Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_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: 2195110
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 6 of 9
Found at i:1011964 original size:20 final size:20
Alignment explanation
Indices: 1011921--1011990 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
1011911 CGCCCAAGAT
* *
1011921 TCCATTGAGCCTGAAGGG-C
1 TCCACTGAGCCTTAAGGGAC
1011940 TCCACTGAGCCTTAAGGGAC
1 TCCACTGAGCCTTAAGGGAC
1011960 TCCACTGAGCCTTAAGGGAC
1 TCCACTGAGCCTTAAGGGAC
*
1011980 TCCACTAAGCC
1 TCCACTGAGCC
1011991 AAGCTCTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 16 0.34
20 31 0.66
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (20 bp):
TCCACTGAGCCTTAAGGGAC
Found at i:1024288 original size:17 final size:18
Alignment explanation
Indices: 1024250--1024300 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
1024240 AATTGGAGTA
1024250 CAAAAAGAAAGAAAAGAT
1 CAAAAAGAAAGAAAAGAT
1024268 -AAAAAG-AAGAAAA-ATT
1 CAAAAAGAAAGAAAAGA-T
1024284 CAAAAA-AAAGGAAAAGA
1 CAAAAAGAAA-GAAAAGA
1024301 ATAATTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.04
16 8 0.29
17 13 0.46
18 5 0.18
19 1 0.04
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.06
Consensus pattern (18 bp):
CAAAAAGAAAGAAAAGAT
Found at i:1024807 original size:9 final size:9
Alignment explanation
Indices: 1024793--1024818 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1024783 GCTGGTAAGG
1024793 TTTATTTTT
1 TTTATTTTT
1024802 TTTATTTTT
1 TTTATTTTT
1024811 TTTATTTT
1 TTTATTTT
1024819 ATCTACTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:1036503 original size:2 final size:2
Alignment explanation
Indices: 1036496--1036529 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1036486 ATAATCTTTA
1036496 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
1036530 CCAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1040739 original size:15 final size:15
Alignment explanation
Indices: 1040719--1040752 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1040709 TTCACACAAT
1040719 GGGTGTGAAATTTAG
1 GGGTGTGAAATTTAG
1040734 GGGTGTGAAATTTAG
1 GGGTGTGAAATTTAG
1040749 GGGT
1 GGGT
1040753 ATTTAGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (15 bp):
GGGTGTGAAATTTAG
Found at i:1055831 original size:17 final size:18
Alignment explanation
Indices: 1055798--1055833 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1055788 TATAACATTA
1055798 TTGTTTTGTTTCATTAGT
1 TTGTTTTGTTTCATTAGT
*
1055816 TTGTTTT-TTTCTTTAGT
1 TTGTTTTGTTTCATTAGT
1055833 T
1 T
1055834 CTTTATTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.08, C:0.06, G:0.14, T:0.72
Consensus pattern (18 bp):
TTGTTTTGTTTCATTAGT
Found at i:1057275 original size:19 final size:19
Alignment explanation
Indices: 1057253--1057290 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1057243 TTTTTCGAAT
*
1057253 TAATGGTGCTTTTATAAGG
1 TAATGGTGCTTCTATAAGG
1057272 TAATGGTGCTTCTATAAGG
1 TAATGGTGCTTCTATAAGG
1057291 GAAATGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (19 bp):
TAATGGTGCTTCTATAAGG
Found at i:1066960 original size:15 final size:15
Alignment explanation
Indices: 1066940--1066972 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1066930 AGATGGATTT
*
1066940 AACTTCTCTATTCGA
1 AACTTCTCTATTCCA
1066955 AACTTCTCTATTCCA
1 AACTTCTCTATTCCA
1066970 AAC
1 AAC
1066973 ATGTTCAAGA
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:0.30, C:0.30, G:0.03, T:0.36
Consensus pattern (15 bp):
AACTTCTCTATTCCA
Found at i:1068463 original size:24 final size:24
Alignment explanation
Indices: 1068436--1068503 Score: 136
Period size: 24 Copynumber: 2.8 Consensus size: 24
1068426 AAATACTCAT
1068436 AATACATCTTTGAAATGTACGTGG
1 AATACATCTTTGAAATGTACGTGG
1068460 AATACATCTTTGAAATGTACGTGG
1 AATACATCTTTGAAATGTACGTGG
1068484 AATACATCTTTGAAATGTAC
1 AATACATCTTTGAAATGTAC
1068504 CTGGGGCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (24 bp):
AATACATCTTTGAAATGTACGTGG
Found at i:1070350 original size:40 final size:41
Alignment explanation
Indices: 1070295--1070384 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 41
1070285 ATTCATGTTT
*
1070295 AAGTGCATGAGTCATTTC-TTGTCTCATTTATTTCTTGTCG
1 AAGTGCATGAGTCATTTCTTTGTCTCATTTATTTCTTGTCA
* *
1070335 AAGTGCATGAGTCATTTCTTTTGTCTCCTTTGTTTCTTGTCA
1 AAGTGCATGAGTCATTTC-TTTGTCTCATTTATTTCTTGTCA
1070377 AAGTGCAT
1 AAGTGCAT
1070385 ATTTATTTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 18 0.40
42 27 0.60
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (41 bp):
AAGTGCATGAGTCATTTCTTTGTCTCATTTATTTCTTGTCA
Found at i:1073491 original size:18 final size:17
Alignment explanation
Indices: 1073463--1073510 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
1073453 TATTTATCCT
1073463 TATATTATATGTATATA
1 TATATTATATGTATATA
*
1073480 TATATATATATGTATGTA
1 TATAT-TATATGTATATA
*
1073498 TGTATGTATATGT
1 TATAT-TATATGT
1073511 TGCTACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TATATTATATGTATATA
Found at i:1073829 original size:66 final size:66
Alignment explanation
Indices: 1073759--1073884 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
1073749 AAGAGCCATG
* * ** *
1073759 TCTCTTCCCCGAGATA-TGTCTCCAAAAGTCATTTCTCTTCACTAAGTGGTGCCTCTAAAAATTA
1 TCTCTTCCCCAAGA-AGTGTCTCCAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAAATTA
1073823 CA
65 CA
* * * * *
1073825 TCTCTTCTCTAAGAAGTGTCTCTAAAAGTCGTGTCTCTTCTCTAAGAAGTGCCTCCAAAA
1 TCTCTTCCCCAAGAAGTGTCTCCAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAA
1073885 GTTTTGTCTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
65 1 0.02
66 48 0.98
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (66 bp):
TCTCTTCCCCAAGAAGTGTCTCCAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAAATTAC
A
Found at i:1073895 original size:66 final size:66
Alignment explanation
Indices: 1073775--1073918 Score: 171
Period size: 66 Copynumber: 2.2 Consensus size: 66
1073765 CCCCGAGATA
* * ** * *
1073775 TGTCTCCAAAAGTCATTTCTCTTCACTAAGTGGTGCCTCTAAAAATTACATCTCTTCTCTAAGAA
1 TGTCTCTAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAAATTACATCTCTTCACTAAGAA
1073840 G
66 G
* * * ***
1073841 TGTCTCTAAAAGTCGTGTCTCTTCTCTAAGAAGTGCCTCCAAAAGTTTTGTCTCTTCACTAAGAA
1 TGTCTCTAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAAATTACATCTCTTCACTAAGAA
1073906 G
66 G
*
1073907 TGCCTCTAAAAG
1 TGTCTCTAAAAG
1073919 GTTTATCTCT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (66 bp):
TGTCTCTAAAAGTCATGTCTCTTCACTAAGAAGTGCCTCCAAAAATTACATCTCTTCACTAAGAA
G
Found at i:1073928 original size:33 final size:32
Alignment explanation
Indices: 1073792--1073932 Score: 147
Period size: 33 Copynumber: 4.3 Consensus size: 32
1073782 AAAAGTCATT
** * *
1073792 TCTCTTCACTAAGTGGTGCCTCTAAAAATTACA
1 TCTCTTCACTAAGAAGTGCCTCTAAAAGTT-TA
* * * *
1073825 TCTCTTCTCTAAGAAGTGTCTCTAAAAGTCGTG
1 TCTCTTCACTAAGAAGTGCCTCTAAAAGT-TTA
* * *
1073858 TCTCTTCTCTAAGAAGTGCCTCCAAAAGTTTTG
1 TCTCTTCACTAAGAAGTGCCTCTAAAAG-TTTA
1073891 TCTCTTCACTAAGAAGTGCCTCTAAAAGGTTTA
1 TCTCTTCACTAAGAAGTGCCTCTAAAA-GTTTA
1073924 TCTCTTCAC
1 TCTCTTCAC
1073933 CAAAGGGTGC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
33 89 0.98
34 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.35
Consensus pattern (32 bp):
TCTCTTCACTAAGAAGTGCCTCTAAAAGTTTA
Found at i:1073943 original size:66 final size:66
Alignment explanation
Indices: 1073807--1073985 Score: 159
Period size: 66 Copynumber: 2.7 Consensus size: 66
1073797 TCACTAAGTG
* * ** * * * * *
1073807 GTGCCTCTAAAAATTACATCTCTTCTCTAAGAAGTGTCTCTAAAAGTCGTGTCTCTTCTCTAAGA
1 GTGCCTCCAAAATTTATGTCTCTTCACTAAGAAGTGCCTCTAAAAGTCGTATCTCTTCCCAAAGA
1073872 A
66 A
*
1073873 GTGCCTCCAAAAGTTT-TGTCTCTTCACTAAGAAGTGCCTCTAAAAGGT-TTATCTCTTCACCAA
1 GTGCCTCCAAAA-TTTATGTCTCTTCACTAAGAAGTGCCTCTAAAA-GTCGTATCTCTTC-CCAA
*
1073936 AG-G
63 AGAA
* * * * *
1073939 GTGCCTCGAAAATTTATGTCTCTTCGCAAAG-ATTGCCTTTAAAAGTC
1 GTGCCTCCAAAATTTATGTCTCTTCACTAAGAAGTGCCTCTAAAAGTC
1073986 ATTTGTTTTC
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
64 2 0.02
65 14 0.15
66 68 0.74
67 8 0.09
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (66 bp):
GTGCCTCCAAAATTTATGTCTCTTCACTAAGAAGTGCCTCTAAAAGTCGTATCTCTTCCCAAAGA
A
Found at i:1073961 original size:33 final size:34
Alignment explanation
Indices: 1073825--1073970 Score: 115
Period size: 33 Copynumber: 4.4 Consensus size: 34
1073815 AAAAATTACA
* * * * **
1073825 TCTCTTCTCTAAGAAGTGTCTCTAAAAG-TCGTG
1 TCTCTTCACAAAGAAGTGCCTCCAAAAGTTTATG
* *
1073858 TCTCTTCTCTAAGAAGTGCCTCCAAAAGTTT-TG
1 TCTCTTCACAAAGAAGTGCCTCCAAAAGTTTATG
* *
1073891 TCTCTTCACTAAGAAGTGCCTCTAAAAGGTTTA--
1 TCTCTTCACAAAGAAGTGCCTCCAAAA-GTTTATG
* *
1073924 TCTCTTCACCAAAG-GGTGCCTCGAAAA-TTTATG
1 TCTCTTCA-CAAAGAAGTGCCTCCAAAAGTTTATG
*
1073957 TCTCTTCGCAAAGA
1 TCTCTTCACAAAGA
1073971 TTGCCTTTAA
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
31 4 0.04
32 5 0.05
33 79 0.81
34 9 0.09
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (34 bp):
TCTCTTCACAAAGAAGTGCCTCCAAAAGTTTATG
Found at i:1081689 original size:35 final size:36
Alignment explanation
Indices: 1081650--1081778 Score: 149
Period size: 35 Copynumber: 3.6 Consensus size: 36
1081640 TCTTAGGTCC
1081650 ATAAGGAATTACCAGC-TGATCGGTGTTGAACATAT
1 ATAAGGAATTACCAGCTTGATCGGTGTTGAACATAT
* **
1081685 ATAAGGAATTACCAGCTTGATCAGAATTGAACATGCA-
1 ATAAGGAATTACCAGCTTGATCGGTGTTGAACAT--AT
* * *
1081722 ATAAGGAATTACCAGC-TAAACGGTGCTTAAAC-TAT
1 ATAAGGAATTACCAGCTTGATCGGTG-TTGAACATAT
1081757 ATAAGGAATTACCAGCTTGATC
1 ATAAGGAATTACCAGCTTGATC
1081779 AAAACTGAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
34 1 0.01
35 32 0.42
36 22 0.29
37 21 0.27
38 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATCGGTGTTGAACATAT
Found at i:1081767 original size:72 final size:72
Alignment explanation
Indices: 1081650--1081793 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
1081640 TCTTAGGTCC
* * * * *
1081650 ATAAGGAATTACCAGCTGATCGGTGTTGAACATATATAAGGAATTACCAGCTTGATCAGAATTGA
1 ATAAGGAATTACCAGCTAAACGGTGTTAAACATATATAAGGAATTACCAGCTTGATCAAAACTGA
1081715 ACATGCA
66 ACATGCA
1081722 ATAAGGAATTACCAGCTAAACGGTGCTTAAAC-TATATAAGGAATTACCAGCTTGATCAAAACTG
1 ATAAGGAATTACCAGCTAAACGGTG-TTAAACATATATAAGGAATTACCAGCTTGATCAAAACTG
*
1081786 AACCTGCA
65 AACATGCA
1081794 TAGACATCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 60 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (72 bp):
ATAAGGAATTACCAGCTAAACGGTGTTAAACATATATAAGGAATTACCAGCTTGATCAAAACTGA
ACATGCA
Found at i:1083528 original size:19 final size:19
Alignment explanation
Indices: 1083484--1083529 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1083474 ATCAACAGGT
1083484 AGGTCAACGATTAAGTCAA
1 AGGTCAACGATTAAGTCAA
*
1083503 A-GTCAACGATTTAGGT-AA
1 AGGTCAACGA-TTAAGTCAA
1083521 AGGTCAACG
1 AGGTCAACG
1083530 GGTCAGACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (19 bp):
AGGTCAACGATTAAGTCAA
Found at i:1083571 original size:20 final size:20
Alignment explanation
Indices: 1083546--1083592 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1083536 ACCAGTTCGG
1083546 GTTGACTTAGG-TCGGCTCGA
1 GTTGACTT-GGTTCGGCTCGA
* *
1083566 GTTGACTTGGTTCGGTTCGG
1 GTTGACTTGGTTCGGCTCGA
1083586 GTTGACT
1 GTTGACT
1083593 CAATTCGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.11, C:0.17, G:0.36, T:0.36
Consensus pattern (20 bp):
GTTGACTTGGTTCGGCTCGA
Found at i:1085632 original size:9 final size:9
Alignment explanation
Indices: 1085618--1085644 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1085608 AAGTATGGGT
1085618 AGAAATATC
1 AGAAATATC
1085627 AGAAATATC
1 AGAAATATC
1085636 AGAAATATC
1 AGAAATATC
1085645 CGAGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (9 bp):
AGAAATATC
Found at i:1089160 original size:25 final size:22
Alignment explanation
Indices: 1089131--1089176 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1089121 TTTTTAACCC
1089131 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
1089156 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
1089177 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:1092215 original size:22 final size:22
Alignment explanation
Indices: 1092167--1092208 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1092157 AAGTTAACTT
*
1092167 TTAGTCAAAGTTAAAGTCAACC
1 TTAGTCAAAGTCAAAGTCAACC
*
1092189 TTAGTCAAGGTCAAAGTCAA
1 TTAGTCAAAGTCAAAGTCAA
1092209 ATCTAGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
TTAGTCAAAGTCAAAGTCAACC
Found at i:1096045 original size:55 final size:55
Alignment explanation
Indices: 1095983--1096353 Score: 422
Period size: 55 Copynumber: 6.8 Consensus size: 55
1095973 TTGATACGGT
* * ** ***
1095983 AATTCACAAACTCATTATGAATTACGTGGGGTTATACACATAGTGCCAATATGGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
* * * * * *
1096038 TATTCACAAACTAATTATGAATTTCGTGGGCTTGCACACATAGTGCAAATACGAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
* * *
1096093 AATTCATAAACTCAATATGAATTTCGTGGAGTTGCACACAT-GCTGCGAATACAAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAG-TGCCAATACAAA
* * * **
1096148 AATTAATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTACCAATACAGT
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
* * *
1096203 AATTCATAAACTCATTATCAATTTCGTTGGGTTGCACACATAGTGCCAATAC-GA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
* * * * * ** * *
1096257 ATTTCATAAACTAACTATCAATTTCGTGGGGTTGCATATGTAGTGCCAATTCAGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
1096312 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATA
1096354 TACATTAAAA
Statistics
Matches: 267, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
54 46 0.17
55 220 0.82
56 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAAA
Found at i:1096240 original size:165 final size:164
Alignment explanation
Indices: 1095990--1096353 Score: 466
Period size: 165 Copynumber: 2.2 Consensus size: 164
1095980 GGTAATTCAC
* ** * *
1095990 AAACTCATTATGAATTACGTGGGGTTATACACATAGTGCCAATATGGATATTCACAAACTAATTA
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATAAGGATATTCACAAACTAATTA
* *
1096055 TGAATTTCGTGGGCTTGCACACATAGTGCAAATACGAAAATTCATAAACTCAA-TATGAATTTCG
66 TCAATTTCGTGGGCTTGCACACATAGTGCAAATACG-AAATTCATAAACT-AACTATCAATTTCG
*
1096119 TGGAGTTGCACACAT-GCTGCGAATACAAAAATTAAT
129 TGGAGTTGCACACATAG-TGCCAATACAAAAATTAAT
* * * *
1096155 AAACTCATTATGAATTTTGTGGGGTTGCACACATAGTACCAATACAGTA-ATTCATAAACTCATT
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATA-AGGATATTCACAAACTAATT
* *
1096219 ATCAATTTCGTTGGG-TTGCACACATAGTGCCAATACGAATTTCATAAACTAACTATCAATTTCG
65 ATCAATTTCG-TGGGCTTGCACACATAGTGCAAATACGAAATTCATAAACTAACTATCAATTTCG
* * ** * * *
1096283 TGGGGTTGCATATGTAGTGCCAATTCAGAAATTCAT
129 TGGAGTTGCACACATAGTGCCAATACAAAAATTAAT
1096319 AAACTCATTATGAATTTCGTGGGGTTGCACACATA
1 AAACTCATTATGAATTTCGTGGGGTTGCACACATA
1096354 TACATTAAAA
Statistics
Matches: 173, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
163 2 0.01
164 82 0.47
165 83 0.48
166 6 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (164 bp):
AAACTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATAAGGATATTCACAAACTAATTA
TCAATTTCGTGGGCTTGCACACATAGTGCAAATACGAAATTCATAAACTAACTATCAATTTCGTG
GAGTTGCACACATAGTGCCAATACAAAAATTAAT
Found at i:1096677 original size:20 final size:22
Alignment explanation
Indices: 1096652--1096706 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
1096642 AGTCTGAATT
*
1096652 GTATCAGTACTCCT-T-CTATG
1 GTATCAATACTCCTATACTATG
* *
1096672 GTATCAATACTTCTATATTATG
1 GTATCAATACTCCTATACTATG
1096694 GTATCAATACTCC
1 GTATCAATACTCC
1096707 CTTCAGTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 1 0.03
22 16 0.55
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (22 bp):
GTATCAATACTCCTATACTATG
Found at i:1110382 original size:20 final size:20
Alignment explanation
Indices: 1110359--1110407 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
1110349 TATATGAACA
1110359 GTATCGATAATGTTCATGAG
1 GTATCGATAATGTTCATGAG
1110379 GTATCGATAATGTTCATGAG
1 GTATCGATAATGTTCATGAG
1110399 GTATCGATA
1 GTATCGATA
1110408 CTGTAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (20 bp):
GTATCGATAATGTTCATGAG
Found at i:1112882 original size:55 final size:55
Alignment explanation
Indices: 1112823--1113085 Score: 343
Period size: 55 Copynumber: 4.8 Consensus size: 55
1112813 CCGATACGGT
1112823 AATTCATAAACTCATTATGAATTATGTGGGGTTGCACACATAATGCCAATACGAA
1 AATTCATAAACTCATTATGAATTATGTGGGGTTGCACACATAATGCCAATACGAA
* ** * * *
1112878 AATTCACAAACTCATTATGAATTACATGGGGTTGCACACATACTGCAAATACAAA
1 AATTCATAAACTCATTATGAATTATGTGGGGTTGCACACATAATGCCAATACGAA
* * *
1112933 AATTCATAAACTCATTATGAATT-TCTTGGGGTTGCATACATAATGCCAATACGGA
1 AATTCATAAACTCATTATGAATTAT-GTGGGGTTGCACACATAATGCCAATACGAA
* * * *
1112988 AATTCATAAACTCATTATGAATT-TCGTGGGGTTGCACACATAGTACCAATATGGA
1 AATTCATAAACTCATTATGAATTAT-GTGGGGTTGCACACATAATGCCAATACGAA
*
1113043 AATTCATAAACTCATTATGAATTTCATG-GGGGTTACACACATA
1 AATTCATAAACTCATTATGAA-TT-ATGTGGGGTTGCACACATA
1113086 TACATTAAAC
Statistics
Matches: 184, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
55 166 0.90
56 16 0.09
57 1 0.01
58 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTATGTGGGGTTGCACACATAATGCCAATACGAA
Found at i:1114946 original size:22 final size:22
Alignment explanation
Indices: 1114904--1114946 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1114894 TGTGTAATTT
*
1114904 TATTATTAATATTCTTGAATAA
1 TATTATTAATATTCTTAAATAA
*
1114926 TATTGTTAATTATTC-TAAATA
1 TATTATTAA-TATTCTTAAATA
1114947 TCATTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (22 bp):
TATTATTAATATTCTTAAATAA
Found at i:1120402 original size:23 final size:25
Alignment explanation
Indices: 1120375--1120422 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
1120365 TTTTGAAAGT
1120375 TATTTATTATA-ATTAT-TCAAAAA
1 TATTTATTATATATTATCTCAAAAA
1120398 TATTTATTATATATTATCTCAAAAA
1 TATTTATTATATATTATCTCAAAAA
1120423 AATTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 11 0.48
24 5 0.22
25 7 0.30
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTATTATATATTATCTCAAAAA
Found at i:1120404 original size:27 final size:25
Alignment explanation
Indices: 1120374--1120430 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
1120364 ATTTTGAAAG
*
1120374 TTATTTATTATAATTAT-TCAAAAATA
1 TTATTTA-TAT-ATTATCTCAAAAAAA
1120400 TT-TATTATATATTATCTCAAAAAAA
1 TTAT-TTATATATTATCTCAAAAAAA
1120425 TTATTT
1 TTATTT
1120431 TATGAGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
24 5 0.19
25 16 0.59
26 6 0.22
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (25 bp):
TTATTTATATATTATCTCAAAAAAA
Found at i:1120428 original size:24 final size:23
Alignment explanation
Indices: 1120378--1120429 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
1120368 TGAAAGTTAT
*
1120378 TTATTATAATTATTCAAAAATAT
1 TTATTATAATTATTCAAAAATAA
1120401 TTATTATATATTATCTCAAAAA-AA
1 TTATTATA-ATTAT-TCAAAAATAA
1120425 TTATT
1 TTATT
1120430 TTATGAGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.31
24 11 0.42
25 7 0.27
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATTATAATTATTCAAAAATAA
Found at i:1122666 original size:41 final size:41
Alignment explanation
Indices: 1122450--1122643 Score: 352
Period size: 41 Copynumber: 4.7 Consensus size: 41
1122440 ATTCGATTCA
*
1122450 ATTCAATCATGGTAGCATACAATAATTCACCATTCAACTTG
1 ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
*
1122491 ATTCGATCATGGTAGCATACAATAACTCACCATTCAACTTG
1 ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
*
1122532 ATTCGATCATGGTAGCATACAATAACTCACCATTCAACTTG
1 ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
1122573 ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
1 ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
*
1122614 ATTCGATCATAGTAGCATACAATAATTCAC
1 ATTCGATCATGGTAGCATACAATAATTCAC
1122644 AAACCAATTC
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (41 bp):
ATTCGATCATGGTAGCATACAATAATTCACCATTCAACTTG
Found at i:1122683 original size:82 final size:82
Alignment explanation
Indices: 1122450--1122672 Score: 232
Period size: 82 Copynumber: 2.7 Consensus size: 82
1122440 ATTCGATTCA
* * * * ** * * * * *
1122450 ATTCAATCATGGTAGCATACAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATA
1 ATTCGATCATAGTAGCATACAATAACTCACAAACCAACTTAATTAGATCATAGCAACATACAATA
*
1122515 ACTCACCATTCAACTTG
66 ATTCACCATTCAACTTG
* * ** * * * * *
1122532 ATTCGATCATGGTAGCATACAATAACTCACCATTCAACTTGATTCGATCATGGTAGCATACAATA
1 ATTCGATCATAGTAGCATACAATAACTCACAAACCAACTTAATTAGATCATAGCAACATACAATA
1122597 ATTCACCATTCAACTTG
66 ATTCACCATTCAACTTG
*
1122614 ATTCGATCATAGTAGCATACAATAATTCACAAACCAA-TTCAATTAGATCATAGCAACAT
1 ATTCGATCATAGTAGCATACAATAACTCACAAACCAACTT-AATTAGATCATAGCAACAT
1122673 GTATTAATTC
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
81 2 0.02
82 125 0.98
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (82 bp):
ATTCGATCATAGTAGCATACAATAACTCACAAACCAACTTAATTAGATCATAGCAACATACAATA
ATTCACCATTCAACTTG
Found at i:1125153 original size:27 final size:27
Alignment explanation
Indices: 1125097--1125154 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
1125087 GAGTGGTCGA
* * * *
1125097 GCCTAATGACAGAAGCAAGATTGTATG
1 GCCTAAAGACAGAAGAAAGATTGAAGG
*
1125124 GCCTAAAGATAGAAGAAAGATTGAAGG
1 GCCTAAAGACAGAAGAAAGATTGAAGG
1125151 GCCT
1 GCCT
1125155 GAAGTTAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (27 bp):
GCCTAAAGACAGAAGAAAGATTGAAGG
Found at i:1128339 original size:121 final size:121
Alignment explanation
Indices: 1128122--1128358 Score: 375
Period size: 121 Copynumber: 2.0 Consensus size: 121
1128112 TTGAAAAAAA
* * * *
1128122 ATAAAAATTTATATTGATTTTAAATCTTGATTATAATGGTGAATCAAAGAAATAACATAACAAAA
1 ATAAAAATTTATATTAATTTTAAATCTTAATTATAATGGTGAACCAAAGAAAGAACATAACAAAA
*
1128187 CATGGAGATTTAATGCTCAAGATTGGGGAAGAAAAAGATGAGATAAAGAAGTGGTG
66 CATGGAGATTTAATGCTCAAGATTGGAGAAGAAAAAGATGAGATAAAGAAGTGGTG
* * *
1128243 ATAAAATTTTGTATTAATTTTAAATCTTAATTATAATGGTGAACCAAAGAAAGAGCATAACAAAA
1 ATAAAAATTTATATTAATTTTAAATCTTAATTATAATGGTGAACCAAAGAAAGAACATAACAAAA
* * *
1128308 CATGGAGATTTAATGTTTAAGATTGGAGAAGAAAATGATGAGATAAAGAAG
66 CATGGAGATTTAATGCTCAAGATTGGAGAAGAAAAAGATGAGATAAAGAAG
1128359 AAGTGGTGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 105 1.00
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (121 bp):
ATAAAAATTTATATTAATTTTAAATCTTAATTATAATGGTGAACCAAAGAAAGAACATAACAAAA
CATGGAGATTTAATGCTCAAGATTGGAGAAGAAAAAGATGAGATAAAGAAGTGGTG
Found at i:1131663 original size:51 final size:51
Alignment explanation
Indices: 1131592--1131902 Score: 231
Period size: 51 Copynumber: 6.1 Consensus size: 51
1131582 AAAATGTTCC
* * * * * *
1131592 ATCAACAACACAAAATATCTATTTATATATTCGAAAAATGTTCTTTATTTT
1 ATCAACGACAAAAAAAATCTATTTATATACTCGAAAAATATTCATTATTTT
* *
1131643 ATCAATGACAAAAAAAATCTATTTATAAACTCGAAACAATATTCATTATTTT
1 ATCAACGACAAAAAAAATCTATTTATATACTCGAAA-AATATTCATTATTTT
* * *
1131695 ATCAACGATAAAAAAAATCTATTTATATACTCAAAAAAATATTCGTTATTTT
1 ATCAACGACAAAAAAAATCTATTTATATACTC-GAAAAATATTCATTATTTT
* * * ** * **
1131747 GTCAGCGAC-AAAAAAATCTATTTATGTACTC--AATTTTTTTGTTATTTT
1 ATCAACGACAAAAAAAATCTATTTATATACTCGAAAAATATTCATTATTTT
* * * * *
1131795 ATCAACGA-AAAAAATA-CTTGTTTATATACTCAATAAAATATTTATTAGTTT
1 ATCAACGACAAAAAAAATC-TATTTATATACTCGA-AAAATATTCATTATTTT
* * ** * * * *
1131846 ACCAATG--ATGAAAAGTCAATTTATATACTCGATAAAAATAATGATTATTTT
1 ATCAACGACAAAAAAAATCTATTTATATACTCG--AAAAATATTCATTATTTT
1131897 ATCAAC
1 ATCAAC
1131903 AAGAACATAA
Statistics
Matches: 205, Mismatches: 45, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.00
48 36 0.18
50 15 0.07
51 87 0.42
52 63 0.31
53 3 0.01
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (51 bp):
ATCAACGACAAAAAAAATCTATTTATATACTCGAAAAATATTCATTATTTT
Found at i:1135229 original size:23 final size:23
Alignment explanation
Indices: 1135203--1135252 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
1135193 ACTTTTTGGG
*
1135203 TGAAATGAATTAACTATTTTTCA
1 TGAAAAGAATTAACTATTTTTCA
*
1135226 TGAAAAGACTTAACTATTTTTCA
1 TGAAAAGAATTAACTATTTTTCA
1135249 TGAA
1 TGAA
1135253 TAGAGATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (23 bp):
TGAAAAGAATTAACTATTTTTCA
Found at i:1137618 original size:15 final size:15
Alignment explanation
Indices: 1137592--1137626 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
1137582 CAAGCACTCA
1137592 AAAAGAAAAAGAAAAG
1 AAAAGAAAAAG-AAAG
1137608 AAAAG-AAAAGAAAG
1 AAAAGAAAAAGAAAG
1137622 AAAAG
1 AAAAG
1137627 TTGAAAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 5 0.26
16 5 0.26
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAG
Found at i:1137623 original size:4 final size:5
Alignment explanation
Indices: 1137592--1137626 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
1137582 CAAGCACTCA
1137592 AAAAG AAAAAG AAAAG AAAAG AAAAG -AAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1137627 TTGAAAACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1145353 original size:16 final size:17
Alignment explanation
Indices: 1145315--1145357 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1145305 AACCGAAATA
1145315 ATAAATATAATATGAAAC
1 ATAAATAT-ATATGAAAC
*
1145333 A-AAATATATAT-TAAC
1 ATAAATATATATGAAAC
1145348 ATAAATATAT
1 ATAAATATAT
1145358 TACCACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 12 0.52
17 6 0.26
18 1 0.04
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAAATATATATGAAAC
Found at i:1147956 original size:51 final size:51
Alignment explanation
Indices: 1147848--1148219 Score: 186
Period size: 52 Copynumber: 7.3 Consensus size: 51
1147838 ATTATTTTTG
* * * * * *
1147848 TTATTTTATCAACCAAAAAAATAATC-ATGTTATATATTCGACAAATTGTTC-
1 TTATTTTATCAA-CGAAAAAAGAATCTAT-TTATATACTCGATAAAATATTCA
*
1147899 TGTATTTTATCAACGAAAAAAGAATCTATTTATATACTCGAAAAAATATTCA
1 T-TATTTTATCAACGAAAAAAGAATCTATTTATATACTCGATAAAATATTCA
* ** * * * * * * * * * *
1147951 TTATTTTATTATTGACAAGAGGAGTTTGTTTATATATTTGACAAAATATCCG
1 TTATTTTATCAACGA-AAAAAGAATCTATTTATATACTCGATAAAATATTCA
* * * *** * *
1148003 TTAATTTATCAAC-ACAAAAGAATCTATTTATATAATATTTAAAATGTTCT
1 TTATTTTATCAACGAAAAAAGAATCTATTTATATACTCGATAAAATATTCA
* * ** * * * * *
1148053 TTATTTTATCGACCACTGAAAGAGTCTGTTTATATACTAGATAAAATACCTGA
1 TTATTTTATCAACGA-AAAAAGAATCTATTTATATACTCGATAAAATA-TTCA
* * ** * **
1148106 -TATTTTATCAAC-ACAAAAGAA-CATATCTATATACTCGATAATTTTTTTT
1 TTATTTTATCAACGAAAAAAGAATC-TATTTATATACTCGATAAAATATTCA
* *
1148155 TTATTTTATCATA-GTGAAAAA-AATCTATTTATATACTCGA-AAAATATTCG
1 TTATTTTATCA-ACG-AAAAAAGAATCTATTTATATACTCGATAAAATATTCA
1148205 TTATTTTATCAACGA
1 TTATTTTATCAACGA
1148220 CAGCATAGTT
Statistics
Matches: 235, Mismatches: 72, Indels: 30
0.70 0.21 0.09
Matches are distributed among these distances:
49 3 0.01
50 81 0.34
51 61 0.26
52 89 0.38
53 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (51 bp):
TTATTTTATCAACGAAAAAAGAATCTATTTATATACTCGATAAAATATTCA
Found at i:1148047 original size:50 final size:50
Alignment explanation
Indices: 1147901--1148217 Score: 145
Period size: 50 Copynumber: 6.2 Consensus size: 50
1147891 AATTGTTCTG
* * * * * *
1147901 TATTTTATCAACGAAAAAAGAATCTATTTATATACTCGAAAAAATATTCAT
1 TATTTTATCAAC-ACAAAAGAATCTATTTATATAATAGATAAAATATCCGT
* ** * * * * * * *
1147952 TATTTTATTATTGACAAGAGGAGTTTGTTTATATATTTGACAAAATATCCGT
1 TATTTTATCA-ACACAA-AAGAATCTATTTATATAATAGATAAAATATCCGT
* ** * * *
1148004 TAATTTATCAACACAAAAGAATCTATTTATATAATATTTAAAATGTTCTT
1 TATTTTATCAACACAAAAGAATCTATTTATATAATAGATAAAATATCCGT
* * * * * *
1148054 TATTTTATCGACCACTGAAAGAGTCTGTTTATATACTAGATAAAATA-CCTGA
1 TATTTTATC-AACAC-AAAAGAATCTATTTATATAATAGATAAAATATCC-GT
* * * ** * ***
1148106 TATTTTATCAACACAAAAGAA-CATATCTATATACTCGATAATTTTTTTTT
1 TATTTTATCAACACAAAAGAATC-TATTTATATAATAGATAAAATATCCGT
*** * * * *
1148156 TATTTTATCATAGTGAAAAAAATCTATTTATATACTCGA-AAAATATTCGT
1 TATTTTATCA-ACACAAAAGAATCTATTTATATAATAGATAAAATATCCGT
1148206 TATTTTATCAAC
1 TATTTTATCAAC
1148218 GACAGCATAG
Statistics
Matches: 192, Mismatches: 65, Indels: 20
0.69 0.23 0.07
Matches are distributed among these distances:
49 2 0.01
50 77 0.40
51 46 0.24
52 67 0.35
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (50 bp):
TATTTTATCAACACAAAAGAATCTATTTATATAATAGATAAAATATCCGT
Found at i:1149572 original size:31 final size:32
Alignment explanation
Indices: 1149511--1149582 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
1149501 CGGGGTCGTG
* *
1149511 GGGCCTACCTGAGAACACATCTTAGGGCCGCA
1 GGGCCTACCCGAGAACACATCTCAGGGCCGCA
**
1149543 GGGCCTACCCGAGAA-TGATCTCAGGGCCGCA
1 GGGCCTACCCGAGAACACATCTCAGGGCCGCA
*
1149574 GAGCCTACC
1 GGGCCTACC
1149583 TAAGAGTCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 21 0.60
32 14 0.40
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (32 bp):
GGGCCTACCCGAGAACACATCTCAGGGCCGCA
Found at i:1153648 original size:21 final size:21
Alignment explanation
Indices: 1153624--1153667 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
1153614 AAAGAAGATT
1153624 AATGAAATG-ATAAATACAAGG
1 AATGAAATGAATAAATA-AAGG
1153645 AATGAAATGAAATAAATAAAGG
1 AATGAAATG-AATAAATAAAGG
1153667 A
1 A
1153668 TAGAGATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.61, C:0.02, G:0.18, T:0.18
Consensus pattern (21 bp):
AATGAAATGAATAAATAAAGG
Found at i:1153712 original size:22 final size:21
Alignment explanation
Indices: 1153686--1153726 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1153676 GCTGCGGAAT
1153686 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
1153708 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
1153727 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:1154122 original size:19 final size:21
Alignment explanation
Indices: 1154079--1154128 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
1154069 GAAATCCCTT
1154079 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
1154100 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
1154119 TGAAGATACA
1 TGAAAATACA
1154129 AGCTCTTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:1158266 original size:19 final size:21
Alignment explanation
Indices: 1158216--1158267 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
1158206 GAAATCCTTT
*
1158216 TGAAAATACATGATTTTTAAA
1 TGAAGATACATGATTTTTAAA
*
1158237 TG-AGAACACATGA-TTTT-AA
1 TGAAG-ATACATGATTTTTAAA
1158256 TGAAGATACATG
1 TGAAGATACATG
1158268 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 10 0.38
20 7 0.27
21 9 0.35
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (21 bp):
TGAAGATACATGATTTTTAAA
Found at i:1162987 original size:21 final size:21
Alignment explanation
Indices: 1162962--1163009 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1162952 GAATACTATA
*
1162962 GATACTGATGCAATTAGTATT
1 GATACTGATGCAATTAGTATC
1162983 GATACTGATGCAATTAGTATC
1 GATACTGATGCAATTAGTATC
1163004 GATACT
1 GATACT
1163010 ATGTGGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (21 bp):
GATACTGATGCAATTAGTATC
Found at i:1163033 original size:18 final size:17
Alignment explanation
Indices: 1162999--1163045 Score: 76
Period size: 18 Copynumber: 2.7 Consensus size: 17
1162989 GATGCAATTA
1162999 GTATCGATACTATGTGG
1 GTATCGATACTATGTGG
1163016 GTATCGATACTGATGTGG
1 GTATCGATACT-ATGTGG
*
1163034 GTATCGGTACTA
1 GTATCGATACTA
1163046 AAAGGAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (17 bp):
GTATCGATACTATGTGG
Found at i:1163546 original size:46 final size:46
Alignment explanation
Indices: 1163489--1163688 Score: 258
Period size: 46 Copynumber: 4.3 Consensus size: 46
1163479 AAATGAATGT
* * *
1163489 ATAAATGAAAATGCATAACAGTGCATTATCGACATGAAATGATGCC
1 ATAAATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATACC
* * *
1163535 ATAAATGAAAATGCATAACTGTGAATTATCGGCATGAAATGATACC
1 ATAAATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATACC
* *
1163581 ATAAATAAAAATGCATAA-AGGTGCATTATCGGTATGAAAGGATACC
1 ATAAATGAAAATGCATAACA-GTGCATTATCGGCATGAAAGGATACC
* * * * *
1163627 ATAAATGAAAATGTATAACGGTGCATTATCGGTATGAAAGGGTTCC
1 ATAAATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATACC
*
1163673 ATAAATAAAAATGCAT
1 ATAAATGAAAATGCAT
1163689 GAGTCATAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 136 1.00
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (46 bp):
ATAAATGAAAATGCATAACAGTGCATTATCGGCATGAAAGGATACC
Found at i:1163786 original size:46 final size:46
Alignment explanation
Indices: 1163696--1163849 Score: 202
Period size: 46 Copynumber: 3.3 Consensus size: 46
1163686 CATGAGTCAT
* * ***** *
1163696 AAATGAAAATGCATAACGGTGCATTATCTACAT-ACTTTCTTGCCAT
1 AAATGAAAATGCATAACGGTGCATAATCGACATGA-AAGGATGCCAC
*
1163742 AAATGAAAATACATAACGGTGCATAATCGACATGAAAGGATGCCAC
1 AAATGAAAATGCATAACGGTGCATAATCGACATGAAAGGATGCCAC
*
1163788 AAATGAAAATGCATAACGGTGCATAATCGGCATGAAAGGATGCCAC
1 AAATGAAAATGCATAACGGTGCATAATCGACATGAAAGGATGCCAC
1163834 AAATGAAAATGCATAA
1 AAATGAAAATGCATAA
1163850 TAATATATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 95 0.99
47 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (46 bp):
AAATGAAAATGCATAACGGTGCATAATCGACATGAAAGGATGCCAC
Found at i:1163866 original size:46 final size:46
Alignment explanation
Indices: 1163736--1163878 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 46
1163726 CATACTTTCT
* * ** * *
1163736 TGCCATAAATGAAAATACATAACGGTGCATAATCGACATGAAAGGA
1 TGCCACAAATGAAAATGCATAACAATACATAATCGGCATGAAAGGA
** *
1163782 TGCCACAAATGAAAATGCATAACGGTGCATAATCGGCATGAAAGGA
1 TGCCACAAATGAAAATGCATAACAATACATAATCGGCATGAAAGGA
* *
1163828 TGCCACAAATGAAAATGCATAATAATATATTAAT-GGCAT-ATAAGG-
1 TGCCACAAATGAAAATGCATAACAATACA-TAATCGGCATGA-AAGGA
1163873 TGCCAC
1 TGCCAC
1163879 TCATGGTACT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
45 7 0.08
46 76 0.87
47 4 0.05
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (46 bp):
TGCCACAAATGAAAATGCATAACAATACATAATCGGCATGAAAGGA
Found at i:1165702 original size:26 final size:26
Alignment explanation
Indices: 1165648--1165702 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1165638 ATATAGTTAG
* ****
1165648 AGGGTCACAATTCGTTTTTTTTTTCA
1 AGGGTCACAATCCGTTTTTTTACAAA
1165674 AGGGTCACAATCCGTTTTTTTACAAA
1 AGGGTCACAATCCGTTTTTTTACAAA
1165700 AGG
1 AGG
1165703 TGTTGGAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTCACAATCCGTTTTTTTACAAA
Found at i:1165964 original size:17 final size:18
Alignment explanation
Indices: 1165930--1165972 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1165920 CAGATTGATG
*
1165930 AATGAACTAGTTTAATT-
1 AATGAACTACTTTAATTA
1165947 AATGAACTAACTTT-ATTA
1 AATGAACT-ACTTTAATTA
1165965 AATGAACT
1 AATGAACT
1165973 GGAGGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (18 bp):
AATGAACTACTTTAATTA
Found at i:1183194 original size:36 final size:36
Alignment explanation
Indices: 1183153--1183301 Score: 208
Period size: 36 Copynumber: 4.1 Consensus size: 36
1183143 ATTTATAAGT
* * * *
1183153 TGGTGATAATATGGGCGTGATAATGGTGGTGGAATA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* *
1183189 TGGTGACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* * *
1183225 TGGTGATGATAAAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
*
1183261 TGGTGATGATATAGGCGTGATAATGGAGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
1183297 TGGTG
1 TGGTG
1183302 TTGGACAGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.30, C:0.05, G:0.38, T:0.28
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
Found at i:1183291 original size:23 final size:23
Alignment explanation
Indices: 1183196--1183291 Score: 56
Period size: 25 Copynumber: 4.0 Consensus size: 23
1183186 ATATGGTGAC
1183196 GATATAGGCGTGATAATGGAGAT
1 GATATAGGCGTGATAATGGAGAT
* * *
1183219 GGACTAT-GGTGATGATAAAGGCG-T
1 -GA-TATAGGCG-TGATAATGGAGAT
* *
1183243 GATA-ATG-GTGATGGACTATGGTGAT
1 GATATAGGCGTGAT--A--ATGGAGAT
1183268 GATATAGGCGTGATAATGGAGAT
1 GATATAGGCGTGATAATGGAGAT
1183291 G
1 G
1183292 GAAGATGGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 21
0.65 0.10 0.25
Matches are distributed among these distances:
20 4 0.07
21 1 0.02
22 4 0.07
23 10 0.19
24 10 0.19
25 18 0.33
26 2 0.04
27 5 0.09
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.27
Consensus pattern (23 bp):
GATATAGGCGTGATAATGGAGAT
Found at i:1183696 original size:19 final size:20
Alignment explanation
Indices: 1183649--1183699 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1183639 GAAACCCCTT
**
1183649 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1183669 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1183688 TGAAGATACATG
1 TGAAAATACATG
1183700 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1186643 original size:14 final size:15
Alignment explanation
Indices: 1186595--1186644 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
1186585 TGGTAATGAA
1186595 ATAAGAAAAGATGAAAG
1 ATAA-AAAA-ATGAAAG
*
1186612 A-ATAAAAATGAAATG
1 ATAAAAAAATGAAA-G
1186627 ATAAAAAAATG-AAG
1 ATAAAAAAATGAAAG
1186641 ATAA
1 ATAA
1186645 CTTACAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 11 0.38
15 8 0.28
16 9 0.31
17 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (15 bp):
ATAAAAAAATGAAAG
Found at i:1187307 original size:36 final size:36
Alignment explanation
Indices: 1187266--1187413 Score: 197
Period size: 36 Copynumber: 4.1 Consensus size: 36
1187256 ATTTATAAGT
* * * * *
1187266 TGGTGATAATATGGGAGTGATAATGGTGGTGGAATA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* *
1187302 TGGTGACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* * *
1187338 TGGTGATGATAAAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
*
1187374 TGGTGATGATATAGGCGTGATAATGGAGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
1187410 TGGT
1 TGGT
1187414 ATTGGACAGA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 98 1.00
ACGTcount: A:0.30, C:0.04, G:0.38, T:0.28
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
Found at i:1187404 original size:23 final size:23
Alignment explanation
Indices: 1187309--1187404 Score: 56
Period size: 25 Copynumber: 4.0 Consensus size: 23
1187299 ATATGGTGAC
1187309 GATATAGGCGTGATAATGGAGAT
1 GATATAGGCGTGATAATGGAGAT
* * *
1187332 GGACTAT-GGTGATGATAAAGGCG-T
1 -GA-TATAGGCG-TGATAATGGAGAT
* *
1187356 GATA-ATG-GTGATGGACTATGGTGAT
1 GATATAGGCGTGAT--A--ATGGAGAT
1187381 GATATAGGCGTGATAATGGAGAT
1 GATATAGGCGTGATAATGGAGAT
1187404 G
1 G
1187405 GAAGATGGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 21
0.65 0.10 0.25
Matches are distributed among these distances:
20 4 0.07
21 1 0.02
22 4 0.07
23 10 0.19
24 10 0.19
25 18 0.33
26 2 0.04
27 5 0.09
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.27
Consensus pattern (23 bp):
GATATAGGCGTGATAATGGAGAT
Found at i:1187805 original size:19 final size:20
Alignment explanation
Indices: 1187758--1187808 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1187748 GAAACCCCTT
**
1187758 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1187778 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1187797 TGAAGATACATG
1 TGAAAATACATG
1187809 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1199490 original size:21 final size:22
Alignment explanation
Indices: 1199464--1199504 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1199454 GTGCTGCAAC
1199464 AAAAAGAA-AAAAAAAAAAACA
1 AAAAAGAAGAAAAAAAAAAACA
*
1199485 AAAAAGAAGAAAAAACAAAA
1 AAAAAGAAGAAAAAAAAAAA
1199505 TACCCCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGAAAAAAAAAAACA
Found at i:1205054 original size:25 final size:26
Alignment explanation
Indices: 1205026--1205079 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
1205016 CCTACTTTGA
*
1205026 TATCATTTCTTTCTAT-TTCC-TTTCT
1 TATCATTCCTTTCT-TCTTCCATTTCT
1205051 TATCATTCCTTTCTTCTTCCATTTCT
1 TATCATTCCTTTCTTCTTCCATTTCT
1205077 TAT
1 TAT
1205080 TTCATATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 17 0.65
26 8 0.31
ACGTcount: A:0.13, C:0.26, G:0.00, T:0.61
Consensus pattern (26 bp):
TATCATTCCTTTCTTCTTCCATTTCT
Found at i:1205061 original size:14 final size:14
Alignment explanation
Indices: 1205026--1205065 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1205016 CCTACTTTGA
*
1205026 TATCATTTCTTTC-
1 TATCATTCCTTTCT
1205039 TAT--TTCCTTTCT
1 TATCATTCCTTTCT
1205051 TATCATTCCTTTCT
1 TATCATTCCTTTCT
1205065 T
1 T
1205066 CTTCCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
11 7 0.30
12 3 0.13
13 3 0.13
14 10 0.43
ACGTcount: A:0.12, C:0.25, G:0.00, T:0.62
Consensus pattern (14 bp):
TATCATTCCTTTCT
Found at i:1205223 original size:177 final size:178
Alignment explanation
Indices: 1204912--1205266 Score: 586
Period size: 177 Copynumber: 2.0 Consensus size: 178
1204902 CATCTCTTCA
** * ** *
1204912 CCATTAAATCATCCTTTGTTTATCAACAAGGCATATGTCCAGTAACATCATTTGGAGGCCGAATT
1 CCATTAAATCATCCTTCATTCATCAACAAGGCATACATCCAGTAAAATCATTTGGAGGCCGAATT
** *
1204977 CATCATCACTTGAAGGATAATTATACAACACTTGGGTAGCCTACTTTGATATCATTTCTTTCTAT
66 CATCATCACTTGAAGGATAATTATACAACACTTCCGTAGCCTACTTTGATATCATTTCTTTCCAT
*
1205042 TTCCTTTCTTATCA-TTCCTTTCTTCTTCCATTTCTTATTTCATATTT
131 TTCCTTTCTTATCATTTCCTTTCTTCTTCCATTGCTTATTTCATATTT
* *
1205089 CCATTTAATCATCCTTCATTCATCAACAAGGTATACATCCAGTAAAATCATTTGGAGGCCGAATT
1 CCATTAAATCATCCTTCATTCATCAACAAGGCATACATCCAGTAAAATCATTTGGAGGCCGAATT
*
1205154 CATCATCACTTGAAGGATAATTATACAACACTTCCGTAGCCTACTTTGATATCATTTTTTTCCAT
66 CATCATCACTTGAAGGATAATTATACAACACTTCCGTAGCCTACTTTGATATCATTTCTTTCCAT
1205219 TTCCTTTCTTATCATTTCCTTTCTTCTTCCATTGCTTATTTCATATTT
131 TTCCTTTCTTATCATTTCCTTTCTTCTTCCATTGCTTATTTCATATTT
1205267 ATATTTTAAT
Statistics
Matches: 164, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
177 132 0.80
178 32 0.20
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (178 bp):
CCATTAAATCATCCTTCATTCATCAACAAGGCATACATCCAGTAAAATCATTTGGAGGCCGAATT
CATCATCACTTGAAGGATAATTATACAACACTTCCGTAGCCTACTTTGATATCATTTCTTTCCAT
TTCCTTTCTTATCATTTCCTTTCTTCTTCCATTGCTTATTTCATATTT
Found at i:1208317 original size:2 final size:2
Alignment explanation
Indices: 1208310--1208349 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1208300 TTATCATAAC
1208310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1208350 GAGGATATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1211623 original size:17 final size:16
Alignment explanation
Indices: 1211601--1211632 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1211591 GTTTGTTGGA
1211601 AATTTCTTCTTCTTTTT
1 AATTTCTT-TTCTTTTT
1211618 AATTTCTTTTCTTTT
1 AATTTCTTTTCTTTT
1211633 GTGTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (16 bp):
AATTTCTTTTCTTTTT
Found at i:1216275 original size:2 final size:2
Alignment explanation
Indices: 1216260--1216294 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1216250 TTATCATAGC
*
1216260 TA TA TA TG TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1216295 AAGATATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1221368 original size:22 final size:23
Alignment explanation
Indices: 1221324--1221370 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1221314 AAAATCAGAA
*
1221324 AAGAAATTGAAGCACTTCAAAAG
1 AAGAAATTCAAGCACTTCAAAAG
1221347 AAGAAATTCAAGCAC-TCAAAAG
1 AAGAAATTCAAGCACTTCAAAAG
1221369 AA
1 AA
1221371 AAAAGAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (23 bp):
AAGAAATTCAAGCACTTCAAAAG
Found at i:1221402 original size:21 final size:19
Alignment explanation
Indices: 1221364--1221402 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
1221354 TCAAGCACTC
*
1221364 AAAAGAAAAAAGAGAGAAG
1 AAAAGAAAAAAGAAAGAAG
1221383 AAAACGAAAGAAAGAAAGAA
1 AAAA-GAAA-AAAGAAAGAA
1221403 AAGTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAAGAAAGAAG
Found at i:1222436 original size:24 final size:23
Alignment explanation
Indices: 1222396--1222445 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
1222386 ATTAGAAAAG
*
1222396 AAATTGAAGCACTTCAAAAAGAAGA
1 AAATTCAAGCACTTC-AAAAGAA-A
1222421 AAATTCAAGCAC-TCAAAAGAAA
1 AAATTCAAGCACTTCAAAAGAAA
1222443 AAA
1 AAA
1222446 GAGAGAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 7 0.29
24 2 0.08
25 11 0.46
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (23 bp):
AAATTCAAGCACTTCAAAAGAAA
Found at i:1223706 original size:24 final size:21
Alignment explanation
Indices: 1223672--1223714 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1223662 TCCATAAGAC
*
1223672 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1223694 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1223715 AGATTGTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1225429 original size:23 final size:24
Alignment explanation
Indices: 1225398--1225442 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
1225388 TATCGACTTA
1225398 TCAAGTAATTCATTACTTGTGGCG
1 TCAAGTAATTCATTACTTGTGGCG
1225422 TCAA-TAATTCATTACTTGTGG
1 TCAAGTAATTCATTACTTGTGG
1225443 TATCAACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
TCAAGTAATTCATTACTTGTGGCG
Found at i:1225448 original size:23 final size:24
Alignment explanation
Indices: 1225396--1225448 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
1225386 TTTATCGACT
1225396 TATCAAGTAATTCATTACTTGTGG
1 TATCAAGTAATTCATTACTTGTGG
**
1225420 CGTCAA-TAATTCATTACTTGTGG
1 TATCAAGTAATTCATTACTTGTGG
1225443 TATCAA
1 TATCAA
1225449 CCCTTTCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (24 bp):
TATCAAGTAATTCATTACTTGTGG
Found at i:1227720 original size:24 final size:24
Alignment explanation
Indices: 1227693--1227747 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
1227683 AAAATCAGCA
* *
1227693 AAGAAAATTCAAGCACTCCAAAAG
1 AAGAAAATTCAAGAACTCAAAAAG
1227717 AAGAAAATTCAAGAACTCAAAAAG
1 AAGAAAATTCAAGAACTCAAAAAG
1227741 AAGAAAA
1 AAGAAAA
1227748 GAAAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.11
Consensus pattern (24 bp):
AAGAAAATTCAAGAACTCAAAAAG
Found at i:1227754 original size:24 final size:24
Alignment explanation
Indices: 1227707--1227755 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1227697 AAATTCAAGC
* ***
1227707 ACTCCAAAAGAAGAAAATTCAAGA
1 ACTCAAAAAGAAGAAAAGAAAAGA
1227731 ACTCAAAAAGAAGAAAAGAAAAGA
1 ACTCAAAAAGAAGAAAAGAAAAGA
1227755 A
1 A
1227756 ATAAAGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.12, G:0.14, T:0.08
Consensus pattern (24 bp):
ACTCAAAAAGAAGAAAAGAAAAGA
Found at i:1230267 original size:12 final size:12
Alignment explanation
Indices: 1230250--1230274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1230240 TTGTAAACAC
1230250 ACATGACGTTAG
1 ACATGACGTTAG
1230262 ACATGACGTTAG
1 ACATGACGTTAG
1230274 A
1 A
1230275 GAACCATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
ACATGACGTTAG
Found at i:1239378 original size:2 final size:2
Alignment explanation
Indices: 1239371--1239411 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1239361 CTTGAGTGTT
1239371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1239412 TTGGTTTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1242522 original size:19 final size:19
Alignment explanation
Indices: 1242481--1242518 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1242471 AATTCATGTT
*
1242481 TATA-TAGCTCACATCATA
1 TATATTAGCTCACATAATA
1242499 TATATTAGCTC-CATAATA
1 TATATTAGCTCACATAATA
1242517 TA
1 TA
1242519 ATATCATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.37
Consensus pattern (19 bp):
TATATTAGCTCACATAATA
Found at i:1244254 original size:17 final size:18
Alignment explanation
Indices: 1244210--1244275 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 18
1244200 TAAGAGTTAG
* *
1244210 TTTAATAAATGAAC-AAG
1 TTTAATTAATGAACTAAC
* *
1244227 TTTGATGAATGAACTAA-
1 TTTAATTAATGAACTAAC
1244244 TTTAATTAATGAACTAAC
1 TTTAATTAATGAACTAAC
*
1244262 TTT-ATTAAAGAACT
1 TTTAATTAATGAACT
1244276 TAATGCATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
17 37 0.88
18 5 0.12
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (18 bp):
TTTAATTAATGAACTAAC
Found at i:1244275 original size:34 final size:34
Alignment explanation
Indices: 1244210--1244275 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
1244200 TAAGAGTTAG
* *
1244210 TTTAATAAATGAACAAGTTTGATGAATGAACTAA
1 TTTAATAAATGAACAACTTTGATGAAAGAACTAA
* *
1244244 TTTAATTAATGAACTAACTTT-ATTAAAGAACT
1 TTTAATAAATGAAC-AACTTTGATGAAAGAACT
1244276 TAATGCATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (34 bp):
TTTAATAAATGAACAACTTTGATGAAAGAACTAA
Found at i:1250162 original size:105 final size:105
Alignment explanation
Indices: 1249988--1250189 Score: 359
Period size: 105 Copynumber: 1.9 Consensus size: 105
1249978 TGGCGCAGCG
* *
1249988 GAAACAAAACTCGACGGTCTCACCAGTGATCCAAGTACAAAAAACTAAAATTGGGAGGAAGAGAT
1 GAAACAAAACTCGACGGTCTCACCAGCGATCCAAGTACAAAAAACTAAAATCGGGAGGAAGAGAT
*
1250053 GCGAATACTTACAGTGGGTTCCTTGAAAAACAGCGCAACA
66 GCGAATACTTACAGTAGGTTCCTTGAAAAACAGCGCAACA
* *
1250093 GAAACAAAACTCGACGGTCTCACCAGCGATCCAAGTACGAAAAACTGAAATCGGGAGGAAGAGAT
1 GAAACAAAACTCGACGGTCTCACCAGCGATCCAAGTACAAAAAACTAAAATCGGGAGGAAGAGAT
1250158 GCGAATACTTACAGTAGGTTCCTTGAAAAACA
66 GCGAATACTTACAGTAGGTTCCTTGAAAAACA
1250190 ACAAGGACAA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 92 1.00
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (105 bp):
GAAACAAAACTCGACGGTCTCACCAGCGATCCAAGTACAAAAAACTAAAATCGGGAGGAAGAGAT
GCGAATACTTACAGTAGGTTCCTTGAAAAACAGCGCAACA
Found at i:1250537 original size:90 final size:89
Alignment explanation
Indices: 1250383--1250555 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 89
1250373 ACATACCCTT
1250383 TTATAGCCAAGTAACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTAACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
1250448 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* * * *
1250472 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTTTTTGAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTAACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
1250537 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
1250556 TTCGGGATTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 29 0.38
90 48 0.62
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTAACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:1251937 original size:17 final size:16
Alignment explanation
Indices: 1251906--1251942 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1251896 TTTCTTACTA
1251906 TTTCATTTCTTTATTC
1 TTTCATTTCTTTATTC
*
1251922 TTTCATTT-TTT-TTA
1 TTTCATTTCTTTATTC
1251936 TTTCATT
1 TTTCATT
1251943 ACCATATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCATTTCTTTATTC
Found at i:1255301 original size:23 final size:23
Alignment explanation
Indices: 1255270--1255320 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 23
1255260 ATTGGCTTTG
1255270 CTTCTCTTTT-TGAATTTATTTTCTT
1 CTTCT-TTTTCTG-ATTT-TTTTCTT
1255295 CTTCTTTTTCTGATTTTTTTCTT
1 CTTCTTTTTCTGATTTTTTTCTT
1255318 CTT
1 CTT
1255321 TTTATCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 10 0.40
24 8 0.32
25 7 0.28
ACGTcount: A:0.08, C:0.18, G:0.04, T:0.71
Consensus pattern (23 bp):
CTTCTTTTTCTGATTTTTTTCTT
Found at i:1255636 original size:15 final size:15
Alignment explanation
Indices: 1255605--1255640 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1255595 AATGGGTAAT
1255605 AATAAAAGTAATGGA
1 AATAAAAGTAATGGA
1255620 AATAGAAAGTAAT-GA
1 AATA-AAAGTAATGGA
1255635 AATAAA
1 AATAAA
1255641 GATAGAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 10 0.50
16 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (15 bp):
AATAAAAGTAATGGA
Found at i:1257570 original size:14 final size:13
Alignment explanation
Indices: 1257553--1257602 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
1257543 GTGCAAAAAG
1257553 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
1257567 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
1257580 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
1257591 AAAGAAAAAGAA
1 AAAGAAAAAGAA
1257603 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:1257599 original size:19 final size:18
Alignment explanation
Indices: 1257547--1257602 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
1257537 ATTGGAGTGC
1257547 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
1257564 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
1257583 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
1257602 A
1 A
1257603 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:1257600 original size:11 final size:11
Alignment explanation
Indices: 1257547--1257602 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
1257537 ATTGGAGTGC
1257547 AAAAAG-AAAG
1 AAAAAGAAAAG
1257557 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
1257571 AAGAAGAAAAG
1 AAAAAGAAAAG
1257582 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
1257595 AAAAAGAA
1 AAAAAGAA
1257603 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:1267757 original size:23 final size:22
Alignment explanation
Indices: 1267705--1267757 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
1267695 GTTAAAATAA
1267705 TATTTTTAG-TTATTATTATTT
1 TATTTTTAGTTTATTATTATTT
*
1267726 TA--TTAAGTTTATTATTATTT
1 TATTTTTAGTTTATTATTATTT
1267746 TATTCTTTAGTT
1 TATT-TTTAGTT
1267758 ATTTAGGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 2 0.08
23 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (22 bp):
TATTTTTAGTTTATTATTATTT
Found at i:1268529 original size:11 final size:11
Alignment explanation
Indices: 1268501--1268534 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1268491 TTTGCTATTT
1268501 AAAAAAAA--C
1 AAAAAAAATTC
1268510 AAAAAAAATTC
1 AAAAAAAATTC
1268521 AAAAAAAATTC
1 AAAAAAAATTC
1268532 AAA
1 AAA
1268535 CGAAGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:1279515 original size:24 final size:24
Alignment explanation
Indices: 1279487--1279542 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
1279477 TAGGCATGAT
*
1279487 CATTGAATCCTC-ATAGGTCACGTC
1 CATTGAATCCTCTAAAGG-CACGTC
**
1279511 CATTGGTTCCTCTAAAGGCACGTC
1 CATTGAATCCTCTAAAGGCACGTC
*
1279535 CTTTGAAT
1 CATTGAAT
1279543 GAAAAATGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (24 bp):
CATTGAATCCTCTAAAGGCACGTC
Found at i:1282008 original size:21 final size:19
Alignment explanation
Indices: 1281975--1282019 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
1281965 TGTAGGAGTC
* *
1281975 TTTTTCTTTTCTTTTTGTT
1 TTTTTCTTTTCTTGTTATT
1281994 TTTTTCTTCTTTCTTGTTATT
1 TTTTTC-T-TTTCTTGTTATT
1282015 TTTTT
1 TTTTT
1282020 GTTGTAGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 15 0.68
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTCTTGTTATT
Found at i:1282451 original size:35 final size:36
Alignment explanation
Indices: 1282401--1282468 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
1282391 AAATGAAATT
*
1282401 TGGTGATGATTTAGGTGTGAT-ATGGTGATGGACTA
1 TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
*
1282436 TGGTGATGATATAGGTGTGATAATGGTGTTGGA
1 TGGTGATGATATAGGTGTGATAATGGTGATGGA
1282469 AGATGGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 20 0.67
36 10 0.33
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (36 bp):
TGGTGATGATATAGGTGTGATAATGGTGATGGACTA
Found at i:1282475 original size:36 final size:35
Alignment explanation
Indices: 1282401--1282480 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
1282391 AAATGAAATT
* **
1282401 TGGTGATGATTTAGGTGTGATATGGTGATGGACTA
1 TGGTGATGATATAGGTGTGATATGGTGATGGAAGA
*
1282436 TGGTGATGATATAGGTGTGATAATGGTGTTGGAAGA
1 TGGTGATGATATAGGTGTGAT-ATGGTGATGGAAGA
*
1282472 TGGTAATGA
1 TGGTGATGA
1282481 CCAGATTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 20 0.51
36 19 0.49
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.35
Consensus pattern (35 bp):
TGGTGATGATATAGGTGTGATATGGTGATGGAAGA
Found at i:1286506 original size:22 final size:22
Alignment explanation
Indices: 1286476--1286518 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1286466 GATGTAGGAG
*
1286476 TCTTTTTCTT-TTCTTTTTTTT
1 TCTTTTTCTTGTTATTTTTTTT
1286497 TCTTCTTTCTTGTTATTTTTTT
1 TCTT-TTTCTTGTTATTTTTTT
1286519 GTTGTAGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (22 bp):
TCTTTTTCTTGTTATTTTTTTT
Found at i:1286938 original size:13 final size:12
Alignment explanation
Indices: 1286918--1286981 Score: 64
Period size: 13 Copynumber: 5.4 Consensus size: 12
1286908 ATTTAGGCGT
1286918 GATATGGTGATG
1 GATATGGTGATG
1286930 GACTATGGTGAT-
1 GA-TATGGTGATG
*
1286942 GATATAGGCG-T-
1 GATAT-GGTGATG
1286953 GATATGGTGATG
1 GATATGGTGATG
1286965 GACTATGGTGAT-
1 GA-TATGGTGATG
1286977 GATAT
1 GATAT
1286982 AGACGTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
10 3 0.07
11 13 0.29
12 11 0.24
13 18 0.40
ACGTcount: A:0.27, C:0.05, G:0.36, T:0.33
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:1286939 original size:35 final size:35
Alignment explanation
Indices: 1286900--1287018 Score: 177
Period size: 35 Copynumber: 3.4 Consensus size: 35
1286890 AAATGGAATT
*
1286900 TGGTGATGATTTAGGCGTGATATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
1286935 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATATGGTGATGGACTA
* * **
1286970 TGGTGATGATATAGACGTGATAATGGTGTTGGAAGA
1 TGGTGATGATATAGGCGTGAT-ATGGTGATGGACTA
1287006 TGGTGATGA-ATAG
1 TGGTGATGATATAG
1287019 ATTGTATCTT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 58 0.74
36 20 0.26
ACGTcount: A:0.27, C:0.04, G:0.37, T:0.32
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATATGGTGATGGACTA
Found at i:1289830 original size:13 final size:13
Alignment explanation
Indices: 1289812--1289846 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1289802 TCATTCCATG
1289812 CACAAGGCTGCAC
1 CACAAGGCTGCAC
1289825 CACAAGGCTGCAC
1 CACAAGGCTGCAC
1289838 CACAAGGCT
1 CACAAGGCT
1289847 CCCTAGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.09
Consensus pattern (13 bp):
CACAAGGCTGCAC
Found at i:1290821 original size:27 final size:27
Alignment explanation
Indices: 1290760--1290821 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
1290750 AAAGAAAATC
*
1290760 AAAAAAGAAATTGAAGCACTCCAAAAG
1 AAAAAAGAAATTGAAGCACTCAAAAAG
* *
1290787 AAAGAAAGAAATT-CAGCATTCAAAAAG
1 AAA-AAAGAAATTGAAGCACTCAAAAAG
1290814 AAGAAAAG
1 AA-AAAAG
1290822 CAAAGAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.11
Consensus pattern (27 bp):
AAAAAAGAAATTGAAGCACTCAAAAAG
Found at i:1294848 original size:27 final size:28
Alignment explanation
Indices: 1294787--1294848 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
1294777 AAAGAAAATC
*
1294787 AGAAAAGAAATTGAAGCACTCCAAAAGA
1 AGAAAAGAAATTGAAGCACTCAAAAAGA
* *
1294815 A-AGAAAGAAATT-CAGCATTCAAAAAGA
1 AGA-AAAGAAATTGAAGCACTCAAAAAGA
1294842 AGAAAAG
1 AGAAAAG
1294849 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.60, C:0.11, G:0.18, T:0.11
Consensus pattern (28 bp):
AGAAAAGAAATTGAAGCACTCAAAAAGA
Found at i:1304077 original size:20 final size:22
Alignment explanation
Indices: 1304052--1304091 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1304042 GTGTAAGACC
1304052 TATGAGCT-A-AAATGAATGCA
1 TATGAGCTAACAAATGAATGCA
1304072 TATGAGCTAACAAATGAATG
1 TATGAGCTAACAAATGAATG
1304092 ATTAAGCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (22 bp):
TATGAGCTAACAAATGAATGCA
Found at i:1305246 original size:24 final size:21
Alignment explanation
Indices: 1305211--1305253 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1305201 GGCACATTCT
*
1305211 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1305234 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1305254 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1306574 original size:28 final size:28
Alignment explanation
Indices: 1306515--1306579 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
1306505 ACTTATTTCT
* * *
1306515 TTTCTTTTCTTCTTTTTGAGTGCTGGAT
1 TTTCTTTTCTTCTTTTGGAGTGCTGCAA
*
1306543 TTTC-TTTCTTTCTTTTGGAGTGCTTCAA
1 TTTCTTTTC-TTCTTTTGGAGTGCTGCAA
1306571 TTTCTTTTC
1 TTTCTTTTC
1306580 AAATTTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 4 0.13
28 23 0.74
29 4 0.13
ACGTcount: A:0.08, C:0.17, G:0.14, T:0.62
Consensus pattern (28 bp):
TTTCTTTTCTTCTTTTGGAGTGCTGCAA
Found at i:1308854 original size:13 final size:13
Alignment explanation
Indices: 1308836--1308893 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
1308826 TAGGCGTGCA
1308836 ATGGTGATGGAAG
1 ATGGTGATGGAAG
* *
1308849 ATGGTGATGTAAT
1 ATGGTGATGGAAG
* *
1308862 A-GGCG-T-GAAA
1 ATGGTGATGGAAG
1308872 ATGGTGATGGAAG
1 ATGGTGATGGAAG
*
1308885 ATAGTGATG
1 ATGGTGATG
1308894 AACATATAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
10 3 0.09
11 4 0.12
12 4 0.12
13 23 0.68
ACGTcount: A:0.33, C:0.02, G:0.40, T:0.26
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:1308882 original size:36 final size:35
Alignment explanation
Indices: 1308779--1308894 Score: 162
Period size: 35 Copynumber: 3.3 Consensus size: 35
1308769 TGGTTAAGGA
* * *
1308779 ATGGTGATGATATAGGCATGAAATGGTGATAGAGG
1 ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
*
1308814 ATGGTGATGATATAGGCGTGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
1308849 ATGGTGATG-TAATAGGCGTGAAAATGGTGATGGAAG
1 ATGGTGATGAT-ATAGGCGTG-AAATGGTGATGGAAG
*
1308885 ATAGTGATGA
1 ATGGTGATGA
1308895 ACATATAGTA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.01
35 49 0.68
36 22 0.31
ACGTcount: A:0.33, C:0.03, G:0.38, T:0.26
Consensus pattern (35 bp):
ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
Found at i:1312473 original size:17 final size:17
Alignment explanation
Indices: 1312451--1312483 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1312441 TCGGCTTAAA
1312451 AGAAATGGTTAGGGTAT
1 AGAAATGGTTAGGGTAT
*
1312468 AGAAATGGTTATGGTA
1 AGAAATGGTTAGGGTA
1312484 GAGGTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
AGAAATGGTTAGGGTAT
Found at i:1312794 original size:12 final size:12
Alignment explanation
Indices: 1312774--1312817 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1312764 TGTAGGAGTC
*
1312774 TTTTCTTTTGCT
1 TTTTGTTTTGCT
*
1312786 TTTTGTTTTTCT
1 TTTTGTTTTGCT
*
1312798 TCTTTATTTTGCT
1 T-TTTGTTTTGCT
1312811 TTTTGTT
1 TTTTGTT
1312818 GTAGCACTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.77
Consensus pattern (12 bp):
TTTTGTTTTGCT
Found at i:1313226 original size:35 final size:35
Alignment explanation
Indices: 1313184--1313299 Score: 171
Period size: 35 Copynumber: 3.3 Consensus size: 35
1313174 TAAGGAATGA
* *
1313184 TGATGATATAGGCGTGAAATGGTGATAGAGGATGG
1 TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
* *
1313219 TGATGATATAGGCGTGCAATGGTGATGGAAGATAG
1 TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
*
1313254 TGATGTTATAGGCGTGAAAATGGTGATGGAAGATGG
1 TGATGATATAGGCGTG-AAATGGTGATGGAAGATGG
1313290 TGATGA-ATAG
1 TGATGATATAG
1313300 ATAGTATCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
35 50 0.69
36 22 0.31
ACGTcount: A:0.32, C:0.03, G:0.38, T:0.27
Consensus pattern (35 bp):
TGATGATATAGGCGTGAAATGGTGATGGAAGATGG
Found at i:1318480 original size:11 final size:10
Alignment explanation
Indices: 1318443--1318484 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
1318433 AGCTAGCTAA
1318443 ATTCAGCTCAC
1 ATTCAGCTC-C
1318454 ATT-AGCTCC
1 ATTCAGCTCC
*
1318463 GTTCAGCTCC
1 ATTCAGCTCC
1318473 ATTTCAGCTCC
1 A-TTCAGCTCC
1318484 A
1 A
1318485 ATAGCTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 3 0.11
10 11 0.41
11 13 0.48
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (10 bp):
ATTCAGCTCC
Found at i:1319878 original size:13 final size:13
Alignment explanation
Indices: 1319862--1319886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319852 AGAAGGGGAG
1319862 AAAGAAAATAGCT
1 AAAGAAAATAGCT
1319875 AAAGAAAATAGC
1 AAAGAAAATAGC
1319887 CATTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAGAAAATAGCT
Found at i:1320789 original size:20 final size:19
Alignment explanation
Indices: 1320759--1320892 Score: 90
Period size: 20 Copynumber: 6.7 Consensus size: 19
1320749 CAACGTGATC
*
1320759 TCAAATTCGCAACACGAAT
1 TCAAATTCGCAACACGAAG
* *
1320778 TCAAATTTCGCAAC-CCAGG
1 TCAAA-TTCGCAACACGAAG
*
1320797 TTCCAAATTCGCAACGCGAAAG
1 -T-CAAATTCGCAACACG-AAG
*
1320819 TCAAATTCGCAACACATAAG
1 TCAAATTCGCAACAC-GAAG
* **
1320839 TCAAATTCGCAACGCGATT
1 TCAAATTCGCAACACGAAG
* *
1320858 TTAAGATTCGCAACGCGATAG
1 TCAA-ATTCGCAACACGA-AG
*
1320879 TCGAAATTTGCAAC
1 TC-AAATTCGCAAC
1320893 GCGATTTAAG
Statistics
Matches: 90, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
19 11 0.12
20 60 0.67
21 15 0.17
22 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (19 bp):
TCAAATTCGCAACACGAAG
Found at i:1320833 original size:60 final size:60
Alignment explanation
Indices: 1320759--1320892 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
1320749 CAACGTGATC
* *
1320759 TCAAATTCGCAACAC-GAATTCAAATTTCGCAACCCAGGTTCCAA-ATTCGCAACGCGAAAG
1 TCAAATTCGCAACACAGAAGTCAAA-TTCGCAACCC-GATTCCAAGATTCGCAACGCGAAAG
* * ** *
1320819 TCAAATTCGCAACACATAAGTCAAATTCGCAACGCGATTTTAAGATTCGCAACGCGATAG
1 TCAAATTCGCAACACAGAAGTCAAATTCGCAACCCGATTCCAAGATTCGCAACGCGAAAG
*
1320879 TCGAAATTTGCAAC
1 TC-AAATTCGCAAC
1320893 GCGATTTAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
59 5 0.08
60 41 0.65
61 17 0.27
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (60 bp):
TCAAATTCGCAACACAGAAGTCAAATTCGCAACCCGATTCCAAGATTCGCAACGCGAAAG
Found at i:1320895 original size:41 final size:39
Alignment explanation
Indices: 1320800--1320917 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 39
1320790 ACCCAGGTTC
* * *
1320800 CAAATTCGCAACGCGAAAGTCAA-ATTCGCAACAC-ATAAGT
1 CAAATTCGCAACGCG--ATTTAAGATTCGCAACGCGAT-AGT
1320840 CAAATTCGCAACGCGATTTTAAGATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGA-TTTAAGATTCGCAACGCGATAGT
*
1320880 CGAAATTTGCAACGCGATTTAAGATTCGCAACGCGATA
1 C-AAATTCGCAACGCGATTTAAGATTCGCAACGCGATA
1320918 CTCTAAAATC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 50 0.71
41 16 0.23
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (39 bp):
CAAATTCGCAACGCGATTTAAGATTCGCAACGCGATAGT
Found at i:1321471 original size:20 final size:19
Alignment explanation
Indices: 1321446--1321640 Score: 167
Period size: 20 Copynumber: 9.7 Consensus size: 19
1321436 TCTTAAAATC
1321446 GCGTTGCGAATTTGACTTCT
1 GCGTTGCGAATTTGACTT-T
*
1321466 GTGTTGCGAATTTGACTTT
1 GCGTTGCGAATTTGACTTT
1321485 CGCGTTGCGAATTTGAAAC-TT
1 -GCGTTGCGAATTTG--ACTTT
* * * *
1321506 GGGTTGCAAAATTTGAATTC
1 GCGTTGC-GAATTTGACTTT
* *
1321526 GCGTTGCGATTTTGGACTATC
1 GCGTTGCGAATTT-GACT-TT
1321547 GCGTTGCGAATTTGACTTT
1 GCGTTGCGAATTTGACTTT
* *
1321566 CACATTGCGAATTTGACTTAT
1 -GCGTTGCGAATTTGACTT-T
* *
1321587 GTGTTTCGAATTTGACTTT
1 GCGTTGCGAATTTGACTTT
*
1321606 CGCGTTGCAAATTTGACTTT
1 -GCGTTGCGAATTTGACTTT
*
1321626 CGCGTTGTGAATTTG
1 -GCGTTGCGAATTTG
1321641 GAAAATAGGT
Statistics
Matches: 142, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
19 8 0.06
20 109 0.77
21 23 0.16
22 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (19 bp):
GCGTTGCGAATTTGACTTT
Found at i:1321488 original size:40 final size:40
Alignment explanation
Indices: 1321444--1321624 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
1321434 AATCTTAAAA
1321444 TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTT
* * *
1321484 TCGCGTTGCGAATTTGAAAC-T-TGGGTTGCAAAATTTGA-AT
1 TCGCGTTGCGAATTTG--ACTTCTGTGTTGC-GAATTTGACTT
* *
1321524 TCGCGTTGCGATTTTGGACTATC-GCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTT-GACT-TCTGTGTTGCGAATTTGACTT
* * * *
1321565 TCACATTGCGAATTTGACTTATGTGTTTCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTT
*
1321605 TCGCGTTGCAAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
1321625 TCGCGTTGTG
Statistics
Matches: 116, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
39 3 0.03
40 82 0.71
41 29 0.25
42 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (40 bp):
TCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTT
Found at i:1321532 original size:60 final size:61
Alignment explanation
Indices: 1321415--1321621 Score: 179
Period size: 60 Copynumber: 3.4 Consensus size: 61
1321405 GCATTGTGAT
* * * *
1321415 TTTGGAGTATCGCGTTGCGAATCTT-AAAATCGCGTTGCGAATTTGACTTCTGTGTTGCGAA
1 TTTGGACTATCGCGTTGCGAAT-TTGAAAATCGCGTTGCAAATTTGAATTCTGCGTTGCGAA
* * * * *
1321476 TTT-GACTTTCGCGTTGCGAATTTGAAACTTGGGTTGCAAAATTTGAATTC-GCGTTGCGAT
1 TTTGGACTATCGCGTTGCGAATTTGAAAATCGCGTTGC-AAATTTGAATTCTGCGTTGCGAA
*** * * * * * * *
1321536 TTTGGACTATCGCGTTGCGAATTTGACTTTCACATTGCGAATTTGACTTATGTGTTTCGAA
1 TTTGGACTATCGCGTTGCGAATTTGAAAATCGCGTTGCAAATTTGAATTCTGCGTTGCGAA
* *
1321597 TTT-GACTTTCGCGTTGCAAATTTGA
1 TTTGGACTATCGCGTTGCGAATTTGA
1321622 CTTTCGCGTT
Statistics
Matches: 117, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
59 2 0.02
60 66 0.56
61 49 0.42
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (61 bp):
TTTGGACTATCGCGTTGCGAATTTGAAAATCGCGTTGCAAATTTGAATTCTGCGTTGCGAA
Found at i:1321556 original size:61 final size:61
Alignment explanation
Indices: 1321412--1321561 Score: 180
Period size: 60 Copynumber: 2.5 Consensus size: 61
1321402 AATGCATTGT
* * * *
1321412 GATTTTGGAGTATCGCGTTGCGAATCTT-AAAATCGCGTTGCGAATTTGACTTCTGTGTTGC
1 GATTTTGGACTATCGCGTTGCGAAT-TTGAAAATCGCGTTGCAAATTTGAATTCTGCGTTGC
* * * * *
1321473 GAATTT-GACTTTCGCGTTGCGAATTTGAAACTTGGGTTGCAAAATTTGAATTC-GCGTTGC
1 GATTTTGGACTATCGCGTTGCGAATTTGAAAATCGCGTTGC-AAATTTGAATTCTGCGTTGC
1321533 GATTTTGGACTATCGCGTTGCGAATTTGA
1 GATTTTGGACTATCGCGTTGCGAATTTGA
1321562 CTTTCACATT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 37 0.49
61 36 0.48
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.37
Consensus pattern (61 bp):
GATTTTGGACTATCGCGTTGCGAATTTGAAAATCGCGTTGCAAATTTGAATTCTGCGTTGC
Found at i:1321628 original size:101 final size:100
Alignment explanation
Indices: 1321443--1321642 Score: 237
Period size: 101 Copynumber: 2.0 Consensus size: 100
1321433 GAATCTTAAA
*** *
1321443 ATCGCGTTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTTCGCGTTGCGAATTTGAAACTTGG
1 ATCGCGTTGCGAATTTGACTTCTACATTGCGAATTTGACTTTCGCGTTGCGAATTTG-AACTTGC
*
1321508 GTTGCAAAATTTGAATTCGCGTTGCGATTTTGGACT
65 GTTGCAAAATTTGAATTCGCGTTGCGAATTTGGACT
* *
1321544 ATCGCGTTGCGAATTTGACTT-TCACATTGCGAATTTGACTTAT-GTGTTTCGAATTTG-ACTTT
1 ATCGCGTTGCGAATTTGACTTCT-ACATTGCGAATTTGACTT-TCGCGTTGCGAATTTGAAC-TT
* *
1321606 CGCGTTGC-AAATTTGACTTTCGCGTTGTGAATTTGGA
63 -GCGTTGCAAAATTTGA-ATTCGCGTTGCGAATTTGGA
1321643 AAATAGGTTG
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
99 2 0.02
100 11 0.13
101 71 0.84
102 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (100 bp):
ATCGCGTTGCGAATTTGACTTCTACATTGCGAATTTGACTTTCGCGTTGCGAATTTGAACTTGCG
TTGCAAAATTTGAATTCGCGTTGCGAATTTGGACT
Done.