Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 51
Found at i:3725913 original size:49 final size:50
Alignment explanation
Indices: 3725800--3725913 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 50
3725790 ACATAGGGTT
* *
3725800 TAGCGCGGGGCAGGGGCTGCACCTTACCTTTAATTCTGACATAATTATATA
1 TAGCGCGGGGCAGGGGCCGCACCATACCTTTAA-TCTGACATAATTATATA
* *
3725851 TAGCGCGGGGCAGGGGCCGCGCCATACCTTTAA-CTGATATAATTATATA
1 TAGCGCGGGGCAGGGGCCGCACCATACCTTTAATCTGACATAATTATATA
*
3725900 -AGGCGCGGTGCAGG
1 TA-GCGCGGGGCAGG
3725914 TACCGTGCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.02
49 26 0.46
51 30 0.53
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (50 bp):
TAGCGCGGGGCAGGGGCCGCACCATACCTTTAATCTGACATAATTATATA
Found at i:3738625 original size:35 final size:34
Alignment explanation
Indices: 3738540--3738626 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
3738530 AAAATAATTT
*
3738540 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
3738574 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
3738612 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
3738627 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:3739312 original size:23 final size:23
Alignment explanation
Indices: 3739286--3739334 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
3739276 ACGGTGGCTA
*
3739286 CTGTGAAGGTCCTGCTGGTGCTG
1 CTGTGAAGGTCCTGCTGGTGCAG
3739309 CTGTGAAGGTCCTGCTGGTGCAG
1 CTGTGAAGGTCCTGCTGGTGCAG
3739332 CTG
1 CTG
3739335 AGGATGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.10, C:0.22, G:0.39, T:0.29
Consensus pattern (23 bp):
CTGTGAAGGTCCTGCTGGTGCAG
Found at i:3741007 original size:21 final size:19
Alignment explanation
Indices: 3740976--3741032 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 19
3740966 AAAAAAAATT
3740976 ATATAAGTAAAATATTAAATA
1 ATATAA-TAAAATATTAAA-A
3740997 A-ATTAAATAAAAAATATTAAAA
1 ATA-T-AAT--AAAATATTAAAA
3741019 ATATAATAAAATAT
1 ATATAATAAAATAT
3741033 ACCTTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
21 6 0.19
22 5 0.16
23 12 0.39
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATAATAAAATATTAAAA
Found at i:3741020 original size:25 final size:26
Alignment explanation
Indices: 3740966--3741031 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
3740956 ATATATCTGC
*
3740966 AAAAA-AAATTATATAAGTAAAATATT
1 AAAAATAAATTAAATAAG-AAAATATT
3740992 --AAATAAATTAAATAA-AAAATATT
1 AAAAATAAATTAAATAAGAAAATATT
*
3741015 AAAAATATAATAAAATA
1 AAAAATA-AATTAAATA
3741032 TACCTTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 8 0.24
24 3 0.09
25 15 0.44
26 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAATAAATTAAATAAGAAAATATT
Found at i:3741065 original size:10 final size:10
Alignment explanation
Indices: 3741042--3741091 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
3741032 TACCTTAAAC
* *
3741042 AGAGAATATA
1 AGAGAATTTG
*
3741052 AGAGTATTTG
1 AGAGAATTTG
*
3741062 AGAGAAGTTG
1 AGAGAATTTG
*
3741072 AGAGAAATTG
1 AGAGAATTTG
3741082 AGAGAATTTG
1 AGAGAATTTG
3741092 GTGTGATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:3742521 original size:182 final size:182
Alignment explanation
Indices: 3742223--3742698 Score: 684
Period size: 182 Copynumber: 2.6 Consensus size: 182
3742213 CGATCCAAAT
* * * * * *
3742223 TAAAAATGTATCGATCCATATCAATATAACAAGTAAAAGTATCGATAAAACCGGTCA-CGAAAAG
1 TAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATAT-GATAAAACCGGT-ATCGAAATG
* * * * *
3742287 ACAATACCGGTAAATCGTTACCGGATATATTGAACGTGTCGATACTTTAATATAAGGATCGACAC
64 ATAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACAC
* *
3742352 TTTGTCAATTTAAAAGAGAAGCAGTTTTAATGCCTATAAAGTGTCGATACTTTA
129 TTTGTCAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
*
3742406 TAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGAT
1 TAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGAT
* * * * * * *
3742471 AAAATCGGTAAAGAGCTACTGAATATATTTAAAGTGTCGGTACTTTAATATAAGTATCGACACTT
66 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
3742536 TGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTTA
131 TGTCAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
* * *
3742588 TAAAAATGGATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGAT
*
3742653 AAAACCGATAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT
3742699 CATAAGTACG
Statistics
Matches: 258, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
181 1 0.00
182 220 0.85
183 37 0.14
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
TAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCGAAATGAT
AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
TGTCAATTTAAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
Found at i:3742642 original size:20 final size:19
Alignment explanation
Indices: 3742619--3742664 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
3742609 CGATATAACA
3742619 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
3742639 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
3742659 GATAAA
1 GGTAAA
3742665 GCGCTACCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3744905 original size:21 final size:21
Alignment explanation
Indices: 3744881--3744924 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3744871 AAGACAATCA
3744881 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3744902 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3744923 AG
1 AG
3744925 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3745000 original size:33 final size:33
Alignment explanation
Indices: 3744958--3745023 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3744948 AAATAAATAG
* *
3744958 AGTGGTGAAATAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
3744991 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3745024 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3746833 original size:19 final size:19
Alignment explanation
Indices: 3746809--3746857 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3746799 AATGTAGGGT
*
3746809 TAATTTTTTATAAGATTTA
1 TAATTTTGTATAAGATTTA
3746828 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
3746847 TAATTTTGTAT
1 TAATTTTGTAT
3746858 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3747588 original size:202 final size:200
Alignment explanation
Indices: 3747120--3747660 Score: 917
Period size: 202 Copynumber: 2.7 Consensus size: 200
3747110 AGGTAAAATT
* *
3747120 TATCGATCCCA-AAATCTTATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCA
1 TATCGATCCCAGAAA-CATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCG
* * *
3747184 GTATAAATATACTGTTTTTATGAGAGAATATGTCTACAACATGTATCGACACTTTTTTAATTTTG
65 GTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTG
*
3747249 TGTCGATACTTTTGGTCCAGAATGAATGCAAAAGAGGGTGCAACCATAAAGTGTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCAAAAGAGGGTGAAACCATAAAGTGTCGATACATTTA
3747314 TAAAAG
195 TAAAAG
* *
3747320 TATCGATCTCAGAAACATACGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
3747385 TATAAATATACC-AGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTT
66 TATAAATATACCGA-TTTTATGAGAGAATAGGTCTACAACATGTATCGACAC-TTTTTTAATTTT
*
3747449 GTGTCGATACTTTTGGTCCATAATGAATGCCAAAA-AGGGTGAAACCATAAAGTGTCGATACATT
129 GTGTCGATACTTTTGGTCCAGAATGAATG-CAAAAGAGGGTGAAACCATAAAGTGTCGATACATT
3747513 TATAAAAAG
193 TAT-AAAAG
3747522 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
* *
3747587 TATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACATTTTTAATTTTAT
66 TATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
3747652 GTCGATACT
131 GTCGATACT
3747661 AATTTAAATA
Statistics
Matches: 322, Mismatches: 13, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
200 104 0.32
201 95 0.30
202 122 0.38
203 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (200 bp):
TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGG
TATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGT
GTCGATACTTTTGGTCCAGAATGAATGCAAAAGAGGGTGAAACCATAAAGTGTCGATACATTTAT
AAAAG
Found at i:3750991 original size:201 final size:197
Alignment explanation
Indices: 3750514--3751062 Score: 717
Period size: 201 Copynumber: 2.7 Consensus size: 197
3750504 AAAGGGTTGC
* * * *
3750514 ACGCATAAAGTTTCGATACATTTATTAAAATTGTCGATCCCAAATCATCAAAACCCATAATTATA
1 ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCAAAAT-ATCGAAACCCATAATTATA
* * *
3750579 ATGTAATAGGTAATTTTGTAATATAACCGGTATACATATACCAGTTTTGTGAGAGAATAGATCTA
65 ATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTA
*
3750644 TAATATGTATTGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCAAAAAAGG
130 TAACATGTA-TGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCAAAAAAGG
*
3750709 GTGA
194 ATGA
* * * * * * *
3750713 ACACATAAAGCGTCGACACATTT-TCAAAAAGTGTTGATCCCAAAAACATCGAAACCCATAATCA
1 ACGCATAAAGTGTCGATACATTTAT-TAAAAGTGTCGAT-CC-AAAATATCGAAACCCATAATTA
* ** * *
3750777 TAATGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACCAGTTTTATGAGAGAATAGGTC
63 TAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTC
* * * * *
3750842 TATAACATGTAGTGACACTTGTTAA-ATTTGTGTCGATACTTTTTTTTTCAGAATGGATGCCAAA
128 TATAACATGTA-TGACACTTCTTAATA-TTGTGTCGATA-ATTTTTGTCCAGAATGGATGCAAAA
3750906 AAGGATGA
190 AAGGATGA
*
3750914 ACGCACAAAGTGTCGATACATTTATTAAAAGTGTCGATACCGAAAATATCGAAACCCATAATTAT
1 ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGAT-CC-AAAATATCGAAACCCATAATTAT
3750979 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACC-GATTTTATGAGAGAATAGGTC
64 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAG-TTTTATGAGAGAATAGGTC
*
3751043 TACAACATGTATCGACACTT
128 TATAACATGTAT-GACACTT
3751063 TGTAAATAAA
Statistics
Matches: 299, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
198 1 0.00
199 30 0.10
200 109 0.36
201 158 0.53
202 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (197 bp):
ACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCAAAATATCGAAACCCATAATTATAA
TGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTAT
AACATGTATGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCAAAAAAGGAT
GA
Found at i:3754217 original size:87 final size:87
Alignment explanation
Indices: 3754116--3754278 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
3754106 AAATAGGTCA
3754116 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
*
3754181 CCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* *
3754203 ATATAAGCGCTACCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
3754268 CCGATTAAATG
66 CCGATTAAATG
3754279 ATATAACATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:3754250 original size:23 final size:23
Alignment explanation
Indices: 3754200--3754244 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3754190 TGCCTATTTT
*
3754200 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
3754223 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
3754245 TGTTATTGTA
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:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:3754507 original size:12 final size:12
Alignment explanation
Indices: 3754490--3754516 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3754480 AAAGGATCTC
3754490 ATAGCCGAGATG
1 ATAGCCGAGATG
3754502 ATAGCCGAGATG
1 ATAGCCGAGATG
3754514 ATA
1 ATA
3754517 CCTTCGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (12 bp):
ATAGCCGAGATG
Found at i:3756687 original size:19 final size:20
Alignment explanation
Indices: 3756663--3756706 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3756653 TAATTGAATC
*
3756663 GAATATATAAT-TTAAAATT
1 GAATATAAAATCTTAAAATT
3756682 GAATATAAAATCTTAAAATT
1 GAATATAAAATCTTAAAATT
*
3756702 CAATA
1 GAATA
3756707 ATACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATATAAAATCTTAAAATT
Found at i:3759100 original size:21 final size:22
Alignment explanation
Indices: 3759059--3759100 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3759049 GGGGTATCGA
*
3759059 TACATATTCAAGGAATGTATCAG
1 TACAAATTCAAGG-ATGTATCAG
3759082 TACAAATTCAAGG-TGTATC
1 TACAAATTCAAGGATGTATC
3759101 GATCATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (22 bp):
TACAAATTCAAGGATGTATCAG
Found at i:3762314 original size:64 final size:67
Alignment explanation
Indices: 3762198--3762342 Score: 199
Period size: 64 Copynumber: 2.2 Consensus size: 67
3762188 AATGCATTTT
* * * *
3762198 ATGCATCGATGCACTTAGGTTTTTATAAAAACATCGAATGTATTTTATGCATCGATGCA-C-AGA
1 ATGCATCGATGCACTCAGGTTGTTATAAAAACATCAAATGCATTTTATGCATCGATGCACCTAGA
3762261 CC
66 CC
*
3762263 ATGCATCGATGCACTCAGGCTTGTT-T-AAAACATCAAATGCATTTTATGCATCGATGCACCTTG
1 ATGCATCGATGCACTCAGG-TTGTTATAAAAACATCAAATGCATTTTATGCATCGATGCACCTAG
*
3762326 ACT
65 ACC
3762329 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3762343 ACACGATCCC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
64 30 0.42
65 20 0.28
66 21 0.30
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (67 bp):
ATGCATCGATGCACTCAGGTTGTTATAAAAACATCAAATGCATTTTATGCATCGATGCACCTAGA
CC
Found at i:3766054 original size:15 final size:15
Alignment explanation
Indices: 3766036--3766070 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3766026 ATCAAAAGAA
*
3766036 GAAACGAAAGATGAG
1 GAAACGAAAGATAAG
3766051 GAAACGAAAGATAAG
1 GAAACGAAAGATAAG
3766066 GAAAC
1 GAAAC
3766071 TCAATATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.29, T:0.06
Consensus pattern (15 bp):
GAAACGAAAGATAAG
Found at i:3768073 original size:21 final size:21
Alignment explanation
Indices: 3768027--3768101 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
3768017 TTTGCTCATA
*
3768027 ATGCATTGATACA-CTATGAATG
1 ATGCATCGATACATC-ATGAA-G
3768049 -TGCATCGATACATCATGAAG
1 ATGCATCGATACATCATGAAG
* * * *
3768069 ATGCACCGATGCACTCCTTGAAT
1 ATGCATCGATACA-T-CATGAAG
3768092 ATGCATCGAT
1 ATGCATCGAT
3768102 GCACGATGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
20 1 0.02
21 26 0.60
22 2 0.05
23 14 0.33
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (21 bp):
ATGCATCGATACATCATGAAG
Found at i:3772044 original size:64 final size:63
Alignment explanation
Indices: 3771921--3772057 Score: 152
Period size: 64 Copynumber: 2.2 Consensus size: 63
3771911 CCCTTAATAT
* * *
3771921 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAA-AGA
* * * ** *
3771985 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACAAATCACATTCGATGTTTTCAT-TTTAAAGA
3772048 GTGCATCGAT
1 GTGCATCGAT
3772058 ACACATTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
63 18 0.29
64 44 0.71
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:3775395 original size:23 final size:23
Alignment explanation
Indices: 3775331--3775399 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
3775321 CACCACAGCT
* * *
3775331 CGTATAAATGCACCGGAGTACCA
1 CGTAGAAATGCACCGTAGTGCCA
* *
3775354 CGTAGAATTGCACCATAGTGCCA
1 CGTAGAAATGCACCGTAGTGCCA
3775377 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGTAGTGCCA
3775400 TATAAGATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGTAGTGCCA
Found at i:3776095 original size:23 final size:24
Alignment explanation
Indices: 3776060--3776104 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
3776050 TTTATGTATT
* *
3776060 AATTTAATCTATTTACT-TAATTC
1 AATTTAATATATTCACTATAATTC
*
3776083 AATTTCATATATTCACTATAAT
1 AATTTAATATATTCACTATAAT
3776105 CTTTTCATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTTAATATATTCACTATAATTC
Found at i:3776465 original size:20 final size:19
Alignment explanation
Indices: 3776440--3776478 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3776430 ACATAGTCTT
3776440 ATATTTCATTATCATATGAC
1 ATATTT-ATTATCATATGAC
* *
3776460 ATATTTGTTCTCATATGAC
1 ATATTTATTATCATATGAC
3776479 TCTTCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (19 bp):
ATATTTATTATCATATGAC
Found at i:3777124 original size:64 final size:63
Alignment explanation
Indices: 3777002--3777137 Score: 150
Period size: 64 Copynumber: 2.1 Consensus size: 63
3776992 CCTTAACATA
* * *
3777002 TGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTTCATTTTAAGGGGG
1 TGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAA-AGAG
* * * ** *
3777066 TGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGAG
1 TGCATCGATGCACTACC-CATGCATCGATACACAAATCACATTCGATGTTTTCAT-TTTAAAGAG
3777129 TGCATCGAT
1 TGCATCGAT
3777138 ACACATTGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
TGCATCGATGCACTACCCATGCATCGATACACAAATCACATTCGATGTTTTCATTTTAAAGAG
Found at i:3779094 original size:64 final size:64
Alignment explanation
Indices: 3779023--3779177 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 64
3779013 ACACCCCATT
* * *
3779023 TCGAATGCTTTTTATGCATCGATGCACTGA-CATGCATAGATGCACTCAAG-TTTTTATGAAAAC
1 TCGAATGCATTTTATGCATCGATGCACAGACCATGCATAGATGCACTCAAGCTTATT-T-AAAAC
3779086 A
64 A
* * *
3779087 TCGAATGCATTTTATGCATC-ATTGAACAGACCATGCATCGATGCACTCAGGCTTATTTAAAACA
1 TCGAATGCATTTTATGCATCGA-TGCACAGACCATGCATAGATGCACTCAAGCTTATTTAAAACA
* *
3779151 TAGAAAGCATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
3779178 CCTTAGTGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
63 1 0.01
64 53 0.68
65 20 0.26
66 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACAGACCATGCATAGATGCACTCAAGCTTATTTAAAACA
Found at i:3783277 original size:64 final size:64
Alignment explanation
Indices: 3783209--3783432 Score: 222
Period size: 64 Copynumber: 3.5 Consensus size: 64
3783199 TGTTTGAATG
* * **
3783209 TGCATCGATGCATTGGTAGTGCATTGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTC
3783272 A
64 A
* * **
3783273 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* ** ** * ** *
3783337 TGCATCGATGCATAAGG-AGTGCATCGATGCATTCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
3783401 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
3783433 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 127 0.95
65 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:3783826 original size:29 final size:29
Alignment explanation
Indices: 3783793--3783864 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
3783783 ATATGAAGTT
3783793 ACATGAGCTACATGATCACAAGAGAAATG
1 ACATGAGCTACATGATCACAAGAGAAATG
3783822 ACATGAGCTACATGATCACAAGAGAAATG
1 ACATGAGCTACATGATCACAAGAGAAATG
3783851 ACATGAG-TACATGA
1 ACATGAGCTACATGA
3783865 ACATATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (29 bp):
ACATGAGCTACATGATCACAAGAGAAATG
Found at i:3790333 original size:64 final size:64
Alignment explanation
Indices: 3790265--3790488 Score: 209
Period size: 64 Copynumber: 3.5 Consensus size: 64
3790255 TGTTTGAATG
** **
3790265 TGCATCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTC
1 TGCATCGATGCATAAGTAATGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTC
3790328 A
64 A
* * **
3790329 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAAGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * * * ** ** * ** *
3790393 TGTATCAATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCATAAGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* * *
3790457 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAGTAATGCATCGATGCAT
3790489 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
64 128 0.97
65 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (64 bp):
TGCATCGATGCATAAGTAATGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:3790810 original size:12 final size:12
Alignment explanation
Indices: 3790792--3790827 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3790782 TATATATGTT
3790792 CATGTGATATGA
1 CATGTGATATGA
*
3790804 TATGTGATATGA
1 CATGTGATATGA
3790816 CATGTGATATGA
1 CATGTGATATGA
3790828 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:3792501 original size:19 final size:20
Alignment explanation
Indices: 3792477--3792520 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3792467 TAATTGAATC
*
3792477 GAATATATAAT-TTAAAATT
1 GAATATAAAATCTTAAAATT
3792496 GAATATAAAATCTTAAAATT
1 GAATATAAAATCTTAAAATT
*
3792516 CAATA
1 GAATA
3792521 ATACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
GAATATAAAATCTTAAAATT
Found at i:3792646 original size:26 final size:27
Alignment explanation
Indices: 3792617--3792672 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
3792607 TGTTTATGCA
*
3792617 TTTTT-AA-TAAAATTAGAATTTAATAT
1 TTTTTAAATTAAAATTAGAA-ATAATAT
*
3792643 TTTTTAAATTAATATTAGAAATAATAT
1 TTTTTAAATTAAAATTAGAAATAATAT
3792670 TTT
1 TTT
3792673 AATATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 11 0.42
28 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TTTTTAAATTAAAATTAGAAATAATAT
Found at i:3794382 original size:20 final size:20
Alignment explanation
Indices: 3794354--3794426 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
3794344 CAGCCTTCGA
*
3794354 GCATGGATGCACAGCAGGAT
1 GCATCGATGCACAGCAGGAT
* **
3794374 GCATCGATGCACAACCTTGAT
1 GCATCGATGCAC-AGCAGGAT
*
3794395 GCATCGATGCACAGAAGGAT
1 GCATCGATGCACAGCAGGAT
3794415 GCATCGATGCAC
1 GCATCGATGCAC
3794427 TAATTGCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (20 bp):
GCATCGATGCACAGCAGGAT
Found at i:3794491 original size:22 final size:23
Alignment explanation
Indices: 3794461--3794503 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3794451 ATGGATACAC
3794461 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
3794484 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
3794504 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:3794516 original size:21 final size:20
Alignment explanation
Indices: 3794451--3794545 Score: 102
Period size: 21 Copynumber: 4.5 Consensus size: 20
3794441 GTTTGAGTGG
* *
3794451 ATGGATACACTGCATGGTGC
1 ATGGATGCACTGCAGGGTGC
*
3794471 ATCGATGCACTAGTGCA-GGTGC
1 ATGGATGCAC---TGCAGGGTGC
3794493 ATGGATGCACTGCAGGGATGC
1 ATGGATGCACTGCAGGG-TGC
*
3794514 ATGGATGCACTGTAGGGGTGC
1 ATGGATGCACTGCA-GGGTGC
3794535 ATGGATGCACT
1 ATGGATGCACT
3794546 TTGACACCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 30 0.46
22 17 0.26
23 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (20 bp):
ATGGATGCACTGCAGGGTGC
Found at i:3794534 original size:42 final size:42
Alignment explanation
Indices: 3794451--3794545 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
3794441 GTTTGAGTGG
* *
3794451 ATGGATACACTGCATGGTGCATCGATGCACTAGTGCAGGTGC
1 ATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAGGTGC
* *
3794493 ATGGATGCACTGCAGGGATGCATGGATGCACT-GTAG-GGGTGC
1 ATGGATGCACTGCAGGG-TGCATCGATGCACTAGT-GCAGGTGC
3794535 ATGGATGCACT
1 ATGGATGCACT
3794546 TTGACACCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 33 0.70
43 14 0.30
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (42 bp):
ATGGATGCACTGCAGGGTGCATCGATGCACTAGTGCAGGTGC
Found at i:3794646 original size:29 final size:30
Alignment explanation
Indices: 3794614--3794682 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
3794604 GAAACCTTTT
3794614 AAAAC-TTTGAATAAATTCAATT-AAGTCCA
1 AAAACATTT-AATAAATTCAATTCAAGTCCA
** *
3794643 AAAACATTTTCTAAATTTAATTCAAGTCCA
1 AAAACATTTAATAAATTCAATTCAAGTCCA
3794673 AAAACCATTT
1 AAAA-CATTT
3794683 TGCCTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.44
30 14 0.41
31 5 0.15
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAACATTTAATAAATTCAATTCAAGTCCA
Found at i:3794672 original size:30 final size:30
Alignment explanation
Indices: 3794625--3794683 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
3794615 AAACTTTGAA
3794625 TAAATTCAATTAAGTCCAAAAA-CATTTTC
1 TAAATTCAATTAAGTCCAAAAACCATTTTC
*
3794654 TAAATTTAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
3794684 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTC
Found at i:3797910 original size:21 final size:21
Alignment explanation
Indices: 3797886--3797968 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 21
3797876 CTAGCTGTTG
*
3797886 CAGCCTTCG-TGCATGGATGCA
1 CAGCCTT-GATGCATCGATGCA
**
3797907 CAG-CAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
3797927 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
*
3797948 CAG--TAGGATGCATCGATGCA
1 CAGCCT-TGATGCATCGATGCA
3797968 C
1 C
3797969 TAATTGCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
19 2 0.04
20 30 0.57
21 21 0.40
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:3797924 original size:20 final size:20
Alignment explanation
Indices: 3797895--3797968 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
3797885 GCAGCCTTCG
*
3797895 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
**
3797915 TGCATCGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
*
3797936 TGCATCGATGCACAGTAGGA
1 TGCATCGATGCACAGCAGGA
3797956 TGCATCGATGCAC
1 TGCATCGATGCAC
3797969 TAATTGCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 29 0.62
21 18 0.38
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:3797946 original size:41 final size:41
Alignment explanation
Indices: 3797886--3797968 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
3797876 CTAGCTGTTG
*
3797886 CAGCCTTCGTGCATGGATGCACAGCAGGATGCATCGATGCA
1 CAGCCTTCGTGCATCGATGCACAGCAGGATGCATCGATGCA
*
3797927 CAGCCTT-GATGCATCGATGCACAGTAGGATGCATCGATGCA
1 CAGCCTTCG-TGCATCGATGCACAGCAGGATGCATCGATGCA
3797968 C
1 C
3797969 TAATTGCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (41 bp):
CAGCCTTCGTGCATCGATGCACAGCAGGATGCATCGATGCA
Found at i:3798035 original size:22 final size:23
Alignment explanation
Indices: 3798003--3798045 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3797993 ATGGATGCAT
3798003 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
3798026 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
3798046 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:3798166 original size:29 final size:29
Alignment explanation
Indices: 3798145--3798202 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
3798135 AAACTTTGAA
3798145 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
3798174 TAAATTCAATTCAAGTCCAAAAATCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
3798203 TACCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:3798192 original size:30 final size:30
Alignment explanation
Indices: 3798145--3798203 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
3798135 AAACTTTGAA
3798145 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAATCATTTTG
3798174 TAAATTCAATTCAAGTCCAAAAATCATTTT
1 TAAATTCAATT-AAGTCCAAAAATCATTTT
3798204 ACCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAATCATTTTG
Found at i:3818034 original size:3 final size:3
Alignment explanation
Indices: 3818026--3818058 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3818016 TTACTGTAAA
3818026 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
3818059 CATAGTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3820095 original size:4 final size:4
Alignment explanation
Indices: 3820086--3820112 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3820076 AAGCATTTCC
3820086 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
3820113 GAATAGTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:3820707 original size:18 final size:19
Alignment explanation
Indices: 3820672--3820708 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3820662 TATAAAGTAC
*
3820672 AAAAGGAAGTACATTGAAA
1 AAAAGGAAGAACATTGAAA
3820691 AAAAGGAAGAACA-TGAAA
1 AAAAGGAAGAACATTGAAA
3820709 TGATCCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.62, C:0.05, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAAGGAAGAACATTGAAA
Found at i:3828859 original size:14 final size:15
Alignment explanation
Indices: 3828840--3828868 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3828830 CAGGGCTTGT
3828840 TCTGGTT-TTGGTGA
1 TCTGGTTATTGGTGA
3828854 TCTGGTTATTGGTGA
1 TCTGGTTATTGGTGA
3828869 AATGGTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.10, C:0.07, G:0.34, T:0.48
Consensus pattern (15 bp):
TCTGGTTATTGGTGA
Found at i:3831703 original size:92 final size:92
Alignment explanation
Indices: 3831546--3831731 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
3831536 AAATGTGTGG
3831546 CAAATTGAGGAGCTCAACTATCCAAAGAAACAGTACGTGTTGACGACACAATGAAGAAGTTAAGA
1 CAAATTGAGGAGCTCAACTATCCAAAGAAACAGTACGTGTTGACGACACAATGAAGAAGTTAAGA
*
3831611 GGGTGGTCCATACCCCATAAATATCCA
66 GAGTGGTCCATACCCCATAAATATCCA
* *
3831638 CAAATTGAGGTGCTCAACTATCCATAGAAACAGTACGTGTTGACGACACAATGAAGAAGTTAAGA
1 CAAATTGAGGAGCTCAACTATCCAAAGAAACAGTACGTGTTGACGACACAATGAAGAAGTTAAGA
3831703 GAGTGGTCCATACCCCATAAATATCCA
66 GAGTGGTCCATACCCCATAAATATCCA
3831730 CA
1 CA
3831732 TCATATAATC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (92 bp):
CAAATTGAGGAGCTCAACTATCCAAAGAAACAGTACGTGTTGACGACACAATGAAGAAGTTAAGA
GAGTGGTCCATACCCCATAAATATCCA
Found at i:3832784 original size:77 final size:77
Alignment explanation
Indices: 3832657--3832810 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
3832647 ATATGATTAA
3832657 TGACAGACTCATGTGATAAGTCAATACTAAATCTATTGTCGAATAATTATATTCATCCAGTCTGT
1 TGACAGACTCATGTGATAAGTCAATACTAAATCTATTGTCGAATAATTATATTCATCCAGTCTGT
3832722 CAGTTCACAAGT
66 CAGTTCACAAGT
3832734 TGACAGACTCATGTGATAAGTCAATACTAAATCTATTGTCGAATAATTATATTCATCCAGTCTGT
1 TGACAGACTCATGTGATAAGTCAATACTAAATCTATTGTCGAATAATTATATTCATCCAGTCTGT
3832799 CAGTTCACAAGT
66 CAGTTCACAAGT
3832811 AGCCATCATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (77 bp):
TGACAGACTCATGTGATAAGTCAATACTAAATCTATTGTCGAATAATTATATTCATCCAGTCTGT
CAGTTCACAAGT
Found at i:3840857 original size:11 final size:11
Alignment explanation
Indices: 3840841--3840865 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3840831 TACCAAGGTC
3840841 TCACCTCTTCT
1 TCACCTCTTCT
3840852 TCACCTCTTCT
1 TCACCTCTTCT
3840863 TCA
1 TCA
3840866 TCATCAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.44, G:0.00, T:0.44
Consensus pattern (11 bp):
TCACCTCTTCT
Found at i:3848634 original size:9 final size:10
Alignment explanation
Indices: 3848606--3848633 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3848596 GTTCATTCAT
3848606 AAAATTTTTC
1 AAAATTTTTC
3848616 AAAATTTTTC
1 AAAATTTTTC
3848626 AAAATTTT
1 AAAATTTT
3848634 CTAAGTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
AAAATTTTTC
Found at i:3849220 original size:24 final size:24
Alignment explanation
Indices: 3849191--3849241 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3849181 ATATTCAGGG
* *
3849191 GTCTCAGAATGGTGCAGATCAAGA
1 GTCTCAGAACGATGCAGATCAAGA
* *
3849215 GTCTCAGAACGATGCTGATCAGGA
1 GTCTCAGAACGATGCAGATCAAGA
3849239 GTC
1 GTC
3849242 GGGTCATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (24 bp):
GTCTCAGAACGATGCAGATCAAGA
Found at i:3849640 original size:185 final size:188
Alignment explanation
Indices: 3849328--3849700 Score: 725
Period size: 185 Copynumber: 2.0 Consensus size: 188
3849318 TGTCTGGAAA
3849328 GCTAGGGAAATTCCGTTGACCGTAGGGAATAATTTCTTGAAACATCAATTCCACCACAACATCTC
1 GCTAGGGAAATTCCGTTGACCGTAGGGAATAATTTCTTGAAACATCAATTCCACCACAACATCTC
3849393 TATGCTTCTCATATCCAAAGAAATTACGGATGTCACCGTGTAAAGCATGCAGGTGAGTCTGAGTC
66 TATGCTTCTCATATCCAAAGAAATTACGGATGTCACCGTGTAAAGCATGCAGGTGAGTCTGAGTC
3849458 TACATCACAACTTCCTCGAGAGCAAGC-ATC-TG-CTCGACATTTGATTGTGTAGTAC
131 TACATCACAACTTCCTCGAGAGCAAGCAATCTTGCCTCGACATTTGATTGTGTAGTAC
3849513 GCTAGGGAAATTCCGTTGACCGTAGGGAATAATTTCTTGAAACATCAATTCCACCACAACATCTC
1 GCTAGGGAAATTCCGTTGACCGTAGGGAATAATTTCTTGAAACATCAATTCCACCACAACATCTC
3849578 TATGCTTCTCATATCCAAAGAAATTACGGATGTCACCGTGTAAAGCATGCAGGTGAGTCTGAGTC
66 TATGCTTCTCATATCCAAAGAAATTACGGATGTCACCGTGTAAAGCATGCAGGTGAGTCTGAGTC
3849643 TACATCACAACTTCCTCGAGAGCAAGCAATCTTGCCTCGACATTTGATTGTGTAGTAC
131 TACATCACAACTTCCTCGAGAGCAAGCAATCTTGCCTCGACATTTGATTGTGTAGTAC
3849701 CTGCAGATTG
Statistics
Matches: 185, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
185 157 0.85
186 3 0.02
187 2 0.01
188 23 0.12
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (188 bp):
GCTAGGGAAATTCCGTTGACCGTAGGGAATAATTTCTTGAAACATCAATTCCACCACAACATCTC
TATGCTTCTCATATCCAAAGAAATTACGGATGTCACCGTGTAAAGCATGCAGGTGAGTCTGAGTC
TACATCACAACTTCCTCGAGAGCAAGCAATCTTGCCTCGACATTTGATTGTGTAGTAC
Found at i:3850683 original size:17 final size:18
Alignment explanation
Indices: 3850642--3850675 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3850632 AAGAATTGAG
3850642 AGAGAAAATAAAAGTTAA
1 AGAGAAAATAAAAGTTAA
3850660 AGAGAAAA-AAAA-TTAA
1 AGAGAAAATAAAAGTTAA
3850676 GGATGAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 4 0.25
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AGAGAAAATAAAAGTTAA
Found at i:3863182 original size:28 final size:28
Alignment explanation
Indices: 3863149--3863239 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
3863139 TTATTTCAAA
*
3863149 TAATTTATATATTTTATTAATTTATTCT
1 TAATTTATATATTTTATAAATTTATTCT
* * *
3863177 TAATTTATATATTATATCAATTTAATCT
1 TAATTTATATATTTTATAAATTTATTCT
* * *
3863205 TATTTTTAAATAATTTAATAAATTTAATTCT
1 TA-ATTTATAT-ATTTTATAAATTT-ATTCT
3863236 TAAT
1 TAAT
3863240 ATTTAAAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
28 27 0.54
29 6 0.12
30 11 0.22
31 6 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTATATATTTTATAAATTTATTCT
Found at i:3866851 original size:24 final size:24
Alignment explanation
Indices: 3866824--3866923 Score: 128
Period size: 24 Copynumber: 4.2 Consensus size: 24
3866814 AAATCTGTTA
*
3866824 TGATACATGACCTGGATTTTGATT
1 TGATACTTGACCTGGATTTTGATT
* *
3866848 TGATACTTGACCAGGATTCTGATT
1 TGATACTTGACCTGGATTTTGATT
*
3866872 TGATACTTGACCTAGATTTTGATT
1 TGATACTTGACCTGGATTTTGATT
* * * *
3866896 TGATACTTAACCTGAATTATGTTT
1 TGATACTTGACCTGGATTTTGATT
3866920 TGAT
1 TGAT
3866924 TTTTGATATA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (24 bp):
TGATACTTGACCTGGATTTTGATT
Found at i:3869143 original size:17 final size:17
Alignment explanation
Indices: 3869117--3869156 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
3869107 TGGTCGACTG
3869117 TTGACCGTTGACCT-GCA
1 TTGACCGTTGA-CTGGCA
*
3869134 TTGACTGTTGACTGGCA
1 TTGACCGTTGACTGGCA
3869151 TTGACC
1 TTGACC
3869157 ACTGTTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (17 bp):
TTGACCGTTGACTGGCA
Found at i:3871782 original size:24 final size:24
Alignment explanation
Indices: 3871698--3871797 Score: 128
Period size: 24 Copynumber: 4.2 Consensus size: 24
3871688 AAATCTGTTA
* *
3871698 TGATACATGACCTGGATTTTGATT
1 TGATACTTGACCTGGATTCTGATT
*
3871722 TGATACTTGACCAGGATTCTGATT
1 TGATACTTGACCTGGATTCTGATT
*
3871746 TGATACTCGACCTGGATTCTGATT
1 TGATACTTGACCTGGATTCTGATT
* * * *
3871770 TGATACTTAACCTGAATTATGTTT
1 TGATACTTGACCTGGATTCTGATT
3871794 TGAT
1 TGAT
3871798 TTTTGATATA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
TGATACTTGACCTGGATTCTGATT
Found at i:3873851 original size:17 final size:17
Alignment explanation
Indices: 3873829--3873869 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3873819 ATGGTCGACT
3873829 GTTGACCGTTGACCT-GC
1 GTTGACCGTTGA-CTGGC
*
3873846 GTTGACTGTTGACTGGC
1 GTTGACCGTTGACTGGC
3873863 GTTGACC
1 GTTGACC
3873870 ACTGTTGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (17 bp):
GTTGACCGTTGACTGGC
Found at i:3881226 original size:24 final size:24
Alignment explanation
Indices: 3881199--3881298 Score: 110
Period size: 24 Copynumber: 4.2 Consensus size: 24
3881189 AAATCTGTTA
*
3881199 TGATACATGACCTGGATTTTGATT
1 TGATACATGACCTGGATTCTGATT
** *
3881223 TGATATTTGACCTGGATTCTAATT
1 TGATACATGACCTGGATTCTGATT
**
3881247 TGATACACAACCTGGATTCTGATT
1 TGATACATGACCTGGATTCTGATT
* * * *
3881271 TGATACTTGACCTGAATTATGTTT
1 TGATACATGACCTGGATTCTGATT
3881295 TGAT
1 TGAT
3881299 TTTTGATATA
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (24 bp):
TGATACATGACCTGGATTCTGATT
Found at i:3881297 original size:48 final size:48
Alignment explanation
Indices: 3881194--3881298 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
3881184 ACTTGAAATC
* ** * * * *
3881194 TGTTATGATACATGACCTGGATTTTGATTTGATATTTGACCTGGATTC
1 TGTTTTGATACACAACCTGGATTCTGATTTGATACTTGACCTGAATTA
**
3881242 TAATTTGATACACAACCTGGATTCTGATTTGATACTTGACCTGAATTA
1 TGTTTTGATACACAACCTGGATTCTGATTTGATACTTGACCTGAATTA
3881290 TGTTTTGAT
1 TGTTTTGAT
3881299 TTTTGATATA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (48 bp):
TGTTTTGATACACAACCTGGATTCTGATTTGATACTTGACCTGAATTA
Found at i:3885591 original size:31 final size:31
Alignment explanation
Indices: 3885533--3885600 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
3885523 ACTATTCTAG
* *
3885533 TGTGAACGCAAGGATTGAATAACAATCCTAA
1 TGTGAACGCAAGAATTGAATAACAATCCCAA
* * *
3885564 TGTGAACGC-AGAATTGAATTTATAATCCCAG
1 TGTGAACGCAAGAATTGAA-TAACAATCCCAA
3885595 TGTGAA
1 TGTGAA
3885601 AGCACAAACG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (31 bp):
TGTGAACGCAAGAATTGAATAACAATCCCAA
Found at i:3895218 original size:23 final size:23
Alignment explanation
Indices: 3895192--3895242 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3895182 ATCATTTGTC
*
3895192 CTTGTGACACACTTTTCTTTGCT
1 CTTGTGACACACTTTTCTCTGCT
* **
3895215 CTTGTGATACGTTTTTCTCTGCT
1 CTTGTGACACACTTTTCTCTGCT
3895238 CTTGT
1 CTTGT
3895243 AGCATAATTT
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:0.10, C:0.24, G:0.16, T:0.51
Consensus pattern (23 bp):
CTTGTGACACACTTTTCTCTGCT
Found at i:3895260 original size:25 final size:25
Alignment explanation
Indices: 3895204--3895271 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
3895194 TGTGACACAC
* *
3895204 TTTTCTTTGCTCTTGT-G-ATACGT
1 TTTTCTCTGCTCTTGTAGCATAAGT
*
3895227 TTTTCTCTGCTCTTGTAGCATAATT
1 TTTTCTCTGCTCTTGTAGCATAAGT
3895252 TTTTCTCTGCTCTTGTAGCA
1 TTTTCTCTGCTCTTGTAGCA
3895272 CGTTCCTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.38
24 1 0.03
25 24 0.60
ACGTcount: A:0.12, C:0.21, G:0.15, T:0.53
Consensus pattern (25 bp):
TTTTCTCTGCTCTTGTAGCATAAGT
Found at i:3895601 original size:15 final size:15
Alignment explanation
Indices: 3895581--3895615 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3895571 AAAGTTAGAG
* *
3895581 TTTTTTTCCTTCATA
1 TTTTTTTACTTAATA
3895596 TTTTTTTACTTAATA
1 TTTTTTTACTTAATA
3895611 TTTTT
1 TTTTT
3895616 GTTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTACTTAATA
Found at i:3895737 original size:27 final size:28
Alignment explanation
Indices: 3895699--3895752 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
3895689 ATATAACATA
*
3895699 TATAATATATAGTTTTGAGAAT-TTTTC
1 TATAATATATAGTTTTGAAAATATTTTC
*
3895726 TATAGTATATAGTTTTGAAAATATTTT
1 TATAATATATAGTTTTGAAAATATTTT
3895753 TGAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (28 bp):
TATAATATATAGTTTTGAAAATATTTTC
Found at i:3895771 original size:64 final size:64
Alignment explanation
Indices: 3895696--3895848 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 64
3895686 TACATATAAC
* * * * *
3895696 ATATATAATATATAGTTTTG-AGA-ATTTTTCT-ATAGTATATAGTTTTGAAAATATTTTTGAAA
1 ATATATAATATATACTTCTGAAAACATTTTT-TAATA-TATATAGTTTT-AAAACATTTTTAAAA
3895758 AT
63 AT
*
3895760 ATATATAATATATACTTCTGAAAACATTTTTTAAAATATATATAGTTTTAAAACGTTTTTAAAAA
1 ATATATAATATATACTTCTGAAAACATTTTTT--AATATATATAGTTTTAAAACATTTTTAAAAA
3895825 T
64 T
*
3895826 ATATATAATATATAATT-TGAAAA
1 ATATATAATATATACTTCTGAAAA
3895849 AAAAACGTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
64 18 0.23
65 9 0.12
66 36 0.47
67 11 0.14
68 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (64 bp):
ATATATAATATATACTTCTGAAAACATTTTTTAATATATATAGTTTTAAAACATTTTTAAAAAT
Found at i:3895799 original size:35 final size:37
Alignment explanation
Indices: 3895726--3895803 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
3895716 AGAATTTTTC
* * * *
3895726 TATAGTATATAGTTTTGAAAATATTTTTGAAAATATA
1 TATAATATATACTTCTGAAAACATTTTTGAAAATATA
*
3895763 TATAATATATACTTCTGAAAACATTTTTTAAAATATA
1 TATAATATATACTTCTGAAAACATTTTTGAAAATATA
3895800 TATA
1 TATA
3895804 GTTTTAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TATAATATATACTTCTGAAAACATTTTTGAAAATATA
Found at i:3899387 original size:2 final size:2
Alignment explanation
Indices: 3899380--3899418 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3899370 GTTAAATAAG
3899380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3899419 TAAAAGTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3900564 original size:125 final size:125
Alignment explanation
Indices: 3900339--3900578 Score: 313
Period size: 125 Copynumber: 1.9 Consensus size: 125
3900329 ATACACATTA
* * * *
3900339 AGAATAAGATTTAAATTCGATCCGAACCAAATTGATTTAAAAAATAAGAACTCCAATTTGATTAA
1 AGAATAAGATTCAAATTCGATCCGAACCAAATCGATTAAAAAAATAAGAACTCCAATTTGACTAA
* * *
3900404 AATTAAAAAAGTGTATTTTATTTTATGTCAATAAGAATAAGGAACATAGTATTCAGTGTT
66 AATTAAAAAAGTATATTCTATTTTATGTCAATAAGAATAAGAAACATAGTATTCAGTGTT
* * * *
3900464 AGAATATGATTCAAATTCGATCCGAATCAAATCGATTAAAAAAATAAGAAACT-TAATTTGACTG
1 AGAATAAGATTCAAATTCGATCCGAACCAAATCGATTAAAAAAATAAG-AACTCCAATTTGACTA
* * * *
3900528 AAATT-AAAAAGTATATTCTATTTTATGTTGATTAAGAGTCAGAAACATAGT
65 AAATTAAAAAAGTATATTCTATTTTATG-TCAATAAGAATAAGAAACATAGT
3900579 TTGAATAAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
124 20 0.20
125 74 0.76
126 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (125 bp):
AGAATAAGATTCAAATTCGATCCGAACCAAATCGATTAAAAAAATAAGAACTCCAATTTGACTAA
AATTAAAAAAGTATATTCTATTTTATGTCAATAAGAATAAGAAACATAGTATTCAGTGTT
Found at i:3901072 original size:20 final size:19
Alignment explanation
Indices: 3901028--3901069 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3901018 TTCTTATAAT
3901028 AATTAACACAAAAACTAGC
1 AATTAACACAAAAACTAGC
3901047 AATTAACACAAAAACTAGC
1 AATTAACACAAAAACTAGC
3901066 AATT
1 AATT
3901070 TAAGATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.19, G:0.05, T:0.19
Consensus pattern (19 bp):
AATTAACACAAAAACTAGC
Found at i:3901367 original size:17 final size:17
Alignment explanation
Indices: 3901345--3901379 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3901335 AAAGGATGGT
3901345 GTTGTCACGTTCGATGA
1 GTTGTCACGTTCGATGA
3901362 GTTGTCACGTTCGATGA
1 GTTGTCACGTTCGATGA
3901379 G
1 G
3901380 CACGAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (17 bp):
GTTGTCACGTTCGATGA
Found at i:3902713 original size:2 final size:2
Alignment explanation
Indices: 3902706--3902762 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
3902696 TTGTTACCAT
3902706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3902748 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
3902763 TATGTTGTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3903483 original size:21 final size:21
Alignment explanation
Indices: 3903432--3903484 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3903422 ATTCTGACTA
3903432 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
3903453 TTGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
3903474 TCGCAATGCGA
1 TCGCATTGCGA
3903485 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:3903499 original size:20 final size:20
Alignment explanation
Indices: 3903474--3903546 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
3903464 TTTTCCTAAT
3903474 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
3903494 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
3903514 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
* *
3903534 TCTCAACGCGAAT
1 TCGCAATGCGAAT
3903547 TTGACTATCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:3903564 original size:20 final size:20
Alignment explanation
Indices: 3903474--3903564 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
3903464 TTTTCCTAAT
*
3903474 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
*
3903494 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATATGTAAA
3903514 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* * * *
3903534 TCTCAACGCGAATTTG-ACTA
1 TCGCAATGCGAATATGTA-AA
3903554 TCGCAATGCGA
1 TCGCAATGCGA
3903565 TTTACATAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
19 1 0.02
20 62 0.98
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:3903768 original size:22 final size:22
Alignment explanation
Indices: 3903743--3903808 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
3903733 GGCGACATCC
3903743 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3903765 GTCCCCATCTCTGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3903787 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
3903809 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:3904183 original size:33 final size:34
Alignment explanation
Indices: 3904133--3904205 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
3904123 ACTATCGCAA
* ** *
3904133 TGCGATTCTGTCGTTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
3904166 TGCGATTCT-TGCATTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CATTGCGATAGTCAAATTCGCGT
3904200 TGCGAT
1 TGCGAT
3904206 AGTCATTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 19 0.56
34 14 0.41
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (34 bp):
TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
Found at i:3904204 original size:20 final size:20
Alignment explanation
Indices: 3904179--3904225 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3904169 GATTCTTGCA
3904179 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
** *
3904199 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCAAATTCGCG
3904219 TTGCGAT
1 TTGCGAT
3904226 TTTCATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:3904231 original size:20 final size:20
Alignment explanation
Indices: 3904193--3904247 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
3904183 GATAGTCAAA
* **
3904193 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
3904213 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
3904233 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
3904248 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:3904255 original size:20 final size:20
Alignment explanation
Indices: 3904212--3904255 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3904202 CGATAGTCAT
** *
3904212 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
3904232 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
3904252 TTTC
1 TTTC
3904256 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:3906162 original size:20 final size:20
Alignment explanation
Indices: 3906137--3906187 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
3906127 AGAATAGTTT
*
3906137 ACTATCGCAATGCAAAAATG
1 ACTATCGCAACGCAAAAATG
*
3906157 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCAAAAATG
3906177 ACTATCGCAAC
1 ACTATCGCAAC
3906188 TAGAGAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (20 bp):
ACTATCGCAACGCAAAAATG
Found at i:3906217 original size:19 final size:19
Alignment explanation
Indices: 3906193--3906330 Score: 64
Period size: 19 Copynumber: 7.7 Consensus size: 19
3906183 GCAACTAGAG
3906193 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3906212 AATCGCAA--C--AA-CAA
1 AATCGCAATGCGAAATGAA
* **
3906226 AATCGCAACGAAAAAATG-A
1 AATCGCAATG-CGAAATGAA
* *
3906245 CATCGCAATGCGAAAATGAC
1 AATCGCAATGCG-AAATGAA
* * * *
3906265 TATCGCAATGCGAATTTTAC
1 AATCGCAATGCGAA-ATGAA
*
3906285 TATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
3906299 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3906318 AATCGCATTGCGA
1 AATCGCAATGCGA
3906331 TTCTCTCATT
Statistics
Matches: 90, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
14 17 0.19
15 2 0.02
16 5 0.06
17 2 0.02
18 4 0.04
19 38 0.42
20 22 0.24
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3906228 original size:53 final size:53
Alignment explanation
Indices: 3906140--3906324 Score: 155
Period size: 53 Copynumber: 3.5 Consensus size: 53
3906130 ATAGTTTACT
* ** * *
3906140 ATCGCAATGCAAAAATGACTATCGCAACGCGAAAATGACTATCGCAACTAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGCGAAAATGACTATCGCAACAAAAGA
* *
3906194 ATCGCAATGCGAAATGAAAATCGCAACAAC-AAAATCG-C-AACG-AA-AAAATGA
1 ATCGCAATGCGAAATGAAAATCGCAAC-GCGAAAAT-GACTATCGCAACAAAA-GA
** * ** * *
3906245 CATCGCAATGCGAAAATGACTATCGCAATGCGAATTTTACTATCGCAACGAAAGA
1 -ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAATGACTATCGCAACAAAAGA
3906300 ATCGCAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
3906325 TTGCGATTCT
Statistics
Matches: 103, Mismatches: 18, Indels: 21
0.73 0.13 0.15
Matches are distributed among these distances:
50 2 0.02
51 4 0.04
52 15 0.15
53 49 0.48
54 26 0.25
55 4 0.04
56 3 0.03
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAACAAAAGA
Found at i:3906230 original size:33 final size:34
Alignment explanation
Indices: 3906160--3906252 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 34
3906150 AAAAATGACT
** * * *
3906160 ATCGCAACGCGAAAATGACTATCGCAACTAGAGA
1 ATCGCAACGCGAAAATGAAAATCGCAACAACAAA
*
3906194 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAAATGAAAATCGCAACAACAAA
** *
3906227 ATCGCAACGAAAAAATG-ACATCGCAA
1 ATCGCAACGCGAAAATGAAAATCGCAA
3906253 TGCGAAAATG
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 33 0.69
34 15 0.31
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGAAAATCGCAACAACAAA
Found at i:3906269 original size:20 final size:20
Alignment explanation
Indices: 3906238--3906292 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3906228 TCGCAACGAA
3906238 AAAATGAC-ATCGCAATGCG
1 AAAATGACTATCGCAATGCG
3906257 AAAATGACTATCGCAATGCG
1 AAAATGACTATCGCAATGCG
** *
3906277 AATTTTACTATCGCAA
1 AAAATGACTATCGCAA
3906293 CGAAAGAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 8 0.25
20 24 0.75
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (20 bp):
AAAATGACTATCGCAATGCG
Found at i:3906366 original size:20 final size:20
Alignment explanation
Indices: 3906337--3906425 Score: 133
Period size: 20 Copynumber: 4.5 Consensus size: 20
3906327 GCGATTCTCT
* **
3906337 CATTGAGATAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
3906357 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
3906377 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
3906397 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
3906417 CGTTGCGAT
1 CATTGCGAT
3906426 TTTAAGTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:3906435 original size:20 final size:20
Alignment explanation
Indices: 3906353--3906435 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 20
3906343 GATAGTCAAA
* * *
3906353 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
* * *
3906373 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
* *
3906393 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTAAGT
**
3906413 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATAGTAAGT
3906433 TTC
1 TTC
3906436 AGATTTTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTAAGT
Found at i:3908595 original size:33 final size:33
Alignment explanation
Indices: 3908549--3908633 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
3908539 TCGCAACGCG
**
3908549 GAAATGACTATCGCAACGAGAGAATCACAATGC
1 GAAATGAAAATCGCAACGAGAGAATCACAATGC
*
3908582 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCACAATGC
3908615 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
3908634 TGAAACTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 31 0.65
34 17 0.35
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCACAATGC
Found at i:3908673 original size:20 final size:19
Alignment explanation
Indices: 3908644--3908763 Score: 80
Period size: 20 Copynumber: 6.7 Consensus size: 19
3908634 TGAAACTAAA
*
3908644 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
3908664 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
3908680 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
3908697 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* **
3908713 CTCG--TTGCGATACTCAT
1 TTCGCATTGCGATTTTCAT
**
3908730 TTCTGCATTGCGATAGTCAAT
1 TTC-GCATTGCGATTTTC-AT
3908751 TTCGCATTGCGAT
1 TTCGCATTGCGAT
3908764 AGTCAATTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
14 12 0.15
16 13 0.16
17 10 0.12
18 4 0.05
19 6 0.07
20 31 0.38
21 5 0.06
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:3908689 original size:14 final size:14
Alignment explanation
Indices: 3908670--3908723 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
3908660 CATTTTCGCA
3908670 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
3908684 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
3908701 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
3908717 TTGCGAT
1 TTGCGAT
3908724 ACTCATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:3908705 original size:33 final size:33
Alignment explanation
Indices: 3908648--3908743 Score: 156
Period size: 33 Copynumber: 2.8 Consensus size: 33
3908638 ACTAAATTCG
3908648 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
3908682 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
**
3908715 CGTTGCGATACTCATTTCTGCATTGCGAT
1 CGTTGCGATTTTCATTTC-GCATTGCGAT
3908744 AGTCAATTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 35 0.59
34 24 0.41
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:3908781 original size:40 final size:41
Alignment explanation
Indices: 3908737--3908813 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
3908727 CATTTCTGCA
3908737 TTGCGATAGTCAATTTCGCATTGCGATAGTCA-ATTCCACG
1 TTGCGATAGTCAATTTCGCATTGCGATAGTCATATTCCACG
* **
3908777 TTGCGATAGTCATTTTCGTGTTGCGATAGTCATATTC
1 TTGCGATAGTCAATTTCGCATTGCGATAGTCATATTC
3908814 GTGTTGCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCAATTTCGCATTGCGATAGTCATATTCCACG
Found at i:3908809 original size:20 final size:20
Alignment explanation
Indices: 3908716--3908823 Score: 105
Period size: 20 Copynumber: 5.4 Consensus size: 20
3908706 CGATTCTCTC
*
3908716 GTTGCGATACTC-ATTTC-T
1 GTTGCGATAGTCAATTTCGT
*
3908734 GCATTGCGATAGTCAATTTCGC
1 G--TTGCGATAGTCAATTTCGT
* * **
3908756 ATTGCGATAGTCAATTCCAC
1 GTTGCGATAGTCAATTTCGT
*
3908776 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCAATTTCGT
3908796 GTTGCGATAGTC-ATATTCGT
1 GTTGCGATAGTCAAT-TTCGT
3908816 GTTGCGAT
1 GTTGCGAT
3908824 TTCCGCGTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
18 1 0.01
19 1 0.01
20 67 0.91
21 5 0.07
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGT
Found at i:3912213 original size:20 final size:20
Alignment explanation
Indices: 3912156--3912218 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
3912146 TCAGTATTGC
*
3912156 GATAGTCAGAATCTCGTTGC
1 GATAGTCAGAATCTCGTTGT
3912176 GATAGTCAGAATCTCGTTGT
1 GATAGTCAGAATCTCGTTGT
* *
3912196 GATAGTCAGATTCGCGTTGT
1 GATAGTCAGAATCTCGTTGT
3912216 GAT
1 GAT
3912219 TTACGTATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (20 bp):
GATAGTCAGAATCTCGTTGT
Found at i:3912228 original size:20 final size:20
Alignment explanation
Indices: 3912205--3912257 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3912195 TGATAGTCAG
* *
3912205 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
3912225 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
3912245 ATTCGCATTGCGA
1 ATTCGCATTGCGA
3912258 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:3914791 original size:18 final size:17
Alignment explanation
Indices: 3914764--3914835 Score: 60
Period size: 18 Copynumber: 4.2 Consensus size: 17
3914754 ATTTTTTTAG
3914764 TATT-TTTTTTAAATAGT
1 TATTATTTTTTAAATA-T
3914781 TATTATTTTTT--ATAT
1 TATTATTTTTTAAATAT
* *
3914796 TAATATATTTATAAATAT
1 TATTAT-TTTTTAAATAT
* *
3914814 TATTTTTTTATTAAATAA
1 TATTATTTT-TTAAATAT
3914832 TATT
1 TATT
3914836 TATATAATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 6 0.14
16 7 0.16
17 7 0.16
18 24 0.55
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (17 bp):
TATTATTTTTTAAATAT
Found at i:3914815 original size:30 final size:33
Alignment explanation
Indices: 3914771--3914851 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 33
3914761 TAGTATTTTT
* *
3914771 TTTAAATAGTTATTATTTTTTATATT-AAT-ATA
1 TTTATATAATTATTATTTTTT-TATTAAATAATA
3914803 TTTATA-AA-TATTATTTTTTTATTAAATAATA
1 TTTATATAATTATTATTTTTTTATTAAATAATA
3914834 TTTATATAATTATTATTT
1 TTTATATAATTATTATTT
3914852 ATTAGAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 4 0.09
30 14 0.33
31 10 0.23
32 7 0.16
33 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TTTATATAATTATTATTTTTTTATTAAATAATA
Found at i:3914833 original size:33 final size:33
Alignment explanation
Indices: 3914773--3914851 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
3914763 GTATTTTTTT
* *
3914773 TAAATAGTTATTATTTTTTATATTAATATATT-TA
1 TAAATA-TTATTTTTTTTTATAATAATAT-TTATA
3914807 TAAATATTATTTTTTTATTA-AATAATATTTATA
1 TAAATATTATTTTTTT-TTATAATAATATTTATA
*
3914840 TAATTATTATTT
1 TAAATATTATTT
3914852 ATTAGAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
32 2 0.05
33 29 0.73
34 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TAAATATTATTTTTTTTTATAATAATATTTATA
Found at i:3914852 original size:29 final size:29
Alignment explanation
Indices: 3914781--3914863 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 29
3914771 TTTAAATAGT
*
3914781 TATTATTTTTTATATTAATATATTTATAAA
1 TATTATTTTTTAT-TAAATATATTTATAAA
*
3914811 TATTATTTTTTTATTAAATAATATTTATATA
1 TATTA-TTTTTTATTAAAT-ATATTTATAAA
*
3914842 -ATTATTATTTATTAGAAT-TATT
1 TATTATTTTTTATTA-AATATATT
3914864 AATTTTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 4 0.09
29 9 0.19
30 16 0.34
31 18 0.38
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (29 bp):
TATTATTTTTTATTAAATATATTTATAAA
Found at i:3914862 original size:16 final size:15
Alignment explanation
Indices: 3914780--3914864 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 15
3914770 TTTTAAATAG
* *
3914780 TTATTATTTTTTATA
1 TTATTATTTATTAAA
*
3914795 TTAATATATTTATAAATA
1 TT-AT-TATTTATTAA-A
*
3914813 TTATTTTTTTATTAAA
1 TTA-TTATTTATTAAA
*
3914829 -TAATATTTA-TATAA
1 TTATTATTTATTA-AA
3914843 TTATTATTTATTAGAA
1 TTATTATTTATTA-AA
3914859 TTATTA
1 TTATTA
3914865 ATTTTTTTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.04
14 7 0.13
15 12 0.22
16 13 0.24
17 16 0.30
18 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (15 bp):
TTATTATTTATTAAA
Found at i:3916472 original size:20 final size:21
Alignment explanation
Indices: 3916447--3916538 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
3916437 ATATGCCACT
* *
3916447 CCGCAGGGTTACATTCCGAG-
1 CCGCAGGGTTACATGCCTAGC
*
3916467 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
3916488 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
3916509 CCGCCA-GGTTACATGCCTAG-
1 CCG-CAGGGTTACATGCCTAGC
3916529 CCGCAGGGTT
1 CCGCAGGGTT
3916539 TATACCATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.03
20 26 0.39
21 37 0.55
22 2 0.03
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:3917090 original size:36 final size:35
Alignment explanation
Indices: 3917050--3917144 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 35
3917040 TAAATGTTTT
3917050 TAAAATACAAATATTATTCGAAATTTAAAATAAAAA
1 TAAAATA-AAATATTATTCGAAATTTAAAATAAAAA
* *
3917086 TAAAAT--AATATTATTC--AATTTAAATTTAAAA
1 TAAAATAAAATATTATTCGAAATTTAAAATAAAAA
* *
3917117 -AATATAAATTATAGTATTCGAAATTTAA
1 TAAAATAAA--ATATTATTCGAAATTTAA
3917145 CATTAAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
30 4 0.08
31 13 0.27
32 1 0.02
33 10 0.20
34 8 0.16
36 13 0.27
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (35 bp):
TAAAATAAAATATTATTCGAAATTTAAAATAAAAA
Found at i:3917821 original size:100 final size:100
Alignment explanation
Indices: 3917648--3917845 Score: 387
Period size: 100 Copynumber: 2.0 Consensus size: 100
3917638 TATCTAGTGT
3917648 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
3917713 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGATC
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGATC
*
3917748 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
3917813 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGA
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGA
3917846 AATAATAGGT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.19
Consensus pattern (100 bp):
CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
GCCCCCGGGAACGCGCCTTCACGTGAATAGTGATC
Found at i:3917922 original size:225 final size:224
Alignment explanation
Indices: 3917522--3917970 Score: 873
Period size: 225 Copynumber: 2.0 Consensus size: 224
3917512 TTTAAGTTAT
3917522 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
3917587 GCGCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCG
66 GCGCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCG
3917652 AGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCC
131 AGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCC
3917717 CCGGGAACGCGCCTTCACGTGAATAGTGA
196 CCGGGAACGCGCCTTCACGTGAATAGTGA
3917746 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
3917811 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCC
66 GCG-CCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGT-CC
3917876 CGAGGGACATGAATGACATAATAGGGCAATGATAAT-TTCTCTGACGAAATAATGGAAGGCGCGC
129 CGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGC
3917940 CCCCGGGAACGCGCCTTCACGTGAATAGTGA
194 CCCCGGGAACGCGCCTTCACGTGAATAGTGA
3917971 ACCGATTATA
Statistics
Matches: 223, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
224 68 0.30
225 117 0.52
226 38 0.17
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (224 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCG
AGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCC
CCGGGAACGCGCCTTCACGTGAATAGTGA
Found at i:3917969 original size:125 final size:127
Alignment explanation
Indices: 3917740--3917971 Score: 441
Period size: 125 Copynumber: 1.8 Consensus size: 127
3917730 TTCACGTGAA
*
3917740 TAGTGATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATG
1 TAGTGATCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATG
3917805 GAAGGCGCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATC
66 GAAGGCGCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATC
3917867 TAGTG-TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAAT-TTCTCTGACGAAATAATG
1 TAGTGATCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATG
3917930 GAAGGCGCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GAAGGCGCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
3917972 CCGATTATAG
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
125 60 0.58
126 39 0.38
127 5 0.05
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (127 bp):
TAGTGATCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATG
GAAGGCGCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATC
Found at i:3918058 original size:15 final size:15
Alignment explanation
Indices: 3918040--3918078 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3918030 CACAATCTTT
3918040 CAAATTCTCAATTCC
1 CAAATTCTCAATTCC
* * *
3918055 CAAACTCTAAATTCT
1 CAAATTCTCAATTCC
3918070 CAAATTCTC
1 CAAATTCTC
3918079 TGAAAATGAG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (15 bp):
CAAATTCTCAATTCC
Found at i:3920312 original size:181 final size:182
Alignment explanation
Indices: 3920008--3920373 Score: 693
Period size: 181 Copynumber: 2.0 Consensus size: 182
3919998 GGCGTTGGTC
3920008 AAAACGACTTATTTTCGTTTGGGTCAACTCTTTGCAAAACTCGGTGGACAGCTCTTACTTGGATG
1 AAAACGACTTATTTTCGTTTGGGTCAACTCTTTGCAAAACTCGGTGGACAGCTCTTACTTGGATG
3920073 CAAAACGGACATATTTACCACCCAAGACTAGTAGCCGATTTACAGAAAAAATGGCTACATCAAAT
66 CAAAACGGACATATTTACCACCCAAGACTAGTAGCCGATTTACAGAAAAAATGGCTACATCAAAT
3920138 GGGATGTT-GTTACAAATTTTTCTCGCACCCGTGAATTGTTTCGTGTAACCG
131 GGGATGTTAGTTACAAATTTTTCTCGCACCCGTGAATTGTTTCGTGTAACCG
3920189 AAAACGACTTATTTTCGTTTGGGTCAACTCTTTGCAAAACTCGGTGGACAAGCTCTTACTTGGAT
1 AAAACGACTTATTTTCGTTTGGGTCAACTCTTTGCAAAACTCGGTGGAC-AGCTCTTACTTGGAT
3920254 GCAAAACGGACAT-TTTACCACCCAAGACTAGTA-CCGATTTACAGAAAAAAATGGCTACATCAA
65 GCAAAACGGACATATTTACCACCCAAGACTAGTAGCCGATTTACAG-AAAAAATGGCTACATCAA
3920317 ATGGGATGTTAGTTACAAATTTTTCTCGCACCCGTGAATTGTTTCGTGTAACCG
129 ATGGGATGTTAGTTACAAATTTTTCTCGCACCCGTGAATTGTTTCGTGTAACCG
3920371 AAA
1 AAA
3920374 TGCCACGTCC
Statistics
Matches: 182, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
180 11 0.06
181 97 0.53
182 74 0.41
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (182 bp):
AAAACGACTTATTTTCGTTTGGGTCAACTCTTTGCAAAACTCGGTGGACAGCTCTTACTTGGATG
CAAAACGGACATATTTACCACCCAAGACTAGTAGCCGATTTACAGAAAAAATGGCTACATCAAAT
GGGATGTTAGTTACAAATTTTTCTCGCACCCGTGAATTGTTTCGTGTAACCG
Found at i:3923379 original size:29 final size:29
Alignment explanation
Indices: 3923344--3923425 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
3923334 AAACTAAATT
*
3923344 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
3923373 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
3923402 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
3923426 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:3923789 original size:10 final size:10
Alignment explanation
Indices: 3923774--3923803 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
3923764 CTGAGTTCTG
3923774 ACGCACCGCC
1 ACGCACCGCC
3923784 ACGCACCGCC
1 ACGCACCGCC
3923794 ACGCACCGCC
1 ACGCACCGCC
3923804 GGAAGACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (10 bp):
ACGCACCGCC
Found at i:3928028 original size:29 final size:29
Alignment explanation
Indices: 3927991--3928072 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
3927981 AAACTAAATT
*
3927991 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
* *
3928020 GATGCCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
3928049 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
3928073 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:3929419 original size:241 final size:242
Alignment explanation
Indices: 3928991--3929463 Score: 779
Period size: 241 Copynumber: 2.0 Consensus size: 242
3928981 ACTGTTTACG
* * *
3928991 AGGTTTTCATGGATTCATACGTGACTGTAAACTGCAAGAAAAGAATAGGTATATAAATAGAAAAT
1 AGGTTTTCACGGATTCATACGTGACTGTAAACTGCAAGAAAAGAATAGGTAGATAAATAGAAAAG
*
3929056 AATTGAATAAGGCCACTTGTCGTTTAATGGGTTAGTTACGTGGATTTCAATGTTGCTTCAGACAC
66 AATTGAATAAGGCCACTTGTCGTTTAATGGCTTAGTTACGTGGATTTCAATGTTGCTTCAGACAC
* * * *
3929121 GGTCTGTCAGCCGATATTGCTTTAAACCCTCCCCTAGGCCCCCACTTTTTGACCTTTTATTTCCC
131 AGTCTGTCAGCCGACATTGCTTTAAACCCTCCCCTAGACCCCCACTTTTTCACCTTTTATTTCCC
* *
3929186 CTCGCCTGGATTTTGACGTCT-CCTCCTTTTTCATCAATTTATTGCC
196 CTCGCCTGGATTTTGACATCTCCCTCCTTTCTCATCAATTTATTGCC
* *
3929232 AGGTTTTCACGGATTCATACGTGACTGTAAACTGCGAGAAAAGAATATGTAGATAAATAGAAAAG
1 AGGTTTTCACGGATTCATACGTGACTGTAAACTGCAAGAAAAGAATAGGTAGATAAATAGAAAAG
* *
3929297 AATTGAATAGGGCCACTTGTCGTTTGAT-GCTTAGTTACGTGGATTTCAATGTTGCTTCAGACAC
66 AATTGAATAAGGCCACTTGTCGTTTAATGGCTTAGTTACGTGGATTTCAATGTTGCTTCAGACAC
3929361 AGTCTGTCAGCCGACATTGCTTTAAATCCCTCCCCTAGACCCCCACTTTTTCACCTTTTATTTCC
131 AGTCTGTCAGCCGACATTGCTTTAAA-CCCTCCCCTAGACCCCCACTTTTTCACCTTTTATTTCC
*
3929426 CCTGGCCTGGATTTTGACATCTCCCCTCCTTTCTCATC
195 CCTCGCCTGGATTTTGACATCT-CCCTCCTTTCTCATC
3929464 GAATCATGAT
Statistics
Matches: 214, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
240 59 0.28
241 142 0.66
243 13 0.06
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (242 bp):
AGGTTTTCACGGATTCATACGTGACTGTAAACTGCAAGAAAAGAATAGGTAGATAAATAGAAAAG
AATTGAATAAGGCCACTTGTCGTTTAATGGCTTAGTTACGTGGATTTCAATGTTGCTTCAGACAC
AGTCTGTCAGCCGACATTGCTTTAAACCCTCCCCTAGACCCCCACTTTTTCACCTTTTATTTCCC
CTCGCCTGGATTTTGACATCTCCCTCCTTTCTCATCAATTTATTGCC
Found at i:3931178 original size:33 final size:33
Alignment explanation
Indices: 3931120--3931201 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
3931110 CTTTATTTTG
* *
3931120 TTCGAGTCAGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
3931152 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
3931185 TTCGGGTCGGGTTGGGT
1 TTCGGGTCGGGTCGGGT
3931202 CGGGTTCGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 14 0.30
33 32 0.70
ACGTcount: A:0.12, C:0.10, G:0.38, T:0.40
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:3931803 original size:17 final size:18
Alignment explanation
Indices: 3931781--3931827 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
3931771 TATGGAATTG
*
3931781 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
3931798 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
3931816 GATTCCAATTCC
1 GATTCCAATTCC
3931828 CTCATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:3935183 original size:30 final size:30
Alignment explanation
Indices: 3935117--3935183 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
3935107 TTGAGATTTT
* *
3935117 TAAAACAATTAATTAAGCCCTTAAACTTTA
1 TAAAACAAATAATTAAGCCCTCAAACTTTA
* * *
3935147 TCAAACAAATAATTAAGCTCTCAAACTTTC
1 TAAAACAAATAATTAAGCCCTCAAACTTTA
3935177 TAAAACA
1 TAAAACA
3935184 TCAATGGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.30
Consensus pattern (30 bp):
TAAAACAAATAATTAAGCCCTCAAACTTTA
Found at i:3936503 original size:9 final size:8
Alignment explanation
Indices: 3936475--3936519 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
3936465 GTCCCTATAT
3936475 TATAATTA
1 TATAATTA
*
3936483 TATTATTA
1 TATAATTA
3936491 TATAATGTA
1 TATAAT-TA
3936500 TAT-ATTA
1 TATAATTA
3936507 TATAATTTA
1 TATAA-TTA
3936516 TATA
1 TATA
3936520 TCCTCTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 5 0.16
8 15 0.47
9 12 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (8 bp):
TATAATTA
Found at i:3936519 original size:16 final size:16
Alignment explanation
Indices: 3936475--3936520 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
3936465 GTCCCTATAT
3936475 TATAA-TTATATTATTA
1 TATAATTTATA-TATTA
*
3936491 TATAATGTATATATTA
1 TATAATTTATATATTA
3936507 TATAATTTATATAT
1 TATAATTTATATAT
3936521 CCTCTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATAATTTATATATTA
Found at i:3938194 original size:27 final size:26
Alignment explanation
Indices: 3938140--3938195 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
3938130 TTTTTTTCTC
* *
3938140 TTTTTATTTAATATTTATTTTTATTT
1 TTTTTATTTAATATTTATTTTGACTT
3938166 TTTTTAATTTAATATTCT-TTTTGACTT
1 TTTTT-ATTTAATATT-TATTTTGACTT
3938193 TTT
1 TTT
3938196 CAGTAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
27 20 0.77
28 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (26 bp):
TTTTTATTTAATATTTATTTTGACTT
Done.