Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007754.1 Hibiscus syriacus cultivar Beakdansim tig00110020_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: 3698414
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 15
Found at i:2067078 original size:33 final size:33
Alignment explanation
Indices: 2067033--2067147 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2067023 TCTTTTGGTT
2067033 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2067066 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2067099 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2067132 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2067148 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2067079 original size:19 final size:18
Alignment explanation
Indices: 2067040--2067152 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2067030 GTTGAAATGA
2067040 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2067055 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2067072 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2067088 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2067105 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2067121 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2067138 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2067153 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2067183 original size:14 final size:14
Alignment explanation
Indices: 2067164--2067218 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2067154 TTTGGTTTCG
2067164 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2067178 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2067197 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2067211 CGTTGCGA
1 CGTTGCGA
2067219 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2067381 original size:33 final size:33
Alignment explanation
Indices: 2067339--2067409 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2067329 AATACTAACT
2067339 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
2067372 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
2067405 TGAAA
1 TGAAA
2067410 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:2067643 original size:22 final size:22
Alignment explanation
Indices: 2067591--2067645 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2067581 TGGTTGTGAG
**
2067591 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
2067613 GAAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2067635 GGATTTCTTCG
1 GGATTTCTTCG
2067646 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.38, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2067816 original size:20 final size:20
Alignment explanation
Indices: 2067791--2067984 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2067781 CTTTAAATAT
2067791 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2067811 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2067833 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2067852 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2067872 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2067892 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2067912 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2067932 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2067952 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2067972 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2067985 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2067978 original size:60 final size:60
Alignment explanation
Indices: 2067791--2067984 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2067781 CTTTAAATAT
**
2067791 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2067852 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2067912 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2067972 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2067985 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2068001 original size:21 final size:20
Alignment explanation
Indices: 2067977--2068053 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2067967 ATATTCGCGT
2067977 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2067998 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2068018 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2068040 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2068054 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2068064 original size:20 final size:20
Alignment explanation
Indices: 2068039--2068090 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2068029 AAGAATCGCG
*
2068039 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2068059 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2068079 TTGCGATTCTGG
1 TTGCGATTCTGG
2068091 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2073960 original size:2 final size:2
Alignment explanation
Indices: 2073953--2073979 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2073943 CCCAAAATCA
2073953 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2073980 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2076099 original size:2 final size:2
Alignment explanation
Indices: 2076092--2076132 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2076082 CCATCCATCC
2076092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2076133 GTATGGTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2076824 original size:25 final size:25
Alignment explanation
Indices: 2076795--2076852 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
2076785 AGAGAGTATA
2076795 TGAGATGAGACAGAACAACGAGCAG
1 TGAGATGAGACAGAACAACGAGCAG
2076820 TGAGATGAGACAGAACAACGAGCAG
1 TGAGATGAGACAGAACAACGAGCAG
2076845 TGAGATGA
1 TGAGATGA
2076853 AGAAAACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.43, C:0.14, G:0.33, T:0.10
Consensus pattern (25 bp):
TGAGATGAGACAGAACAACGAGCAG
Found at i:2081345 original size:24 final size:24
Alignment explanation
Indices: 2081285--2081364 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
2081275 TTATGTTATT
* *
2081285 ATACATGACCTGAATTCTGATCTG
1 ATACATGACATGGATTCTGATCTG
2081309 ATAC-TGACATGGATTCTGATCTG
1 ATACATGACATGGATTCTGATCTG
*
2081332 ATACATGACATGGATTATGATCTG
1 ATACATGACATGGATTCTGATCTG
*
2081356 ATACTTGAC
1 ATACATGAC
2081365 CTGAATTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.41
24 30 0.59
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (24 bp):
ATACATGACATGGATTCTGATCTG
Found at i:2081381 original size:24 final size:24
Alignment explanation
Indices: 2081285--2081374 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
2081275 TTATGTTATT
* *
2081285 ATACATGACCTGAATTCTGATCTG
1 ATACATGACATGAATTATGATCTG
* *
2081309 ATAC-TGACATGGATTCTGATCTG
1 ATACATGACATGAATTATGATCTG
*
2081332 ATACATGACATGGATTATGATCTG
1 ATACATGACATGAATTATGATCTG
* *
2081356 ATACTTGACCTGAATTATG
1 ATACATGACATGAATTATG
2081375 TTTTGATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 21 0.36
24 38 0.64
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (24 bp):
ATACATGACATGAATTATGATCTG
Found at i:2084641 original size:18 final size:18
Alignment explanation
Indices: 2084618--2084659 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
2084608 AATCTAGAGC
2084618 ATTTTAAGTTGCAATTAA
1 ATTTTAAGTTGCAATTAA
2084636 ATTTTAAGTTGCAATTAA
1 ATTTTAAGTTGCAATTAA
2084654 ACTTTT
1 A-TTTT
2084660 TATTAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (18 bp):
ATTTTAAGTTGCAATTAA
Found at i:2085580 original size:26 final size:26
Alignment explanation
Indices: 2085533--2085582 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2085523 GATAATAATT
*
2085533 TTTTTAAAAATATATGAAATTTATAA
1 TTTTTAAAAATATATAAAATTTATAA
*
2085559 TTTTTAAAATTATA-AAATATTTAT
1 TTTTTAAAAATATATAAA-ATTTAT
2085583 TATCATCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTTAAAAATATATAAAATTTATAA
Found at i:2085709 original size:337 final size:333
Alignment explanation
Indices: 2085100--2085925 Score: 1225
Period size: 337 Copynumber: 2.5 Consensus size: 333
2085090 TATATTTTAA
* * *
2085100 AAAAATTATTGAATAATAATTCATTTAATCCCTAAATCATAATTAAAAGTTTATTTTAATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTAAATTATAATTAAAAGTTTATTTTAATATTTT
* **
2085165 TATATTTTTAAACAATTAAATTTAAAAGGCAAT-ATTTTTTTCAAAAATATATGAAATTTATAAT
66 TATATTTTTAAACAATTAATTTTAAAAGAAAATAATTTTTTT-AAAAATATATGAAATTTATAAT
* * *
2085229 TTTTTAAATTATAAAATA--T-TTATCATTGTCATCATCATTTTGTAAAATAAATAATAGTTATA
130 TTTTAAAATTATAAAATATTTATTATCATTATCATCATCATTTTGTAAAAGAAATAATAGTTATA
* *
2085291 AAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTTATATACTATATTAT
195 AAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCATATACTAGATTAT
* * ** * *
2085356 ATGTATTGTGTAATTTTAATGAAAAAATTTAAATAATTTTATTAAAAATGAATAAATATTATTAA
260 ACGTATTGTATAATTTTAATGAAAAAATCAAAATAATTTTATT-AAAATAAATAAACATTATTAA
2085421 CTGTTG-T-T
324 CTGTTGTTAT
*
2085429 AAAAATTAATGAATAATAATTCATTTGATCCCTCAATTATAATTAAAAAGTTTATTTTAATATTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTAAATTATAATT-AAAAGTTTATTTTAATA-TT
* *
2085494 TTTATATTTTTAAACAATTAATTTTAATAGATAATAATTTTTTTAAAAATATATGAAATTTATAA
64 TTTATATTTTTAAACAATTAATTTTAAAAGAAAATAATTTTTTTAAAAATATATGAAATTTATAA
* *
2085559 TTTTTAAAATTATAAAATATTTATTATCATCATCATCATCATTATTTTGTAAAAGAAATACTAGT
129 TTTTTAAAATTATAAAATATTTATTATCAT--T-ATCATCATCATTTTGTAAAAGAAATAATAGT
*
2085624 TATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCCTATACTAGA
191 TATAAAACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCATATACTAGA
*
2085689 TTATACGTATTGTATAATTTTAATGCAAAAATCAAAATAATTTTATTAAAATAAATAAACATTAT
256 TTATACGTATTGTATAATTTTAATGAAAAAATCAAAATAATTTTATTAAAATAAATAAACATTAT
2085754 TAACTGTTGTTAAAAAAT
321 TAACTGTTGTT-----AT
* * * *
2085772 AAAAATTAATGAATAATAATTCAGTTGATCCCTTAATTGTAATTAAAAGTTTATTTTTATATTTT
1 AAAAATTAATGAATAATAATTCATTTGATCCCTAAATTATAATTAAAAGTTTATTTTAATATTTT
*
2085837 TATATTTTTAAACAATTAATTTTAAAAGAAAATAA-TTTTTTCAAAATATATGAAATTTATAATT
66 TATATTTTTAAACAATTAATTTTAAAAGAAAATAATTTTTTTAAAAATATATGAAATTTATAATT
*
2085901 TTTAAAATTATAAAAAATTTATTAT
131 TTTAAAATTATAAAATATTTATTAT
2085926 TATAAAAAAT
Statistics
Matches: 450, Mismatches: 31, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
329 40 0.09
330 17 0.04
331 72 0.16
332 8 0.02
333 1 0.00
334 7 0.02
336 26 0.06
337 132 0.29
340 52 0.12
341 37 0.08
342 16 0.04
343 42 0.09
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (333 bp):
AAAAATTAATGAATAATAATTCATTTGATCCCTAAATTATAATTAAAAGTTTATTTTAATATTTT
TATATTTTTAAACAATTAATTTTAAAAGAAAATAATTTTTTTAAAAATATATGAAATTTATAATT
TTTAAAATTATAAAATATTTATTATCATTATCATCATCATTTTGTAAAAGAAATAATAGTTATAA
AACTTTTATAAAATTATTCATATTTTAAAATACTTACCCTCAAAGTTTTCATATACTAGATTATA
CGTATTGTATAATTTTAATGAAAAAATCAAAATAATTTTATTAAAATAAATAAACATTATTAACT
GTTGTTAT
Found at i:2085912 original size:26 final size:27
Alignment explanation
Indices: 2085868--2085922 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
2085858 TTAAAAGAAA
**
2085868 ATAATTTTTTCAAAATATATGAAATTT
1 ATAATTTTTTCAAAATATAAAAAATTT
2085895 ATAA-TTTTT-AAAATTATAAAAAATTT
1 ATAATTTTTTCAAAA-TATAAAAAATTT
2085921 AT
1 AT
2085923 TATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 17 0.68
27 4 0.16
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
ATAATTTTTTCAAAATATAAAAAATTT
Found at i:2086864 original size:21 final size:21
Alignment explanation
Indices: 2086820--2086864 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2086810 GATTTCTGGG
* * *
2086820 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
2086841 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
2086862 CAA
1 CAA
2086865 ACGAACATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:2087816 original size:31 final size:31
Alignment explanation
Indices: 2087757--2087835 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
2087747 AAGAGTCGAG
*
2087757 AGTTTACCTATGTCTTTCGAGACATATGGAA
1 AGTTTACCTAGGTCTTTCGAGACATATGGAA
* * *
2087788 AGTTTACCTAGGT-TCTTCGGGACCTATGGAC
1 AGTTTACCTAGGTCT-TTCGAGACATATGGAA
*
2087819 AG-TTACCGAGGATCTTT
1 AGTTTACCTAGG-TCTTT
2087836 ATGACCTCTG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 9 0.22
31 30 0.75
32 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (31 bp):
AGTTTACCTAGGTCTTTCGAGACATATGGAA
Found at i:2087842 original size:30 final size:30
Alignment explanation
Indices: 2087808--2088026 Score: 395
Period size: 30 Copynumber: 7.3 Consensus size: 30
2087798 GGTTCTTCGG
*
2087808 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2087838 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2087868 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2087898 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2087928 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2087958 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
2087988 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
2088017 GACCTCTGGA
1 GACCTCTGGA
2088027 TAGGTCCTTC
Statistics
Matches: 185, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
29 18 0.10
30 167 0.90
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:2090113 original size:122 final size:126
Alignment explanation
Indices: 2089889--2090134 Score: 403
Period size: 122 Copynumber: 2.0 Consensus size: 126
2089879 TGTCAATTGG
*
2089889 GATTTAATTTTATTTATGTTTTATTACTGACATGATAATTATATCATCTTACGCTATTCTATAAA
1 GATTTAATTTTATTTATGTTTTATTACTGACATGATAATTATATCATC-TACGATATTCTATAAA
2089954 AAATAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATATTTGC
65 AAATAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATATTTGC
* * *
2090016 GATTTAATTTTATTTATGTTTTATTATTGACATGATAA-T-TA-CATC-ATGATGTTCTAT-AAA
1 GATTTAATTTTATTTATGTTTTATTACTGACATGATAATTATATCATCTACGATATTCTATAAAA
2090076 AATCAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATATT
66 AAT-AATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATATT
2090135 GTATCACGTT
Statistics
Matches: 114, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
121 6 0.05
122 64 0.56
124 4 0.04
125 2 0.02
126 1 0.01
127 37 0.32
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (126 bp):
GATTTAATTTTATTTATGTTTTATTACTGACATGATAATTATATCATCTACGATATTCTATAAAA
AATAATTTTAAAAATTATATATTTTTATAAATTTAAAATTATTTTCTGATATAATATTTGC
Found at i:2090519 original size:5 final size:5
Alignment explanation
Indices: 2090511--2090544 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
2090501 TTAAAATTAA
2090511 ATATT ATATT ATATT ATATT AATATT -TATT ATAT
1 ATATT ATATT ATATT ATATT -ATATT ATATT ATAT
2090545 ATCTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:2090571 original size:6 final size:7
Alignment explanation
Indices: 2090549--2090574 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2090539 TTATATATCT
2090549 AAATTAA
1 AAATTAA
2090556 AAATTAA
1 AAATTAA
2090563 AAATTAA
1 AAATTAA
2090570 AAATT
1 AAATT
2090575 TTAAAATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAA
Found at i:2095066 original size:16 final size:15
Alignment explanation
Indices: 2095021--2095067 Score: 71
Period size: 14 Copynumber: 3.2 Consensus size: 15
2095011 TTTAATATAA
2095021 AAATAAAATGT-TAG
1 AAATAAAATGTCTAG
2095035 AAATAAAATG-CTAG
1 AAATAAAATGTCTAG
2095049 AAATAAAATGCTCTAG
1 AAATAAAATG-TCTAG
2095065 AAA
1 AAA
2095068 GAAATGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 23 0.77
16 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.13, T:0.23
Consensus pattern (15 bp):
AAATAAAATGTCTAG
Found at i:2101769 original size:13 final size:13
Alignment explanation
Indices: 2101748--2101787 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2101738 AGAAAACACA
2101748 AAGAAAAGAGAGG
1 AAGAAAAGAGAGG
*
2101761 AAGATAAGAGAGG
1 AAGAAAAGAGAGG
*
2101774 AAGCAAAGGAGAGG
1 AAG-AAAAGAGAGG
2101788 GAAGTGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.55, C:0.03, G:0.40, T:0.03
Consensus pattern (13 bp):
AAGAAAAGAGAGG
Found at i:2104491 original size:20 final size:20
Alignment explanation
Indices: 2104453--2104491 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2104443 ATTCAATATT
*
2104453 ATTAAAAAAAATGTGTCTTA
1 ATTAAAAAAAATGTATCTTA
* *
2104473 ATTAAAACAAATTTATCTT
1 ATTAAAAAAAATGTATCTT
2104492 TTAATTTGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTAAAAAAAATGTATCTTA
Found at i:2104778 original size:23 final size:23
Alignment explanation
Indices: 2104752--2104799 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2104742 CGGTGTGACA
*
2104752 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
2104775 ATAATGTAATAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
2104798 AT
1 AT
2104800 TGACATATTT
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:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:2105498 original size:182 final size:182
Alignment explanation
Indices: 2105188--2106002 Score: 1269
Period size: 182 Copynumber: 4.5 Consensus size: 182
2105178 TTTTTACTAT
* *
2105188 CGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATTGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* * * *
2105253 ATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTATTTTCTTTTAAATTCCAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGT
*
2105318 CGATACTTATAATAAAGTATCGACACTATCAACATAT-TCGGTAGCTCTTTAC
131 CGATACTTATAATAAAGTATCGACACTATCAACATATCT-GGTAGCGCTTTAC
*
2105370 CGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
2105435 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGT
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGT
** *
2105500 CGATACTTATAATAAAGTATTAACACTATCAACATATCTGGTAGCTCTTTAC
131 CGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTAC
* * *
2105552 CGGTTTTGTCATTTCGAGACC-AGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATA
1 CGGTTTTGTCATTTCGAGACCGA-TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATA
* *
2105616 TATTTTTATAAAGTATCGACACTTTATTAGCGTTATAACTTCTTCTCTTTTAAATT-TCAAAAGT
65 CATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCT-AAAAGT
*
2105680 GTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTAC
129 GTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTAC
* ** * * * *
2105734 CTGTTTTGTCATTTATAGAACGGTTTTGTCATTTTTTTACCTGTTTTATTGTTATGGATCGATAC
1 CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
* *
2105799 ATTTTTATTAAGTATCGACACTTTATTAGCGCTATAACTTTTTTCTCTTTTAAATTCTAAAAGTG
66 ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAAC-TTCTTCTCTTTTAAATTCTAAAAGTG
2105864 TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTAC
130 TCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTAC
* ** * * * *
2105917 CTGTTTTGTCATTTATAGATCGGTTTTGTCAT-TTTTTACCTGTTTTATTGTTATGGATTGATAC
1 CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
2105981 ATTTTTATAAAGTATCGACACT
66 ATTTTTATAAAGTATCGACACT
2106003 ATCAACATAT
Statistics
Matches: 592, Mismatches: 35, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
181 2 0.00
182 482 0.81
183 107 0.18
184 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
CGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATAC
ATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGT
CGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTAC
Found at i:2105779 original size:20 final size:20
Alignment explanation
Indices: 2105729--2105780 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
2105719 CCGGTAGCGC
2105729 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTTGTCATTTA
** * * *
2105749 TAGAACGGTTTTGTCATTTT
1 TTTACCTGTTTTGTCATTTA
2105769 TTTACCTGTTTT
1 TTTACCTGTTTT
2105781 ATTGTTATGG
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.58
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATTTA
Found at i:2106365 original size:110 final size:111
Alignment explanation
Indices: 2105876--2106373 Score: 757
Period size: 111 Copynumber: 4.5 Consensus size: 111
2105866 GATACTTATA
* * * *
2105876 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
2105941 TTTGTCATTTTTTACCTGTTTTATTGTTATGGATTGATACATTTTT
66 TTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
* * *
2105987 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2106052 TTTGTCATTTTTTACATATTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
* * *
2106098 ATAAAGTATTGACACTTTAAATATATCCGGTAGCGCTTTACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
2106163 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
66 TTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
* * *
2106209 ATAAAGTATCGTCACTTTCAATATATCCGGTAGCG-TGTTACATGTTTTGTCATTTATACACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCT-TTACCTGTTTTGTCATTTATAGACCGG
* *
2106273 TTTTGTCATTTTTTACATGTTATATT-TTTTGGATAGATACATTTTT
65 TTTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
* *
2106319 ATAAAGTATCGACACTTTCAATATATCCAGTAGTGCTTTACCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
2106374 TTTTACTTGT
Statistics
Matches: 358, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
110 67 0.19
111 291 0.81
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
Found at i:2118154 original size:20 final size:20
Alignment explanation
Indices: 2118129--2118166 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2118119 AAGGTCTAAG
2118129 TTGATATTTACCCATATAAA
1 TTGATATTTACCCATATAAA
*
2118149 TTGATATTTGCCCATATA
1 TTGATATTTACCCATATA
2118167 TTTTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (20 bp):
TTGATATTTACCCATATAAA
Found at i:2126820 original size:18 final size:18
Alignment explanation
Indices: 2126797--2126841 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
2126787 ACCGGTCACA
2126797 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
2126815 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
2126833 ACTCGACCC
1 ACCCGACCC
2126842 ATTTACCGTT
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:0.18, C:0.51, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:2126857 original size:15 final size:15
Alignment explanation
Indices: 2126837--2126870 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2126827 CCGTTGACTC
*
2126837 GACCCATTTACCGTT
1 GACCCATTGACCGTT
2126852 GACCCATTGACCGTT
1 GACCCATTGACCGTT
2126867 GACC
1 GACC
2126871 GGCGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:2128203 original size:18 final size:18
Alignment explanation
Indices: 2128177--2128212 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2128167 TCGAAAGGAC
*
2128177 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
2128195 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
2128213 CGGATGGCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:2129382 original size:12 final size:12
Alignment explanation
Indices: 2129367--2129436 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
2129357 GATACATTAC
2129367 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2129379 CTGATTTCTGAT
1 CTGAATTCTGTT
*
2129391 CTGGATTCTGTT
1 CTGAATTCTGTT
*
2129403 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
2129415 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
2129427 TTGATTTCTG
1 CTGAATTCTG
2129437 ATATCTCCGT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 43 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:2129398 original size:24 final size:24
Alignment explanation
Indices: 2129367--2129438 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
2129357 GATACATTAC
2129367 CTGAATTCTGTTCTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
* *
2129391 CTGGATTCTGTTCTGATATCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
*
2129415 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
2129439 ATCTCCGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTCTGATTTCTGAT
Found at i:2131224 original size:27 final size:27
Alignment explanation
Indices: 2131194--2131253 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
2131184 CTCTACCTCT
2131194 ATCACCCCTACCTCCATAGCCTCCACG
1 ATCACCCCTACCTCCATAGCCTCCACG
*
2131221 ATCACCTCTACCTCCATAGCCTCCACG
1 ATCACCCCTACCTCCATAGCCTCCACG
2131248 ATCACC
1 ATCACC
2131254 ACCTCTACCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.50, G:0.07, T:0.20
Consensus pattern (27 bp):
ATCACCCCTACCTCCATAGCCTCCACG
Found at i:2131330 original size:33 final size:33
Alignment explanation
Indices: 2131293--2131360 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
2131283 ATCTGCCCCA
*
2131293 TCCTCTATCTG-ATCTACCTCTACCCCGAAAGCC
1 TCCTCCATCTGAATC-ACCTCTACCCCGAAAGCC
* * *
2131326 TCCTCCATCTGAATCCCCTCTACCTCTAAAGCC
1 TCCTCCATCTGAATCACCTCTACCCCGAAAGCC
2131359 TC
1 TC
2131361 TACCTGAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.21, C:0.44, G:0.07, T:0.28
Consensus pattern (33 bp):
TCCTCCATCTGAATCACCTCTACCCCGAAAGCC
Found at i:2133141 original size:2 final size:2
Alignment explanation
Indices: 2133128--2133157 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2133118 TGTGAATGTT
*
2133128 TG TG TT TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2133158 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:2133162 original size:2 final size:2
Alignment explanation
Indices: 2133157--2133187 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2133147 GTGTGTGTGT
2133157 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2133188 GGGGGGAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2140925 original size:38 final size:37
Alignment explanation
Indices: 2140855--2140947 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 37
2140845 ACTTTGCATG
* *
2140855 ATATGTATATCT-TATATGGAAAAAAATTAAGAGATAT
1 ATATGTATAT-TGTATATGAAAAAAAATTAAGAGATAC
2140892 ATATGTATATTGTATATGAAAAAAATATTAAGAGATAC
1 ATATGTATATTGTATATGAAAAAAA-ATTAAGAGATAC
*
2140930 ATATGTATATCGTATATG
1 ATATGTATATTGTATATG
2140948 GTTATAGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 1 0.02
37 22 0.43
38 28 0.55
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (37 bp):
ATATGTATATTGTATATGAAAAAAAATTAAGAGATAC
Found at i:2152386 original size:2 final size:2
Alignment explanation
Indices: 2152379--2152410 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2152369 CTCTGTTTGT
2152379 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2152411 TTAGGCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2156567 original size:11 final size:12
Alignment explanation
Indices: 2156530--2156579 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
2156520 ATTCTTGACT
2156530 ATATTTAAATCTA
1 ATATTTAAAT-TA
* * *
2156543 AAAATTAAA-AA
1 ATATTTAAATTA
2156554 ATATTT-AATTA
1 ATATTTAAATTA
2156565 ATATTTAAATTA
1 ATATTTAAATTA
2156577 ATA
1 ATA
2156580 ATTACCTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
10 2 0.07
11 12 0.41
12 8 0.28
13 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTTAAATTA
Found at i:2157099 original size:14 final size:14
Alignment explanation
Indices: 2157051--2157164 Score: 70
Period size: 14 Copynumber: 8.8 Consensus size: 14
2157041 TTGATTTTGA
2157051 TTTTAATATTAATAT
1 TTTTAATATTAAT-T
2157066 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
2157076 ATTAAATATTAATT
1 TTTTAATATTAATT
*
2157090 TTTTAATATT-ATA
1 TTTTAATATTAATT
*
2157103 TTATAGATATTAA--
1 TTTTA-ATATTAATT
*
2157116 TTTTAATATTGATT
1 TTTTAATATTAATT
2157130 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
2157140 ATTAAATATTAATT
1 TTTTAATATTAATT
2157154 TTTTAATATTA
1 TTTTAATATTA
2157165 TATTATAGAT
Statistics
Matches: 74, Mismatches: 13, Indels: 25
0.66 0.12 0.22
Matches are distributed among these distances:
10 8 0.11
11 2 0.03
12 14 0.19
13 14 0.19
14 29 0.39
15 7 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:2157131 original size:40 final size:36
Alignment explanation
Indices: 2157080--2157164 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 36
2157070 AAATAAATTA
*
2157080 AATATTAATTTTTTAATATTATATTATAGATATTAATTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAATTTT
*
2157120 AATATTGATTTTTTAAATAAATTAAATATTAATTTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAA--TTTT
2157158 AATATTA
1 AATATTA
2157165 TATTATAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 7 0.17
37 1 0.03
38 16 0.40
39 1 0.03
40 15 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (36 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTT
Found at i:2157182 original size:65 final size:66
Alignment explanation
Indices: 2157028--2157185 Score: 256
Period size: 64 Copynumber: 2.5 Consensus size: 66
2157018 TTATATTTAA
*
2157028 TTTT-ATATTATATT-T-GAT-TTTGATTTTAATATTAATATTTTTAAATAAATTAAATATTAAT
1 TTTTAATATTATATTATAGATATTTAATTTTAATATTAATATTTTTAAATAAATTAAATATTAAT
2157089 T
66 T
*
2157090 TTTTAATATTATATTATAGATA-TTAATTTTAATATTGAT-TTTTTAAATAAATTAAATATTAAT
1 TTTTAATATTATATTATAGATATTTAATTTTAATATTAATATTTTTAAATAAATTAAATATTAAT
2157153 T
66 T
2157154 TTTTAATATTATATTATAGATATTTAATTTTA
1 TTTTAATATTATATTATAGATATTTAATTTTA
2157186 TATCATATAA
Statistics
Matches: 89, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
62 4 0.04
63 10 0.11
64 48 0.54
65 27 0.30
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (66 bp):
TTTTAATATTATATTATAGATATTTAATTTTAATATTAATATTTTTAAATAAATTAAATATTAAT
T
Found at i:2157240 original size:20 final size:19
Alignment explanation
Indices: 2157180--2157241 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
2157170 TAGATATTTA
*
2157180 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
2157199 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
2157217 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
2157237 ATTTT
1 ATTTT
2157242 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:2157473 original size:20 final size:22
Alignment explanation
Indices: 2157448--2157495 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
2157438 AAATAATCAT
2157448 AAAATAATTTGAT-AAATTA-A
1 AAAATAATTTGATAAAATTATA
**
2157468 AAAAT-ATTTTCTAAAATTATA
1 AAAATAATTTGATAAAATTATA
2157489 AAAATAA
1 AAAATAA
2157496 ATTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 5 0.22
20 11 0.48
21 6 0.26
22 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATAATTTGATAAAATTATA
Found at i:2160630 original size:16 final size:16
Alignment explanation
Indices: 2160589--2160634 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
2160579 CTCTAAAAAT
*
2160589 TTTAAATTTTTATATAA
1 TTTATATTTTTA-ATAA
2160606 TTTAT-TTTTTAATAA
1 TTTATATTTTTAATAA
*
2160621 TTTTTATTTTTAAT
1 TTTATATTTTTAAT
2160635 CACTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 14 0.54
17 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTTTTAATAA
Found at i:2164887 original size:14 final size:15
Alignment explanation
Indices: 2164859--2164887 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2164849 TAATATTTAA
2164859 ATATAAAATAATAAT
1 ATATAAAATAATAAT
2164874 ATATAAAA-AATAAT
1 ATATAAAATAATAAT
2164888 TTTAGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAATAATAAT
Found at i:2165779 original size:11 final size:11
Alignment explanation
Indices: 2165747--2165781 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2165737 CGATGATAAC
*
2165747 TAAGCTTAAGG
1 TAAGCTTAAGT
*
2165758 AAAGCTTAAGT
1 TAAGCTTAAGT
2165769 TAAGCTTAAGT
1 TAAGCTTAAGT
2165780 TA
1 TA
2165782 TCTTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (11 bp):
TAAGCTTAAGT
Found at i:2167698 original size:18 final size:18
Alignment explanation
Indices: 2167655--2167765 Score: 132
Period size: 18 Copynumber: 5.9 Consensus size: 18
2167645 AGGGATTATC
* *
2167655 AGTGGTCCTTCGAGACAAAC
1 AGTGGTCCTTCGGGAC--AT
2167675 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
2167693 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
2167712 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
2167731 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
2167749 AGTGGTCTTTCGGGACA
1 AGTGGTCCTTCGGGACA
2167766 AATATTCAGT
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
18 49 0.60
19 4 0.05
20 29 0.35
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2167716 original size:38 final size:38
Alignment explanation
Indices: 2167655--2167765 Score: 140
Period size: 38 Copynumber: 3.0 Consensus size: 38
2167645 AGGGATTATC
* *
2167655 AGTGGTCCTTC-GAGACAAACAGTGGTCCTTCGGGACAT
1 AGTGGTTCTTCGGA-ACAATCAGTGGTCCTTCGGGACAT
2167693 AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
1 AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
* *
2167731 AGTGG-TCTTTCGGGAC-AT-AGTGGTCTTTCGGGACA
1 AGTGGTTC-TTCGGAACAATCAGTGGTCCTTCGGGACA
2167766 AATATTCAGT
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
36 16 0.24
37 4 0.06
38 45 0.67
39 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (38 bp):
AGTGGTTCTTCGGAACAATCAGTGGTCCTTCGGGACAT
Found at i:2171339 original size:23 final size:24
Alignment explanation
Indices: 2171312--2171367 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 24
2171302 TGAACCTATG
2171312 AATATTATTAACAAATTAATTAAA
1 AATATTATTAACAAATTAATTAAA
*
2171336 ATATATTTTATTAAGAAATTAATT-AA
1 A-ATA--TTATTAACAAATTAATTAAA
2171362 AATATT
1 AATATT
2171368 GAATTCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 1 0.04
25 6 0.21
26 3 0.11
27 16 0.57
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATTATTAACAAATTAATTAAA
Found at i:2172120 original size:20 final size:20
Alignment explanation
Indices: 2172095--2172153 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
2172085 TAAAAGTTAT
2172095 AATATAATATCAAATGATCA
1 AATATAATATCAAATGATCA
*
2172115 AATAT-A-ATC-TAT-A-CA
1 AATATAATATCAAATGATCA
2172130 AA-ATAATATCAAATGTATCA
1 AATATAATATCAAATG-ATCA
2172150 AATA
1 AATA
2172154 AGATTCTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
14 2 0.07
15 5 0.17
16 4 0.13
17 4 0.13
18 3 0.10
19 2 0.07
20 9 0.30
21 1 0.03
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
AATATAATATCAAATGATCA
Found at i:2173812 original size:21 final size:22
Alignment explanation
Indices: 2173787--2173828 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2173777 TAATTTTTAG
2173787 AATAT-ATTTAAATGTATTAAC
1 AATATAATTTAAATGTATTAAC
**
2173808 AATATAATTTCTATGTATTAA
1 AATATAATTTAAATGTATTAA
2173829 ATAAATACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
AATATAATTTAAATGTATTAAC
Found at i:2173891 original size:2 final size:2
Alignment explanation
Indices: 2173884--2173911 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2173874 TTTTTAAAAG
2173884 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
2173912 TAATAATAAA
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:2178275 original size:23 final size:24
Alignment explanation
Indices: 2178237--2178281 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2178227 CTTCTCTTCT
*
2178237 TTCCCTGCCATTCTTTACAAACAA
1 TTCCCTGCCATTCTTTAAAAACAA
*
2178261 TTCCCTTCC-TTCTTTAAAAAC
1 TTCCCTGCCATTCTTTAAAAAC
2178282 CTGCATACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.33, G:0.02, T:0.38
Consensus pattern (24 bp):
TTCCCTGCCATTCTTTAAAAACAA
Found at i:2179330 original size:22 final size:22
Alignment explanation
Indices: 2179303--2179350 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
2179293 TACAATAAAA
*
2179303 CATACATTATTTTACTATTTAT
1 CATACATTATTTTACTATTAAT
2179325 CATACATTATTTTACTATTAAT
1 CATACATTATTTTACTATTAAT
2179347 CATA
1 CATA
2179351 TTGCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (22 bp):
CATACATTATTTTACTATTAAT
Found at i:2186440 original size:45 final size:45
Alignment explanation
Indices: 2186332--2186442 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
2186322 TGGAGCTCTA
* * *
2186332 CCTCCACTTCCTAGCAGGCCAACATTGCCTACCATGCCATCCATC
1 CCTCCACTTCCTAGCATGCCAACAATGCCAACCATGCCATCCATC
* * *
2186377 CCTCCACTCCCTAGCATGCCGACAATGCCAACCATGTCATCCATC
1 CCTCCACTTCCTAGCATGCCAACAATGCCAACCATGCCATCCATC
* *
2186422 CCTCCGCTTCCTACCATGCCA
1 CCTCCACTTCCTAGCATGCCA
2186443 TCCATCCCCA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.22, C:0.46, G:0.11, T:0.22
Consensus pattern (45 bp):
CCTCCACTTCCTAGCATGCCAACAATGCCAACCATGCCATCCATC
Found at i:2188762 original size:18 final size:18
Alignment explanation
Indices: 2188736--2188770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2188726 GCTCTACCTC
* *
2188736 CATTTCCTAGCATGCCAA
1 CATTGCCTACCATGCCAA
2188754 CATTGCCTACCATGCCA
1 CATTGCCTACCATGCCA
2188771 TCCATCCCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (18 bp):
CATTGCCTACCATGCCAA
Found at i:2189519 original size:6 final size:6
Alignment explanation
Indices: 2189508--2190034 Score: 961
Period size: 6 Copynumber: 89.8 Consensus size: 6
2189498 TAGGTCACAC
2189508 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189556 TATATG TATATG TATATG TATATG TATATG TATATG --TATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189602 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189650 TATATG --TATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189696 TATATG TATATG --TATG TATATG TATATG TATATG TATATG --TATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189740 TATATG TATATG TATATG TATATG TATATG --TATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189786 --TATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189832 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189880 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189928 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2189976 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
2190024 TATATG CATAT
1 TATATG TATAT
2190035 CCCTCCACAA
Statistics
Matches: 508, Mismatches: 1, Indels: 24
0.95 0.00 0.05
Matches are distributed among these distances:
4 24 0.05
6 484 0.95
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:2190291 original size:20 final size:19
Alignment explanation
Indices: 2190244--2190296 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
2190234 TTTATAATTT
*
2190244 TTAATTAAATAAATATTTA
1 TTAATTAAATAAATATGTA
* * *
2190263 CTAAATAAATATTATATGTA
1 TTAATTAAATA-AATATGTA
2190283 TTAATTAAAATAAA
1 TTAATT-AAATAAA
2190297 ATTAGAGAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
19 9 0.36
20 11 0.44
21 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TTAATTAAATAAATATGTA
Found at i:2193497 original size:144 final size:144
Alignment explanation
Indices: 2193232--2193505 Score: 440
Period size: 144 Copynumber: 1.9 Consensus size: 144
2193222 ACATCGAACT
* * * * *
2193232 TCAGTTTCTATCGGTCCCTTGGACTCGAGTTCTGGCCATTTGATATTGCTCGCCTTCTCCCTTGT
1 TCAGATTCTATCGGTCCCTTGGACTCGAGTTCTGGCCAATTAAAATCGCTCGCCTTCTCCCTTGT
* *
2193297 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACTGGTGGAGCAGGACATCGAA
66 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGAA
2193362 TTGGCTTATGAGGC
131 TTGGCTTATGAGGC
* * *
2193376 TCAGATTCTATCGTTCTCTTGGACTCGAGTTCTGGCCAATTAAAATCGCTTGCCTTCTCCCTTGT
1 TCAGATTCTATCGGTCCCTTGGACTCGAGTTCTGGCCAATTAAAATCGCTCGCCTTCTCCCTTGT
* *
2193441 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGGCGGTACCGATGGAGCAGGACATCGAA
66 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGAA
2193506 CCGACTTCTG
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 118 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (144 bp):
TCAGATTCTATCGGTCCCTTGGACTCGAGTTCTGGCCAATTAAAATCGCTCGCCTTCTCCCTTGT
TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGAA
TTGGCTTATGAGGC
Found at i:2193563 original size:144 final size:144
Alignment explanation
Indices: 2193232--2193583 Score: 390
Period size: 144 Copynumber: 2.4 Consensus size: 144
2193222 ACATCGAACT
* * * * ** * * * *
2193232 TCAGTTTCTATCGGTCCCTTGGACTCGAGTTCTGGCCATTTGATATTGCTCGCCTTCTCCCTTGT
1 TCAGATTCTATCGTTCTCTTGGACTCGAATTCTAACCAATTAAAACTGCTCGCCTTCTCCCTTGT
* *
2193297 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACTGGTGGAGCAGGACATCGAA
66 TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGAA
** *
2193362 TTGGCTTATGAGGC
131 CCGACTTATGAGGC
* ** *
2193376 TCAGATTCTATCGTTCTCTTGGACTCGAGTTCTGGCCAATTAAAA-TCGCTTGCCTTCTCCCTTG
1 TCAGATTCTATCGTTCTCTTGGACTCGAATTCTAACCAATTAAAACT-GCTCGCCTTCTCCCTTG
* *
2193440 TTATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGGCGGTACCGATGGAGCAGGACATCGA
65 TTATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGA
*
2193505 ACCGACTTCTGAGGC
130 ACCGACTTATGAGGC
* * * *
2193520 TCTG-TTGC-ACTTGGTTC-CTTGGACTCGAATTGC-AACCACTTAAAACTGCTCGCCTTCTCTC
1 TCAGATT-CTA--TCGTTCTCTTGGACTCGAATT-CTAACCAATTAAAACTGCTCGCCTTCTCCC
2193581 TTG
62 TTG
2193584 CCGATTTGAA
Statistics
Matches: 179, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
143 4 0.02
144 168 0.94
145 7 0.04
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (144 bp):
TCAGATTCTATCGTTCTCTTGGACTCGAATTCTAACCAATTAAAACTGCTCGCCTTCTCCCTTGT
TATCTCATCAGGAATTGAACCAATGCTAGCAGATGCAGACGGCACCGATGGAGCAGGACATCGAA
CCGACTTATGAGGC
Found at i:2195983 original size:11 final size:11
Alignment explanation
Indices: 2195969--2196044 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
2195959 ATAACTTAAT
2195969 AATAATAATAA
1 AATAATAATAA
*
2195980 AATAATCATGAA
1 AATAATAAT-AA
*
2195992 GATAATAATTTAA
1 AATAATAA--TAA
2196005 ACAT-AT-ATCAA
1 A-ATAATAAT-AA
2196016 AAGTAATAATAA
1 AA-TAATAATAA
2196028 AATAA-AATAA
1 AATAATAATAA
2196038 TAATAAT
1 -AATAAT
2196045 TAAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
10 7 0.14
11 20 0.39
12 15 0.29
13 6 0.12
14 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:2196040 original size:16 final size:17
Alignment explanation
Indices: 2196014--2196073 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 17
2196004 AACATATATC
2196014 AAAAGTAATAATAAAAT
1 AAAAGTAATAATAAAAT
*
2196031 AAAA-TAATAAT-AATT
1 AAAAGTAATAATAAAAT
* *
2196046 AAAA-TGA-AAGAAAAT
1 AAAAGTAATAATAAAAT
2196061 AAAAGTAATAATA
1 AAAAGTAATAATA
2196074 TTAAAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 2 0.06
15 16 0.47
16 9 0.26
17 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (17 bp):
AAAAGTAATAATAAAAT
Found at i:2196061 original size:19 final size:19
Alignment explanation
Indices: 2196019--2196062 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2196009 ATATCAAAAG
*
2196019 TAATAATAAAATAAAATAA
1 TAATAATAAAATAAAAGAA
*
2196038 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAATAAAAGAA
2196058 -AATAA
1 TAATAA
2196063 AAGTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (19 bp):
TAATAATAAAATAAAAGAA
Found at i:2197408 original size:3 final size:3
Alignment explanation
Indices: 2197400--2197476 Score: 91
Period size: 3 Copynumber: 24.7 Consensus size: 3
2197390 TTATTTATTA
* *
2197400 AAT AAT AAT AAT ATAT AAT ATAT AAT ATT AAT AAT AAAT AAT AAT ACT
1 AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT
**
2197448 AAT AAT AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2197477 ATTTAAATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
3 54 0.86
4 9 0.14
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:2197895 original size:113 final size:113
Alignment explanation
Indices: 2197722--2198591 Score: 1127
Period size: 113 Copynumber: 7.6 Consensus size: 113
2197712 GTTCTTCTCA
* * ** *
2197722 TTCAGATGAATTATTCTCATTATGAACACTTT-TGGAAAAGCTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2197786 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
2197834 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
*
2197899 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCATT-
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
* * *** * * ** ** * * * *
2197945 ATGA-ATTTCTTCTTCCTTC-TTCA-GATAAGTTCTTCTCAT-TATGAACTTTTTC-TGGAAAAG
1 TTCAGATGAGTTCTT-C-TCATT-ATG--AACTT-TT-TC-TGGAAAAACTGATCCAT-CAGATG
* * * * * *
2198005 CT-GATCCATCAG-ATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAATTTCT
57 ATGGAT--TTGAGCA-AAAGG--TT--G-AAC---------AAATTCTTCTCATTATGAATTTCT
*
2198068 TCTTCATTC
105 TCTTCCTTC
* *
2198077 TTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2198142 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
2198190 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2198255 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
*
2198303 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2198368 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
*
2198416 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC--A-GATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2198478 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
2198526 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
1 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
2198591 A
66 A
2198592 ATCTTTGCTA
Statistics
Matches: 665, Mismatches: 54, Indels: 77
0.84 0.07 0.10
Matches are distributed among these distances:
110 115 0.17
111 7 0.01
112 36 0.05
113 393 0.59
114 6 0.01
115 14 0.02
116 7 0.01
118 2 0.00
120 1 0.00
121 2 0.00
122 2 0.00
123 1 0.00
125 2 0.00
127 7 0.01
128 13 0.02
129 6 0.01
130 30 0.05
131 8 0.01
132 6 0.01
133 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (113 bp):
TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTG
AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
Found at i:2197958 original size:130 final size:130
Alignment explanation
Indices: 2197804--2198075 Score: 508
Period size: 130 Copynumber: 2.1 Consensus size: 130
2197794 GTTGAACAAA
*
2197804 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTG
*
2197869 GAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAAT
2197934 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTG
*
2197999 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAAT
66 GAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAAT
2198064 TTCTTCTTCATT
1 TTCTTC-TCATT
2198076 CTTCAGATAA
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
130 133 0.96
131 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (130 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAAT
Found at i:2197959 original size:20 final size:17
Alignment explanation
Indices: 2197917--2197957 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
2197907 GTTGAACAAA
2197917 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAT
2197934 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAT
2197951 TTCTTCT
1 TTCTTCT
2197958 TCCTTCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.56
Consensus pattern (17 bp):
TTCTTCTCATTATGAAT
Found at i:2198215 original size:226 final size:226
Alignment explanation
Indices: 2197934--2198591 Score: 1241
Period size: 226 Copynumber: 2.9 Consensus size: 226
2197924 CATTATGAAT
*
2197934 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
2197999 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAAT
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
* *
2198064 TTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
2198129 GATGATGGATTTGAGCAAAAGGTTGAACAAA
196 GATGATGGATTTGAGCAAAAGGTTGAACAAA
2198160 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
2198225 GAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
2198290 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
2198355 GATGATGGATTTGAGCAAAAGGTTGAACAAA
196 GATGATGGATTTGAGCAAAAGGTTGAACAAA
2198386 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
2198451 GAAAAGCTGATCCATC--A-GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
2198513 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAACTGATCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
2198578 GATGATGGATTTGA
196 GATGATGGATTTGA
2198592 ATCTTTGCTA
Statistics
Matches: 425, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
223 123 0.29
224 1 0.00
226 301 0.71
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (226 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
GATGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:2198317 original size:339 final size:344
Alignment explanation
Indices: 2197722--2198591 Score: 1490
Period size: 339 Copynumber: 2.5 Consensus size: 344
2197712 GTTCTTCTCA
* **
2197722 TTCAGATGAA-TTATTCTCATTATGAACACTTT-TGGAAAAGCTGATCCATCAGATGATGGATTT
1 TTCAGAT-AAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTT
2197785 GAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
65 GAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
2197850 TCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACA
130 TCATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTG---A
2197915 AATTCTTCTCATTATGAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTC
192 AA------TC--TA-GAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTC
2197980 TCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACA
248 TCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACA
2198045 AATTCTTCTCATTATGAATTTCTTCTTCATTC
313 AATTCTTCTCATTATGAATTTCTTCTTCATTC
2198077 TTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
1 TTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
2198142 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
2198207 CATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTG-AA-C
131 CATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAAATC
*
2198270 -A-AA-TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
196 TAGAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTT
*
2198332 TTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATT
261 TTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATT
*
2198397 ATGAATTTCTTCTTCCTTC
326 ATGAATTTCTTCTTCATTC
*
2198416 TTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC--A-GATGGATTTG
1 TTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
2198478 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
66 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
2198543 CATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGA
131 CATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGA
2198592 ATCTTTGCTA
Statistics
Matches: 506, Mismatches: 7, Indels: 23
0.94 0.01 0.04
Matches are distributed among these distances:
336 124 0.25
337 1 0.00
339 190 0.38
340 2 0.00
342 1 0.00
345 1 0.00
352 2 0.00
354 2 0.00
355 26 0.05
356 157 0.31
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (344 bp):
TTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTG
AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTTTTCTGGAAAAACTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAAATC
TAGAATTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTT
TTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTAAACAAATTCTTCTCATT
ATGAATTTCTTCTTCATTC
Found at i:2199017 original size:22 final size:22
Alignment explanation
Indices: 2198992--2199046 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2198982 CATAAAGTTT
*
2198992 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
2199014 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
2199036 TCATCTTTGAA
1 TCATCTTTGAA
2199047 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:2199539 original size:54 final size:54
Alignment explanation
Indices: 2199418--2199618 Score: 218
Period size: 54 Copynumber: 3.8 Consensus size: 54
2199408 CACTGGTTCA
* * *
2199418 TAAAACATTTGACAATACATTCAT-CTTTTCATGTGGTTTCTG-TC-GAG-ATG
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGCTTCTGCTCAGAGTTTG
* * *
2199468 TAAAACACTTGACAACACATTCATCCGTTTC-TGTGGCTTCTGCTCAAATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGCTTCTGCTCAGA-GTTTG
* * * **
2199522 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGCTTCTGCTCAGA-GTTTG
* *
2199576 TAAAGCGTTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCATGTGGCTTCTGC
2199619 CAAGATTTCT
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
50 32 0.25
51 7 0.06
52 1 0.01
53 5 0.04
54 78 0.61
55 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCATGTGGCTTCTGCTCAGAGTTTG
Found at i:2199616 original size:108 final size:104
Alignment explanation
Indices: 2199418--2199618 Score: 278
Period size: 104 Copynumber: 1.9 Consensus size: 104
2199408 CACTGGTTCA
* * *
2199418 TAAAACATTTGACAATACATTCATCTTTTCATGTGGTTTCTGTCGAGATGTAAAACACTTGACAA
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
2199483 CACATTCATCCGTTTCTGTGGCTTCTGCTCAAATGTTTG
66 CACATTCATCCGTTTCTGTGGCTTCTGCTCAAATGTTTG
* * **
2199522 TAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTGCTC-AGACGTTCATAAAGCGTTT
1 TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTG-TCGAGACG-T-A-AAA-CACTT
*
2199586 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
61 GACAACACATTCATCCGTTTCTGTGGCTTCTGC
2199619 CAAGATTTCT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
104 42 0.50
105 3 0.04
106 1 0.01
107 3 0.04
108 35 0.42
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (104 bp):
TAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
CACATTCATCCGTTTCTGTGGCTTCTGCTCAAATGTTTG
Found at i:2207218 original size:14 final size:14
Alignment explanation
Indices: 2207170--2207221 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
2207160 TTGTGCAATA
* *
2207170 CAAATGCAAAGATG
1 CAAATGTAAAAATG
* *
2207184 CCAATGTAAATATG
1 CAAATGTAAAAATG
2207198 CAAATGTAAAAATG
1 CAAATGTAAAAATG
*
2207212 TAAATGTAAA
1 CAAATGTAAA
2207222 TTATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (14 bp):
CAAATGTAAAAATG
Found at i:2207383 original size:28 final size:26
Alignment explanation
Indices: 2207336--2207387 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
2207326 GATGTAAATT
*
2207336 TAAAAATGTAAATGTAAATACAAACG
1 TAAAAATGTAAATGCAAATACAAACG
2207362 TAAAAATGTACAAATGCAAATACAAA
1 TAAAAATGT--AAATGCAAATACAAA
2207388 TGCATGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (26 bp):
TAAAAATGTAAATGCAAATACAAACG
Found at i:2208809 original size:31 final size:31
Alignment explanation
Indices: 2208777--2208837 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2208767 GACAAATAAT
*
2208777 AAAATAAAATACTTGAAAAATAAAATGAAATA
1 AAAATAAAATACAT-AAAAATAAAATGAAATA
* * *
2208809 AAAATAATATACATATAAATAATATGAAA
1 AAAATAAAATACATAAAAATAAAATGAAA
2208838 AATAAGTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (31 bp):
AAAATAAAATACATAAAAATAAAATGAAATA
Found at i:2208828 original size:26 final size:27
Alignment explanation
Indices: 2208796--2208855 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
2208786 TACTTGAAAA
2208796 ATAAAATGAA-AT-AAAAATAA-TATAC
1 ATAAAAT-AATATGAAAAATAAGTATAC
*
2208821 ATATAAATAATATGAAAAATAAGTATAT
1 ATA-AAATAATATGAAAAATAAGTATAC
2208849 ATAAAAT
1 ATAAAAT
2208856 TTTGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 5 0.17
26 6 0.20
27 12 0.40
28 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (27 bp):
ATAAAATAATATGAAAAATAAGTATAC
Found at i:2209803 original size:19 final size:18
Alignment explanation
Indices: 2209762--2209804 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2209752 ATATCAAAAG
*
2209762 TAATAATAAAATAAATAA
1 TAATAATAAAATAAAGAA
2209780 TAATAATTAAAATGAAAGAA
1 TAATAA-TAAAAT-AAAGAA
2209800 -AATAA
1 TAATAA
2209805 AGTAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAATAATAAAATAAAGAA
Found at i:2211081 original size:3 final size:3
Alignment explanation
Indices: 2211073--2211130 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
2211063 TTATTTATTA
* *
2211073 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
*
2211120 AAT TAT AAT AA
1 AAT AAT AAT AA
2211131 ATTTAAATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:2211097 original size:16 final size:15
Alignment explanation
Indices: 2211073--2211130 Score: 71
Period size: 16 Copynumber: 3.7 Consensus size: 15
2211063 TTATTTATTA
2211073 AATAATAATAATATAT
1 AATAATAATAATA-AT
*
2211089 AATATTAATAATAAAT
1 AATAATAATAAT-AAT
*
2211105 AATAATACTAATAAT
1 AATAATAATAATAAT
*
2211120 AATTATAATAA
1 AATAATAATAA
2211131 ATTTAAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.33
16 23 0.64
17 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATAATAATAAT
Found at i:2211099 original size:19 final size:19
Alignment explanation
Indices: 2211075--2211129 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2211065 ATTTATTAAA
*
2211075 TAATAATAATATATAATAT
1 TAATAATAATATATAATAC
2211094 TAATAATAA-ATAATAATAC
1 TAATAATAATAT-ATAATAC
2211113 TAATAATAAT-TATAATA
1 TAATAATAATATATAATA
2211130 AATTTAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAATAATATATAATAC
Found at i:2218011 original size:2 final size:2
Alignment explanation
Indices: 2217999--2218033 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
2217989 AAAATATTCA
2217999 AT AT GAT 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
2218034 TAAGCTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2221922 original size:22 final size:22
Alignment explanation
Indices: 2221872--2221922 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
2221862 CATATTCTAA
2221872 TTATTATTTTTTCAATTGAATTG
1 TTATTATTTTTTCAA-TGAATTG
2221895 TT-TTATTTTTT-AA-GAAATATG
1 TTATTATTTTTTCAATG-AAT-TG
2221916 TTATTAT
1 TTATTAT
2221923 AAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 3 0.12
21 6 0.24
22 13 0.52
23 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (22 bp):
TTATTATTTTTTCAATGAATTG
Found at i:2223827 original size:393 final size:395
Alignment explanation
Indices: 2223268--2224428 Score: 1929
Period size: 393 Copynumber: 3.0 Consensus size: 395
2223258 GATACTTAAC
2223268 AGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAA-ATTATTGATT
1 AGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAATA-T-TTGATT
*
2223332 GTTTTGATATTTTATAAAATATATTTAGAA-TTTAAATTTAAT-A-ATATACCGTAACGTAAAAA
64 GTTTTTATATTTTATAAAAT-TATTTAGAATTTTAAATTTAATAATATATACCGTAACGT-AAAA
2223394 ATAAATCATTAGACGCCTATATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
127 ATAAATCATTAGACGCCTATATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
2223459 ATAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATAT
192 ATAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
2223523 AACCATTACCTATTAC-TTATATAAGGGCTACCTATTACATCATATGTTTACCTA-TATATTGAA
257 AACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
2223586 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGATATGTAATTTATGTTTCAAT
322 AGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAG-TATGTAATTTATGTTTCAAT
2223651 ATTTTTTAAGT
385 ATTTTTTAAGT
2223662 ATGTTTCATGTTTTCCACCTAC-ATATTGATTT-ATAATTTCATTTGCACAAAAATATTTGATTG
1 A-GTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAATATTTGATTG
2223725 TTTTTATATTTTA-AAAATTATTTAGAATTTTAAATTTAATAAATATATACCGTAACGT-AAAAT
65 TTTTTATATTTTATAAAATTATTTAGAATTTTAAATTTAAT-AATATATACCGTAACGTAAAAAT
2223788 AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAA
129 AAATCATTAGACGCCTAT-ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
2223852 TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
193 -TAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATAT
2223917 AA--ATTACCTATTACATTATATAAGGGCTACCTATTACATCATATG-TTACCTATTATATTGAA
257 AACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
2223979 AGTGTCCATAC-TTTTATAAAA-GATCGATACTTTTTTTAAAG-ATGTAATTTATGTTTCAATA-
322 AGTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAGTATGTAATTTATGTTTCAATAT
2224040 -TTTTAAGT
387 TTTTTAAGT
2224048 AGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAATTATTTGATTG
1 AGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAA-TATTTGATTG
2224113 TTTTTATATTTTATAAAA-TATTTAGAATTTTAAATTTAATAATATATATCCGTAACGTAAAAAA
65 TTTTTATATTTTATAAAATTATTTAGAATTTTAAATTTAATAATATATA-CCGTAACGT-AAAAA
*
2224177 TAAATCATTAGACG-CTATATTACT-AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAT
128 TAAATCATTAGACGCCTATATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
2224240 TAATGTTTTCCACAGTGAAAAAAGTATGGACAC-TTTATAAAAAGGATAGAC-CTTTACAATAT-
193 TAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATA
2224302 ACCATTACCTATTACATTATAT-AGGGCTACCTATTACATC--ATGTTTACCTATTATATTGAAA
258 ACCATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
* *
2224364 GTGTCCATACTTTTTAT--AAGGATCGATAC-TTTTTAAAACTTATGTAATTTATGTTTCAAT-T
323 GTGTCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAA-GTATGTAATTTATGTTTCAATAT
2224425 TTTT
387 TTTT
2224429 AACAGTACTG
Statistics
Matches: 735, Mismatches: 4, Indels: 64
0.92 0.00 0.08
Matches are distributed among these distances:
383 13 0.02
384 38 0.05
385 74 0.10
386 59 0.08
387 85 0.12
388 94 0.13
389 8 0.01
390 47 0.06
391 21 0.03
392 82 0.11
393 142 0.19
394 52 0.07
395 20 0.03
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (395 bp):
AGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAATATTTGATTGT
TTTTATATTTTATAAAATTATTTAGAATTTTAAATTTAATAATATATACCGTAACGTAAAAATAA
ATCATTAGACGCCTATATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATAA
TGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACC
ATTACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTG
TCCATACTTTTTATAAAAGGATCGATACTTTTTTTAAAGTATGTAATTTATGTTTCAATATTTTT
TAAGT
Found at i:2224294 original size:19 final size:20
Alignment explanation
Indices: 2224258--2224295 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2224248 TCCACAGTGA
* *
2224258 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
2224278 AAAAAGGATAGAC-CTTTA
1 AAAAAGGATAGACACTTTA
2224296 CAATATACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2227090 original size:176 final size:179
Alignment explanation
Indices: 2226797--2227473 Score: 1067
Period size: 176 Copynumber: 3.9 Consensus size: 179
2226787 TTTTAAATGG
* *
2226797 TATGGACAT-AAGTACCGCACAATA-TATAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
1 TATGGACATAAAGTACCGCACAATATTAAAAGTGTCGA-ATAGGTTGTAGACCTATTCGCGCATA
2226860 AAACC-GTATATTTATACCGGTTATATTACAAAATTAT-TATTA-ATTATAATTATGGGTTCCGA
65 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA
2226922 TGTGTAAAATGTCGACACTTTTTAAATCGTATGACACATTTTTCTTCCAA
130 TGTGTAAAATGTCGACACTTTTTAAATCGTATGACACATTTTTCTTCCAA
2226972 TATGGACATAAAGTACCGACACAATATTAAAAGTGTCG-ATAGGTTGTAGACCTATTCGCGCATA
1 TATGGACATAAAGTACCG-CACAATATTAAAAGTGTCGAATAGGTTGTAGACCTATTCGCGCATA
2227036 AAACC-GTATATTTATA-CGGTTATATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGA
65 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA
2227098 TGTGTAAAATGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 TGTGTAAAATGTCGACACTTTTTAAATCGTAT-GACACATTTTTCTTCCAA
*
2227149 TATGGATATAAAGT-CCG-AC-ATATTAAAAAGTGTCG-ATAGGTTGTAGACCTATTCGCGCAT-
1 TATGGACATAAAGTACCGCACAATATT-AAAAGTGTCGAATAGGTTGTAGACCTATTCGCGCATA
2227209 AAACCGGTATATTTATACCGGTTATA-TACAAAATTATCTATTAC---ATAA-T-TGGGTTCCGA
65 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGA
*
2227268 TGTGTAAAATGTCGACACTTTTTTAAATCGT-CGACACATTTTTCTTCCAA
130 TGTGTAAAATGTCGACAC-TTTTTAAATCGTATGACACATTTTTCTTCCAA
*
2227318 TATGGATATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACC-ATTCGCGCAT
1 TATGGACATAAAGTACCG-CACAATATTAAAAGTGTCGA-ATAGGTTGTAGACCTATTCGCGCAT
*
2227382 AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTA-TACATTATAATTATGGGTTCCG
64 AAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
2227446 ATGTGTAAAATGTCGACACTTTTGTAAA
129 ATGTGTAAAATGTCGACACTTTT-TAAA
2227474 AAGTGTCCAT
Statistics
Matches: 472, Mismatches: 5, Indels: 46
0.90 0.01 0.09
Matches are distributed among these distances:
169 32 0.07
170 31 0.07
171 13 0.03
172 16 0.03
173 25 0.05
174 100 0.21
175 62 0.13
176 104 0.22
177 42 0.09
178 15 0.03
179 32 0.07
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (179 bp):
TATGGACATAAAGTACCGCACAATATTAAAAGTGTCGAATAGGTTGTAGACCTATTCGCGCATAA
AACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGAT
GTGTAAAATGTCGACACTTTTTAAATCGTATGACACATTTTTCTTCCAA
Found at i:2227300 original size:19 final size:19
Alignment explanation
Indices: 2227274--2227310 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2227264 CCGATGTGTA
2227274 AAATGTCGACAC-TTTTTT
1 AAATGTCGACACATTTTTT
2227292 AAATCGTCGACACATTTTT
1 AAAT-GTCGACACATTTTT
2227311 CTTCCAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (19 bp):
AAATGTCGACACATTTTTT
Found at i:2227495 original size:22 final size:22
Alignment explanation
Indices: 2227465--2227517 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
2227455 ATGTCGACAC
*
2227465 TTTTGTAAAAAGTG-TCCATACT
1 TTTTATAAAAAG-GATCCATACT
*
2227487 TTTTATAAAAAGGATCGATACT
1 TTTTATAAAAAGGATCCATACT
*
2227509 TTTTTTAAA
1 TTTTATAAA
2227518 GATATGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (22 bp):
TTTTATAAAAAGGATCCATACT
Found at i:2227787 original size:20 final size:20
Alignment explanation
Indices: 2227762--2227800 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2227752 TTCCACAGTG
*
2227762 AAAAAGTATAGACACTTTAT
1 AAAAAGGATAGACACTTTAT
*
2227782 AAAAAGGATAGATACTTTA
1 AAAAAGGATAGACACTTTA
2227801 CAATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2228915 original size:3 final size:3
Alignment explanation
Indices: 2228907--2228980 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
2228897 ACTTGTTTGG
* * * **
2228907 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
2228955 AGC TTC ATC GTC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
2228981 TGTCATCTTC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:2228974 original size:42 final size:42
Alignment explanation
Indices: 2228915--2229005 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
2228905 GGATCATCAT
*
2228915 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* ** * *
2228957 CTTCATCGTCATCATCATCATCATTGTCATCTTCATTGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
2228999 CTTCATC
1 CTTCATC
2229006 TTCTGCGACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:2228986 original size:9 final size:9
Alignment explanation
Indices: 2228920--2228987 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
2228910 ATCATCTTCA
*
2228920 TCATCATCA
1 TCATCATCG
2228929 TCATCATCG
1 TCATCATCG
*
2228938 TCATCATCT
1 TCATCATCG
**
2228947 TCATCGCCAG
1 TCATCATC-G
*
2228957 -CTTCATCG
1 TCATCATCG
*
2228965 TCATCATCA
1 TCATCATCG
*
2228974 TCATCATTG
1 TCATCATCG
2228983 TCATC
1 TCATC
2228988 TTCATTGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
8 1 0.02
9 44 0.98
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:2229008 original size:6 final size:6
Alignment explanation
Indices: 2228911--2229008 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
2228901 GTTTGGATCA
* * * * * * * *
2228911 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
2228959 TCATCG TCATCA TCATCA TCAT-T GTCATCT TCAT-T GTCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT -TCATCT TCATCT -TCATCT TCATCT
2229007 TC
1 TC
2229009 TGCGACCGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
5 1 0.01
6 70 0.96
7 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:2231199 original size:396 final size:398
Alignment explanation
Indices: 2230468--2232282 Score: 3376
Period size: 396 Copynumber: 4.6 Consensus size: 398
2230458 TTTAAATTAG
2230468 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2230533 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2230598 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
*
2230660 AAAATATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
2230725 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
2230790 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGT
326 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
2230855 AAAAAAAA
391 AAAAAAAA
*
2230863 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2230928 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2230992 CGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGAGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
2231056 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
2231121 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
2231186 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
2231251 AAAAAAAA
391 AAAAAAAA
*
2231259 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2231324 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2231389 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGG-A
2231454 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
194 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
*
2231519 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTT
259 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
2231584 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
*
2231649 GGGAAAAAAA
389 GGAAAAAAAA
2231659 TATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
2231723 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTTGGGA
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGA
2231788 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
2231853 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCG
*
2231918 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
2231983 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTG
*
2232048 GGAAAAAAA
390 GAAAAAAAA
2232057 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2232122 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2232186 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
*
2232250 AAAATATCGACACAAACTATATTAGTATCGACA
196 AAAATATCGACACAAACTATATTAGTGTCGACA
2232283 TGACCCTTAA
Statistics
Matches: 1389, Mismatches: 22, Indels: 17
0.97 0.02 0.01
Matches are distributed among these distances:
394 29 0.02
395 123 0.09
396 427 0.31
397 44 0.03
398 257 0.19
399 274 0.20
400 235 0.17
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
AAAAAAAA
Found at i:2231317 original size:199 final size:199
Alignment explanation
Indices: 2230468--2232282 Score: 3351
Period size: 199 Copynumber: 9.1 Consensus size: 199
2230458 TTTAAATTAG
2230468 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2230533 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
2230598 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2230660 AAAA
196 AAAA
*
2230664 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2230729 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2230794 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2230859 AAAA
196 AAAA
*
2230863 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2230928 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2230992 CGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCT-GAGAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA-AA
2231055 AAAAA
195 AAAAA
2231060 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2231125 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2231190 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2231255 AAAA
196 AAAA
*
2231259 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2231324 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2231389 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAA
2231454 AAAAAA
194 AAAAAA
2231460 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2231525 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2231590 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2231655 AAAA
196 AAAA
2231659 TATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2231723 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTTGGGA
*
2231788 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
2231853 AAAAA
195 AAAAA
2231858 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2231923 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
2231988 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2232053 AAAA
196 AAAA
2232057 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2232122 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2232186 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2232250 AAAA
196 AAAA
*
2232254 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
2232283 TGACCCTTAA
Statistics
Matches: 1587, Mismatches: 21, Indels: 21
0.97 0.01 0.01
Matches are distributed among these distances:
196 136 0.09
197 235 0.15
198 263 0.17
199 602 0.38
200 208 0.13
201 143 0.09
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:2232040 original size:798 final size:794
Alignment explanation
Indices: 2230468--2232282 Score: 3399
Period size: 798 Copynumber: 2.3 Consensus size: 794
2230458 TTTAAATTAG
2230468 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2230533 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2230598 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGG-AAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
*
2230660 AAAATATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
2230725 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
2230790 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGT
326 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
*
2230855 AAAAAAAATATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA
2230920 CCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTGGGTTCGATGATT
456 CCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTGGGTTCGATGATT
2230985 TTGGGATCGACACTTTTTATATATGGATCGACACTTATTGATGCACCTTGTTTTTAATTCATTCT
521 TTGGGATCGACACTTTTTATATATGGATCGACACTTATTGATGCACCTTGTTTTTAATTCATTCT
2231050 GAGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
586 GAGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
2231115 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
651 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
2231180 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
716 ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
2231245 TTCTGGAAAAAAAA
781 TTCTGGAAAAAAAA
*
2231259 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2231324 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2231389 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC--TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
2231454 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
194 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
* *
2231519 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTT
259 GGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
2231584 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT
*
2231649 GGGAAAAAAATATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
389 GGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
* *
2231713 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATG
454 AACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATAC-TTTGGGTTCGATG
2231778 ATTTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTC
518 A-TTTTGGGATCGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTC
*
2231843 ATTCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCT
581 ATTCTGAGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCT
*
2231908 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTT
646 CATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTT
2231973 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTA
711 CGATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTA
*
2232038 ATTCATTCTGGGAAAAAAA
776 ATTCATTCTGGAAAAAAAA
2232057 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2232122 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
2232186 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
*
2232250 AAAATATCGACACAAACTATATTAGTATCGACA
196 AAAATATCGACACAAACTATATTAGTGTCGACA
2232283 TGACCCTTAA
Statistics
Matches: 999, Mismatches: 17, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
791 135 0.14
793 4 0.00
794 70 0.07
795 154 0.15
796 230 0.23
797 65 0.07
798 341 0.34
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (794 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA
CCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTGGGTTCGATGATT
TTGGGATCGACACTTTTTATATATGGATCGACACTTATTGATGCACCTTGTTTTTAATTCATTCT
GAGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAA
AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
ATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCA
TTCTGGAAAAAAAA
Found at i:2232391 original size:19 final size:19
Alignment explanation
Indices: 2232364--2232408 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2232354 ATTCACATAA
*
2232364 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
2232383 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
2232402 AAAATTA
1 AAAATTA
2232409 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:2234234 original size:33 final size:33
Alignment explanation
Indices: 2234197--2234262 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2234187 CATCTTAATA
*
2234197 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
2234230 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
2234263 CCTTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:2236589 original size:17 final size:18
Alignment explanation
Indices: 2236567--2236609 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2236557 ATATATCCGG
2236567 TATCATT-TTACCGGTTT
1 TATCATTATTACCGGTTT
2236584 TATCATTTTATTACCGGTTT
1 TATCA--TTATTACCGGTTT
2236604 TATCAT
1 TATCAT
2236610 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (18 bp):
TATCATTATTACCGGTTT
Found at i:2236599 original size:20 final size:20
Alignment explanation
Indices: 2236572--2236618 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2236562 TCCGGTATCA
2236572 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
2236591 TTATTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
2236612 TTTTACC
1 TTTTACC
2236619 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:2236766 original size:20 final size:20
Alignment explanation
Indices: 2236740--2236785 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
2236730 CACTTTTAAA
2236740 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
2236759 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
2236780 TTTACC
1 TTTACC
2236786 TGGTATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:2237284 original size:227 final size:222
Alignment explanation
Indices: 2236850--2237286 Score: 732
Period size: 228 Copynumber: 1.9 Consensus size: 222
2236840 TTAAAACTGC
2236850 TTTTAAAGTTATGTAATTTGTTTCAATTTATTAATAGTGTTCATGTTTTCCACCTACAATATTAA
1 TTTTAAAGTTATGTAATTTGTTTCAATTTATTAATAGTGTTCATGTTTTCCACCTACAATATTAA
**
2236915 TTTAATAATTTAATTTACACAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGA
66 TTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGA
* *
2236980 ATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGTATG
131 ATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGTATG
2237045 GACACTTTTATAAAATGATATATACTT
196 GACACTTTTATAAAATGATATATACTT
*
2237072 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAA-TT-TGTTTCAA-TTTATTAATAGTG-TTCATGTTTTCCACCTACAAT
*
2237137 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
61 ATTAATTTAATAATTTAATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
2237202 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
125 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATA
*
2237266 AGTATGGATACTTTTATAAAA
190 AGTATGGACACTTTTATAAAA
2237287 AGGATAGATA
Statistics
Matches: 200, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
222 4 0.02
223 12 0.06
224 2 0.01
225 8 0.04
226 12 0.06
227 76 0.38
228 86 0.43
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (222 bp):
TTTTAAAGTTATGTAATTTGTTTCAATTTATTAATAGTGTTCATGTTTTCCACCTACAATATTAA
TTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGA
ATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGTATG
GACACTTTTATAAAATGATATATACTT
Found at i:2239621 original size:69 final size:69
Alignment explanation
Indices: 2239538--2239671 Score: 232
Period size: 69 Copynumber: 1.9 Consensus size: 69
2239528 TTGTATATAT
* *
2239538 GCTTAAATTTATGCATGTATGCATATATTTGTATGCAGACATGTATGTGTGTGATGCTTTTGTAA
1 GCTTAAATTTATGCATGTATGCATATATTTGTATGCAGACATGTATGCGTGGGATGCTTTTGTAA
2239603 GTAC
66 GTAC
* *
2239607 GCTTACATTTATGCATGTATGCATATATTTGTATGCAGATATGTATGCGTGGGATGCTTTTGTAA
1 GCTTAAATTTATGCATGTATGCATATATTTGTATGCAGACATGTATGCGTGGGATGCTTTTGTAA
2239672 CTTGGTTCTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (69 bp):
GCTTAAATTTATGCATGTATGCATATATTTGTATGCAGACATGTATGCGTGGGATGCTTTTGTAA
GTAC
Found at i:2244497 original size:45 final size:45
Alignment explanation
Indices: 2244421--2244557 Score: 211
Period size: 45 Copynumber: 3.0 Consensus size: 45
2244411 TGGTGTTGTG
*
2244421 GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGCGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * *
2244466 GGGATGGATGGCATGGTTGGCATTGTCGGCATGCTAGGAAGTGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * *
2244511 GGGATGGATGGCAGGGTAGGTAATGTTGGCCTGCTAGGAAGTGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
2244556 GG
1 GG
2244558 TAGAGCTCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.22, C:0.10, G:0.46, T:0.22
Consensus pattern (45 bp):
GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
Found at i:2246649 original size:15 final size:17
Alignment explanation
Indices: 2246610--2246651 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2246600 ACATCTCCAG
2246610 CAAAAGGAACAAAACAAC
1 CAAAA-GAACAAAACAAC
2246628 GCAAAAGAACAAAAC-A-
1 -CAAAAGAACAAAACAAC
2246644 CAAAAGAA
1 CAAAAGAA
2246652 AACCAACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.35
17 1 0.04
18 9 0.39
19 5 0.22
ACGTcount: A:0.69, C:0.19, G:0.12, T:0.00
Consensus pattern (17 bp):
CAAAAGAACAAAACAAC
Found at i:2251220 original size:45 final size:45
Alignment explanation
Indices: 2251143--2251370 Score: 330
Period size: 45 Copynumber: 5.0 Consensus size: 45
2251133 TTGGTATTGT
2251143 GGGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
1 GGGG-TGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * *
2251189 GGGGTGGATGGCATGGTTGGCATTGTCGGCATGCTAGGAAGTGGA
1 GGGGTGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * * *
2251234 GGGATGGATGGCAGGGTAGGCAGTGTTGGCCTGCTAGGAAGTGGA
1 GGGGTGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * *
2251279 GGGGTGGATGGCATGGTTGGCATTGTCGGCATGCTAGGAAGTGGA
1 GGGGTGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
* * *
2251324 GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGA
1 GGGGTGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
2251369 GG
1 GG
2251371 TAGAGCTCCA
Statistics
Matches: 161, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
45 157 0.98
46 4 0.02
ACGTcount: A:0.20, C:0.11, G:0.47, T:0.22
Consensus pattern (45 bp):
GGGGTGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGA
Found at i:2251297 original size:90 final size:90
Alignment explanation
Indices: 2251144--2251370 Score: 427
Period size: 90 Copynumber: 2.5 Consensus size: 90
2251134 TGGTATTGTG
* *
2251144 GGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGGAGGGGTGGATGGCATGGTTGG
1 GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGAGGGGTGGATGGCATGGTTGG
2251209 CATTGTCGGCATGCTAGGAAGTGGA
66 CATTGTCGGCATGCTAGGAAGTGGA
*
2251234 GGGATGGATGGCAGGGTAGGCAGTGTTGGCCTGCTAGGAAGTGGAGGGGTGGATGGCATGGTTGG
1 GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGAGGGGTGGATGGCATGGTTGG
2251299 CATTGTCGGCATGCTAGGAAGTGGA
66 CATTGTCGGCATGCTAGGAAGTGGA
2251324 GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGAGG
1 GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGAGG
2251371 TAGAGCTCCA
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 133 1.00
ACGTcount: A:0.20, C:0.11, G:0.47, T:0.22
Consensus pattern (90 bp):
GGGATGGATGGCAGGGTAGGCAATGTTGGCCTGCTAGGAAGTGGAGGGGTGGATGGCATGGTTGG
CATTGTCGGCATGCTAGGAAGTGGA
Found at i:2252153 original size:15 final size:15
Alignment explanation
Indices: 2252135--2252165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2252125 AAATTCTAAA
2252135 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
2252150 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
2252165 T
1 T
2252166 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:2253413 original size:25 final size:25
Alignment explanation
Indices: 2253377--2253444 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
2253367 AATGCAATCT
2253377 AGAAACAGAAGGGGTTACCAGAAAC
1 AGAAACAGAAGGGGTTACCAGAAAC
* * *
2253402 ATAAACAGAAGGGATTACCATAAAC
1 AGAAACAGAAGGGGTTACCAGAAAC
*
2253427 AGAAACAGAATGGGTTAC
1 AGAAACAGAAGGGGTTAC
2253445 AGTTACTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.24, T:0.13
Consensus pattern (25 bp):
AGAAACAGAAGGGGTTACCAGAAAC
Found at i:2254443 original size:57 final size:57
Alignment explanation
Indices: 2254365--2254489 Score: 205
Period size: 57 Copynumber: 2.2 Consensus size: 57
2254355 TGGGAACATA
* * * *
2254365 TATGCATTATGTATCTTTACACTTATTTTTCTTGTCTATCCAGCTTTTTATATGGCT
1 TATGCATTCTGCATCTCTACACTTATTTTTCTTGTCTATCCAGCTTCTTATATGGCT
*
2254422 TATGCATTCTGCATCTCTACACTTATTTTTCTTGTCTATCGAGCTTCTTATATGGCT
1 TATGCATTCTGCATCTCTACACTTATTTTTCTTGTCTATCCAGCTTCTTATATGGCT
2254479 TATGCATTCTG
1 TATGCATTCTG
2254490 AGAAGTCATC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (57 bp):
TATGCATTCTGCATCTCTACACTTATTTTTCTTGTCTATCCAGCTTCTTATATGGCT
Found at i:2256539 original size:14 final size:14
Alignment explanation
Indices: 2256522--2256569 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
2256512 CTGAAAATTA
2256522 AATTATGAAAAATG
1 AATTATGAAAAATG
* **
2256536 AATTACTGGAATTTG
1 AATTA-TGAAAAATG
*
2256551 AATTCTGAAAAATG
1 AATTATGAAAAATG
2256565 AATTA
1 AATTA
2256570 CATTTCTGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (14 bp):
AATTATGAAAAATG
Found at i:2256934 original size:23 final size:23
Alignment explanation
Indices: 2256905--2256949 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2256895 AGTGTTATAT
2256905 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
2256928 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
2256950 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:2256953 original size:35 final size:34
Alignment explanation
Indices: 2256905--2256978 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
2256895 AGTGTTATAT
*
2256905 TATATTTTAAAAATATTAATTAG--TATATTTTAAA
1 TATATTTTAAAAATATT-ATTAGATTA-ATATTAAA
*
2256939 TATATTTATTAAAATATTATTAGATTAATATTAAA
1 TATATTT-TAAAAATATTATTAGATTAATATTAAA
2256974 TATAT
1 TATAT
2256979 AAATAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 12 0.34
35 21 0.60
36 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (34 bp):
TATATTTTAAAAATATTATTAGATTAATATTAAA
Found at i:2256955 original size:23 final size:23
Alignment explanation
Indices: 2256906--2256956 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2256896 GTGTTATATT
**
2256906 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* *
2256929 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
2256952 ATATT
1 ATATT
2256957 ATTAGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:2257127 original size:31 final size:33
Alignment explanation
Indices: 2257064--2257152 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 33
2257054 TAATTTATTA
* * * *
2257064 TATATTATTAAAATA-AAAATATAGTATCTTA-
1 TATAGTATTAAAATATAATATATATTATTTTAT
*
2257095 TAT--TATTATAATATAAT-T-TATTATTTTAT
1 TATAGTATTAAAATATAATATATATTATTTTAT
2257124 TATAGTATTAAAATATAATATATATTATT
1 TATAGTATTAAAATATAATATATATTATT
2257153 AGAAATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
28 8 0.17
29 13 0.28
30 2 0.04
31 16 0.34
32 1 0.02
33 7 0.15
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (33 bp):
TATAGTATTAAAATATAATATATATTATTTTAT
Done.