Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3817888
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 19
Found at i:3011225 original size:21 final size:21
Alignment explanation
Indices: 3011199--3011267 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
3011189 GGACCTATCA
3011199 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3011220 TCCCGAAGGA---C--CTGTCA
1 TCCCGAAGGATGTCATCTGT-G
*
3011237 TCCCGAAGGATGTAATCTGTG
1 TCCCGAAGGATGTCATCTGTG
*
3011258 TCCCGTAGGA
1 TCCCGAAGGA
3011268 CCTATCATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 1 0.03
21 19 0.50
22 4 0.11
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:3011231 original size:38 final size:38
Alignment explanation
Indices: 3011180--3011275 Score: 165
Period size: 38 Copynumber: 2.5 Consensus size: 38
3011170 CTCGTATAAA
*
3011180 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
3011218 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
*
3011256 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
3011276 ATGTCTTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTAATCTG
Found at i:3012488 original size:12 final size:12
Alignment explanation
Indices: 3012471--3012495 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3012461 TGATGACAAG
3012471 TCAAATTTAACT
1 TCAAATTTAACT
3012483 TCAAATTTAACT
1 TCAAATTTAACT
3012495 T
1 T
3012496 ATCAACTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAAATTTAACT
Found at i:3012642 original size:45 final size:45
Alignment explanation
Indices: 3012592--3012681 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
3012582 AGCTTTCCTT
3012592 AAGCTTAGTTATCATCTAATGATCAAAACCTAACCTTTAATTTAA
1 AAGCTTAGTTATCATCTAATGATCAAAACCTAACCTTTAATTTAA
3012637 AAGCTTAGTTATCATCTAATGATCAAAACCTAACCTTTAATTTAA
1 AAGCTTAGTTATCATCTAATGATCAAAACCTAACCTTTAATTTAA
3012682 CAAATAATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (45 bp):
AAGCTTAGTTATCATCTAATGATCAAAACCTAACCTTTAATTTAA
Found at i:3019128 original size:45 final size:43
Alignment explanation
Indices: 3019077--3019175 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
3019067 GCTAAAGTTC
3019077 GCGGCGTTTGTTAACCAAAAACACCGCAATAGGTAAC-GATATATA
1 GCGGCGTTTGTTAA--AAAAACACCGCAATAGGT-ACTGATATATA
* * * *
3019122 GCGGCGTTTGTTTAATAAACGCCGCAATAGGTACTGATATTTA
1 GCGGCGTTTGTTAAAAAAACACCGCAATAGGTACTGATATATA
3019165 GCGGCGTTTGT
1 GCGGCGTTTGT
3019176 CTTAAAAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.04
43 34 0.69
45 13 0.27
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
GCGGCGTTTGTTAAAAAAACACCGCAATAGGTACTGATATATA
Found at i:3019154 original size:43 final size:42
Alignment explanation
Indices: 3019093--3019193 Score: 141
Period size: 43 Copynumber: 2.4 Consensus size: 42
3019083 TTTGTTAACC
*
3019093 AAAAACACCGCAATAGGTAAC-GATATATAGCGGCGTTTGTTT
1 AAAAACGCCGCAATAGGT-ACTGATATATAGCGGCGTTTGTTT
*
3019135 AATAAACGCCGCAATAGGTACTGATATTTAGCGGCGTTTGTCTT
1 AA-AAACGCCGCAATAGGTACTGATATATAGCGGCGTTTGT-TT
*
3019179 AAAAATGCCGCAATA
1 AAAAACGCCGCAATA
3019194 ATTGTCAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 4 0.08
43 45 0.85
44 4 0.08
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTACTGATATATAGCGGCGTTTGTTT
Found at i:3019205 original size:43 final size:43
Alignment explanation
Indices: 3019077--3019303 Score: 124
Period size: 43 Copynumber: 5.2 Consensus size: 43
3019067 GCTAAAGTTC
* * * * *
3019077 GCGGCGTTTGTTAACCAAAAACACCGCAATAGGTAAC-GATATATA
1 GCGGCGTTTGTTTA--ATAAACGCCGCAATAGGT-ACTAATATTTA
*
3019122 GCGGCGTTTGTTTAATAAACGCCGCAATAGGTACTGATATTTA
1 GCGGCGTTTGTTTAATAAACGCCGCAATAGGTACTAATATTTA
* *
3019165 GCGGCGTTTGTCTTAA-AAATGCCGCAATAATTGT-C-AATATTTA
1 GCGGCGTTTGT-TTAATAAACGCCGCAAT-A-GGTACTAATATTTA
* * * * * * * * *
3019208 GTGGTGTTT-TTATCACAAACGCCACAATAAGTGCTGATATTTC
1 GCGGCGTTTGTT-TAATAAACGCCGCAATAGGTACTAATATTTA
* * * **
3019251 GCGGCATTTTTTTTATGAAAACGCCGCAATAGGTA-TGGTATTTA
1 GCGGCGTTTGTTTAAT--AAACGCCGCAATAGGTACTAATATTTA
*
3019295 GTGGCGTTT
1 GCGGCGTTT
3019304 TTAGGATACA
Statistics
Matches: 144, Mismatches: 27, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
41 3 0.02
42 7 0.05
43 83 0.58
44 22 0.15
45 29 0.20
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTTAATAAACGCCGCAATAGGTACTAATATTTA
Found at i:3019327 original size:44 final size:46
Alignment explanation
Indices: 3019269--3019369 Score: 107
Period size: 48 Copynumber: 2.2 Consensus size: 46
3019259 TTTTTTATGA
* * ***
3019269 AAACGCCGCAATAGG-TA-TGGTATTTAGTGGCGTTTTTAGGATAC
1 AAACGCCGCAATAGGAGACTGGTATATAGCAACGTTTTTAGGATAC
**
3019313 AAACGCCGTGATAGGACAGACTGGTATATAGCAACGTTTTTAGGATAC
1 AAACGCCGCAATAGG--AGACTGGTATATAGCAACGTTTTTAGGATAC
3019361 AAACGCCGC
1 AAACGCCGC
3019370 TAAAAGTTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
44 13 0.29
47 1 0.02
48 31 0.69
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (46 bp):
AAACGCCGCAATAGGAGACTGGTATATAGCAACGTTTTTAGGATAC
Found at i:3031593 original size:22 final size:22
Alignment explanation
Indices: 3031567--3031648 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 22
3031557 ATAGGGCAGA
*
3031567 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
*
3031589 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-TTGAAG
* **
3031612 GGGAACCGATTCCCCC--CCAG
1 GGGAACCGATACCCCCTTGAAG
*
3031632 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
3031649 GAGGGTTCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
20 16 0.31
22 14 0.27
23 22 0.42
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:3031609 original size:23 final size:22
Alignment explanation
Indices: 3031567--3031627 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 22
3031557 ATAGGGCAGA
* *
3031567 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATTCCCCCTTGAAG
3031589 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-TTGAAG
3031612 GGGAACCGATTCCCCC
1 GGGAACCGATTCCCCC
3031628 CCAGGGGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:3037289 original size:2 final size:2
Alignment explanation
Indices: 3037282--3037319 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3037272 ATGCACATTC
3037282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3037320 GTTGGTTGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3038186 original size:42 final size:42
Alignment explanation
Indices: 3038140--3038242 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
3038130 TATTGTGGTA
* * *
3038140 TTTTTTGATACAAACGTCGCAAAAGTTAGATCTATGGCGGCG
1 TTTTTTGATACAAACGCCGCAAAAGTTAGATCTATGACGACG
*
3038182 TTTTTTGATACAAACGCCGCAAAAGTTAGGTCTATGACGACG
1 TTTTTTGATACAAACGCCGCAAAAGTTAGATCTATGACGACG
3038224 TTTTTT-ATACAAACGCCGC
1 TTTTTTGATACAAACGCCGC
3038243 TAATTACCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 13 0.23
42 44 0.77
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
TTTTTTGATACAAACGCCGCAAAAGTTAGATCTATGACGACG
Found at i:3040738 original size:21 final size:21
Alignment explanation
Indices: 3040712--3040753 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
3040702 CAGCTTACTG
3040712 TAATCATTTGAACCAATCCTA
1 TAATCATTTGAACCAATCCTA
3040733 TAATCATTTGAACCAATCCTA
1 TAATCATTTGAACCAATCCTA
3040754 ACAAATCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATCATTTGAACCAATCCTA
Found at i:3042492 original size:2 final size:2
Alignment explanation
Indices: 3042485--3042509 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3042475 AGACAATTAA
3042485 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3042510 GTCTATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3048110 original size:22 final size:22
Alignment explanation
Indices: 3048082--3048132 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3048072 TATTTTGAAT
3048082 AAAATTAATGATTTCTATAAAA
1 AAAATTAATGATTTCTATAAAA
* *
3048104 AAAATTAGTGATTTTTATAAAA
1 AAAATTAATGATTTCTATAAAA
3048126 AAAATTA
1 AAAATTA
3048133 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAATTAATGATTTCTATAAAA
Found at i:3048142 original size:22 final size:22
Alignment explanation
Indices: 3048097--3048144 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3048087 TAATGATTTC
* **
3048097 TATAAAAAAAATTAGTGATTTT
1 TATAAAAAAAATTAGTAAAATT
*
3048119 TATAAAAAAAATTATTAAAATT
1 TATAAAAAAAATTAGTAAAATT
3048141 TATA
1 TATA
3048145 TTTGAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATAAAAAAAATTAGTAAAATT
Found at i:3052563 original size:15 final size:15
Alignment explanation
Indices: 3052508--3052565 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
3052498 TTCACTTTTT
*
3052508 TTATTTTATTATT-G
1 TTATTTTATTATTAA
3052522 TTATTTTAATTATTTTAA
1 TTATTTT-ATTA--TTAA
*
3052540 TTAAGTTTATTATTAA
1 TT-ATTTTATTATTAA
3052556 TTATTTTATT
1 TTATTTTATT
3052566 TCATAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 7 0.19
15 11 0.31
16 6 0.17
17 2 0.06
18 6 0.17
19 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTATTTTATTATTAA
Found at i:3058818 original size:38 final size:38
Alignment explanation
Indices: 3058771--3058884 Score: 149
Period size: 38 Copynumber: 3.0 Consensus size: 38
3058761 AGGGATCAAC
3058771 ATCTCGCTTGAGATAGGTTCACTCGAAACAGAAGATTT
1 ATCTCGCTTGAGATAGGTTCACTCGAAACAGAAGATTT
* *
3058809 ATCTTGCTTGAGATAGTTTCACTCG-AACTAGAAGATTT
1 ATCTCGCTTGAGATAGGTTCACTCGAAAC-AGAAGATTT
* * * * *
3058847 ATCTCGCTCGAGATAGGTTCGCTCAAAATAAAAGATTT
1 ATCTCGCTTGAGATAGGTTCACTCGAAACAGAAGATTT
3058885 TAAGAAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
37 3 0.05
38 60 0.92
39 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (38 bp):
ATCTCGCTTGAGATAGGTTCACTCGAAACAGAAGATTT
Found at i:3058976 original size:42 final size:41
Alignment explanation
Indices: 3058918--3059030 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 41
3058908 AGGGTTTCTT
* * *
3058918 GATGAGTAAGTCCTTCGGGCCAT-TAGTAAGTCTTTCGAGCAT
1 GATGA-TAAATCCTTCGGGCCATCTA-TAAGTCTTTCAAGCAA
* *
3058960 GATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAA
1 GATG-ATAAATCCTTCGGGCCATCTATAAGTCTTTCAAGCAA
* * *
3059002 GATGATAAGTCCTTCAGGCCATCCATAAG
1 GATGATAAATCCTTCGGGCCATCTATAAG
3059031 ACCTTCGGGC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
41 20 0.34
42 37 0.63
43 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGCCATCTATAAGTCTTTCAAGCAA
Found at i:3059165 original size:343 final size:343
Alignment explanation
Indices: 3058528--3059178 Score: 1032
Period size: 343 Copynumber: 1.9 Consensus size: 343
3058518 ATGATAACTG
* *
3058528 AAAATGAAAGATTTAAAGAAACTAAGCTTGATGTTCAAGGGTTTCGTGATGAGTAAGTCCTTTGG
1 AAAATAAAAGATTTAAAGAAACTAAGCTTGATGTTCAAGGGTTTCGTGATGAGTAAGTCCTTCGG
* * *
3058593 GCTATTAGTAAGTCTTTCGAGCATTATGCTTAAATCCTTCGGGTAATCTATAAGTCTTTCGAGCA
66 GCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTATAAGTCTTTCAAGCA
* * * * *
3058658 AGATGATATGTCCTTCGGGTCATCCATAAGACCTTCGGATAGGATGTTTTCAACATTTCATTTGC
131 AGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGACAGGACGTTTTCAACATTTCATTTGC
* * * * * *
3058723 TTGATTCACGACATTTTGTATTAGCGATACCTCACTTGAGGGATCAACATCTCGCTTGAGATAGG
196 TTGATTCACAACATTTCGAATCAGCAATACCTCACTTGAGGGATCAACATCCCGCTTGAGATAGG
* * *
3058788 TTCACTCGAAACAGAAGATTTATCTTGCTTGAGATAGTTTCACTCGAACTAGAAGATTTATCTCG
261 TTCACTCAAAACAGAAGATTTATCTCGATTGAGATAGTTTCACTCGAACTAGAAGATTTATCTCG
3058853 CTCGAGATAGGTTCGCTC
326 CTCGAGATAGGTTCGCTC
* * *
3058871 AAAATAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGG
1 AAAATAAAAGATTTAAAGAAACTAAGCTTGATGTTCAAGGGTTTCGTGATGAGTAAGTCCTTCGG
*
3058936 GCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCA
66 GCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTATAAGTCTTTCAAGCA
* *
3059001 AGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGCAGGACGTTTTCAACATTTCCTTTGC
131 AGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGACAGGACGTTTTCAACATTTCATTTGC
* * * *
3059066 TTGATTCACAATATTTCGAATCAGCAATGCCTCACTTGAGGTATCAACATCCCGCTTGAGATAGT
196 TTGATTCACAACATTTCGAATCAGCAATACCTCACTTGAGGGATCAACATCCCGCTTGAGATAGG
*
3059131 TTCACTCAAAACAGAAGATTTATCTCGATTGAGATAGTTTCGCTCGAA
261 TTCACTCAAAACAGAAGATTTATCTCGATTGAGATAGTTTCACTCGAA
3059179 ACAAATGATT
Statistics
Matches: 278, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
343 278 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (343 bp):
AAAATAAAAGATTTAAAGAAACTAAGCTTGATGTTCAAGGGTTTCGTGATGAGTAAGTCCTTCGG
GCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTAATCTATAAGTCTTTCAAGCA
AGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGACAGGACGTTTTCAACATTTCATTTGC
TTGATTCACAACATTTCGAATCAGCAATACCTCACTTGAGGGATCAACATCCCGCTTGAGATAGG
TTCACTCAAAACAGAAGATTTATCTCGATTGAGATAGTTTCACTCGAACTAGAAGATTTATCTCG
CTCGAGATAGGTTCGCTC
Found at i:3059455 original size:304 final size:304
Alignment explanation
Indices: 3058809--3059494 Score: 993
Period size: 305 Copynumber: 2.2 Consensus size: 304
3058799 CAGAAGATTT
* * *
3058809 ATCTTGCTTGAGATAGTTTCACTCG-AACTAGAAGATTTATCTCGCTCGAGATAGGTTCGCTCAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAAC-AGAAGATTTATCTCGCTCGAGATAGTTTCGCTCGA
* * * *
3058873 AATAAAAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGC
65 AA-CAAAGATTTTAAGAAACTAAGCTTAACTTTCAAGGGTTTCTTGATGAGTAAGTCCATCGGGC
* *
3058938 CATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAG
129 CATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTCTCAAGCAAG
*
3059003 ATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGCAGGACGTTTTCAACATTTCCTTTGCTT
194 ATGATAAGTCCTTCAGGCCATCCATAAGACATTCGGGCAGGACGTTTTCAACATTTCCTTTGCTT
* * * * *
3059068 GATTCACAATATTTCGAATCAGCAATGCCTCACTTGAGGTATCAAC
259 CATTCACAACATTTCAAATCAGCAACGCCTCACTTGAGGGATCAAC
* * * *
3059114 ATCCCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTATCTCGATTGAGATAGTTTCGCTCGAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTCGAGATAGTTTCGCTCGAA
*
3059179 ACAAATGATTTTAAGAAACTAAGCTTAACTTTCAAGGGTTTCTTGATGAGTATGTCCATCGGGCC
66 ACAAA-GATTTTAAGAAACTAAGCTTAACTTTCAAGGGTTTCTTGATGAGTAAGTCCATCGGGCC
* *
3059244 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT-GGGTCATCTATAAGTCTCTCGAGTAAGA
130 ATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTCTCAAGCAAGA
* * *
3059308 TGATAAGTCCTTC-GAGCCATCCATAAGACATTCGGGCAGGATGTTTTCAATATTTCCTTTGTTT
195 TGATAAGTCCTTCAG-GCCATCCATAAGACATTCGGGCAGGACGTTTTCAACATTTCCTTTGCTT
** *
3059372 CATTCACTGCATTTCAAATCAGCGACGCCTCACTTGAGGGATCAAC
259 CATTCACAACATTTCAAATCAGCAACGCCTCACTTGAGGGATCAAC
* * **
3059418 ATCTCGCTTGATATAATTTCACTCGAAAC-GAAAGATTTTATCTCGCTCGAGATAGTTTTACTCG
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAG-AAGA-TTTATCTCGCTCGAGATAGTTTCGCTCG
3059482 AAACAGAAGATTT
64 AAACA-AAGATTT
3059495 AACTCACTTG
Statistics
Matches: 339, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
303 2 0.01
304 153 0.45
305 179 0.53
306 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (304 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTATCTCGCTCGAGATAGTTTCGCTCGAA
ACAAAGATTTTAAGAAACTAAGCTTAACTTTCAAGGGTTTCTTGATGAGTAAGTCCATCGGGCCA
TCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTCTCAAGCAAGAT
GATAAGTCCTTCAGGCCATCCATAAGACATTCGGGCAGGACGTTTTCAACATTTCCTTTGCTTCA
TTCACAACATTTCAAATCAGCAACGCCTCACTTGAGGGATCAAC
Found at i:3059461 original size:39 final size:38
Alignment explanation
Indices: 3059418--3059508 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 38
3059408 AGGGATCAAC
3059418 ATCTCGCTTGATATAATTTCACTCGAAAC-GAAAGATTTT
1 ATCTCGCTTGATATAATTTCACTCGAAACAG-AAGA-TTT
* * * *
3059457 ATCTCGCTCGAGATAGTTTTACTCGAAACAGAAGATTT
1 ATCTCGCTTGATATAATTTCACTCGAAACAGAAGATTT
* *
3059495 AACTCACTTGATAT
1 ATCTCGCTTGATAT
3059509 TGTTTGCTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
38 13 0.30
39 29 0.67
40 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (38 bp):
ATCTCGCTTGATATAATTTCACTCGAAACAGAAGATTT
Found at i:3059670 original size:59 final size:59
Alignment explanation
Indices: 3059524--3059670 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 59
3059514 GCTTAAAACG
* * **
3059524 AACAATGCCTCACTTGAGGGATCAACATTTCCTTTGCTTGATTCACAACATTTCGAATC
1 AACAATGCCTCACATGAGGGATCAACATTTCCTGTGCTTGATTCACAACACATCGAATC
* * **
3059583 AGCAATGCCCCACCA-GA-GGAGTTGACATTTCCTGTG-TTCGATTCACAACACATCGAATC
1 AACAATGCCTCA-CATGAGGGA-TCAACATTTCCTGTGCTT-GATTCACAACACATCGAATC
* *
3059642 AACCATGCCTCACATGAGGGACCAACATT
1 AACAATGCCTCACATGAGGGATCAACATT
3059671 CCAGTACAGA
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
58 7 0.10
59 58 0.84
60 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (59 bp):
AACAATGCCTCACATGAGGGATCAACATTTCCTGTGCTTGATTCACAACACATCGAATC
Found at i:3061518 original size:15 final size:15
Alignment explanation
Indices: 3061463--3061520 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
3061453 TCACAGTTTT
*
3061463 TTATTTTATTATT-G
1 TTATTTTATTATTAA
3061477 TTATTTTAATTATTTTAA
1 TTATTTT-ATTA--TTAA
*
3061495 TTAAGTTTATTATTAA
1 TT-ATTTTATTATTAA
3061511 TTATTTTATT
1 TTATTTTATT
3061521 TCACAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 7 0.19
15 11 0.31
16 6 0.17
17 2 0.06
18 6 0.17
19 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTATTTTATTATTAA
Found at i:3064782 original size:12 final size:11
Alignment explanation
Indices: 3064755--3064797 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
3064745 TTACACAAAT
*
3064755 AATAATAATAA
1 AATAAAAATAA
*
3064766 TAATAATAAATGA
1 -AATAA-AAATAA
3064779 AATAAAAATAA
1 AATAAAAATAA
3064790 AATAAAAA
1 AATAAAAA
3064798 ATATGGTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 13 0.48
12 10 0.37
13 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:3067103 original size:16 final size:16
Alignment explanation
Indices: 3067082--3067119 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3067072 GAATACCTTC
*
3067082 TTTATATATATATATA
1 TTTATATATATAAATA
3067098 TTTATATATATAAATA
1 TTTATATATATAAATA
3067114 -TTATAT
1 TTTATAT
3067120 GATCTTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATATATATAAATA
Found at i:3069516 original size:42 final size:41
Alignment explanation
Indices: 3069427--3069525 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
3069417 CAATCCAATT
* *
3069427 TTTTTACTTTTATAATTAAGGCACTAATTTTTTAATCATAC
1 TTTTTACTTTTATAATCAAAGCACTAATTTTTTAATCATAC
* *
3069468 CTTTTACTTTTATAATCAATATC-CTAATTTTTTCAATC-TCAC
1 TTTTTACTTTTATAATCAA-AGCACTAATTTTTT-AATCAT-AC
* *
3069510 TTTTTACCTTTGTAAT
1 TTTTTACTTTTATAAT
3069526 TGAGGTCCCT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 28 0.58
42 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.03, T:0.53
Consensus pattern (41 bp):
TTTTTACTTTTATAATCAAAGCACTAATTTTTTAATCATAC
Found at i:3069675 original size:44 final size:42
Alignment explanation
Indices: 3069413--3069760 Score: 140
Period size: 42 Copynumber: 8.0 Consensus size: 42
3069403 GTTGTTAAAA
* * * *
3069413 TTTTCAATCCAATTTTTTTACTTTTATAATTAAGGCACTAA-TT
1 TTTTCAATCTAA--TTTTTACCTTTATAATTAAGCCCCTAATTT
** * * ***
3069456 TTTT-AATCATACCTTTTACTTTTATAATCAATATCCTAA-TT
1 TTTTCAATC-TAATTTTTACCTTTATAATTAAGCCCCTAATTT
* * * *
3069497 TTTTCAATCTCACTTTTTACCTTTGTAATTGAGGTCCCTAATTTTT
1 TTTTCAATCT-AATTTTTACCTTTATAATT-AAGCCCCTAA--TTT
* * * *
3069543 TTTTCAATC-ACACTATATAACTTTATAATTAAAGCCTCTAATTTT
1 TTTTCAATCTA-A-TTTTTACCTTTATAATT-AAGCCCCTAA-TTT
* * * * * * *
3069588 TTTTAAATCCCACTTTCTACCTTTTATGATTGAGGCCTCT--TTT
1 TTTTCAAT-CTAATTTTTACC-TTTATAATT-AAGCCCCTAATTT
3069631 TTTT-AATCTAA-TTTTATCCTTTATAATTAAAGCCCCTAATTT
1 TTTTCAATCTAATTTTTA-CCTTTATAATT-AAGCCCCTAATTT
* *
3069673 TTTTCAATCTCACTTTTTACCTTTAT--TTGAGACCCCTAATTT
1 TTTTCAATCT-AATTTTTACCTTTATAATTAAG-CCCCTAATTT
* * * * * *
3069715 TTTTGAATCTCACTTTCTGCCTTTATAATTGATGCTCCTAATTT
1 TTTTCAATCT-AATTTTTACCTTTATAATT-AAGCCCCTAATTT
3069759 TT
1 TT
3069761 AACATTCCAT
Statistics
Matches: 235, Mismatches: 48, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
40 18 0.08
41 34 0.14
42 68 0.29
43 23 0.10
44 22 0.09
45 22 0.09
46 47 0.20
47 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (42 bp):
TTTTCAATCTAATTTTTACCTTTATAATTAAGCCCCTAATTT
Found at i:3069717 original size:86 final size:85
Alignment explanation
Indices: 3069490--3069760 Score: 255
Period size: 86 Copynumber: 3.1 Consensus size: 85
3069480 TAATCAATAT
*
3069490 CCTAA-TTTTTTCAATCTCACTTTTTACCTTTGTAATTGAGGTCCCTAATTTTTTTTTCAATC-A
1 CCTAATTTTTTTCAATCTCACTTTTTACCTTT-TATTTGA-G-CCCTAA-TTTTTTTT-AATCTA
* *
3069553 CACTATATAACTTTATAATTAAAGCC
61 -ACTTTATACCTTTATAATTAAAGCC
* * * * * * *
3069579 TCTAATTTTTTTTAAATCCCACTTTCTACCTTTTATGATTGAGGCCT-CTTTTTTTTAATCTAAT
1 CCTAA-TTTTTTTCAATCTCACTTTTTACCTTTTAT--TTGAGCCCTAATTTTTTTTAATCTAAC
3069643 TTTAT-CCTTTATAATTAAAGCC
63 TTTATACCTTTATAATTAAAGCC
* *
3069665 CCTAATTTTTTTCAATCTCACTTTTTACC-TTTATTTGAGACCCCTAATTTTTTTGAATCTCACT
1 CCTAATTTTTTTCAATCTCACTTTTTACCTTTTATTTGAG--CCCTAATTTTTTTTAATCTAACT
* * * * *
3069729 TTCTGCCTTTATAATTGATGCT
64 TTATACCTTTATAATTAAAGCC
3069751 CCTAATTTTT
1 CCTAATTTTT
3069761 AACATTCCAT
Statistics
Matches: 150, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
82 5 0.03
84 8 0.05
85 38 0.25
86 44 0.29
87 9 0.06
88 9 0.06
89 4 0.03
90 5 0.03
91 24 0.16
92 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.06, T:0.49
Consensus pattern (85 bp):
CCTAATTTTTTTCAATCTCACTTTTTACCTTTTATTTGAGCCCTAATTTTTTTTAATCTAACTTT
ATACCTTTATAATTAAAGCC
Found at i:3071382 original size:11 final size:11
Alignment explanation
Indices: 3071347--3071374 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3071337 ATTGCTTATT
3071347 CCAACCATATA
1 CCAACCATATA
3071358 CCAACCATATA
1 CCAACCATATA
3071369 CCAACC
1 CCAACC
3071375 TCATACCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (11 bp):
CCAACCATATA
Found at i:3072247 original size:19 final size:19
Alignment explanation
Indices: 3072223--3072267 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
3072213 CCAAATTCTT
3072223 GAGAACACTCTCTCCCAAA
1 GAGAACACTCTCTCCCAAA
3072242 GAGAACACTCTCTCCCAAA
1 GAGAACACTCTCTCCCAAA
3072261 GAGAACA
1 GAGAACA
3072268 ATATAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.13, T:0.13
Consensus pattern (19 bp):
GAGAACACTCTCTCCCAAA
Found at i:3072824 original size:74 final size:74
Alignment explanation
Indices: 3072665--3072854 Score: 265
Period size: 74 Copynumber: 2.6 Consensus size: 74
3072655 GACCGTTAAA
* *
3072665 TGAC-CAGGGGTATCGGTACCTCTAAGGGGGGATCGGTACCCATTGGGCATTCTATTTTTCTCGG
1 TGACACAGGGGTATCGGTACCTCTATGGGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCGG
3072729 AGCCAAAAT
66 AGCCAAAAT
* * * *
3072738 TTACACAAGGGTATCGGTACCTCTATGGGGGTATCGGTACCCATTGGGCATTTTGTTTTTCTCGG
1 TGACACAGGGGTATCGGTACCTCTATGGGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCGG
3072803 AGCCAAAAT
66 AGCCAAAAT
* * * *
3072812 TGGCATAGGGGTATCGATACACCCTATGAGGGGTATCGGTACC
1 TGACACAGGGGTATCGGTAC-CTCTATG-GGGGTATCGGTACC
3072855 TCCCTATTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
73 3 0.03
74 79 0.77
75 6 0.06
76 14 0.14
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (74 bp):
TGACACAGGGGTATCGGTACCTCTATGGGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCGG
AGCCAAAAT
Found at i:3074999 original size:13 final size:13
Alignment explanation
Indices: 3074981--3075015 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
3074971 AATGGGCAAT
3074981 TTTGAAAACT-ATG
1 TTTGAAAA-TAATG
3074994 TTTGAAAATAATG
1 TTTGAAAATAATG
3075007 TTTGAAAAT
1 TTTGAAAAT
3075016 CAATATGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (13 bp):
TTTGAAAATAATG
Found at i:3075549 original size:21 final size:22
Alignment explanation
Indices: 3075498--3075551 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
3075488 GTACCCTTAT
*
3075498 AGGGATATCGATACACATTCAA
1 AGGGGTATCGATACACATTCAA
* *
3075520 AGAGGGTATCGATACACGTT-GA
1 AG-GGGTATCGATACACATTCAA
3075542 AGGGGTATCG
1 AGGGGTATCG
3075552 GTACCTAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 5 0.18
23 15 0.54
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (22 bp):
AGGGGTATCGATACACATTCAA
Found at i:3079881 original size:21 final size:21
Alignment explanation
Indices: 3079857--3079899 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
3079847 AACTCTTAAG
3079857 TTCTTCTTCTTC-TCCGTCTTT
1 TTCTTCTTC-TCGTCCGTCTTT
*
3079878 TTCTTTTTCTCGTCCGTCTTT
1 TTCTTCTTCTCGTCCGTCTTT
3079899 T
1 T
3079900 CGAGGTCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.00, C:0.30, G:0.07, T:0.63
Consensus pattern (21 bp):
TTCTTCTTCTCGTCCGTCTTT
Found at i:3088928 original size:21 final size:21
Alignment explanation
Indices: 3088879--3088922 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
3088869 TATGTTTTCA
3088879 CTACCTTTCTCTTCCAATGGT
1 CTACCTTTCTCTTCCAATGGT
3088900 CTACCTTTCTCTTCCAATGGT
1 CTACCTTTCTCTTCCAATGGT
3088921 CT
1 CT
3088923 CTCTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.09, T:0.43
Consensus pattern (21 bp):
CTACCTTTCTCTTCCAATGGT
Found at i:3091320 original size:22 final size:22
Alignment explanation
Indices: 3091295--3091352 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
3091285 GGGAGCGTAA
3091295 GTGCATCGGTACACACTTAAGG
1 GTGCATCGGTACACACTTAAGG
3091317 GTGCATCGGTACACACTTAAGG
1 GTGCATCGGTACACACTTAAGG
3091339 GTGCATCGGTACAC
1 GTGCATCGGTACAC
3091353 TATATGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (22 bp):
GTGCATCGGTACACACTTAAGG
Found at i:3091486 original size:65 final size:65
Alignment explanation
Indices: 3091412--3091565 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 65
3091402 TACACTTGGG
* * *
3091412 GTGCATCGGTACACT-AATTACATTCAACGTTTCAA-AAGAGTCAGGAGTGTATCGATGCATGGT
1 GTGCATCGGTACACTAAAATACATTCAACGTTTCAATAA-AATCAGGAGTGCATCGATGCATGGT
3091475 CT
65 -T
* * *
3091477 GTGCATCGGTACA-TAAAATGCATTCGATGTTTCAATAAAATCAGGAGTGCATCGATGCATGGTT
1 GTGCATCGGTACACTAAAATACATTCAACGTTTCAATAAAATCAGGAGTGCATCGATGCATGGTT
*
3091541 GTGCATCGGTACAC-AAAATGCATTC
1 GTGCATCGGTACACTAAAATACATTC
3091566 GAATTAGGGT
Statistics
Matches: 80, Mismatches: 6, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
64 26 0.32
65 52 0.65
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (65 bp):
GTGCATCGGTACACTAAAATACATTCAACGTTTCAATAAAATCAGGAGTGCATCGATGCATGGTT
Found at i:3092037 original size:16 final size:17
Alignment explanation
Indices: 3092006--3092040 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3091996 AAAAAAATAA
*
3092006 AATATATTTTTATATAT
1 AATATATTTATATATAT
3092023 AATATA-TTATATATAT
1 AATATATTTATATATAT
3092039 AA
1 AA
3092041 ATGGGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATATTTATATATAT
Found at i:3103499 original size:24 final size:24
Alignment explanation
Indices: 3103441--3103513 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
3103431 GCTCAATAGA
*
3103441 TTTTTTTTT-AAAATTTTTAAAAT
1 TTTTTTTTTCAAAATATTTAAAAT
** * * *
3103464 TTAATGTCTCAAAATATTTAAATT
1 TTTTTTTTTCAAAATATTTAAAAT
*
3103488 TTTTTTTTTCAAAATGTATTAAAAT
1 TTTTTTTTTCAAAATAT-TTAAAAT
3103513 T
1 T
3103514 AAAATTTTAT
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
23 5 0.14
24 24 0.67
25 7 0.19
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTTTTTTCAAAATATTTAAAAT
Found at i:3104750 original size:87 final size:86
Alignment explanation
Indices: 3104606--3104768 Score: 202
Period size: 87 Copynumber: 1.9 Consensus size: 86
3104596 GGTGTGGGAA
* * * * *
3104606 TGCTTGGAGTTCCTGGATCGATTATTGGTGTTGGTGGACTACCACCACCGTAAGTTGGCGGACTT
1 TGCTTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGACTACAACCACCGT-AGTTGGCGGACTG
3104671 CCACCTCCATATGATGGAGGTG
65 CCACCTCCATATGATGGAGGTG
* ** * *
3104693 TGCTTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAATTACTGGT-GTTGGTGGACT
1 TGCTTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGAC-TACAACCAC-CGTAGTTGGCGGACT
3104757 GCCACCTCCATA
64 GCCACCTCCATA
3104769 AGTTGGCGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 56 0.88
88 6 0.09
89 2 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (86 bp):
TGCTTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGACTACAACCACCGTAGTTGGCGGACTGC
CACCTCCATATGATGGAGGTG
Found at i:3104773 original size:24 final size:24
Alignment explanation
Indices: 3104746--3104792 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3104736 AATTACTGGT
*
3104746 GTTGGTGGACTGCCACCTCCATAA
1 GTTGGCGGACTGCCACCTCCATAA
*
3104770 GTTGGCGGACTTCCACCTCCATA
1 GTTGGCGGACTGCCACCTCCATA
3104793 TGATGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (24 bp):
GTTGGCGGACTGCCACCTCCATAA
Found at i:3104884 original size:24 final size:24
Alignment explanation
Indices: 3104857--3104903 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3104847 AGTTACTGGT
*
3104857 GTTGGTGGACTGCCACCTCCATAA
1 GTTGGCGGACTGCCACCTCCATAA
*
3104881 GTTGGCGGACTTCCACCTCCATA
1 GTTGGCGGACTGCCACCTCCATA
3104904 TGATGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (24 bp):
GTTGGCGGACTGCCACCTCCATAA
Found at i:3104995 original size:24 final size:24
Alignment explanation
Indices: 3104968--3105014 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3104958 AGTTACTGGT
*
3104968 GTTGGTGGACTGCCACCTCCATAA
1 GTTGGCGGACTGCCACCTCCATAA
*
3104992 GTTGGCGGACTTCCACCTCCATA
1 GTTGGCGGACTGCCACCTCCATA
3105015 TGATGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (24 bp):
GTTGGCGGACTGCCACCTCCATAA
Found at i:3105113 original size:111 final size:111
Alignment explanation
Indices: 3104631--3105101 Score: 888
Period size: 111 Copynumber: 4.2 Consensus size: 111
3104621 GATCGATTAT
* * *
3104631 TGGTGTTGGTGGACTACCACCACCGTAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
1 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
*
3104696 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAATTAC
66 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
3104742 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
1 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
3104807 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
66 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
3104853 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
1 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
*
3104918 TTGGAGTTCCTGGATCGATAATGGGAGTCGGTGGGCTTACAGTTAC
66 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
3104964 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
1 TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
*
3105029 TTGGAGTTCCTGGATCGATAATGGGAGTTGGCGGGCTTACAGTTAC
66 TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
3105075 TGGTGTTGGTGGACTGCCACCTCCATA
1 TGGTGTTGGTGGACTGCCACCTCCATA
3105102 TGATGGGGGA
Statistics
Matches: 353, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 353 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (111 bp):
TGGTGTTGGTGGACTGCCACCTCCATAAGTTGGCGGACTTCCACCTCCATATGATGGAGGTGTGC
TTGGAGTTCCTGGATCGATAATGGGAGTTGGTGGGCTTACAGTTAC
Found at i:3108068 original size:29 final size:29
Alignment explanation
Indices: 3108035--3108129 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
3108025 AAAGAGTCAT
3108035 AGTTTAGGGATGAAATTGAAATGTTTAAA
1 AGTTTAGGGATGAAATTGAAATGTTTAAA
* ** * *
3108064 AGTTTAGGGACT-AATTTAGAAATAGAGTCAT
1 AGTTTAGGGA-TGAAATT-GAAAT-GTTTAAA
* * *
3108095 AGTTTAGGGATGAAATTGGAATATTCAAA
1 AGTTTAGGGATGAAATTGAAATGTTTAAA
3108124 AGTTTA
1 AGTTTA
3108130 AGGACCAATT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
29 21 0.43
30 11 0.22
31 17 0.35
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (29 bp):
AGTTTAGGGATGAAATTGAAATGTTTAAA
Found at i:3108102 original size:31 final size:31
Alignment explanation
Indices: 3108004--3108104 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
3107994 ATGTTCAAAA
* * *
3108004 AGTTTGGGGACCAATTTAGAAAAAGAGTCAT
1 AGTTTAGGGACTAATTTAGAAATAGAGTCAT
* ** * *
3108035 AGTTTAGGGA-TGAAATT-GAAAT-GTTTAAA
1 AGTTTAGGGACT-AATTTAGAAATAGAGTCAT
3108064 AGTTTAGGGACTAATTTAGAAATAGAGTCAT
1 AGTTTAGGGACTAATTTAGAAATAGAGTCAT
3108095 AGTTTAGGGA
1 AGTTTAGGGA
3108105 TGAAATTGGA
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
29 17 0.32
30 10 0.19
31 26 0.49
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.31
Consensus pattern (31 bp):
AGTTTAGGGACTAATTTAGAAATAGAGTCAT
Found at i:3108160 original size:60 final size:60
Alignment explanation
Indices: 3107980--3108145 Score: 237
Period size: 60 Copynumber: 2.8 Consensus size: 60
3107970 GATGGATTTG
* *
3107980 GGGATGAAATT-GAGATGTTCAAAAAGTTTGGGGACCAATTTAGAAAAAGAGTCATAGTTTA
1 GGGATGAAATTGGA-ATGTTC-AAAAGTTTAGGGACCAATTTAGAAATAGAGTCATAGTTTA
* * *
3108041 GGGATGAAATTGAAATGTTTAAAAGTTTAGGGACTAATTTAGAAATAGAGTCATAGTTTA
1 GGGATGAAATTGGAATGTTCAAAAGTTTAGGGACCAATTTAGAAATAGAGTCATAGTTTA
* *
3108101 GGGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTTA-AAAT
1 GGGATGAAATTGGAATGTTCAAAAGTTTAGGGACCAATTTAGAAAT
3108146 GAGGATTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 4 0.04
60 73 0.78
61 16 0.17
62 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.30
Consensus pattern (60 bp):
GGGATGAAATTGGAATGTTCAAAAGTTTAGGGACCAATTTAGAAATAGAGTCATAGTTTA
Found at i:3117613 original size:90 final size:90
Alignment explanation
Indices: 3117514--3117693 Score: 272
Period size: 90 Copynumber: 2.0 Consensus size: 90
3117504 TAAAATGGAT
*
3117514 TTGTTATAAATAAAATATT-ATTTTTTGAACAAGAACAATTAATTATGTAAATTATTTTACCGAC
1 TTGTTATAAATAAAATATTAATTTTTT-AACAAGAACAATTAATGATGTAAATTATTTTACCGAC
* *
3117578 TAATGTCATTATAAAATTAATATTAA
65 TAATATCATCATAAAATTAATATTAA
* * * *
3117604 TTGTTATAAATAAAGTATTAATTTTTTAACGAGAACAATTAATGATGTAAATTGTTTTACTGACT
1 TTGTTATAAATAAAATATTAATTTTTTAACAAGAACAATTAATGATGTAAATTATTTTACCGACT
*
3117669 ATTATCATCATAAAATTAATATTAA
66 AATATCATCATAAAATTAATATTAA
3117694 ATTGAAAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 74 0.91
91 7 0.09
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (90 bp):
TTGTTATAAATAAAATATTAATTTTTTAACAAGAACAATTAATGATGTAAATTATTTTACCGACT
AATATCATCATAAAATTAATATTAA
Found at i:3119263 original size:16 final size:16
Alignment explanation
Indices: 3119242--3119281 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
3119232 TTTATTTAAT
3119242 ACATAAACGAACACGA
1 ACATAAACGAACACGA
3119258 ACATAAACGAACACGA
1 ACATAAACGAACACGA
3119274 ACATAAAC
1 ACATAAAC
3119282 ATTGGAGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.57, C:0.25, G:0.10, T:0.07
Consensus pattern (16 bp):
ACATAAACGAACACGA
Found at i:3120397 original size:14 final size:14
Alignment explanation
Indices: 3120380--3120410 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3120370 AATAAACATA
*
3120380 AACGAACATAATCG
1 AACGAACATAAACG
3120394 AACGAACATAAACG
1 AACGAACATAAACG
3120408 AAC
1 AAC
3120411 ATTCACGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.23, G:0.13, T:0.10
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:3120419 original size:24 final size:25
Alignment explanation
Indices: 3120374--3120434 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
3120364 TAAATGAATA
3120374 AACATAAACGAACATAATCGAACG-
1 AACATAAACGAACATAATCGAACGT
*
3120398 AACATAAACGAACATTCA-CGAACGT
1 AACATAAACGAACA-TAATCGAACGT
*
3120423 AA-ATGAACGAAC
1 AACATAAACGAAC
3120435 GAAACCTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.52, C:0.21, G:0.13, T:0.13
Consensus pattern (25 bp):
AACATAAACGAACATAATCGAACGT
Found at i:3120471 original size:43 final size:41
Alignment explanation
Indices: 3120422--3120512 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 41
3120412 TTCACGAACG
*
3120422 TAAATGAACGAACGAAACCTATGTTCATGTTCATTCATTTAA
1 TAAATGAACGAACAAAACCT-TGTTCATGTTCATTCATTTAA
* * * *
3120464 TTAAATGAA--TACAAAATCTTGTTCATGTTCGTTCTTTTAA
1 -TAAATGAACGAACAAAACCTTGTTCATGTTCATTCATTTAA
3120504 TAAAT-AACG
1 TAAATGAACG
3120513 CACGTAATCG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
38 2 0.05
39 5 0.12
40 19 0.46
41 7 0.17
43 8 0.20
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (41 bp):
TAAATGAACGAACAAAACCTTGTTCATGTTCATTCATTTAA
Found at i:3126641 original size:23 final size:23
Alignment explanation
Indices: 3126615--3126669 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
3126605 AGGGTCATAA
3126615 TCCATATTCTTTTCAATCCATCT
1 TCCATATTCTTTTCAATCCATCT
3126638 TCCATATTCTTTTCAATCCATCT
1 TCCATATTCTTTTCAATCCATCT
3126661 TCCATATTC
1 TCCATATTC
3126670 CACGCCATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (23 bp):
TCCATATTCTTTTCAATCCATCT
Found at i:3127233 original size:19 final size:19
Alignment explanation
Indices: 3127197--3127236 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
3127187 TCTTAGAGTG
*
3127197 TTTGGTGAGGTTTCTTTTT
1 TTTGGTGAGGTTTATTTTT
3127216 TTTGTGTGAGG-TTATTTTT
1 TTTG-GTGAGGTTTATTTTT
3127235 TT
1 TT
3127237 ATTACTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.07, C:0.03, G:0.25, T:0.65
Consensus pattern (19 bp):
TTTGGTGAGGTTTATTTTT
Found at i:3136699 original size:31 final size:31
Alignment explanation
Indices: 3136664--3136859 Score: 272
Period size: 31 Copynumber: 6.2 Consensus size: 31
3136654 TATCCACATA
3136664 TCCCAAAGAACATAGGTAAATTGTCCATATG
1 TCCCAAAGAACATAGGTAAATTGTCCATATG
*
3136695 TCCCAAAGAACATAGGTAAACTGTCCATATG
1 TCCCAAAGAACATAGGTAAATTGTCCATATG
*
3136726 TCCCGAAGAACATAGGTAAATTGTCCATATG
1 TCCCAAAGAACATAGGTAAATTGTCCATATG
* *
3136757 TCCCGAAGAACATAGGTAATTCTGTCCATATG
1 TCCCAAAGAACATAGGTAAAT-TGTCCATATG
*
3136789 TCCCAAA-AGACATAGGTAATAATGTCCATATG
1 TCCCAAAGA-ACATAGGTAA-ATTGTCCATATG
3136821 TCCCAAA-AGACATAGGT-AATGCTGTCCATATG
1 TCCCAAAGA-ACATAGGTAAAT--TGTCCATATG
3136853 TCCCAAA
1 TCCCAAA
3136860 AGCCATAAGT
Statistics
Matches: 152, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
30 1 0.01
31 81 0.53
32 70 0.46
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
TCCCAAAGAACATAGGTAAATTGTCCATATG
Found at i:3136861 original size:32 final size:31
Alignment explanation
Indices: 3136664--3136859 Score: 265
Period size: 32 Copynumber: 6.2 Consensus size: 31
3136654 TATCCACATA
3136664 TCCCAAAGAACATAGGTAAAT-TGTCCATATG
1 TCCCAAAGAACATAGGT-AATCTGTCCATATG
*
3136695 TCCCAAAGAACATAGGTAAACTGTCCATATG
1 TCCCAAAGAACATAGGTAATCTGTCCATATG
*
3136726 TCCCGAAGAACATAGGTAAAT-TGTCCATATG
1 TCCCAAAGAACATAGGT-AATCTGTCCATATG
*
3136757 TCCCGAAGAACATAGGTAATTCTGTCCATATG
1 TCCCAAAGAACATAGGTAA-TCTGTCCATATG
*
3136789 TCCCAAA-AGACATAGGTAATAATGTCCATATG
1 TCCCAAAGA-ACATAGGTAAT-CTGTCCATATG
3136821 TCCCAAA-AGACATAGGTAATGCTGTCCATATG
1 TCCCAAAGA-ACATAGGTAAT-CTGTCCATATG
3136853 TCCCAAA
1 TCCCAAA
3136860 AGCCATAAGT
Statistics
Matches: 152, Mismatches: 7, Indels: 11
0.89 0.04 0.06
Matches are distributed among these distances:
30 4 0.03
31 73 0.48
32 75 0.49
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
TCCCAAAGAACATAGGTAATCTGTCCATATG
Found at i:3137512 original size:45 final size:45
Alignment explanation
Indices: 3137415--3137520 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
3137405 ATAACTCCTC
3137415 ATCACATAACTTATATCACAGTTTCATATATGCACATAGTTCAGT
1 ATCACATAACTTATATCACAGTTTCATATATGCACATAGTTCAGT
* * * * *
3137460 TTTACATATCTTATATCACA-TGTTCATATAAT-CCCTTATGTTCA-T
1 ATCACATAACTTATATCACAGT-TTCATAT-ATGCACATA-GTTCAGT
3137505 ATCACATAACTTATAT
1 ATCACATAACTTATAT
3137521 AATACTCTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 42 0.84
46 7 0.14
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.41
Consensus pattern (45 bp):
ATCACATAACTTATATCACAGTTTCATATATGCACATAGTTCAGT
Found at i:3140702 original size:14 final size:14
Alignment explanation
Indices: 3140679--3140708 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3140669 AATATGACCC
*
3140679 TAAATTATATAAAA
1 TAAATAATATAAAA
3140693 TAAATAATATAAAA
1 TAAATAATATAAAA
3140707 TA
1 TA
3140709 TTAAGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAATATAAAA
Found at i:3141389 original size:2 final size:2
Alignment explanation
Indices: 3141382--3141433 Score: 86
Period size: 2 Copynumber: 25.5 Consensus size: 2
3141372 CGTGTCTAGG
*
3141382 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3141424 TA TA TGA TA T
1 TA TA T-A TA T
3141434 TTGGATATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 45 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3147714 original size:44 final size:45
Alignment explanation
Indices: 3147664--3147750 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
3147654 TTATAGGGTG
* * * *
3147664 TTATTTTGTTGAGTGTCT-GATTATTAAAAGTTATAAAATGATCC
1 TTATTTTGTTGAGTATCTCGACTATTAAAAATTACAAAATGATCC
3147708 TTATTTTGTTGAGTATCTCGACTATTAAAAATTACAAAATGAT
1 TTATTTTGTTGAGTATCTCGACTATTAAAAATTACAAAATGAT
3147751 AATTTGACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 17 0.45
45 21 0.55
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (45 bp):
TTATTTTGTTGAGTATCTCGACTATTAAAAATTACAAAATGATCC
Found at i:3149531 original size:23 final size:24
Alignment explanation
Indices: 3149468--3149531 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
3149458 CAACCTTATA
* *
3149468 TGGCATTTCGGTGCATTTCTACGC
1 TGGCACTTCGGTGCAATTCTACGC
* *
3149492 T-GCACTACGGTGTAATTCTACG-
1 TGGCACTTCGGTGCAATTCTACGC
*
3149514 TGGCACTTCGATGCAATT
1 TGGCACTTCGGTGCAATT
3149532 TATATGAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 1 0.03
23 30 0.94
24 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTCTACGC
Found at i:3155912 original size:3 final size:3
Alignment explanation
Indices: 3155906--3155943 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
3155896 CTCCTACTCC
*
3155906 TCT TCT TCT TCT TCT TCT ACT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
3155944 CATTAACCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:3161928 original size:24 final size:24
Alignment explanation
Indices: 3161876--3161929 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
3161866 GAGGGTTAGT
*
3161876 TAGAT-AAGCTTGTGCTTTTGCAG
1 TAGATGAAGCTTGTGCTTTTGCAA
**
3161899 CCGATGAAGCTTGTGCTTTTGCAA
1 TAGATGAAGCTTGTGCTTTTGCAA
3161923 TAGATGA
1 TAGATGA
3161930 GTCTCCTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (24 bp):
TAGATGAAGCTTGTGCTTTTGCAA
Found at i:3164565 original size:21 final size:21
Alignment explanation
Indices: 3164526--3164566 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3164516 AGTTAGTAAG
** *
3164526 ATAAAAATAATCATCAAAATA
1 ATAAAAATAAAAATAAAAATA
3164547 ATAAAAATAAAAATAAAAAT
1 ATAAAAATAAAAATAAAAAT
3164567 TCCTACCCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAAAATAAAAATAAAAATA
Found at i:3165639 original size:16 final size:16
Alignment explanation
Indices: 3165620--3165653 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3165610 AAATTGAAGT
3165620 AAAA-TTAAATAAATAA
1 AAAATTTAAAT-AATAA
3165636 AAAATTTAAATAATAA
1 AAAATTTAAATAATAA
3165652 AA
1 AA
3165654 GAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATTTAAATAATAA
Found at i:3165650 original size:20 final size:19
Alignment explanation
Indices: 3165627--3165665 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3165617 AGTAAAATTA
*
3165627 AATAAATAAAAAATTTAAAT
1 AATAAA-AAAAAATATAAAT
*
3165647 AATAAAAGAAAATATAAAT
1 AATAAAAAAAAATATAAAT
3165666 TAAAAGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAAAAAAAAATATAAAT
Found at i:3167054 original size:20 final size:20
Alignment explanation
Indices: 3167016--3167066 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
3167006 TATATTAACA
*
3167016 TATATTATATTTTCAAAAAT
1 TATATAATATTTTCAAAAAT
*
3167036 TATATAATAGTTTTCAAAAAC
1 TATATAATA-TTTTCAAAAAT
3167057 TATAT-ATATT
1 TATATAATATT
3167067 ATATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 15 0.54
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
TATATAATATTTTCAAAAAT
Found at i:3167123 original size:43 final size:44
Alignment explanation
Indices: 3167041--3167151 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 44
3167031 AAAATTATAT
3167041 AATA-GTTTTCAAAAAC--TATATATAT-TATATATGTTTTCAA
1 AATACGTTTTCAAAAACTATATATATATATATATATGTTTTCAA
3167081 AA-ACCGTTTT-AAAAACTATATATATATATATATATGTTTTCAA
1 AATA-CGTTTTCAAAAACTATATATATATATATATATGTTTTCAA
* *
3167124 AATATGTTTTCCAAAACTATAT-TATATA
1 AATACGTTTTCAAAAACTATATATATATA
3167152 CGTTTTCAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 11
0.83 0.03 0.15
Matches are distributed among these distances:
39 1 0.02
40 8 0.13
41 5 0.08
42 9 0.15
43 28 0.45
44 11 0.18
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (44 bp):
AATACGTTTTCAAAAACTATATATATATATATATATGTTTTCAA
Found at i:3167178 original size:38 final size:36
Alignment explanation
Indices: 3167103--3167273 Score: 191
Period size: 37 Copynumber: 4.6 Consensus size: 36
3167093 AAACTATATA
** **
3167103 TATATATATATATGTTTTCAAAATATGTTTTCCAAAAC
1 TATATAT-TATATGTTTTCAAAACCT-TTTTTAAAAAC
*
3167141 TATAT-TATATACGTTTTCAAAACCCGTTTTTTAAAAAC
1 TATATAT-TATATGTTTTCAAAA-CC-TTTTTTAAAAAC
* *
3167179 TATATATTATGTGTTTTCAAAAACCTCTTTTAAAAAC
1 TATATATTATATGTTTTC-AAAACCTTTTTTAAAAAC
*
3167216 TATATATTATATGTTTTCAAAACCATTTTTAAAAAC
1 TATATATTATATGTTTTCAAAACCTTTTTTAAAAAC
* *
3167252 TATACATTATATGTTTTTAAAA
1 TATATATTATATGTTTTCAAAA
3167274 AAAAATCGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
36 36 0.31
37 44 0.38
38 30 0.26
39 6 0.05
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (36 bp):
TATATATTATATGTTTTCAAAACCTTTTTTAAAAAC
Found at i:3167314 original size:37 final size:37
Alignment explanation
Indices: 3167045--3167349 Score: 169
Period size: 37 Copynumber: 7.9 Consensus size: 37
3167035 TTATATAATA
* *
3167045 GTTTTCAAAAACTATATATATTATATATGTTTTCAAAAACC
1 GTTTT-AAAAAC--TATATATTATATAT-TTTTAAAAAATC
*
3167086 GTTTTAAAAACTATATATATATATATATATGTTTTCAAAATAT-
1 GTTTTAAAAAC----TATATAT-TATATAT-TTTT-AAAAAATC
* * * **
3167129 GTTTTCCAAAAC--TATATTATATACGTTTTCAAAACCC
1 GTTTT-AAAAACTATATATTATATA-TTTTTAAAAAATC
* * * *
3167166 GTTTTTTAAAAACTATATATTATGTGTTTTCAAAAACCTC
1 G--TTTTAAAAACTATATATTATATATTTTTAAAAA-ATC
* * *
3167206 -TTTTAAAAACTATATATTATATGTTTTCAAAACCAT-
1 GTTTTAAAAACTATATATTATATATTTTTAAAA-AATC
* *
3167242 -TTTTAAAAACTATACATTATATGTTTTTAAAAAAAAATC
1 GTTTTAAAAACTATATATTATATATTTTT---AAAAAATC
*
3167281 GTTTTAAAATCTATATATTATATATTTTTAAAAAAT-
1 GTTTTAAAAACTATATATTATATATTTTTAAAAAATC
* * *
3167317 ATTTTCAAAAAC--TATACTATATATTTTCAAAAA
1 GTTTT-AAAAACTATATATTATATATTTTTAAAAA
3167350 CTATATGCAT
Statistics
Matches: 216, Mismatches: 29, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
35 19 0.09
36 33 0.15
37 55 0.25
38 12 0.06
39 15 0.07
40 42 0.19
41 5 0.02
42 9 0.04
43 17 0.08
44 9 0.04
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.43
Consensus pattern (37 bp):
GTTTTAAAAACTATATATTATATATTTTTAAAAAATC
Found at i:3167527 original size:27 final size:27
Alignment explanation
Indices: 3167497--3167555 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
3167487 TTAAACATAT
* * *
3167497 ATAAATATTTTTCAATTAT-AAATTTTG
1 ATAAAT-TTTTACAATCATAAAATTTTA
*
3167524 ATAACTTTTTACAATCATAAAATTTTA
1 ATAAATTTTTACAATCATAAAATTTTA
3167551 ATAAA
1 ATAAA
3167556 ACCGTTCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (27 bp):
ATAAATTTTTACAATCATAAAATTTTA
Found at i:3167543 original size:26 final size:26
Alignment explanation
Indices: 3167504--3167554 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
3167494 TATATAAATA
* *
3167504 TTTTTCAATTAT-AAATTTTGATAAC
1 TTTTTCAATCATAAAATTTTAATAAC
3167529 TTTTTACAATCATAAAATTTTAATAA
1 TTTTT-CAATCATAAAATTTTAATAA
3167555 AACCGTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 6 0.27
27 11 0.50
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTTCAATCATAAAATTTTAATAAC
Found at i:3171045 original size:20 final size:20
Alignment explanation
Indices: 3171007--3171066 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
3170997 CAGAACCCCA
*
3171007 GGGGGGTATCGATTCCC-CTGT
1 GGGGGG-ATCGATTCCCTC-AT
*
3171028 GGGGGGAATCGGTTCCCTCAT
1 GGGGGG-ATCGATTCCCTCAT
3171049 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
3171067 TACACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.32
21 22 0.65
22 1 0.03
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAT
Found at i:3187392 original size:41 final size:43
Alignment explanation
Indices: 3187292--3187393 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
3187282 TATATTTTAT
* *
3187292 AATAATATATTTAA-AATTATTTATTATATTTTAAACTGTTAA
1 AATAATATATTTAATAATAATTTATTATATTTTAAACTATTAA
* *
3187334 AATAATATATTTTATAATAATTT-TTATATTTTTAA-TAATT-A
1 AATAATATATTTAATAATAATTTATTATATTTTAAACT-ATTAA
*
3187375 AATAACATATTTAATAATA
1 AATAATATATTTAATAATA
3187394 TAAAATTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
41 19 0.37
42 26 0.50
43 7 0.13
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (43 bp):
AATAATATATTTAATAATAATTTATTATATTTTAAACTATTAA
Found at i:3189785 original size:46 final size:46
Alignment explanation
Indices: 3189100--3189777 Score: 1059
Period size: 46 Copynumber: 14.7 Consensus size: 46
3189090 GTTTGTGTTA
* *
3189100 GCATTAAGGCAAGAAAGGATGCCATAACTCAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3189146 GCATTAAGGCATGAAAGGATTCCATAACTCAAATGCATGAACGAAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
3189192 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
3189238 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* *
3189284 GCATTAAGGCATGAAATGATGCCATAACTCAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3189330 GCATTAAGGCACGAATGGATTCCATAACTAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3189376 GCATTAAGGCACGAATGGATTCCATAACTAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
*
3189422 GCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
** *
3189468 GCATTAAGGCATGAAAGGATGTAATAACTAAAATGCATGAATGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
*
3189514 GCATTAAGGCATGAAAGAATGCCATAACTAAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * * *
3189560 GCATTAAGGCATGAAAGGATGCCATAACTCAAATGCAAGAATGTAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3189606 GCATTAAGGCATGAAAGGATTCCATAACTCAAATGCATGAACGAAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
*
3189652 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAATGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3189698 GCATTAAGGCATGATAGGATGCCATAACTAAAATGTATGAATGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * * *
3189744 GTATTAAGGCATGAAAAGAGGCCATAACTGAAAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAAT
3189778 TAATGAATAA
Statistics
Matches: 587, Mismatches: 45, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 587 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
Found at i:3196515 original size:26 final size:25
Alignment explanation
Indices: 3196479--3197043 Score: 165
Period size: 26 Copynumber: 24.5 Consensus size: 25
3196469 TAGCATTAAG
3196479 GCATGAACGGATGCCATAACTGAAAT
1 GCATGAACGGATGCCATAACT-AAAT
3196505 GCATGAACGGATG-CAT---T--AT
1 GCATGAACGGATGCCATAACTAAAT
* *
3196524 GCATGAAAGGATGCCAGAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* *
3196550 GCATGAACAGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
*
3196570 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* *
3196596 GCATGCACGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
3196616 GCATGAACGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* *
3196642 ACATGAACGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
* ** *
3196662 GAATGAAATGATACCATAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* * *
3196688 GTATGAACAGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
*
3196708 GCATGAACGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
*
3196728 GCATGAAAGGATGCCATAACTCAAAT
1 GCATGAACGGATGCCATAACT-AAAT
*
3196754 GCATGAACGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
* *
3196774 GCATGAAAGGATGTCATAACTCAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* *
3196800 GCATGACCGGATG-C---ACT-AAG
1 GCATGAACGGATGCCATAACTAAAT
**
3196820 GCATGAAAAGATGCCATAACTCAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* * *
3196846 GCAAGAATGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
* ** *
3196866 GCATTAAAAAAG-TGCCATAAATCAAAT
1 GCA-T-GAACGGATGCCATAACT-AAAT
* *
3196893 GCATGGACGGATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
* *
3196913 GTATGAAAGGATGCCATAACTCAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* *
3196939 GCATGAACGAATG-CAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
* *
3196959 GAATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
* * *
3196985 GCATGAACAGATG-GAT---T-AAG
1 GCATGAACGGATGCCATAACTAAAT
*
3197005 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATGCCATAACT-AAAT
*
3197031 GTATGAACGGATG
1 GCATGAACGGATG
3197044 TATTAATGCA
Statistics
Matches: 390, Mismatches: 79, Indels: 140
0.64 0.13 0.23
Matches are distributed among these distances:
19 14 0.04
20 139 0.36
21 26 0.07
22 19 0.05
23 1 0.00
24 11 0.03
25 32 0.08
26 143 0.37
27 5 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (25 bp):
GCATGAACGGATGCCATAACTAAAT
Found at i:3196582 original size:20 final size:20
Alignment explanation
Indices: 3196550--3196629 Score: 54
Period size: 20 Copynumber: 3.7 Consensus size: 20
3196540 GAACTAAAAT
3196550 GCATGAACA-GATGCATTAAG
1 GCATGAA-AGGATGCATTAAG
*
3196570 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
3196596 GCATGCACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
3196616 GCATGAACGGATGC
1 GCATGAAAGGATGC
3196630 CATAACTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
19 1 0.02
20 26 0.54
21 3 0.06
22 1 0.02
24 1 0.02
25 3 0.06
26 13 0.27
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:3196591 original size:46 final size:46
Alignment explanation
Indices: 3196471--3196721 Score: 369
Period size: 46 Copynumber: 5.5 Consensus size: 46
3196461 GCATGTGTTA
* *
3196471 GCATTAAGGCATGAACGGATGCCATAACTGAAATGCATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * *
3196517 GCATT-ATGCATGAAAGGATGCCAGAACTAAAATGCATGAACAGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
*
3196562 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGCACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* *
3196608 GCATTAAGGCATGAACGGATGCCATAACTAAAATACATGAACGGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
* * * * *
3196654 GCATTAAGGAATGAAATGATACCATAACTAAAATGTATGAACAGAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
*
3196700 GCATTAAGGCATGAACGGATGC
1 GCATTAAGGCATGAAAGGATGC
3196722 ATTAAGGCAT
Statistics
Matches: 181, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 40 0.22
46 141 0.78
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT
Found at i:3196668 original size:92 final size:92
Alignment explanation
Indices: 3196471--3197076 Score: 518
Period size: 92 Copynumber: 6.4 Consensus size: 92
3196461 GCATGTGTTA
* * * *
3196471 GCATTAAGGCATGAACGGATGCCATAACTGAAATGCATGAACGGATGCATT-ATGCATGAAAGGA
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
*
3196535 TGCCAGAACTAAAATGCATGAACAGAT
66 TGCCAGAACTAAAATACATGAACAGAT
*
3196562 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGCACGGATGCATTAAGGCATGAACGGA
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
* *
3196627 TGCCATAACTAAAATACATGAACGGAT
66 TGCCAGAACTAAAATACATGAACAGAT
* * * * *
3196654 GCATTAAGGAATGAAATGATACCATAACTAAAATGTATGAACAGATGCATTAAGGCATGAACGGA
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
* *
3196719 TG-CATTAAGGCATGAAAGGATGCCAT-AACTCAAATGCATGAACGGAT
66 TGCCA-GAA--C-T-AAA--AT-ACATGAA--C--A-G---------AT
* * * * **
3196766 GCATTAAGGCATGAAAGGATGTCATAACTCAAATGCATGACCGGATGCACTAAGGCATGAAAAGA
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
* * * * **
3196831 TGCCATAACTCAAATGCAAGAATGGAT
66 TGCCAGAACTAAAATACATGAACAGAT
* ** * * * * *
3196858 GCATTAAGGCATTAAAAAAGTGCCATAAATCAAATGCATGGACGGATGCATTAAGGTATGAAAGG
1 GCATTAAGGCATGAAAGGA-TGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGG
* * *
3196923 ATGCCATAACTCAAATGCATGAAC-GAAT
65 ATGCCAGAACTAAAATACATGAACAG-AT
* * * *
3196951 GCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACAGATGGATTAAGGCATGAAAGGA
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
* ** *
3197016 TGCCATAACTAAAATGTATGAACGGAT
66 TGCCAGAACTAAAATACATGAACAGAT
* * * *
3197043 GTATTAATGCATGAAACGAGGCCATAACTAAAAT
1 GCATTAAGGCATGAAAGGATGCCATAACTAAAAT
3197077 TAATGAATAA
Statistics
Matches: 426, Mismatches: 61, Indels: 55
0.79 0.11 0.10
Matches are distributed among these distances:
91 50 0.12
92 210 0.49
93 78 0.18
94 1 0.00
95 1 0.00
96 3 0.01
98 4 0.01
99 3 0.01
100 1 0.00
101 1 0.00
103 1 0.00
105 2 0.00
106 4 0.01
108 2 0.00
109 1 0.00
110 1 0.00
112 61 0.14
113 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
GCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAACGGA
TGCCAGAACTAAAATACATGAACAGAT
Found at i:3196725 original size:112 final size:112
Alignment explanation
Indices: 3196596--3196826 Score: 345
Period size: 112 Copynumber: 2.1 Consensus size: 112
3196586 TAACTAAAAT
* *
3196596 GCATGCACGGATGCATTAAGGCATGAACGGATGCCATAACTAAAATACATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCATTAA
* * *
3196661 GGAATGAAATGATACCATAACTAAAATGTATGAACAGATGCATTAAG
66 GGAATGAAAGGATACCATAACTAAAATGCATGAACAGATGCACTAAG
* *
3196708 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCATTAA
* ** * * *
3196773 GGCATGAAAGGATGTCATAACTCAAATGCATGACCGGATGCACTAAG
66 GGAATGAAAGGATACCATAACTAAAATGCATGAACAGATGCACTAAG
3196820 GCATGAA
1 GCATGAA
3196827 AAGATGCCAT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.20
Consensus pattern (112 bp):
GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCATTAA
GGAATGAAAGGATACCATAACTAAAATGCATGAACAGATGCACTAAG
Found at i:3196754 original size:66 final size:66
Alignment explanation
Indices: 3196505--3196786 Score: 254
Period size: 66 Copynumber: 4.2 Consensus size: 66
3196495 TAACTGAAAT
* *
3196505 GCATGAACGGATGCATT-ATGCATGAAAGGATGCCAGAACTAAAATGCATGAACAGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAA
3196569 G
66 G
* * * * * *
3196570 GCATGAAAGGATGCCATAACTAAAATGCATGCACGGATG-CAT---T--AAGGCATGAACGGATG
1 GCATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATG
*
3196629 CCATAACTAAAAT
60 -CAT---T--AAG
* * * * *
3196642 ACATGAACGGATGCATTAAGGAATGAAATGATACCATAACTAAAATGTATGAACAGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAA
3196707 G
66 G
* *
3196708 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAA
3196773 G
66 G
*
3196774 GCATGAAAGGATG
1 GCATGAACGGATG
3196787 TCATAACTCA
Statistics
Matches: 171, Mismatches: 27, Indels: 37
0.73 0.11 0.16
Matches are distributed among these distances:
65 12 0.07
66 100 0.58
67 6 0.04
68 3 0.02
69 1 0.01
70 2 0.01
71 8 0.05
72 39 0.23
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (66 bp):
GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAA
G
Found at i:3196785 original size:20 final size:20
Alignment explanation
Indices: 3196697--3196786 Score: 99
Period size: 20 Copynumber: 4.2 Consensus size: 20
3196687 TGTATGAACA
*
3196697 GATGCATTAAGGCATGAACG
1 GATGCATTAAGGCATGAAAG
3196717 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* *
3196737 GATGCCATAACTCAAATGCATGAACG
1 GATG-CAT---T--AAGGCATGAAAG
3196763 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
3196783 GATG
1 GATG
3196787 TCATAACTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
20 37 0.63
21 3 0.05
22 1 0.02
24 1 0.02
25 3 0.05
26 14 0.24
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (20 bp):
GATGCATTAAGGCATGAAAG
Found at i:3196838 original size:158 final size:158
Alignment explanation
Indices: 3196550--3196869 Score: 487
Period size: 158 Copynumber: 2.0 Consensus size: 158
3196540 GAACTAAAAT
*
3196550 GCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGCACGGATGCATTAA
1 GCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
* * *
3196615 GGCATGAACGGATGCCATAACTAAAATACATGAACGGATGCATTAAGGAATGAAATGATACCATA
66 GGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCACTAAGGAATGAAAAGATACCATA
* *
3196680 ACTAAAATGTATGAACAGATGCATTAAG
131 ACTAAAATGCAAGAACAGATGCATTAAG
* *
3196708 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGGATGCATTAA
1 GCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
* * * * * *
3196773 GGCATGAAAGGATGTCATAACTCAAATGCATGACCGGATGCACTAAGGCATGAAAAGATGCCATA
66 GGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCACTAAGGAATGAAAAGATACCATA
* **
3196838 ACTCAAATGCAAGAATGGATGCATTAAG
131 ACTAAAATGCAAGAACAGATGCATTAAG
3196866 GCAT
1 GCAT
3196870 TAAAAAAGTG
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
158 145 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (158 bp):
GCATGAACAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
GGCATGAAAGGATGCCATAACTAAAATACATGAACGGATGCACTAAGGAATGAAAAGATACCATA
ACTAAAATGCAAGAACAGATGCATTAAG
Found at i:3196937 original size:185 final size:185
Alignment explanation
Indices: 3196708--3197054 Score: 541
Period size: 185 Copynumber: 1.9 Consensus size: 185
3196698 ATGCATTAAG
*
3196708 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGAATGCATTAA
* * * * *
3196773 GGCATGAAAGGATGTCATAACTCAAATGCATGACCGGATGCACTAAGGCATGAAAAGATGCCATA
66 GGAATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCACTAAGGCATGAAAAGATGCCATA
* *
3196838 ACTCAAATGCAAGAATGGATGCATTAAGGCATTAAAAAAGTGCCATAAATCAAAT
131 ACTAAAATGCAAGAACGGATGCATTAAGGCATTAAAAAAGTGCCATAAATCAAAT
* *
3196893 GCATGGACGGATGCATTAAGGTATGAAAGGATGCCATAACTCAAATGCATGAACGAATGCATTAA
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGAATGCATTAA
* * *
3196958 GGAATGAAAGGATGCCATAACTAAAATGCATGAACAGATGGATTAAGGCATGAAAGGATGCCATA
66 GGAATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCACTAAGGCATGAAAAGATGCCATA
* * * *
3197023 ACTAAAATGTATGAACGGATGTATTAATGCAT
131 ACTAAAATGCAAGAACGGATGCATTAAGGCAT
3197055 GAAACGAGGC
Statistics
Matches: 145, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
185 145 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (185 bp):
GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAATGCATGAACGAATGCATTAA
GGAATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCACTAAGGCATGAAAAGATGCCATA
ACTAAAATGCAAGAACGGATGCATTAAGGCATTAAAAAAGTGCCATAAATCAAAT
Found at i:3197083 original size:46 final size:46
Alignment explanation
Indices: 3196708--3197076 Score: 513
Period size: 46 Copynumber: 8.0 Consensus size: 46
3196698 ATGCATTAAG
3196708 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
*
3196754 GCATGAACGGATGCATTAAGGCATGAAAGGATGTCATAACTCAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
* * *
3196800 GCATGACCGGATGCACTAAGGCATGAAAAGATGCCATAACTCAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
* * * ** *
3196846 GCAAGAATGGATGCATTAAGGCATTAAAAAAGTGCCATAAATCAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGA-TGCCATAACTCAAAT
* *
3196893 GCATGGACGGATGCATTAAGGTATGAAAGGATGCCATAACTCAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
* * *
3196939 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
* * *
3196985 GCATGAACAGATGGATTAAGGCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
* * * * * *
3197031 GTATGAACGGATGTATTAATGCATGAAACGAGGCCATAACTAAAAT
1 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
3197077 TAATGAATAA
Statistics
Matches: 288, Mismatches: 34, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 250 0.87
47 38 0.13
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTCAAAT
Found at i:3204319 original size:26 final size:26
Alignment explanation
Indices: 3204290--3204345 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3204280 TGTGCTAGAT
* * *
3204290 GGGCGACGG-CCCAGGGCAGCATGTAG
1 GGGCGA-GGACCCAGAGAAGCATATAG
3204316 GGGCGAGGACCCAGAGAAGCATATAG
1 GGGCGAGGACCCAGAGAAGCATATAG
3204342 GGGC
1 GGGC
3204346 ATCAGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.25, C:0.23, G:0.45, T:0.07
Consensus pattern (26 bp):
GGGCGAGGACCCAGAGAAGCATATAG
Found at i:3206863 original size:18 final size:18
Alignment explanation
Indices: 3206842--3206885 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3206832 ATATTTGTTG
3206842 TTTATATATACATATATA
1 TTTATATATACATATATA
* *
3206860 TTTATCAT-TACTTATTTA
1 TTTAT-ATATACATATATA
3206878 TTTATATA
1 TTTATATA
3206886 CTCAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATATATACATATATA
Found at i:3207763 original size:8 final size:8
Alignment explanation
Indices: 3207750--3207794 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
3207740 TTGCAGCCTT
3207750 GATGCATG
1 GATGCATG
3207758 GATGCATG
1 GATGCATG
3207766 GATGCAT-
1 GATGCATG
3207773 G--GCA-G
1 GATGCATG
*
3207778 GATGCATC
1 GATGCATG
3207786 GATGCATG
1 GATGCATG
3207794 G
1 G
3207795 CAAGAATGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
5 4 0.13
7 4 0.13
8 23 0.74
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (8 bp):
GATGCATG
Found at i:3207878 original size:12 final size:13
Alignment explanation
Indices: 3207855--3207922 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
3207845 GATGTTTGGA
3207855 TGCATGGATGCAT
1 TGCATGGATGCAT
3207868 TGCAT-GATGCAT
1 TGCATGGATGCAT
* *
3207880 CGATGCAT-TAGTGCAGA
1 ---TGCATGGA-TGCA-T
3207897 TGCATGGATGCAT
1 TGCATGGATGCAT
*
3207910 TGCAGGGATGCAT
1 TGCATGGATGCAT
3207923 GGATGCACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 7 0.16
13 17 0.39
14 9 0.20
15 7 0.16
16 4 0.09
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (13 bp):
TGCATGGATGCAT
Found at i:3207921 original size:21 final size:21
Alignment explanation
Indices: 3207852--3207950 Score: 114
Period size: 21 Copynumber: 4.7 Consensus size: 21
3207842 TTCGATGTTT
3207852 GGATGCATGGATGCATTGCA-
1 GGATGCATGGATGCATTGCAG
* *
3207872 TGATGCATCGATGCATT--AG
1 GGATGCATGGATGCATTGCAG
3207891 TGCAGATGCATGGATGCATTGCAG
1 -G--GATGCATGGATGCATTGCAG
* *
3207915 GGATGCATGGATGCACTACAG
1 GGATGCATGGATGCATTGCAG
3207936 GGATGCATGGATGCA
1 GGATGCATGGATGCA
3207951 CTTTGACACC
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.01
20 15 0.22
21 33 0.49
22 15 0.22
23 1 0.01
24 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (21 bp):
GGATGCATGGATGCATTGCAG
Found at i:3207941 original size:42 final size:42
Alignment explanation
Indices: 3207852--3207950 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
3207842 TTCGATGTTT
* * **
3207852 GGATGCATGGATGCATTGCATGATGCATCGATGCATTAGTGC
1 GGATGCATGGATGCATTGCAGGATGCATCGATGCACTACAGC
* *
3207894 AGATGCATGGATGCATTGCAGGGATGCATGGATGCACTACAG-
1 GGATGCATGGATGCATTGCA-GGATGCATCGATGCACTACAGC
3207936 GGATGCATGGATGCA
1 GGATGCATGGATGCA
3207951 CTTTGACACC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 33 0.67
43 16 0.33
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (42 bp):
GGATGCATGGATGCATTGCAGGATGCATCGATGCACTACAGC
Found at i:3208053 original size:29 final size:29
Alignment explanation
Indices: 3208032--3208089 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
3208022 AAACTTTGAA
3208032 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
3208061 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
3208090 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:3208079 original size:30 final size:30
Alignment explanation
Indices: 3208032--3208091 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
3208022 AAACTTTGAA
3208032 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
3208061 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
3208092 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:3210946 original size:34 final size:32
Alignment explanation
Indices: 3210893--3210962 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
3210883 ACCTTACAAC
*
3210893 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
3210925 TCCCTAGATTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
3210959 TCCC
1 TCCC
3210963 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:3211353 original size:20 final size:20
Alignment explanation
Indices: 3211328--3211430 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
3211318 TTGCAGCCTT
*
3211328 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATGGCAG
*
3211348 GATGCATCGATTCATGGATGCATGGCAG
1 GATGCATCGATGCAT-G--GC-----AG
3211376 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGC-AG
* *
3211397 GATGCATCGATGCATAGCAA
1 GATGCATCGATGCATGGCAG
*
3211417 GATGAATCGATGCA
1 GATGCATCGATGCA
3211431 CTAATTGAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
20 27 0.40
21 20 0.29
23 2 0.03
25 2 0.03
27 1 0.01
28 16 0.24
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.21
Consensus pattern (20 bp):
GATGCATCGATGCATGGCAG
Found at i:3211372 original size:28 final size:28
Alignment explanation
Indices: 3211328--3211392 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
3211318 TTGCAGCCTT
3211328 GATGCATGGATGCATGGCAGGATGCATC
1 GATGCATGGATGCATGGCAGGATGCATC
*
3211356 GATTCATGGATGCATGGCAGGATGCATC
1 GATGCATGGATGCATGGCAGGATGCATC
3211384 GATGCATGG
1 GATGCATGG
3211393 CAAGGATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (28 bp):
GATGCATGGATGCATGGCAGGATGCATC
Found at i:3211400 original size:21 final size:21
Alignment explanation
Indices: 3211364--3211430 Score: 102
Period size: 20 Copynumber: 3.3 Consensus size: 21
3211354 TCGATTCATG
3211364 GATGCATGGC-AGGATGCATC
1 GATGCATGGCAAGGATGCATC
3211384 GATGCATGGCAAGGATGCATC
1 GATGCATGGCAAGGATGCATC
* *
3211405 GATGCATAGCAA-GATGAATC
1 GATGCATGGCAAGGATGCATC
3211425 GATGCA
1 GATGCA
3211431 CTAATTGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 23 0.52
21 21 0.48
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.19
Consensus pattern (21 bp):
GATGCATGGCAAGGATGCATC
Found at i:3211522 original size:21 final size:21
Alignment explanation
Indices: 3211453--3211548 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
3211443 GATGTTTGGT
*
3211453 TGCATGGATGCATTGCA-TGA
1 TGCATGGATGCATTGCAGGGA
*
3211473 TGCATCGATGCATT--AGTGCAGA
1 TGCATGGATGCATTGCAG-G--GA
*
3211495 TGTATGGATGCATTGCAGGGA
1 TGCATGGATGCATTGCAGGGA
*
3211516 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCATTGCAGGGA
3211537 TGCATGGATGCA
1 TGCATGGATGCA
3211549 CTTTGACACC
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.02
20 13 0.20
21 33 0.52
22 14 0.22
23 1 0.02
24 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (21 bp):
TGCATGGATGCATTGCAGGGA
Found at i:3211651 original size:29 final size:29
Alignment explanation
Indices: 3211630--3211687 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
3211620 AAACTTTGAA
3211630 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
3211659 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
3211688 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:3211677 original size:30 final size:30
Alignment explanation
Indices: 3211630--3211689 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
3211620 AAACTTTGAA
3211630 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
3211659 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
3211690 CCTTAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:3212885 original size:54 final size:54
Alignment explanation
Indices: 3212815--3213376 Score: 673
Period size: 54 Copynumber: 10.4 Consensus size: 54
3212805 CTATGTGTAC
* * *
3212815 TATCGGCACTAAGTGTGCAACCCACGAAATTTATAATAATTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* *
3212869 TATCAACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
** ** * *
3212923 TATCGGTACTAAGTGTGCAACTTAC-AGAATTCATAATAAGTTTAGGAACGATCG
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* *
3212977 TATCGACACTAAGTGTTCAAACCACGAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* *
3213031 TATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
3213085 TATCGGCACTAAGTATGCAACCCACGAAATTCATAATAAGCTTATGAACGACCG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* ** * * *
3213139 TATCGGCACTAAGTGTGCAA-CCAATAGAATTCTTAATAAGTTTATGAATGACCA
1 TATCGACACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* * * * * *
3213193 TATCGGCACTAAGTGTGTAACCCATGGAATTCATAATAAGTTTATGAAGGACCA
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
3213247 TATCGATACTAAGTGTGCAATCCATGGAATTCATAATAAGTTTA--AACGACCA
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * ** ** *
3213299 TATCAACACTAAGTGTGTAATGCAAAAAATTCATAATAAGTTTATGAACGACTG
1 TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
3213353 TATTGACACTACGTGTGCATCCCA
1 TATCGACACTAAGTGTGCAACCCA
3213377 AAGAACTTAT
Statistics
Matches: 440, Mismatches: 62, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
52 44 0.10
53 5 0.01
54 387 0.88
55 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCGACACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:3215813 original size:54 final size:54
Alignment explanation
Indices: 3215663--3216544 Score: 1017
Period size: 54 Copynumber: 16.4 Consensus size: 54
3215653 TTATGTGTAC
* * * *
3215663 TATCGACACTAAGCGTGCAACCCATGGAAA-TCATAATAAGTTTATAAACGACCG
1 TATCGGCACTAAGTGTGCAACCCA-CGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
3215717 TATCGACACTAAGTTTGC-ACCCACGGAATTCATAATAAGTTTATGAATGAACG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
3215770 TATTGGTACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * * *
3215824 TATCGACATTAGGTGTGCAACCCATGGAATTCATAATAAGTTTATGAACGGCCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
3215878 TATCGGCACTAAGTGTGCAACCCAC-AGAATTCATAATAAGTTTACGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
*
3215932 TATCGACACTAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
** * *
3215986 TATCAACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * *
3216040 TATCGACACTAAGTGTGAAACCCAC-AGAATTCATAATATGTTTAAT-AACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTT-ATGAACGACCG
* * * * * *
3216094 TATCAGTACTAAGTGTACAACCCATGGAATTCATAACAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
** * * *
3216148 TATCAACACTAATTGTGCAACCCACAAAATTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* ** * *
3216202 TATCGGCACTAACTGTGCAACCCATAAAATTCATAATAAGTGTATGAACGACCA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * *
3216256 TATTGGCACTAGGTTTGCAACCCA-TATAATTCATAATAAGTTTGTGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
** * *
3216310 TATCAACACTAAGTGTGTAACCCAC-ATAATTCATAACAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCG
* *
3216364 TATCGAG-ACTAAGTATGCAACCCACGAAATTCATAATAAGTTTATGAATGACCG
1 TATCG-GCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * ** * * *
3216418 TATTGGCACTAATTGTGCAACCCGTGGAGTTCATAATAAGTTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
* * * * **
3216472 TATCAGCACTAAATGTGCAACCCACAAAATTCATAATAAGTTTAAGAACGACTA
1 TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
*
3216526 TATCGGCACTACGTGTGCA
1 TATCGGCACTAAGTGTGCA
3216545 CCCTAAAGAA
Statistics
Matches: 706, Mismatches: 109, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
52 3 0.00
53 44 0.06
54 656 0.93
55 3 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCG
Found at i:3215917 original size:27 final size:27
Alignment explanation
Indices: 3215887--3215972 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
3215877 GTATCGGCAC
3215887 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
* * * * * * *
3215914 TAAGTTTACGAA-CGACCGTA-TCGACAC
1 TAAGTGTGC-AACCCACAGAATTC-ATAA
*
3215941 TAAGTGTGCAACCCACATAATTCATAA
1 TAAGTGTGCAACCCACAGAATTCATAA
3215968 TAAGT
1 TAAGT
3215973 TTATGAACGA
Statistics
Matches: 40, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
26 4 0.10
27 32 0.80
28 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAGTGTGCAACCCACAGAATTCATAA
Found at i:3216025 original size:27 final size:27
Alignment explanation
Indices: 3215941--3216026 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
3215931 GTATCGACAC
*
3215941 TAAGTGTGCAACCCACATAATTCATAA
1 TAAGTGTGCAACCCACGTAATTCATAA
* *
3215968 TAAGTTTATG-AA-CGACCGT-A-TCA-ACA
1 TAAG--TGTGCAACCCA-CGTAATTCATA-A
3215994 CTAAGTGTGCAACCCACGTAATTCATAA
1 -TAAGTGTGCAACCCACGTAATTCATAA
3216022 TAAGT
1 TAAGT
3216027 TTATGAACGA
Statistics
Matches: 44, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
25 4 0.09
26 9 0.20
27 19 0.43
28 8 0.18
29 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (27 bp):
TAAGTGTGCAACCCACGTAATTCATAA
Found at i:3217155 original size:2 final size:2
Alignment explanation
Indices: 3217148--3217196 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
3217138 ATTAAAAATA
3217148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3217190 AT AT AT A
1 AT AT AT A
3217197 GACATGCAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3217961 original size:133 final size:134
Alignment explanation
Indices: 3217571--3218134 Score: 595
Period size: 133 Copynumber: 4.2 Consensus size: 134
3217561 GATTCTCTTT
* * * * * * *
3217571 GCTGCTCTTCAGGGAAGGTTGAATCAAACT-TGATTTTCTTCGCAGCTCCTCAGGAAAACCAAAT
1 GCTGCTCTTCAGGGAAGATTGAATCGAA-TGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
* * * * * * *
3217635 CTAAAAGAAGAAAAATCTTCTCCACTACTCTTCATA-GAAGATCAAACTTGAGAAAATTTTGATC
65 CTGAAAGAAGAAGAATATACTCCACTACTCTTTA-AGGGAGATCAGACTTGAGAAAATTTTGATC
*
3217699 TACTTC
129 CACTTC
* * * * * * ** * *
3217705 ACTGTTCTTTAGGGAAAATTGAATC-AGATATGATTTGTTTCTTTGCTGTTTAGGAAGACCAAAT
1 GCTGCTCTTCAGGGAAGATTGAATCGA-ATGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAAT
* * *
3217769 ATGAGAGAAGAAGAAGAATATACTCCACTACTCTTTAGGGGAGATC-GACTTGATAAAATTTTGA
65 CT--GA-AAGAAGAAGAATATACTCCACTACTCTTTAAGGGAGATCAGACTTGAGAAAATTTTGA
3217833 TCCACTTC
127 TCCACTTC
* *
3217841 GCTGCTCTTCAAGGAAGATTAAATCGAATGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATC
1 GCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATC
* *
3217906 TGAAAGAA-ATAGAATCTGCTCCACTACTCTTTAAGGGAGATCAGACTTGAG-AAATTTTGATCC
66 TGAAAGAAGA-AGAATATACTCCACTACTCTTTAAGGGAGATCAGACTTGAGAAAATTTTGATCC
*
3217969 ACTTT
130 ACTTC
* * * * * * *
3217974 GCTACTCTTTAGGGAAGATTGAGTCGAAAGTGATTTGCTTCACCGCTCTTTAGGAAGACCAAATT
1 GCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATC
* *
3218039 TGAAAGAA-AGAGAATATACTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCC
66 TGAAAGAAGA-AGAATATACTCCACTACTCTTTAAGGGAGATCAGACTTGAGAAAATTTTGATCC
3218103 ACTT-
130 ACTTC
* * *
3218107 TCTACTCTTCAGGGATGATTGAATCGAA
1 GCTGCTCTTCAGGGAAGATTGAATCGAA
3218135 AAATCAAACA
Statistics
Matches: 359, Mismatches: 61, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
132 1 0.00
133 178 0.50
134 72 0.20
136 75 0.21
137 33 0.09
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (134 bp):
GCTGCTCTTCAGGGAAGATTGAATCGAATGTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATC
TGAAAGAAGAAGAATATACTCCACTACTCTTTAAGGGAGATCAGACTTGAGAAAATTTTGATCCA
CTTC
Found at i:3218857 original size:45 final size:45
Alignment explanation
Indices: 3218787--3219649 Score: 692
Period size: 45 Copynumber: 19.3 Consensus size: 45
3218777 ACTCATTTTC
* * *
3218787 CGAGAAAGTCAAGAATCACAACACTAAAAGATTGACTCCCCTTCG
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * * * *
3218832 TGAGAAAGTCAATAATAACATCACTAAAAAAGTTAACTTCTCGTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGA-TTGACTCCTCTTCA
* * * * **
3218878 TGAGAAACTCAAGAA-GACAACACTAAAAGATCGACTCCTCTTTG
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * *
3218922 TGAGAAAGTCAAGGAA-GACAATACTAAAAGATTGACTCATCTTCA
1 CGAGAAAGTCAA-GAATAACAACACTAAAAGATTGACTCCTCTTCA
* *
3218967 TGAGAAAGTCAAGAA-AGACAACACTAAAGGATTGACTCC-CATTCA
1 CGAGAAAGTCAAGAATA-ACAACACTAAAAGATTGACTCCTC-TTCA
* * * * * * *
3219012 TGAGAAAGTCAAGAATAACATCACCAAAAGGTTCACTTCTCTCCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* ** * * * *
3219057 CAAGAAAGTCAAGAAGGACAACACTACAAGATCGAATCCTCTTCG
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
*
3219102 CGAGAAAGTCAAGGAAGT--CAACACTAAAAGATTGACTCCTCTTGA
1 CGAGAAAGTCAA-GAA-TAACAACACTAAAAGATTGACTCCTCTTCA
* * * * * *
3219147 CAAGAGAGTCAAGAA-AAAAAC-CTAAAAGGTTGACCCCCCTTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * ** *
3219190 TGAGAAAGTCAAGAATAACATCACTAAAAGGTTGGTTTCTCTTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* ** * **
3219235 CGAGAAAGTTAAGAAGGACAACACTAAAAGATAGACTATTCTTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * *
3219280 CAAGAAATTCAAGGAA-GACAACGCTAAAAGATTGACTCCTCTTTA
1 CGAGAAAGTCAA-GAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * * *
3219325 CGAGAAAGTCAAGAATACCATCACTAAAAGGTTAACTTCTCCTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * *
3219370 CGAGAAAGTCAAGAAGAACAACACTAAAAGATCGACTCCTCTTCG
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * *
3219415 CAAGAAAGTCAAGGAA-GACAACACTAAAAGATTGACTCTTCTTCA
1 CGAGAAAGTCAA-GAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * *
3219460 CAAGATAA-TCAAGAAAAAAAAAACTAAAAGATTGACTCCTCTTCA
1 CGAGA-AAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * * **
3219505 CAAGAAAATCAAGAATAACATCACTAAACGGTTGACTCAACTTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * *
3219550 CGAGAAAGTCAAGAATGACAATACTAAAATATTAACTCCTCTGCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
* * * * **
3219595 GGAGAAAGTCAAGAATGAC-A-A-TGAAAGATCGTTTCCTCTTCA
1 CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
*
3219637 CGAGAGAGTCAAG
1 CGAGAAAGTCAAG
3219650 TTGAAGCTTT
Statistics
Matches: 646, Mismatches: 154, Indels: 39
0.77 0.18 0.05
Matches are distributed among these distances:
42 25 0.04
43 31 0.05
44 42 0.07
45 513 0.79
46 35 0.05
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (45 bp):
CGAGAAAGTCAAGAATAACAACACTAAAAGATTGACTCCTCTTCA
Found at i:3223423 original size:147 final size:148
Alignment explanation
Indices: 3222965--3223502 Score: 658
Period size: 147 Copynumber: 3.6 Consensus size: 148
3222955 GAAAACTTTA
* * * ** * * *
3222965 TCAAGCAAGATGATATTTATTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCTTGTTTCGGG
1 TCAAGCGAGATAAAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTC-TGTTTCGAG
* * * * * *
3223030 TAAAAACTGTCCCAAGCGAGACAAAATCTTGTTTTAAGAAAAAATAATCTCAAGTGAGATAAAAT
65 T-GAAACTATCTCAAGCGAGATAAAA--TTGTTTTAAGAAAAAATAATCTTAAGTGAGATAAATT
*
3223095 TTTTGTTTTGAGTGAAACTATC
127 TTTTGTTTCGAGTGAAACTATC
* * * *
3223117 TCAAGCGAGAT-GAATCTTATTTTGAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCTAG
1 TCAAGCGAGATAAAAT-TTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGAG
* * *
3223181 TGAAACTATCTCAAGCGAGAT-AAATCTGGTTTCAAG-AAAATTAAT-TTCAAGTGAGATAAATC
65 TGAAACTATCTCAAGCGAGATAAAAT-T-GTTTTAAGAAAAAATAATCTT-AAGTGAGATAAATT
*
3223243 TTCTGTTTCGAGTGAAACTATC
127 TTTTGTTTCGAGTGAAACTATC
* * *
3223265 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTTAAGTGAGAT-AAATCTTCTGGTTCGAG
1 TCAAGCGAGATAAAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTCTGTTTCGAG
* *
3223329 TGAAACTATCTCAAGCGAAATAAAATTGTTTTAAGAAAAACT-ATCTTAAGTGAGATAAATTTTT
65 TGAAACTATCTCAAGCGAGATAAAATTGTTTTAAGAAAAAATAATCTTAAGTGAGATAAATTTTT
3223393 TGTTTCGAGTGAAACTATC
130 TGTTTCGAGTGAAACTATC
* * *
3223412 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGAT-AAATCTTCTATTTCGAG
1 TCAAGCGAGATAAAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTCTGTTTCGAG
3223476 TGAAACTATCTCAAGCGAGATAAAATT
65 TGAAACTATCTCAAGCGAGATAAAATT
3223503 TTTGCTTCGA
Statistics
Matches: 338, Mismatches: 39, Indels: 23
0.85 0.10 0.06
Matches are distributed among these distances:
147 135 0.40
148 117 0.35
149 17 0.05
150 16 0.05
151 10 0.03
152 43 0.13
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (148 bp):
TCAAGCGAGATAAAATTTATTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGAGT
GAAACTATCTCAAGCGAGATAAAATTGTTTTAAGAAAAAATAATCTTAAGTGAGATAAATTTTTT
GTTTCGAGTGAAACTATC
Found at i:3223500 original size:74 final size:73
Alignment explanation
Indices: 3222965--3223503 Score: 643
Period size: 74 Copynumber: 7.2 Consensus size: 73
3222955 GAAAACTTTA
* * * * ** * *
3222965 TCAAGCAAGATGATATTTATTTTAAGAAAAACAATCTTGAGTGAAATGAAATTTCTTGTTTCGGG
1 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTC-TGTTTCGAG
* *
3223030 TAAAAACTGTC
64 T-GAAACTATC
* * * * *
3223041 CCAAGCGAGACAAAATCTTGTTTTAAGAAAAAATAATCTCAAGTGAGATAAAATTTTTGTTTTGA
1 TCAAGCGAGATAAAAT-TTGTTTTAAG-AAAAACAATCTCAAGTGAGAT-AAATTTCTGTTTCGA
3223106 GTGAAACTATC
63 GTGAAACTATC
* * * * *
3223117 TCAAGCGAGAT-GAATCTTATTTTGAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCTAG
1 TCAAGCGAGATAAAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTCTGTTTCGAG
3223181 TGAAACTATC
64 TGAAACTATC
* * ** *
3223191 TCAAGCGAGAT-AAATCTGGTTTCAAGAAAATTAATTTCAAGTGAGATAAATCTTCTGTTTCGAG
1 TCAAGCGAGATAAAAT-TTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGAG
3223255 TGAAACTATC
64 TGAAACTATC
* *
3223265 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAATCTTCTGGTTCGAGT
1 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGAGT
3223330 GAAACTATC
65 GAAACTATC
* * * *
3223339 TCAAGCGAAATAAAA-TTGTTTTAAGAAAAACTATCTTAAGTGAGATAAATTTTTTGTTTCGAGT
1 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA-TTTCTGTTTCGAGT
3223403 GAAACTATC
65 GAAACTATC
* *
3223412 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAATCTTCTATTTCGAGT
1 TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTCTGTTTCGAGT
3223477 GAAACTATC
65 GAAACTATC
3223486 TCAAGCGAGATAAAATTT
1 TCAAGCGAGATAAAATTT
3223504 TTGCTTCGAG
Statistics
Matches: 406, Mismatches: 50, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
73 72 0.18
74 251 0.62
75 16 0.04
76 27 0.07
77 17 0.04
78 23 0.06
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.33
Consensus pattern (73 bp):
TCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTCTGTTTCGAGTG
AAACTATC
Found at i:3223523 original size:333 final size:336
Alignment explanation
Indices: 3223076--3223836 Score: 970
Period size: 333 Copynumber: 2.3 Consensus size: 336
3223066 AGAAAAAATA
* * ** * * *
3223076 ATCTCAAGTGAGATAAAATTTTTGTTTTGAGTGAAACTATCTCAAGCGAGATGAATC-T-TATTT
1 ATCTCAAGCGAGATAAAA--TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTT
* * * * * * *
3223139 TGAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCTAGTGAAACTATCTCAAGCGAGATAA
64 CGAGTAAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATAA
* * * * *
3223204 ATCTGGTTTCAAGAAAATTAATTTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAA-ACTATCTC
129 ATATGGTTTCAAGAAAAATAATCTCAAGTAAGATAAAAT-TTCTATTTCGAGTGAAGA-TATCTC
* *
3223267 AAGCGAGATAAAAT-TTGTTTTAAGAAAAACAATCTTAAGTGAGAT-AAATCTTCTGGTTCGAGT
192 AAGCGAGAT-AAATCTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAAAT-TTCTGGTTCGAGT
* * *
3223330 GAAACTATCTCAAGCGAAAT-AAAATTGTTTTAAG-AAAAACT-ATCTTAAGTGAGATAAATTTT
255 GAAACTATCTCAAGCGAAATGAAAATTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTT
* *
3223392 TTGTTTCGAGTGAAACT
320 GTGTTTCAAGTGAAACT
*
3223409 ATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAATCTTCTATTTCG
1 ATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCG
* * *
3223474 AGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGTGAAATGAAT
66 AGTAAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATAAAT
* * * *
3223539 ATTGTTTTAAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGATATCTTAAGT
131 ATGGTTTCAAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGATATCTCAAGC
* * * *
3223604 GAGATGAATCTTGCTTTAAGAAAATCAATCTCAAGTGAGCTAAAATTTCTGTTTCGAGTGAAACT
196 GAGATAAATCTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGGTTCGAGTGAAACT
* **
3223669 ATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTTGTGTTT
261 ATCTCAAGCGAAATGAAAATTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTTGTGTTT
3223734 CAAGTGAAACT
326 CAAGTGAAACT
* * * * *
3223745 ATCTCAAGCGAGAT--AATTT-TTTTTAGAAAAATAATTTTAAGTGAGATAAATCTTCTGTTTCG
1 ATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCG
3223807 AGTAAAACTATCTCAAGCGAGATAAAATTT
66 AGTAAAACTATCTCAAGCGAGATAAAATTT
3223837 GTTTTAAGAA
Statistics
Matches: 372, Mismatches: 47, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
331 31 0.08
332 4 0.01
333 257 0.69
334 26 0.07
335 6 0.02
336 48 0.13
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (336 bp):
ATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCG
AGTAAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATAAAT
ATGGTTTCAAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGATATCTCAAGC
GAGATAAATCTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGGTTCGAGTGAAACT
ATCTCAAGCGAAATGAAAATTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTTGTGTTT
CAAGTGAAACT
Found at i:3223561 original size:74 final size:73
Alignment explanation
Indices: 3223483--3223945 Score: 555
Period size: 74 Copynumber: 6.3 Consensus size: 73
3223473 GAGTGAAACT
* * * * * *
3223483 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGTGAAATGAATATTGTTTTA
1 ATCTCAAGTGAGAT-AAATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
3223548 AGAAAAATA
65 AGAAAAATA
* * * * *
3223557 ATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGA-TATCTTAAGTGAGATGAATCTTGCTTT
1 ATCTCAAGTGAGAT-AAATTTCTGTTTCGAGTGAA-ACTATCTCAAGCGAGATGAATCTTGTTTT
3223621 AAG-AAAATCA
64 AAGAAAAAT-A
*
3223631 ATCTCAAGTGAGCTAAAATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
1 ATCTCAAGTGAGAT-AAATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
3223696 AGAAAAAAATA
65 AG--AAAAATA
* * *
3223707 ATCTCAAGTGAGATAAATCTTGTGTTTCAAGTGAAACTATCTCAAGCGAGAT-AAT-TT-TTTTT
1 ATCTCAAGTGAGATAAAT-TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
3223769 AGAAAAATA
65 AGAAAAATA
* * * *
3223778 ATTTTAAGTGAGATAAATCTTCTGTTTCGAGTAAAACTATCTCAAGCGAGATAAAAT-TTGTTTT
1 ATCTCAAGTGAGATAAAT-TTCTGTTTCGAGTGAAACTATCTCAAGCGAGAT-GAATCTTGTTTT
3223842 AAGAAAAACT-
64 AAGAAAAA-TA
* * *
3223852 ATCTCGAGTGAGATAAATATTTTGTTTCGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTA
1 ATCTCAAGTGAGATAAAT-TTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTA
3223917 AGAAAAACT-
65 AGAAAAA-TA
3223926 ATCTCAAGTGAGATAAATTT
1 ATCTCAAGTGAGATAAATTT
3223946 TTGTATTAAA
Statistics
Matches: 343, Mismatches: 34, Indels: 25
0.85 0.08 0.06
Matches are distributed among these distances:
71 54 0.16
73 22 0.06
74 208 0.61
75 9 0.03
76 45 0.13
77 5 0.01
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (73 bp):
ATCTCAAGTGAGATAAATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAA
GAAAAATA
Found at i:3223576 original size:221 final size:221
Alignment explanation
Indices: 3222988--3223503 Score: 579
Period size: 221 Copynumber: 2.3 Consensus size: 221
3222978 TATTTATTTT
** * * * * * * *
3222988 AAGAAAAACAATCTTGAGTGAAATGAAAT-TTCTTGTTTCGGGTAAAAACTGTCCCAAGCGAGAC
1 AAGAAAAACAATCTCAAGTGAGAT-AAATCTTC-TATTTCGAGT-GAAACTATCTCAAGCGAGAT
* * * * * ** * *
3223052 AAAATCTTGTTTTAAGAAAAAATAATCTCAAGTGAGATAAAAT-TTTTGTTTTGAGTGAAACTAT
63 AAAAT-TTGTTTTAAG-AAAAACAATCTCAAGTGAAAT-AAATCATCTGGTTCAAGTAAAAATAT
* ** * * *
3223116 CTCAAGCGAGATGAATCTTATTTTGAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCTAG
125 CTCAAGCGAAAT-AAAATTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCGAG
3223181 TGAAACTATCTCAAGCGAGATAAATCTGGTTTC
189 TGAAACTATCTCAAGCGAGATAAATCTGGTTTC
** * *
3223214 AAGAAAATTAATTTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAA
1 AAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAA
* * * * * *
3223279 ATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAATCTTCTGGTTCGAGTGAAACTATCTCAAG
66 ATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCATCTGGTTCAAGTAAAAATATCTCAAG
* * *
3223344 CGAAATAAAATTGTTTTAAGAAAAACTATCTTAAGTGAGATAAATTTTTTGTTTCGAGTGAAACT
131 CGAAATAAAATTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCGAGTGAAACT
* *
3223409 ATCTCAAGCGAGATAAAAT-TTGTTTT
196 ATCTCAAGCGAGAT-AAATCTGGTTTC
*
3223435 AAGAAAAACGATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAA
1 AAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAA
3223500 ATTT
66 ATTT
3223504 TTGCTTCGAG
Statistics
Matches: 255, Mismatches: 32, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
221 138 0.54
222 52 0.20
223 10 0.04
224 21 0.08
225 13 0.05
226 21 0.08
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (221 bp):
AAGAAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAA
ATTTGTTTTAAGAAAAACAATCTCAAGTGAAATAAATCATCTGGTTCAAGTAAAAATATCTCAAG
CGAAATAAAATTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCGAGTGAAACT
ATCTCAAGCGAGATAAATCTGGTTTC
Found at i:3223637 original size:295 final size:286
Alignment explanation
Indices: 3223032--3223942 Score: 791
Period size: 295 Copynumber: 3.1 Consensus size: 286
3223022 GTTTCGGGTA
* * * * *
3223032 AAAACTGTCCCAAGCGAGACAAAATCTTGTTTTAAGAAAAAATAATCTCAAGTGAGATAAAATTT
1 AAAACTATCTCAAGTGAGATAAAAT-TTGTTTTAAGAAAAACT-ATCTCAAGTGAGAT-AAATTT
* * *
3223097 TTGTTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTATTTTGAGAAAAACAATCTCAAGTGAG
63 TTGTTTTGAGTGAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * * *
3223162 ATAAAATTTTTGTTTCTAGTGAAACTATCTCAAGCGAGATAAA-TCTGGTTTCAAG-AAAATTAA
128 AT-AAA-TTTT-TTTCTAGTGAAACTATCTCAAGCGAGATAAATTTTTGTTTCGAGTAAAACT-A
* * ** * * * *
3223225 TTTCAAGTGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATTTGTTTT-A
189 TCTCAAGTGAGAT-AAT-AT-TGTTTTAAG-AAAAATATCTCAAGTGAGATAAAATTT-TTTTCG
** * * *
3223289 AGAAAAACAATCTTAAGTGAGATAAATCTT-CTGGTTCGAG
249 AGTGAAACTATCTTAAGTGAGATGAATCTTGCT--TT-AAG
* * * *
3223329 TGAAACTATCTCAAGCGAAATAAAA-TTGTTTTAAGAAAAACTATCTTAAGTGAGATAAATTTTT
1 -AAAACTATCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAA-TTTT
* *
3223393 TGTTTCGAGTGAAACTATCTCAAGCGAGATAAAAT-TTGTTTTAAGAAAAACGATCTCAAGTGAG
64 TGTTTTGAGTGAAACTATCTCAAGCGAGAT-AAATCTTGTTTTAAGAAAAACAATCTCAAGTGAG
* * *
3223457 ATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTA
128 ATAAAT-TT-T-TTTCTAGTGAAACTATCTCAAGCGAGAT-AAATTTTTGTTTCGAGTAAAACTA
* *
3223522 TCTCAAGTGAAATGAATATTGTTTTAAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGA
189 TCTCAAGTGAGAT-AATATTGTTTTAAGAAAAAT-ATCTCAAGTGAGATAAAATTT-T-TTTCGA
3223587 GTGAAGA-TATCTTAAGTGAGATGAATCTTGCTTTAAG
250 GTGAA-ACTATCTTAAGTGAGATGAATCTTGCTTTAAG
* * ** ** * * *
3223624 AAAATCAATCTCAAGTGAGCTAAAATTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGAA-TC
1 AAAA-CTATCTCAAGTGAGATAAAA-TT-TGTTTTAAGAAAAACTATCTCAAGTGAGATAAATTT
* ** * * ** *
3223688 TTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTTGTGTTTCAAGTGAAACTATCTCAAG
63 TTGTTTTGAG-TGAAACT-ATCTCAAGCGAGATAAATCTTGT-TTT-AAGAAAAACAATCTCAAG
* * * * * * *
3223753 CGAGAT-AATTTTTTT-TAG-AAAAATAATTTTAAGTGAGATAAATCTTCTGTTTCGAGTAAAAC
124 TGAGATAAATTTTTTTCTAGTGAAACT-ATCTCAAGCGAGATAAAT-TTTTGTTTCGAGTAAAAC
* * *
3223815 TATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATATTTTGTTTC
187 TATCTCAAGTGAGATAATA-TTGTTTTAAGAAAAA-TATCTCAAGTGAGATAAA-ATTTT-TTTC
* *
3223880 GAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAG
248 GAGTGAAACTATCTTAAGTGAGATGAATCTTGCTTTAAG
3223919 AAAAACTATCTCAAGTGAGATAAA
1 -AAAACTATCTCAAGTGAGATAAA
3223943 TTTTTGTATT
Statistics
Matches: 506, Mismatches: 79, Indels: 59
0.79 0.12 0.09
Matches are distributed among these distances:
293 1 0.00
294 27 0.05
295 275 0.54
296 49 0.10
297 57 0.11
298 71 0.14
299 6 0.01
300 20 0.04
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (286 bp):
AAAACTATCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGATAAATTTTTG
TTTTGAGTGAAACTATCTCAAGCGAGATAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATA
AATTTTTTTCTAGTGAAACTATCTCAAGCGAGATAAATTTTTGTTTCGAGTAAAACTATCTCAAG
TGAGATAATATTGTTTTAAGAAAAATATCTCAAGTGAGATAAAATTTTTTTCGAGTGAAACTATC
TTAAGTGAGATGAATCTTGCTTTAAG
Found at i:3223642 original size:407 final size:406
Alignment explanation
Indices: 3223076--3223903 Score: 1200
Period size: 407 Copynumber: 2.0 Consensus size: 406
3223066 AGAAAAAATA
* * * * *
3223076 ATCTCAAGTGAGATAAAATTTTTGTTTTGAGTGAAACTATCTCAAGCGAGATGAATCTTATTTTG
1 ATCTCAAGTGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATGAATATTATTTTA
* * * *
3223141 AGAAAAACAATCTCAAGTGAGATAAAATTTTTGTTTCTAGTGAAACTATCTCAAGCGAGATAAAT
66 AGAAAAACAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAAT
* * *
3223206 CTGGTTTCAAGAAAATTAATTTCAAGTGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAG
131 CTGCTTTCAAGAAAATCAATCTCAAGTGAGATAAAAT-TTCTGTTTCGAGTGAAACTATCTCAAG
* *
3223270 CGAGATAAAAT-TTGTTTTAAG-AAAAACAATCTTAAGTGAGATAAATCTTCTGGTTCGAGTGAA
195 CGAGAT-AAATCTTGTTTTAAGAAAAAACAATCTCAAGTGAGATAAATCTTCTGGTTCAAGTGAA
* *
3223333 ACTATCTCAAGCGAAATAAAATTGTTTTAAGAAAAACT-ATCTTAAGTGAGATAAATTTTTTGTT
259 ACTATCTCAAGCGAAAT--AATTGTTTTAAGAAAAA-TAATCTTAAGTGAGATAAATCTTCTGTT
*
3223397 TCGAGTGAAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAA
321 TCGAGTAAAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAA
*
3223462 TCTTCTATTTCGAGTGAAACT
386 TATTCTATTTCGAGTGAAACT
* * *
3223483 ATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGTGAAATGAATATTGTTTTA
1 ATCTCAAGTGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATGAATATTATTTTA
* * * *
3223548 AGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGA-TATCTTAAGTGAGATGAA
66 AGAAAAACAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAA-ACTATCTCAAGCGAGATAAA
*
3223612 TCTTGCTTT-AAGAAAATCAATCTCAAGTGAGCTAAAATTTCTGTTTCGAGTGAAACTATCTCAA
130 TC-TGCTTTCAAGAAAATCAATCTCAAGTGAGATAAAATTTCTGTTTCGAGTGAAACTATCTCAA
* * * *
3223676 GCGAGATGAATCTTGTTTTAAGAAAAAAATAATCTCAAGTGAGATAAATCTTGTGTTTCAAGTGA
194 GCGAGATAAATCTTGTTTTAAG-AAAAAACAATCTCAAGTGAGATAAATCTTCTGGTTCAAGTGA
* * * *
3223741 AACTATCTCAAGCGAGATAATTTTTTTTAGAAAAATAATTTTAAGTGAGATAAATCTTCTGTTTC
258 AACTATCTCAAGCGAAATAATTGTTTTAAGAAAAATAATCTTAAGTGAGATAAATCTTCTGTTTC
* *
3223806 GAGTAAAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATA
323 GAGTAAAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAATA
* *
3223871 TTTTGTTTCGAGTGAAACT
388 TTCTATTTCGAGTGAAACT
3223890 ATCTCAAGTGAGAT
1 ATCTCAAGTGAGAT
3223904 GAATCTTGTT
Statistics
Matches: 375, Mismatches: 39, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
406 4 0.01
407 308 0.82
408 10 0.03
409 53 0.14
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (406 bp):
ATCTCAAGTGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGCGAAATGAATATTATTTTA
AGAAAAACAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAACTATCTCAAGCGAGATAAAT
CTGCTTTCAAGAAAATCAATCTCAAGTGAGATAAAATTTCTGTTTCGAGTGAAACTATCTCAAGC
GAGATAAATCTTGTTTTAAGAAAAAACAATCTCAAGTGAGATAAATCTTCTGGTTCAAGTGAAAC
TATCTCAAGCGAAATAATTGTTTTAAGAAAAATAATCTTAAGTGAGATAAATCTTCTGTTTCGAG
TAAAACTATCTCAAGCGAGATAAAATTTGTTTTAAGAAAAACGATCTCAAGTGAGATAAATATTC
TATTTCGAGTGAAACT
Found at i:3223880 original size:221 final size:221
Alignment explanation
Indices: 3223482--3223945 Score: 609
Period size: 221 Copynumber: 2.1 Consensus size: 221
3223472 CGAGTGAAAC
* * * *
3223482 TATCTCAAGCGAGATAAAATTTTTGCTTCGAGTGAAACTATCTCAAGTGAAATGAATATTGTTTT
1 TATCTCAAGTGAGAT-AAATTTGTGCTTCAAGTGAAACTATCTCAAGCGAAATGAATATTGTTTT
* * * *
3223547 AAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAGATATCTTAAGTGAGATGAA
65 AAGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAAATATCTCAAGCGAGATAAA
* *
3223612 TCTTGCTTTAAGAAAATCAATCTCAAGTGAGCTAAAATTTCTGTTTCGAGTGAAACTATCTCAAG
130 TCTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGAGTGAAACTATCTCAAG
3223677 CGAGATGAATCTTGTTTTAAGAAAAAAA
195 CGAGATGAATCTTGTTTTAAG-AAAAAA
* *
3223705 TAATCTCAAGTGAGATAAATCTTGTGTTTCAAGTGAAACTATCTCAAGCGAGAT-AAT-TT-TTT
1 T-ATCTCAAGTGAGATAAAT-TTGTGCTTCAAGTGAAACTATCTCAAGCGAAATGAATATTGTTT
* * * * *
3223767 TTAGAAAAATAATTTTAAGTGAGAT-AAATCTTCTGTTTCGAGT-AAAACTATCTCAAGCGAGAT
64 TAAGAAAAATAATCTCAAGTAAGATAAAAT-TTCTATTTCGAGTGAAAA-TATCTCAAGCGAGAT
* * *
3223830 AAAAT-TTGTTTTAAGAAAAACTATCTCGAGTGAGATAAATATTT-TGTTTCGAGTGAAACTATC
127 -AAATCTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAA-ATTTCTGTTTCGAGTGAAACTATC
* *
3223893 TCAAGTGAGATGAATCTTGTTTTAAGAAAAAC
190 TCAAGCGAGATGAATCTTGTTTTAAGAAAAAA
3223925 TATCTCAAGTGAGATAAATTT
1 TATCTCAAGTGAGATAAATTT
3223946 TTGTATTAAA
Statistics
Matches: 213, Mismatches: 22, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
218 2 0.01
219 18 0.08
220 13 0.06
221 122 0.57
222 9 0.04
223 8 0.04
224 41 0.19
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (221 bp):
TATCTCAAGTGAGATAAATTTGTGCTTCAAGTGAAACTATCTCAAGCGAAATGAATATTGTTTTA
AGAAAAATAATCTCAAGTAAGATAAAATTTCTATTTCGAGTGAAAATATCTCAAGCGAGATAAAT
CTTGCTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGTTTCGAGTGAAACTATCTCAAGC
GAGATGAATCTTGTTTTAAGAAAAAA
Found at i:3227801 original size:19 final size:20
Alignment explanation
Indices: 3227777--3227815 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3227767 GACAGCCATG
3227777 ATGCTAT-AAAAAAGTCATC
1 ATGCTATCAAAAAAGTCATC
3227796 ATGCTATCAAAAAAGTCATC
1 ATGCTATCAAAAAAGTCATC
3227816 CAAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (20 bp):
ATGCTATCAAAAAAGTCATC
Found at i:3244551 original size:44 final size:44
Alignment explanation
Indices: 3244500--3244609 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
3244490 TGTATTCCTG
*
3244500 GATGATATGTGCCTTCAAAAATTCCCCAACATTTATCATTTCTA
1 GATGATATGTGCCTTCAAAAATGCCCCAACATTTATCATTTCTA
* * * * *
3244544 TATGATAT-TGGCCTTCAAAAATGCCCCAATATTTGTTATTTCTG
1 GATGATATGT-GCCTTCAAAAATGCCCCAACATTTATCATTTCTA
*
3244588 GATGATATGGGCCTTCAAAAAT
1 GATGATATGTGCCTTCAAAAAT
3244610 ACAAAAACAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (44 bp):
GATGATATGTGCCTTCAAAAATGCCCCAACATTTATCATTTCTA
Found at i:3251716 original size:2 final size:2
Alignment explanation
Indices: 3251705--3251762 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
3251695 CATGTTAATA
3251705 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3251746 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
3251763 CATGCAAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3258245 original size:20 final size:20
Alignment explanation
Indices: 3258216--3258254 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3258206 AAAGCTCTTA
*
3258216 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
3258236 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
3258255 GTGGCAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Done.