4734059 Score: 277
Period size: 45 Copynumber: 4.7 Consensus size: 45
4733836 TTGTAGTGTT
*
4733846 TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTCTA
1 TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTA
* * * ** * *
4733891 TGTTGATAAGGTACCCATATACATTTCAACGATAGTATACCTTATC
1 TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA-CTTTTA
* * * * *
4733937 TATTGAGAATGTACCCATATACATTTCAACTCTAGCATACTTTTCA
1 TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTT-A
*
4733983 -GTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTA
4734027 TGTTGATAATGCACCCATATGCATTTCAACTCT
1 TGTTGATAATGCACCCATATGCATTTCAACTCT
4734060 GGCATCCTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
45 108 0.74
46 37 0.26
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTA
Found at i:4734018 original size:91 final size:90
Alignment explanation
Indices: 4733848--4734096 Score: 299
Period size: 91 Copynumber: 2.8 Consensus size: 90
4733838 GTAGTGTTTG
* * * * *
4733848 TTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTCT-ATGTTGATAAGGTACCCATATA
1 TTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCA-GTTGATAATGCACCCATATG
4733912 CATTTCAACGATAGTATACCTTATCTA
65 CATTTCAACGATAGTATA-CTTATCTA
* * *
4733939 TTGAGAATGTACCCATATACATTTCAACTCTAGCATACTTTTCAGTTGATAATGCACCCATATGC
1 TTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCAGTTGATAATGCACCCATATGC
** * *
4734004 ATTTCAACTCTAGTATACTTTTCTG
66 ATTTCAACGATAGTATACTTATCTA
* *
4734029 TTGATAATGCACCCATATGCATTTCAACTCTGGCAT-CCTTTC--TTGCCACTAATGCACCCATA
1 TTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCAGTTG--A-TAATGCACCCATA
4734091 TGCATT
63 TGCATT
4734097 ATTCTTTTAT
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
87 3 0.02
89 6 0.04
90 57 0.42
91 70 0.51
92 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (90 bp):
TTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTCAGTTGATAATGCACCCATATGC
ATTTCAACGATAGTATACTTATCTA
Found at i:4734082 original size:45 final size:44
Alignment explanation
Indices: 4733847--4734096 Score: 263
Period size: 45 Copynumber: 5.5 Consensus size: 44
4733837 TGTAGTGTTT
*
4733847 GTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTCTAT-
1 GTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTT-T-TC
* * * ** * *
4733892 GTTGATAAGGTACCCATATACATTTCAACGATAGTATACCTTATC
1 GTTGATAATGCACCCATATGCATTTCAACTCTAGCATA-CTTTTC
* * * *
4733937 TATTGAGAATGTACCCATATACATTTCAACTCTAGCATACTTTTC
1 -GTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTC
*
4733982 AGTTGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTC
1 -GTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTC
* *
4734027 TGTTGATAATGCACCCATATGCATTTCAACTCTGGCAT-CCTTTC
1 -GTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTC
4734071 -TTGCCACTAATGCACCCATATGCATT
1 GTTG--A-TAATGCACCCATATGCATT
4734097 ATTCTTTTAT
Statistics
Matches: 176, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.02
44 7 0.04
45 131 0.74
46 35 0.20
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (44 bp):
GTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTTTC
Found at i:4734661 original size:22 final size:21
Alignment explanation
Indices: 4734566--4734666 Score: 143
Period size: 21 Copynumber: 4.8 Consensus size: 21
4734556 ATTTCTGGCC
4734566 CTTA-GGTATCGATACCCCTG
1 CTTATGGTATCGATACCCCTG
4734586 CTTATGGTATCGATACCCCTG
1 CTTATGGTATCGATACCCCTG
*
4734607 TTTATGGTATCGATACCCCTG
1 CTTATGGTATCGATACCCCTG
4734628 CTTATGGTATCGATACTACCCT-
1 CTTATGGTATCGATAC--CCCTG
* *
4734650 ATTAGGGTATCGATACC
1 CTTATGGTATCGATACC
4734667 ACCTTCATGT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
20 5 0.07
21 51 0.69
22 14 0.19
23 4 0.05
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
CTTATGGTATCGATACCCCTG
Found at i:4734780 original size:95 final size:95
Alignment explanation
Indices: 4734613--4734835 Score: 213
Period size: 95 Copynumber: 2.3 Consensus size: 95
4734603 CCTGTTTATG
* * * * * *
4734613 GTATCGATACCCCTGCTTATGGTATCGATACTACCCTA--TTAGGGTATCGATACCACCTTCATG
1 GTATCGATACCCCTAC-CATGGTATCGATAC-A-CTTATGTTATGGTACCGATACCACCTTCAGG
* * * * *
4734676 TGTCAATACCGAAATT-AGCTTTGATATAGACTG
63 TATCAATACCCAAATTGA-ATTCGATATAGACTA
4734709 GTATCGATA-CCCTCACCATGGTATCGATACACTTATGTTATGGTACCGATACC-CCTTCTAGGT
1 GTATCGATACCCCT-ACCATGGTATCGATACACTTATGTTATGGTACCGATACCACCTTC-AGGT
* * **
4734772 ATCGATACCCAAATTGAATTCGATGTTTACTA
64 ATCAATACCCAAATTGAATTCGATATAGACTA
*
4734804 GTATGGATACCCCTACCATGGTATCGATACAC
1 GTATCGATACCCCTACCATGGTATCGATACAC
4734836 ATTGCTTGGG
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
93 3 0.03
94 6 0.06
95 81 0.77
96 15 0.14
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (95 bp):
GTATCGATACCCCTACCATGGTATCGATACACTTATGTTATGGTACCGATACCACCTTCAGGTAT
CAATACCCAAATTGAATTCGATATAGACTA
Found at i:4735470 original size:2 final size:2
Alignment explanation
Indices: 4735465--4735489 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4735455 CATTACTCTA
4735465 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4735490 CATACCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4741029 original size:45 final size:45
Alignment explanation
Indices: 4740974--4741191 Score: 267
Period size: 45 Copynumber: 4.8 Consensus size: 45
4740964 ACTCTAACAT
**
4740974 CTTTTCTGTTGATAATGCAGACATATGCATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* * * * *
4741019 CTTCTATGTTGATAATGTACCCATATACATATCAAC-CATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTATA
* * * *
4741064 CCTTTTCTGTTGAGAATGTACCCTTATGCATTTCAACTCTAGCATA
1 -CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* *
4741110 CTTTTCTGTTGATAATGCAGCCATACGCATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
* **
4741155 TTTTTCTGTTGATAATGCACCCATATATATTTCAACT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
4741192 TTGGCATCCT
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 107 0.74
46 36 0.25
47 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
Found at i:4741134 original size:91 final size:90
Alignment explanation
Indices: 4740974--4741191 Score: 267
Period size: 91 Copynumber: 2.4 Consensus size: 90
4740964 ACTCTAACAT
** * *
4740974 CTTTTCTGTTGATAATGCAGACATATGCATTTCAACTCTAGTATACTTCTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTCTATGTTGATAATGCAC
*
4741039 CCATATACATATCAAC-CATAGTATA
66 CCATACACATATCAACTC-TAGTATA
* * * * *
4741064 CCTTTTCTGTTGAGAATGTACCCTTATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCA
1 -CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTCTATGTTGATAATGCA
* * *
4741129 GCCATACGCATTTCAACTCTAGTATA
65 CCCATACACATATCAACTCTAGTATA
* **
4741155 TTTTTCTGTTGATAATGCACCCATATATATTTCAACT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
4741192 TTGGCATCCT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
90 31 0.29
91 75 0.70
92 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACTTCTATGTTGATAATGCAC
CCATACACATATCAACTCTAGTATA
Found at i:4741754 original size:22 final size:21
Alignment explanation
Indices: 4741705--4741763 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
4741695 CTGGCCCTTA
* *
4741705 GGTATCGATACCCCTGCTTAT
1 GGTATCGATACCCCTGATTAG
4741726 GGTATCGATACTACCCT-ATTAG
1 GGTATCGATAC--CCCTGATTAG
4741748 GGTATCGATATCCCCT
1 GGTATCGATA-CCCCT
4741764 TCATATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 15 0.45
22 13 0.39
23 5 0.15
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (21 bp):
GGTATCGATACCCCTGATTAG
Found at i:4742427 original size:19 final size:20
Alignment explanation
Indices: 4742391--4742430 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4742381 TCTTCTTTAA
4742391 ACCTTTATTAAGTTTATATC
1 ACCTTTATTAAGTTTATATC
4742411 ACCTTTATTAA-TTTATATC
1 ACCTTTATTAAGTTTATATC
4742430 A
1 A
4742431 TATGCAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.50
Consensus pattern (20 bp):
ACCTTTATTAAGTTTATATC
Found at i:4751344 original size:19 final size:19
Alignment explanation
Indices: 4751320--4751386 Score: 107
Period size: 19 Copynumber: 3.5 Consensus size: 19
4751310 TAGCCTCGGG
*
4751320 TTACTGTTCAAACAGTAAT
1 TTACTGTTCAAATAGTAAT
4751339 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAATAGTAAT
*
4751358 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAATAGTAAT
*
4751377 TTACTATTCA
1 TTACTGTTCA
4751387 TAAAAACATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAATAGTAAT
Found at i:4751483 original size:29 final size:31
Alignment explanation
Indices: 4751451--4751510 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
4751441 AAATTTTGAA
* *
4751451 TAAATTTAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4751480 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4751511 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 10 0.37
31 7 0.26
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:4762610 original size:15 final size:15
Alignment explanation
Indices: 4762567--4762611 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
4762557 ATAATTTAAT
4762567 TATAAGTTTATTTATGA
1 TATAA-TTTA-TTATGA
**
4762584 TATAATAAATTATGA
1 TATAATTTATTATGA
4762599 TATAATTTATTAT
1 TATAATTTATTAT
4762612 ATTTTTAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 17 0.71
16 2 0.08
17 5 0.21
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (15 bp):
TATAATTTATTATGA
Found at i:4767615 original size:2 final size:2
Alignment explanation
Indices: 4767555--4767603 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
4767545 ATTCTATCTA
* * * *
4767555 AT AT AT AT GT AT AT CT -T AA AT TT 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
4767596 AT AT AT AT
1 AT AT AT AT
4767604 TAAATTTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4769533 original size:24 final size:24
Alignment explanation
Indices: 4769488--4769533 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4769478 TTGTATTATA
* *
4769488 TTTTGTAATATTTTTATTATTTAG
1 TTTTGTAATATTTTGATAATTTAG
4769512 TTTTGTAATATTTTGATAATTT
1 TTTTGTAATATTTTGATAATTT
4769534 CATAAGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (24 bp):
TTTTGTAATATTTTGATAATTTAG
Found at i:4771319 original size:9 final size:9
Alignment explanation
Indices: 4771305--4771338 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4771295 TTGCCTTGTA
4771305 ACCGGTTTG
1 ACCGGTTTG
*
4771314 ACCGGTCTG
1 ACCGGTTTG
4771323 AACCGGTTTG
1 -ACCGGTTTG
4771333 ACCGGT
1 ACCGGT
4771339 CTAAACTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:4771328 original size:19 final size:19
Alignment explanation
Indices: 4771304--4771354 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
4771294 GTTGCCTTGT
*
4771304 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTA
4771323 AACCGGTTTGACCGGTCTA
1 AACCGGTTTGACCGGTCTA
* *
4771342 AACTGGGTTGACC
1 AACCGGTTTGACC
4771355 AGTTCGAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTA
Found at i:4771493 original size:25 final size:25
Alignment explanation
Indices: 4771458--4771505 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4771448 AAAAGGGTAT
* *
4771458 TATTTTTGTAATTTTTAAAAAATGC
1 TATTTTCGTAATTTTGAAAAAATGC
4771483 TATTTTCGTAATTTTGAAAAAAT
1 TATTTTCGTAATTTTGAAAAAAT
4771506 TGGTGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (25 bp):
TATTTTCGTAATTTTGAAAAAATGC
Found at i:4771556 original size:29 final size:29
Alignment explanation
Indices: 4771395--4771572 Score: 116
Period size: 29 Copynumber: 6.2 Consensus size: 29
4771385 CCGTTGACCG
* *
4771395 GGTGATATTTTGGTAATTATTTTGAAACT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * * * *
4771424 GATGGTATTCTAGTAATTGTTTTGAAAAG
1 GGTGATATTTTAGTAATTATTTTGAAAAT
*
4771453 GGT-ATTATTTTTGTAA-T-TTTT-AAAA-
1 GGTGA-TATTTTAGTAATTATTTTGAAAAT
** * * ***
4771478 AATGCTATTTTCGTAATT-TTGAAAAAATT
1 GGTGATATTTTAGTAATTATTTTGAAAA-T
* *
4771507 GGTGATATTTTAGTAAATATTTTTAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* *
4771536 GGTGATATTTTGGTAATTATTTTAGAAAAA
1 GGTGATATTTTAGTAATTATTTT-GAAAAT
4771566 GGTGATA
1 GGTGATA
4771573 AATGTGTAAA
Statistics
Matches: 112, Mismatches: 29, Indels: 15
0.72 0.19 0.10
Matches are distributed among these distances:
25 11 0.10
26 7 0.06
27 8 0.07
28 1 0.01
29 68 0.61
30 17 0.15
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:4779910 original size:59 final size:60
Alignment explanation
Indices: 4779846--4779974 Score: 147
Period size: 60 Copynumber: 2.2 Consensus size: 60
4779836 AAATTGATCT
* * *
4779846 TTAAACTTTTGAATAATTTACATTT-ATC-CTAAACTATGATACT-AGTTCTAAATCAGTCC
1 TTAAACTTTTAAACAATTTA-ATTTCATCTCTAAACTATGACACTCA-TTCTAAATCAGTCC
* * * *
4779905 TTAAACTTTTAAACATTTTAATTTCATCTCTAAATTATGACCCTCATTCTAAATTAGTCC
1 TTAAACTTTTAAACAATTTAATTTCATCTCTAAACTATGACACTCATTCTAAATCAGTCC
*
4779965 CTAAACTTTT
1 TTAAACTTTT
4779975 CAATCTTCCA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
58 4 0.07
59 20 0.34
60 34 0.58
61 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.43
Consensus pattern (60 bp):
TTAAACTTTTAAACAATTTAATTTCATCTCTAAACTATGACACTCATTCTAAATCAGTCC
Found at i:4781476 original size:13 final size:13
Alignment explanation
Indices: 4781458--4781490 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4781448 GCCGCTCCAT
*
4781458 GCCACTGCCAATC
1 GCCACTACCAATC
4781471 GCCACTACCAATC
1 GCCACTACCAATC
4781484 GCCACTA
1 GCCACTA
4781491 TCGCTACCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.45, G:0.12, T:0.15
Consensus pattern (13 bp):
GCCACTACCAATC
Found at i:4781655 original size:23 final size:23
Alignment explanation
Indices: 4781586--4781655 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
4781576 AATCAAATCA
4781586 AATATTTAAAACCAAACCTACCT
1 AATATTTAAAACCAAACCTACCT
*** * *
4781609 AATACCAAAAAATCAAA--T--CA
1 AATA-TTTAAAACCAAACCTACCT
4781629 AATATTTAAAACCAAACCTACCT
1 AATATTTAAAACCAAACCTACCT
4781652 AATA
1 AATA
4781656 CCGGAAAATC
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 8 0.25
20 5 0.16
21 1 0.03
22 1 0.03
23 9 0.28
24 8 0.25
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (23 bp):
AATATTTAAAACCAAACCTACCT
Found at i:4781664 original size:43 final size:43
Alignment explanation
Indices: 4781571--4781665 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
4781561 GGAGAAAAAT
4781571 CAGAAAATCAAATCAAATATTTAAAACCAAACCTACCTAATAC
1 CAGAAAATCAAATCAAATATTTAAAACCAAACCTACCTAATAC
*
4781614 CAAAAAATCAAATCAAATATTTAAAACCAAACCTACCTAATAC
1 CAGAAAATCAAATCAAATATTTAAAACCAAACCTACCTAATAC
*
4781657 CGGAAAATC
1 CAGAAAATC
4781666 TAGGACATCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (43 bp):
CAGAAAATCAAATCAAATATTTAAAACCAAACCTACCTAATAC
Found at i:4781716 original size:23 final size:23
Alignment explanation
Indices: 4781690--4781744 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
4781680 TCTCGATTTT
*
4781690 CCTCACCATCCAAAAATCATCAA
1 CCTCACCAACCAAAAATCATCAA
4781713 CCTCACCAACCAAAAATCATCAA
1 CCTCACCAACCAAAAATCATCAA
4781736 CCTCACCAA
1 CCTCACCAA
4781745 ATCTCACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.42, G:0.00, T:0.15
Consensus pattern (23 bp):
CCTCACCAACCAAAAATCATCAA
Found at i:4782294 original size:89 final size:89
Alignment explanation
Indices: 4782181--4782351 Score: 272
Period size: 89 Copynumber: 1.9 Consensus size: 89
4782171 TTGAAAAAAC
* * *
4782181 AACTTATTCTACTATAACTCTGATCACCTTTAGCATCAACTCTCCTCTCCAAGCTTAGTTTCTT-
1 AACTTATCCTACTACAACTCTGATCACCTTTAGCATCAACTCTCATCTCCAAGCTTAGTTTCTTA
*
4782245 ATTTTTTCTTGTAATCTTCAGCATA
66 AGTTTTT-TTGTAATCTTCAGCATA
* *
4782270 AACTTATCCTACTACAACTCTGATCACTTTTAGCATCAACTCTCATGTCCAAGCTTAGTTTCTTA
1 AACTTATCCTACTACAACTCTGATCACCTTTAGCATCAACTCTCATCTCCAAGCTTAGTTTCTTA
4782335 AGTTTTTTTGTAATCTT
66 AGTTTTTTTGTAATCTT
4782352 TCGTTCTCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 69 0.92
90 6 0.08
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.43
Consensus pattern (89 bp):
AACTTATCCTACTACAACTCTGATCACCTTTAGCATCAACTCTCATCTCCAAGCTTAGTTTCTTA
AGTTTTTTTGTAATCTTCAGCATA
Found at i:4791787 original size:11 final size:11
Alignment explanation
Indices: 4791773--4791804 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
4791763 GGGGACCAAT
4791773 ACCCGACCCGA
1 ACCCGACCCGA
4791784 ACCCGACCCGA
1 ACCCGACCCGA
4791795 ACCCGACCCG
1 ACCCGACCCG
4791805 TTGCCATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.25, C:0.56, G:0.19, T:0.00
Consensus pattern (11 bp):
ACCCGACCCGA
Found at i:4796779 original size:28 final size:28
Alignment explanation
Indices: 4796727--4796780 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
4796717 GGTATCTTCG
* **
4796727 CGTAGAACTTTTTCACTTATCACATTCA
1 CGTAGAACCTTTTCACTTAGAACATTCA
4796755 CGTAGAACCTTTTCACTTAGAACATT
1 CGTAGAACCTTTTCACTTAGAACATT
4796781 ATTAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (28 bp):
CGTAGAACCTTTTCACTTAGAACATTCA
Found at i:4802689 original size:24 final size:23
Alignment explanation
Indices: 4802653--4802714 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
4802643 GTTTTGTCCT
* *
4802653 GAAGGACCGCGTAGAATTTATCCC
1 GAAGGACCACGTAGAA-ATATCCC
* *
4802677 GAAGGACCACGTAGAAATGTCCT
1 GAAGGACCACGTAGAAATATCCC
*
4802700 GAAGGACCACATAGA
1 GAAGGACCACGTAGA
4802715 TTGTCTCGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
23 18 0.55
24 15 0.45
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (23 bp):
GAAGGACCACGTAGAAATATCCC
Found at i:4802707 original size:23 final size:24
Alignment explanation
Indices: 4802647--4802714 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
4802637 CACATAGTTT
* *
4802647 TGTCCTGAAGGACCGCGTAGAATT
1 TGTCCTGAAGGACCACGTAGAATA
* *
4802671 TATCCCGAAGGACCACGTAGAA-A
1 TGTCCTGAAGGACCACGTAGAATA
*
4802694 TGTCCTGAAGGACCACATAGA
1 TGTCCTGAAGGACCACGTAGA
4802715 TTGTCTCGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (24 bp):
TGTCCTGAAGGACCACGTAGAATA
Found at i:4805831 original size:18 final size:18
Alignment explanation
Indices: 4805808--4805872 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
4805798 TTCATGCATC
* *
4805808 TAGTTCATTGAATAAAGT
1 TAGTTCATTAAATAATGT
4805826 TAGTTCATTAAATAATGT
1 TAGTTCATTAAATAATGT
4805844 TAGTTCATTAAATAATGT
1 TAGTTCATTAAATAATGT
4805862 TAGTTCATTAA
1 TAGTTCATTAA
4805873 TCAAACTAAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.43
Consensus pattern (18 bp):
TAGTTCATTAAATAATGT
Found at i:4807463 original size:18 final size:18
Alignment explanation
Indices: 4807436--4807475 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4807426 AGGTAGCAAA
*
4807436 AAAATCAAAAAAAAATAC
1 AAAATCAAAAAAAAAAAC
*
4807454 AAAATTAAAAAAAAAAAC
1 AAAATCAAAAAAAAAAAC
4807472 AAAA
1 AAAA
4807476 GAAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAATCAAAAAAAAAAAC
Found at i:4807484 original size:18 final size:19
Alignment explanation
Indices: 4807442--4807486 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
4807432 CAAAAAAATC
*
4807442 AAAAAAAAATACAAAATTA
1 AAAAAAAAATACAAAATGA
4807461 AAAAAAAAA-ACAAAA-GA
1 AAAAAAAAATACAAAATGA
4807478 AAGAAAAAA
1 AA-AAAAAA
4807487 GTTTAAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.07
Consensus pattern (19 bp):
AAAAAAAAATACAAAATGA
Found at i:4809396 original size:18 final size:18
Alignment explanation
Indices: 4809373--4809417 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
4809363 TTCATGTATC
4809373 TAGTTCATTGAATAAAGT
1 TAGTTCATTGAATAAAGT
*
4809391 TAGTTCATTGAATAATGT
1 TAGTTCATTGAATAAAGT
4809409 TAGTTCATT
1 TAGTTCATT
4809418 AATCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (18 bp):
TAGTTCATTGAATAAAGT
Found at i:4815194 original size:3 final size:3
Alignment explanation
Indices: 4815186--4815304 Score: 224
Period size: 3 Copynumber: 40.3 Consensus size: 3
4815176 AAGTTTCCTT
4815186 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4815234 TTA TTA -TA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4815280 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
4815305 ATGTGTACAT
Statistics
Matches: 114, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.04
3 110 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4815510 original size:2 final size:2
Alignment explanation
Indices: 4815503--4815559 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
4815493 GTGTATAGGT
4815503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- 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
4815544 TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
4815560 CTGTGTATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4815579 original size:9 final size:8
Alignment explanation
Indices: 4815507--4815584 Score: 61
Period size: 8 Copynumber: 9.9 Consensus size: 8
4815497 ATAGGTTATA
*
4815507 TATATATA
1 TATATATG
*
4815515 TATATATA
1 TATATATG
*
4815523 TATATATA
1 TATATATG
4815531 TATATAT-
1 TATATATG
*
4815538 TATATATA
1 TATATATG
*
4815546 T-TATATA
1 TATATATG
*
4815553 TATATATC
1 TATATATG
* *
4815561 TGTGTATG
1 TATATATG
4815569 TACTATATG
1 TA-TATATG
4815578 TATATAT
1 TATATAT
4815585 TTATTTAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
7 14 0.23
8 40 0.66
9 7 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:4820421 original size:32 final size:33
Alignment explanation
Indices: 4820380--4820441 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
4820370 GGGTTTTTGG
**
4820380 TCCACCCGACCCG-ACTCGAGAATAAGGGAACC
1 TCCACCCGACCCGAACAAGAGAATAAGGGAACC
*
4820412 TCCACCCGACCTGAACAAGAGAATAAGGGA
1 TCCACCCGACCCGAACAAGAGAATAAGGGA
4820442 TGGCCATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.35, C:0.32, G:0.23, T:0.10
Consensus pattern (33 bp):
TCCACCCGACCCGAACAAGAGAATAAGGGAACC
Found at i:4820943 original size:21 final size:21
Alignment explanation
Indices: 4820919--4820959 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4820909 AGAGGTTAAG
*
4820919 ACCTTTCGATGAAAGGACTTA
1 ACCTTTCGATGAAAAGACTTA
* *
4820940 ACCTTTTGATTAAAAGACTT
1 ACCTTTCGATGAAAAGACTT
4820960 CTCCTTTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
ACCTTTCGATGAAAAGACTTA
Found at i:4820988 original size:22 final size:22
Alignment explanation
Indices: 4820963--4821011 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4820953 AAGACTTCTC
* *
4820963 CTTTTTGACGAAAGGGCTTAAT
1 CTTTTTCACGAAAGGACTTAAT
* *
4820985 CTTTTTCATGAAAGGATTTAAT
1 CTTTTTCACGAAAGGACTTAAT
4821007 CTTTT
1 CTTTT
4821012 CATGAAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (22 bp):
CTTTTTCACGAAAGGACTTAAT
Found at i:4821152 original size:29 final size:29
Alignment explanation
Indices: 4821110--4821168 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4821100 AATTAATTAG
4821110 TTACAAATAACATCAATTCATTCATTTTT
1 TTACAAATAACATCAATTCATTCATTTTT
4821139 TTACAAATAACATCAATTCATTCATTTTT
1 TTACAAATAACATCAATTCATTCATTTTT
4821168 T
1 T
4821169 CCAGCAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (29 bp):
TTACAAATAACATCAATTCATTCATTTTT
Found at i:4828016 original size:13 final size:13
Alignment explanation
Indices: 4827998--4828022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4827988 AAAAAATGTT
4827998 TTGTTTTTAATTG
1 TTGTTTTTAATTG
4828011 TTGTTTTTAATT
1 TTGTTTTTAATT
4828023 TAATTATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TTGTTTTTAATTG
Found at i:4828287 original size:12 final size:12
Alignment explanation
Indices: 4828266--4828309 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
4828256 CGATTCGATT
* *
4828266 AAACCGACCTCG
1 AAACCCACCTCC
*
4828278 AAACTCACCTCC
1 AAACCCACCTCC
4828290 AAACCCACCTCC
1 AAACCCACCTCC
*
4828302 AAATCCAC
1 AAACCCAC
4828310 TTCCTATTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.36, C:0.48, G:0.05, T:0.11
Consensus pattern (12 bp):
AAACCCACCTCC
Found at i:4831005 original size:15 final size:15
Alignment explanation
Indices: 4830985--4831014 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4830975 CTTTTGACAA
4830985 CAAAGATATAAGTTG
1 CAAAGATATAAGTTG
4831000 CAAAGATATAAGTTG
1 CAAAGATATAAGTTG
4831015 GTTTACTCTT
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:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
CAAAGATATAAGTTG
Found at i:4831126 original size:63 final size:64
Alignment explanation
Indices: 4831032--4831162 Score: 230
Period size: 63 Copynumber: 2.1 Consensus size: 64
4831022 CTTATTGAAC
4831032 TTATAGTATATACAATCATCAACTAAATTTATATCGAAACCATGAGATAATCACTTATCGACAT
1 TTATAGTATATACAATCATCAACTAAATTTATATCGAAACCATGAGATAATCACTTATCGACAT
*
4831096 TTATAGTATATAC-ATCGTCTAA-TAAATTTATATCGAAACCATGAGATAATCACTTATCGACAT
1 TTATAGTATATACAATCATC-AACTAAATTTATATCGAAACCATGAGATAATCACTTATCGACAT
4831159 TTAT
1 TTAT
4831163 GATACCATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
63 50 0.77
64 15 0.23
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (64 bp):
TTATAGTATATACAATCATCAACTAAATTTATATCGAAACCATGAGATAATCACTTATCGACAT
Found at i:4843969 original size:18 final size:18
Alignment explanation
Indices: 4843946--4843988 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
4843936 AGAAGTTGAG
4843946 AGATTATTTGGTTTCGAA
1 AGATTATTTGGTTTCGAA
4843964 AGATTATTTGGTTTCGAA
1 AGATTATTTGGTTTCGAA
4843982 AGATTAT
1 AGATTAT
4843989 CAACTATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (18 bp):
AGATTATTTGGTTTCGAA
Found at i:4844272 original size:43 final size:42
Alignment explanation
Indices: 4844220--4844438 Score: 201
Period size: 43 Copynumber: 5.1 Consensus size: 42
4844210 AAAAAAAAAT
*** *
4844220 GCCGCAATAGGTAACGATATATAGCGGCGTTTGTCCAACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCCAACAAAC
* *
4844263 GCCGCAATAGGTGTTGATATTTGGCGGCGTTTTTCCTACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTCCAACAAAC
*
4844306 GCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTCCCCAA-AAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCGTTTT--CCAACAAAC
* *
4844349 GCCGCAATAGGTGTTGAGATTGAGCGGCGTTTTTCTC-ACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTC-CAACAAAC
* * * * * * **
4844392 ACCGCAAAAGAT-CTGGTATATAGCGGCGTTTTTAGAACAAAC
1 GCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTCCAACAAAC
4844434 GCCGC
1 GCCGC
4844439 TAATTACCTC
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
42 32 0.22
43 106 0.72
44 10 0.07
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (42 bp):
GCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCCAACAAAC
Found at i:4844349 original size:86 final size:86
Alignment explanation
Indices: 4844241--4844398 Score: 234
Period size: 86 Copynumber: 1.8 Consensus size: 86
4844231 TAACGATATA
*
4844241 TAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTG-GCGGCGTTTTTC-CTACAA
1 TAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGAGA-TTGAGCGGCGTTTTTCTC-ACAA
*
4844304 ACGCCGCAATAGGTGTTGAGATT
64 ACACCGCAATAGGTGTTGAGATT
4844327 TAGCGGCGTTT-TCCCCAA-AAACGCCGCAATAGGTGTTGAGATTGAGCGGCGTTTTTCTCACAA
1 TAGCGGCGTTTGT--CCAACAAACGCCGCAATAGGTGTTGAGATTGAGCGGCGTTTTTCTCACAA
4844390 ACACCGCAA
64 ACACCGCAA
4844399 AAGATCTGGT
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
85 4 0.06
86 57 0.86
87 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (86 bp):
TAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGAGATTGAGCGGCGTTTTTCTCACAAAC
ACCGCAATAGGTGTTGAGATT
Found at i:4844574 original size:21 final size:21
Alignment explanation
Indices: 4844550--4844608 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4844540 ATTTTTCAAT
*
4844550 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* *
4844571 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
**
4844592 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
4844609 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:4846607 original size:41 final size:41
Alignment explanation
Indices: 4846541--4846857 Score: 325
Period size: 41 Copynumber: 7.6 Consensus size: 41
4846531 TTGTAAACTT
* * *
4846541 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACAAGTCTATA
* *
4846584 GCGGCGTTT-TAATAAAAACGCCACTAAAGTACGAGTCTTTA
1 GCGGCGTTTGT-ATAAAAACGCCACTAAAGTACAAGTCTATA
* ** *
4846625 GCGGCGTTTTTATAAAAACGCCACTAAAGTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* ** *
4846666 GCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * *
4846707 GCGGTGTTTGTAAACACAAACGCCACTATAGTACATA-TGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACA-AGTCTATA
* *
4846750 ACGGCGTTTGTATAAAAACGCCACTAAAGTACAATTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
* * * * *
4846791 GCGGCGTTTGTATAAAAATGCCACTAAAGTACTACTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
*
4846832 GCGGCGTTTGT-TGAAAAATGCCACTA
1 GCGGCGTTTGTAT-AAAAACGCCACTA
4846858 TCTATGAACC
Statistics
Matches: 240, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
40 2 0.01
41 192 0.80
42 5 0.02
43 40 0.17
44 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTATA
Found at i:4846820 original size:166 final size:166
Alignment explanation
Indices: 4846541--4846857 Score: 480
Period size: 166 Copynumber: 1.9 Consensus size: 166
4846531 TTGTAAACTT
*
4846541 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAGCGGCGTTTTAATAAAAACGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTTAATAAAAACGCC
* * * *
4846606 ACTAAAGTACGAGTCTTTAGCGGCGTTTTTATAAAAACGCCACTAAAGTA-TGAGTCTTTAGCGG
66 ACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-ACTCTTTAGCGG
4846670 CGTTTGTAT-AAAAACGCCACTAAATTATGAGTCTTTA
130 CGTTTGT-TGAAAAACGCCACTAAATTATGAGTCTTTA
*
4846707 GCGGTGTTTGTAAACACAAACGCCACTATAGTACATA-TGTATAACGGCGTTTGT-ATAAAAACG
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACA-AGTGTATAACGGCGTTT-TAATAAAAACG
* * *
4846770 CCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATGCCACTAAAGTACTACTCTTTTGCG
64 CCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTAGCG
*
4846835 GCGTTTGTTGAAAAATGCCACTA
129 GCGTTTGTTGAAAAACGCCACTA
4846858 TCTATGAACC
Statistics
Matches: 137, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
165 1 0.01
166 133 0.97
167 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (166 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTTAATAAAAACGCC
ACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTTTAGCGGC
GTTTGTTGAAAAACGCCACTAAATTATGAGTCTTTA
Done.