Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008281.1 Hibiscus syriacus cultivar Beakdansim tig00110943_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: 2054746
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1600061 original size:12 final size:12
Alignment explanation
Indices: 1600037--1600070 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1600027 GCAAATATTC
1600037 AAATATAAAATGA
1 AAATAT-AAATGA
*
1600050 AAATGTAAATGA
1 AAATATAAATGA
1600062 AAATATAAA
1 AAATATAAA
1600071 AAATGCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AAATATAAATGA
Found at i:1600073 original size:21 final size:21
Alignment explanation
Indices: 1600049--1600102 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1600039 ATATAAAATG
* *
1600049 AAAATGTAAATGAAAATATAA
1 AAAATGCAAATGAAAACATAA
*
1600070 AAAATGCAAATGCAAACATAA
1 AAAATGCAAATGAAAACATAA
1600091 AAAATGCAAATG
1 AAAATGCAAATG
1600103 TAATGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.63, C:0.07, G:0.11, T:0.19
Consensus pattern (21 bp):
AAAATGCAAATGAAAACATAA
Found at i:1601705 original size:15 final size:15
Alignment explanation
Indices: 1601682--1601711 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1601672 ACGAGGCTAG
1601682 AATTACAACAACAAC
1 AATTACAACAACAAC
*
1601697 AATTCCAACAACAAC
1 AATTACAACAACAAC
1601712 TATGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTACAACAACAAC
Found at i:1604798 original size:39 final size:40
Alignment explanation
Indices: 1604749--1604831 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 40
1604739 TATTGAAGGA
*
1604749 GATATGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGT-
1 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1604788 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1604828 GATA
1 GATA
1604832 ACAAATCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (40 bp):
GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
Found at i:1605158 original size:29 final size:29
Alignment explanation
Indices: 1605116--1605197 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
1605106 AAACTAAATT
1605116 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1605145 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
1605174 GATGTTATGGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1605198 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1611684 original size:16 final size:16
Alignment explanation
Indices: 1611663--1611702 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
1611653 TTTAGGAGTA
1611663 AGGTTTTGTCTCATAC
1 AGGTTTTGTCTCATAC
1611679 AGGTTTTGTCTCATAC
1 AGGTTTTGTCTCATAC
1611695 AGGTTTTG
1 AGGTTTTG
1611703 GAACTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (16 bp):
AGGTTTTGTCTCATAC
Found at i:1619471 original size:19 final size:19
Alignment explanation
Indices: 1619447--1619494 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
1619437 CAAAGCGAGA
1619447 GAATGCTTTGTGAAACAAT
1 GAATGCTTTGTGAAACAAT
*
1619466 GAATGCTTTGTGAAATAAT
1 GAATGCTTTGTGAAACAAT
1619485 GAATGCTTTG
1 GAATGCTTTG
1619495 ATGGCCCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (19 bp):
GAATGCTTTGTGAAACAAT
Found at i:1621511 original size:20 final size:20
Alignment explanation
Indices: 1621469--1621511 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1621459 TTGTTTTCAT
* *
1621469 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
1621489 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
1621509 TTT
1 TTT
1621512 GTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:1623541 original size:65 final size:64
Alignment explanation
Indices: 1623427--1623637 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
1623417 TGCACTAAGA
* * *
1623427 GTGCATCGATGCATGAAGTGCATTCGATGTTTTAA--AAAT-AGCCTGGTGCATCGATGCATGGC
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTAATTAAATCAG---AGTGCATCGATGCATGGA
1623489 TT
63 TT
* * **
1623491 GTGCATCGATGCATCAAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGAAGA
1 GTGCATCGATGCAT-GAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGGATT
* * *
1623556 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATTTATTCATTGA-TGCATCGATGCATGGTA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTAATTAAATCA--GAGTGCATCGATGCATGG-A
1623620 TT
63 TT
*
1623622 GATGCATCGGTGCATG
1 G-TGCATCGATGCATG
1623638 CTTTTGAAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
64 39 0.31
65 62 0.50
66 4 0.03
67 17 0.14
68 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTAATTAAATCAGAGTGCATCGATGCATGGATT
Found at i:1623558 original size:19 final size:19
Alignment explanation
Indices: 1623534--1623584 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
1623524 TAATTAAATC
1623534 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
1623553 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
1623572 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1623585 TTTCAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 20 0.65
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:1623622 original size:21 final size:21
Alignment explanation
Indices: 1623598--1623637 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1623588 CAATTTATTC
1623598 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
1623619 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1623638 CTTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:1623644 original size:21 final size:21
Alignment explanation
Indices: 1623598--1623644 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1623588 CAATTTATTC
*
1623598 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGCT
*
1623619 ATTGATGCATCGGTGCATGCT
1 ATTGATGCATCGATGCATGCT
*
1623640 TTTGA
1 ATTGA
1623645 AAAATTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGCT
Found at i:1623997 original size:30 final size:30
Alignment explanation
Indices: 1623961--1624063 Score: 197
Period size: 30 Copynumber: 3.4 Consensus size: 30
1623951 CCCTAAACTG
*
1623961 TTTCCAAATTTTCTACTTTAACCATCAAAC
1 TTTCCAAATTTTCTACTTTGACCATCAAAC
1623991 TTTCCAAATTTTCTACTTTGACCATCAAAC
1 TTTCCAAATTTTCTACTTTGACCATCAAAC
1624021 TTTCCAAATTTTCTACTTTGACCATCAAAC
1 TTTCCAAATTTTCTACTTTGACCATCAAAC
1624051 TTTCCAAATTTTC
1 TTTCCAAATTTTC
1624064 ATTTTGGTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (30 bp):
TTTCCAAATTTTCTACTTTGACCATCAAAC
Found at i:1628247 original size:54 final size:54
Alignment explanation
Indices: 1628163--1628647 Score: 700
Period size: 54 Copynumber: 9.0 Consensus size: 54
1628153 TGAATATTTT
* * * * * *
1628163 AACTCATTATAAATTTCATGGTTTTGCACACATAGTGTCGATATGGTAATTCACA
1 AACTCATTATGAATTACGTGG-GTTGCACACATAGTGCCGATACGGTAATTCACA
* *
1628218 AACTCATTTTGAATTACGTGGGTTGCACACATAGTGCTGATACGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* *
1628272 AACTCATTATGAATTACGTGGGTTGCACACATAATGTCGATACGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* * *
1628326 AACTCATTATGAATTATGTGGGTTGCACACATAGTACCGATACGGTAATTTACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* ** * *
1628380 AACTCATTATGAATTGCGTGGGTTGCACACATAGTGCTAATACGGTAACTCATA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* * * *
1628434 AACTCATTATGAATTACGTGGATTGCACACATAGTGCCAATATGGTAATTCATA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* * *
1628488 AACTCGTTATGAATTACGTGGGTTGCACATATAGTGCCAATACGGTAATTCACA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* *
1628542 AACTCATTATGAATTACATGGGTTGCACACATAGTGCCGATACGGTAATTCATA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
* *
1628596 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCAATATGGTAATTCA
1 AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCA
1628648 ACATATACAT
Statistics
Matches: 387, Mismatches: 43, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
54 370 0.96
55 17 0.04
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (54 bp):
AACTCATTATGAATTACGTGGGTTGCACACATAGTGCCGATACGGTAATTCACA
Found at i:1628978 original size:20 final size:20
Alignment explanation
Indices: 1628953--1629006 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
1628943 AGACTGAATA
1628953 GTATCGATACCCCTCCTATG
1 GTATCGATACCCCTCCTATG
* *
1628973 GTATCGATACTTCTCTTCTATG
1 GTATCGATAC--CCCTCCTATG
1628995 GTATCGATACCC
1 GTATCGATACCC
1629007 ACTTCGCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (20 bp):
GTATCGATACCCCTCCTATG
Found at i:1630999 original size:37 final size:38
Alignment explanation
Indices: 1630939--1631016 Score: 113
Period size: 37 Copynumber: 2.0 Consensus size: 38
1630929 AGGGACATGT
*
1630939 GAAGAAGAAGAAAAAGCTCAAGAAGCTCGCCTATAGTTTA
1 GAAGAAGAAGAAAAAG--CAAGAAGCTCGACTATAGTTTA
*
1630979 GAAGAAGAAGAAGAAG-AAGAAGCTCGACTATAGTTTA
1 GAAGAAGAAGAAAAAGCAAGAAGCTCGACTATAGTTTA
1631016 G
1 G
1631017 GGGGATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 21 0.58
40 15 0.42
ACGTcount: A:0.46, C:0.12, G:0.26, T:0.17
Consensus pattern (38 bp):
GAAGAAGAAGAAAAAGCAAGAAGCTCGACTATAGTTTA
Found at i:1634026 original size:18 final size:17
Alignment explanation
Indices: 1633996--1634037 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
1633986 CTTTAAAAAC
1633996 ATTATATTTATTATTATA
1 ATTAT-TTTATTATTATA
*
1634014 ATTATTTTGATTATTATT
1 ATTATTTT-ATTATTATA
1634032 ATTATT
1 ATTATT
1634038 ATAAGTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
ATTATTTTATTATTATA
Found at i:1647316 original size:24 final size:24
Alignment explanation
Indices: 1647275--1647329 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
1647265 CTATGCTTGA
*
1647275 AGAAAAAAAGGAACAAATAAAAAG
1 AGAAAAAAAGGAAAAAATAAAAAG
* * *
1647299 ATAAAAAAATGAAAAAATGAAAAG
1 AGAAAAAAAGGAAAAAATAAAAAG
1647323 AGAAAAA
1 AGAAAAA
1647330 GGAAGGTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (24 bp):
AGAAAAAAAGGAAAAAATAAAAAG
Found at i:1648440 original size:136 final size:134
Alignment explanation
Indices: 1648197--1648552 Score: 518
Period size: 136 Copynumber: 2.6 Consensus size: 134
1648187 GGAGGTGAAC
* * *
1648197 CAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGG-AGAAGTTCATAAT
1 CAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAAAAAGTTCATAAT
* *
1648261 GAGAAGAGCTTGTTCGACCTATAACTCGATTCACGTCATTTCGAATTAGTGACACCTCGCTTGAG
66 GAGAAGAGCTTGTTCGACCTATAACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAG
1648326 GGAT
131 GGAT
* *
1648330 CAACATTTCCAGTGAAGAGTTCATAATAAGAAGAACTCATCTGACAGAGGGATAAAAGGTTCATA
1 CAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGA-AAAA-GTTCATA
* * * * *
1648395 ATGAGAAGAGCTTGTTTGACCTATCACTCGATTGACGACATTTCGAATCAGTGATACCTTGCTTG
64 ATGAGAAGAGCTTGTTCGACCTATAACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTG
1648460 AGGGAT
129 AGGGAT
*
1648466 CAACATTTTCAATGAAGAGTTCATAATGAGAAGAACTCAT-TCGACAGAGGGAGAAGAAGTTCAT
1 CAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCT-GACAGAGGGA-AA-AAGTTCAT
* *
1648530 AATGAGAAGAACTTGTTCAACCT
63 AATGAGAAGAGCTTGTTCGACCT
1648553 TGCATCAATG
Statistics
Matches: 199, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
133 47 0.24
135 4 0.02
136 146 0.73
137 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (134 bp):
CAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAAAAAGTTCATAAT
GAGAAGAGCTTGTTCGACCTATAACTCGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAG
GGAT
Found at i:1648642 original size:91 final size:90
Alignment explanation
Indices: 1648475--1648730 Score: 397
Period size: 91 Copynumber: 2.8 Consensus size: 90
1648465 TCAACATTTT
* *
1648475 CAATGAAGAGTTCATAATGAGAAGAACTCATTCGACAGAGGGAGAAGAAGTTCATAATGAGAAGA
1 CAATGAAGAGTTCATAATGAGAAGAACTCA-TCCACA-AGGAAGAAGAAGTTCATAATGAGAAGA
1648540 ACTTGTTCAACCTTGCATCAATGTTTC
64 ACTTGTTCAACCTTGCATCAATGTTTC
* * *
1648567 CAATGGAGAGTTCATAATAAGAAGAACTCATCCAACAAGGAAGAAGAAGTTCATAATGAGAATAA
1 CAATGAAGAGTTCATAATGAGAAGAACTCATCC-ACAAGGAAGAAGAAGTTCATAATGAGAAGAA
1648632 CTTGTTCAACCTTGCATCAATGTTTC
65 CTTGTTCAACCTTGCATCAATGTTTC
** *
1648658 CAATGAAGAGTTCATAGCGAGAAGAACTCATCCACAA-GAGAGAATAAGTTCATAATGAGAAGAA
1 CAATGAAGAGTTCATAATGAGAAGAACTCATCCACAAGGA-AGAAGAAGTTCATAATGAGAAGAA
1648722 CTTGTTCAA
65 CTTGTTCAA
1648731 TCAAATAACG
Statistics
Matches: 151, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
89 2 0.01
90 35 0.23
91 83 0.55
92 31 0.21
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (90 bp):
CAATGAAGAGTTCATAATGAGAAGAACTCATCCACAAGGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTGCATCAATGTTTC
Found at i:1648872 original size:3 final size:3
Alignment explanation
Indices: 1648864--1648917 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
1648854 AACATTATAT
* * * * * *
1648864 TTA TTA TTA TAA TTT TTA TTA TTA TTA TTA TTA TAA GTA TTG TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1648912 TTA TTA
1 TTA TTA
1648918 ATAATAATAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1648874 original size:12 final size:12
Alignment explanation
Indices: 1648857--1648898 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
1648847 CTTTAAAAAC
1648857 ATTATATTTATT
1 ATTATATTTATT
1648869 ATTATAATTT-TT
1 ATTAT-ATTTATT
1648881 ATTAT-TATTATT
1 ATTATAT-TTATT
1648893 ATTATA
1 ATTATA
1648899 AGTATTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 2 0.08
12 19 0.73
13 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATATTTATT
Found at i:1665491 original size:39 final size:40
Alignment explanation
Indices: 1665448--1665530 Score: 150
Period size: 39 Copynumber: 2.1 Consensus size: 40
1665438 TATTGAAGGA
*
1665448 GATAGGTTTGATACAAGAAGAGTCTACCAAGGTTTTTGT-
1 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1665487 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1 GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
1665527 GATA
1 GATA
1665531 ACAAATCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (40 bp):
GATAGGTTTGATACAAGAAGAGCCTACCAAGGTTTTTGTC
Found at i:1665853 original size:29 final size:29
Alignment explanation
Indices: 1665814--1665896 Score: 132
Period size: 29 Copynumber: 2.8 Consensus size: 29
1665804 CAAACTAAAT
1665814 TGATGTCATTGCTTACATCATTTAAGTAAA
1 TGATGTCATTGCTTACATCATTTAAGT-AA
1665844 T-ATGTCATTGCTTACATCATTTAAGTAA
1 TGATGTCATTGCTTACATCATTTAAGTAA
*
1665872 TGATGTTATTGCTTACATCAATTTA
1 TGATGTCATTGCTTACATC-ATTTA
1665897 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
28 3 0.06
29 41 0.82
30 6 0.12
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.43
Consensus pattern (29 bp):
TGATGTCATTGCTTACATCATTTAAGTAA
Found at i:1676675 original size:2 final size:2
Alignment explanation
Indices: 1676668--1676694 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1676658 CTAATTGAAA
1676668 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
1676695 GTTATTATTG
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:1676813 original size:40 final size:41
Alignment explanation
Indices: 1676746--1676823 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
1676736 AACTCAACCC
1676746 GACCTGAACATAAATTTTTTAAAAAAAATCAGACCCAAATT
1 GACCTGAACATAAATTTTTTAAAAAAAATCAGACCCAAATT
* * * **
1676787 GACC-GAACCTAATTTTTTTAACAAAAATTGGACCCAA
1 GACCTGAACATAAATTTTTTAAAAAAAATCAGACCCAA
1676824 TCAAATCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (41 bp):
GACCTGAACATAAATTTTTTAAAAAAAATCAGACCCAAATT
Found at i:1677849 original size:18 final size:17
Alignment explanation
Indices: 1677828--1677875 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
1677818 CCTGTTAAAA
1677828 ATAATAAACTAAATTAAT
1 ATAATAAA-TAAATTAAT
* *
1677846 ATAATTATTAAATTTAAT
1 ATAATAAATAAA-TTAAT
1677864 ATAA-AAATAAAT
1 ATAATAAATAAAT
1677876 ACTTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATAAATAAATTAAT
Found at i:1679256 original size:18 final size:19
Alignment explanation
Indices: 1679228--1679272 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
1679218 TCGGTTAGGT
*
1679228 TTTATATATATTAT-AAATA
1 TTTAAATATA-TATCAAATA
1679247 -TTAAATATATATCAAATA
1 TTTAAATATATATCAAATA
1679265 TTTAAATA
1 TTTAAATA
1679273 AAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 13 0.57
19 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTAAATATATATCAAATA
Found at i:1680879 original size:21 final size:21
Alignment explanation
Indices: 1680780--1680879 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 21
1680770 TGTACCCCTG
* *
1680780 ATGGATTATCAATACTACCTG
1 ATGGAGTATCAATACTACCTA
* *
1680801 ATGGAATATCAATACTACCTG
1 ATGGAGTATCAATACTACCTA
* ** *
1680822 ATGGAGTACCTTTACTACTTA
1 ATGGAGTATCAATACTACCTA
** *
1680843 ATGGAGTATCTTTACTACTTA
1 ATGGAGTATCAATACTACCTA
1680864 ATGGAGTATCAATACT
1 ATGGAGTATCAATACT
1680880 CATCTACATC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGGAGTATCAATACTACCTA
Found at i:1684634 original size:32 final size:33
Alignment explanation
Indices: 1684533--1684634 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 33
1684523 CTTGTGAAAG
* * ** *
1684533 AATATTATTTTTCACAATTTTTTATAATGAGAA
1 AATAATATTTGTCACAATTTTTTATTTTGACAA
* * * * * **
1684566 ATTAATATTTGTTATAAATTGTTATTTTGATTA
1 AATAATATTTGTCACAATTTTTTATTTTGACAA
1684599 AATAA-ATTTGTCACAATTTTTTATTTTGACAA
1 AATAATATTTGTCACAATTTTTTATTTTGACAA
1684631 AATA
1 AATA
1684635 TTGAGACTAA
Statistics
Matches: 51, Mismatches: 18, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
32 25 0.49
33 26 0.51
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (33 bp):
AATAATATTTGTCACAATTTTTTATTTTGACAA
Found at i:1685055 original size:12 final size:12
Alignment explanation
Indices: 1685037--1685079 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
1685027 AAAATACGGT
1685037 ATGAACAGTACC
1 ATGAACAGTACC
*
1685049 GTGAACAGTA--
1 ATGAACAGTACC
1685059 ATGAACAGTACC
1 ATGAACAGTACC
1685071 ATGAACAGT
1 ATGAACAGT
1685080 GAAAAATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:1685063 original size:22 final size:22
Alignment explanation
Indices: 1685037--1685079 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1685027 AAAATACGGT
*
1685037 ATGAACAGTACCGTGAACAGTA
1 ATGAACAGTACCATGAACAGTA
1685059 ATGAACAGTACCATGAACAGT
1 ATGAACAGTACCATGAACAGT
1685080 GAAAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (22 bp):
ATGAACAGTACCATGAACAGTA
Found at i:1685852 original size:31 final size:31
Alignment explanation
Indices: 1685772--1685832 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
1685762 TTCATAGATT
*
1685772 CCGAAGAACCTAGGTAAACAGTCCATATGTC
1 CCGAAGAACATAGGTAAACAGTCCATATGTC
1685803 CCGAAGAACATAGGTAAACAGTCCATATGT
1 CCGAAGAACATAGGTAAACAGTCCATATGT
1685833 TCTTATAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CCGAAGAACATAGGTAAACAGTCCATATGTC
Found at i:1686268 original size:33 final size:32
Alignment explanation
Indices: 1686231--1686339 Score: 80
Period size: 33 Copynumber: 3.3 Consensus size: 32
1686221 AATTTGGTAC
1686231 AATTTGTTATTATGAAAGAATATTATTTGTCAT
1 AATTTGTTATTATGAAAGAATA-TATTTGTCAT
* * * *
1686264 AATTTTTTA-TATTG-AGGAATTAATAATTGTTAT
1 AATTTGTTATTA-TGAAAGAA-T-ATATTTGTCAT
* * *
1686297 AACTTGTTATTATGAATA-AATAAATTTGTCAA
1 AATTTGTTATTATGAA-AGAATATATTTGTCAT
*
1686329 AAGTTGTTATT
1 AATTTGTTATT
1686340 TTGAGAAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
32 23 0.40
33 29 0.50
34 6 0.10
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.48
Consensus pattern (32 bp):
AATTTGTTATTATGAAAGAATATATTTGTCAT
Found at i:1689467 original size:421 final size:416
Alignment explanation
Indices: 1688725--1689524 Score: 1103
Period size: 421 Copynumber: 1.9 Consensus size: 416
1688715 AAATTTTTTT
1688725 ATAGTATAATTTTTCATAATGATTAAAATATACAACTAAAAAATATTTGATTACAAAAAAACATG
1 ATAGTATAATTTTTCATAATGATTAAAATATACAACTAAAAAATATTTGATTACAAAAAAACATG
** * *
1688790 AATTTTATTATTTGATGTGAAATTGTTTTTCTATAACAATAGTTATAAATTATAATTACAAAATT
66 AATTTTATTATTTGATGTGAAA-T-TTTTTCTATAACAATAACTATAAACTATAATTACAAAAAT
* * * * *
1688855 TATCAATATAGCTTTTTGAAATAAAAAAAGTGGAGAAAAATATTTATCACAATATATGTTTTCAC
129 TATCAATAAAACTTTTTGAAATAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATCAC
* *
1688920 TATAATTAAAATTTATAACTACAAGTATAATTTCTCACAAAAATGTAAATACCATTATTTTTTGT
194 TATAATTAAAATTTATAACTACAAATATAATTTCTCACAAAAACGTAAATACCATTATTTTTTGT
* *
1688985 GACAATGTTTTTTGTAATAATTACAAACACTTATAGTTACAAAAATTGTTATAATATGATTTTTT
259 GACAATATTTTTTGTAATAATTACAAACACTTATAGTTACAAAAATTATTATAATATGA-TTTTT
* * *
1689050 TTGGTGCAAAAAAAATATATGGAGGAAAATCTTTATGATAATATATTTTATT-ACTATATAACAT
323 TTGGAG--AAAAAAA-ATATGGAGGAAAATATTTATGACAATATATTTT-TTCACTATATAACAT
1689114 TTTTGACAATAAAAAATAGGAAAAATAGATCTG
384 TTTTGACAATAAAAAATAGGAAAAATAGATCTG
* * *
1689147 ATAGTATAATTTTTCATAATGATTAAAATATATAAGTACAAAAATAATTT-ATTAC-AAAAAA-T
1 ATAGTATAATTTTTCATAATGATTAAAATATACAACTA-AAAAAT-ATTTGATTACAAAAAAACA
* *
1689209 TGAATTTTATTATTTGATGTGATAA-TTTTTCTATAACAATAACTCTAAACTATAATTATAAAAA
64 TGAATTTTATTATTTGATGTGA-AATTTTTTCTATAACAATAACTATAAACTATAATTACAAAAA
* * * *
1689273 TTGTTAATAAAAC-TTTTGAAAT-AAAAAAGTGGAGAAACATAGTTATGACAATTAATATATGCT
128 TTATCAATAAAACTTTTTGAAATAAAAAAAGTGGAGAAAAATAGTTAT--C-A-CAATATATGCT
* * * *
1689336 ATCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAACGTGAATATCATTATTT
189 ATCACTATAATTAAAATTTATAACTACAAATATAATTTCTCACAAAAACGTAAATACCATTATTT
** *
1689401 TTTGTGACAATATTTTTTGTAATAATTATTAACACTTATAGTTACAAAATTTATTACT-ATATGA
254 TTTGTGACAATATTTTTTGTAATAATTACAAACACTTATAGTTACAAAAATTATTA-TAATATGA
* *
1689465 TTTTTTTGGAGAAAAAAAATATGGAGGGAAATATTTGTGACAATATATTTTTTCACTATA
318 TTTTTTTGGAGAAAAAAAATATGGAGGAAAATATTTATGACAATATATTTTTTCACTATA
1689525 ATTAAAACAT
Statistics
Matches: 335, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
416 2 0.01
417 57 0.17
418 16 0.05
419 43 0.13
420 11 0.03
421 146 0.44
422 45 0.13
423 11 0.03
424 4 0.01
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.39
Consensus pattern (416 bp):
ATAGTATAATTTTTCATAATGATTAAAATATACAACTAAAAAATATTTGATTACAAAAAAACATG
AATTTTATTATTTGATGTGAAATTTTTTCTATAACAATAACTATAAACTATAATTACAAAAATTA
TCAATAAAACTTTTTGAAATAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATCACTA
TAATTAAAATTTATAACTACAAATATAATTTCTCACAAAAACGTAAATACCATTATTTTTTGTGA
CAATATTTTTTGTAATAATTACAAACACTTATAGTTACAAAAATTATTATAATATGATTTTTTTG
GAGAAAAAAAATATGGAGGAAAATATTTATGACAATATATTTTTTCACTATATAACATTTTTGAC
AATAAAAAATAGGAAAAATAGATCTG
Found at i:1691922 original size:23 final size:23
Alignment explanation
Indices: 1691879--1691923 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1691869 ACATATTAGG
**
1691879 TAACGCTTATATAATGTAATAGA
1 TAACGCTTATATAATAAAATAGA
1691902 TAACGCTTATATAATAAAATAG
1 TAACGCTTATATAATAAAATAG
1691924 GTATTTAACC
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:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TAACGCTTATATAATAAAATAGA
Found at i:1691984 original size:87 final size:87
Alignment explanation
Indices: 1691838--1692000 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
1691828 TATGTTATAT
1691838 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1691903 AACGCTTATATAATAAAATAGG
66 AACGCTTATATAATAAAATAGG
* *
1691925 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
*
1691990 AGCGCTTATAT
66 AACGCTTATAT
1692001 TGACCTATTT
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:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AACGCTTATATAATAAAATAGG
Found at i:1693098 original size:21 final size:21
Alignment explanation
Indices: 1693073--1693137 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
1693063 CCCCTTATGC
* *
1693073 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1693094 CTCTCAAGTTTCTCTTCTACT
1 CTCTCAAGTTTCTCTTCGACT
* *
1693115 CTATCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTCGACT
1693136 CT
1 CT
1693138 TGATTATCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.17, C:0.29, G:0.09, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1693240 original size:15 final size:15
Alignment explanation
Indices: 1693220--1693252 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1693210 ACTATGTTTT
*
1693220 CCCTCACCGTCGTCC
1 CCCTCACCGTCATCC
1693235 CCCTCACCGTCATCC
1 CCCTCACCGTCATCC
1693250 CCC
1 CCC
1693253 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.64, G:0.09, T:0.18
Consensus pattern (15 bp):
CCCTCACCGTCATCC
Found at i:1695615 original size:20 final size:19
Alignment explanation
Indices: 1695569--1695615 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1695559 TCCGGTAGCG
1695569 TTTTACCGGTTTCATCATT
1 TTTTACCGGTTTCATCATT
* *
1695588 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTCATCAT-T
1695609 TTTTACC
1 TTTTACC
1695616 TATTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTTACCGGTTTCATCATT
Found at i:1695842 original size:182 final size:179
Alignment explanation
Indices: 1695363--1695827 Score: 723
Period size: 180 Copynumber: 2.6 Consensus size: 179
1695353 ACGAAAGCAT
*
1695363 CGACACTTTCAATATATCCGGTAGCGTTTTACCAGTTTTATCATTTTGATACCGGTTTTATCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATCATA
1695428 TTTTTACATATTATATCGTTGTGGATCGATACATTTTTTTAAGTATCGACACTTTATAGGCGCTA
66 TTTTTAC-TATTATATCGTTGTGGATCGATACATTTTTTTAAGTATCGACACTTTATAGGCGCTA
* * * *
1695493 AAACTGCTTCTCTTTTAAATTTACAAAGTGTCGATCCTTATATAAAGTAT
130 AAACTACTTCTCTTTTAAATTAACAAAGTGTCGATCATTATATAAAGTAC
* *
1695543 CGATACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCGGTTTTATCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATCATA
*
1695608 TTTTTACCTATTATATCGTTGTAGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCT
66 TTTTTA-CTATTATATCGTTGTGGATCGATACATTTTTTT-AAGTATCGACACTTTATAGGCGCT
*
1695673 AAAACTACTTCTCTTTTAAATTAACGAAGTGTCGATCATTATATTAAAGTAC
129 AAAACTACTTCTCTTTTAAATTAACAAAGTGTCGATCATTATA-TAAAGTAC
* * * ** *
1695725 CGACACTTTAAATATATCCGGTACCGCTTTACCGGTTTTATCATTTCAATACCGGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATCATA
* * *
1695790 GTTTTATCTGTTATATCGTTGTGGATCGATATATTTTT
66 TTTTTA-CTATTATATCGTTGTGGATCGATACATTTTT
1695828 AATTTGGATC
Statistics
Matches: 260, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
180 99 0.38
181 64 0.25
182 97 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (179 bp):
CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTTTATCATA
TTTTTACTATTATATCGTTGTGGATCGATACATTTTTTTAAGTATCGACACTTTATAGGCGCTAA
AACTACTTCTCTTTTAAATTAACAAAGTGTCGATCATTATATAAAGTAC
Found at i:1696299 original size:29 final size:30
Alignment explanation
Indices: 1696258--1696315 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
1696248 ACTTTATTCA
*
1696258 TACATAAAGTATTTCAAATTTTCAATTTCC
1 TACATAAAGTATTACAAATTTTCAATTTCC
* * *
1696288 TACAT-AATTATTAGAAATTTTTAATTTC
1 TACATAAAGTATTACAAATTTTCAATTTC
1696316 ATATATGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (30 bp):
TACATAAAGTATTACAAATTTTCAATTTCC
Found at i:1700421 original size:24 final size:24
Alignment explanation
Indices: 1700394--1700468 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
1700384 TATATAAAAA
* *
1700394 ATCAAAACATAATCCATGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* *
1700418 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * *
1700442 ATTC-GATCAGAATCCAGGTCAAGT
1 A-TCAAAACAAAATCCAGGTCAAGT
1700466 ATC
1 ATC
1700469 CGATCAGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.05
24 40 0.91
25 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:1700491 original size:24 final size:24
Alignment explanation
Indices: 1700404--1700484 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
1700394 ATCAAAACAT
* ** *
1700404 AATCCATGTCAAGTATCATATCAA
1 AATCCAGGTCAAGTATCCGATCAG
*
1700428 AATCCAGGTCAAGTATTCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
1700452 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAG
1700476 AATCCAGGT
1 AATCCAGGT
1700485 TAGGTATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAG
Found at i:1709256 original size:3 final size:3
Alignment explanation
Indices: 1709248--1709371 Score: 203
Period size: 3 Copynumber: 41.0 Consensus size: 3
1709238 TGTAATTAAT
** * *
1709248 TAA TAA TAA TAAA TAA CGA TAA AAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1709294 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1709342 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1709372 AGACCCGGAC
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
3 109 0.97
4 3 0.03
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1709775 original size:135 final size:134
Alignment explanation
Indices: 1709551--1709908 Score: 452
Period size: 135 Copynumber: 2.7 Consensus size: 134
1709541 GTTCGGGTCG
* * * * * *
1709551 TCTAAGGGTGACACAGTTCCTACGTGATGAGGAAATCTGGTCGAGGGATGACACGGCTCATATGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGT
* * * *
1709616 GATGGAGAGTTCTTGACCATCTTTAGG-AAGGGTGATAAC-TCGGTTCCTACGCGATGAGGACGG
66 GATGAAGAGTTC-TGGCCATCTTTAGGTAA-GGCGATAACAT-GGTTCCTACGCGATGAGGAC-A
1709679 T-TGGTTA
127 TCTGGTTA
* * * * *
1709686 TCTATGGTTGACATGGCTCCTACGCGATGAGGAGATCTAGTCGGGGGGATGACACGGCTCATACG
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTC-GGGGGATGACACGGCTCATACG
*
1709751 TGATGAAGAGTTCTGGCCATCTTTAGGTAAGGCGATAACATGGTTCCTACGTGATGAGGACATCT
65 TGATGAAGAGTTCTGGCCATCTTTAGGTAAGGCGATAACATGGTTCCTACGCGATGAGGACATCT
1709816 GGTTA
130 GGTTA
* * ** * *
1709821 TCTAGGGGTGACACGGCTCCTACGTTATGAAGAGATCTGGTAAGGAGATGACACGGCTCACACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGT
1709886 GATGAAGAGTTCTGGCCATCTTT
66 GATGAAGAGTTCTGGCCATCTTT
1709909 CGGGATAATG
Statistics
Matches: 193, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
134 44 0.23
135 114 0.59
136 35 0.18
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (134 bp):
TCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGGATGACACGGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGGTAAGGCGATAACATGGTTCCTACGCGATGAGGACATCTG
GTTA
Found at i:1710078 original size:29 final size:28
Alignment explanation
Indices: 1710040--1710341 Score: 202
Period size: 29 Copynumber: 10.2 Consensus size: 28
1710030 TCAAGAGAGA
*
1710040 CAAAG-TTTTGTTTCAAAAGAAATAGACT
1 CAAAGATTTTGTTTCAAAAGAAACA-ACT
**
1710068 CAAAGATTTTGGTTTCAAAAGAAATGACT
1 CAAAGATTTT-GTTTCAAAAGAAACAACT
* **
1710097 CAAAG-TTTT-TTTCACGAAATTGTATTAAGAGAAA
1 CAAAGATTTTGTTTCA--AAA--G-A--AACA-ACT
* *
1710131 CAAA-ACTTTGGTTCAAAAGAAACAAACT
1 CAAAGATTTTGTTTCAAAAGAAAC-AACT
*
1710159 CAAAGA-ATT-TTTCAAAAGAAACAACT
1 CAAAGATTTTGTTTCAAAAGAAACAACT
*
1710185 CAAAGATTTTTATTTCAAAAGAAACAACT
1 CAAAGA-TTTTGTTTCAAAAGAAACAACT
* *
1710214 CACAGATTTTTATTTCAAAAGAAACAACT
1 CAAAGA-TTTTGTTTCAAAAGAAACAACT
* * *
1710243 CACAGATTTTTATTTCAGAAGAAACAACT
1 CAAAGA-TTTTGTTTCAAAAGAAACAACT
* *
1710272 CACAGACTTTTGTTTCAAGAGAAACAAACT
1 CAAAGA-TTTTGTTTCAAAAGAAAC-AACT
**
1710302 CAAAGATTGGTTTTGTTTCAAGGGAAACAATCT
1 CAAAGA----TTTTGTTTCAAAAGAAACAA-CT
1710335 CAAAGAT
1 CAAAGAT
1710342 GTTTTTTTTA
Statistics
Matches: 230, Mismatches: 22, Indels: 43
0.78 0.07 0.15
Matches are distributed among these distances:
26 15 0.07
27 12 0.05
28 23 0.10
29 109 0.47
30 25 0.11
31 2 0.01
32 2 0.01
33 30 0.13
34 8 0.03
35 4 0.02
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (28 bp):
CAAAGATTTTGTTTCAAAAGAAACAACT
Found at i:1710201 original size:91 final size:90
Alignment explanation
Indices: 1710032--1710195 Score: 215
Period size: 91 Copynumber: 1.8 Consensus size: 90
1710022 AAACTGTCTC
* ** * * * * **
1710032 AAGAGAGACAAAGTTTTGTTTCAAAAGAAATAGACTCAAAGATTTTGGTTTCAAAAGAAATGACT
1 AAGAGAAACAAAACTTTGGTTCAAAAGAAACAAACTCAAAGATATT-GTTTCAAAAGAAACAACT
1710097 CAAAGTTTTTTTCACGAAATTGTATT
65 CAAAGTTTTTTTCACGAAATTGTATT
1710123 AAGAGAAACAAAACTTTGGTTCAAAAGAAACAAACTCAAAGA-ATT-TTTCAAAAGAAACAACTC
1 AAGAGAAACAAAACTTTGGTTCAAAAGAAACAAACTCAAAGATATTGTTTCAAAAGAAACAACTC
*
1710186 AAAGATTTTT
66 AAAGTTTTTT
1710196 ATTTCAAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 25 0.40
90 2 0.03
91 36 0.57
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.29
Consensus pattern (90 bp):
AAGAGAAACAAAACTTTGGTTCAAAAGAAACAAACTCAAAGATATTGTTTCAAAAGAAACAACTC
AAAGTTTTTTTCACGAAATTGTATT
Found at i:1710321 original size:33 final size:29
Alignment explanation
Indices: 1710142--1710358 Score: 210
Period size: 29 Copynumber: 7.4 Consensus size: 29
1710132 AAAACTTTGG
* *
1710142 TTCAAAAGAAACAAACTCAAAGA--ATT-T
1 TTCAAGAGAAAC-AACTCAAAGATTTTTAT
*
1710169 TTCAAAAGAAACAACTCAAAGATTTTTAT
1 TTCAAGAGAAACAACTCAAAGATTTTTAT
* *
1710198 TTCAAAAGAAACAACTCACAGATTTTTAT
1 TTCAAGAGAAACAACTCAAAGATTTTTAT
* *
1710227 TTCAAAAGAAACAACTCACAGATTTTTAT
1 TTCAAGAGAAACAACTCAAAGATTTTTAT
* * *
1710256 TTC-AGAAGAAACAACTCACAGACTTTTGT
1 TTCAAG-AGAAACAACTCAAAGATTTTTAT
*
1710285 TTCAAGAGAAACAAACTCAAAGATTGGTTTTGT
1 TTCAAGAGAAAC-AACTCAAAGA-T--TTTTAT
*
1710318 TTCAAGGGAAACAATCTCAAAGATGTTTT-T
1 TTCAAGAGAAACAA-CTCAAAGAT-TTTTAT
*
1710348 TTTAAGAGAAA
1 TTCAAGAGAAA
1710359 TTGTCTTAAA
Statistics
Matches: 170, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
26 10 0.06
27 12 0.07
28 3 0.02
29 91 0.54
30 21 0.12
31 5 0.03
32 3 0.02
33 25 0.15
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (29 bp):
TTCAAGAGAAACAACTCAAAGATTTTTAT
Found at i:1710439 original size:66 final size:65
Alignment explanation
Indices: 1710312--1710546 Score: 253
Period size: 64 Copynumber: 3.6 Consensus size: 65
1710302 CAAAGATTGG
* * * * *
1710312 TTTTG-TTTCAAGGGAAACA-ATCTCAAAGATGTTTTTTTTAAGAGAAATTGTCTTAAAAGAGAC
1 TTTTGTTTTCAA-AGAAACATAT-TCAAAGA--TTTTTTTCAAAAGAAACTGTCTCAAAAGAGAC
*
1710375 AAAC
62 AAAA
* * * *
1710379 CTTTGTTTTCATAA-AAAAATATTTAAAGATTTTTCTTCAAAAGGAACTGTCTCAAAAGAGACAA
1 TTTTGTTTTCA-AAGAAACATATTCAAAGATTTTT-TTCAAAAGAAACTGTCTCAAAAGAGACAA
1710443 AA
64 AA
* * * *
1710445 TTTTGTTTCCAAAGAAACATACTCAAAGA-TTCTTTCAAAAGAAACTTTCTCAAAAGAGACAAAA
1 TTTTGTTTTCAAAGAAACATATTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGACAAAA
*
1710509 TTTTGTTATCAAAGAAACATATTCAAAGATTTTTTTCA
1 TTTTGTTTTCAAAGAAACATATTCAAAGATTTTTTTCA
1710547 TTTTGTTTTA
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
64 55 0.39
65 17 0.12
66 46 0.33
67 14 0.10
68 7 0.05
69 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (65 bp):
TTTTGTTTTCAAAGAAACATATTCAAAGATTTTTTTCAAAAGAAACTGTCTCAAAAGAGACAAAA
Found at i:1710747 original size:36 final size:35
Alignment explanation
Indices: 1710707--1710808 Score: 125
Period size: 36 Copynumber: 2.9 Consensus size: 35
1710697 ATAATTTGGA
1710707 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTT-GAG
* * *
1710743 AAATTGTCTCAAATGAGACAAAAATTGTTTTTGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTGAG
**
1710778 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGTGAGA-CAACATTTGTTT
1710809 AATGTGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
35 7 0.12
36 46 0.82
37 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (35 bp):
AAATTGTCTCAAGTGAGACAACATTTGTTTTTGAG
Found at i:1710928 original size:105 final size:103
Alignment explanation
Indices: 1710784--1711095 Score: 396
Period size: 105 Copynumber: 3.0 Consensus size: 103
1710774 TGAGAAAACG
1710784 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAAACAAATTCGAAATTTGTATCTCAAAGGAAAA
1 ATCTCAAGTGAGATCAACTTTGTTTAATGTG-AAACAAATTC-AAATTTGTATCTCAAAGGAAAA
* *
1710849 ATGTCTTAAACGAGACGAAATTTGTTTTGAAAAAATAACA
64 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAAAATAACA
* * * *
1710889 ATCTCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCAAAATTTGTATATCAAAGGAAA
1 ATCTCAAGTGAGATCAA-CTTTGTTT-AATGTGAAACAAATTC-AAATTTGTATCTCAAAGG--A
* * * * *
1710953 AAAATGTCTCAAGCAAGACGAAGTTTGTTTT-AAGAGAA-AGCG
61 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAA-AAAATAACA
*
1710995 ATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAATTCAAATTTTGTATCTCAAAGGAAAAA
1 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAA-TTTGTATCTCAAAGGAAAAA
*
1711060 TGTCTCAAGTGAGACGAAATTTGTTTTGAAAGAAAT
65 TGTCTCAAGCGAGACGAAATTTGTTTTGAAA-AAAT
1711096 TGTCTCAAGC
Statistics
Matches: 176, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
103 30 0.17
104 9 0.05
105 75 0.43
106 29 0.16
107 33 0.19
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (103 bp):
ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAATTTGTATCTCAAAGGAAAAAT
GTCTCAAGCGAGACGAAATTTGTTTTGAAAAAATAACA
Found at i:1711101 original size:36 final size:35
Alignment explanation
Indices: 1711055--1711198 Score: 157
Period size: 36 Copynumber: 4.1 Consensus size: 35
1711045 ATCTCAAAGG
* *
1711055 AAAAA-TGTCTCAAGTGAGACGAAATTTGTTTTGA
1 AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
* *
1711089 AAGAAATTGTCTCAAGCGAGATAAAATTTGTTTTTA
1 AA-AAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
* * * * *
1711125 GAAAACTGTCTCAAGCGAGTCAAAGTATGTTTTGA
1 AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
*
1711160 GAAAAATTATCTCAAGCGAGACAAAAATTTGTTTT-A
1 -AAAAATTGTCTCAAGCGAGAC-AAAATTTGTTTTGA
1711196 AAA
1 AAA
1711199 TTCTCAAAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
34 2 0.02
35 33 0.37
36 44 0.49
37 10 0.11
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (35 bp):
AAAAATTGTCTCAAGCGAGACAAAATTTGTTTTGA
Found at i:1711137 original size:71 final size:72
Alignment explanation
Indices: 1711054--1711194 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 72
1711044 TATCTCAAAG
* * * *
1711054 GAAAAATGTCTCAAGTGAGACGAAA-TTTGTTTTGA-AAGAAATTGTCTCAAGCGAGA-TAAAAT
1 GAAAAATGTCTCAAGCGAGAC-AAAGTATGTTTTGAGAA-AAATTATCTCAAGCGAGACAAAAAT
1711116 TTGTTTTTA
64 TTGTTTTTA
* *
1711125 GAAAACTGTCTCAAGCGAGTCAAAGTATGTTTTGAGAAAAATTATCTCAAGCGAGACAAAAATTT
1 GAAAAATGTCTCAAGCGAGACAAAGTATGTTTTGAGAAAAATTATCTCAAGCGAGACAAAAATTT
1711190 GTTTT
66 GTTTT
1711195 AAAATTCTCA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
70 3 0.05
71 44 0.72
72 14 0.23
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (72 bp):
GAAAAATGTCTCAAGCGAGACAAAGTATGTTTTGAGAAAAATTATCTCAAGCGAGACAAAAATTT
GTTTTTA
Found at i:1711564 original size:10 final size:10
Alignment explanation
Indices: 1711549--1711579 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1711539 TTATGCATCA
1711549 TGTATGTATG
1 TGTATGTATG
*
1711559 TGTATGTATA
1 TGTATGTATG
1711569 TGTATGTATG
1 TGTATGTATG
1711579 T
1 T
1711580 TTTCTCGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (10 bp):
TGTATGTATG
Found at i:1729804 original size:23 final size:23
Alignment explanation
Indices: 1729770--1729815 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1729760 CCACACCTTT
1729770 GATTTTTATATTGTTATTGTTAC
1 GATTTTTATATTGTTATTGTTAC
*
1729793 GATTTTTGTATTGTTATTGTTAC
1 GATTTTTATATTGTTATTGTTAC
1729816 CTTAGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (23 bp):
GATTTTTATATTGTTATTGTTAC
Found at i:1732792 original size:60 final size:61
Alignment explanation
Indices: 1732728--1732861 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 61
1732718 AATATTTTAC
* *
1732728 TTTCATCCCTAAA-ATATGA-CTATCATTCTAAATT-ATTCCACAATC-TTTTGAACATTTTG-A
1 TTTCATCCCCAAACA-ATGATCT-TCATTCTAAATTGA-TCCACAAACTTTTTGAACA-TTTGAA
* *
1732788 TTTCATCCCCAAACAATGATCTTTATTCTAAATTGATCCATAAACTTTTTGAACATTTGAA
1 TTTCATCCCCAAACAATGATCTTCATTCTAAATTGATCCACAAACTTTTTGAACATTTGAA
1732849 TTTCAT-CCCAAAC
1 TTTCATCCCCAAAC
1732862 TATACATATA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
60 45 0.69
61 20 0.31
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (61 bp):
TTTCATCCCCAAACAATGATCTTCATTCTAAATTGATCCACAAACTTTTTGAACATTTGAA
Found at i:1733114 original size:57 final size:60
Alignment explanation
Indices: 1733035--1733160 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 60
1733025 ATCTATTTAG
*
1733035 AAAGTTGTAGTTTAATGATGAAATTAGAACATTCAAAAG-TT-A-CATTAATTTAAAATA
1 AAAGTTATAGTTTAATGATGAAATTAGAACATTCAAAAGTTTAAGCATTAATTTAAAATA
* * * *
1733092 AAAGTTATAGTTT-ATGGATGAAATTGGAATATTCAAAAGTTTAAGGATTAGTTTAAAATA
1 AAAGTTATAGTTTAAT-GATGAAATTAGAACATTCAAAAGTTTAAGCATTAATTTAAAATA
1733152 AAAGTTATA
1 AAAGTTATA
1733161 ATTTGGAGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
56 2 0.03
57 33 0.55
58 2 0.03
59 1 0.02
60 22 0.37
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (60 bp):
AAAGTTATAGTTTAATGATGAAATTAGAACATTCAAAAGTTTAAGCATTAATTTAAAATA
Found at i:1733397 original size:13 final size:13
Alignment explanation
Indices: 1733379--1733405 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1733369 CATCAACTAC
1733379 AAAAAAAACAAAA
1 AAAAAAAACAAAA
1733392 AAAAAAAACAAAA
1 AAAAAAAACAAAA
1733405 A
1 A
1733406 TATTTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:1734376 original size:3 final size:3
Alignment explanation
Indices: 1734368--1734435 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
1734358 TGCCTGGAAT
1734368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1734416 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
1734436 GTTGTTGTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1734440 original size:3 final size:3
Alignment explanation
Indices: 1734434--1734468 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1734424 ATTATTATTA
1734434 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1734469 TTTATTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1742934 original size:76 final size:75
Alignment explanation
Indices: 1742844--1743007 Score: 215
Period size: 75 Copynumber: 2.2 Consensus size: 75
1742834 TAAACTCAAA
*
1742844 TTTT-GGATAATATTTTAAACATTATAT-TTTATCTTCGTATTTTAGTTTAAATAGGTTTTTAGT
1 TTTTAGGATATTATTTT-AACATTATATCTTTATCTTCGTATTTTAGTTTAAATAGG-TTTTAGT
1742907 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * * *
1742919 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAATTAGGTTTTAGTAT
1 TTTTAGGATATTATTTTAACATTATATCTTTATCTTCGTATTTTAGTTTAAATAGGTTTTAGTAT
*
1742984 TTTAATTAGG
66 TTTAATTAAG
* *
1742994 ATTTAGAATATTAT
1 TTTTAGGATATTAT
1743008 ATTTTGTTAG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
75 41 0.53
76 37 0.47
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (75 bp):
TTTTAGGATATTATTTTAACATTATATCTTTATCTTCGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:1743077 original size:62 final size:62
Alignment explanation
Indices: 1742956--1743077 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 62
1742946 CTTTATCTTT
* **
1742956 GTATTTTAGTTTAATTAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATATTTTGTTAG
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATAGCTTGTTAG
* * *
1743018 GTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA-AGATGTTTTAGCTTGTT
1 GTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAGGATTTAGA-ATATTATAGCTTGTT
1743078 TTTAGGATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 6 0.12
62 46 0.88
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (62 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTATAGCTTGTTAG
Found at i:1743678 original size:21 final size:22
Alignment explanation
Indices: 1743653--1743693 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1743643 CTTTAAATTG
1743653 TTTATTTAATTATT-TTTTTCT
1 TTTATTTAATTATTATTTTTCT
*
1743674 TTTATTTAATTCTTATTTTT
1 TTTATTTAATTATTATTTTT
1743694 TATTTTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTATTTAATTATTATTTTTCT
Found at i:1743773 original size:16 final size:19
Alignment explanation
Indices: 1743734--1743774 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 19
1743724 CCCTTTTATA
1743734 TTTATTACTATTAATATTT
1 TTTATTACTATTAATATTT
*
1743753 ATTATTA-TATT-AT-TTT
1 TTTATTACTATTAATATTT
1743769 TTTATT
1 TTTATT
1743775 TTAATATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 4 0.20
19 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTACTATTAATATTT
Found at i:1749250 original size:17 final size:17
Alignment explanation
Indices: 1749224--1749257 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1749214 AACAATGCAA
*
1749224 TGCAGGAAAAAAAACAG
1 TGCAGAAAAAAAAACAG
1749241 TGCAGAAAAAAAAACAG
1 TGCAGAAAAAAAAACAG
1749258 ATTTGGTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.21, T:0.06
Consensus pattern (17 bp):
TGCAGAAAAAAAAACAG
Found at i:1750943 original size:76 final size:75
Alignment explanation
Indices: 1750852--1751016 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 75
1750842 TTAAACTCAA
* *
1750852 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-CTTTAGT
1750916 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * *
1750928 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGCTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGCTTTAGTAT
*
1750993 TTTAATTAGG
66 TTTAATTAAG
*
1751003 ATTTAGAATATTAT
1 ATTTAGGATATTAT
1751017 ATTATTATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 36 0.46
76 43 0.54
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGCTTTAGTAT
TTTAATTAAG
Found at i:1751026 original size:75 final size:76
Alignment explanation
Indices: 1750880--1751027 Score: 228
Period size: 75 Copynumber: 2.0 Consensus size: 76
1750870 AACATTATAT
* * * *
1750880 TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTT
1 TTTATCTTTGTATTTTAGTTTAAATAGGTCTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
1750945 TATATTTTATC
66 TATATTTTATC
*
1750956 TTTATCTTTGTATTTTAGTTTAAATAGG-CTTTAGTATTTTAATTAGGATTTAGAATATTATATT
1 TTTATCTTTGTATTTTAGTTTAAATAGGTCTTTAGTATTTTAATTAAGATTTAGAATATTAT-TT
1751020 AT-TATTTT
65 ATATATTTT
1751028 TAGGTATTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 35 0.53
76 31 0.47
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.59
Consensus pattern (76 bp):
TTTATCTTTGTATTTTAGTTTAAATAGGTCTTTAGTATTTTAATTAAGATTTAGAATATTATTTA
TATATTTTATC
Found at i:1753047 original size:11 final size:10
Alignment explanation
Indices: 1753031--1753121 Score: 79
Period size: 11 Copynumber: 9.4 Consensus size: 10
1753021 CGAGCACAGA
1753031 AAAAGAAGTAG
1 AAAAGAAG-AG
1753042 AAAAGAA-A-
1 AAAAGAAGAG
1753050 AAAAGAAGAG
1 AAAAGAAGAG
1753060 AAAATGAAGAAG
1 AAAA-GAAG-AG
*
1753072 AAAAAAAGAG
1 AAAAGAAGAG
1753082 AAAAAGAAG-G
1 -AAAAGAAGAG
1753092 AAAA-AAGA-
1 AAAAGAAGAG
*
1753100 AAAA-AAGGG
1 AAAAGAAGAG
1753109 AAAAGAA-AG
1 AAAAGAAGAG
1753118 AAAA
1 AAAA
1753122 TGAATCAAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
8 17 0.25
9 15 0.22
10 9 0.13
11 21 0.31
12 6 0.09
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (10 bp):
AAAAGAAGAG
Found at i:1753054 original size:19 final size:18
Alignment explanation
Indices: 1753030--1753106 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
1753020 GCGAGCACAG
1753030 AAAAAGAAGTAGAAAAGAA
1 AAAAAGAAG-AGAAAAGAA
1753049 AAAAAGAAGAGAAAATG--
1 AAAAAGAAGAGAAAA-GAA
* *
1753066 AAGAAGAA-A-AAAAGAG
1 AAAAAGAAGAGAAAAGAA
*
1753082 AAAAAGAAGGAAAAAAGAA
1 AAAAAGAA-GAGAAAAGAA
1753101 AAAAAG
1 AAAAAG
1753107 GGAAAAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 1 0.02
15 4 0.08
16 8 0.16
17 7 0.14
18 7 0.14
19 22 0.45
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (18 bp):
AAAAAGAAGAGAAAAGAA
Found at i:1753071 original size:33 final size:32
Alignment explanation
Indices: 1753033--1753119 Score: 90
Period size: 33 Copynumber: 2.8 Consensus size: 32
1753023 AGCACAGAAA
* *
1753033 AAGAAGTAGAAAAGAAAAAAAGAAGAGAAAATG
1 AAGAAGAAAAAAAGAAAAAAAGAAG-GAAAATG
*
1753066 AAGAAGAAAAAAAGAGAAAAAGAAGGAAAA--
1 AAGAAGAAAAAAAGAAAAAAAGAAGGAAAATG
**
1753096 AAGAA-AAAAAGGGAAAAGAAAGAA
1 AAGAAGAAAAAAAGAAAA-AAAGAA
1753120 AATGAATCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
29 9 0.19
30 11 0.23
32 5 0.11
33 22 0.47
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (32 bp):
AAGAAGAAAAAAAGAAAAAAAGAAGGAAAATG
Found at i:1755473 original size:100 final size:99
Alignment explanation
Indices: 1755151--1755539 Score: 347
Period size: 101 Copynumber: 3.8 Consensus size: 99
1755141 TGTTTCTCTC
* * * * * * *
1755151 AAAATAAAGTTTAATCTCGCTTGAGACAGTTTTCGCTAGATACACAAATTTTGAAATTTTTTCAC
1 AAAATAAA-TTT-GTCTCGCTTGAGATAATTTTCCCT-GAAACACAAATTTTAAAATTGTTTCAC
* * *
1755216 TTGAAA-AAAATTGATTTCACTTGAGGTTATTTTCCT
63 TCGAAACAAAATTGATCTCACTTGAGATTATTTTCCT
* * * *
1755252 AAATATAAATTTCGTCTTGCTTGAG-TCAATTTTCCTTTGGAACACAAATTTTGAAAA--ATTTC
1 AAA-ATAAATTT-GTCTCGCTTGAGAT-AATTTTCC-CTGAAACACAAATTTT-AAAATTGTTTC
* * *
1755314 ACTTGAAACAAAATTGATCTCACTTGAGTTTGTTTTCCT
61 ACTCGAAACAAAATTGATCTCACTTGAGATTATTTTCCT
* * * *
1755353 AAAAATAAATTTTGTATCGCTTAAGATAGTTTTCCCTCAAACACAAATTTTAAAATTGTTTCACT
1 -AAAATAAA-TTTGTCTCGCTTGAGATAATTTTCCCTGAAACACAAATTTTAAAATTGTTTCACT
* *
1755418 CGAAA-AAAATTGATCTAACATGAGATTATTTTCCT
64 CGAAACAAAATTGATCTCACTTGAGATTATTTTCCT
* * * * *
1755453 CAGAACAAATCTTGTCTCGCTTGAGATAATCTTCCCTTGAAACACAAATTTTGAAATTGTTTTAC
1 -AAAATAAAT-TTGTCTCGCTTGAGATAATTTTCCC-TGAAACACAAATTTTAAAATTGTTTCAC
* *
1755518 TCAAAACAAAATTTTATCTCAC
63 TCGAAACAAAA-TTGATCTCAC
1755540 CCGAGAAAAC
Statistics
Matches: 234, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
99 5 0.02
100 78 0.33
101 123 0.53
102 20 0.09
103 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (99 bp):
AAAATAAATTTGTCTCGCTTGAGATAATTTTCCCTGAAACACAAATTTTAAAATTGTTTCACTCG
AAACAAAATTGATCTCACTTGAGATTATTTTCCT
Found at i:1762966 original size:22 final size:22
Alignment explanation
Indices: 1762938--1762983 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1762928 GTTTAAATAG
*
1762938 TTTGGAA-TTATTAATTTCTATT
1 TTTGGAACTTAATAATTT-TATT
1762960 TTTGGAACTTAATAATTTTATT
1 TTTGGAACTTAATAATTTTATT
1762982 TT
1 TT
1762984 AATAAGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (22 bp):
TTTGGAACTTAATAATTTTATT
Found at i:1765824 original size:24 final size:25
Alignment explanation
Indices: 1765770--1765828 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
1765760 AATATTTTTC
* *
1765770 AAAGAGAAAAGAACCAAGAGAAAAA
1 AAAGAGAGAAGAACCAAAAGAAAAA
*
1765795 AAAGAGAGAAGAA-CAAAAGGAAAA
1 AAAGAGAGAAGAACCAAAAGAAAAA
*
1765819 ATAGAGAGAA
1 AAAGAGAGAA
1765829 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.69, C:0.05, G:0.24, T:0.02
Consensus pattern (25 bp):
AAAGAGAGAAGAACCAAAAGAAAAA
Found at i:1766774 original size:2 final size:2
Alignment explanation
Indices: 1766767--1766802 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1766757 TGTTATTATG
1766767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1766803 TACTTAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1767080 original size:5 final size:5
Alignment explanation
Indices: 1767070--1767104 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
1767060 ATCATTATAT
*
1767070 TTTTA TTTTA TTTTA TTTTA TTGTTA TTGTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTT
1767105 CACAATGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:1767088 original size:16 final size:17
Alignment explanation
Indices: 1767067--1767104 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
1767057 AAAATCATTA
*
1767067 TATTTTTATT-TTATTT
1 TATTTTTATTGTTATTG
1767083 TA-TTTTATTGTTATTG
1 TATTTTTATTGTTATTG
1767099 TATTTT
1 TATTTT
1767105 CACAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 9 0.47
17 3 0.16
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
TATTTTTATTGTTATTG
Found at i:1771008 original size:20 final size:20
Alignment explanation
Indices: 1770983--1771035 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1770973 TTTAAGTATT
1770983 GATATTGGATGAACAATATC
1 GATATTGGATGAACAATATC
1771003 GATATTGGATGAACAATATC
1 GATATTGGATGAACAATATC
1771023 GATATTGGATGAA
1 GATATTGGATGAA
1771036 TTGAGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (20 bp):
GATATTGGATGAACAATATC
Found at i:1786283 original size:30 final size:30
Alignment explanation
Indices: 1786227--1786283 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1786217 ATACTTAGTA
* *
1786227 CAACACTGTAGTGTGTAAGAAGACTCACTG
1 CAACAATGTAGTGTGTAAGAACACTCACTG
* *
1786257 CAACAATGTGGTGTGTAAGGACACTCA
1 CAACAATGTAGTGTGTAAGAACACTCA
1786284 GTGTATATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (30 bp):
CAACAATGTAGTGTGTAAGAACACTCACTG
Found at i:1786705 original size:37 final size:37
Alignment explanation
Indices: 1786652--1786748 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
1786642 GCTTTTCGTC
*
1786652 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * *
1786689 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
*
1786726 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
1786749 GATAGGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:1790548 original size:157 final size:157
Alignment explanation
Indices: 1790262--1790575 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
1790252 CAGCAACATG
1790262 CAGACTAGCTAAATCAGAGTTTGAGTATCACGGTGACAGTTATAAGAAGATGATCAAAAAGATTT
1 CAGACTAGCTAAATCAGAGTTTGAGTATCACGGTGACAGTTATAAGAAGATGATCAAAAAGATTT
1790327 CGATTCATGGAAGAAAGTGTTACGGATGGATATTGTGGCTGCTAAAGACATGCTTACCCTAGACT
66 CGATTCATGGAAGAAAGTGTTACGGATGGATATTGTGGCTGCTAAAGACATGCTTACCCTAGACT
1790392 ATTTAGAGTGGCGAAGATTGCGAAAAA
131 ATTTAGAGTGGCGAAGATTGCGAAAAA
1790419 CAGACTAGCTAAATCAGAGTTTGAGTATCACGGTGACAGTTATAAGAAGATGATCAAAAAGATTT
1 CAGACTAGCTAAATCAGAGTTTGAGTATCACGGTGACAGTTATAAGAAGATGATCAAAAAGATTT
1790484 CGATTCATGGAAGAAAGTGTTACGGATGGATATTGTGGCTGCTAAAGACATGCTTACCCTAGACT
66 CGATTCATGGAAGAAAGTGTTACGGATGGATATTGTGGCTGCTAAAGACATGCTTACCCTAGACT
1790549 ATTTAGAGTGGCGAAGATTGCGAAAAA
131 ATTTAGAGTGGCGAAGATTGCGAAAAA
1790576 ACGACAACAC
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (157 bp):
CAGACTAGCTAAATCAGAGTTTGAGTATCACGGTGACAGTTATAAGAAGATGATCAAAAAGATTT
CGATTCATGGAAGAAAGTGTTACGGATGGATATTGTGGCTGCTAAAGACATGCTTACCCTAGACT
ATTTAGAGTGGCGAAGATTGCGAAAAA
Found at i:1792593 original size:21 final size:21
Alignment explanation
Indices: 1792520--1792598 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
1792510 ATTCAATCAT
1792520 AACAAAAAG--AAAAA-AAA-
1 AACAAAAAGCAAAAAAGAAAG
1792537 AACAAAGAAGCAAAAAAG-AAG
1 AACAAA-AAGCAAAAAAGAAAG
* *
1792558 AAAATAAAAGAAAAAAAGAAAG
1 AACA-AAAAGCAAAAAAGAAAG
*
1792580 AACAAAAATC-AAAAAGAAA
1 AACAAAAAGCAAAAAAGAAA
1792599 AAGGGACAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
17 6 0.12
18 3 0.06
20 16 0.32
21 17 0.34
22 8 0.16
ACGTcount: A:0.80, C:0.06, G:0.11, T:0.03
Consensus pattern (21 bp):
AACAAAAAGCAAAAAAGAAAG
Found at i:1793257 original size:22 final size:22
Alignment explanation
Indices: 1793207--1793261 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1793197 GCTACCCCAT
*
1793207 CAAACCTATGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
1793229 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGC
*
1793251 CATACCTTTGA
1 CAAACCTTTGA
1793262 CCAAACATAA
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:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:1794240 original size:106 final size:106
Alignment explanation
Indices: 1794066--1795421 Score: 1814
Period size: 106 Copynumber: 13.0 Consensus size: 106
1794056 ATATCGTGCC
* * * * * * * *
1794066 ACTCAAGACAACACAAGTTCAACTTCACAACGAATGGACTGCTGGTTGTGAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1794131 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1794172 ACTCCAGACAACGCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1794237 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1794278 ACTCCAGACAACGCAAGTTCAACTTTACAACCAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1794343 AATTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * * **
1794384 ACTCCAGACAACATAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATATTTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1794449 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1794490 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1794555 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1794596 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1794661 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1794702 ACTCCAGACGATGCAAGTT-AACCTTCACGATGAAGGAACCGCTGGTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAA-CTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
1794766 CAATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1794808 ACTCCAGACAACGCAAGTTCAACTTCACAACTAAGGGATCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1794873 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
1794914 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1794979 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1795020 ACTGCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGTTTGTC-A-ATA-AA-----C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1795077 AATTTC----CCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1795114 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-TAA-AACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1795177 -ATTTCAGAGCCAATTTCAACTT--CAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * **
1795215 AC-CCAAGA-AACACAAGCTCAACTTCACGACGAAGGGA--GGTGATTGTCAAC--A-AA-TTTT
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
* *
1795272 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1795312 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * * *
1795377 GGTTCCAGAGCCAATTTCAACTTCACGACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1795418 ACTC
1 ACTC
1795422 ATAACAATGC
Statistics
Matches: 1108, Mismatches: 116, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
94 74 0.07
95 23 0.02
96 4 0.00
97 23 0.02
98 44 0.04
99 5 0.00
100 40 0.04
101 19 0.02
102 1 0.00
103 17 0.02
104 5 0.00
105 3 0.00
106 848 0.77
107 2 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1796203 original size:37 final size:37
Alignment explanation
Indices: 1796150--1796246 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
1796140 CCTTTTCGTC
*
1796150 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * *
1796187 TTGCTAGGATTTAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
*
1796224 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
1796247 GATAGGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:1796822 original size:24 final size:24
Alignment explanation
Indices: 1796802--1796849 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1796792 ATTTTATTTG
*
1796802 CATTTTTATTATTACTATTATATT
1 CATTATTATTATTACTATTATATT
* *
1796826 TATTATTATTTTTACTATTATATT
1 CATTATTATTATTACTATTATATT
1796850 TTCTTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
CATTATTATTATTACTATTATATT
Found at i:1796850 original size:24 final size:24
Alignment explanation
Indices: 1796807--1796908 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 24
1796797 ATTTGCATTT
*
1796807 TTATTATTACTATTATATTTATTA
1 TTATTTTTACTATTATATTTATTA
* *
1796831 TTATTTTTACTATTATATTTTCTTT
1 TTATTTTTACTATTATA-TTTATTA
*
1796856 TTA-TTCTACTTAGTTATA-TTATATA
1 TTATTTTTAC-TA-TTATATTTAT-TA
1796881 TGTATATTTT--T-TTATATTTATTA
1 T-TAT-TTTTACTATTATATTTATTA
1796904 TTATT
1 TTATT
1796909 ATTTTTTACT
Statistics
Matches: 63, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
21 1 0.02
22 3 0.05
23 8 0.13
24 28 0.44
25 13 0.21
26 7 0.11
28 3 0.05
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATTTTTACTATTATATTTATTA
Found at i:1796898 original size:23 final size:23
Alignment explanation
Indices: 1796869--1796915 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
1796859 TTCTACTTAG
1796869 TTATA-TTATATATGTA-TATTTTT
1 TTATATTTAT-TAT-TATTATTTTT
1796892 TTATATTTATTATTATTATTTTT
1 TTATATTTATTATTATTATTTTT
1796915 T
1 T
1796916 ACTTTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.09
23 16 0.73
24 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATATTTATTATTATTATTTTT
Found at i:1797147 original size:26 final size:25
Alignment explanation
Indices: 1797084--1797150 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
1797074 TTATACATAT
*
1797084 TTTTCTATTAATTTTATATATTTTTA
1 TTTTCTATT-ATATTATATATTTTTA
* *
1797110 TTATC-ATTATATTATAT-TTATTTC
1 TTTTCTATTATATTATATATT-TTTA
1797134 TTTTCTATTGATATTAT
1 TTTTCTATT-ATATTAT
1797151 TGTTGTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.06
24 15 0.44
25 6 0.18
26 11 0.32
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (25 bp):
TTTTCTATTATATTATATATTTTTA
Found at i:1802015 original size:16 final size:15
Alignment explanation
Indices: 1801983--1802040 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
1801973 CAATCATAAC
1801983 AAAAAGAAAAAAACA
1 AAAAAGAAAAAAACA
* *
1801998 AAAAAGCAAAGAAGCA
1 AAAAAG-AAAAAAACA
1802014 AAAAAGAAGAAAAA-A
1 AAAAAGAA-AAAAACA
*
1802029 AGAAAGAAAAAA
1 AAAAAGAAAAAA
1802041 GAAAGAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.11
15 16 0.44
16 16 0.44
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAACA
Found at i:1802021 original size:11 final size:10
Alignment explanation
Indices: 1802005--1802043 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
1801995 ACAAAAAAGC
1802005 AAAGAAGCAAA
1 AAAGAAG-AAA
1802016 AAAGAAGAAAA
1 AAAGAAG-AAA
1802027 AAAGAAAGAAA
1 AAAG-AAGAAA
1802038 AAAGAA
1 AAAGAA
1802044 AGAACAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 2 0.08
11 21 0.81
12 3 0.12
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:1802026 original size:26 final size:24
Alignment explanation
Indices: 1801983--1802053 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
1801973 CAATCATAAC
*
1801983 AAAAAGAAAAAAACAAAAAAGCAAAG
1 AAAAA-AAAAGAACAAAAAAG-AAAG
* *
1802009 AAGCAAAAAAGAAGAAAAAAAGAAAG
1 AA-AAAAAAAGAA-CAAAAAAGAAAG
1802035 AAAAAAGAAAGAACAAAAA
1 AAAAAA-AAAGAACAAAAA
1802054 TCAAAAAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 8 0.22
26 20 0.54
27 9 0.24
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAGAACAAAAAAGAAAG
Found at i:1802041 original size:22 final size:24
Alignment explanation
Indices: 1802005--1802053 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
1801995 ACAAAAAAGC
1802005 AAAGAAGCAAAAAAG-AAGAA-AA
1 AAAGAAGCAAAAAAGAAAGAACAA
1802027 AAAGAAAG-AAAAAAGAAAGAACAA
1 AAAG-AAGCAAAAAAGAAAGAACAA
1802051 AAA
1 AAA
1802054 TCAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.46
23 8 0.33
24 5 0.21
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAGAAGCAAAAAAGAAAGAACAA
Found at i:1802044 original size:11 final size:11
Alignment explanation
Indices: 1802013--1802052 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
1802003 GCAAAGAAGC
1802013 AAAAAAG-AAG
1 AAAAAAGAAAG
1802023 AAAAAAAGAAAG
1 -AAAAAAGAAAG
1802035 AAAAAAGAAAG
1 AAAAAAGAAAG
1802046 AACAAAA
1 AA-AAAA
1802053 ATCAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:1802045 original size:15 final size:14
Alignment explanation
Indices: 1801983--1802047 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
1801973 CAATCATAAC
*
1801983 AAAAAGAAAAAAACA
1 AAAAAGAAAGAAA-A
*
1801998 AAAAAGCAAAGAAGCA
1 AAAAAG-AAAGAA-AA
1802014 AAAAAG-AAG--AA
1 AAAAAGAAAGAAAA
1802025 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
1802039 AAGAAAGAA
1 AA-AAAGAA
1802048 CAAAAATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
11 7 0.17
12 3 0.07
14 7 0.17
15 12 0.29
16 12 0.29
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:1802718 original size:22 final size:22
Alignment explanation
Indices: 1802666--1802721 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1802656 AGCTACCCCA
*
1802666 TCAAACCTATGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
1802688 CCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
1802710 TCAAACCTTTGA
1 TCAAACCTTTGA
1802722 CCAAACATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:1803700 original size:106 final size:106
Alignment explanation
Indices: 1803526--1804889 Score: 1791
Period size: 106 Copynumber: 13.0 Consensus size: 106
1803516 ATATCGTGCC
* * * * * * *
1803526 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACTGCTGGTTGTGAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1803591 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1803632 ACTCCAGACAATGCAAGTTCAACTTCACGTCGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1803697 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * **
1803738 ACTCCAGACAACGCAAGTTCAACTTTACAATGAAGGGACCGCTGGTTGTCAACAAACAACTTATC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1803803 AATTTCAAATCCAATTTCAACTTCACAACGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1803844 ACTCCAGACAACGTAAGTTCAACTTCACGACGAATGGACCGATGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1803909 AATTTCAGATCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1803950 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1804015 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1804056 ACTCCAGACAACGCAAGTTCAACTTCA-TACCGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
*
1804120 CAATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
1804162 ACTCCAGACGATGCAAGTTCAACTTCACGATGAAAGAACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1804227 AATTTCAGAGCCAATTTCAACTTCACATCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1804268 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGATCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1804333 AATTTCAGAGCCAATTTCAACTTAACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1804374 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
1804439 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1804480 ACTGCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGTTTGTC-A-ATA-AA-----C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
1804537 AATTTC----CCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * **
1804574 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCATTAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
1804639 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
1804680 AC-CCAAGAAAACACAAGCTCAACTTCACGACGAAGGGGA-GGCTGATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAA-GGGACCGCTGGTTGTCAACAAACAACTTC
* * *
1804739 TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
1804780 ACTCGAGATAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
1804845 -GGTTCTAGAGCCAATTTCAACTTCACGACGAAAGATATTGG
66 AATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1804886 ACTC
1 ACTC
1804890 AGAACAATGC
Statistics
Matches: 1106, Mismatches: 128, Indels: 48
0.86 0.10 0.04
Matches are distributed among these distances:
94 74 0.07
96 2 0.00
97 2 0.00
98 6 0.01
99 4 0.00
100 76 0.07
101 4 0.00
102 10 0.01
103 6 0.01
104 5 0.00
105 8 0.01
106 904 0.82
107 5 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1805672 original size:37 final size:37
Alignment explanation
Indices: 1805619--1805715 Score: 140
Period size: 37 Copynumber: 2.6 Consensus size: 37
1805609 CCTTTTCGTC
*
1805619 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * * *
1805656 TTGCTAGGATTTAAACTCATAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
*
1805693 CTACTATGATTTAAACTCCTAAA
1 CTACTAGGATTTAAACTCCTAAA
1805716 GATCGGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:1806334 original size:24 final size:24
Alignment explanation
Indices: 1806272--1806387 Score: 78
Period size: 24 Copynumber: 4.7 Consensus size: 24
1806262 TTTTCTTTGC
1806272 ATTTTTATTATTACTATTATA-TTT
1 ATTTTTATT-TTACTATTATATTTT
*
1806296 ATTATTATTTTTACTATTATATTTT
1 ATTTTTA-TTTTACTATTATATTTT
* *
1806321 CTTTTTATTCTACTTATTTATATTATAT
1 ATTTTTATTTTAC-TA-TTATATT-T-T
* *
1806349 ATGTGTATTTT--T-TTATATTTT
1 ATTTTTATTTTACTATTATATTTT
* *
1806370 ATTATTATTATTATTATT
1 ATTTTTATT-TTACTATT
1806388 TTCTTACTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
21 7 0.10
22 3 0.04
23 7 0.10
24 23 0.32
25 15 0.21
26 7 0.10
27 1 0.01
28 8 0.11
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTTTATTTTACTATTATATTTT
Found at i:1806431 original size:12 final size:11
Alignment explanation
Indices: 1806409--1806449 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
1806399 TCTTTCTTTT
1806409 TATTATTCTTG
1 TATTATTCTTG
1806420 TATTATTACTTG
1 TATTATT-CTTG
* *
1806432 TATTATTTTTA
1 TATTATTCTTG
1806443 TATTATT
1 TATTATT
1806450 TATTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:1806618 original size:23 final size:22
Alignment explanation
Indices: 1806555--1806622 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
1806545 AAGTGCTATA
* *
1806555 TTTTATAATATTATACATATATT
1 TTTTATTATATTATA-TTATATT
*
1806578 TTTCTATTA-ATT-TTTTATATT
1 TTT-TATTATATTATATTATATT
1806599 TTTTATTATCATTATATTATATT
1 TTTTATTAT-ATTATATTATATT
1806622 T
1 T
1806623 ATTTTCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.14
21 9 0.24
22 4 0.11
23 15 0.41
24 4 0.11
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTATATTATATTATATT
Found at i:1807049 original size:26 final size:24
Alignment explanation
Indices: 1806986--1807050 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 24
1806976 TCGTACTTTG
*
1806986 TTATTATTATTTTGTTTTATTTATT
1 TTATTATT-TTTTCTTTTATTTATT
* *
1807011 TTCTTTTTCTTTTTCTTTTATATATATT
1 TT-ATTAT-TTTTTCTTTTAT-T-TATT
1807039 TTATTATTTTTT
1 TTATTATTTTTT
1807051 TACTTACTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.06
26 18 0.58
27 5 0.16
28 6 0.19
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (24 bp):
TTATTATTTTTTCTTTTATTTATT
Found at i:1808920 original size:13 final size:13
Alignment explanation
Indices: 1808904--1808951 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1808894 ATATGACGCA
*
1808904 CATTTATGAAATG
1 CATTTATGAAACG
*
1808917 CATTTATGACACG
1 CATTTATGAAACG
*
1808930 CATTTAT-AACACA
1 CATTTATGAA-ACG
1808943 CATTTATGA
1 CATTTATGA
1808952 TGCTCATTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 1 0.03
13 27 0.93
14 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (13 bp):
CATTTATGAAACG
Found at i:1812236 original size:281 final size:281
Alignment explanation
Indices: 1811733--1812295 Score: 1108
Period size: 281 Copynumber: 2.0 Consensus size: 281
1811723 TATCTGGAAC
1811733 TTAAAAGGAGGACATTTTAAAAAAAATCAGCTCATCAACAACATGACTAACATCACAAGAAAACT
1 TTAAAAGGAGGACATTTTAAAAAAAATCAGCTCATCAACAACATGACTAACATCACAAGAAAACT
1811798 AAGCAAACAAATGCGAAAAAACCTCTTCCTAAATGCTTGCTAAATCAGAAAAACTTCAAGGACAA
66 AAGCAAACAAATGCGAAAAAACCTCTTCCTAAATGCTTGCTAAATCAGAAAAACTTCAAGGACAA
1811863 GAGAATAAAACAAATGACAGATTCAACTAATAATTGAAAAATAAGAACTCTTCGTCTCTACTTTC
131 GAGAATAAAACAAATGACAGATTCAACTAATAATTGAAAAATAAGAACTCTTCGTCTCTACTTTC
1811928 ATGTATAAACTGGTATACAAATACAGTTGTAAACTAGTAATGCTCAGTTCATATTCTCTCAACTA
196 ATGTATAAACTGGTATACAAATACAGTTGTAAACTAGTAATGCTCAGTTCATATTCTCTCAACTA
1811993 AGTATTGACCAAAAACTAGTA
261 AGTATTGACCAAAAACTAGTA
1812014 TTAAAAGGAGGACATTTTAAAAAAAATCAGCTCATCAACAACATGACTAACATCACAAGAAAACT
1 TTAAAAGGAGGACATTTTAAAAAAAATCAGCTCATCAACAACATGACTAACATCACAAGAAAACT
*
1812079 AAGCAAACAAATGCGAAAAAACCTCTTCCTAAATGCTTGCTAAATCAGAAAAACTTCAAGGATAA
66 AAGCAAACAAATGCGAAAAAACCTCTTCCTAAATGCTTGCTAAATCAGAAAAACTTCAAGGACAA
1812144 GAGAATAAAACAAATGACAGATTCAACTAATAATTGAAAAATAAGAACTCTTCGTCTCTACTTTC
131 GAGAATAAAACAAATGACAGATTCAACTAATAATTGAAAAATAAGAACTCTTCGTCTCTACTTTC
*
1812209 ATGTATAAACTGGTATACAAATACAGTTGTAAACTAGTAATGCTCAGTTCATGTTCTCTCAACTA
196 ATGTATAAACTGGTATACAAATACAGTTGTAAACTAGTAATGCTCAGTTCATATTCTCTCAACTA
1812274 AGTATTGACCAAAAACTAGTA
261 AGTATTGACCAAAAACTAGTA
1812295 T
1 T
1812296 GTGTAGCATG
Statistics
Matches: 280, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 280 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (281 bp):
TTAAAAGGAGGACATTTTAAAAAAAATCAGCTCATCAACAACATGACTAACATCACAAGAAAACT
AAGCAAACAAATGCGAAAAAACCTCTTCCTAAATGCTTGCTAAATCAGAAAAACTTCAAGGACAA
GAGAATAAAACAAATGACAGATTCAACTAATAATTGAAAAATAAGAACTCTTCGTCTCTACTTTC
ATGTATAAACTGGTATACAAATACAGTTGTAAACTAGTAATGCTCAGTTCATATTCTCTCAACTA
AGTATTGACCAAAAACTAGTA
Found at i:1813168 original size:15 final size:15
Alignment explanation
Indices: 1813148--1813176 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1813138 AGAGAATGAA
1813148 GACAAACTTAATTGT
1 GACAAACTTAATTGT
1813163 GACAAACTTAATTG
1 GACAAACTTAATTG
1813177 GCATTCCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (15 bp):
GACAAACTTAATTGT
Found at i:1814113 original size:17 final size:17
Alignment explanation
Indices: 1814088--1814128 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1814078 CCAACAGAAG
*
1814088 TATAGATTAATGTGAAA
1 TATAAATTAATGTGAAA
1814105 TATAAATTAATGTGAAA
1 TATAAATTAATGTGAAA
*
1814122 GATAAAT
1 TATAAAT
1814129 GAGGTTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (17 bp):
TATAAATTAATGTGAAA
Found at i:1815103 original size:8 final size:8
Alignment explanation
Indices: 1815090--1815119 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1815080 CGTTTTCGAC
1815090 AAAGGGAA
1 AAAGGGAA
1815098 AAAGGGAA
1 AAAGGGAA
*
1815106 AAAGAGAA
1 AAAGGGAA
1815114 AAAGGG
1 AAAGGG
1815120 GAAGCATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (8 bp):
AAAGGGAA
Found at i:1825096 original size:16 final size:17
Alignment explanation
Indices: 1825075--1825106 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1825065 TGCAACAAAA
1825075 TTTAATTTC-TCACTAC
1 TTTAATTTCGTCACTAC
1825091 TTTAATTTCGTCACTA
1 TTTAATTTCGTCACTA
1825107 AATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.22, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATTTCGTCACTAC
Found at i:1825270 original size:32 final size:33
Alignment explanation
Indices: 1825182--1825270 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 33
1825172 TTTTTTTTTT
** * * *
1825182 ACAATTTTTTATAATGAGAAATTAATATTTGTT
1 ACAATTTTTTATTTTGACAAAATAATATTTGTC
* * * **
1825215 ATAAATTATTATTTTGATTAAATAA-ATTTGTC
1 ACAATTTTTTATTTTGACAAAATAATATTTGTC
1825247 ACAATTTTTTATTTTGACAAAATA
1 ACAATTTTTTATTTTGACAAAATA
1825271 TTAGACCAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.48
Consensus pattern (33 bp):
ACAATTTTTTATTTTGACAAAATAATATTTGTC
Found at i:1829542 original size:54 final size:54
Alignment explanation
Indices: 1829479--1830018 Score: 714
Period size: 54 Copynumber: 10.1 Consensus size: 54
1829469 GCACAACCAT
**
1829479 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTTACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * *
1829533 TACCAATACGGAAATTCATAAACTTATTATGATTTTCTTAGTTTGCACACAC-G
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * * **
1829586 TGTCAATACGGAAATTCATAAACTTATTATAAATTTCTTAACTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * * * *
1829640 TGCCAATACGTAAATTCATAAAC-TATTATGAATTTCTTAGTCTGCATACATAA
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * **
1829693 TGCCAATAC-ATAAATTCATAAACTTATTATGATTTTGTTACATTGCACACACAG
1 TGCCAATACGA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* *
1829747 TGCCAATACAAAAATTCATAAACTTATTATGAATTTATTAGTTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * * *
1829801 TGCCAATACGGAAATTCATAAACTTATTATTAATTTCTTAGTTTACACACACAA
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * * *
1829855 TGCCATTACGAAAATTCATAAACTTATTATGAA-TGC-AATTTTGCACACACAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* *
1829907 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAA
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
* * * *
1829961 TGCCAATATGAAAATTCATAAA-TTATTTTGAATTTCTTAGTTTGCACTCATAG
1 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
1830014 TGCCA
1 TGCCA
1830019 TTCGGTAATC
Statistics
Matches: 421, Mismatches: 59, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
52 43 0.10
53 127 0.30
54 250 0.59
55 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (54 bp):
TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAG
Found at i:1829913 original size:214 final size:214
Alignment explanation
Indices: 1829479--1830018 Score: 728
Period size: 214 Copynumber: 2.5 Consensus size: 214
1829469 GCACAACCAT
** * *
1829479 TGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTTACACACAGTACCAATACGG
1 TGCCAATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGA
* *
1829544 AAATTCATAAACTTATTATGATTTTCTTAGTTTGCACACAC-GTGTCAATACGGAAATTCATAAA
65 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGGAAATTCATAAA
* * *
1829608 CTTATTATAAATTTCTTAACTTGCACACACAGTGCCAATACGTAAATTCATAAACTATTATGAAT
130 CTTATTATAAATTTCTTAACTTACACACACAATGCCAATACGAAAATTCATAAACTATTATGAAT
* * * *
1829673 TTCTTAGTCTGCATACATAA
195 TGCTAAGTCTGCACACACAA
* * ** *
1829693 TGCCAATACATAAATTCATAAACTTATTATGATTTTGTTACATTGCACACACAGTGCCAATACAA
1 TGCCAATACA-AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGA
*
1829758 AAATTCATAAACTTATTATGAATTTATTAGTTTGCACACACAGTGCCAATACGGAAATTCATAAA
65 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGGAAATTCATAAA
* ** *
1829823 CTTATTATTAATTTCTTAGTTTACACACACAATGCCATTACGAAAATTCATAAACTTATTATGAA
130 CTTATTATAAATTTCTTAACTTACACACACAATGCCAATACGAAAATTCATAAAC-TATTATGAA
* * *
1829888 -TGC-AATTTTGCACACACAG
194 TTGCTAAGTCTGCACACACAA
* * *
1829907 TGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATGCCAATATGA
1 TGCCAATAC-AAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGA
* * *
1829972 AAATTCATAAA-TTATTTTGAATTTCTTAGTTTGCACTCATAGTGCCA
65 AAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCA
1830019 TTCGGTAATC
Statistics
Matches: 284, Mismatches: 38, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
213 33 0.12
214 170 0.60
215 72 0.25
216 9 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (214 bp):
TGCCAATACAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGAA
AATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCCAATACGGAAATTCATAAAC
TTATTATAAATTTCTTAACTTACACACACAATGCCAATACGAAAATTCATAAACTATTATGAATT
GCTAAGTCTGCACACACAA
Found at i:1831131 original size:35 final size:35
Alignment explanation
Indices: 1831068--1831167 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
1831058 TTTCGTCCTA
*
1831068 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
1831105 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
1831140 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
1831168 CCACAAGAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:1834582 original size:22 final size:22
Alignment explanation
Indices: 1834557--1834615 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
1834547 AACAAAAAGG
1834557 GCAAAAAGAAAAAAGAAAAGAA
1 GCAAAAAGAAAAAAGAAAAGAA
* *
1834579 GCAAAAAAGGAAAAA-ACAAGAA
1 GC-AAAAAGAAAAAAGAAAAGAA
*
1834601 -CAAAAA-AAGAAAGAA
1 GCAAAAAGAAAAAAGAA
1834616 CAAAAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 4 0.13
20 6 0.20
21 1 0.03
22 8 0.27
23 11 0.37
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (22 bp):
GCAAAAAGAAAAAAGAAAAGAA
Found at i:1834604 original size:21 final size:21
Alignment explanation
Indices: 1834559--1834630 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
1834549 CAAAAAGGGC
* *
1834559 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGGAAAAA-ACAAGAA-CA
1834582 AAAAAGGAAAAAACAAGAACA
1 AAAAAGGAAAAAACAAGAACA
* * * *
1834603 AAAAAAGAAAGAACAAAAATA
1 AAAAAGGAAAAAACAAGAACA
1834624 AAAAAGG
1 AAAAAGG
1834631 GAACAAAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 25 0.60
22 6 0.14
23 11 0.26
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.01
Consensus pattern (21 bp):
AAAAAGGAAAAAACAAGAACA
Found at i:1836180 original size:36 final size:36
Alignment explanation
Indices: 1836133--1836237 Score: 147
Period size: 36 Copynumber: 2.9 Consensus size: 36
1836123 ATGCTCACCA
1836133 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* *
1836169 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * * *
1836206 TTTTCTCCCTTGAGACAGTTTCTCTTTAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1836238 TAAACATTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 31 0.51
37 30 0.49
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:1836227 original size:37 final size:37
Alignment explanation
Indices: 1836133--1836242 Score: 150
Period size: 37 Copynumber: 3.0 Consensus size: 37
1836123 ATGCTCACCA
1836133 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
1836169 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * * *
1836206 TTTTCTCCCTTGAGACAGTTTCTCTTTAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
1836243 ATTGAAAACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 30 0.47
37 31 0.48
38 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:1836328 original size:37 final size:37
Alignment explanation
Indices: 1836269--1836339 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
1836259 TTGAAATGAG
* *
1836269 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
* *
1836306 TTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
1836340 TAAACATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
Found at i:1836331 original size:102 final size:102
Alignment explanation
Indices: 1836151--1836542 Score: 660
Period size: 102 Copynumber: 3.9 Consensus size: 102
1836141 CTTGAGACAG
** * *
1836151 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1836216 TGAGACAGTTTCTCTTTAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
1836253 TTTTCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1836318 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1836355 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1836420 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * *
1836457 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATATCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1836521 TGAGACAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
1836543 CAAAACCTTT
Statistics
Matches: 274, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
101 36 0.13
102 238 0.87
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1836422 original size:37 final size:37
Alignment explanation
Indices: 1836355--1836441 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
1836345 ATTGGAAACA
** * *
1836355 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1836391 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1836428 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
1836442 TAAACATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 31 0.69
38 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:1836501 original size:204 final size:203
Alignment explanation
Indices: 1836151--1836609 Score: 675
Period size: 204 Copynumber: 2.2 Consensus size: 203
1836141 CTTGAGACAG
*
1836151 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * * * *
1836216 TGAGACAGTTTCTCTTTAAACATAAACATTGAAAACATTTTCCTTGAAATGAGTTTTGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* * *
1836281 TGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
131 TGAGATAATATCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
1836346 TTGGAAACA
195 TTGGAAACA
** *
1836355 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1836420 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* *
1836485 TGAGATAATATCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACC
131 TGAGATAATATCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-TAAACA
* ***
1836550 TTTGAGATTG
195 TTGGA-AACA
* * * * * *
1836560 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1836610 CAAAATCTTT
Statistics
Matches: 228, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
203 36 0.16
204 148 0.65
205 44 0.19
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (203 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
TGAGATAATATCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
TGGAAACA
Done.