Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold793
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: 691781
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 3 of 5
Found at i:288726 original size:13 final size:13
Alignment explanation
Indices: 288708--288732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
288698 TACAATGAGC
288708 ATGTATCGATACA
1 ATGTATCGATACA
288721 ATGTATCGATAC
1 ATGTATCGATAC
288733 TAGGCATAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:292316 original size:20 final size:20
Alignment explanation
Indices: 292270--292309 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
292260 CTTTTTTGGG
292270 AAGGTGATTTCCACAATTCA
1 AAGGTGATTTCCACAATTCA
*
292290 AAGGTGATTTCCATAATTCA
1 AAGGTGATTTCCACAATTCA
292310 TTAGTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGGTGATTTCCACAATTCA
Found at i:293005 original size:93 final size:92
Alignment explanation
Indices: 292847--293067 Score: 304
Period size: 93 Copynumber: 2.4 Consensus size: 92
292837 TACATTTAGG
* *
292847 GATGTATCGATACATT-ATATATTGTATTAATACATTTTCATGTGTATCAATACAAATGAGGGTT
1 GATGTATCGATACATTCATATAATGTATTAATACATTTGCATGTGTATCAATACAAATGAGGGTT
*
292911 TCAAGA-TTTCTTTAGCTATTACCAACCA
66 TCAACAGTTT-TTTAGCTATTACCAA-CA
* * * *
292939 GATGTATCAATACATTCACATAATGTATTAAAACATTATGCAT-TGTATCGATACAAATGAGGGT
1 GATGTATCGATACATTCATATAATGTATTAATACATT-TGCATGTGTATCAATACAAATGAGGGT
*
293003 TTCAACAGTTTTTTAGCTATTCCCAACA
65 TTCAACAGTTTTTTAGCTATTACCAACA
* *
293031 GATGTATCGATACATTCATATGATGTATCAATACATT
1 GATGTATCGATACATTCATATAATGTATTAATACATT
293068 CAATCCTAAA
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
92 49 0.43
93 57 0.50
94 7 0.06
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (92 bp):
GATGTATCGATACATTCATATAATGTATTAATACATTTGCATGTGTATCAATACAAATGAGGGTT
TCAACAGTTTTTTAGCTATTACCAACA
Found at i:293719 original size:17 final size:17
Alignment explanation
Indices: 293693--293727 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
293683 AGTGAATGCA
293693 ATGAAAAGATTTTCGAT
1 ATGAAAAGATTTTCGAT
*
293710 ATGAACAGATTTTCGAT
1 ATGAAAAGATTTTCGAT
293727 A
1 A
293728 AAAAAGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (17 bp):
ATGAAAAGATTTTCGAT
Found at i:298057 original size:13 final size:13
Alignment explanation
Indices: 298039--298063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
298029 TGTGTTCTTA
298039 GTATCGATACATT
1 GTATCGATACATT
298052 GTATCGATACAT
1 GTATCGATACAT
298064 GGGCACTATT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:300143 original size:30 final size:30
Alignment explanation
Indices: 300107--300169 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
300097 AGTAAAAGTA
*
300107 TTAAATATTTTATTAAAGGAGAGAAAAATC
1 TTAAATATTTTATTAAAGGAGAGAAAAACC
300137 TTAAATATTTTATTAAAGGAGAGAAAAACC
1 TTAAATATTTTATTAAAGGAGAGAAAAACC
300167 TTA
1 TTA
300170 TTAAGAGGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (30 bp):
TTAAATATTTTATTAAAGGAGAGAAAAACC
Found at i:300815 original size:21 final size:20
Alignment explanation
Indices: 300789--300827 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
300779 AGGTCAAAAC
300789 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
300810 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
300828 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:300874 original size:32 final size:33
Alignment explanation
Indices: 300816--300879 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
300806 CACACCTAGA
* *
300816 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTACCGATACATATTGCATAGTATCGATACAT
*
300849 TGTACCGATACATGTT-CATAGTATCGATACA
1 TGTACCGATACATATTGCATAGTATCGATACA
300880 CCTTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTACCGATACATATTGCATAGTATCGATACAT
Found at i:301028 original size:43 final size:43
Alignment explanation
Indices: 300969--301069 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
300959 ACATGGTAAA
* *
300969 ATGTATCGATAAATTGAGCCCAATGGCTATAAATTTCAAATGC
1 ATGTATCGATACATTGAGCCCAATGACTATAAATTTCAAATGC
*
301012 ATGTATCGATACATTGAGCCCAATGACTATAATTTTCAAATGC
1 ATGTATCGATACATTGAGCCCAATGACTATAAATTTCAAATGC
*
301055 ATGCATCGATACATT
1 ATGTATCGATACATT
301070 ATGAATTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (43 bp):
ATGTATCGATACATTGAGCCCAATGACTATAAATTTCAAATGC
Found at i:303163 original size:13 final size:13
Alignment explanation
Indices: 303147--303182 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
303137 TTTATCATTA
*
303147 TTTAAATATAACT
1 TTTAAAAATAACT
303160 TTTAAAAATAACT
1 TTTAAAAATAACT
303173 TTTAAAAATA
1 TTTAAAAATA
303183 GCACTGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTAAAAATAACT
Found at i:303555 original size:26 final size:26
Alignment explanation
Indices: 303524--303576 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
303514 GCAGTTGGAG
303524 TATACTCGTTGATGAAAAATTTAATA
1 TATACTCGTTGATGAAAAATTTAATA
303550 TATACTCGTTGATGAAAAATTTAATA
1 TATACTCGTTGATGAAAAATTTAATA
303576 T
1 T
303577 TTTGGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (26 bp):
TATACTCGTTGATGAAAAATTTAATA
Found at i:303695 original size:79 final size:80
Alignment explanation
Indices: 303562--303845 Score: 310
Period size: 79 Copynumber: 3.6 Consensus size: 80
303552 TACTCGTTGA
* * * * * ** *
303562 TGAAAAATTTAATATTTTGGAGATAAAGA-CAGGGTTGTAGTATCCTTTCAAAAATAACGGGACT
1 TGAAAAATCTGATGTTTTGGAAATAAA-ATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATT
*
303626 AGAGTATCCCCGATTG
65 AGAGTATCCCCGATAG
* * *
303642 TGAAAAATCTG-TGTTTTGGAAATAAAATCAGGATTGGAGTATCCCCTCGAAAATAATAGGG-TT
1 TGAAAAATCTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAA-CGGGATT
* * *
303705 CGAGTATCCTCGATAA
65 AGAGTATCCCCGATAG
* * * * *
303721 TGGAAAATC-GATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGATTA
1 TGAAAAATCTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTA
*
303785 GAGTATCCCCGATGG
66 GAGTATCCCCGATAG
303800 TGAAAAAT-TGATGTTTTGGAAATAAAATC-GAGGTTGGAGTATCCCC
1 TGAAAAATCTGATGTTTTGGAAATAAAATCAG-GGTTGGAGTATCCCC
303846 GATTGTGAAA
Statistics
Matches: 167, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
78 6 0.04
79 149 0.89
80 12 0.07
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (80 bp):
TGAAAAATCTGATGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTA
GAGTATCCCCGATAG
Found at i:303844 original size:51 final size:51
Alignment explanation
Indices: 303785--303896 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
303775 AACGGGATTA
* *
303785 GAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAATAAAATCGA-GGTTG
1 GAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAA-CGAGGGTTG
* * *
303836 GAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACTAGGGTTG
1 GAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAACGAGGGTTG
303887 GAGTATCCCC
1 GAGTATCCCC
303897 TCGAAAATAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 2 0.04
51 53 0.96
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATGGTGAAAAATTGATATTTTGAAAATAAAACGAGGGTTG
Found at i:303858 original size:130 final size:130
Alignment explanation
Indices: 303699--303975 Score: 328
Period size: 130 Copynumber: 2.1 Consensus size: 130
303689 CGAAAATAAT
* * * *
303699 AGGGTTCGAGTATCCTCGATAATGGAAAATCGATATTTT-AGAAATAAAA-TCGGGGTTAGAGTA
1 AGGGTTAGAGTATCCCCGATAATGAAAAATCGATATTTTGA-AAATAAAACT-AGGGTTAGAGTA
* * *
303762 TCCCCTCAAAAATAACGGGATTAGAGTATCCCCGATGGTGAAAAATT-GATGTTTTGGAAATAAA
64 TCCCCTCAAAAATAACGGGATTAGAGTATCCCCAATGATGAAAAATTAG-TGTTTTGAAAATAAA
303826 ATC
128 ATC
* ** * * *
303829 -GAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACTAGGGTTGGAGTAT
1 AG-GGTTAGAGTATCCCCGATAATGAAAAATCGATATTTTGAAAATAAAACTAGGGTTAGAGTAT
* * * * *
303893 CCCCTCGAAAATAACGGGGTTGGAGTATTCCCAATTATGAAAAATTAGTGTTTTGAAAATAAAAT
65 CCCCTCAAAAATAACGGGATTAGAGTATCCCCAATGATGAAAAATTAGTGTTTTGAAAATAAAAT
303958 C
130 C
303959 AGGGTTAGAGTATCCCC
1 AGGGTTAGAGTATCCCC
303976 TCAGAAATAA
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
129 1 0.01
130 119 0.96
131 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (130 bp):
AGGGTTAGAGTATCCCCGATAATGAAAAATCGATATTTTGAAAATAAAACTAGGGTTAGAGTATC
CCCTCAAAAATAACGGGATTAGAGTATCCCCAATGATGAAAAATTAGTGTTTTGAAAATAAAATC
Found at i:303987 original size:209 final size:209
Alignment explanation
Indices: 303627--304053 Score: 564
Period size: 209 Copynumber: 2.0 Consensus size: 209
303617 AACGGGACTA
* *
303627 GAGTATCCCCGATTGTGAAAAATCTGTGTTTTGGAAATAAAATCAGGATTGGAGTATCCCCTCGA
1 GAGTATCCCCGATTGTGAAAAATCTGTATTTTGAAAATAAAATCAGGATTGGAGTATCCCCTCGA
* * * * *
303692 AAATAATAGGGTTCGAGTATCCTCGATAATGGAAAATCGATATTTTAGAAATAAAATCGGGGTTA
66 AAATAACAGGGTTCGAGTATCCTCAATAATGAAAAATAGATATTTTAGAAATAAAATCAGGGTTA
* *
303757 GAGTATCCCCTCAAAAATAACG-GGATTAGAGTATCCCCGATGGTGAAAAATT-GATGTTT-TGG
131 GAGTATCCCCTCAAAAATAACGAGG-TTAGAGTATCCCCGATGATGAAAAATTAG-T-TTTCTAG
303819 AAATAAAATCGAGGTTG
193 AAATAAAATCGAGGTTG
*
303836 GAGTATCCCCGATTGTGAAAAAT-TGGTATTTTGAAAATAAAA-CTAGGGTTGGAGTATCCCCTC
1 GAGTATCCCCGATTGTGAAAAATCT-GTATTTTGAAAATAAAATC-AGGATTGGAGTATCCCCTC
* * * *
303899 GAAAATAACGGGGTTGGAGTATTCC-CAATTATGAAAAATTAG-TGTTTT-GAAAATAAAATCAG
64 GAAAATAACAGGGTTCGAGTA-TCCTCAATAATGAAAAA-TAGATATTTTAG-AAATAAAATCAG
* * *
303961 GGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTTTTCT
126 GGTTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAATTAGTTTTCT
*
304026 AGAAATAAAATCGGGGTTG
191 AGAAATAAAATCGAGGTTG
304045 GAGTATCCC
1 GAGTATCCC
304054 ATCGGAAATA
Statistics
Matches: 192, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
208 6 0.03
209 178 0.93
210 8 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (209 bp):
GAGTATCCCCGATTGTGAAAAATCTGTATTTTGAAAATAAAATCAGGATTGGAGTATCCCCTCGA
AAATAACAGGGTTCGAGTATCCTCAATAATGAAAAATAGATATTTTAGAAATAAAATCAGGGTTA
GAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAATTAGTTTTCTAGAAA
TAAAATCGAGGTTG
Found at i:304043 original size:158 final size:155
Alignment explanation
Indices: 303828--304216 Score: 480
Period size: 158 Copynumber: 2.5 Consensus size: 155
303818 GAAATAAAAT
* *
303828 CGAGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTT-TGAAAATAAAA-CTAGGGTTGGAGT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATT-GT-TTTCTG-AAATAAAATC-GGGGTTGGAGT
*
303891 ATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCAATTATGAAAAATTAGTGTTTT-GAAAATAA
62 ATCCCCTCGAAAATAACGGGATTGGAGTATTCCCAATTATGAAAAATTAGTGTTTTAG-AAATAA
** * *
303955 AATCAGGGTTAGAGTATCCCCTCAGAAATAA
126 AA-CAGGGGCAGAGCATCCCCTAAGAAATAA
303986 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTTTTCTAGAAATAAAATCGGGGTTGGAGTAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATT-GTTTTCT-GAAATAAAATCGGGGTTGGAGTAT
* * * * *
304051 CCCATCGGAAATAATGGGATTGGAGTATTCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
64 CCCCTCGAAAATAACGGGATTGGAGTATTCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAAC
*
304116 TGGGGCAGAGCATCCCCTAAGAAATAA
129 AGGGGCAGAGCATCCCCTAAGAAATAA
* * * * * * *
304143 AGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTATCTTGGAA-AAAATTGGGGTTGGAGTATC
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGTTTTC-TGAAATAAAATCGGGGTTGGAGTATC
304207 CCCTCAGAAA
65 CCCTC-GAAA
304217 TAAAAACATG
Statistics
Matches: 202, Mismatches: 23, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
155 23 0.11
156 10 0.05
157 56 0.28
158 110 0.54
159 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (155 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGTTTTCTGAAATAAAATCGGGGTTGGAGTATCC
CCTCGAAAATAACGGGATTGGAGTATTCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAACAG
GGGCAGAGCATCCCCTAAGAAATAA
Found at i:304094 original size:288 final size:288
Alignment explanation
Indices: 303574--304114 Score: 698
Period size: 288 Copynumber: 1.9 Consensus size: 288
303564 AAAAATTTAA
* * * ** *
303574 TATTTTGGAGATAAAGACAGGGTTGTAGTATCCTTTCAAAAATAACGGGACTAGAGTATCCCCGA
1 TATTTTGAAAATAAAGACAGGGTTGGAGTATCCCCTCAAAAATAACGGGACTAGAGTATCCCCAA
* * * *
303639 TTGTGAAAAATCTGTGTTTTGGAAATAAAATCAGGATTGGAGTATCCCCTCGAAAATAATAGGGT
66 TTATGAAAAATCTGTGTTTTGAAAATAAAATCAGGATTAGAGTATCCCCTCGAAAATAAGAGGGT
* * * *
303704 TCGAGTATCCTCGATAATGGAAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTC
131 TCGAGTATCCCCGATAATGAAAAATAGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCATC
* *
303769 AAAAATAACGGGATTAGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAATAAAATCGAGGT
196 AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAATCGAGGT
303834 TGGAGTATCCCCGATTGTGAAAAATTGG
261 TGGAGTATCCCCGATTGTGAAAAATTGG
* ** * *
303862 TATTTTGAAAATAAA-ACTAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCCCA
1 TATTTTGAAAATAAAGAC-AGGGTTGGAGTATCCCCTCAAAAATAACGGGACTAGAGTATCCCCA
*
303926 ATTATGAAAAAT-TAGTGTTTTGAAAATAAAATCAGGGTTAGAGTATCCCCTC-AGAAATAACGA
65 ATTATGAAAAATCT-GTGTTTTGAAAATAAAATCAGGATTAGAGTATCCCCTCGA-AAATAA-GA
* * *
303989 -GGTTGGAGTATCCCCGATTATGAAAAATTAG-T-TTTCTAGAAATAAAATCGGGGTTGGAGTAT
127 GGGTTCGAGTATCCCCGATAATGAAAAA-TAGATATTT-TAGAAATAAAATCGGGGTTAGAGTAT
** * * * * *
304051 CCCATCGGAAATAATGGGATTGGAGTATTCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA
190 CCCATCAAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAA
304115 CTGGGGCAGA
Statistics
Matches: 215, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
287 7 0.03
288 205 0.95
289 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (288 bp):
TATTTTGAAAATAAAGACAGGGTTGGAGTATCCCCTCAAAAATAACGGGACTAGAGTATCCCCAA
TTATGAAAAATCTGTGTTTTGAAAATAAAATCAGGATTAGAGTATCCCCTCGAAAATAAGAGGGT
TCGAGTATCCCCGATAATGAAAAATAGATATTTTAGAAATAAAATCGGGGTTAGAGTATCCCATC
AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAATCGAGGT
TGGAGTATCCCCGATTGTGAAAAATTGG
Found at i:304167 original size:78 final size:79
Alignment explanation
Indices: 303831--304219 Score: 402
Period size: 79 Copynumber: 5.0 Consensus size: 79
303821 ATAAAATCGA
* * * *
303831 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACTAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACTAGGGGTAGAGTATCCC
303896 CTC-GAAAATAACGG
66 CTCAG-AAATAACGG
* * * *
303910 GGTTGGAGTATTCCCAATTATGAAAAATTAGTGTTTTGAAAATAAAA-TCAGGGTTAGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACT-AGGGGTAGAGTATCC
*
303974 CCTCAGAAATAACGA
65 CCTCAGAAATAACGG
* * *
303989 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-TTTCT-AGAAATAAAA-TCGGGGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTT-TGA-AAATAAAACTAGGGG-TAGAGTAT
* * *
304051 CCCATCGGAAATAATGG
63 CCCCTCAGAAATAACGG
* * * *
304068 GATTGGAGTATTCCCGATTATGAAAAATTGGTGTTTT-AGAAATAAAACT-GGGGCAGAGCATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGA-AAATAAAACTAGGGGTAGAGTATCC
* *
304131 CCTAAGAAATAAAGG
65 CCTCAGAAATAACGG
* * * * * *
304146 GGTTAGAGTATCCCCGATTATGAAAAATTGGTATCTTG-GAA-AAAA-TTGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACTAGGGG-TAGAGTATCC
304208 CCTCAGAAATAA
65 CCTCAGAAATAA
304220 AAACATGAAT
Statistics
Matches: 264, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
75 1 0.00
76 8 0.03
77 20 0.08
78 58 0.22
79 172 0.65
80 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACTAGGGGTAGAGTATCCC
CTCAGAAATAACGG
Found at i:312951 original size:13 final size:13
Alignment explanation
Indices: 312933--312957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
312923 CTATTTATAG
312933 TGTATCGATACAA
1 TGTATCGATACAA
312946 TGTATCGATACA
1 TGTATCGATACA
312958 TGAATAGTGA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:323296 original size:20 final size:19
Alignment explanation
Indices: 323271--323329 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
323261 ATACATCTGG
323271 TGTATCGATACATTGAAGAA
1 TGTATCGATACATTGAA-AA
* *
323291 TGTATCGATACATTCATACA
1 TGTATCGATACATTGA-AAA
*
323311 TGTATCGATAAATTGAAAA
1 TGTATCGATACATTGAAAA
323330 ATATACCGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
19 2 0.06
20 30 0.91
21 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATTGAAAA
Found at i:324117 original size:49 final size:47
Alignment explanation
Indices: 324054--324185 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 47
324044 AAGAGGAGTG
*
324054 CCAATGTGCCAATTCAAGGCCAGTGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAA-GG-AAAGTGGA
* * *
324103 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAATGAAGGTGGA
1 CCAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAAGGAAAGTGGA
* * * *
324150 -CAATGTGCTGATTCAAGGCTAGTAACATTGAGCTAA
1 CCAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAA
324186 CAAAGGTGCC
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 31 0.42
47 7 0.09
48 1 0.01
49 35 0.47
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (47 bp):
CCAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAAGGAAAGTGGA
Found at i:324178 original size:46 final size:46
Alignment explanation
Indices: 324055--324215 Score: 162
Period size: 46 Copynumber: 3.5 Consensus size: 46
324045 AGAGGAGTGC
* * *
324055 CAATGTGCCAATTCAAGGCCAGTGACATTGGGCTAAGGGAAAAGTGGA
1 CAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAA-CG-AAGGTGGA
* *
324103 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAATGAAGGTGGA
1 -CAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAACGAAGGTGGA
* * * * * *
324150 CAATGTGCTGATTCAAGGCTAGTAACATTGAGCTAACAAAGGT-GC
1 CAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAACGAAGGTGGA
* * *
324195 CAATATGCTGATTCAATGCCA
1 CAATGTGCTAATTCAAGGCCA
324216 ACGATATCGG
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 19 0.20
46 36 0.37
47 7 0.07
48 1 0.01
49 34 0.35
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (46 bp):
CAATGTGCTAATTCAAGGCCAGTGACATTGGGCTAACGAAGGTGGA
Found at i:324342 original size:30 final size:28
Alignment explanation
Indices: 324308--325635 Score: 759
Period size: 28 Copynumber: 46.8 Consensus size: 28
324298 CACCAACTTC
*
324308 TGTGGGCTTTGAAAGGATGCCACTGATTT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* *
324337 GTGTGGGCTTTAAAAAGGATGCCA--G--G
1 -TGTGGGCTTT-GAAAGGATGCCACTGACT
** *
324363 TCAGGGCTTTGAAATGGGTTGCCACTGACTT
1 TGTGGGCTTTGAAA--GGATGCCACTGAC-T
* *
324394 GTGTGGGCTTTGAGAAGGATTCCACTAACT
1 -TGTGGGCTTTGA-AAGGATGCCACTGACT
*
324424 TGTGGGCTTTGAGAGGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
** * **
324453 TGTGGGCTATAAAATAGGTTGCCACCAACT
1 TGTGGGCT-TTGAA-AGGATGCCACTGACT
* * *
324483 TGTGGGCATTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
324511 TGCGTGGGCTTTGAAAGGGTGCCACTAACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
*
324541 TGTGGGCATTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
324569 TGTGGGCTTTGAAAGGGTACGACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
324597 GGTGGGCTTTGAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
324625 CGTGGGCTTTGATAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
324653 TGTGGGCTTTGAAAGGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAGGA--TGCCACTGACT
**
324683 TGTGGGCTTTGAAAGGATGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
324711 TGTGGGCTTTGAAAAAAGTTACCACCGACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
**
324741 CGTGTGGGCTTTGAAAAAATGCCACTGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
**
324771 TGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
324800 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
324828 TGTGAGCTTT-----GA----ACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
324847 TATGGGCTTTGAAAAGAGTGTCAATGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
324876 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
324904 CGTGGGCTTT-AAATGGATGCTACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
324932 TATGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* * *
324962 CGCGTGGGCTTTGAAAGGTTGCCACTGACA
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
324992 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
325020 TGTGGGCTTTGAAAAGAGTTACCACCGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
*
325050 CGTGTGGGCTTTGAAAAGATGCCACTGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
*
325080 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* **
325109 TGTGGGCTTTGAAAAGAGTTATCACTGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
325139 CGTGTGGGTTTTGAAAAGATGCCACTGACT
1 --TGTGGGCTTTGAAAGGATGCCACTGACT
* *
325169 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* ** * * *
325198 TGTAGGCTTAAAAAGGGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
325227 TATGGAC-TTAAAAGGATTCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * *
325254 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
325282 TGTGGACTTTTAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
325310 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * ** *
325337 GGTGGACTTTAAAAGGGTGCCACAAAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * *
325365 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
325392 TATGGAC-TT-AAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * *
325419 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
325447 TATGGACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
* * * *
325475 TATGGAC-TTAAAAGGATGCCAC-GTAGT
1 TGTGGGCTTTGAAAGGATGCCACTG-ACT
* * * *
325502 TGTAGAC-TTAAAAGGGATGCCA-TGGAGT
1 TGTGGGCTTTGAAA-GGATGCCACT-GACT
* * * * *
325530 TGTGGACTTTTAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
325558 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
325586 TGTGGAC-TTAAAAAGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
325613 GGTGGACTTTAAAAGGGTGCCAC
1 TGTGGGCTTTGAAAGGATGCCAC
325636 AAAGTTATGG
Statistics
Matches: 1074, Mismatches: 157, Indels: 136
0.79 0.11 0.10
Matches are distributed among these distances:
19 15 0.01
23 1 0.00
24 5 0.00
25 8 0.01
26 11 0.01
27 148 0.14
28 466 0.43
29 160 0.15
30 175 0.16
31 32 0.03
32 51 0.05
33 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:324506 original size:58 final size:56
Alignment explanation
Indices: 324290--325206 Score: 714
Period size: 60 Copynumber: 16.0 Consensus size: 56
324280 GCTTTTAAAA
* * * *
324290 AAAGG-TGCCACCAACTTCTGTGGGCTTTGAAAGGATGCCACTGATTTGTGTGGGCTTTAA
1 AAAGGATGCCACTAAC-T-TGTGGGCTTTGAAAGGGTGCCACTGA-CT-TGTGGGCTTT-G
* *
324350 AAAGGATGCCAGGT--C---AGGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTG
1 AAAGGATGCCA-CTAACTTGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* * **
324406 AGAAGGATTCCACTAACTTGTGGGCTTTGAGAGGGATGCCACTGACTTGTGGGCTATAA
1 A-AAGGATGCCACTAACTTGTGGGCTTTGAAAGGG-TGCCACTGACTTGTGGGCT-TTG
* * * *
324465 AATAGGTTGCCACCAACTTGTGGGCATTAAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AA-AGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTG
* * *
324524 AAAGGGTGCCACTAACTTGTGGGCATTGAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
324580 AAAGGGTACGACTGACTGGTGGGCTTTGAAAGGGTGCTACTGACTCGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
324636 ATAGGATGCCACTGACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGG-G-TGCCACTGACTTGTGGGCTTTG
* * * * *
324694 AAAGGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTACCACCGACTCGTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG--AAAGGGTGCCACTGACT--TGTGGGCTTTG
** * **
324754 AAAAAATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
324811 AAAGGGTGCCACTGACTTGTGAGCTTTG--A-------ACTGACTTATGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * *
324858 AAAAGAGTGTCAATGACTTGTGGGCTTTGAAAGGGTGCCACCGACTCGTGGGCTTT-
1 AAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
324914 AAATGGATGCTACTAACTTATGGGCTTTGAAAAGAGTTGCCACCGACTCGCGTGGGCTTTG
1 AAA-GGATGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTG
* * * *
324975 AAAGGTTGCCACTGACATGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * ** * *
325031 AAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
1 -AAAG-GATGCCACTAACT--TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * ** *
325091 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTATCACTGACTCGTGTGGGTTTTG
1 AAAGGA-TGCCACTAACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTG
* * * * *
325152 AAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTAGGCTT
1 AAAGGATGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTT
325207 AAAAAGGGGT
Statistics
Matches: 707, Mismatches: 104, Indels: 95
0.78 0.11 0.10
Matches are distributed among these distances:
47 21 0.03
48 19 0.03
50 1 0.00
54 1 0.00
55 11 0.02
56 120 0.17
57 108 0.15
58 153 0.22
59 79 0.11
60 160 0.23
61 34 0.05
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (56 bp):
AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:324845 original size:19 final size:19
Alignment explanation
Indices: 324821--324859 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
324811 AAAGGGTGCC
*
324821 ACTGACTTGTGAGCTTTGA
1 ACTGACTTATGAGCTTTGA
*
324840 ACTGACTTATGGGCTTTGA
1 ACTGACTTATGAGCTTTGA
324859 A
1 A
324860 AAGAGTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (19 bp):
ACTGACTTATGAGCTTTGA
Found at i:324890 original size:76 final size:76
Alignment explanation
Indices: 324764--325181 Score: 296
Period size: 88 Copynumber: 5.0 Consensus size: 76
324754 AAAAAATGCC
* *
324764 ACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1 ACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
*
324829 GTGAGCTTTGA
66 GTGGGCTTTGA
* * * *
324840 ACTGACTTATGGGCTTTGAAAAGAGTGTCAATGACTTGTGGGCTTTGAAAGGGTGCCACCGACTC
1 ACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
324905 GTGGGCTTTAAATGGA
66 GTGGGC-TT---T-GA
* * * *
324921 TGCTACTAACTTATGGGCTTTGAAAAGAGTTGCCACCGACTCGCGTGGGCTTTGAAAGGTTGCCA
1 ----ACTGACTTATGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAGGGTGCCA
*
324986 CTGACATGTGGGCTTTGAAAGGA
59 CTGACTTGTGGGCTTT-----GA
* * * * *
325009 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCA
1 ----ACTGACTTATGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAGGGTGCCA
325074 CTGACTTGTGGGCTTTGAAAAGA
59 CTGACTTGTGGGCTTT-----GA
* ** * * *
325097 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTTATCACTGACTCGTGTGGGTTTTGAAAAGATGCC
1 -----ACTGACTTATGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAGGGTGCC
325162 ACTGACTTGTGGGCTTTGA
58 ACTGACTTGTGGGCTTTGA
325181 A
1 A
325182 AAGAGTGCCA
Statistics
Matches: 297, Mismatches: 28, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
76 64 0.22
77 2 0.01
79 1 0.00
80 1 0.00
81 2 0.01
84 3 0.01
85 24 0.08
86 8 0.03
87 2 0.01
88 112 0.38
89 78 0.26
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (76 bp):
ACTGACTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
GTGGGCTTTGA
Found at i:324941 original size:104 final size:104
Alignment explanation
Indices: 324745--324944 Score: 260
Period size: 104 Copynumber: 1.9 Consensus size: 104
324735 CCGACTCGTG
* * * *
324745 TGGGCTTTGAAAAAATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAAAATGCCAATGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTCGTGGGCTTT
* * *
324810 GAAAGGGTGCCACTGACTTGTGAGCTTTGAACTGACTTA
66 GAAAGGATGCCACTAACTTATGAGCTTTGAACTGACTTA
* * *
324849 TGGGCTTTGAAAAGAGTGTCAATGACTTGTGGGCTTTG-AAAGGGTGCCACCGACTCGTGGGCTT
1 TGGGCTTTGAAAA-AATGCCAATGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTCGTGGGCTT
* *
324913 T-AAATGGATGCTACTAACTTATGGGCTTTGAA
65 TGAAA-GGATGCCACTAACTTATGAGCTTTGAA
324945 AAGAGTTGCC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 3 0.04
104 58 0.71
105 21 0.26
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (104 bp):
TGGGCTTTGAAAAAATGCCAATGACTTGTGGGCTTTGAAAAGAGTGCCACCGACTCGTGGGCTTT
GAAAGGATGCCACTAACTTATGAGCTTTGAACTGACTTA
Found at i:325043 original size:309 final size:309
Alignment explanation
Indices: 324366--325122 Score: 915
Period size: 309 Copynumber: 2.4 Consensus size: 309
324356 TGCCAGGTCA
* * **
324366 GGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTGAGAAG-GATT-CCACTAACT--TGT
1 GGGCTTTGAAA--GGATGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TTACCACCGACTCGTGT
** * ** *
324427 GGGCTTTGAGAGGGATGCCACTGACTTGTGGGCTAT-AAAATAGGTTGCCACCAACTTGTGGGCA
61 GGGCTTTGA-AAAGATGCCACTGACTTGTGGGCTTTGAAAATA-G-TGCCACTGACTTGTGGGCT
* * *
324491 TTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCATTGAAAG
123 TTGAAAGGGTGCCACTGACTT-CGTGAGCTTTG-AA----G--ACTAACTTATGGGCATTGAAAG
* * * * *
324556 AGTGCCACTGACTTGTGGGCTTTGAAAGGGTACGACTGACTGGTGGGCTTTGAAAGGGTGCTACT
180 AGTGCCAATGACTTGTGGGCTTTGAAAGGGTACCACCGACTCGTGGGCTTTGAAAGGATGCTACT
* * * * * *
324621 GACTCGTGGGCTTTGATAGGATGCCACTGACTTGTGGGCTTTGAAAGGAGTTGCCACCGACTTGT
245 AACTCATGGGCTTTGAAAGGATGCCACCGACTCGTGGGCTTTGAAAGGAGTTGCCACCGACATGT
** *
324686 GGGCTTTGAAAGGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTACCACCGACTCGTGTGGGCT
1 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCT
*
324751 TTGAAAAAATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGG
66 TTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
324816 GTGCCACTGACTT-GTGAGCTTTG-A-ACTGACTTATGGGCTTTGAAAAGAGTGTCAATGACTTG
131 GTGCCACTGACTTCGTGAGCTTTGAAGACTAACTTATGGGCATTG-AAAGAGTGCCAATGACTTG
* *
324878 TGGGCTTTGAAAGGGTGCCACCGACTCGTGGGCTTT-AAATGGATGCTACTAACTTATGGGCTTT
195 TGGGCTTTGAAAGGGTACCACCGACTCGTGGGCTTTGAAA-GGATGCTACTAACTCATGGGCTTT
* *
324942 GAAAAGAGTTGCCACCGACTCGCGTGGGCTTTGAAA-G-GTTGCCACTGACATGT
259 G-AAAG-GATGCCACCGACT--CGTGGGCTTTGAAAGGAGTTGCCACCGACATGT
324995 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCT
1 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCT
*
325060 TTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
66 TTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAA
325123 AGAGTTATCA
Statistics
Matches: 386, Mismatches: 40, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
306 18 0.05
307 70 0.18
308 3 0.01
309 148 0.38
310 1 0.00
311 13 0.03
313 1 0.00
315 9 0.02
316 16 0.04
317 45 0.12
318 33 0.09
319 18 0.05
320 11 0.03
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (309 bp):
GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCT
TTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGG
GTGCCACTGACTTCGTGAGCTTTGAAGACTAACTTATGGGCATTGAAAGAGTGCCAATGACTTGT
GGGCTTTGAAAGGGTACCACCGACTCGTGGGCTTTGAAAGGATGCTACTAACTCATGGGCTTTGA
AAGGATGCCACCGACTCGTGGGCTTTGAAAGGAGTTGCCACCGACATGT
Found at i:325139 original size:89 final size:89
Alignment explanation
Indices: 324840--325206 Score: 469
Period size: 88 Copynumber: 4.2 Consensus size: 89
324830 TGAGCTTTGA
* ** * * *
324840 ACTGACTTATGGGCTTTGAAAAGAGTGT--CAATGACT--TGTGGGCTTTGAAAGGGTGCCACCG
1 ACTGACTTGTGGGCTTTGAAAAGAGT-TACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTG
* * *
324901 ACTCGTGGGCTTT-AAATG-GATGCT
65 ACTTGTGGGCTTTGAAAAGAG-TGCC
* * * * * *
324925 ACTAACTTATGGGCTTTGAAAAGAGTTGCCACCGACTCGCGTGGGCTTTGAAAGGTTGCCACTGA
1 ACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGA
* *
324990 CATGTGGGCTTTGAAAGGA-TGCC
66 CTTGTGGGCTTTGAAAAGAGTGCC
325013 ACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGA
1 ACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGA
325078 CTTGTGGGCTTTGAAAAGAGTGCC
66 CTTGTGGGCTTTGAAAAGAGTGCC
* * *
325102 ACTGACTTGTGGGCTTTGAAAAGAGTTATCACTGACTCGTGTGGGTTTTGAAAAGATGCCACTGA
1 ACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGA
325167 CTTGTGGGCTTTGAAAAGAGTGCC
66 CTTGTGGGCTTTGAAAAGAGTGCC
* *
325191 ATTGACTTGTAGGCTT
1 ACTGACTTGTGGGCTT
325207 AAAAAGGGGT
Statistics
Matches: 252, Mismatches: 23, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
84 1 0.00
85 25 0.10
86 6 0.02
88 112 0.44
89 108 0.43
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (89 bp):
ACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAAGATGCCACTGA
CTTGTGGGCTTTGAAAAGAGTGCC
Found at i:325275 original size:55 final size:55
Alignment explanation
Indices: 325208--325791 Score: 692
Period size: 55 Copynumber: 10.6 Consensus size: 55
325198 TGTAGGCTTA
* * *
325208 AAAAGGGGTGCCACGGAGTTATGGAC-TTAAAAGGATTCCATGGAGTTGTGGACTT
1 AAAA-GGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* *
325263 AAAAGGGATGCCACGGAGTTGTGGACTTTTAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* * * ** *
325319 AAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCACAAAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* *
325374 AAAAGGGTGCCACGGAGTTATGGAC-TTAAAGGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TT
* * * *
325429 AAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGATGCCATGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* * * *
325484 AAAAGGATGCCACGTAGTTGTAGAC-TTAAAAGGGATGCCATGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAA-GGATGCCACGGAGTTGTGGAC-TT
* *
325540 TAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
* * * * ** *
325595 AAAAAGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCACAAAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
** * * *
325650 AAAAGGGTGCCATAGAGTTATGGAC-TGAAAAGGATGCCACAGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TT
* * ** *
325705 AAAAGTGTGCCACGCAGTCATGGACTTTCAAAA-GATGGCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTT
* *
325760 AAAAGGATGCCACGGAGTGGTGGACTTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
325792 AGAAATACCA
Statistics
Matches: 454, Mismatches: 65, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
54 58 0.13
55 270 0.59
56 116 0.26
57 10 0.02
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (55 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
Found at i:325306 original size:83 final size:83
Alignment explanation
Indices: 325208--325791 Score: 759
Period size: 83 Copynumber: 7.0 Consensus size: 83
325198 TGTAGGCTTA
* *
325208 AAAAGGGGTGCCACGGAGTTATGGACTTAAAAGGATTCCATGGAGTTGTGGACTTAAAAGGGATG
1 AAAA-GGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGATG
325273 CCACGGAGTTGTGGACTTT
65 CCACGGAGTTGTGGACTTT
* * *
325292 TAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGG-TG
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGATG
** *
325356 CCACAAAGTTATGGAC-TT
65 CCACGGAGTTGTGGACTTT
*
325374 AAAAGGGTGCCACGGAGTTATGGACTTAAAGGGATGCCACGGAGTTGTGGACTTTAAAAGGG-TG
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGATG
* *
325438 CCACAGAGTTATGGACTTT
65 CCACGGAGTTGTGGACTTT
* * * *
325457 AAAAGGATGCCATGGAGTTATGGACTTAAAAGGATGCCACGTAGTTGTAGACTTAAAAGGGATGC
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGATGC
*
325522 CATGGAGTTGTGGACTTT
66 CACGGAGTTGTGGACTTT
* * * *
325540 TAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAA-AGATG
1 AAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGATG
*
325604 CCACGGAGTGGTGGACTTT
65 CCACGGAGTTGTGGACTTT
** * ** * *
325623 AAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCATAGAGTTATGGACTGAAAA-GGATGC
1 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGATGC
*
325687 CACAGAGTTGTGGACTTT
66 CACGGAGTTGTGGACTTT
* * * *
325705 AAAAGTGTGCCACGCAGTCATGGACTTTCAAAA-GATGGCACGGAGTTGTGGACTTAAAA-GGAT
1 AAAAGGGTGCCACGGAGTTATGGAC-TT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGAT
*
325768 GCCACGGAGTGGTGGACTTT
64 GCCACGGAGTTGTGGACTTT
325788 AAAA
1 AAAA
325792 AGAAATACCA
Statistics
Matches: 440, Mismatches: 54, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
82 157 0.36
83 237 0.54
84 46 0.10
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (83 bp):
AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGATGC
CACGGAGTTGTGGACTTT
Found at i:325728 original size:28 final size:28
Alignment explanation
Indices: 325158--325791 Score: 648
Period size: 28 Copynumber: 22.9 Consensus size: 28
325148 TTTGAAAAGA
* * * *
325158 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACGGAGTTGTGGACTTT-AAAAGGG
** * *
325187 TGCCATTGACTTGTAGG-CTTAAAAAGGGG
1 TGCCACGGAGTTGT-GGACTTTAAAA-GGG
* *
325216 TGCCACGGAGTTATGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
325243 TTCCATGGAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325270 ATGCCACGGAGTTGTGGACTTTTAAAGGG
1 -TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325299 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325326 TGCCACGGAGTGGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
** *
325354 TGCCACAAAGTTATGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325381 TGCCACGGAGTTATGGAC-TT-AAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
325407 ATGCCACGGAGTTGTGGACTTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
325436 TGCCACAGAGTTATGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
325464 TGCCATGGAGTTATGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
325491 TGCCACGTAGTTGTAGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
325518 ATGCCATGGAGTTGTGGACTTTTAAAGGG
1 -TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325547 TGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* * *
325575 TGCCACAGAGTTGTGGAC-TTAAAAAGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325602 TGCCACGGAGTGGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
** *
325630 TGCCACAAAGTTATGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
** * * *
325657 TGCCATAGAGTTATGGAC-TGAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* *
325684 TGCCACAGAGTTGTGGACTTTAAAAGTG
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
* ** *
325712 TGCCACGCAGTCATGGACTTTCAAAA-GA
1 TGCCACGGAGTTGTGGACTTT-AAAAGGG
* *
325740 TGGCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGG
*
325767 TGCCACGGAGTGGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGACTTTAAAA
325792 AGAAATACCA
Statistics
Matches: 514, Mismatches: 75, Indels: 33
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.02
27 216 0.42
28 231 0.45
29 55 0.11
30 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGG
Found at i:325759 original size:276 final size:275
Alignment explanation
Indices: 325216--325791 Score: 906
Period size: 276 Copynumber: 2.1 Consensus size: 275
325206 TAAAAAGGGG
* *
325216 TGCCACGGAGTTATGGACTTAAAAGGATTCCATGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
* * * *
325281 TTGTGGACTTTTAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTGGTGGACTT
66 TTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTGGTGGACTT
* * *
325346 TAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAGGGATGC
131 TAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTGAAAAGGATGC
* * *
325411 CACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTATGGACTTTAAAAGGATGCCATGGAGTT
196 CACAGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTCATGGACTTTAAAAGGATGCCACGGAGTT
325476 ATGGACTTAAAAGGA
261 ATGGACTTAAAAGGA
* * *
325491 TGCCACGTAGTTGTAGACTTAAAAGGGATGCCATGGAGTTGTGGACTTTTAAAGGG-TGCCACGG
1 TGCCACGGAGTTGTGGACTTAAAA-GGATGCCATGGAGTTGTGGAC-TTAAAAGGGATGCCACGG
325555 AGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTGGTGGAC
64 AGTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTGGTGGAC
*
325620 TTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCATAGAGTTATGGACTGAAAAGGAT
129 TTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTGAAAAGGAT
* *
325685 GCCACAGAGTTGTGGACTTTAAAAGTGTGCCAC-GCAGTCATGGACTTTCAAAA-GATGGCACGG
194 GCCACAGAGTTGTGGACTTTAAAAGGGTGCCACAG-AGTCATGGACTTT-AAAAGGATGCCACGG
*
325748 AGTTGTGGACTTAAAAGGA
257 AGTTATGGACTTAAAAGGA
*
325767 TGCCACGGAGTGGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
325792 AGAAATACCA
Statistics
Matches: 274, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
275 22 0.08
276 234 0.85
277 18 0.07
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (275 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGGATGCCACGGAG
TTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTGGTGGACTT
TAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACAGAGTTATGGACTGAAAAGGATGC
CACAGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTCATGGACTTTAAAAGGATGCCACGGAGTT
ATGGACTTAAAAGGA
Found at i:327104 original size:43 final size:44
Alignment explanation
Indices: 327056--327149 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
327046 ATTCATGTCC
* * *
327056 TTTTTTTGGATTTTTGTTGTTCTCTTTT-TA-TTTTGCTTTTG-CA
1 TTTTTTT-G-TTTTTCTTGTTATATTTTGTACTTTTGCTTTTGACA
* *
327099 TTTTTTTGTTTTTCTTTTTATATTTTGTACTTTTGCTTTTGACC
1 TTTTTTTGTTTTTCTTGTTATATTTTGTACTTTTGCTTTTGACA
327143 TTTTTTT
1 TTTTTTT
327150 TTTCCCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
41 14 0.33
42 3 0.07
43 18 0.42
44 8 0.19
ACGTcount: A:0.07, C:0.10, G:0.11, T:0.72
Consensus pattern (44 bp):
TTTTTTTGTTTTTCTTGTTATATTTTGTACTTTTGCTTTTGACA
Found at i:327105 original size:22 final size:22
Alignment explanation
Indices: 327080--327150 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
327070 TGTTGTTCTC
327080 TTTTTATTTTGCTTTTGCATTT
1 TTTTTATTTTGCTTTTGCATTT
* *
327102 TTTTGT-TTTT-CTTTT-TATAT
1 TTTT-TATTTTGCTTTTGCATTT
* *
327122 TTTGTACTTTTGCTTTTGACCTTT
1 TTTTTA-TTTTGCTTTTG-CATTT
327146 TTTTT
1 TTTTT
327151 TTCCCATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 9 0.25
22 13 0.36
23 1 0.03
24 6 0.17
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTTATTTTGCTTTTGCATTT
Found at i:327123 original size:35 final size:35
Alignment explanation
Indices: 327066--327138 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
327056 TTTTTTTGGA
327066 TTTTTGTTGTTCTCTTTTTATTTTG-CTTTTGCATT
1 TTTTTGTTGTTCTCTTTTTATTTTGACTTTTGC-TT
*
327101 TTTTTGTTTTTCT-TTTTATATTTTGTACTTTTGCTT
1 TTTTTGTTGTTCTCTTTT-TATTTTG-ACTTTTGCTT
327137 TT
1 TT
327139 GACCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.12
35 19 0.56
36 4 0.12
37 7 0.21
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.74
Consensus pattern (35 bp):
TTTTTGTTGTTCTCTTTTTATTTTGACTTTTGCTT
Found at i:329000 original size:20 final size:20
Alignment explanation
Indices: 328953--329006 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
328943 GTAGCCAAAC
**
328953 TTGTATCGATACAGCAAGTA
1 TTGTATCGATACAGCAAAAA
328973 TATGTATCGATACA-CAAAAAA
1 T-TGTATCGATACAGC-AAAAA
328994 TTGTATCGATACA
1 TTGTATCGATACA
329007 TTAGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
TTGTATCGATACAGCAAAAA
Found at i:333072 original size:15 final size:15
Alignment explanation
Indices: 333052--333082 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
333042 TAAAAATGTC
*
333052 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
333067 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
333082 C
1 C
333083 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:335173 original size:13 final size:13
Alignment explanation
Indices: 335155--335193 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
335145 ACATTTTTCT
335155 TTGTATCGATACA
1 TTGTATCGATACA
335168 TTGTATCGATACA
1 TTGTATCGATACA
335181 TTGTATCGATACA
1 TTGTATCGATACA
335194 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:337621 original size:13 final size:13
Alignment explanation
Indices: 337603--337628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
337593 TACAGTAAGT
337603 ATGTATCGATACA
1 ATGTATCGATACA
337616 ATGTATCGATACA
1 ATGTATCGATACA
337629 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:343224 original size:20 final size:21
Alignment explanation
Indices: 343199--343253 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
343189 GTATCGATAC
*
343199 AATGTATCGATACATGATCA-
1 AATGTATCGATACATGATAAG
* *
343219 AATGTATCGATACTTGTTAAG
1 AATGTATCGATACATGATAAG
343240 AATGTATCGATACA
1 AATGTATCGATACA
343254 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATGATAAG
Found at i:343226 original size:33 final size:33
Alignment explanation
Indices: 343166--343231 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
343156 TACACCTTCA
*
343166 AATGTATCGATACATATTGCACAGTATCGATAC
1 AATGTATCGATACATATTGCAAAGTATCGATAC
343199 AATGTATCGATACATGA-T-CAAATGTATCGATAC
1 AATGTATCGATACAT-ATTGCAAA-GTATCGATAC
343232 TTGTTAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 3 0.10
33 26 0.87
34 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACATATTGCAAAGTATCGATAC
Found at i:343338 original size:20 final size:20
Alignment explanation
Indices: 343295--343346 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
343285 CTTAACTGTT
*
343295 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
343314 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
343334 TGTATCGATACAT
1 TGTATCGATACAT
343347 TGTGTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:346378 original size:38 final size:38
Alignment explanation
Indices: 346345--346429 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
346335 ATGCCATTGG
* * *
346345 TTTAGAATATTGGTTTTCGTTTTGAACCGTGCCACCGA
1 TTTAGAATAATGATTTTCGTTTCGAACCGTGCCACCGA
* *
346383 TTTAGAATAATGATTTTTGTTTCGAACTGTGCCACC-A
1 TTTAGAATAATGATTTTCGTTTCGAACCGTGCCACCGA
346420 GTTTAGAATA
1 -TTTAGAATA
346430 GTGGCTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 1 0.02
38 40 0.98
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (38 bp):
TTTAGAATAATGATTTTCGTTTCGAACCGTGCCACCGA
Found at i:346439 original size:38 final size:36
Alignment explanation
Indices: 346344--346440 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 36
346334 CATGCCATTG
* *
346344 GTTTAGAATATTGGTTTTCGTTTTGAACCGTGCCACC
1 GTTTAGAATAATGGTTTT-GTTTCGAACCGTGCCACC
* *
346381 GATTTAGAATAATGATTTTTGTTTCGAACTGTGCCACC
1 G-TTTAGAATAATG-GTTTTGTTTCGAACCGTGCCACC
*
346419 AGTTTAGAATAGTGGCTTTTGT
1 -GTTTAGAATAATGG-TTTTGT
346441 CCATAACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.02
38 44 0.88
39 5 0.10
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (36 bp):
GTTTAGAATAATGGTTTTGTTTCGAACCGTGCCACC
Found at i:355061 original size:52 final size:53
Alignment explanation
Indices: 354979--355105 Score: 161
Period size: 52 Copynumber: 2.4 Consensus size: 53
354969 ATCCTCTCCA
*
354979 AAAAATGTAGGGTTGGAGTATCCCCAAAGAT-GAAATATTTGATATTTTTAGTAG-
1 AAAAATG-A-GGTTGGAGTATCCCCAAAGATGGAAA-ATTTGATATTTTTAGGAGT
* * *
355033 CAAAATGAGGTTGGAGTATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGT
1 AAAAATGAGGTTGGAGTATCCCCAAAGATGGAAAATTTGATATTTTTAGGAGT
355086 AAAAAT-AGGATTGGAGTATC
1 AAAAATGAGG-TTGGAGTATC
355106 TCTTCAAAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
52 39 0.60
53 20 0.31
54 6 0.09
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (53 bp):
AAAAATGAGGTTGGAGTATCCCCAAAGATGGAAAATTTGATATTTTTAGGAGT
Found at i:355145 original size:80 final size:79
Alignment explanation
Indices: 355038--355398 Score: 403
Period size: 80 Copynumber: 4.5 Consensus size: 79
355028 AGTAGCAAAA
* *
355038 TGAGGTTGGAGTATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGATTGGAGT
1 TGAGGTTGGAATATCC-CGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGGTTGGAGT
355103 ATCTCTTCAAAATGG
65 ATCTCTTCAAAATGG
** *
355118 CAAGGTTGGAATATCTCCAAAGATGGAAAATTTGATATTTTTAGGAGTAAAACA-A-GGTTGGAG
1 TGAGGTTGGAATATC-CCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAA-ATAGGGTTGGAG
355181 TATC-CTCTCGAAAATGG
64 TATCTCT-TC-AAAATGG
* * * *
355198 TGGGGTTAGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGT-AAAACAGGGTTAGAGT
1 TGAGGTTGGAATAT-CCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGGTTGGAGT
* *
355262 ATCCCCTTGAAAATGG
65 AT-CTCTTCAAAATGG
* *
355278 TGGGGTTGGAGTATCCCTGAAGAT-GAAAATTTTGATATTTTTAGGAGTAAAAATAGGGTTGGAG
1 TGAGGTTGGAATATCCC-GAAGATGGAAAA-TTTGATATTTTTAGGAGTAAAAATAGGGTTGGAG
*
355342 TATCT-TCTCGAAAATGA
64 TATCTCT-TC-AAAATGG
* * * *
355359 TGGGGTTGGAATATCCCCGATGGT-GAAAAATTGATATTTT
1 TGAGGTTGGAATAT-CCCGAAGATGGAAAATTTGATATTTT
355399 GGAAGTAAAA
Statistics
Matches: 243, Mismatches: 23, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
78 3 0.01
79 26 0.11
80 160 0.66
81 49 0.20
82 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (79 bp):
TGAGGTTGGAATATCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGGTTGGAGTA
TCTCTTCAAAATGG
Found at i:355182 original size:132 final size:134
Alignment explanation
Indices: 354907--355197 Score: 340
Period size: 134 Copynumber: 2.2 Consensus size: 134
354897 AAGATAGTGG
** * * *
354907 GGTTGGAGTATCC-CTGAAGATGGAAAATTTTTTATTTTTAAAATTGAAAACAGGGTTGGAGCAT
1 GGTTGGAGTATCCTCTGAAGATGGAAAATTTGATATTTTTAAAAGTAAAAACAGGATTGGAGCAT
* * * *
354971 CCTCTCCAAAAAATGTAGGGTTGGAGTATCCCCAAAGATGAAATATTTGATATTTTTAGTAGCAA
66 CCTCTCC-AAAAATGCAAGGTTGGAATATCCCCAAAGATGAAATATTTGATATTTTTAGGAGCAA
**
355036 AATGA
130 AACAA
** * *
355041 GGTTGGAGTATCCTC-GAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGATTGGAGTAT
1 GGTTGGAGTATCCTCTGAAGATGGAAAATTTGATATTTTTAAAAGTAAAAACAGGATTGGAGCAT
* * *
355105 -CTCTTC-AAAATGGCAAGGTTGGAATATCTCCAAAGATGGAAA-ATTTGATATTTTTAGGAGTA
66 CCTCTCCAAAAAT-GCAAGGTTGGAATATCCCCAAAGAT-GAAATATTTGATATTTTTAGGAGCA
355167 AAACAA
129 AAACAA
*
355173 GGTTGGAGTATCCTCTCGAAAATGG
1 GGTTGGAGTATCCTCT-GAAGATGG
355198 TGGGGTTAGA
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
131 5 0.04
132 58 0.44
133 9 0.07
134 60 0.45
135 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (134 bp):
GGTTGGAGTATCCTCTGAAGATGGAAAATTTGATATTTTTAAAAGTAAAAACAGGATTGGAGCAT
CCTCTCCAAAAATGCAAGGTTGGAATATCCCCAAAGATGAAATATTTGATATTTTTAGGAGCAAA
ACAA
Found at i:355231 original size:160 final size:161
Alignment explanation
Indices: 355049--355398 Score: 469
Period size: 160 Copynumber: 2.2 Consensus size: 161
355039 GAGGTTGGAG
* * * *
355049 TATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGATTGGAGTAT-CTCTTCAA
1 TATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGT-AAAACAGGATTAGAGTATCCCCTTCAA
355113 AATGGCAAGGTTGGAATATCTCC-AAAGATGGAAAA-TTTGATATTTTTAGGAGTAAAACA-A-G
65 AATGGCAAGGTTGGAATATC-CCTAAAGAT-GAAAATTTTGATATTTTTAGGAGTAAAA-ATAGG
*
355174 GTTGGAGTATCCTCTCGAAAATGGTGGGGTTAGAA
127 GTTGGAGTATCCTCTCGAAAATGATGGGGTTAGAA
* *
355209 TATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGGTTAGAGTATCCCCTTGAAA
1 TATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGATTAGAGTATCCCCTTCAAA
*** * *
355274 ATGGTGGGGTTGGAGTATCCCTGAAGATGAAAATTTTGATATTTTTAGGAGTAAAAATAGGGTTG
66 ATGGCAAGGTTGGAATATCCCTAAAGATGAAAATTTTGATATTTTTAGGAGTAAAAATAGGGTTG
* *
355339 GAGTATCTTCTCGAAAATGATGGGGTTGGAA
131 GAGTATCCTCTCGAAAATGATGGGGTTAGAA
* * *
355370 TATCCCCGATGGT-GAAAAATTGATATTTT
1 TATCCCCGAAGATGGAAAATTTGATATTTT
355399 GGAAGTAAAA
Statistics
Matches: 168, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
159 23 0.14
160 101 0.60
161 44 0.26
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (161 bp):
TATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGATTAGAGTATCCCCTTCAAA
ATGGCAAGGTTGGAATATCCCTAAAGATGAAAATTTTGATATTTTTAGGAGTAAAAATAGGGTTG
GAGTATCCTCTCGAAAATGATGGGGTTAGAA
Found at i:355705 original size:3 final size:3
Alignment explanation
Indices: 355688--355727 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
355678 TAAATAAATA
*
355688 AAT AAA AAT -AT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
355728 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:355705 original size:14 final size:14
Alignment explanation
Indices: 355679--355725 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
355669 TTAAAAAAAT
355679 AAATA-AATAAATAA
1 AAATATAAT-AATAA
355693 AAATATAATAAT-A
1 AAATATAATAATAA
355706 AAATAATAATAATAA
1 AAAT-ATAATAATAA
*
355721 TAATA
1 AAATA
355726 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 17 0.59
15 7 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATATAATAATAA
Found at i:355709 original size:23 final size:24
Alignment explanation
Indices: 355683--355732 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
355673 AAAAATAAAT
355683 AAATAAATAAAAAT-ATAATAA-TA
1 AAAT-AATAAAAATAATAATAATTA
*
355706 AAATAATAATAATAATAATAATTA
1 AAATAATAAAAATAATAATAATTA
355730 AAA
1 AAA
355733 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 11 0.46
24 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAATAAAAATAATAATAATTA
Found at i:356239 original size:21 final size:21
Alignment explanation
Indices: 356215--356259 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
356205 AAAAGTAATC
*
356215 AAACAGCAAATAA-AATAAGAG
1 AAACAGCAAA-AACAATAAAAG
*
356236 AAACGGCAAAAACAATAAAAG
1 AAACAGCAAAAACAATAAAAG
356257 AAA
1 AAA
356260 AAATAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.69, C:0.11, G:0.13, T:0.07
Consensus pattern (21 bp):
AAACAGCAAAAACAATAAAAG
Found at i:356711 original size:16 final size:16
Alignment explanation
Indices: 356685--356728 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
356675 TTGACAAGAG
*
356685 GAAGAAGGAAAAAGAAA
1 GAAGAA-GAAAAAAAAA
356702 GAAGAAGAAAAAAAAA
1 GAAGAAGAAAAAAAAA
356718 G-AGAAAGAAAA
1 GAAG-AAGAAAA
356729 TACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.68
17 6 0.24
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
GAAGAAGAAAAAAAAA
Found at i:360427 original size:20 final size:21
Alignment explanation
Indices: 360383--360436 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
360373 TTTTGCAATT
*
360383 TGTATCGATACAAATAGTAAA
1 TGTATCGATACATATAGTAAA
* *
360404 TGTATTGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
360424 TGTATCGATACAT
1 TGTATCGATACAT
360437 GCCTAAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:360527 original size:20 final size:21
Alignment explanation
Indices: 360484--360539 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
360474 GCCAAGGAAA
360484 TGTATCGATACATATTTACAAT
1 TGTATCGATACAT-TTTACAAT
360506 TGTATCGATACATTTCT-C-AT
1 TGTATCGATACATTT-TACAAT
*
360526 TGTATTGATACATT
1 TGTATCGATACATT
360540 CTGGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.47
21 3 0.09
22 14 0.44
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATTTTACAAT
Found at i:363320 original size:28 final size:28
Alignment explanation
Indices: 363283--363353 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
363273 TTTTCATTTC
363283 GGGGATACTCCAATCC-AGTTACTTTCGAA
1 GGGGATACTCCAA-CCTAGTTACTTTCG-A
* *
363312 GGGG-TACTCTAACCTAGTTATTTTCGA
1 GGGGATACTCCAACCTAGTTACTTTCGA
363339 GGGGATACTCCAACC
1 GGGGATACTCCAACC
363354 GTTGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.19
28 26 0.70
29 4 0.11
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCTAGTTACTTTCGA
Found at i:363682 original size:128 final size:130
Alignment explanation
Indices: 363430--363708 Score: 370
Period size: 128 Copynumber: 2.2 Consensus size: 130
363420 TTATTTTTTA
* * *
363430 GAGGATACTTCAACCCCGTTTTTATTTTCAAAATATTAAAGTTTTCATCTCGGGGATACTCCAAC
1 GAGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAGTTTT-ATCTCGGGGATACTCCAAC
** * ** *
363495 CCCATTATTTTCGAAGAGATTCTCCACCGCCTGTTTTTATTTCCAAAAATATCGATTTTTCATTT
65 CCCATTATTTTCGAAGAGATAATCCACCGCCTATTTTTATTTCCAAAAATATAAATTTTTCATCT
*
363560 T
130 C
* *
363561 GGGGATACTCCAACCCCATTTTTCTTTCCAAAATATTAAA-TTTT-TCTCGAGGG-TACTCCAAC
1 GAGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAGTTTTATCTCG-GGGATACTCCAAC
*
363623 CCCATTATTTTCGAAG-GAATAATCCAGC-CCTATTTTTATTTCCAAAAATATTAAATTTTTCAT
65 CCCATTATTTTCGAAGAG-ATAATCCACCGCCTATTTTTATTTCCAAAAATA-TAAATTTTTCAT
363686 CTC
128 CTC
363689 GAGGATACTCCAACCCCATT
1 GAGGATACTCCAACCCCATT
363709 ATTTTTGAGG
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
127 22 0.17
128 67 0.51
129 3 0.02
130 4 0.03
131 35 0.27
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (130 bp):
GAGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAGTTTTATCTCGGGGATACTCCAACC
CCATTATTTTCGAAGAGATAATCCACCGCCTATTTTTATTTCCAAAAATATAAATTTTTCATCTC
Found at i:363778 original size:80 final size:80
Alignment explanation
Indices: 363561--363785 Score: 291
Period size: 80 Copynumber: 2.9 Consensus size: 80
363551 TTTTCATTTT
*
363561 GGGGATACTCCAACCCCATTTTTCTTTCCAAAATATT-AAA-TTT--TTCTCGAGGGTACTCCAA
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATTCTCGAGGGTACTCCAA
363622 CCCCATTATTTTCGA
66 CCCCATTATTTTCGA
* * * * * * *
363637 AGGAATAATCCAGCCCTATTTTTATTTCCAAAAATATTAAATTTTTCA-TCTCGAGGATACTCCA
1 GGGGATACTCCAACCCCATTTTTATTTCC-AAAATATTAAAATTTTCATTCTCGAGGGTACTCCA
*
363701 ACCCCATTATTTTTGA
65 ACCCCATTATTTTCGA
* *
363717 GGGGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCATTATCG-GCGGTACTCCA
1 GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATTCTCGAG-GGTACTCCA
363781 ACCCC
65 ACCCC
363786 GTATTCAAAA
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
76 23 0.19
77 8 0.06
78 2 0.02
79 21 0.17
80 70 0.56
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (80 bp):
GGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAAATTTTCATTCTCGAGGGTACTCCAA
CCCCATTATTTTCGA
Found at i:367521 original size:13 final size:13
Alignment explanation
Indices: 367503--367541 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
367493 ACAGCATTCT
367503 TTGTATCGATACA
1 TTGTATCGATACA
367516 TTGTATCGATACA
1 TTGTATCGATACA
*
367529 CTGTATCGATACA
1 TTGTATCGATACA
367542 AGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:370045 original size:13 final size:13
Alignment explanation
Indices: 370027--370051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
370017 ACACACAGTA
370027 TGTATCGATACAT
1 TGTATCGATACAT
370040 TGTATCGATACA
1 TGTATCGATACA
370052 CTATAAAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:376844 original size:52 final size:52
Alignment explanation
Indices: 376798--376923 Score: 207
Period size: 52 Copynumber: 2.4 Consensus size: 52
376788 CACTAATCTT
*
376798 TGTATCGATACACGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
* * * *
376850 TGTATCGATTCATACAGGCAAATTTGCCCATATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
376902 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
376924 ATTCCATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
Found at i:386804 original size:9 final size:9
Alignment explanation
Indices: 386790--386842 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
386780 CATTCTTTTT
*
386790 CAAAAAAAC
1 CAAAAAAAA
386799 CAAAAAAAAA
1 C-AAAAAAAA
386809 CAGCAAAAAAA
1 CA--AAAAAAA
386820 -ATAAAAAAA
1 CA-AAAAAAA
386829 CAAAAAAAA
1 CAAAAAAAA
386838 CAAAA
1 CAAAA
386843 CAAAGAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 21 0.55
10 10 0.26
11 7 0.18
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:386825 original size:17 final size:16
Alignment explanation
Indices: 386800--386845 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
386790 CAAAAAAACC
*
386800 AAAAAAAAACAGCAAA
1 AAAAAAAAACAACAAA
*
386816 AAAAATAAAAAAACAAA
1 AAAAA-AAAACAACAAA
386833 AAAAACAAAACAA
1 AAAAA-AAAACAA
386846 AGAAGAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAAAAAAACAACAAA
Found at i:386833 original size:14 final size:14
Alignment explanation
Indices: 386790--386846 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 14
386780 CATTCTTTTT
*
386790 CAAAAAAACCAAAA
1 CAAAAAAAACAAAA
* *
386804 -AAAAACAGCAAAA
1 CAAAAAAAACAAAA
*
386817 -AAAATAAA-AAAA
1 CAAAAAAAACAAAA
386829 CAAAAAAAACAAAA
1 CAAAAAAAACAAAA
386843 CAAA
1 CAAA
386847 GAAGAAAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 4 0.11
13 23 0.66
14 8 0.23
ACGTcount: A:0.82, C:0.14, G:0.02, T:0.02
Consensus pattern (14 bp):
CAAAAAAAACAAAA
Found at i:388166 original size:61 final size:60
Alignment explanation
Indices: 387829--389021 Score: 1163
Period size: 61 Copynumber: 20.3 Consensus size: 60
387819 ACTTTTTAGC
* *
387829 CCTCAAAGAGCAGGACGC---CT-TTT-AAAGCCCGCACAAGTTGGTGGCACGCTT-CAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGT
387884 CCTCAAAGAGCAGGATGC--T-T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGT
* * *
387939 CCTCAAAGAGCAGGA--C--GC-CTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * * *
387994 CCTCAAAGAGCAGGACGC---CT-TTT-AAGGCCCACATAAGTTGGTGGCA-GTTCCCAAT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGT
* * * **
388049 CCTCAAAGAGTAGGA--C--GC-CTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
*
388104 CCTCAAAGAGTAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * **
388165 CCTCAAAGAGCAGGACGC-CTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTC-TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
388225 CCTCAAAGAGTAGGATGCTTTCTCTCTAT-AAAGCCCACACAAGTTGGTGGCACCTTCCAAT
1 CCTCAAAGAGCAGGATGCTTTCTCT-T-TCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * *
388286 CCTCAAAGAGTAGGATGCCTTTC-CTTTGTAAAGCCCACATAAGTTGGTGGCA-CTTCCAAGT
1 CCTCAAAGAGCAGGATG-CTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCC-AGT
* * *** ** *
388347 CCTCAAAGAGTAGGA--C--GC-CTTTCAAAGCTTGCACAAGTTGGTGGCATTTTTCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
*
388402 CCTCAAAAAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * **
388463 CCTCAAAGAGCAGGACGC-CTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTC-TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
388523 CCTCAAAGAGTAGGATGCTTTCTCTCTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTCTCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * *
388584 CCTCAAAAAGCAGGACGCCTTTC-CTTTGCAAAGCCCACATAAGTTGGTGGCA-CTTCCCAAT
1 CCTCAAAGAGCAGGATG-CTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTT-CCAGT
* * **
388645 CCTCAAAGAGTAGGA--C--GC-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG-
1 CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* *
388699 CCTTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGGCCACACAAGTTGGTGGCACCTTCCAGG
1 CC-TCAAAGAGCAGGATGCTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * **
388761 CCTCAAAGAGCAGGATGC-CTCGTTTTTCAAAGCCCACACAAGTTGATGGCATTTTCCAGT
1 CCTCAAAGAGCAGGATGCTTTC-TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * * * *
388821 CCTCAAAGAGGAGGATGCTTTCTCTCTACAAAACCCACACAAGTTGGTGGCACTTTCCAGC
1 CCTCAAAGAGCAGGATGCTTTCTCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * *
388882 CCTCAAAGAGCAGGATGCCTTTC-CTTTGCAAAGCCCACCCAAGTTTGTGGCACCTTCTAGT
1 CCTCAAAGAGCAGGATG-CTTTCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
* * ** * **
388943 CCCCAAA-ATGCAGGATGCCTTTC-CGTTTTAAAGCCCACATGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGA-GCAGGATG-CTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
389004 CCTCAAAGAGCAGGATGC
1 CCTCAAAGAGCAGGATGC
389022 ACCTTATTTT
Statistics
Matches: 964, Mismatches: 115, Indels: 113
0.81 0.10 0.09
Matches are distributed among these distances:
53 5 0.01
54 11 0.01
55 252 0.26
56 24 0.02
57 4 0.00
58 2 0.00
59 4 0.00
60 176 0.18
61 464 0.48
62 22 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (60 bp):
CCTCAAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
Found at i:388229 original size:121 final size:120
Alignment explanation
Indices: 387844--389021 Score: 1173
Period size: 121 Copynumber: 10.0 Consensus size: 120
387834 AAGAGCAGGA
* *
387844 CGCCTTTTAAAGCCCGCACAAGTTGGTGGCACGCTT-CAGTCCTCAAAGAGCAGGATGC--T-T-
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGATGCTTTCTC
387904 TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGA-----
65 TTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGATGCCT
* * *
387954 CGCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC---CT-T
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCT
* * * * *
388015 TT-AAGGCCCACATAAGTTGGTGGCA-GTTCCCAATCCTCAAAGAGTAGGA-----
66 TTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGATGCCT
* ** *
388064 CGCCTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCT
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCT
*
388129 TTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCT
66 TT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCT
** *
388185 CGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCT
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCT
* *
388250 CTAT-AAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGTAGGATGCCT
66 -T-TCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCT
** * * * *
388306 TTCCTTTGTAAAGCCCACATAAGTTGGTGGCA-CTTCCAAGTCCTCAAAGAGTAGGA--C--GC-
1 CGCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGATGCTTTCT
*** ** * * *
388365 CTTTCAAAGCTTGCACAAGTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTT
64 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGC-CT
* * * *
388423 C-TCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGC-CTCGC
1 CGCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTC-T
** * *
388486 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTT
64 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGC-CT
* * * *
388544 C-TCTCTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGCAGGACGCCTTTC-
1 CGCCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
* * *
388607 CTTTGCAAAGCCCACATAAGTTGGTGGCA-CTTCCCAATCCTCAAAGAGTAGGA-----
64 CTTT-CAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAGCAGGATGCCT
**
388660 CGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG-CCTTCAAAGAGCAGGATGCTTTCTC
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCC-TCAAAGAGCAGGATGCTTTCTC
* *
388724 TTTGCAAAGGCCACACAAGTTGGTGGCACCTTCCAGGCCTCAAAGAGCAGGATGCCT
65 TTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCT
** * ** *
388781 CGTTTTTCAAAGCCCACACAAGTTGATGGCATTTTCCAGTCCTCAAAGAGGAGGATGCTTTCTCT
1 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCT
* * * *
388846 CTACAAAACCCACACAAGTTGGTGGCACTTTCCAGCCCTCAAAGAGCAGGATGCCT
66 -TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCT
** * * * *
388902 TTCCTTTGCAAAGCCCACCCAAGTTTGTGGCACCTTCTAGTCCCCAAA-ATGCAGGATGCCTTTC
1 CGCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGA-GCAGGATG-CTTTC
* ** * **
388966 -CGTTTTAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGC
63 TC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGC
389022 ACCTTATTTT
Statistics
Matches: 923, Mismatches: 99, Indels: 80
0.84 0.09 0.07
Matches are distributed among these distances:
109 3 0.00
110 147 0.16
113 2 0.00
114 3 0.00
115 8 0.01
116 214 0.23
117 15 0.02
118 2 0.00
119 1 0.00
120 1 0.00
121 344 0.37
122 174 0.19
123 9 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCT
TTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCT
Found at i:388965 original size:298 final size:298
Alignment explanation
Indices: 387852--388934 Score: 1657
Period size: 298 Copynumber: 3.7 Consensus size: 298
387842 GACGCCTTTT
* * *
387852 AAAGCCCGCACAAGTTGGTGGCACGCTT-CAGTCCTCAAAGAGCAGGA----T-GCTTTTTAAAG
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAG
* * * *
387911 CCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC---CT-T-T-CAAAGCCCA
65 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTACAAAGCCCA
* * *
387970 CACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC--T--TTT--AAGGCCCACATA
130 CACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACATA
*
388029 AGTTGGTGGCAGTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCGCACAAGTTGGTGGC
195 AGTTGGTGGCACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCGCACAAGTTGGTGGC
*
388094 ATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTTTGC
260 ATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGC
388133 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
*
388198 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTATAAAGCCCAC
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTACAAAGCCCAC
* * * *
388263 ACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGTAGGATGCCTTTCCTTTGTAAAGCCCACATAA
131 ACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACATAA
**
388328 GTTGGTGGCACTT-CCAAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCTTGCACAAGTTGGTGGC
196 GTTGGTGGCACTTCCCAA-TCCTCAAAGAGTAGGACGCCTTTCAAAGCCCGCACAAGTTGGTGGC
* *
388392 ATTTTTCAGTCCTCAAAAAGCAGGATGCTTTCTCTTTGC
260 ATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGC
388431 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
*
388496 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTGCAAAGCCCAC
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTACAAAGCCCAC
*
388561 ACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGCAGGACGCCTTTCCTTTGCAAAGCCCACATAA
131 ACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACATAA
*
388626 GTTGGTGGCACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
196 GTTGGTGGCACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCGCACAAGTTGGTGGCA
388691 TTTTCCAG-CCTTCAAAGAGCAGGATGCTTTCTCTTTGC
261 TTTTCCAGTCC-TCAAAGAGCAGGATGCTTTCTCTTTGC
* * * **
388729 AAAGGCCACACAAGTTGGTGGCACCTTCCAGGCCTCAAAGAGCAGGATGCCTCGTTTTTCAAAGC
1 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
* * *
388794 CCACACAAGTTGATGGCATTTTCCAGTCCTCAAAGAGGAGGATGCTTTCTCTCTACAAAACCCAC
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTACAAAGCCCAC
* * * **
388859 ACAAGTTGGTGGCACTTTCCAGCCCTCAAAGAGCAGGATGCCTTTCCTTTGCAAAGCCCACCCAA
131 ACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACATAA
*
388924 GTTTGTGGCAC
196 GTTGGTGGCAC
388935 CTTCTAGTCC
Statistics
Matches: 733, Mismatches: 48, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
280 3 0.00
281 42 0.06
285 1 0.00
286 51 0.07
289 2 0.00
290 1 0.00
291 1 0.00
292 46 0.06
294 1 0.00
296 3 0.00
297 6 0.01
298 572 0.78
299 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (298 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTCGCCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTCTCTCTACAAAGCCCAC
ACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCTTTGCAAAGCCCACATAA
GTTGGTGGCACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCGCACAAGTTGGTGGCA
TTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGC
Found at i:389871 original size:13 final size:13
Alignment explanation
Indices: 389853--389878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
389843 CATTACTCCA
389853 TGTATCGATACAT
1 TGTATCGATACAT
389866 TGTATCGATACAT
1 TGTATCGATACAT
389879 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:392288 original size:52 final size:53
Alignment explanation
Indices: 392231--392352 Score: 158
Period size: 52 Copynumber: 2.3 Consensus size: 53
392221 CAATTGTTCA
* * * **
392231 TAATCGGGGGTACTCCAACCCCGGTTTTA-TTTCCAAAACACCAATTTTCCTT
1 TAATCGAGGATACTCCAACCCCGATTTTATTTTAAAAAACACCAATTTTCCTT
* * *
392283 TAATCGAGGATACTCCAACTCCGATTTTATTTTAAAAAACACCAATTTTTC-A
1 TAATCGAGGATACTCCAACCCCGATTTTATTTTAAAAAACACCAATTTTCCTT
392335 TAATCGAGGATACTCCAA
1 TAATCGAGGATACTCCAA
392353 TCTCGTTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 43 0.70
53 18 0.30
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (53 bp):
TAATCGAGGATACTCCAACCCCGATTTTATTTTAAAAAACACCAATTTTCCTT
Found at i:392426 original size:79 final size:79
Alignment explanation
Indices: 392290--392966 Score: 849
Period size: 79 Copynumber: 8.5 Consensus size: 79
392280 CTTTAATCGA
** * ** * * *
392290 GGATACTCCAACTCC-GATTTTATTTTAAAAAACACCAATTTTTCATAATCGAGGATACTCCAAT
1 GGATACTCCAAC-CCTGATTTTA-TTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
* *
392354 CTCGTTATTTCGGAGG
64 CCCGTTATTTCCGAGG
*
392370 GGATACTCCAACCCTGGTTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
392435 CGTTATTTCCGAGG
66 CGTTATTTCCGAGG
* * *
392449 GGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCTAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
392514 CGTTATTTCCGAGG
66 CGTTATTTCCGAGG
** * * ** * *
392528 GGATACTTTAATCCTGATTTTATTT-CTAAATCATCGATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCCTGATTTTATTTCCAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAACC
392592 CCGTTATTTCCGAGG
65 CCGTTATTTCCGAGG
* * *
392607 GGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
392672 CGTTATTTCCGAGG
66 CGTTATTTCCGAGG
* ** *
392686 GGATACTCCAACCCTGGTTTTATTTCTGAAATATTAATTTCTCATAATCGGGGATGCTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
* *
392751 CATTATTTTCGAGG
66 CGTTATTTCCGAGG
* * *
392765 AGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
*
392830 CGTTATTTCTGAGG
66 CGTTATTTCCGAGG
* * * * * *
392844 GGATACTCCAATCCTGATTTTATTTCC-TAATCATCTATTTTTTCACAACCGGGGATACTCCAAC
1 GGATACTCCAACCCTGATTTTATTTCCAAAAT-AT-TAATTTCTCATAATCGGGGATACTCCAAC
* * *
392908 CCTGTTATTTTCAAGG
64 CCCGTTATTTCCGAGG
* *
392924 GGATACTCCAACCC-CATTATTATCTCCAAAATATTAAATTTCT
1 GGATACTCCAACCCTGATT-TTATTTCCAAAATATT-AATTTCT
392967 TATCGGGACA
Statistics
Matches: 520, Mismatches: 69, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
78 7 0.01
79 424 0.82
80 86 0.17
81 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACCCTGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCC
CGTTATTTCCGAGG
Found at i:396665 original size:19 final size:19
Alignment explanation
Indices: 396641--396691 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
396631 TTTCAACGAT
396641 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
396660 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
396679 TTGTATCGATACA
1 TTGTATCGATACA
396692 ATGTACAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:396823 original size:52 final size:52
Alignment explanation
Indices: 396767--396889 Score: 246
Period size: 52 Copynumber: 2.4 Consensus size: 52
396757 TGATCTTTGG
396767 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
1 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
396819 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
1 ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
396871 ATCGATACATGCAGGCAAA
1 ATCGATACATGCAGGCAAA
396890 ATTTCATATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (52 bp):
ATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGT
Found at i:405059 original size:31 final size:30
Alignment explanation
Indices: 404987--405433 Score: 238
Period size: 31 Copynumber: 13.9 Consensus size: 30
404977 TTCAAATCTC
* * *
404987 TTTTCAAAGTCCACGACTCAGTGGCATCTC
1 TTTTCAAAGTCCACAACTCAGTGGCATTTT
*
405017 TTTTCAAAGTCCACGACTCAGTGGCATTTT
1 TTTTCAAAGTCCACAACTCAGTGGCATTTT
* *
405047 TTTTCCAAAGTCCACAACTCAGTGGCAATCTC
1 TTTT-CAAAGTCCACAACTCAGTGGC-ATTTT
**
405079 TTTTCAAAGTCCATGACTCAGTGGCATCTTT
1 TTTTCAAAGTCCACAACTCAGTGGCAT-TTT
* * *
405110 TCTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTTCAAAGTCCACAACTCAGTGGCA---TTTT
* * * *
405143 CTTTTCAAAGCCCACAATTCTGTGGTACCTTTTTT
1 -TTTTCAAAGTCCACAACTCAGTGG---C-ATTTT
* * *
405178 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 -TTTTCAAAGTCCACAACTCAGTGGCA-T-TTT
** **
405211 TTCCCTTTTAAGTCCATGACTCAGTGGCATTTT
1 TT---TTCAAAGTCCACAACTCAGTGGCATTTT
* * *
405244 TTTCCCAAAGTCCACAACTCAGTGGCAATCTC
1 TTT-TCAAAGTCCACAACTCAGTGGC-ATTTT
* *
405276 TTTTCAAAGTCCACGACTCTA-TGACATCCTTTT
1 TTTTCAAAGTCCACAACTC-AGTGGCA---TTTT
405309 TTCTTCAAAGTCCACAACTCCA-TGGCAACTTTT
1 TT-TTCAAAGTCCACAACT-CAGTGGC-A-TTTT
* *
405342 CCTTTC-AAGTCCACAACTCCGTGGCACCTTTTT
1 -TTTTCAAAGTCCACAACTCAGTGGCA---TTTT
* *
405375 CTTTTTAAAGCCCACAACTC-GTGGCACCTTTT
1 -TTTTCAAAGTCCACAACTCAGTGGCA--TTTT
* *
405407 TCATTT-TAAGTCCACAACTCTGTGGCA
1 T--TTTCAAAGTCCACAACTCAGTGGCA
405434 CCTTTTTCTT
Statistics
Matches: 334, Mismatches: 50, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
30 36 0.11
31 98 0.29
32 51 0.15
33 46 0.14
34 55 0.16
35 47 0.14
37 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (30 bp):
TTTTCAAAGTCCACAACTCAGTGGCATTTT
Found at i:405097 original size:62 final size:61
Alignment explanation
Indices: 404987--405400 Score: 300
Period size: 62 Copynumber: 6.4 Consensus size: 61
404977 TTCAAATCTC
*
404987 TTTTCAAAGTCCACGACTCAGTGGC-ATCTCTTTTCAAAGTCCACGACTCAGTGGCATTTT
1 TTTTCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGTGGCATTTT
*
405047 TTTTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCATGACTCAGTGGCATCTTT
1 TTTT-CAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGTGGCAT-TTT
* * * * * * * * * *
405110 TCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAATTCTGTGGTACCTTT
1 TTTTCAAAGTCCACAACTCAGTGGCA---ATCTCTTTTCAAAGTCCACGACTCAGTGG---C-AT
405175 TTT
59 TTT
* * * * * *
405178 CTTTTTAAAGCCCACAACTCCGTGGCACTCT-TTTTCCCTTTTAAGTCCATGACTCAGTGGCATT
1 -TTTTCAAAGTCCACAACTCAGTGGCAATCTCTTTT--C---AAAGTCCACGACTCAGTGGCATT
405242 TT
60 TT
* *
405244 TTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCTA-TGACATCCTTT
1 TTT-TCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTC-AGTGGCA---TTT
405308 T
61 T
* * * *
405309 TTCTTCAAAGTCCACAACTCCA-TGGCAACTTTTCCTTTC-AAGTCCACAACTCCGTGGCACCTT
1 TT-TTCAAAGTCCACAACT-CAGTGGCAA--TCTCTTTTCAAAGTCCACGACTCAGTGGCA---T
405372 TTT
59 TTT
* *
405375 CTTTTTAAAGCCCACAACTC-GTGGCA
1 -TTTTCAAAGTCCACAACTCAGTGGCA
405401 CCTTTTTCAT
Statistics
Matches: 283, Mismatches: 42, Indels: 53
0.75 0.11 0.14
Matches are distributed among these distances:
60 4 0.01
61 20 0.07
62 67 0.24
63 7 0.02
65 62 0.22
66 66 0.23
67 15 0.05
68 4 0.01
69 25 0.09
70 13 0.05
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (61 bp):
TTTTCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGTCCACGACTCAGTGGCATTTT
Found at i:405357 original size:32 final size:33
Alignment explanation
Indices: 405084--405479 Score: 254
Period size: 34 Copynumber: 12.0 Consensus size: 33
405074 ATCTCTTTTC
** * * *
405084 AAAGTCCATGACTCAGTGGCATC-TTTT-CTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* *
405115 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* * * * *
405148 CAAAGCCCACAATTCTGTGGTACCTTTTTTCTTTTT
1 -AAAGTCCACAACTCCGTGGCACC-TTTTTC-CTTT
*
405184 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTT
* ** * ** *
405219 TAAGTCCATGACTCAGTGGCATTTTTTTCC--C
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* *
405250 AAAGTCCACAACTCAGTGGCAATCTCTTTT-C---
1 AAAGTCCACAACTCCGTGGC-ACCT-TTTTCCTTT
* ** * * *
405281 AAAGTCCACGACTCTATGACATCCTTTTTTCTTC
1 AAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTT
* *
405315 AAAGTCCACAACTCCATGGCAAC-TTTTCCTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* *
405347 CAAGTCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTC-CTTT
* *
405381 AAAGCCCACAACT-CGTGGCACCTTTTTCATTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* * *
405413 TAAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTC-CTTT
* * * * *
405447 AAAGTCCATAACTTCGTGACATCTTTCTCCTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
405480 TCAAAAGCCT
Statistics
Matches: 291, Mismatches: 56, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
30 5 0.02
31 54 0.19
32 49 0.17
33 46 0.16
34 82 0.28
35 49 0.17
36 6 0.02
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (33 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
Found at i:405393 original size:66 final size:67
Alignment explanation
Indices: 405115--405479 Score: 307
Period size: 66 Copynumber: 5.5 Consensus size: 67
405105 TCTTTTCTTC
* * * * *
405115 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAATTCTGTGGTACCTTTTTTCT
1 AAAGCCCACAACTCCGTGGCAACTTTTTCCTTTC-AAGTCCACAACTCTGTGGCACC-TTTTTCT
405180 TTTT
64 TTTT
* * ** *
405184 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCATGACTCAGTGGCA--TTTTT-T
1 AAAGCCCACAACTCCGTGGCA-ACTTTTT-CCTTTCAAGTCCACAACTCTGTGGCACCTTTTTCT
***
405246 TCCC
64 TTTT
* * * * * * *
405250 AAAGTCCACAACTCAGTGGCAA---TCTCTTTTCAAAGTCCACGACTCTATGACATCCTTTTT-T
1 AAAGCCCACAACTCCGTGGCAACTTTTTCCTTTC-AAGTCCACAACTCTGTGGCA-CCTTTTTCT
* *
405311 CTTC
64 TTTT
* * *
405315 AAAGTCCACAACTCCATGGCAAC-TTTTCCTTTCAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCAACTTTTTCCTTTCAAGTCCACAACTCTGTGGCACCTTTTTCTTT
405379 TT
66 TT
* * *
405381 AAAGCCCACAACT-CGTGGCACCTTTTTCATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTT
1 AAAGCCCACAACTCCGTGGCAACTTTTTCCTTTCAAGTCCACAACTCTGTGGCACCTTTTTCTTT
405445 TT
66 TT
* * * * * *
405447 AAAGTCCATAACTTCGTGACATCTTTCTCCTTT
1 AAAGCCCACAACTCCGTGGCAACTTTTTCCTTT
405480 TCAAAAGCCT
Statistics
Matches: 238, Mismatches: 47, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
61 4 0.02
62 18 0.08
65 41 0.17
66 103 0.43
67 27 0.11
69 21 0.09
70 20 0.08
71 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (67 bp):
AAAGCCCACAACTCCGTGGCAACTTTTTCCTTTCAAGTCCACAACTCTGTGGCACCTTTTTCTTT
TT
Found at i:405454 original size:197 final size:197
Alignment explanation
Indices: 405023--405433 Score: 602
Period size: 197 Copynumber: 2.1 Consensus size: 197
405013 TCTCTTTTCA
405023 AAGTCCACGACTCAGTGGCATTTTTTTTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
1 AAGTCCACGACTCAGTGGCATTTTTTTTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
* * * * *
405088 TCCATGACTCAGTGGCATCTTTTCTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAG
66 TCCACGACTCAGTGACATCTTTTCTTCAAAGCCCACAACTCCATGGCAACTTTTTCCTTTCAAAG
* * * *
405153 CCCACAATTCTGTGGTACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
131 CCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCATT
405218 TT
196 TT
* *
405220 AAGTCCATGACTCAGTGGCATTTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
1 AAGTCCACGACTCAGTGGCATTTTTTTTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
*
405285 TCCACGACTCTA-TGACATCCTTTTTTCTTCAAAGTCCACAACTCCATGGCAAC-TTTTCCTTTC
66 TCCACGACTC-AGTGACAT-C--TTTTCTTCAAAGCCCACAACTCCATGGCAACTTTTTCCTTTC
*
405348 -AAGTCCACAACTCCGTGGCACC-TTTTTCTTTTTAAAGCCCACAACT-CGTGGCAC-CTTTTT-
127 AAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
405408 CATTTT
192 CATTTT
* *
405414 AAGTCCACAACTCTGTGGCA
1 AAGTCCACGACTCAGTGGCA
405434 CCTTTTTCTT
Statistics
Matches: 194, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
194 22 0.11
195 6 0.03
196 8 0.04
197 101 0.52
198 20 0.10
199 9 0.05
200 28 0.14
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (197 bp):
AAGTCCACGACTCAGTGGCATTTTTTTTCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
TCCACGACTCAGTGACATCTTTTCTTCAAAGCCCACAACTCCATGGCAACTTTTTCCTTTCAAAG
CCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCATT
TT
Found at i:405598 original size:49 final size:49
Alignment explanation
Indices: 405540--406822 Score: 1330
Period size: 49 Copynumber: 26.8 Consensus size: 49
405530 GGCATTTTCT
*
405540 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
405589 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
405632 TTTAAGTCCAATATAGCTAGCCATGAATCAGCATATTGGCAGC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
405680 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
405728 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
405771 TTTAAGTCCAATATAGCTGGCCTTGAATCAGTATCTTGACACC-TCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
405819 TTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
405863 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
405912 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
405955 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
406004 TTTAAGTCCAATGTAGCTGCCCTTGAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
406053 -TTAAGTCAAATATAGCTAGCCTTAAATCAGCATATTGGCACCTTTACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
406101 TTTAAGTCCAATGTAGCTGGCATTGAATCAGCACATTGGCACCTCCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
406150 -TTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCGCCCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
406198 ATCTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCCTCGTTAGC
1 -T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCT--TCATC
* * *
406252 GTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATAGTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
406295 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
406344 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
406393 -TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
406441 TTTAAGTCCAATGTAGTTGACCTTGAAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTG-AATCAGCATATTGGCACCTTCATC
** * *
406491 -TTAAGTCCAATATCA-CTGGCCTTGAAAAAGCATATTGGCGCCCTCATC
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
406539 ATCTTAAGTCCAATATCA-ATGGCCTTGATTCAGCATATTGGCGCCCTCATTAGC
1 -T-TTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCACCTTCA-T--C
* *
406593 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
406636 TTTAATTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
406685 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* **
406734 -TTAAGTCCAATATCGCTATCCTTGAATCAGCATATTAGTGC-CCTCGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-GCACCT--TCATC
* *
406785 TTTAAGTCCAATGTCA-CTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTG
406823 ACATCTTTTT
Statistics
Matches: 1034, Mismatches: 142, Indels: 114
0.80 0.11 0.09
Matches are distributed among these distances:
43 229 0.22
44 1 0.00
45 2 0.00
46 3 0.00
48 257 0.25
49 327 0.32
50 23 0.02
51 85 0.08
52 102 0.10
53 1 0.00
54 4 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:405865 original size:92 final size:92
Alignment explanation
Indices: 405588--406822 Score: 1213
Period size: 92 Copynumber: 12.9 Consensus size: 92
405578 GCACCTTCAT
* * *
405588 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTCTTTAAGTCCAATGTAG
* * *
405648 CTAGCCATGAATCAGCATATTGGCAGCTCAC
66 CTGGCCTTGAATCAGCACATTGGCA---C-C
*
405679 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTCTTTAAGTCCAATGTAG
405744 CTGGCCTTGAATCAGCACATTGGCA-C
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
405770 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGTATCTTGACACCTCTTCTTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTC-TTTAAGTCCAATGTA
405835 GCTGGCCTTGAATCAGCACATTGGCA-C
65 GCTGGCCTTGAATCAGCACATTGGCACC
*
405862 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TTAGCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT--CTTTAAGTCCAATGT
*
405926 AGCTAGCCTTGAATCAGCACATTGGCA-C
64 AGCTGGCCTTGAATCAGCACATTGGCACC
*
405954 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCT-TTAGCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT--CTTTAAGTCCAATGT
*
406018 AGCTGCCCTTGAATCAGCACATTGGCACCTC
64 AGCTGGCCTTGAATCAGCACATTGGCA-C-C
* * *
406049 CATCTTAAGTCAAATATAGCTAGCCTTAAATCAGCATATTGGCACCT-TTACCTTTAAGTCCAAT
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT--CTTTAAGTCCAAT
*
406113 GTAGCTGGCATTGAATCAGCACATTGGCACCTC
62 GTAGCTGGCCTTGAATCAGCACATTGGCA-C-C
* * * *
406146 CTTCTTAAGTCCAATATCGATGGCCTTGAATCAGCATATTGGCGCCCTCATCATCTTAAGTCCAA
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCTCTTC-T-TTAAGTCCAA
* * * *
406211 TATTGCTGGCCTTGAATCAGCATATTGGCGCCC
61 TGTAGCTGGCCTTGAATCAGCACATTGGC-ACC
* *
406244 TCGTTAGCGTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATAGTGGCA---C--CTTTAAGTCC
1 -C--T----TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTCTTTAAGTCC
* *
406304 AATATAGCTGGCCTTGAATCAGCATATTGGCACC
59 AATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * *
406338 TTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC-TTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-CTTCTTTAAGTCCA
* *
406402 ATATAGCTGGCCTTGAATCAGCATATTGGCACC
60 ATGTAGCTGGCCTTGAATCAGCACATTGGCACC
* * * * *
406435 TTTAGCTTTAAGTCCAATGTAGTTGACCTTGAAATCAGCACATTGGCACCTCCATC-TTAAGTCC
1 -----CTTTAAGTCCAATATAGCTGGCCTTG-AATCAGCATATTGGCACCT-CTTCTTTAAGTCC
* ** * *
406499 AATATCA-CTGGCCTTGAAAAAGCATATTGGCGCCCTC
59 AATGT-AGCTGGCCTTGAATCAGCACATT-G-GCAC-C
* * *
406536 ATCATCTTAAGTCCAATATCA-ATGGCCTTGATTCAGCATATTGGCGCCCTCATTAGCTTTAAGT
1 --C-T-TTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGC-ACCTC-TT--CTTTAAGT
406600 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C
57 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
*
406635 CTTTAATTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-TTAGCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTT--CTTTAAGTCCAATGT
*
406699 AGCTGGCCTTGAATCAGCATATTGGCACCTC
64 AGCTGGCCTTGAATCAGCACATTGGCA-C-C
* **
406730 CATCTTAAGTCCAATATCGCTATCCTTGAATCAGCATATTAGTGC-CCTCGTCATCTTTAAGTCC
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-GCACCTC-T--TCTTTAAGTCC
406794 AATGTCA-CTGGCCTTGAATCAGCACATTG
59 AATGT-AGCTGGCCTTGAATCAGCACATTG
406823 ACATCTTTTT
Statistics
Matches: 1006, Mismatches: 78, Indels: 111
0.84 0.07 0.09
Matches are distributed among these distances:
91 88 0.09
92 294 0.29
93 1 0.00
94 7 0.01
95 76 0.08
96 44 0.04
97 229 0.23
98 69 0.07
99 59 0.06
100 65 0.06
101 5 0.00
102 4 0.00
103 65 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:406296 original size:21 final size:21
Alignment explanation
Indices: 406272--406339 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
406262 ATGTAGCTGG
406272 CCTTGAATCAGCATAGTGGCA
1 CCTTGAATCAGCATAGTGGCA
* **
406293 CCTTTAAGTCCAATATAGCTGG--
1 CCTTGAA-T-CAGCATAG-TGGCA
*
406315 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATAGTGGCA
406336 CCTT
1 CCTT
406340 TAGCTTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 11 0.31
22 7 0.20
23 6 0.17
24 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCATAGTGGCA
Found at i:406330 original size:22 final size:22
Alignment explanation
Indices: 406265--406330 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
406255 AAGTCCAATG
406265 TAGCTGGCCTTGAATCAGC--A
1 TAGCTGGCCTTGAATCAGCATA
*
406285 TAG-TGGCACCTTTAAGTC--CAATA
1 TAGCTGG--CCTTGAA-TCAGC-ATA
406308 TAGCTGGCCTTGAATCAGCATA
1 TAGCTGGCCTTGAATCAGCATA
406330 T
1 T
406331 TGGCACCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
19 3 0.09
20 4 0.11
21 8 0.23
22 12 0.34
23 5 0.14
24 3 0.09
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (22 bp):
TAGCTGGCCTTGAATCAGCATA
Found at i:406648 original size:341 final size:338
Alignment explanation
Indices: 405541--406822 Score: 1799
Period size: 341 Copynumber: 3.8 Consensus size: 338
405531 GCATTTTCTT
* * *
405541 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA-T--CTTTAAGTCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
* *
405603 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCATGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * * *
405668 TGGCAGC-TCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCT-CATCTTT
131 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC-TT
* * * *
405731 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C----CTTTAAGTCCAATATAGCTGG
195 AAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTACTTTAAGTCCAATGTAGCTGG
* * * * *
405791 CCTTGAATCAGTATC-TTGACACCTCTTCTTTTAAGTCCAATGT-AGCTGGCCTTGAATCAGCAC
260 CCTTGAATCAGCA-CATTGGCACCTC--CTCTTAAGTCCAATATCA-CTGGCCTTGAATCAGCAT
*
405854 ATT-G-G----CA-CCT-
321 ATTGGCGCCCTCATCATC
* *
405864 TTAAGCCCAATAT-AGCTGGCCTTGAATCAGCATATTGGC-ACCT--TTAGCTTTAAGTCCAATG
1 TTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATG
* *
405925 TAGCTAGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
*
405990 TTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGCCCTTGAATCAGCACATTGGCACCTCCATCTT
130 TTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTT
* *
406055 AAGTCAAATATAGCTAGCCTTAAATCAGCATATTGGCACCTTTACCTTTAAGTCCAATGTAGCTG
195 AAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTA-CTTTAAGTCCAATGTAGCTG
*
406120 GCATTGAATCAGCACATTGGCACCTCCTTCTTAAGTCCAATATCGA-TGGCCTTGAATCAGCATA
259 GCCTTGAATCAGCACATTGGCACCTCC-TCTTAAGTCCAATATC-ACTGGCCTTGAATCAGCATA
406184 TTGGCGCCCTCATCATC
322 TTGGCGCCCTCATCATC
** * *
406201 TTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCCTCGTTAGCGTTAAGTCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
* *
406266 AGCTGGCCTTGAATCAGCATAGTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
406331 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
131 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
* * *
406396 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGTTGA
196 AGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTA-CTTTAAGTCCAATGTAGCTGG
**
406461 CCTTGAAATCAGCACATTGGCACCTCCATCTTAAGTCCAATATCACTGGCCTTGAAAAAGCATAT
260 CCTTG-AATCAGCACATTGGCACCTCC-TCTTAAGTCCAATATCACTGGCCTTGAATCAGCATAT
406526 TGGCGCCCTCATCATC
323 TGGCGCCCTCATCATC
* *
406542 TTAAGTCCAATATCAATGGCCTTGATTCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
1 TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
*
406607 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAATTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
406672 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTCCATCTTA
131 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
* * *
406737 AGTCCAATATCGCTATCCTTGAATCAGCATATTAGTGC-CCTCGTCATCTTTAAGTCCAATGTCA
196 AGTCCAATATAGCTAGCCTTGAATCAGCATATT-G-GCACCT--TTA-CTTTAAGTCCAATGT-A
406801 -CTGGCCTTGAATCAGCACATTG
255 GCTGGCCTTGAATCAGCACATTG
406823 ACATCTTTTT
Statistics
Matches: 861, Mismatches: 63, Indels: 50
0.88 0.06 0.05
Matches are distributed among these distances:
321 1 0.00
322 2 0.00
323 118 0.14
324 79 0.09
325 5 0.01
328 1 0.00
329 33 0.04
330 41 0.05
331 2 0.00
335 2 0.00
336 2 0.00
337 36 0.04
338 3 0.00
340 207 0.24
341 285 0.33
342 4 0.00
343 15 0.02
344 24 0.03
345 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (338 bp):
TTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
AGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTACTTTAAGTCCAATGTAGCTGGC
CTTGAATCAGCACATTGGCACCTCCTCTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGG
CGCCCTCATCATC
Found at i:406851 original size:55 final size:54
Alignment explanation
Indices: 406780--406885 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 54
406770 AGTGCCCTCG
* *
406780 TCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATCTTTTTTC
1 TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCATC-TTTTTC
* * * * * *
406835 TCATCTTTAAGCCCAATATCATTGGTCGTGAATCAACATATTGGCATCTTT
1 TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCATCTTT
406886 ATCACTTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
54 3 0.07
55 40 0.93
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (54 bp):
TCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCACATTGGCATCTTTTTC
Found at i:406983 original size:53 final size:50
Alignment explanation
Indices: 406908--407150 Score: 211
Period size: 53 Copynumber: 4.7 Consensus size: 50
406898 ACCTTTATCT
* ** * * *
406908 TTAAGTCCAATATTGCTTGCCTTGAATCTGCATATTGGCGTCTTCGTCATC
1 TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGTCTTC-TCATC
* * * *
406959 TTTGAAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCATTCTTCTCATC
1 -TT-AAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGC-GTCTTCTCATC
* * *
407012 TTCAAGTCAAAATGTCACTGGCCATGAATCAGCACATTGGC-ACTTC-CATC
1 TT-AAGTC-CAATGTCACTGGCCTTGAATCAGCACATTGGCGTCTTCTCATC
* * * * * * *
407062 TTAAGTCCAATATCGCTGTCCTTGAATCAGCATATTGGTGCCCTCGTCATC
1 TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGTCTTC-TCATC
*
407113 TTTAAGTCCAATGTCACTGGCCTTGAATCAGTACATTG
1 -TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTG
407151 ACATCTTTTT
Statistics
Matches: 153, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
48 25 0.16
49 8 0.05
50 6 0.04
51 8 0.05
52 41 0.27
53 60 0.39
54 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (50 bp):
TTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCGTCTTCTCATC
Found at i:407069 original size:101 final size:100
Alignment explanation
Indices: 406963--407150 Score: 218
Period size: 101 Copynumber: 1.9 Consensus size: 100
406953 GTCATCTTTG
* * * * *
406963 AAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCAT-TCTTC-TCATCTTCAAGTCAAAATG
1 AAGTCCAATATCACTGGCCTTAAATCAGCACATTGG--TGCCCTCGTCATCTTCAAGTC-AAATG
407026 TCACTGGCCATGAATCAGCACATTGGCACTTCCATCTT
63 TCACTGGCCATGAATCAGCACATTGGCACTTCCATCTT
* * * * * *
407064 AAGTCCAATATCGCTGTCCTTGAATCAGCATATTGGTGCCCTCGTCATCTTTAAGTCCAATGTCA
1 AAGTCCAATATCACTGGCCTTAAATCAGCACATTGGTGCCCTCGTCATCTTCAAGTCAAATGTCA
* *
407129 CTGGCCTTGAATCAGTACATTG
66 CTGGCCATGAATCAGCACATTG
407151 ACATCTTTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
99 1 0.01
100 30 0.42
101 41 0.57
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (100 bp):
AAGTCCAATATCACTGGCCTTAAATCAGCACATTGGTGCCCTCGTCATCTTCAAGTCAAATGTCA
CTGGCCATGAATCAGCACATTGGCACTTCCATCTT
Found at i:407204 original size:107 final size:101
Alignment explanation
Indices: 407007--407205 Score: 238
Period size: 107 Copynumber: 1.9 Consensus size: 101
406997 GGCATTCTTC
* *
407007 TCATCTTCAAGTCAAAATGTCACTGGCCATGAATCAGCACATTGGCACTTCCATCTTAAGTCCAA
1 TCATCTTCAAGTCAAAATGTCACTGGCCATGAATCAGCACATTGACACTTCCATCTTAAGCCCAA
* * *
407072 TATCGCTGTCCTTGAATCAGCATATTGGTGCCCTCG
66 TATCGCTGGCCGTGAATCAACATATTGGTGCCCTCG
* * * *
407108 TCATCTTTAAGTC-CAATGTCACTGGCCTTGAATCAGTACATTGACATCTTTTTTCTCATCTTTA
1 TCATCTTCAAGTCAAAATGTCACTGGCCATGAATCAGCACATTGACA-C----TTC-CATC-TTA
*
407172 AGCCCAATATCGTTGGCCGTGAATCAACATATTG
59 AGCCCAATATCGCTGGCCGTGAATCAACATATTG
407206 CCATCTTTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
100 29 0.36
101 13 0.16
105 3 0.04
106 4 0.05
107 32 0.40
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (101 bp):
TCATCTTCAAGTCAAAATGTCACTGGCCATGAATCAGCACATTGACACTTCCATCTTAAGCCCAA
TATCGCTGGCCGTGAATCAACATATTGGTGCCCTCG
Found at i:407211 original size:55 final size:55
Alignment explanation
Indices: 407108--407213 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
407098 GGTGCCCTCG
* * * **
407108 TCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGACATCTTTTTTC
1 TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACACATTGACATCTTTTTTC
** * *
407163 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGCCATCTTT
1 TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACACATTGACATCTTT
407214 ATCACTTTTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (55 bp):
TCATCTTTAAGCCCAATATCACTGGCCGTGAATCAACACATTGACATCTTTTTTC
Found at i:407310 original size:328 final size:328
Alignment explanation
Indices: 406701--407378 Score: 1196
Period size: 328 Copynumber: 2.1 Consensus size: 328
406691 TCCAATGTAG
*
406701 CTGGCCTTGAATCAGCATATTGGCACCTCCATCTTAAGTCCAATATCGCTATCCTTGAATCAGCA
1 CTGGCCATGAATCAGCATATTGGCACCTCCATCTTAAGTCCAATATCGCTATCCTTGAATCAGCA
406766 TATTAGTGCCCTCGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATCTTT
66 TATTAGTGCCCTCGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATCTTT
* *
406831 TTTCTCATCTTTAAGCCCAATATCATTGGTCGTGAATCAACATATTGGCATCTTTATCACTTTTC
131 TTTCTCATCTTTAAGCCCAATATCATTGGCCGTGAATCAACATATTGCCATCTTTATCACTTTTC
* *
406896 TCACCTTTATCTTTAAGTCCAATATTGCTTGCCTTGAATCTGCATATTGGCGTCTTCGTCATCTT
196 TCACCTTTATCTTTAAGTCCAATATTGCTTGCCTTGAATCCGCATATTGGCATCTTCGTCATCTT
406961 TGAAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCAAAATG
261 TGAAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCAAAATG
407026 TCA
326 TCA
* * *
407029 CTGGCCATGAATCAGCACATTGGCACTTCCATCTTAAGTCCAATATCGCTGTCCTTGAATCAGCA
1 CTGGCCATGAATCAGCATATTGGCACCTCCATCTTAAGTCCAATATCGCTATCCTTGAATCAGCA
* *
407094 TATTGGTGCCCTCGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGTACATTGACATCTTT
66 TATTAGTGCCCTCGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATCTTT
*
407159 TTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGCCATCTTTATCACTTTTC
131 TTTCTCATCTTTAAGCCCAATATCATTGGCCGTGAATCAACATATTGCCATCTTTATCACTTTTC
*
407224 TCACCTTTATCTTTAAGTCCAATATTGC-TGACCTTGAATCCGCGTATTGGCATCTTCGTCATCT
196 TCACCTTTATCTTTAAGTCCAATATTGCTTG-CCTTGAATCCGCATATTGGCATCTTCGTCATCT
* *
407288 TTGAAGTCCAATGTCGTTGGCCTTAAATTAGCACATTGGCATTCTTCTCATCTTCAAGTTAAAAT
260 TTGAAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCAAAAT
*
407353 GTCG
325 GTCA
*
407357 CTGGCCATGGATCAGCATATTG
1 CTGGCCATGAATCAGCATATTG
407379 TCATTTTTCG
Statistics
Matches: 332, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
327 2 0.01
328 330 0.99
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (328 bp):
CTGGCCATGAATCAGCATATTGGCACCTCCATCTTAAGTCCAATATCGCTATCCTTGAATCAGCA
TATTAGTGCCCTCGTCATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGACATCTTT
TTTCTCATCTTTAAGCCCAATATCATTGGCCGTGAATCAACATATTGCCATCTTTATCACTTTTC
TCACCTTTATCTTTAAGTCCAATATTGCTTGCCTTGAATCCGCATATTGGCATCTTCGTCATCTT
TGAAGTCCAATGTCATTGGCCTTAAATTAGCACATTGGCATTCTTCTCATCTTCAAGTCAAAATG
TCA
Found at i:408138 original size:38 final size:38
Alignment explanation
Indices: 408087--408162 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
408077 TCAATTTGAG
408087 AGAAGCAAAGTTTGGTCTTTGATAAAAAGATCGAACAA
1 AGAAGCAAAGTTTGGTCTTTGATAAAAAGATCGAACAA
*
408125 AGAAGCAAAGTTTGGTGTTTGATAAAAAGATCGAACAA
1 AGAAGCAAAGTTTGGTCTTTGATAAAAAGATCGAACAA
408163 TCATCCAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (38 bp):
AGAAGCAAAGTTTGGTCTTTGATAAAAAGATCGAACAA
Found at i:408912 original size:32 final size:32
Alignment explanation
Indices: 408871--408938 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
408861 TTCAACGATT
*
408871 TGTATCGATATATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
*
408903 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
408935 TGTA
1 TGTA
408939 CAGTTATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:415080 original size:52 final size:51
Alignment explanation
Indices: 414995--415118 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
414985 ATATGAAAAG
* *
414995 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
415046 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
415098 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
415119 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:415131 original size:51 final size:50
Alignment explanation
Indices: 414995--415138 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
414985 ATATGAAAAG
* *
414995 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
415047 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
415098 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
415139 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:415145 original size:13 final size:13
Alignment explanation
Indices: 415127--415151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
415117 CAAAGATCAG
415127 TGTATCGATACAA
1 TGTATCGATACAA
415140 TGTATCGATACA
1 TGTATCGATACA
415152 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:415233 original size:13 final size:13
Alignment explanation
Indices: 415215--415239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
415205 AAAAAAAATA
415215 TGTATCGATACAT
1 TGTATCGATACAT
415228 TGTATCGATACA
1 TGTATCGATACA
415240 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:420993 original size:31 final size:32
Alignment explanation
Indices: 420921--421272 Score: 101
Period size: 31 Copynumber: 10.9 Consensus size: 32
420911 TTTTCAAATT
* *
420921 TCTT-TTCAAAGTCCA-TGACTCAATGGCAT-
1 TCTTCTTCAAAGTCCACAGACTCAGTGGCATC
*
420950 T-TTTTTCCCAAAGTCCACAG-CTCAGTGGCAATC
1 TCTTCTT--CAAAGTCCACAGACTCAGTGGC-ATC
*
420983 TCTT-TTCAAAGTCCAC-GATTCAGTGGCATC
1 TCTTCTTCAAAGTCCACAGACTCAGTGGCATC
* * ** *
421013 TTTTCTTCAAAGCCCACA-ACTTTGTGGCACC
1 TCTTCTTCAAAGTCCACAGACTCAGTGGCATC
* * * * * *
421044 TTTTTCTTTTTAAAGCCCACA-ATTCTGTGGCACCC
1 -TCTTC--TTCAAAGTCCACAGACTCAGTGGCA-TC
* * * *
421079 TTTTTCATTTTAAAGCCCACA-ACTCTGTGGCACTC
1 -TCTTC--TTCAAAGTCCACAGACTCAGTGGCA-TC
* ** * *
421114 TTTTTCCCTTTTAAGTCCA-TGACTCAGTGGCATT
1 -TCTT--CTTCAAAGTCCACAGACTCAGTGGCATC
* *
421148 TTTTC-CCAAAGTCCACA-ACTCAGTGGCAATC
1 TCTTCTTCAAAGTCCACAGACTCAGTGGC-ATC
*
421179 TCTT-TTCAAAGTCCAC-GACTCAGGGGCATCC
1 TCTTCTTCAAAGTCCACAGACTCAGTGGCAT-C
* ** *
421210 TTTTTTCTTCAAAGTCCACA-ACTCCTTGGCAAC
1 --TCTTCTTCAAAGTCCACAGACTCAGTGGCATC
* *
421243 TTTTCTTTTC-AAGTCCACA-ACTCCGTGGCA
1 TCTTC--TTCAAAGTCCACAGACTCAGTGGCA
421273 CCTTTTTATT
Statistics
Matches: 261, Mismatches: 34, Indels: 53
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.01
29 3 0.01
30 26 0.10
31 86 0.33
32 27 0.10
33 14 0.05
34 44 0.17
35 58 0.22
37 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (32 bp):
TCTTCTTCAAAGTCCACAGACTCAGTGGCATC
Found at i:421064 original size:34 final size:34
Alignment explanation
Indices: 420983--421378 Score: 282
Period size: 34 Copynumber: 12.0 Consensus size: 34
420973 AGTGGCAATC
* * * * *
420983 TCTTTTCAAAGTCCACGATTCAGTGGCATC-TTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * **
421016 TC--TTCAAAGCCCACAACTTTGTGGCACCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
421048 TCTTTTTAAAGCCCACAATTCTGTGGCACCCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
* * *
421083 TCATTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
* ** *
421118 TCCCTTTT-AAGTCCATGACTCAGTGGCA---TTT
1 T-CTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*** * * *
421149 T-TTCCCAAAGTCCACAACTCAGTGGCA---ATC
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
421179 TCTTTTCAAAGTCCACGACTCAGGGGCATCCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCA-CCTTTT
* * * *
421214 T-TCTTCAAAGTCCACAACTCCTTGGCAAC-TTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
421246 TC-TTTTCAAGTCCACAACTCCGTGGCACCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
421279 TATTTTTAAAGCCCACAACTCCGTCGCACCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* **
421313 TCCTTTT-AAGTCCACAACTCCGTGAAACCTTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
421346 TCTTTTTAAAGTCCACAACTCCGTGGCATCTTT
1 TCTTTTTAAAGTCCACAACTCCGTGGCACCTTT
421379 CTCCTTTTCA
Statistics
Matches: 292, Mismatches: 55, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.00
30 20 0.07
31 46 0.16
32 31 0.11
33 35 0.12
34 98 0.34
35 56 0.19
36 5 0.02
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (34 bp):
TCTTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:421090 original size:35 final size:35
Alignment explanation
Indices: 421021--421119 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 35
421011 TCTTTTCTTC
*
421021 AAAGCCCACAACTT-TGTGGCA-CCTTTTTCTTTTT
1 AAAGCCCACAA-TTCTGTGGCACCCTTTTTCATTTT
421055 AAAGCCCACAATTCTGTGGCACCCTTTTTCATTTT
1 AAAGCCCACAATTCTGTGGCACCCTTTTTCATTTT
* *
421090 AAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAATTCTGTGGCACCCTTTTTC
421120 CCTTTTAAGT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
33 2 0.03
34 18 0.30
35 40 0.67
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.36
Consensus pattern (35 bp):
AAAGCCCACAATTCTGTGGCACCCTTTTTCATTTT
Found at i:421174 original size:65 final size:66
Alignment explanation
Indices: 420929--421332 Score: 200
Period size: 65 Copynumber: 6.2 Consensus size: 66
420919 TTTCTTTTCA
* * * * *
420929 AAGTCCATGACTCAATGGCATTTTTTTCCCAAAGTCCACAGCTCAGTGGCAATCTCTTTT-C---
1 AAGTCCACGACTCAGTGGCACTTTTTTCCCAAAGCCCACAACTCAGTGGCAATCTCTTTTCCTTT
*
420990 A
66 T
* ** * *
420991 AAGTCCACGATTCAGTGGCATCTTTTCTT--CAAAGCCCACAACTTTGTGGC-ACCT-TTTTCTT
1 AAGTCCACGACTCAGTGGCA-CTTTT-TTCCCAAAGCCCACAACTCAGTGGCAATCTCTTTTCCT
421052 TTT
64 TTT
* * * * *** * *
421055 AAAGCCCACAATTCTGTGGCACCCTTTTTCATTTTAAAGCCCACAACTCTGTGGCACTCT-TTTT
1 -AAGTCCACGACTCAGTGGCA--CTTTTT--TCCCAAAGCCCACAACTCAGTGGCAATCTCTTTT
421119 CCCTTTT
61 -CCTTTT
* *
421126 AAGTCCATGACTCAGTGGCA-TTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTT-C---
1 AAGTCCACGACTCAGTGGCACTTTTTTCCCAAAGCCCACAACTCAGTGGCAATCTCTTTTCCTTT
*
421186 A
66 T
* * * **
421187 AAGTCCACGACTCAGGGGCATCCTTTTTTCTTCAAAGTCCACAACTCCTTGGCAA---CTTTT-C
1 AAGTCCACGACTCAGTGGCA--CTTTTTTC-CCAAAGCCCACAACTCAGTGGCAATCTCTTTTCC
421248 TTTT
63 TTTT
* * *** * * *
421252 CAAGTCCACAACTCCGTGGCACCTTTTTATTTTTAAAGCCCACAACTCCGTCGC-ACCT-TTTTC
1 -AAGTCCACGACTCAGTGGCA-C-TTTT-TTCCCAAAGCCCACAACTCAGTGGCAATCTCTTTTC
421315 CTTTT
62 CTTTT
*
421320 AAGTCCACAACTC
1 AAGTCCACGACTC
421333 CGTGAAACCT
Statistics
Matches: 267, Mismatches: 46, Indels: 53
0.73 0.13 0.14
Matches are distributed among these distances:
60 4 0.01
61 21 0.08
62 40 0.15
63 4 0.01
64 10 0.04
65 65 0.24
66 48 0.18
67 25 0.09
68 5 0.02
69 19 0.07
70 21 0.08
71 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (66 bp):
AAGTCCACGACTCAGTGGCACTTTTTTCCCAAAGCCCACAACTCAGTGGCAATCTCTTTTCCTTT
T
Found at i:421279 original size:196 final size:195
Alignment explanation
Indices: 420929--421326 Score: 574
Period size: 196 Copynumber: 2.0 Consensus size: 195
420919 TTTCTTTTCA
*
420929 AAGTCCATGACTCAATGGCATTTTTTTCCCAAAGTCCACAGCTCAGTGGCAATCTCTTTTCAAAG
1 AAGTCCATGACTCAATGGCATTTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
* * * *
420994 TCCACGATTCAGTGGCATCTTTTCTTCAAAGCCCACAACTTTGTGGCACCTTTTTCTTTTTAAAG
66 TCCACGACTCAGGGGCATCTTTTCTTCAAAGCCCACAACTCTGTGGCAACTTTTTCTTTTTAAAG
* * * *
421059 CCCACAATTCTGTGGCACCCTTTTTCA-TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
131 CCCACAACTCCGTGGCACCCTTTTT-ATTTTTAAAGCCCACAACTCCGTCGCAC-CTTTTT-CCT
421123 TTT
193 TTT
*
421126 AAGTCCATGACTCAGTGGCA-TTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
1 AAGTCCATGACTCAATGGCATTTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
*
421190 TCCACGACTCAGGGGCATCCTTTTTTCTTCAAAGTCCACAACTCCT-TGGCAAC-TTTTC-TTTT
66 TCCACGACTCAGGGGCAT-C--TTTTCTTCAAAGCCCACAACT-CTGTGGCAACTTTTTCTTTTT
* *
421252 CAAGTCCACAACTCCGTGGCA-CCTTTTTATTTTTAAAGCCCACAACTCCGTCGCACCTTTTTCC
127 AAAGCCCACAACTCCGTGGCACCCTTTTTATTTTTAAAGCCCACAACTCCGTCGCACCTTTTTCC
421316 TTTT
192 TTTT
421320 AAGTCCA
1 AAGTCCA
421327 CAACTCCGTG
Statistics
Matches: 183, Mismatches: 13, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
194 13 0.07
195 7 0.04
196 90 0.49
197 41 0.22
198 5 0.03
199 26 0.14
200 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (195 bp):
AAGTCCATGACTCAATGGCATTTTTTTCCCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAG
TCCACGACTCAGGGGCATCTTTTCTTCAAAGCCCACAACTCTGTGGCAACTTTTTCTTTTTAAAG
CCCACAACTCCGTGGCACCCTTTTTATTTTTAAAGCCCACAACTCCGTCGCACCTTTTTCCTTTT
Found at i:421329 original size:67 final size:67
Alignment explanation
Indices: 421021--421389 Score: 283
Period size: 67 Copynumber: 5.6 Consensus size: 67
421011 TCTTTTCTTC
* ** * * * * * * *
421021 AAAGCCCACAACTTTGTGGCACCTTTTTCTTTTTAAAGCCCACAATTCTGTGGCACCCTTTTTCA
1 AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTCAAGTCCACAACTCCGTGGCA-CCTTTTT-T
421086 TTTT
64 TTTT
* * * ** *
421090 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT-AAGTCCATGACTCAGTGGCA---TTTTT
1 AAAGTCCACAACTCCGTGGCA-ACTTTTT-CCTTTTCAAGTCCACAACTCCGTGGCACCTTTTTT
***
421151 TCCC
64 TTTT
* * * * *
421155 AAAGTCCACAACTCAGTGGCAA---TCT-CTTTTCAAAGTCCACGACTCAGGGGCATCCTTTTTT
1 AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTC-AAGTCCACAACTCCGTGGCA-CCTTTTTT
* *
421216 CTTC
64 TTTT
*
421220 AAAGTCCACAACTCCTTGGCAAC-TTTT-CTTTTCAAGTCCACAACTCCGTGGCACCTTTTTATT
1 AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTCAAGTCCACAACTCCGTGGCACCTTTTT-TT
421283 TTT
65 TTT
* * * **
421286 AAAGCCCACAACTCCGTCGCACCTTTTTCCTTTT-AAGTCCACAACTCCGTGAAACCTTTTTCTT
1 AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTCAAGTCCACAACTCCGTGGCACCTTTTT-TT
421350 TTT
65 TTT
* *
421353 AAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTCAA
1 AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTCAA
421390 AAGCCCACAA
Statistics
Matches: 246, Mismatches: 40, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.02
61 20 0.08
65 53 0.22
66 43 0.17
67 72 0.29
68 7 0.03
69 20 0.08
70 21 0.09
71 5 0.02
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (67 bp):
AAAGTCCACAACTCCGTGGCAACTTTTTCCTTTTCAAGTCCACAACTCCGTGGCACCTTTTTTTT
TT
Found at i:421499 original size:49 final size:49
Alignment explanation
Indices: 421446--422786 Score: 1298
Period size: 49 Copynumber: 27.8 Consensus size: 49
421436 GGCATTTTCT
* *
421446 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
421495 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A----CACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
421538 TTTAAGTCCAATATAGCTGGCCATGAATCAACGTATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
421586 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
421635 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
** * * * * *
421678 TTTAAAACCAATATAGCTAGCCCTGAATCAACATATTGACACC-TCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
421726 TTTTAAGTCCAATGTAGCTGGCTTTGAATCAGCACATTGGCA----C--C
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
** * * *
421770 TTTAAACCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
421819 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
421862 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
421911 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
421960 -TTAAGTCAAATATAGTTGGCCTTAAATCAGCATATTGGCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422008 TTTAAGTCCAATGTAGCTGGCCTTGAATCATCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422057 -TTAAGTCCTATATCGCTAGCCTTGAATCAGCATATTGGCTCCCTT-ATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCTTCATC
* *
422105 ATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTT-ATTAGC
1 -T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCTTCA-T--C
*
422159 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
422202 TTTAAGTCCAATATAACTAGCCTTGAATCAGCATATTGTCACCTTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
422251 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422300 -TTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACATTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422348 TTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422397 -TTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCGCCCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
422445 ATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGC
1 -T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA-T--C
* *
422499 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
422542 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
422591 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * **
422640 -TTAAGTCCAATATTGCTGTCCTTGAATCAGCATATTGGTGCCTTCGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATC
* * *
422691 TTTAAGTCCAATGTCA-CTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATC
1 TTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATC
* * * * *
422746 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
422787 TCTTTATCAC
Statistics
Matches: 1070, Mismatches: 160, Indels: 118
0.79 0.12 0.09
Matches are distributed among these distances:
43 223 0.21
44 2 0.00
45 2 0.00
46 2 0.00
47 1 0.00
48 238 0.22
49 358 0.33
51 92 0.09
52 107 0.10
53 4 0.00
54 2 0.00
55 37 0.03
56 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:421721 original size:92 final size:92
Alignment explanation
Indices: 421494--422737 Score: 1172
Period size: 92 Copynumber: 13.0 Consensus size: 92
421484 GCACCTTCAT
* * * *
421494 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A----CACCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * **
421553 GCTGGCCATGAATCAACGTATTGGCACCTCAC
66 GCTGGCCTTGAATCAGCACATTGG-----CAC
421585 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
421650 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
** * * * * *
421677 CTTTAAAACCAATATAGCTAGCCCTGAATCAACATATTGACACC-TCTTCTTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCCAATGT
*
421741 AGCTGGCTTTGAATCAGCACATTGGCAC
65 AGCTGGCCTTGAATCAGCACATTGGCAC
** * * *
421769 CTTTAAACCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
421834 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
421861 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTAGCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
421926 GCTGGCCTTGAATCAGCACATTGACACCTC
66 GCTGGCCTTGAATCAGCACATTGGCA---C
* * * * *
421956 CATCTTAAGTCAAATATAGTTGGCCTTAAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATG
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
*
422021 TAGCTGGCCTTGAATCATCACATTGGCACCTC
64 TAGCTGGCCTTGAATCAGCACATTGGCA---C
* * * *
422053 CATCTTAAGTCCTATATCGCTAGCCTTGAATCAGCATATTGGCTCCCTT-ATCATCTTAAGTCCA
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCTTCATC-T-TTAAGTCCA
* * * *
422117 ATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTTATTAG
61 ATGTAGCTGGCCTTGAATCAGCACATT-G-G--C-----AC
* *
422158 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
* * * *
422217 ACTAGCCTTGAATCAGCATATTGTCACC
66 GCTGGCCTTGAATCAGCACATTGGCA-C
* * *
422245 TTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC-TTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCA
* * *
422309 ATATAGCTGGCCTTGAATCAACATATTGGCAC
61 ATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
422341 ATTTAGCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTCCATC-TTAAGTCC
1 ------CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * *
422405 AATATCGCTGGCTTTGAATCAGCATATTGGCGCCCTCATC
60 AATGTAGCTGGCCTTGAATCAGCACATT-G-G----CA-C
* * * *
422445 ATCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAA
1 CT-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA-T--CTTTAAGTCCAA
422510 TGTAGCTGGCCTTGAATCAGCACATTGGCAC
62 TGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
422541 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
422606 GCTAGCCTTGAATCAGCACATTGGCACCTC
66 GCTGGCCTTGAATCAGCACATTGGCA---C
* * **
422636 CATCTTAAGTCCAATATTGCTGTCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAGTCCA
1 C-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAGTCCA
*
422701 ATGTCA-CTGGCCTTGAATCAGCACATTGACATC
61 ATGT-AGCTGGCCTTGAATCAGCACATTGGCA-C
422734 CTTT
1 CTTT
422738 TTCTCATCTT
Statistics
Matches: 995, Mismatches: 98, Indels: 115
0.82 0.08 0.10
Matches are distributed among these distances:
86 1 0.00
91 41 0.04
92 330 0.33
93 3 0.00
94 1 0.00
95 78 0.08
96 9 0.01
97 327 0.33
98 12 0.01
99 72 0.07
100 42 0.04
101 3 0.00
102 2 0.00
103 70 0.07
104 2 0.00
105 1 0.00
108 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:422434 original size:340 final size:338
Alignment explanation
Indices: 421447--422728 Score: 1823
Period size: 340 Copynumber: 3.8 Consensus size: 338
421437 GCATTTTCTT
*
421447 TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCA-T--CTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATTAGCTTTAAGTCCAATGT
* * * *
421509 AGCTGGCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCATGAATCAACGTAT
65 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* * * * *
421574 TGGCACC-TCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
130 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC-TT
* * * * *
421638 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTA-----AA-ACCAATATAGCTA
194 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTG
* * * * * * * *
421697 GCCCTGAATCAACATATTGACACCTCTTC-TTTTAAGTCCAATGTAGCTGGCTTTGAATCAGCAC
259 GCCTTGAATCAGCACATTGGCACCTC--CATCTTAAGTCCAATATCGCTGGCTTTGAATCAGCAT
*
421761 ATTGGCACCTT-T-A--
322 ATTGGCCCCTTATCATC
* * *
421774 --AA-CCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACC-T-TTAGCTTTAAGTCCAATGTA
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATTAGCTTTAAGTCCAATGTA
421834 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
66 GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
* *
421899 AGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTCCATCTTAA
131 GGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTAA
* * *
421964 GTCAAATATAGTTGGCCTTAAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGC
196 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGC
* * * *
422029 CTTGAATCATCACATTGGCACCTCCATCTTAAGTCCTATATCGCTAGCCTTGAATCAGCATATTG
261 CTTGAATCAGCACATTGGCACCTCCATCTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTG
422094 GCTCCCTTATCATC
326 GC-CCCTTATCATC
*
422108 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTTATTAGCTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTTATTAGCTTTAAGTCCAATGT
* * *
422173 AGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATAACTAGCCTTGAATCAGCATAT
65 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
422238 TGTCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
130 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
* * *
422303 AGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACATTTAGCTTTAAGTCCAATGTAGTTGG
195 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGG
422368 CCTTGAATCAGCACATTGGCACCTCCATCTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATT
260 CCTTGAATCAGCACATTGGCACCTCCATCTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATT
*
422433 GGCGCCCTCATCATC
325 GGC-CCCTTATCATC
* *
422448 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTTATTAGCTTTAAGTCCAATGT
422513 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
65 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
422578 TGGCACATTTAGCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTCCATCTTA
130 TGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTA
* * ** *
422643 AGTCCAATATTGCTGTCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAGTCCAATGTCA-
195 AGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT--T-AGCTTTAAGTCCAATGT-AG
422707 CTGGCCTTGAATCAGCACATTG
256 CTGGCCTTGAATCAGCACATTG
422729 ACATCCTTTT
Statistics
Matches: 857, Mismatches: 72, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
322 1 0.00
323 1 0.00
324 156 0.18
325 50 0.06
328 1 0.00
329 36 0.04
330 36 0.04
331 1 0.00
332 1 0.00
336 2 0.00
337 31 0.04
338 2 0.00
339 1 0.00
340 499 0.58
342 1 0.00
343 37 0.04
344 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (338 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATTAGCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT
GGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATCTTAA
GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGC
CTTGAATCAGCACATTGGCACCTCCATCTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTG
GCCCCTTATCATC
Found at i:422692 original size:243 final size:241
Alignment explanation
Indices: 421446--422737 Score: 1333
Period size: 243 Copynumber: 5.4 Consensus size: 241
421436 GGCATTTTCT
* * * * * *
421446 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTCCATC-TTAAGTCCAATATAA
* * * * *
421511 CTGGCCTTGAATCAGCACATT-G-A-C---ACCTTTAAGTCCAATATAGCTGGCCATGAATCAAC
65 CTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
** * * * *
421570 GTATTGGCACCTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
130 ACATTGGCACC-CATC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGC
*
421635 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
193 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
** * * * * * * *
421678 TTTAAAACCAATATAGCTAGCCCTGAATCAACATATTGACACCTCTTC-TTTTAAGTCCAATGTA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTC--CATCTTAAGTCCAATATA
* * * *
421742 GCTGGCTTTGAATCAGCACATTGGCACCTTTA-----AA-CCCAATGTAGCTGGCCTTGAATCAG
64 ACTGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* * * * *
421801 CATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-----
129 CACATTGGCACC--CATC-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTA
* * ** *
421861 -CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTTAGC
191 GCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
* * * * * **
421911 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTCCATCTTAAGTCAAATATAGT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTCCATCTTAAGTCCAATATAAC
* *
421976 TGGCCTTAAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCATCA
66 TGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
* * * * ** *
422041 CATTGGCACCTCCATCTTAAGTCCTATATCGCTAGCCTTGAATCAGCATATTGGCTCCCTTATCA
131 CATTGGCA-C-CCATCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGC-
* * * *
422106 TCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC-CTTATTAGC
193 T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTC-CA-T--C
* *
422159 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATT-G-G-CACC-T-TTAAGTCCAATATAAC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTCCATCTTAAGTCCAATATAAC
* *
422219 TAGCCTTGAATCAGCATATTGTCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
66 TGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
*
422284 CATTGGCACCTCCATCTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACATTTAGCT
131 CATTGGCA-C-CCATCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGCT
* *
422349 TTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTCCATC
194 TTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
* *
422397 -TTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCGCCCTCATCATCTTAAGTCCAATAT
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCG-CCTC--CATCTTAAGTCCAATAT
** *
422461 CGCTGGCCTTGAATCAGCATATTGGCGCCCTCATTAGCTTTAAGTCCAATGTAGCTGGCCTTGAA
63 AACTGGCCTTGAATCAGCATATTGGC-ACCT--TTAGCTTTAAGTCCAATGTAGCTGGCCTTGAA
422526 TCAGCACATTGGCA-CC-T-TTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTT
125 TCAGCACATTGGCACCCATCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTT
* *
422588 AGCTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACCTCCATC
190 AGCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
* * * *
422640 -TTAAGTCCAATATTGCTGTCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAGTCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCC-TC--CATC-TTAAGTCCAATA
* * *
422704 TCACTGGCCTTGAATCAGCACATTGACATCCTTT
62 TAACTGGCCTTGAATCAGCATATTGGCA-CCTTT
422738 TTCTCATCTT
Statistics
Matches: 908, Mismatches: 101, Indels: 92
0.82 0.09 0.08
Matches are distributed among these distances:
227 39 0.04
231 1 0.00
232 144 0.16
233 86 0.09
234 2 0.00
235 1 0.00
237 70 0.08
238 37 0.04
239 2 0.00
240 2 0.00
241 40 0.04
242 6 0.01
243 269 0.30
244 42 0.05
245 81 0.09
246 3 0.00
248 83 0.09
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (241 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCGCCTCCATCTTAAGTCCAATATAAC
TGGCCTTGAATCAGCATATTGGCACCTTTAGCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCA
CATTGGCACCCATCTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTAGCTTT
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTCCATC
Found at i:422889 original size:53 final size:52
Alignment explanation
Indices: 422810--422956 Score: 143
Period size: 53 Copynumber: 2.8 Consensus size: 52
422800 TCTCACCTTT
* * * *
422810 ATCTTTAAGTCCAATATTGCTCGCCTTGAATCCGCATATTGGC-GTCTTCGTC
1 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAGTCTTC-TC
* * * * * *
422862 ATCTTTGAAGTCCAATGTCGTTGGCCTTAAATTAGCACATTGGCATTCTTCTT
1 ATCTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAGTCTTCTC
* * *
422915 ATCTTCAAGTCAAAATGTCGCTGGCCATGAATCAGCATATTG
1 ATCTTTAAGTC-CAATGTCGCTGGCCTTGAATCAGCATATTG
422957 TCATTTTTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
52 11 0.15
53 59 0.79
54 5 0.07
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (52 bp):
ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAGTCTTCTC
Found at i:424434 original size:19 final size:18
Alignment explanation
Indices: 424409--424473 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
424399 ATTTCAACGA
424409 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
424427 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
*
424443 --TGTATCGATATATAAG
1 TTTGTATCGATACATAAG
424459 TTTTGTATCGATACA
1 -TTTGTATCGATACA
424474 ATGTACAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 13
0.68 0.08 0.25
Matches are distributed among these distances:
13 9 0.25
15 2 0.06
17 2 0.06
18 1 0.03
19 22 0.61
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:424452 original size:32 final size:32
Alignment explanation
Indices: 424411--424478 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
424401 TTCAACGATT
424411 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* * *
424443 TGTATCGATATATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
424475 TGTA
1 TGTA
424479 CAGTTATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:429443 original size:21 final size:21
Alignment explanation
Indices: 429406--429450 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
429396 GCAGCACTCA
* *
429406 CCAGGTCGCGACCGGC-ACCC
1 CCAGGTCGCAACAGGCAACCC
429426 CCAGGTCGCAACTAGGCAACCC
1 CCAGGTCGCAAC-AGGCAACCC
429448 CCA
1 CCA
429451 CACTAGCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.22, C:0.47, G:0.24, T:0.07
Consensus pattern (21 bp):
CCAGGTCGCAACAGGCAACCC
Found at i:430699 original size:22 final size:21
Alignment explanation
Indices: 430673--430716 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
430663 CGAAATTGTT
* *
430673 AAATTATTTTACTAATGGGGAG
1 AAATT-TTTGACTAAGGGGGAG
*
430695 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACTAAGGGGGAG
430716 A
1 A
430717 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.34
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGAG
Found at i:431295 original size:20 final size:21
Alignment explanation
Indices: 431272--431323 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
431262 AGATTGCACA
*
431272 GTATCGATACATG-ACCA-AAT
1 GTATCGATACATGTA-AAGAAT
*
431292 GTATCGATACTTGTAAAGAAT
1 GTATCGATACATGTAAAGAAT
431313 GTATCGATACA
1 GTATCGATACA
431324 GGTCATTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (21 bp):
GTATCGATACATGTAAAGAAT
Found at i:433068 original size:154 final size:152
Alignment explanation
Indices: 432871--433503 Score: 530
Period size: 155 Copynumber: 4.1 Consensus size: 152
432861 TAAGTTTAAG
* * * * * * *
432871 AAAAAAATATGAAAATGCTCCTAGGGGATAACTTCA-ACGTAAAAATACCTGATACCTTTAAAGG
1 AAAAAATTACGAAAATGCCCCTAAGGGATACCTT-AGACGTAAAAGTACCTGATACCTCTAAAGG
* *
432935 ACTTAAAAAGGATTTAGAA-GGGATGAACCTATCCTAAATATCTACCTTTGACATAATAGCAGAC
65 ACTTAAAAAGGA-TTAGAATGGGATGAACCTATCCTAAATATCCA-CTTTGACATAAAAGCAGAC
* * *
432999 CGGGTGATATTCTAGGTCTCGATTCT
128 CTGGTGATA-CCTAGGACTCGATTCT
* * *
433025 AAAAAATTATGAAAATACCCCTAAGGGATACCTTAGACATAAAAGTACCTGATACCTCTAAAGGA
1 AAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACGTAAAAGTACCTGATACCTCTAAAGGA
* * * * * * * *
433090 CTTAAAAA--ATGAGAAATGAGATGAACTTATCCTAAATGTCCACTTTCAGGATAAAAGCGGACT
66 CTTAAAAAGGATTAG-AATGGGATGAACCTATCCTAAATATCCACTTTGA-CATAAAAGCAGACC
* * * * *
433153 TGGTGACGACCTAGAAATTGGTTCT
129 TGGTGA-TACCTAGGACTCGATTCT
*** * * * *
433178 AAAAAATTACGAAAATGCTTTTATGGGTATACCTTCGACGTAAAAGTATCTTGATA-ATCCTAAA
1 AAAAAATTACGAAAATGCCCCTAAGGG-ATACCTTAGACGTAAAAGTA-CCTGATACCT-CTAAA
* * *
433242 GGACTTAAAAATGATATAG-ATGGG-TGAACCTATCCTAAATACCCACCTTTTG-CACAAAAGCA
63 GGACTTAAAAAGGAT-TAGAATGGGATGAACCTATCCTAAATATCCA-C-TTTGACATAAAAGCA
* * * *
433304 GACCTAGTGACAACTTAGGACTCGGTTCT
125 GACCTGGTGA-TACCTAGGACTCGATTCT
* * * * *
433333 GAAAAATTACGAAAATGTCTCT-AGAGGATACCTTCGACGTAAAAGTACCT-AGTATCTCTAAAG
1 AAAAAATTACGAAAATGCCCCTAAG-GGATACCTTAGACGTAAAAGTACCTGA-TACCTCTAAAG
* * * *
433396 GACTTAAAAAGGATAATGAATGGGGTGAACCTATCCTAAATATCTACTTTCGACATAAAAGCAAA
64 GACTTAAAAAGGATTA-GAATGGGATGAACCTATCCTAAATATCCACTTT-GACATAAAAGCAGA
* *
433461 CTTGGTGATAGCCTAGGACTCGATTTT
127 CCTGGTGATA-CCTAGGACTCGATTCT
* *
433488 GAAAAATTACAAAAAT
1 AAAAAATTACGAAAAT
433504 AACCTTCGAG
Statistics
Matches: 385, Mismatches: 72, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
151 3 0.01
152 10 0.03
153 95 0.25
154 113 0.29
155 152 0.39
156 5 0.01
157 5 0.01
158 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (152 bp):
AAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACGTAAAAGTACCTGATACCTCTAAAGGA
CTTAAAAAGGATTAGAATGGGATGAACCTATCCTAAATATCCACTTTGACATAAAAGCAGACCTG
GTGATACCTAGGACTCGATTCT
Found at i:434717 original size:20 final size:21
Alignment explanation
Indices: 434694--434732 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
434684 GAAATCATGG
*
434694 AAAACATG-TTGAAAACACCA
1 AAAACAAGCTTGAAAACACCA
434714 AAAACAAGCTTGAAAACAC
1 AAAACAAGCTTGAAAACAC
434733 TAGTTTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.13
Consensus pattern (21 bp):
AAAACAAGCTTGAAAACACCA
Found at i:435626 original size:3 final size:3
Alignment explanation
Indices: 435606--435662 Score: 91
Period size: 3 Copynumber: 19.3 Consensus size: 3
435596 AAAAATAATT
435606 TAA T-A TAA -AA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
435650 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
435663 TAATGGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:435825 original size:167 final size:162
Alignment explanation
Indices: 435641--436171 Score: 546
Period size: 164 Copynumber: 3.2 Consensus size: 162
435631 ATAATAATAA
* * * *
435641 TAATAAT-AAT-AATAATAATAATTAATGGATTTCAAAAATAAAAAATCAAGAAAAATCCCCTCG
1 TAATAATAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAA-CAAGAAAAATCCCCTCG
435704 AAAAAAATTTATGGAGTAGAAAACTCTAC-ATTTCAAAAAAAGGAAAATTTCAAGAAAAAAATTC
65 -AAAAAATTTAT-GAGTAGAAAACTCT-CGATTTCAAAAAAA-GAAAATTTCAA-AAAAAAATTC
* * * * *
435768 AAAATTTATGGAAATGAATGAATTTTTGAAAACTGAA-
125 AAAATTTACGAAAATGAATGAATTTCTAAAAACTAAAT
** *
435805 TAACT-ATGTTATAAATAATAATATTTGATCAATTTTAAAAATTAAAAAACAAGAAAAATCCCCT
1 TAA-TAAT-AAATAAATAATAATATTTGATGAATTTTAAAAA-TAAAAAACAAGAAAAATCCCCT
* * * *
435869 CGAAAAAATTTACAGAGTAAAAAACT-TCGTATTTCAAAAAAAGAGAATTTCAAAGAAAAATTCA
63 CGAAAAAATTTA-TGAGTAGAAAACTCTCG-ATTTCAAAAAAAGAAAATTTCAAAAAAAAATTCA
435933 AAATTTACGAAAATGAATGAATTTCTAAAAACTAAAT
126 AAATTTACGAAAATGAATGAATTTCTAAAAACTAAAT
* *
435970 TAATAATAAATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCCCG
1 TAATAATAAATAAATAATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCCCCTCG
* * * *
436035 AAAAAATTTACTGAGTAGAAAACTC-CGTATTTAAGAAAAAAGAGAATTT-AAAGGAAAAAGTGC
65 AAAAAATTTA-TGAGTAGAAAACTCTCG-ATTTCA-AAAAAAGAAAATTTCAAA--AAAAAATTC
* * * *
436098 AAAAACTGTT--GAAAATGAATTAATTTTTGAAAAA-GAATT
125 -AAAA-T-TTACGAAAATGAATGAATTTCT-AAAAACTAAAT
436137 TAAT-ATGAAATAAATAATAATATTTGATGAATTTT
1 TAATAAT-AAATAAATAATAATATTTGATGAATTTT
436172 GATGTTTGAA
Statistics
Matches: 317, Mismatches: 30, Indels: 37
0.83 0.08 0.10
Matches are distributed among these distances:
163 1 0.00
164 132 0.42
165 31 0.10
166 43 0.14
167 95 0.30
168 13 0.04
169 2 0.01
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (162 bp):
TAATAATAAATAAATAATAATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAATCCCCTCGA
AAAAATTTATGAGTAGAAAACTCTCGATTTCAAAAAAAGAAAATTTCAAAAAAAAATTCAAAATT
TACGAAAATGAATGAATTTCTAAAAACTAAAT
Found at i:437298 original size:24 final size:24
Alignment explanation
Indices: 437271--437320 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
437261 ATTTTTGTCA
437271 TTATTTTTTCTCTCTTTTCATTTT
1 TTATTTTTTCTCTCTTTTCATTTT
*
437295 TTATTTTTTCTCTTTTTTCATTTT
1 TTATTTTTTCTCTCTTTTCATTTT
437319 TT
1 TT
437321 GTTTCCCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATTTTTTCTCTCTTTTCATTTT
Found at i:444856 original size:21 final size:21
Alignment explanation
Indices: 444789--444868 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
444779 AAGGTAGTTT
* *
444789 TGTATCGATACATTT-TAGGAA
1 TGTATCGATACATTTAT-TGTA
* * *
444810 TGTATCGATGCATTCACT-TA
1 TGTATCGATACATTTATTGTA
*
444830 TGTATCGATACATTTATTGTT
1 TGTATCGATACATTTATTGTA
444851 TGTATCGATACAATTTAT
1 TGTATCGATAC-ATTTAT
444869 AGAATTTTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.34
21 25 0.53
22 6 0.13
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (21 bp):
TGTATCGATACATTTATTGTA
Found at i:445388 original size:78 final size:78
Alignment explanation
Indices: 445245--445411 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 78
445235 CATCCCTGTG
*
445245 ATGAAAAATTTAAAATTTTGGAAATAAAAGCAGGTTCGAGTATCCCCTCAAAAATATCGGAGTTA
1 ATGAAAAATTTAAAATTTTGGAAAAAAAAGCAGGTTCGAGTATCCCCTCAAAAATATCGGAGTTA
*
445310 GAGTATTCCCTCA
66 GAGTATCCCCTCA
* * ** * ** * *
445323 ATGAAGAATTTAATATTTTTTAAAAAAAA-CGAGGTTGGAGTATCCCCTCGGAATTGAT-GGGGT
1 ATGAAAAATTTAAAATTTTGGAAAAAAAAGC-AGGTTCGAGTATCCCCTCAAAAAT-ATCGGAGT
*
445386 TAGAGTATCCCCTAA
64 TAGAGTATCCCCTCA
445401 GATGAAAAATT
1 -ATGAAAAATT
445412 CAATGCTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
77 1 0.01
78 61 0.84
79 11 0.15
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (78 bp):
ATGAAAAATTTAAAATTTTGGAAAAAAAAGCAGGTTCGAGTATCCCCTCAAAAATATCGGAGTTA
GAGTATCCCCTCA
Found at i:446349 original size:13 final size:13
Alignment explanation
Indices: 446331--446355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
446321 CAATTCTTCA
446331 TGTATCAATACAT
1 TGTATCAATACAT
446344 TGTATCAATACA
1 TGTATCAATACA
446356 AAGTAATATG
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:447012 original size:23 final size:21
Alignment explanation
Indices: 446986--447053 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
446976 TAGATTATAA
446986 CTCCCCTTTAATTAGAAAAATTT
1 CTCCCCTTTAA-TA-AAAAATTT
*
447009 CTCCCCTTTAATAAAAATTTT
1 CTCCCCTTTAATAAAAAATTT
*
447030 CTTCCCCCTTAATAAAAAATTT
1 C-TCCCCTTTAATAAAAAATTT
447052 CT
1 CT
447054 ATCTCTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 9 0.22
22 21 0.51
23 11 0.27
ACGTcount: A:0.34, C:0.25, G:0.01, T:0.40
Consensus pattern (21 bp):
CTCCCCTTTAATAAAAAATTT
Done.