Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_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: 3738426
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 16
Found at i:3075167 original size:4 final size:4
Alignment explanation
Indices: 3075158--3075183 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3075148 GCCTAAGAGA
3075158 GTTT GTTT GTTT GTTT GTTT GTTT GT
1 GTTT GTTT GTTT GTTT GTTT GTTT GT
3075184 AATTTATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (4 bp):
GTTT
Found at i:3076424 original size:16 final size:16
Alignment explanation
Indices: 3076405--3076451 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
3076395 GCTATTACTA
3076405 ATATTTATATTATTAT
1 ATATTTATATTATTAT
*
3076421 ATATTCTATATAATTAT
1 ATATT-TATATTATTAT
3076438 -TATTTCATATTATT
1 ATATTT-ATATTATT
3076452 GTTTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 1 0.04
16 16 0.59
17 10 0.37
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTATATTATTAT
Found at i:3076437 original size:25 final size:25
Alignment explanation
Indices: 3076346--3076437 Score: 64
Period size: 25 Copynumber: 3.6 Consensus size: 25
3076336 GTATGTTTAC
*
3076346 TATTA-TAATTATTAT-TTATTAGCA
1 TATTACTAATAATTATATTATTAG-A
* * * *
3076370 TAATTGCTATTCATTATTATTATTAGC
1 T-ATTACTAATAATTA-TATTATTAGA
* *
3076397 TATTACTAATATTTATATTATTATA
1 TATTACTAATAATTATATTATTAGA
3076422 TATT-CTATATAATTAT
1 TATTACTA-ATAATTAT
3076438 TATTTCATAT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
24 4 0.08
25 22 0.42
26 17 0.33
27 2 0.04
28 7 0.13
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (25 bp):
TATTACTAATAATTATATTATTAGA
Found at i:3076600 original size:20 final size:20
Alignment explanation
Indices: 3076575--3076632 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
3076565 TTTGGTTCAC
*
3076575 AGAATGTAAGATTGCCAGTG
1 AGAATGTAAGATTACCAGTG
*
3076595 AGAATGTAAGATTACCACTG
1 AGAATGTAAGATTACCAGTG
3076615 AGAATGTAAGATTACCAG
1 AGAATGTAAGATTACCAG
3076633 GGAATAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGTAAGATTACCAGTG
Found at i:3078608 original size:24 final size:25
Alignment explanation
Indices: 3078547--3078609 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
3078537 AATATTAAAA
3078547 ATTGAACATATAAATGAACATGTTC
1 ATTGAACATATAAATGAACATGTTC
* ** **
3078572 ATTCAA-AGCTAAATGATTATGTTC
1 ATTGAACATATAAATGAACATGTTC
3078596 A-TGAACATATAAAT
1 ATTGAACATATAAAT
3078610 AAGCACGTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
23 3 0.10
24 21 0.72
25 5 0.17
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (25 bp):
ATTGAACATATAAATGAACATGTTC
Found at i:3079328 original size:26 final size:26
Alignment explanation
Indices: 3079298--3079347 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
3079288 TTTGTTTCCA
3079298 ATTTAATT-CATTATTTAAATTTTAGT
1 ATTTAATTACATTATTT-AATTTTAGT
* *
3079324 ATTTATTTACGTTATTTAATTTTA
1 ATTTAATTACATTATTTAATTTTA
3079348 TTCCCGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (26 bp):
ATTTAATTACATTATTTAATTTTAGT
Found at i:3081946 original size:17 final size:16
Alignment explanation
Indices: 3081924--3081960 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
3081914 ATAGCCCAAC
3081924 ACGTTATAATATTTATA
1 ACGTTAT-ATATTTATA
3081941 ACG-T-TATATTTATA
1 ACGTTATATATTTATA
3081955 ACGTTA
1 ACGTTA
3081961 GTTACCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 5
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.67
15 2 0.11
16 1 0.06
17 3 0.17
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (16 bp):
ACGTTATATATTTATA
Found at i:3081951 original size:14 final size:14
Alignment explanation
Indices: 3081932--3081960 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3081922 ACACGTTATA
3081932 ATATTTATAACGTT
1 ATATTTATAACGTT
3081946 ATATTTATAACGTT
1 ATATTTATAACGTT
3081960 A
1 A
3081961 GTTACCTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
ATATTTATAACGTT
Found at i:3082504 original size:12 final size:12
Alignment explanation
Indices: 3082487--3082513 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3082477 GAACACGCAG
3082487 TTTTCCACCAAC
1 TTTTCCACCAAC
3082499 TTTTCCACCAAC
1 TTTTCCACCAAC
3082511 TTT
1 TTT
3082514 CATGATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTTCCACCAAC
Found at i:3083124 original size:203 final size:203
Alignment explanation
Indices: 3082781--3083180 Score: 577
Period size: 203 Copynumber: 2.0 Consensus size: 203
3082771 CGATACAAAT
* * ** * * * ** *
3082781 AAAAAATGTATTGCTCCATAGTAATATTACATGTAAAAATATAATAAAACCGGTCTCGAATTGAC
1 AAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATAACAAAACAGGTCTAAAAATGAC
* * * * * *
3082846 AAAACCGGTAAAACGATACCTAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
66 AAAACCGATAAAACAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAATATCAAAACTT
*
3082911 TTGAAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGTTACTTTAAAAAAATATATCG
131 TTGAAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCG
3082976 ATACTTTA
196 ATACTTTA
* *
3082984 AAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATGACAAAACAGTTCTAAAAATGAC
1 AAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATAACAAAACAGGTCTAAAAATGAC
* *
3083049 AAAACCGATAAAA-AATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCAAAATTT
66 AAAACCGATAAAACAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAATATCAAAA-CT
* *
3083113 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATC
130 TTTGAAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATC
3083178 GAT
195 GAT
3083181 CCATAACAAT
Statistics
Matches: 173, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
202 42 0.24
203 131 0.76
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (203 bp):
AAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATAACAAAACAGGTCTAAAAATGAC
AAAACCGATAAAACAATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAATATCAAAACTT
TTGAAATTTAAAAAAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCG
ATACTTTA
Found at i:3083305 original size:182 final size:182
Alignment explanation
Indices: 3082973--3083644 Score: 862
Period size: 182 Copynumber: 3.7 Consensus size: 182
3082963 AAAAAATATA
* * * *
3082973 TCGATACTTTAAAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATGACAAAACAGTT
1 TCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
* * * *
3083038 CTAAAAATGACAAAACCGATAAA-AAATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAA
66 CTCAAAATGACAAAACCGATAAAGAACTACCGAATATGTTGAAAGTATCGATAATTTAATATAAA
* *
3083102 TATCAAAATTTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTG
131 TATCAACA-CTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTG
*
3083155 TCGATACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
1 TCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
* * * * *** * * *
3083220 CCCAAAATGACAAATCCGGTAATGCGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAG
66 CTCAAAATGACAAAACCGATAAAGAACTACCGAATATGTTGAAAGTATCGATAATTTAATATAAA
* * * * *
3083285 TATCGACACTTTCT-GAATTTAAAAGAAAAGAAGTTATAGCGCCTAAAAAATA
131 TATCAACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTG
* ** * * * **
3083337 TCGATATTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAATTATGACAAAATCAAT
1 TCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
* * * * * *
3083402 ATCAAAATTACAAAACTGATAAAGAACTATCAAATATGTTGAAAGTATCGATACTTTAATATAAA
66 CTCAAAATGACAAAACCGATAAAGAACTACCGAATATGTTGAAAGTATCGATAATTTAATATAAA
* *
3083467 TATCTACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTG
131 TATCAACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTG
* *
3083519 TCGATACTTTAAAAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGACAAAATCGGT
1 TCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
** * ** *
3083584 CTCAAAATGACAAAATAGGTAAAGCGCTACCGAATATGTTGAAAGTATCGATACTTTAATA
66 CTCAAAATGACAAAACCGATAAAGAACTACCGAATATGTTGAAAGTATCGATAATTTAATA
3083645 AGTACGCGTA
Statistics
Matches: 418, Mismatches: 69, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
181 1 0.00
182 373 0.89
183 44 0.11
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (182 bp):
TCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
CTCAAAATGACAAAACCGATAAAGAACTACCGAATATGTTGAAAGTATCGATAATTTAATATAAA
TATCAACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTG
Found at i:3083512 original size:364 final size:364
Alignment explanation
Indices: 3082964--3083644 Score: 1021
Period size: 364 Copynumber: 1.9 Consensus size: 364
3082954 GTTACTTTAA
3082964 AAAAATATATCGATACTTTAAAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATGAC
1 AAAAATATATCGATACTTTAAAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATGAC
* ** *
3083029 AAAACAGTTCTAAAAATGACAAAACCGATAAAAAATACCGGATATGTTGAAAGTGTCGATAATTT
66 AAAACAATTC-AAAAATGACAAAACCGATAAAAAATACCAAATATGTTGAAAGTATCGATAATTT
*
3083094 AATATAAATATCAAAATTTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGA
130 AATATAAATATCAAAATCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGA
3083159 TACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCA
195 TACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCA
* * * * *
3083224 AAATGAC-AAATCCGGTAATGCGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
260 AAATGACAAAAT-AGGTAAAGCGCTACCGAATATGTTGAAAGTATCGATAATTTAATATAAGTAT
3083288 CGACACTTTCTGAATTTAAAAGAAAAGAAGTTATAGCGCCT
324 CGACACTTTCTGAATTTAAAAGAAAAGAAGTTATAGCGCCT
* ** * *
3083329 AAAAA-ATATCGATATTTTATGAAAATGTATCGATCCATAACAATATAACA-GCTAAAATTATGA
1 AAAAATATATCGATACTTTAAAAAAATGTATAGATCCATAACAATATAACATG-TAAAAATATGA
* * * * *
3083392 CAAAATCAATATC-AAAATTACAAAACTGATAAAGAACTATCAAATATGTTGAAAGTATCGATAC
65 CAAAA-CAAT-TCAAAAATGACAAAACCGATAAA-AAATACCAAATATGTTGAAAGTATCGATAA
* * *
3083456 TTTAATATAAATATCTACA-CTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCCTATAAAGTGT
127 TTTAATATAAATATCAAAATCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGT
* * *
3083520 CGATACTTTAAAAAAATGTATCGATTCATAACAATATAACAGGTAAAAATATGACAAAATCGGTC
192 CGATACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTC
* *
3083585 TCAAAATGACAAAATAGGTAAAGCGCTACCGAATATGTTGAAAGTATCGATACTTTAATA
257 CCAAAATGACAAAATAGGTAAAGCGCTACCGAATATGTTGAAAGTATCGATAATTTAATA
3083645 AGTACGCGTA
Statistics
Matches: 283, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
363 1 0.00
364 227 0.80
365 53 0.19
366 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (364 bp):
AAAAATATATCGATACTTTAAAAAAATGTATAGATCCATAACAATATAACATGTAAAAATATGAC
AAAACAATTCAAAAATGACAAAACCGATAAAAAATACCAAATATGTTGAAAGTATCGATAATTTA
ATATAAATATCAAAATCTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGAT
ACTTTAAAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCAA
AATGACAAAATAGGTAAAGCGCTACCGAATATGTTGAAAGTATCGATAATTTAATATAAGTATCG
ACACTTTCTGAATTTAAAAGAAAAGAAGTTATAGCGCCT
Found at i:3084135 original size:23 final size:23
Alignment explanation
Indices: 3084085--3084129 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3084075 TGCCTATTTT
* *
3084085 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
3084108 ATTATATAAACGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
3084130 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:3084149 original size:87 final size:87
Alignment explanation
Indices: 3084001--3084163 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
3083991 AAATAGGTCA
* *
3084001 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGGTAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
3084066 CCAGTTAAATGCCTATTTTATT
66 CCAGTTAAATGCCTATTTTATT
*
3084088 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
3084153 CCAGTTAAATG
66 CCAGTTAAATG
3084164 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCAGTTAAATGCCTATTTTATT
Found at i:3084861 original size:18 final size:20
Alignment explanation
Indices: 3084827--3084865 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
3084817 TTCTCTTAAA
3084827 AAAATAATTTTTATATATTT
1 AAAATAATTTTTATATATTT
3084847 AAAAT-ATTTTT-TATATTT
1 AAAATAATTTTTATATATTT
3084865 A
1 A
3084866 TTAAGTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAAATAATTTTTATATATTT
Found at i:3084928 original size:23 final size:23
Alignment explanation
Indices: 3084891--3084940 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
3084881 TATTATTCAC
*
3084891 TTAAAATTTTATAAATTTAATTTT
1 TTAAAATTTTATAAAATT-ATTTT
3084915 TTAAAA-TTTATAAAATTATTTT
1 TTAAAATTTTATAAAATTATTTT
3084937 TTAA
1 TTAA
3084941 CATAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 10 0.40
24 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAAATTTTATAAAATTATTTT
Found at i:3088194 original size:20 final size:20
Alignment explanation
Indices: 3088169--3088226 Score: 116
Period size: 20 Copynumber: 2.9 Consensus size: 20
3088159 AATATACAAT
3088169 ATAAAGCTTAAGGGTGCATA
1 ATAAAGCTTAAGGGTGCATA
3088189 ATAAAGCTTAAGGGTGCATA
1 ATAAAGCTTAAGGGTGCATA
3088209 ATAAAGCTTAAGGGTGCA
1 ATAAAGCTTAAGGGTGCA
3088227 AAAATTCTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (20 bp):
ATAAAGCTTAAGGGTGCATA
Found at i:3089258 original size:39 final size:39
Alignment explanation
Indices: 3089187--3089279 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
3089177 AAAAAAAATT
* * *
3089187 AATTCATAA-TTCTCAAATTTTTTGACTCTAACATTCTA
1 AATTCATAATTTCTCAAATTTTGTCACTATAACATTCTA
* *
3089225 AATTCCTAATTTCTTAAATTTTGTCACTATAACATTCTA
1 AATTCATAATTTCTCAAATTTTGTCACTATAACATTCTA
*
3089264 AATTCTTAATTTCTCA
1 AATTCATAATTTCTCA
3089280 CCTATCTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 8 0.17
39 39 0.83
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.46
Consensus pattern (39 bp):
AATTCATAATTTCTCAAATTTTGTCACTATAACATTCTA
Found at i:3090121 original size:21 final size:21
Alignment explanation
Indices: 3090092--3090132 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3090082 ATACTGCAGG
3090092 GACAATATCGATACTCCCCTT
1 GACAATATCGATACTCCCCTT
* *
3090113 GACAGTATCGATACTTCCCT
1 GACAATATCGATACTCCCCT
3090133 CTAAAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.29
Consensus pattern (21 bp):
GACAATATCGATACTCCCCTT
Found at i:3090718 original size:21 final size:21
Alignment explanation
Indices: 3090678--3090717 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
3090668 GGAGGAAGAA
3090678 GAAGAAAATGGAAAATGAGAG
1 GAAGAAAATGGAAAATGAGAG
3090699 GAAGAAAAT-G-AAATGAGAG
1 GAAGAAAATGGAAAATGAGAG
3090718 AATATAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (21 bp):
GAAGAAAATGGAAAATGAGAG
Found at i:3094251 original size:20 final size:20
Alignment explanation
Indices: 3094223--3094260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3094213 ATTTGTAATA
3094223 ATTACATTTGTGTTGTGGATG
1 ATTACATTTGTGTT-TGGATG
3094244 ATTA-ATTTGTGTTTGGA
1 ATTACATTTGTGTTTGGA
3094261 GACTTGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (20 bp):
ATTACATTTGTGTTTGGATG
Found at i:3101170 original size:16 final size:16
Alignment explanation
Indices: 3101126--3101172 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
3101116 TTTGGCTAAG
*
3101126 TTATCCCTATC-TTAT
1 TTATCCTTATCTTTAT
*
3101141 TAAATCCATTATCTTTAT
1 T-TATCC-TTATCTTTAT
3101159 TTATCCTTATCTTT
1 TTATCCTTATCTTT
3101173 TTATTACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 8 0.31
18 5 0.19
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATCCTTATCTTTAT
Found at i:3102693 original size:38 final size:39
Alignment explanation
Indices: 3102586--3102695 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
3102576 AATTTCCAAC
* * *
3102586 AAAATAAATTCAACGATTTATTTCTTTTTACAAAACAGG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACAAG
* *
3102625 AAAATAAATCCAACGATTTATTTCCTTTTACAAGATAAG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACAAG
3102664 AAAATAAATCCAACGA-TTATTTCCTTTTACAA
1 AAAATAAATCCAACGATTTATTTCCTTTTACAA
3102696 CTATAATCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 16 0.24
39 50 0.76
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (39 bp):
AAAATAAATCCAACGATTTATTTCCTTTTACAAAACAAG
Found at i:3102758 original size:57 final size:56
Alignment explanation
Indices: 3102661--3102808 Score: 226
Period size: 57 Copynumber: 2.6 Consensus size: 56
3102651 TTTACAAGAT
* *
3102661 AAGAAAATAAATCCAACGATTATTTCCTTTTACAACTATAATCATATAAGATTATC
1 AAGAAAATAAATCCAACTATTATTTCCTTTTACAACTATAACCATATAAGATTATC
*
3102717 AAGAAAATAAATCCAACTATTCATTTCCTTTTACAATTATAACCATATAAGATTATC
1 AAGAAAATAAATCCAACTATT-ATTTCCTTTTACAACTATAACCATATAAGATTATC
* *
3102774 AAGAAAAT-AATTCAACTATTTATTTCATTTTACAA
1 AAGAAAATAAATCCAACTA-TTATTTCCTTTTACAA
3102809 AACAGGAAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
56 42 0.49
57 43 0.51
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.36
Consensus pattern (56 bp):
AAGAAAATAAATCCAACTATTATTTCCTTTTACAACTATAACCATATAAGATTATC
Found at i:3102807 original size:190 final size:185
Alignment explanation
Indices: 3102586--3102993 Score: 497
Period size: 190 Copynumber: 2.2 Consensus size: 185
3102576 AATTTCCAAC
*
3102586 AAAATAAATTCAACGATTTATTTCTTTTTACAAAACAGGAAAATAAATCCAACGATTTATTTCCT
1 AAAATAAATTCAACGATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACGATTTATTT--T
* *
3102651 TTTACAAGATAA-GAAAATAAATCCAACGA-TTATTTCCTTTTACAACTATAATCATAT-AAGAT
64 TTTACAA-A-AATGAAAATAAATCCAACGATTTATTTCCTTTTACAAATAGAATCAT-TCAAGAT
* *
3102713 TATCAAGAAAATAAATCCAACT-ATTCATTTCCTTTTAC-AATTATAACCATATAAGATT-ATCA
126 TATCAAGAAAATAAATCCAA-TGA-T--TTT--TTTTACAAATCAAAACCATATAAGATTCA-CA
3102775 AG
184 AG
* *
3102777 AAAAT-AATTCAACTATTTATTTCATTTTACAAAACAGGAAAATAAATCTAACGATTTATTTTTT
1 AAAATAAATTCAACGATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACGATTTATTTTTT
* * * * * * *
3102841 TATAAAAATTGAAAATAAATTCGATGATTTATTTCCTTTTTCAAATAGAATCATTCAGGATTCTC
66 TACAAAAA-TGAAAATAAATCCAACGATTTATTTCCTTTTACAAATAGAATCATTCAAGATTATC
* * *
3102906 AAGAAAATAAATTCAATGATTTTTTTTACAAATCAAAATCATATAAGATTCACAGG
130 AAGAAAATAAATCCAATGATTTTTTTTACAAATCAAAACCATATAAGATTCACAAG
3102962 AAAATAAATTCAACGATTTATTTCATTTTACA
1 AAAATAAATTCAACGATTTATTTCATTTTACA
3102994 TGATAGATTC
Statistics
Matches: 191, Mismatches: 18, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
184 6 0.03
185 25 0.13
186 31 0.16
187 1 0.01
188 24 0.13
189 46 0.24
190 53 0.28
191 5 0.03
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (185 bp):
AAAATAAATTCAACGATTTATTTCATTTTACAAAACAGGAAAATAAATCCAACGATTTATTTTTT
TACAAAAATGAAAATAAATCCAACGATTTATTTCCTTTTACAAATAGAATCATTCAAGATTATCA
AGAAAATAAATCCAATGATTTTTTTTACAAATCAAAACCATATAAGATTCACAAG
Found at i:3103081 original size:43 final size:44
Alignment explanation
Indices: 3103008--3103090 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 44
3102998 AGATTCATTT
3103008 AAGATTTCTAAGAAAATAAATTCAATAATTTA-TTTCTTTATTC
1 AAGATTTCTAAGAAAATAAATTCAATAATTTATTTTCTTTATTC
**
3103051 AAGA-TTCTCAAGAAAATAAATT-TTTAAATTTATTTTCTTT
1 AAGATTTCT-AAGAAAATAAATTCAAT-AATTTATTTTCTTT
3103091 TACAAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 5 0.14
43 23 0.66
44 7 0.20
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (44 bp):
AAGATTTCTAAGAAAATAAATTCAATAATTTATTTTCTTTATTC
Found at i:3103141 original size:58 final size:58
Alignment explanation
Indices: 3103051--3103280 Score: 241
Period size: 58 Copynumber: 3.9 Consensus size: 58
3103041 TTCTTTATTC
* * *
3103051 AAGATTCTCAAGAAAATAAATTTTTAA--ATTTATTTTCTTTTACAAA-ATAGAATCATTT
1 AAGATTCTCAAGAAAATAAA--TTCAACGATTTATTTTC-CTTACAAAGTTAGAATCATTT
* *
3103109 AAGATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAATTTAGAATCATTC
1 AAGATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTT
* * * * *
3103167 AAGATTCTTAAAGGAAATAAATTCTACTATTTATTTTCCTTACAAAGTTAGAATCGTTT
1 AAGATTC-TCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTT
* * * * * * * *
3103226 AAAATTCTCTAGGATATAAATTTAACGAGTTATTTTCCTTACAATGTTATAATCA
1 AAGATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCA
3103281 ATGCAATATT
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
56 4 0.03
57 7 0.05
58 85 0.58
59 50 0.34
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (58 bp):
AAGATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTT
Found at i:3103165 original size:159 final size:155
Alignment explanation
Indices: 3102893--3103190 Score: 361
Period size: 159 Copynumber: 1.9 Consensus size: 155
3102883 AAATAGAATC
* *
3102893 ATTCAGGATTCTCAAGAAAATAAATTCAATGATTTTTTTTACAAATCAAAATCATATAAGATTCA
1 ATTCAAGATTCTCAAGAAAATAAATTAAATGATTTTTTTTACAAATCAAAATCATATAAGATTCA
* ** * * *
3102958 CAGGAAAATAAATTCAACGATTTATTTCATTTTACATGATAGATTCATTTAAGATT-TCT-AAGA
66 CAAGAAAATAAATTCAACGATTTATTTCATTACAAATGATAGAATCATTCAAGATTCT-TAAAGA
3103021 AAATAAATTCAATAATTTATTTCTTT
130 AAATAAATTCAATAATTTATTTCTTT
* * *
3103047 ATTCAAGATTCTCAAGAAAATAAATTTTTAAATTTATTTTCTTTTACAAAAT-AGAATCATTTAA
1 ATTCAAGATTCTCAAGAAAATAAA---TTAAA-TGATTTT-TTTTAC-AAATCAAAATCATATAA
* * *
3103111 GATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAAT-TTAGAATCATTCAAGATTCT
60 GATTCACAAGAAAATAAATTCAACGATTTA-TTTCATTACAAATGATAGAATCATTCAAGATTCT
*
3103175 TAAAGGAAATAAATTC
124 TAAAGAAAATAAATTC
3103191 TACTATTTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
154 23 0.19
157 4 0.03
158 6 0.05
159 60 0.50
160 27 0.22
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (155 bp):
ATTCAAGATTCTCAAGAAAATAAATTAAATGATTTTTTTTACAAATCAAAATCATATAAGATTCA
CAAGAAAATAAATTCAACGATTTATTTCATTACAAATGATAGAATCATTCAAGATTCTTAAAGAA
AATAAATTCAATAATTTATTTCTTT
Found at i:3103280 original size:117 final size:116
Alignment explanation
Indices: 3103047--3103269 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 116
3103037 TTATTTCTTT
* * * *
3103047 ATTCAAGATTCTCAAGAAAATAAATTTTTAAATTTATTTTCTTTTACAAAATAGAATCATTTAAG
1 ATTCAAGATTCTAAAGAAAATAAATTTCTAAATTTATTTTCTCTTACAAAATAGAATCATTTAAA
*
3103112 ATTCTCAAGAAAATAAATTCAACGATTTATTTTCCTTACAAATTTAGAATC
66 ATTCTCAAGAAAATAAATTCAACGAGTTATTTTCCTTACAAATTTAGAATC
* * * *
3103163 ATTCAAGATTCTTAAAGGAAATAAA-TTCTACTATTTATTTTC-CTTACAAAGTTAGAATCGTTT
1 ATTCAAGATTC-TAAAGAAAATAAATTTCTA-AATTTATTTTCTCTTACAAA-ATAGAATCATTT
* * * *
3103226 AAAATTCTCTAGGATATAAATTTAACGAGTTATTTTCCTTACAA
63 AAAATTCTCAAGAAAATAAATTCAACGAGTTATTTTCCTTACAA
3103270 TGTTATAATC
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
116 22 0.24
117 69 0.76
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (116 bp):
ATTCAAGATTCTAAAGAAAATAAATTTCTAAATTTATTTTCTCTTACAAAATAGAATCATTTAAA
ATTCTCAAGAAAATAAATTCAACGAGTTATTTTCCTTACAAATTTAGAATC
Found at i:3103511 original size:45 final size:45
Alignment explanation
Indices: 3103457--3103646 Score: 170
Period size: 45 Copynumber: 4.2 Consensus size: 45
3103447 TTAGCAAACA
* *
3103457 AATAGTCAAAGGGAACTAATCCTTTGATTTTAATTTTCGTAACCC
1 AATAATCAAAGGGAACTAATCATTTGATTTTAATTTTCGTAACCC
* * * * * *
3103502 AATATTCAAAAGTAACTAATCATTTAATTTTAATTTTCATAACCG
1 AATAATCAAAGGGAACTAATCATTTGATTTTAATTTTCGTAACCC
* * * * *
3103547 AGTAATCGAAA-AGAACAAATCATTTGATTTTAATTTTGGCAACCC
1 AATAATC-AAAGGGAACTAATCATTTGATTTTAATTTTCGTAACCC
* * * * *
3103592 AATAATC-AAGAGGAACTAATCCTTTTATTTTACTTTT-GACAATCC
1 AATAATCAAAG-GGAACTAATCATTTGATTTTAATTTTCG-TAACCC
3103637 AATAATCAAA
1 AATAATCAAA
3103647 AACTTTATAT
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 108 0.93
46 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (45 bp):
AATAATCAAAGGGAACTAATCATTTGATTTTAATTTTCGTAACCC
Found at i:3103643 original size:90 final size:90
Alignment explanation
Indices: 3103469--3103648 Score: 218
Period size: 90 Copynumber: 2.0 Consensus size: 90
3103459 TAGTCAAAGG
* * * * *
3103469 GAACTAATCCTTTGATTTTAATTTTCGTAACCCAATATTCAAAAGTAACTAATCATTTAATTTTA
1 GAACAAATCATTTGATTTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCATTTAATTTTA
* * *
3103534 ATTTTCATAACCGAGTAATCGAAAA
66 ATTTTCACAACCGAATAATCAAAAA
* * * *
3103559 GAACAAATCATTTGATTTTAATTTTGGCAACCCAATAATCAAGAGGAACTAATCCTTTTATTTTA
1 GAACAAATCATTTGATTTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCATTTAATTTTA
* *
3103624 CTTTTGACAATCC-AATAATCAAAAA
66 ATTTTCACAA-CCGAATAATCAAAAA
3103649 CTTTATATTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
90 73 0.97
91 2 0.03
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (90 bp):
GAACAAATCATTTGATTTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCATTTAATTTTA
ATTTTCACAACCGAATAATCAAAAA
Found at i:3105898 original size:2 final size:2
Alignment explanation
Indices: 3105891--3105918 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3105881 TTTTGAATTA
3105891 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
3105919 TTATTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3106142 original size:2 final size:2
Alignment explanation
Indices: 3106135--3106166 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3106125 ATTTTATTTC
3106135 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3106167 CTTCTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3110095 original size:8 final size:9
Alignment explanation
Indices: 3110084--3110130 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
3110074 ATTAAGTTCA
3110084 AACATCCA-
1 AACATCCAT
3110092 AACATCCAT
1 AACATCCAT
*
3110101 ATCATCCA-
1 AACATCCAT
3110109 AACATCCAT
1 AACATCCAT
*
3110118 ATCATCCAT
1 AACATCCAT
3110127 AACA
1 AACA
3110131 AACAAATCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 15 0.45
9 18 0.55
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
AACATCCAT
Found at i:3110108 original size:17 final size:17
Alignment explanation
Indices: 3110086--3110130 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
3110076 TAAGTTCAAA
3110086 CATCCAAACATCCATAT
1 CATCCAAACATCCATAT
3110103 CATCCAAACATCCATAT
1 CATCCAAACATCCATAT
3110120 CATCCATAACA
1 CATCCA-AACA
3110131 AACAAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (17 bp):
CATCCAAACATCCATAT
Found at i:3111962 original size:23 final size:23
Alignment explanation
Indices: 3111933--3111980 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
3111923 GGGTATCAGT
3111933 CCCATTCAAA-GAGGGTATCGATA
1 CCCATTCAAATG-GGGTATCGATA
*
3111956 CCCATTCAAATGGGGTGTCGATA
1 CCCATTCAAATGGGGTATCGATA
3111979 CC
1 CC
3111981 TAACGCACAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
CCCATTCAAATGGGGTATCGATA
Found at i:3115636 original size:20 final size:20
Alignment explanation
Indices: 3115598--3115636 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3115588 TAAGCTTTAA
*
3115598 GATCATCAATTTCTTTTGAT
1 GATCATCAATTTCTCTTGAT
3115618 GATCAT-AATTTACTCTTGA
1 GATCATCAATTT-CTCTTGA
3115637 AAGTAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (20 bp):
GATCATCAATTTCTCTTGAT
Found at i:3115789 original size:22 final size:22
Alignment explanation
Indices: 3115746--3115786 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
3115736 AAGACTTTTT
*
3115746 TCATTTTTTTAATTTTGAAATA
1 TCATTTTTGTAATTTTGAAATA
3115768 TCATTTTTGT-ATTTTGAAA
1 TCATTTTTGTAATTTTGAAA
3115787 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TCATTTTTGTAATTTTGAAATA
Found at i:3122580 original size:22 final size:22
Alignment explanation
Indices: 3122554--3122601 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3122544 TCTATTACCT
3122554 TACCTTACAATCAGAGATGCCA
1 TACCTTACAATCAGAGATGCCA
3122576 TACCTTACAATCAGAGATGCCA
1 TACCTTACAATCAGAGATGCCA
3122598 TACC
1 TACC
3122602 CGTTGACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (22 bp):
TACCTTACAATCAGAGATGCCA
Found at i:3132336 original size:21 final size:21
Alignment explanation
Indices: 3132310--3132353 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3132300 TTTAAGAAGC
*
3132310 ACGAAGCTAAATAAATAACAT
1 ACGAAGCTAAAGAAATAACAT
* *
3132331 ACGAAGTTAAAGAAATTACAT
1 ACGAAGCTAAAGAAATAACAT
3132352 AC
1 AC
3132354 TTGCTATCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (21 bp):
ACGAAGCTAAAGAAATAACAT
Found at i:3153341 original size:21 final size:21
Alignment explanation
Indices: 3153315--3153355 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
3153305 TATTTATTGT
3153315 AGGCATGCAAAGTACATGTGG
1 AGGCATGCAAAGTACATGTGG
3153336 AGGCATGCAAAGTACATGTG
1 AGGCATGCAAAGTACATGTG
3153356 CCGGCATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (21 bp):
AGGCATGCAAAGTACATGTGG
Found at i:3153361 original size:21 final size:21
Alignment explanation
Indices: 3153315--3153363 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
3153305 TATTTATTGT
*
3153315 AGGCATGCAAAGTACATGTGG
1 AGGCATGCAAAGTACATGTGC
3153336 AGGCATGCAAAGTACATGTGC
1 AGGCATGCAAAGTACATGTGC
*
3153357 CGGCATG
1 AGGCATG
3153364 GGGAGAGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.33, T:0.18
Consensus pattern (21 bp):
AGGCATGCAAAGTACATGTGC
Found at i:3158787 original size:14 final size:13
Alignment explanation
Indices: 3158736--3158796 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
3158726 AATCAGAACA
3158736 AAAAGAAAAAAGAG
1 AAAA-AAAAAAGAG
* *
3158750 -GAAAAACAA-AG
1 AAAAAAAAAAGAG
*
3158761 AAAAAAGAAAGAG
1 AAAAAAAAAAGAG
3158774 AAAATAAAAAAGAG
1 AAAA-AAAAAAGAG
3158788 AAACAAAAA
1 AAA-AAAAA
3158797 CAAAGGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 2 0.05
12 11 0.30
13 8 0.22
14 15 0.41
15 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:3158795 original size:13 final size:12
Alignment explanation
Indices: 3158741--3158796 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
3158731 GAACAAAAAG
3158741 AAAAAAGAGGAAA
1 AAAAAAGA-GAAA
*
3158754 AACAAAGA-AAA
1 AAAAAAGAGAAA
*
3158765 AAGAAAGAGAAAA
1 AAAAAAGAG-AAA
3158778 TAAAAAAGAGAAA
1 -AAAAAAGAGAAA
3158791 CAAAAA
1 -AAAAA
3158797 CAAAGGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 10 0.28
13 18 0.50
14 8 0.22
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (12 bp):
AAAAAAGAGAAA
Found at i:3159898 original size:32 final size:30
Alignment explanation
Indices: 3159862--3159977 Score: 119
Period size: 32 Copynumber: 3.7 Consensus size: 30
3159852 TGAACAATGA
3159862 GGGCATATTTGAAGATTCAACATCAAATTTTG
1 GGGCAT-TTTG-AGATTCAACATCAAATTTTG
** * *
3159894 GGGCATTTT--TTTTAAACATCAAATGTTG
1 GGGCATTTTGAGATTCAACATCAAATTTTG
3159922 GGGCATTTTTTGAGATTCAACATCAAATTTTG
1 GGGCA--TTTTGAGATTCAACATCAAATTTTG
*
3159954 GGGCATCTTTGGGAATTCAACATC
1 GGGCAT-TTTGAG-ATTCAACATC
3159978 CTGATGCAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
28 20 0.29
30 5 0.07
31 8 0.12
32 36 0.52
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (30 bp):
GGGCATTTTGAGATTCAACATCAAATTTTG
Found at i:3159922 original size:28 final size:29
Alignment explanation
Indices: 3159880--3159959 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 29
3159870 TTGAAGATTC
3159880 AACATCAAATTTTGGGGCATTTTTT-TTA
1 AACATCAAATTTTGGGGCATTTTTTATTA
* *
3159908 AACATCAAATGTTGGGGCATTTTTTGAGATTC
1 AACATCAAATTTTGGGGCATTTTTT---ATTA
3159940 AACATCAAATTTTGGGGCAT
1 AACATCAAATTTTGGGGCAT
3159960 CTTTGGGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 24 0.53
32 21 0.47
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (29 bp):
AACATCAAATTTTGGGGCATTTTTTATTA
Found at i:3160683 original size:106 final size:105
Alignment explanation
Indices: 3160555--3160875 Score: 455
Period size: 106 Copynumber: 3.0 Consensus size: 105
3160545 ATATCGTGCC
* *
3160555 ACTCGAGACAACACAAGTTCAACTCCATAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
*
3160620 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAG-GAAGGATATTGG
* * *
3160661 ACTCAAGACAACACAAGTTCAACTTCACAACGATGGGACGACTAGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
*
3160726 AATTTCGGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAG-GAAGGATATTGG
* * * * **
3160767 ACTCGAGACAGCACAAGCTCAACTTCACAACGAAGGGACGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * *
3160832 AGTTCCAGAGCCAATTTTAAATTCACGACGG-AGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCAC-A-GGAAGGATATTGG
3160873 ACT
1 ACT
3160876 TGGAACAATA
Statistics
Matches: 192, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
106 189 0.98
107 2 0.01
108 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (105 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTTAACTTCACAGGAAGGATATTGG
Found at i:3161320 original size:37 final size:37
Alignment explanation
Indices: 3161245--3161331 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
3161235 ATTGAAAACA
* * * **
3161245 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
3161281 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
3161318 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
3161332 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:3161332 original size:87 final size:87
Alignment explanation
Indices: 3161134--3161312 Score: 313
Period size: 87 Copynumber: 2.1 Consensus size: 87
3161124 GACAGTTTCT
*
3161134 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
3161199 CTTGAAACGAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
* * *
3161221 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
3161286 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
3161308 CTTGA
1 CTTGA
3161313 GACAGTTTCT
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:3161332 original size:102 final size:102
Alignment explanation
Indices: 3161221--3161460 Score: 363
Period size: 102 Copynumber: 2.4 Consensus size: 102
3161211 TTTTGTCTCC
* *
3161221 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
3161286 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
66 CTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * ** **
3161323 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTTTTGAGATAGTTTTT
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
*
3161388 CTTAAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
3161425 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
3161461 CACAAAATAT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 124 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTAAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:3161415 original size:37 final size:37
Alignment explanation
Indices: 3161361--3161433 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
3161351 CTTTGAAATT
** *
3161361 AATTTTGTCTCTTTTGAGATAGTTTTTCTTAAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCTCTTAAAACAA
*
3161398 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCTCTTAAAACA
3161434 TAAACCTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCTCTTAAAACAA
Found at i:3161555 original size:37 final size:36
Alignment explanation
Indices: 3161505--3161599 Score: 149
Period size: 34 Copynumber: 2.7 Consensus size: 36
3161495 GTTTTCAGAC
*
3161505 AGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGAT
1 AGTTTCCCTTGAAACAAAATCTT-TCTCTCTTGAGAA
3161542 AGTTTCCCTTGAAAC-AAAT-TTTCTCTCTTGAGAA
1 AGTTTCCCTTGAAACAAAATCTTTCTCTCTTGAGAA
*
3161576 AGTTTCCCTTGTAACAAAATCTTT
1 AGTTTCCCTTGAAACAAAATCTTT
3161600 GAATATCTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
34 26 0.48
35 6 0.11
36 7 0.13
37 15 0.28
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (36 bp):
AGTTTCCCTTGAAACAAAATCTTTCTCTCTTGAGAA
Found at i:3161674 original size:37 final size:35
Alignment explanation
Indices: 3161613--3161727 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 35
3161603 TATCTTTTCC
* *
3161613 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGAAATAAATTT-GTCTCTCTTGAGACAGTTTCTT
*
3161649 TTAGAACTAAGATTTGTCTCTCTTGAGACAGTTTCTT
1 TT-GAAATAA-ATTTGTCTCTCTTGAGACAGTTTCTT
* *
3161686 TTGAAATAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAATAAA-TTTGTCTCTCTTGAGACAGTTTCTT
3161722 TTGAAA
1 TTGAAA
3161728 AAAAAACCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 37 0.53
37 28 0.40
38 4 0.06
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (35 bp):
TTGAAATAAATTTGTCTCTCTTGAGACAGTTTCTT
Found at i:3162936 original size:24 final size:23
Alignment explanation
Indices: 3162892--3162937 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3162882 TCATGTAATA
*
3162892 TTTTTTACATTTTATGCATTTTC
1 TTTTTTACATTTTATACATTTTC
* *
3162915 TTTTTTACTTTTGTATATATTTT
1 TTTTTTACATTT-TATACATTTT
3162938 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATACATTTTC
Found at i:3162939 original size:18 final size:18
Alignment explanation
Indices: 3162916--3162950 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3162906 TGCATTTTCT
3162916 TTTTTACTTTTGTATATA
1 TTTTTACTTTTGTATATA
* *
3162934 TTTTTATTTTTTTATAT
1 TTTTTACTTTTGTATAT
3162951 TATATATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTACTTTTGTATATA
Found at i:3162998 original size:2 final size:2
Alignment explanation
Indices: 3162991--3163031 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3162981 TTTATTAATT
*
3162991 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3163032 TATTTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:3163098 original size:23 final size:23
Alignment explanation
Indices: 3163059--3163104 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3163049 TTATTTATAT
* *
3163059 ATTTTTTTTCTTCTTTTTTCTTA
1 ATTTTTTTTATTCTTTTTACTTA
3163082 ATTTTTCTTTATT-TTTTTACTTA
1 ATTTTT-TTTATTCTTTTTACTTA
3163105 CTATTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (23 bp):
ATTTTTTTTATTCTTTTTACTTA
Found at i:3166025 original size:21 final size:20
Alignment explanation
Indices: 3165980--3166033 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
3165970 CTCATTAAAA
3165980 AAGTATCGATACTCAAGGTC
1 AAGTATCGATACTCAAGGTC
*
3166000 CAGTATCGATACTCCAAGGGT-
1 AAGTATCGATACT-CAA-GGTC
*
3166021 AAGTATCAATACT
1 AAGTATCGATACT
3166034 GGAGTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 14 0.48
22 3 0.10
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (20 bp):
AAGTATCGATACTCAAGGTC
Found at i:3180460 original size:21 final size:19
Alignment explanation
Indices: 3180422--3180467 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
3180412 AATTAATCCT
3180422 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
3180442 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
3180463 A-TAAT
1 ACTAAT
3180468 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:3184980 original size:18 final size:20
Alignment explanation
Indices: 3184954--3185004 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
3184944 ACCAAATTTG
* *
3184954 GTATTGATACTCATGG-G-A
1 GTATCGATACTCAGGGAGAA
*
3184972 GTATCGATACCCAGGGTAGAA
1 GTATCGATACTCAGGG-AGAA
3184993 GTATCGATACTC
1 GTATCGATACTC
3185005 CCCATAGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 13 0.50
20 1 0.04
21 12 0.46
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCGATACTCAGGGAGAA
Found at i:3185908 original size:24 final size:24
Alignment explanation
Indices: 3185863--3185910 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3185853 CTCGTACAAA
* ***
3185863 ATGCACCAAAGTGTCGTGTAGAAT
1 ATGCACCAAAGTGCCACATAGAAT
3185887 ATGCACCAAAGTGCCACATAGAAT
1 ATGCACCAAAGTGCCACATAGAAT
3185911 GTCCTGAAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
ATGCACCAAAGTGCCACATAGAAT
Found at i:3185935 original size:21 final size:22
Alignment explanation
Indices: 3185900--3185943 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3185890 CACCAAAGTG
*
3185900 CCACATAGAATGTCCTGAAGGA
1 CCACATAGAATGTCCCGAAGGA
*
3185922 CCACATA-TATGTCCCGAAGGA
1 CCACATAGAATGTCCCGAAGGA
3185943 C
1 C
3185944 ATTATAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.18
Consensus pattern (22 bp):
CCACATAGAATGTCCCGAAGGA
Found at i:3186875 original size:20 final size:20
Alignment explanation
Indices: 3186850--3186918 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
3186840 TTGCTTGATG
3186850 GTATCGATATTGTTCATCCA
1 GTATCGATATTGTTCATCCA
3186870 GTATCGATATTGTTCATCCA
1 GTATCGATATTGTTCATCCA
*
3186890 GTCTCGATATTGTTCATCCA
1 GTATCGATATTGTTCATCCA
3186910 GTATCGATA
1 GTATCGATA
3186919 CCTATACGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (20 bp):
GTATCGATATTGTTCATCCA
Found at i:3192758 original size:24 final size:24
Alignment explanation
Indices: 3192731--3192778 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
3192721 CTCATATAAA
3192731 ATGCACCGAAGTGCCACATAGAAT
1 ATGCACCGAAGTGCCACATAGAAT
3192755 ATGCACCGAAGTGCCACATAGAAT
1 ATGCACCGAAGTGCCACATAGAAT
3192779 GTCCTGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (24 bp):
ATGCACCGAAGTGCCACATAGAAT
Found at i:3212824 original size:18 final size:18
Alignment explanation
Indices: 3212803--3212918 Score: 169
Period size: 18 Copynumber: 6.4 Consensus size: 18
3212793 TTTGTCCAGT
3212803 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
* *
3212821 AGGACCATTGTGTCCCGA
1 AGGACCACTATGTCCCGA
* *
3212839 AGGACCATTATGTCTCGA
1 AGGACCACTATGTCCCGA
*
3212857 AGGACTACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3212875 AGGACCATTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3212893 AGGACCACTATGTCTCGA
1 AGGACCACTATGTCCCGA
3212911 AGGACCAC
1 AGGACCAC
3212919 GTAGACCCTC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 87 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:3212889 original size:54 final size:54
Alignment explanation
Indices: 3212803--3212918 Score: 205
Period size: 54 Copynumber: 2.1 Consensus size: 54
3212793 TTTGTCCAGT
* *
3212803 AGGACCACTATGTCCCGAAGGACCATTGTGTCCCGAAGGACCATTATGTCTCGA
1 AGGACCACTATGTCCCGAAGGACCATTATGTCCCGAAGGACCACTATGTCTCGA
*
3212857 AGGACTACTATGTCCCGAAGGACCATTATGTCCCGAAGGACCACTATGTCTCGA
1 AGGACCACTATGTCCCGAAGGACCATTATGTCCCGAAGGACCACTATGTCTCGA
3212911 AGGACCAC
1 AGGACCAC
3212919 GTAGACCCTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (54 bp):
AGGACCACTATGTCCCGAAGGACCATTATGTCCCGAAGGACCACTATGTCTCGA
Found at i:3223875 original size:6 final size:6
Alignment explanation
Indices: 3223859--3223973 Score: 69
Period size: 6 Copynumber: 19.3 Consensus size: 6
3223849 TCTCTCATTT
* * * *
3223859 TTTTCTC TTTTTC -TTTTC TTTCTC GTTTTC -ATTT- TTTTTC TTCTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * * *
3223905 GTTTTC ATTTTC TTTTTC TATTTT- TTTTTC TTCTTC TGTTTTT TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC T-TTTTC TTTTTC
* *
3223954 TTCTGT- TTTTTC TTCTTC TT
1 TT-TTTC TTTTTC TTTTTC TT
3223974 ATAATATATA
Statistics
Matches: 83, Mismatches: 17, Indels: 17
0.71 0.15 0.15
Matches are distributed among these distances:
5 17 0.20
6 52 0.63
7 14 0.17
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:3223900 original size:22 final size:23
Alignment explanation
Indices: 3223867--3223920 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
3223857 TTTTTTCTCT
3223867 TTTTCTTTTCTT-TCTCGTTTTCA
1 TTTTCTTTTCTTCT-TCGTTTTCA
3223890 TTTT-TTTTCTTCTTCGTTTTCA
1 TTTTCTTTTCTTCTTCGTTTTCA
3223912 TTTTCTTTT
1 TTTTCTTTT
3223921 TCTATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTTCTTTTCTTCTTCGTTTTCA
Found at i:3223917 original size:36 final size:32
Alignment explanation
Indices: 3223853--3223971 Score: 111
Period size: 34 Copynumber: 3.6 Consensus size: 32
3223843 TTTTCATCTC
*
3223853 TCATTTTTTTCTCTTTTTC-TTTTCTTTCTCGTTT
1 TCATTTTTTT-TCTTCTTCGTTTTCTTTCT--TTT
3223887 TCATTTTTTTTCTTCTTCGTTTTCATTTTCTTTT
1 TCATTTTTTTTCTTCTTCGTTTTC--TTTCTTTT
3223921 TCTATTTTTTTTTCTTCTTCTGTTTT-TTT-TTTCT
1 TC-A-TTTTTTTTCTTCTTC-GTTTTCTTTCTTT-T
*
3223955 TC-TGTTTTTTCTTCTTC
1 TCATTTTTTTTCTTCTTC
3223972 TTATAATATA
Statistics
Matches: 76, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
31 14 0.18
33 10 0.13
34 26 0.34
35 1 0.01
36 20 0.26
37 5 0.07
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (32 bp):
TCATTTTTTTTCTTCTTCGTTTTCTTTCTTTT
Found at i:3223933 original size:18 final size:18
Alignment explanation
Indices: 3223855--3223951 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 18
3223845 TTCATCTCTC
*
3223855 ATTTTTTTCTCTTTTTCT
1 ATTTTTTTTTCTTTTTCT
* * *
3223873 -TTTCTTTCTCGTTTTC-
1 ATTTTTTTTTCTTTTTCT
*
3223889 A-TTTTTTTTCTTCTTCGT
1 ATTTTTTTTTCTTTTTC-T
**
3223907 -TTTCATTTTCTTTTTCT
1 ATTTTTTTTTCTTTTTCT
*
3223924 ATTTTTTTTTCTTCTTCT
1 ATTTTTTTTTCTTTTTCT
*
3223942 GTTTTTTTTT
1 ATTTTTTTTT
3223952 TCTTCTGTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.18
17 15 0.25
18 35 0.57
ACGTcount: A:0.04, C:0.16, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTTCTTTTTCT
Found at i:3223964 original size:18 final size:19
Alignment explanation
Indices: 3223856--3223962 Score: 79
Period size: 17 Copynumber: 5.9 Consensus size: 19
3223846 TCATCTCTCA
3223856 TTTTTTTC-TCT-TTTTCT
1 TTTTTTTCTTCTGTTTTCT
*
3223873 TTTCTTTC-TC-GTTTTCAT
1 TTTTTTTCTTCTGTTTTC-T
3223891 TTTTTTTCTTCTTCGTTTTCAT
1 TTTTTTTCTTC-T-GTTTTC-T
* *
3223913 TTTCTTT-TTCTATTTT-T
1 TTTTTTTCTTCTGTTTTCT
*
3223930 TTTTCTTCTTCTG--TT-T
1 TTTTTTTCTTCTGTTTTCT
3223946 TTTTTTTCTTCTGTTTT
1 TTTTTTTCTTCTGTTTT
3223963 TTCTTCTTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
16 15 0.21
17 20 0.27
18 14 0.19
19 6 0.08
20 1 0.01
21 3 0.04
22 14 0.19
ACGTcount: A:0.03, C:0.17, G:0.04, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTCTGTTTTCT
Found at i:3223972 original size:18 final size:17
Alignment explanation
Indices: 3223890--3223973 Score: 100
Period size: 18 Copynumber: 4.8 Consensus size: 17
3223880 CTCGTTTTCA
3223890 TTTTTTTTCTTCTTC-G
1 TTTTTTTTCTTCTTCTG
* *
3223906 TTTTCATTTTCTTTTTCTAT
1 TTTT--TTTTCTTCTTCT-G
3223926 TTTTTTTTCTTCTTCTG
1 TTTTTTTTCTTCTTCTG
3223943 TTTTTTTT-TTCTTCTG
1 TTTTTTTTCTTCTTCTG
3223959 TTTTTTCTTCTTCTT
1 TTTTTT-TTCTTCTT
3223974 ATAATATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
16 18 0.31
17 10 0.17
18 26 0.45
20 4 0.07
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCTTCTTCTG
Found at i:3232741 original size:60 final size:60
Alignment explanation
Indices: 3232627--3232741 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
3232617 AAAACTTCTG
* * * ** *
3232627 TTTTAAATTGGTCCTTAAACTTTTGAATATTCCAATTTCATCCTTTATTCATGACTCTCA
1 TTTTAAATTAGTCCTTAAACTTTTAAAAATTCCAATTTCATCCTAAACTCATGACTCTCA
* *
3232687 TTTTAAATTAGTCTTTAAACTTTTAAAAATTCTAATTTCATCCATAAACT-ATGAC
1 TTTTAAATTAGTCCTTAAACTTTTAAAAATTCCAATTTCATCC-TAAACTCATGAC
3232742 ACTCTTCCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 43 0.93
61 3 0.07
ACGTcount: A:0.32, C:0.17, G:0.05, T:0.45
Consensus pattern (60 bp):
TTTTAAATTAGTCCTTAAACTTTTAAAAATTCCAATTTCATCCTAAACTCATGACTCTCA
Found at i:3238877 original size:22 final size:24
Alignment explanation
Indices: 3238849--3238893 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
3238839 TCAAACATAC
*
3238849 TAAATAA-TTTTAT-AATAAAACA
1 TAAATAACTTTTATGAAAAAAACA
3238871 TAAATAACTTTTATGAAAAAAAC
1 TAAATAACTTTTATGAAAAAAAC
3238894 CTTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 7 0.35
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (24 bp):
TAAATAACTTTTATGAAAAAAACA
Found at i:3241054 original size:43 final size:43
Alignment explanation
Indices: 3240955--3241074 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
3240945 CGTTTATTCA
* * * * *
3240955 ACAAACGCCGCAAAAGGTATTGATATTTAGCAGCGTTTTGCAG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAG
* * *
3240998 AAAAATGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCAG
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAG
* * *
3241041 ACAAACGCCGCAATTGGCGTTGATGTTTAGCGGC
1 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGC
3241075 GTTTTCTTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCATTTGGCAG
Found at i:3241180 original size:42 final size:42
Alignment explanation
Indices: 3241059--3241210 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 42
3241049 CGCAATTGGC
* * * *
3241059 GTTGATGTTTAGCGGCGTTTTCTTCACAAACGCCGCAGTAGAT
1 GTTGATATTTAGCGGCGTTTTCCT-ACAAACGCCGCAGAATAT
* * * * *
3241102 GTTTATTTTTACCGGCATTTTTCCTACAAACACCGCAGAATAT
1 GTTGATATTTAGCGGC-GTTTTCCTACAAACGCCGCAGAATAT
* *
3241145 GTTGATATTTAGCAGCGTTTTCGTACAAACGCCGCAGAATAT
1 GTTGATATTTAGCGGCGTTTTCCTACAAACGCCGCAGAATAT
* *
3241187 GTCTTGAGATTTAGCGGCATTTTC
1 G--TTGATATTTAGCGGCGTTTTC
3241211 ATCGAAAACA
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 24 0.27
43 40 0.45
44 24 0.27
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
GTTGATATTTAGCGGCGTTTTCCTACAAACGCCGCAGAATAT
Found at i:3241669 original size:21 final size:21
Alignment explanation
Indices: 3241606--3241714 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
3241596 TGATATATTA
* * *
3241606 CTTCTCTCTGTTCTGCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* * * *
3241627 CCTCTCTCTGTGCTACCACTG
1 CTTCTCTCTCTGCTTCCGCTG
3241648 CTTCTCTCTCTGCTTCCGCTG
1 CTTCTCTCTCTGCTTCCGCTG
* ** *
3241669 CTGCTCTAGCTGCTTCCGCTA
1 CTTCTCTCTCTGCTTCCGCTG
*
3241690 CTGCTCTCTCTGCTTCC-CTTG
1 CTTCTCTCTCTGCTTCCGC-TG
3241711 CTTC
1 CTTC
3241715 ATTTTCCGCT
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 1 0.01
21 70 0.99
ACGTcount: A:0.04, C:0.41, G:0.16, T:0.39
Consensus pattern (21 bp):
CTTCTCTCTCTGCTTCCGCTG
Found at i:3245370 original size:41 final size:41
Alignment explanation
Indices: 3245317--3245404 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
3245307 TTTTGTAGTG
* * * * *
3245317 AAACGCCACTAAATTTTTACTATTTTACGGCGTTTTTATAT
1 AAACGCCACTAAAGTATTACTATTTGACGGCGTTTATATAA
* *
3245358 AAACGCCGCTAAAGTATTACTATTTGGCGGCGTTTATATAA
1 AAACGCCACTAAAGTATTACTATTTGACGGCGTTTATATAA
3245399 AAACGC
1 AAACGC
3245405 TGGTATATCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (41 bp):
AAACGCCACTAAAGTATTACTATTTGACGGCGTTTATATAA
Found at i:3246874 original size:41 final size:42
Alignment explanation
Indices: 3246805--3246923 Score: 154
Period size: 41 Copynumber: 2.9 Consensus size: 42
3246795 GTTTATACAA
* *
3246805 AAAAAATGCCACTATTGATT-ACACTATTGTGGCGTTTGT-T
1 AAAAAATGCCACTATTAATTAACACTATTGCGGCGTTTGTCT
* *
3246845 AAAAAACGCCACTATTAATTAACATTATTGCGGCGTTTGTCT
1 AAAAAATGCCACTATTAATTAACACTATTGCGGCGTTTGTCT
* * *
3246887 -AAAAATGCCACTATTTATTATCACTATTGCAGCGTTT
1 AAAAAATGCCACTATTAATTAACACTATTGCGGCGTTT
3246924 TAAGAATAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 18 0.26
41 49 0.72
42 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (42 bp):
AAAAAATGCCACTATTAATTAACACTATTGCGGCGTTTGTCT
Found at i:3246942 original size:42 final size:39
Alignment explanation
Indices: 3246805--3246942 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 39
3246795 GTTTATACAA
* *
3246805 AAAAAATGCCACTATTGATTACACTATTGTGGCGTTTGTT
1 AAAAAATGCCACTATTAATTACACTATTGCGGCGTTTG-T
* *
3246845 AAAAAACGCCACTATTAATTAACATTATTGCGGCGTTTGT
1 AAAAAATGCCACTATTAATT-ACACTATTGCGGCGTTTGT
* * *
3246885 CTAAAAATGCCACTATTTATTATCACTATTGCAGCGTTT-T
1 -AAAAAATGCCACTATTAATTA-CACTATTGCGGCGTTTGT
3246925 AAGAATAAATGCCACTAT
1 -A-AA-AAATGCCACTAT
3246943 ATGTGTAATC
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 21 0.26
41 49 0.60
42 12 0.15
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (39 bp):
AAAAAATGCCACTATTAATTACACTATTGCGGCGTTTGT
Found at i:3246975 original size:42 final size:42
Alignment explanation
Indices: 3246929--3247061 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
3246919 CGTTTTAAGA
** *
3246929 ATAAATGCCACTATATGTGTAATCTATTACGGTGTTTATGGT
1 ATAAATGCCACTATATGTGTAATCTATTGTGGTATTTATGGT
* * * ** *
3246971 ATAAACGCCGCTA-ATTTGCCGATCTATTGTGGCATTT-TGGCT
1 ATAAATGCCACTATATGTG-TAATCTATTGTGGTATTTATGG-T
3247013 A-AAATGCCACTATATGT-TAATCTATTGTGGTATTTATGGT
1 ATAAATGCCACTATATGTGTAATCTATTGTGGTATTTATGGT
3247053 ATAAATGCC
1 ATAAATGCC
3247062 GCTAATTTAC
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
40 17 0.24
41 26 0.37
42 28 0.39
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (42 bp):
ATAAATGCCACTATATGTGTAATCTATTGTGGTATTTATGGT
Found at i:3249326 original size:13 final size:14
Alignment explanation
Indices: 3249298--3249326 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3249288 GTTTTCGAAT
3249298 AATAAAGTAAAATA
1 AATAAAGTAAAATA
3249312 AATAAA-TAAAATA
1 AATAAAGTAAAATA
3249325 AA
1 AA
3249327 ACTAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAGTAAAATA
Found at i:3251237 original size:18 final size:18
Alignment explanation
Indices: 3251210--3251248 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3251200 ACGGGTTTTC
*
3251210 AAATAATAAAGT-AAACT
1 AAATAATAAAATAAAACT
3251227 AAATAAATAAAATAAAACT
1 AAAT-AATAAAATAAAACT
3251246 AAA
1 AAA
3251249 GTGCAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (18 bp):
AAATAATAAAATAAAACT
Found at i:3254810 original size:103 final size:103
Alignment explanation
Indices: 3254689--3254889 Score: 296
Period size: 103 Copynumber: 2.0 Consensus size: 103
3254679 GTGTATGATG
* *
3254689 GTTATCGATCGATATTGTTTAATGCATATGTTGCATTTTTGCATCAATACGTTGTGTAC-TTTAG
1 GTTATCAATCGATATTGTTTAATGCATATGTTGCATTTTCGCATCAATACGTTGTGTACTTTTAG
** *
3254753 ACACTATGTGTGCATTGATGGTGTTCATAATGAGCACTT
66 -CACTATGTGTGCATCCATGGTATTCATAATGAGCACTT
* * * * *
3254792 GTTATCAATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATTAGTACTTTGTGTACTTTTAG
1 GTTATCAATCGATATTGTTTAATGCATATGTTGCATTTTCGCATCAATACGTTGTGTACTTTTAG
3254857 CACTATGTGTGCATCCATGGTATTCATAATGAG
66 CACTATGTGTGCATCCATGGTATTCATAATGAG
3254890 TTTGTGAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
103 82 0.94
104 5 0.06
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (103 bp):
GTTATCAATCGATATTGTTTAATGCATATGTTGCATTTTCGCATCAATACGTTGTGTACTTTTAG
CACTATGTGTGCATCCATGGTATTCATAATGAGCACTT
Found at i:3257055 original size:21 final size:21
Alignment explanation
Indices: 3257021--3257075 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
3257011 CAACAAATTT
**
3257021 AATAAAATTGAAAATAAATACA
1 AATAAAATAAAAAATAAATA-A
*
3257043 AATCAAATAAAAAATAAATAA
1 AATAAAATAAAAAATAAATAA
3257064 AATAAAATAAAA
1 AATAAAATAAAA
3257076 TAGATTGGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAAAATAAAAAATAAATAA
Found at i:3257066 original size:5 final size:5
Alignment explanation
Indices: 3257021--3257077 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
3257011 CAACAAATTT
* *
3257021 AATAA AATTGAA AAT-A AATACA AATCA AATAA AAAATA AATAA AATAA
1 AATAA AA-T-AA AATAA AATA-A AATAA AATAA AATA-A AATAA AATAA
3257069 AATAA AATA
1 AATAA AATA
3257078 GATTGGGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.58
6 10 0.23
7 4 0.09
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:3277378 original size:25 final size:25
Alignment explanation
Indices: 3277344--3277424 Score: 98
Period size: 24 Copynumber: 3.4 Consensus size: 25
3277334 AAGTAAGGGG
3277344 AAACATTTTTCAAAAATCTTTCATC
1 AAACATTTTTCAAAAATCTTTCATC
* *
3277369 AAACATTTTT-AAAATTCTTTCATT
1 AAACATTTTTCAAAAATCTTTCATC
*
3277393 AAACGTTTTTC-AAAA-C-TTCATC
1 AAACATTTTTCAAAAATCTTTCATC
*
3277415 ATACATTTTT
1 AAACATTTTT
3277425 ATCAAACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 13 0.27
23 1 0.02
24 24 0.50
25 10 0.21
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.44
Consensus pattern (25 bp):
AAACATTTTTCAAAAATCTTTCATC
Found at i:3278328 original size:108 final size:108
Alignment explanation
Indices: 3278147--3278343 Score: 304
Period size: 108 Copynumber: 1.8 Consensus size: 108
3278137 TGTGGATTAT
* *
3278147 CAATGTCATCTTCAACACCAAATTATCTCCATATTAACCCAACCACATCAATGAGAAGGAACAAT
1 CAATGTCATCTTAAACACCAAATTATCTCCATATTAACCCAACCACATAAATGAGAAGGAACAAT
*
3278212 GTTATCTTCAATAAACAATTTACCCGAAAGCGGTCTGGATGAG
66 GTCATCTTCAATAAACAATTTACCCGAAAGCGGTCTGGATGAG
* * * ** *
3278255 CAATGTCATCTTAAACACTAAATTATCTCCATATTAACTCGACTTCCTAAATGAGAAGGAACAAT
1 CAATGTCATCTTAAACACCAAATTATCTCCATATTAACCCAACCACATAAATGAGAAGGAACAAT
*
3278320 GTCATCTTCAATAAACAGTTTACC
66 GTCATCTTCAATAAACAATTTACC
3278344 ATAAAGTAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.27
Consensus pattern (108 bp):
CAATGTCATCTTAAACACCAAATTATCTCCATATTAACCCAACCACATAAATGAGAAGGAACAAT
GTCATCTTCAATAAACAATTTACCCGAAAGCGGTCTGGATGAG
Found at i:3278445 original size:122 final size:121
Alignment explanation
Indices: 3278247--3279062 Score: 657
Period size: 122 Copynumber: 6.7 Consensus size: 121
3278237 GAAAGCGGTC
* * * * * *
3278247 TGGATGAGCAATGTCATCTTAAACACTAAATTATCTCCATATTAACTCGACTTCCTAAATGAGAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
* * * * * * * *
3278312 GGAACAATGTCATCTTCAATAAACAGTTTACCATAAAGTAGTCAGATCTCCTCAATG
66 GGAACAGTGTCATCTTCAACAAACAATTTACC-GAAAGTGGCCAGATCTCTTCAATA
* * * * *
3278369 TGGATGAGCAGTGTCTTCTTCAACACCAAATTATCACCAGATTAATCCGACTTCCTCAATGAGGA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGA-GA
* * * * * * *
3278434 A-AAACAGTGTCATCTTCAGCAAACAATATACCAAAAAATGGCCAAATCTCTTTAATA
65 AGGAACAGTGTCATCTTCAACAAACAATTTACC-GAAAGTGGCCAGATCTCTTCAATA
** ** * *
3278491 TGGATGATTAATGTTGTCTTCAACACCATATTATCTCCAGATTGACCCAACTTCCTCAATGAGAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
* * *
3278556 TGAACAGTGTCATCTTCATA-AAACAATTTAACCGAAAGTGGCCAGATCTCATCAATG
66 GGAACAGTGTCATCTTCA-ACAAACAATTT-ACCGAAAGTGGCCAGATCTCTTCAATA
* * * * * *
3278613 TGGTTGAGCAATGTCGTCTTCAACACCAAATTATCTCTAGATTGACCCAACTTACTCAATGAGAT
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
* * * * * *
3278678 GGAATAGTGTAATCTTCAGCAAATAATTTTCTCGAAAGTGGCTAGATCTCTTCAATA
66 GGAACAGTGTCATCTTCAACAAACAATTTAC-CGAAAGTGGCCAGATCTCTTCAATA
* * * *** * *
3278735 TGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCCAAATTGACATGATTTCCTCAATGTGAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
* * * * * * * * *
3278800 GGATCAATCTCGTCTTTAGA-AAATAATTTACCAGAAATTGACCAGATCTTTTCAATA
66 GGAACAGTGTCATCTTCA-ACAAACAATTTACC-GAAAGTGGCCAGATCTCTTCAATA
* * * * * * * ** *
3278857 AGGATGAACAGTGTCATCTTCAACATCAAATTATCTTCACATTGACCTGACTTCCTCAATGAAAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
* * * * * * * * *
3278922 GGAACAGTGTCGTCTTCAGCAAATAATTTACATGAAAGCGACTAGATCTCTTCTATG
66 GGAACAGTGTCATCTTCAACAAACAATTTAC-CGAAAGTGGCCAGATCTCTTCAATA
* * * * * * *** ** *
3278979 TGGGTGAGTAGTGTCGTCTTCAACATCAAATTATCTCCAGATTGACATGACTTCCTCAGCGAAAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
**
3279044 GGAACAACGTCATCTTCAA
66 GGAACAGTGTCATCTTCAA
3279063 TGAGCAAGTT
Statistics
Matches: 565, Mismatches: 119, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
121 5 0.01
122 554 0.98
123 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (121 bp):
TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTAACCCAACTTCCTCAATGAGAA
GGAACAGTGTCATCTTCAACAAACAATTTACCGAAAGTGGCCAGATCTCTTCAATA
Found at i:3278892 original size:244 final size:242
Alignment explanation
Indices: 3278247--3279062 Score: 807
Period size: 244 Copynumber: 3.3 Consensus size: 242
3278237 GAAAGCGGTC
* * * * *
3278247 TGGATGAGCAATGTCATCTTAAACACTAAATTATCTCCATATTAAC-TCGACTTCCTAAATGAGA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACAT-GACTTCCTCAATGAGA
* * * *
3278311 AGGAACAATGTCATCTTCAATAAACAGTTTACCATAAAGT-AGTCAGATCTCCTCAATGTGGATG
65 AGGAACAATGTCATCTTCAA-AAACAATTTACCAGAAAGTGA-CCAGATCTCATCAATGTGGATG
* * * * * **
3278375 AGCAGTGTCTTCTTCAACACCAAATTATCACCAGATTAATCCGACTTCCTCAATGAGGAAAAACA
128 AGCAGTGTCATCTTCAACACCAAATTATCTCTAGATTGACCCGACTTCCTCAATGA-GAGGAACA
* * * * * * *
3278440 GTGTCATCTTCAGCAAACAATATAC-CAAAAAATGGCCAAATCTCTTTAATA
192 GTGTCATCTTCAGCAAATAATTTACTC-GAAAGTGGCTAGATCTCTTCAATA
** ** * ***
3278491 TGGATGATTAATGTTGTCTTCAACACCATATTATCTCCAGATTGACCCAACTTCCTCAATGAGAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACATGACTTCCTCAATGAGAA
* * * *
3278556 TGAACAGTGTCATCTTCATAAAACAATTTAACC-GAAAGTGGCCAGATCTCATCAATGTGGTTGA
66 GGAACAATGTCATCTTCA-AAAACAATTT-ACCAGAAAGTGACCAGATCTCATCAATGTGGATGA
* * * * *
3278620 GCAATGTCGTCTTCAACACCAAATTATCTCTAGATTGACCCAACTTACTCAATGAGATGGAATAG
129 GCAGTGTCATCTTCAACACCAAATTATCTCTAGATTGACCCGACTTCCTCAATGAGA-GGAACAG
* *
3278685 TGTAATCTTCAGCAAATAATTTTCTCGAAAGTGGCTAGATCTCTTCAATA
193 TGTCATCTTCAGCAAATAATTTACTCGAAAGTGGCTAGATCTCTTCAATA
* * * *
3278735 TGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCCAAATTGACATGATTTCCTCAATGTGAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACATGACTTCCTCAATGAGAA
* * * * * * ** ** *
3278800 GGATCAATCTCGTCTTTAGAAAATAATTTACCAGAAATTGACCAGATCTTTTCAATAAGGATGAA
66 GGAACAATGTCATCTTCA-AAAACAATTTACCAGAAAGTGACCAGATCTCATCAATGTGGATGAG
* * * *
3278865 CAGTGTCATCTTCAACATCAAATTATCT-TCACATTGACCTGACTTCCTCAATGAAAAGGAACAG
130 CAGTGTCATCTTCAACACCAAATTATCTCT-AGATTGACCCGACTTCCTCAATG-AGAGGAACAG
* * * * *
3278929 TGTCGTCTTCAGCAAATAATTTACAT-GAAAGCGACTAGATCTCTTCTATG
193 TGTCATCTTCAGCAAATAATTTAC-TCGAAAGTGGCTAGATCTCTTCAATA
* * * * * ** *
3278979 TGGGTGAGTAGTGTCGTCTTCAACATCAAATTATCTCCAGATTGACATGACTTCCTCAGCGAAAA
1 TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACATGACTTCCTCAATGAGAA
*
3279044 GGAACAACGTCATCTTCAA
66 GGAACAATGTCATCTTCAA
3279063 TGAGCAAGTT
Statistics
Matches: 463, Mismatches: 99, Indels: 21
0.79 0.17 0.04
Matches are distributed among these distances:
243 7 0.02
244 448 0.97
245 8 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (242 bp):
TGGATGAGCAATGTCATCTTCAACACCAAATTATCTCCAGATTGACATGACTTCCTCAATGAGAA
GGAACAATGTCATCTTCAAAAACAATTTACCAGAAAGTGACCAGATCTCATCAATGTGGATGAGC
AGTGTCATCTTCAACACCAAATTATCTCTAGATTGACCCGACTTCCTCAATGAGAGGAACAGTGT
CATCTTCAGCAAATAATTTACTCGAAAGTGGCTAGATCTCTTCAATA
Found at i:3279061 original size:366 final size:365
Alignment explanation
Indices: 3278355--3279061 Score: 783
Period size: 366 Copynumber: 1.9 Consensus size: 365
3278345 TAAAGTAGTC
* * *
3278355 AGATCTCCTCAATGTGGATGAGCAGTGTCTTCTTCAACACCAAATTATCACCAGATTAATCCGAC
1 AGATCTCCTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCACCAAATTAAT-CGAC
* * * *
3278420 TTCCTCAATGAGGAAAAACAGTGTCATCTTCAGCAAACAATATACCAAAAAATGGCCAAATCTCT
65 TTCCTCAATGAGGAAAAACAATCTCATCTTCAGAAAACAATATACCAAAAAATGACCAAATCTCT
* ** ** * *
3278485 TTAATATGGATGATTAATGTTGTCTTCAACACCATATTATCTCCAGATTGACCCAACTTCCTCAA
130 TTAATAAGGATGAACAATGTCATCTTCAACACCAAATTATCTCCACATTGACCCAACTTCCTCAA
* * * * *
3278550 TGAGAATGAACAGTGTCATCTTCATAAAACAATTTAACCGAAAGTGGCCAGATCTCATCAATGTG
195 TGAAAAGGAACAGTGTCATCTTCAGAAAACAATTTAACCGAAAGCGACCAGATCTCATCAATGTG
* * * * * *
3278615 GTTGAGCAATGTCGTCTTCAACACCAAATTATCTCTAGATTGACCCAACTTACTCAATGAGATGG
260 GGTGAGCAATGTCGTCTTCAACACCAAATTATCTCCAGATTGACACAACTTACTCAACGAAAAGG
* **
3278680 AATAGTGTAATCTTCAGCAAATAATTTTCTCGAAAGTGGCT
325 AACAACGTAATCTTCAGCAAATAATTTTCTCGAAAGTGGCT
* *
3278721 AGATCTCTTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCCAAATTGACAT-GA
1 AGATCTCCTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCACCAAATT-A-ATCGA
* * * * * * * * * * *
3278785 TTTCCTCAATG-TGAAGGATCAATCTCGTCTTTAGAAAATAATTTACCAGAAATTGACCAGATCT
64 CTTCCTCAATGAGGAA-AAACAATCTCATCTTCAGAAAACAATATACCAAAAAATGACCAAATCT
* * * **
3278849 -TTTCAATAAGGATGAACAGTGTCATCTTCAACATCAAATTATCTTCACATTGACCTGACTTCCT
128 CTTT-AATAAGGATGAACAATGTCATCTTCAACACCAAATTATCTCCACATTGACCCAACTTCCT
* * * * * * *
3278913 CAATGAAAAGGAACAGTGTCGTCTTCAGCAAATAATTT-ACATGAAAGCGACTAGATCTCTTCTA
192 CAATGAAAAGGAACAGTGTCATCTTCAGAAAACAATTTAAC-CGAAAGCGACCAGATCTCATCAA
* * * ** * *
3278977 TGTGGGTGAGTAGTGTCGTCTTCAACATCAAATTATCTCCAGATTGACATGACTTCCTCAGCGAA
256 TGTGGGTGAGCAATGTCGTCTTCAACACCAAATTATCTCCAGATTGACACAACTTACTCAACGAA
*
3279042 AAGGAACAACGTCATCTTCA
321 AAGGAACAACGTAATCTTCA
3279062 ATGAGCAAGT
Statistics
Matches: 275, Mismatches: 61, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
365 8 0.03
366 264 0.96
367 1 0.00
368 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (365 bp):
AGATCTCCTCAATATGGATGAGCAGTGTCATCTTCAACACCAAATTATCACCAAATTAATCGACT
TCCTCAATGAGGAAAAACAATCTCATCTTCAGAAAACAATATACCAAAAAATGACCAAATCTCTT
TAATAAGGATGAACAATGTCATCTTCAACACCAAATTATCTCCACATTGACCCAACTTCCTCAAT
GAAAAGGAACAGTGTCATCTTCAGAAAACAATTTAACCGAAAGCGACCAGATCTCATCAATGTGG
GTGAGCAATGTCGTCTTCAACACCAAATTATCTCCAGATTGACACAACTTACTCAACGAAAAGGA
ACAACGTAATCTTCAGCAAATAATTTTCTCGAAAGTGGCT
Found at i:3279816 original size:3 final size:3
Alignment explanation
Indices: 3279808--3279855 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
3279798 TGGCCCTTTT
** *
3279808 TTA TTA TTA TTA TTA TTA TTA TTA TTA ACA TTA TTA ATA -TA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3279854 TT
1 TT
3279856 TTACAAGCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3289122 original size:18 final size:18
Alignment explanation
Indices: 3289099--3289151 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
3289089 ACTGAATATT
3289099 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
*
3289117 TGTCCCGAAGGACCACTA
1 TGTCCCGAAAGACCACTA
3289135 TGTCCC-AAAGAACCACT
1 TGTCCCGAAAG-ACCACT
3289152 GATAATCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:3289410 original size:2 final size:2
Alignment explanation
Indices: 3289403--3289431 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3289393 ATGTTAACAT
3289403 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3289432 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3289436 original size:2 final size:2
Alignment explanation
Indices: 3289431--3289456 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3289421 ACACACACAC
3289431 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
3289457 GCATGTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3293236 original size:23 final size:22
Alignment explanation
Indices: 3293202--3293282 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
3293192 ACCCGACGGA
3293202 TGCATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTCAAGG-G
* * *
3293225 TGCATCGGTGCACTTTC-ATGG
1 TGCATCGATGCACATTCAAGGG
*
3293246 TGTATCGATGCACATTCAAAGGG
1 TGCATCGATGCACATTC-AAGGG
*
3293269 ATGCATTGATGCAC
1 -TGCATCGATGCAC
3293283 TGTTAAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 18 0.39
24 11 0.24
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGG
Found at i:3293257 original size:21 final size:22
Alignment explanation
Indices: 3293202--3293263 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
3293192 ACCCGACGGA
3293202 TGCATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTC-AGGCG
* * *
3293225 TGCATCGGTGCACTTTCATG-G
1 TGCATCGATGCACATTCAGGCG
*
3293246 TGTATCGATGCACATTCA
1 TGCATCGATGCACATTCA
3293264 AAGGGATGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.48
22 2 0.06
23 15 0.45
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCACATTCAGGCG
Found at i:3293293 original size:44 final size:44
Alignment explanation
Indices: 3293205--3293302 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
3293195 CGACGGATGC
* *
3293205 ATCGATGCACATTCAAGGCGTGCATCGGTGCACTTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACTTTCATAGTGT
*
3293249 ATCGATGCACATTCAAAGG-GATGCATTGATGCACTGTT-A-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACT-TTCATAGTGT
*
3293293 ATCAATGCAC
1 ATCGATGCAC
3293303 TAAGCACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 28 0.60
45 17 0.36
46 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACTTTCATAGTGT
Found at i:3299218 original size:65 final size:65
Alignment explanation
Indices: 3299081--3299288 Score: 230
Period size: 65 Copynumber: 3.2 Consensus size: 65
3299071 TGCACTAAGA
* *
3299081 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGTTGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
* *
3299145 GTGTATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGCT
*
3299208 AT
65 -G
* * * *
3299210 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAA--AATACCCTGAGTGCATCGATGCATGG-
*
3299272 TTG
63 CTG
*
3299275 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
3299289 CTCTTTGAAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 45 0.36
65 70 0.56
66 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
Found at i:3302694 original size:23 final size:23
Alignment explanation
Indices: 3302660--3302725 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
3302650 CATATATTTA
3302660 TCTCGAAGGACCGCGTAGAATTG
1 TCTCGAAGGACCGCGTAGAATTG
* * *
3302683 T-TCCGAATGACCACATAGAATTG
1 TCT-CGAAGGACCGCGTAGAATTG
*
3302706 TCTAGAAGGACCGCGTAGAA
1 TCTCGAAGGACCGCGTAGAA
3302726 CCCTCGACTC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.94
24 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (23 bp):
TCTCGAAGGACCGCGTAGAATTG
Found at i:3302849 original size:15 final size:15
Alignment explanation
Indices: 3302828--3302911 Score: 116
Period size: 15 Copynumber: 5.7 Consensus size: 15
3302818 AAGTATCATT
3302828 TATTCACATAGAACA
1 TATTCACATAGAACA
*
3302843 CATTCACATA-AACA
1 TATTCACATAGAACA
*
3302857 TATTCACATAAAACA
1 TATTCACATAGAACA
* *
3302872 TTTTCACGTAGAACA
1 TATTCACATAGAACA
*
3302887 TATTCACATATAACA
1 TATTCACATAGAACA
3302902 TATTCACATA
1 TATTCACATA
3302912 CTAATAAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
14 13 0.22
15 47 0.78
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (15 bp):
TATTCACATAGAACA
Found at i:3304398 original size:2 final size:2
Alignment explanation
Indices: 3304391--3304420 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3304381 TTGTTGTACC
3304391 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
3304421 CATCCCTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3304722 original size:81 final size:81
Alignment explanation
Indices: 3304584--3305223 Score: 977
Period size: 81 Copynumber: 7.9 Consensus size: 81
3304574 AACCTTTCGT
* *
3304584 TTTTACTCAA-TAGTATTAAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCA
1 TTTTACTCAACGA-TATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCA
*
3304648 CAGTTAGACCATTATTC
65 CAGTTAGGCCATTATTC
* * * *
3304665 TTTTACTCAACGATATTAAATCGTTCATCTAATTGGCATAATTGGTACTTTTATACCAATTCCAC
1 TTTTACTCAACGATATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
3304730 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* *
3304746 TTTTACTCAAC-AGTATTAAATCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATTGTA
1 TTTTACTCAACGA-TATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCA
*
3304810 CAGTTAGGTCATTATTC
65 CAGTTAGGCCATTATTC
3304827 TTTTACTCAAC-AGTATTAAAAT-GTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
1 TTTTACTCAACGA-TATT-AAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
*
3304890 ACAGTTAGACCATTATTC
64 ACAGTTAGGCCATTATTC
*
3304908 TTTTACTCAACGGTA-TAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACGATATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
*
3304972 ATTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* ** *
3304988 TTTTACTCAACGGTATTAAATTTTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACGATATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
*
3305053 AATTAGGCCATTATTC
66 AGTTAGGCCATTATTC
*
3305069 TTTTACTCAACGATATTAAA-CAGTTCATCTAACTGGCATAATTGGTACCTTTCTACCATTTGCA
1 TTTTACTCAACGATATTAAATC-GTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCA
3305133 CAGTTAGGCCATTATTC
65 CAGTTAGGCCATTATTC
* * * * *
3305150 TTTTACTTAACGGTTTTAAACCGTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACGATATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
3305215 AGTTAGGCC
66 AGTTAGGCC
3305224 TCAAAGGCAC
Statistics
Matches: 516, Mismatches: 35, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
79 4 0.01
80 74 0.14
81 432 0.84
82 6 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (81 bp):
TTTTACTCAACGATATTAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
AGTTAGGCCATTATTC
Found at i:3305193 original size:323 final size:324
Alignment explanation
Indices: 3304584--3305220 Score: 1019
Period size: 323 Copynumber: 2.0 Consensus size: 324
3304574 AACCTTTCGT
*
3304584 TTTTACTCAATAGTATTAAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACAGTATTAAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
* * *
3304649 AGTTAGACCATTATTCTTTTACTCAACGATATTAAATCGTTCATCTAATTGGCATAATTGGTACT
66 AGTTAGACCATTATTCTTTTACTCAACGATATTAAATCGTTCATCTAACTGACATAATTGGTACC
*
3304714 TTTATACCAATTCCACAGTTAGGCCATTATTCTTTTACTCAACAGTATTAAATCGTTCATCTAAC
131 TTTATACCAATTCCACAATTAGGCCATTATTCTTTTACTCAACAGTATTAAATCGTTCATCTAAC
* *
3304779 TGGCATAATTGGTACATTTCTACCAATTGTACAGTTAGGTCATTATTCTTTTACTCAACAGTATT
196 TGGCATAATTGGTACATTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACTCAACAGTATT
* *
3304844 AAAATGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCACAGTTAGACCATTATTC
261 AAAACGTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCACAGTTAGACCATTATTC
* *
3304908 TTTTACTCAACGGTA-TAAATCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACAGTATTAAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
* * * **
3304972 ATTTAGGCCATTATTCTTTTACTCAACGGTATTAAATTTTTCATCTAACTGACATAATTGGTACC
66 AGTTAGACCATTATTCTTTTACTCAACGATATTAAATCGTTCATCTAACTGACATAATTGGTACC
* *
3305037 TTTCTACCAATTGCACAATTAGGCCATTATTCTTTTACTCAAC-GATATTAAA-CAGTTCATCTA
131 TTTATACCAATTCCACAATTAGGCCATTATTCTTTTACTCAACAG-TATTAAATC-GTTCATCTA
* * * * *
3305100 ACTGGCATAATTGGTACCTTTCTACCATTTGCACAGTTAGGCCATTATTCTTTTACTTAACGGTT
194 ACTGGCATAATTGGTACATTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACTCAACAGTA
*
3305165 TTAAACCGTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCACAGTTAG
259 TTAAAACGTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCACAGTTAG
3305221 GCCTCAAAGG
Statistics
Matches: 287, Mismatches: 24, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
322 2 0.01
323 272 0.95
324 13 0.05
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (324 bp):
TTTTACTCAACAGTATTAAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGCAC
AGTTAGACCATTATTCTTTTACTCAACGATATTAAATCGTTCATCTAACTGACATAATTGGTACC
TTTATACCAATTCCACAATTAGGCCATTATTCTTTTACTCAACAGTATTAAATCGTTCATCTAAC
TGGCATAATTGGTACATTTCTACCAATTGCACAGTTAGGCCATTATTCTTTTACTCAACAGTATT
AAAACGTTCATCTAACTGACATAATTGGTACCTTTCTACCAATTGCACAGTTAGACCATTATTC
Found at i:3305284 original size:68 final size:68
Alignment explanation
Indices: 3305211--3305359 Score: 244
Period size: 68 Copynumber: 2.2 Consensus size: 68
3305201 TCTACCAATT
*
3305211 GCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAAATGACACCGTTCTATCA
1 GCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAAATGACACCGTTATATCA
3305276 TAA
66 TAA
* * * *
3305279 GCACAGTTAGTCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCTTAAATGACACCTTTATGTCA
1 GCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAAATGACACCGTTATATCA
3305344 TAA
66 TAA
*
3305347 GCATAGTTAGGCC
1 GCACAGTTAGGCC
3305360 ATTAATCCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (68 bp):
GCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAAATGACACCGTTATATCA
TAA
Found at i:3305702 original size:56 final size:53
Alignment explanation
Indices: 3305575--3305713 Score: 154
Period size: 56 Copynumber: 2.5 Consensus size: 53
3305565 ATATTTTCCA
* *
3305575 ATACGAACATTCATACACTTGGTATGAATTTCTTAATTCGCACACATAGTGTCC
1 ATACGAA-ATTCATACACTTAGTATGAATTTCTTAATTCGCACACATAGTGCCC
* * * * *
3305629 ATATGAAATGTCATACACTTAGTATGAGTTTCCTTATTTTTGCATACCA-AGTGCCC
1 ATACGAAAT-TCATACACTTAGTATGAATTT-CTTA-ATTCGCACA-CATAGTGCCC
3305685 ATACAGAAATTCATACACTTAGTATGAAT
1 ATAC-GAAATTCATACACTTAGTATGAAT
3305714 ATATTACAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 25 0.35
55 4 0.06
56 33 0.46
57 7 0.10
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (53 bp):
ATACGAAATTCATACACTTAGTATGAATTTCTTAATTCGCACACATAGTGCCC
Found at i:3306211 original size:21 final size:21
Alignment explanation
Indices: 3306185--3306226 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3306175 ATTTGAATAT
*
3306185 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3306206 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
3306227 CCTATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:3306288 original size:21 final size:21
Alignment explanation
Indices: 3306255--3306294 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
3306245 TTTTTGCAGA
*
3306255 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
3306277 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
3306295 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:3307121 original size:20 final size:21
Alignment explanation
Indices: 3307092--3307136 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3307082 ATGTTGCCTA
*
3307092 GTATCGATACT-CATACCATG
1 GTATCAATACTACATACCATG
*
3307112 GTATCAATACTACCATACTATG
1 GTATCAATACTA-CATACCATG
3307134 GTA
1 GTA
3307137 CCTATATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (21 bp):
GTATCAATACTACATACCATG
Found at i:3314110 original size:27 final size:27
Alignment explanation
Indices: 3314041--3314118 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
3314031 CTTTAACAAA
* *
3314041 TATTTTTATATTAACTTATTGAATATATTT
1 TATTTTTATTTTAA--T-TTGAAAATATTT
* * *
3314071 TATTATCAATTTAATTTGAAAATATTT
1 TATTTTTATTTTAATTTGAAAATATTT
3314098 TATTTTTATTTTAA-TTGAAAA
1 TATTTTTATTTTAATTTGAAAA
3314119 AATATATATT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.17
27 22 0.55
28 1 0.03
30 10 0.25
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (27 bp):
TATTTTTATTTTAATTTGAAAATATTT
Found at i:3314344 original size:27 final size:27
Alignment explanation
Indices: 3314310--3314389 Score: 94
Period size: 26 Copynumber: 3.0 Consensus size: 27
3314300 TACTTTAAAA
3314310 TTAA-AATAAAATATTTTTAAATTAAG
1 TTAATAATAAAATATTTTTAAATTAAG
*
3314336 TTAATAATAAAATATATTT-AA-TAAG
1 TTAATAATAAAATATTTTTAAATTAAG
*
3314361 TTAATATAAAAAATATTTCTTAAAGTTAA
1 TTAATA-ATAAAATATTT-TTAAA-TTAA
3314390 TATGTATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
25 10 0.22
26 15 0.33
27 15 0.33
28 2 0.04
30 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (27 bp):
TTAATAATAAAATATTTTTAAATTAAG
Found at i:3314366 original size:25 final size:25
Alignment explanation
Indices: 3314289--3314378 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
3314279 ATTATATAAG
3314289 AATAAAATGTATACTTTAA-AA-TTAA-
1 AATAAAA--TATA-TTTAATAAGTTAAT
*
3314314 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATATTT-AA-TAAGTTAAT
3314341 AATAAAATATATTTAATAAGTTAAT
1 AATAAAATATATTTAATAAGTTAAT
*
3314366 -ATAAAAAATATTT
1 AATAAAATATATTT
3314379 CTTAAAGTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
22 3 0.05
23 5 0.09
24 12 0.21
25 18 0.32
26 6 0.11
27 13 0.23
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (25 bp):
AATAAAATATATTTAATAAGTTAAT
Found at i:3314386 original size:25 final size:24
Alignment explanation
Indices: 3314332--3314392 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
3314322 ATTTTTAAAT
*
3314332 TAAGTTAATAATAAAATATATTTAA
1 TAAGTTAAT-ATAAAAAATATTTAA
**
3314357 TAAGTTAATATAAAAAATATTTCT
1 TAAGTTAATATAAAAAATATTTAA
3314381 TAAAGTTAATAT
1 T-AAGTTAATAT
3314393 GTATAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (24 bp):
TAAGTTAATATAAAAAATATTTAA
Found at i:3329649 original size:5 final size:5
Alignment explanation
Indices: 3329639--3329668 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
3329629 ATCAAAGATA
3329639 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
3329669 CGAGGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:3329654 original size:10 final size:11
Alignment explanation
Indices: 3329636--3329668 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
3329626 CATATCAAAG
3329636 ATAAAAATAAA
1 ATAAAAATAAA
3329647 AT-AAAATAAA
1 ATAAAAATAAA
3329657 ATAAAAATAAA
1 ATAAAAATAAA
3329668 A
1 A
3329669 CGAGGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:3331782 original size:13 final size:13
Alignment explanation
Indices: 3331764--3331789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3331754 GGGCTTGATT
3331764 GTATTTGTAATGG
1 GTATTTGTAATGG
3331777 GTATTTGTAATGG
1 GTATTTGTAATGG
3331790 ACCCTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
GTATTTGTAATGG
Found at i:3342310 original size:65 final size:63
Alignment explanation
Indices: 3342241--3342400 Score: 187
Period size: 65 Copynumber: 2.5 Consensus size: 63
3342231 AATTAAATTG
*
3342241 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-T-A
3342305 A
63 A
* * * * *
3342306 AACATCAAATGCATTTCATGCATCGATGCACCAACCATTCATCGATGCACTCTGGCTATTTTAA
1 AACATCGAATGCATTTCATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTAA
* * * *
3342370 ATCATCGAATGCACTTGATGCATAGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
3342401 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 27 0.33
65 49 0.60
66 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTAA
Found at i:3345536 original size:16 final size:17
Alignment explanation
Indices: 3345515--3345547 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3345505 GTCAAAAAAC
3345515 AGAAAA-TGTGACTTTT
1 AGAAAATTGTGACTTTT
*
3345531 AGAAAATTTTGACTTTT
1 AGAAAATTGTGACTTTT
3345548 TGGTGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (17 bp):
AGAAAATTGTGACTTTT
Found at i:3346073 original size:24 final size:25
Alignment explanation
Indices: 3346015--3346073 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
3346005 TCAGCAACAG
3346015 TGGCCTAACCGGGTTGGTAGGGGTA
1 TGGCCTAACCGGGTTGGTAGGGGTA
*
3346040 TGGCCTAACCGGTTTGGTAGGGGTA
1 TGGCCTAACCGGGTTGGTAGGGGTA
3346065 TGGCC-AACC
1 TGGCCTAACC
3346074 ACTCCATGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (25 bp):
TGGCCTAACCGGGTTGGTAGGGGTA
Found at i:3346267 original size:2 final size:2
Alignment explanation
Indices: 3346260--3346284 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3346250 TTAATTGTAT
3346260 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3346285 TTGGGGTGTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.