Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 64
Found at i:8343543 original size:20 final size:20
Alignment explanation
Indices: 8343518--8343555 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8343508 AATAGTTTCT
8343518 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
8343538 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
8343556 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:8343844 original size:22 final size:22
Alignment explanation
Indices: 8343819--8343862 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8343809 GATTTAGATA
8343819 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
8343841 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
8343863 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:8344075 original size:20 final size:20
Alignment explanation
Indices: 8344050--8344102 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
8344040 GATTATGTAT
*
8344050 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
8344070 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
8344090 TATCTCGTTGCGA
1 TATCGCGTTGCGA
8344103 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:8344136 original size:20 final size:20
Alignment explanation
Indices: 8344030--8344141 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
8344020 CGCTTTGAAA
*
8344030 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
8344051 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
8344071 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
8344091 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
8344112 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
8344132 ATCGCATTGC
1 ATCGCATTGC
8344142 AATTTTCCCA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.03
20 47 0.64
21 24 0.33
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:8344147 original size:41 final size:41
Alignment explanation
Indices: 8344070--8344147 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
8344060 CGAAAGTCAG
* * * *
8344070 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTTTTAT
* *
8344111 TATCGCATTGCGATAGTCAGTATCGCATTGCAATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTT
8344148 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTTTTAT
Found at i:8344162 original size:21 final size:21
Alignment explanation
Indices: 8344133--8344208 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
8344123 ATAGTCAGTA
*
8344133 TCGCATTGCAATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
8344154 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
8344174 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
8344195 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
8344209 ACTTATTTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:8344163 original size:41 final size:41
Alignment explanation
Indices: 8344133--8344228 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
8344123 ATAGTCAGTA
* *
8344133 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
8344174 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
*
8344215 TTGCATTGCGAATT
1 TCGCATTGC-AATT
8344229 GGGAAAATCG
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 48 0.94
42 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (41 bp):
TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:8344177 original size:20 final size:20
Alignment explanation
Indices: 8344152--8344225 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
8344142 AATTTTCCCA
*
8344152 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
8344172 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
8344193 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
*
8344213 ATTTGCATTGCGA
1 ATTCGCATTGCGA
8344226 ATTGGGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:8348041 original size:13 final size:13
Alignment explanation
Indices: 8348023--8348059 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
8348013 CCTTTTTTTT
*
8348023 GTTATTTCTTTCC
1 GTTATTTCCTTCC
*
8348036 GTTATTTCCTTCT
1 GTTATTTCCTTCC
8348049 GTTATTTCCTT
1 GTTATTTCCTT
8348060 TAGATTCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.08, C:0.22, G:0.08, T:0.62
Consensus pattern (13 bp):
GTTATTTCCTTCC
Found at i:8348182 original size:13 final size:13
Alignment explanation
Indices: 8348164--8348188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8348154 TATTTTTCTT
8348164 GATTTTCCTTTTC
1 GATTTTCCTTTTC
8348177 GATTTTCCTTTT
1 GATTTTCCTTTT
8348189 GCCAGTTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (13 bp):
GATTTTCCTTTTC
Found at i:8348362 original size:117 final size:116
Alignment explanation
Indices: 8348205--8348437 Score: 430
Period size: 117 Copynumber: 2.0 Consensus size: 116
8348195 TGCAGGTTGC
8348205 GTAATAGTTTTGAGCCTAGGTGAATACGTGTGGTATATAAGATGTGGTAGCAAAAGTGTAACAAA
1 GTAATAGTTTTGAGCCTAGGTGAATACGTGTGGTATATAAGATGTGGTAGCAAAAGTGTAACAAA
8348270 CATTTTTTATCTCAAAAAATAATAATAATATAAAAAAGAAAAAAGAAAAAGA
66 CATTTTTTATCTCAAAAAATAATAATAATATAAAAAAG-AAAAAGAAAAAGA
* *
8348322 GTAATAGTTTTGAGTCTAGGTGAATACGTGTGGTATATAAGATGTGGTAGCAAAAGTGTAACAAC
1 GTAATAGTTTTGAGCCTAGGTGAATACGTGTGGTATATAAGATGTGGTAGCAAAAGTGTAACAAA
*
8348387 CATTTTTTATCTCAAAAAATAATAATAATATAAAAAAGAAAAATAAAAAGA
66 CATTTTTTATCTCAAAAAATAATAATAATATAAAAAAGAAAAAGAAAAAGA
8348438 TGTGATCTCT
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
116 12 0.11
117 101 0.89
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (116 bp):
GTAATAGTTTTGAGCCTAGGTGAATACGTGTGGTATATAAGATGTGGTAGCAAAAGTGTAACAAA
CATTTTTTATCTCAAAAAATAATAATAATATAAAAAAGAAAAAGAAAAAGA
Found at i:8353034 original size:2 final size:2
Alignment explanation
Indices: 8353029--8353063 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8353019 TTTATTAGTG
8353029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8353064 ATTTTCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8354225 original size:27 final size:28
Alignment explanation
Indices: 8354164--8354230 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
8354154 CTCGAATCCG
8354164 ACCCGACCCGAATATCACACTTAAAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
8354192 ACCCGACCCGAATATCACACTT-AAAAA
1 ACCCGACCCGAATATCACACTTAAAAAA
8354219 ACCCGACCCGAA
1 ACCCGACCCGAA
8354231 CAAAATAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.43, C:0.36, G:0.09, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATATCACACTTAAAAAA
Found at i:8356958 original size:6 final size:6
Alignment explanation
Indices: 8356947--8356975 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8356937 CTTGCTTAAA
8356947 AAATTT AAATTT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATT
8356976 GAGTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:8357599 original size:24 final size:24
Alignment explanation
Indices: 8357567--8357612 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8357557 AAATTAATTA
8357567 TATTTAAATATCTTACTACATTTC
1 TATTTAAATATCTTACTACATTTC
8357591 TATTTAAATATCTTACTACATT
1 TATTTAAATATCTTACTACATT
8357613 GTTTTATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTAAATATCTTACTACATTTC
Found at i:8362469 original size:33 final size:33
Alignment explanation
Indices: 8362432--8362494 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
8362422 GAAATGAAAT
*
8362432 GGATTTTGAA-AATCAAAATGAAATCTTGAAGAA
1 GGATTTAGAACAATCAAAATGAAAT-TTGAAGAA
**
8362465 GGATTTAGAACTCTCAAAATGAAATTTGAA
1 GGATTTAGAACAATCAAAATGAAATTTGAA
8362495 AGTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (33 bp):
GGATTTAGAACAATCAAAATGAAATTTGAAGAA
Found at i:8370244 original size:16 final size:16
Alignment explanation
Indices: 8370225--8370255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8370215 TTTTAACTGT
*
8370225 TTGATATTTTGATTTA
1 TTGATATATTGATTTA
8370241 TTGATATATTGATTT
1 TTGATATATTGATTT
8370256 GTTTTTTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (16 bp):
TTGATATATTGATTTA
Found at i:8375576 original size:5 final size:5
Alignment explanation
Indices: 8375548--8375679 Score: 61
Period size: 5 Copynumber: 24.8 Consensus size: 5
8375538 TTCGTTCTAT
* * * *
8375548 TTTTA TTTCA TTTCA TTTCA TTTTA TTTTCG TTTTA TTTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA -TTTTA
** * *
8375596 TTTTTCA TTTTA TTTTTA TTTTA TTTT- TTAGCAAA CTTTA TTTTCA TTCTA
1 -TTTT-A TTTTA -TTTTA TTTTA TTTTA TT---TTA TTTTA TTTT-A TTTTA
* * *
8375647 -TTTA TTTTA TTTTA ATTAA TATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8375680 TCTTTGAACA
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
4 5 0.05
5 59 0.60
6 33 0.33
7 1 0.01
8 1 0.01
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:8375577 original size:11 final size:11
Alignment explanation
Indices: 8375548--8375622 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
8375538 TTCGTTCTAT
8375548 TTTTA-TTTCA
1 TTTTATTTTCA
*
8375558 TTTCA-TTTCA
1 TTTTATTTTCA
*
8375568 TTTTATTTTCG
1 TTTTATTTTCA
*
8375579 TTTTATTTTTA
1 TTTTATTTTCA
8375590 TTTTTATTTTTCA
1 -TTTTA-TTTTCA
*
8375603 TTTTATTTTTA
1 TTTTATTTTCA
8375614 TTTTATTTT
1 TTTTATTTT
8375623 TTAGCAAACT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
10 13 0.24
11 27 0.49
12 10 0.18
13 5 0.09
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:8375588 original size:6 final size:6
Alignment explanation
Indices: 8375579--8375623 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
8375569 TTTATTTTCG
8375579 TTTTAT TTTTAT TTTTAT TTTTCA- TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTT
8375624 TAGCAAACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.17
6 29 0.81
7 1 0.03
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:8375825 original size:52 final size:52
Alignment explanation
Indices: 8375727--8375826 Score: 116
Period size: 52 Copynumber: 1.9 Consensus size: 52
8375717 GAAAATATAG
* * *
8375727 TGCAAAAAAATTGAATTAGTTCGAACTATGCAAAAAAATTCGAACAGAAAAA
1 TGCAAAAAAACTGAATTAGTTCGAACTATGCAAAAAAATACCAACAGAAAAA
*
8375779 TGCAAAAAAACTG-ATTTGATTCGAAC-AGTGC-AAAAAATACACAACAGA
1 TGCAAAAAAACTGAATTAG-TTCGAACTA-TGCAAAAAAATAC-CAACAGA
8375827 TTCGAACAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
51 13 0.32
52 28 0.68
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (52 bp):
TGCAAAAAAACTGAATTAGTTCGAACTATGCAAAAAAATACCAACAGAAAAA
Found at i:8376408 original size:58 final size:58
Alignment explanation
Indices: 8376338--8376454 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
8376328 AATTAGGATG
8376338 TTCTAGAACTTGTAATCACAATGCATATCGAGACTACATGTTGAATGTAATGTTTTAA
1 TTCTAGAACTTGTAATCACAATGCATATCGAGACTACATGTTGAATGTAATGTTTTAA
8376396 TTCTAGAACTTGTAATCACAATGCATATCGAGACTACATGTTGAATGTAATGTTTTAA
1 TTCTAGAACTTGTAATCACAATGCATATCGAGACTACATGTTGAATGTAATGTTTTAA
8376454 T
1 T
8376455 GTGATAGGGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (58 bp):
TTCTAGAACTTGTAATCACAATGCATATCGAGACTACATGTTGAATGTAATGTTTTAA
Found at i:8377502 original size:12 final size:12
Alignment explanation
Indices: 8377485--8377514 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
8377475 AAGCTGAACT
8377485 GGGCATGAATTC
1 GGGCATGAATTC
8377497 GGGCATGAATTC
1 GGGCATGAATTC
8377509 GGGCAT
1 GGGCAT
8377515 AAAACATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (12 bp):
GGGCATGAATTC
Found at i:8377814 original size:76 final size:76
Alignment explanation
Indices: 8377653--8377797 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
8377643 ATTTTAAATA
* *
8377653 TTATATTTTGTCTTTGTGTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTA
1 TTATATTTTATCTTTGTGTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
*
8377718 GGATATAATTT
66 AGATATAATTT
* * *
8377729 TTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTT
1 TTATATTTTATCTTTGTGTTAGGTATTTTAGTTTAAATAGGTTTT-AGTATTTTAATTAAGATTT
8377793 AAGAT
65 AAGAT
8377798 GTTTTAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 5 0.08
76 57 0.92
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (76 bp):
TTATATTTTATCTTTGTGTTAGGTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTA
AGATATAATTT
Found at i:8384000 original size:23 final size:22
Alignment explanation
Indices: 8383964--8384037 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
8383954 CACCGAAGTG
*
8383964 CCACATA-TTTGTCCTGAAAGA
1 CCACATAGTTTGTCCCGAAAGA
8383985 CCACATAGTTTTGTCCCGAAAGA
1 CCACATAG-TTTGTCCCGAAAGA
* * *
8384008 CCACATAGGATTATCCCGAAGGA
1 CCACATA-GTTTGTCCCGAAAGA
8384031 CCACATA
1 CCACATA
8384038 TAACCCTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.15
23 38 0.83
24 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (22 bp):
CCACATAGTTTGTCCCGAAAGA
Found at i:8384718 original size:20 final size:20
Alignment explanation
Indices: 8384673--8384723 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8384663 AACCTAATAA
**
8384673 TAGTATCGATACCTTACTCT
1 TAGTATCGATACCCCACTCT
* *
8384693 TGGTATCGATACCCCACTTT
1 TAGTATCGATACCCCACTCT
8384713 TAGTATCGATA
1 TAGTATCGATA
8384724 TTAATTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (20 bp):
TAGTATCGATACCCCACTCT
Found at i:8387320 original size:149 final size:149
Alignment explanation
Indices: 8387050--8387348 Score: 598
Period size: 149 Copynumber: 2.0 Consensus size: 149
8387040 TGGACCAGTC
8387050 TGGATCGAGCTGTCGAATCAGTCGAGCTGAGTCAACTCAGACAGAGTCAACTCGTTAACTGTGAC
1 TGGATCGAGCTGTCGAATCAGTCGAGCTGAGTCAACTCAGACAGAGTCAACTCGTTAACTGTGAC
8387115 TGACCGTTGACTTAACCATGGACCTGACCGTTGACTTTGACTAAAAAGTCAAAATTTTCAGAAAA
66 TGACCGTTGACTTAACCATGGACCTGACCGTTGACTTTGACTAAAAAGTCAAAATTTTCAGAAAA
8387180 AAGTTATATTTTATATTTT
131 AAGTTATATTTTATATTTT
8387199 TGGATCGAGCTGTCGAATCAGTCGAGCTGAGTCAACTCAGACAGAGTCAACTCGTTAACTGTGAC
1 TGGATCGAGCTGTCGAATCAGTCGAGCTGAGTCAACTCAGACAGAGTCAACTCGTTAACTGTGAC
8387264 TGACCGTTGACTTAACCATGGACCTGACCGTTGACTTTGACTAAAAAGTCAAAATTTTCAGAAAA
66 TGACCGTTGACTTAACCATGGACCTGACCGTTGACTTTGACTAAAAAGTCAAAATTTTCAGAAAA
8387329 AAGTTATATTTTATATTTT
131 AAGTTATATTTTATATTTT
8387348 T
1 T
8387349 TTGACATCCT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (149 bp):
TGGATCGAGCTGTCGAATCAGTCGAGCTGAGTCAACTCAGACAGAGTCAACTCGTTAACTGTGAC
TGACCGTTGACTTAACCATGGACCTGACCGTTGACTTTGACTAAAAAGTCAAAATTTTCAGAAAA
AAGTTATATTTTATATTTT
Found at i:8389430 original size:24 final size:24
Alignment explanation
Indices: 8389403--8389448 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8389393 CACCACAGCT
*
8389403 CGTATAAATGCACCGAAGTGCCCC
1 CGTAGAAATGCACCGAAGTGCCCC
* *
8389427 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
8389449 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (24 bp):
CGTAGAAATGCACCGAAGTGCCCC
Found at i:8390164 original size:62 final size:65
Alignment explanation
Indices: 8390058--8390184 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 65
8390048 TCATGGGGAA
*
8390058 TCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGG-AATTCATATTCGTTGAGGGG
1 TCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTTGAGGGG
* *
8390122 TCGGTT-CCCCCCT-GGGGTATCGATTCCCCTCTAGTATACTGGAAATTCATATTCGTTGAGGGG
1 TCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTTGAGGGG
8390185 GTATCGGTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
62 26 0.44
63 27 0.46
64 6 0.10
ACGTcount: A:0.17, C:0.27, G:0.26, T:0.31
Consensus pattern (65 bp):
TCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGGAAATTCATATTCGTTGAGGGG
Found at i:8396229 original size:23 final size:23
Alignment explanation
Indices: 8396203--8396261 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
8396193 TCGTATAAAA
8396203 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
8396226 TGCACCGAAGTG-CCCGTAGAAT
1 TGCACCGAAGTGCCCCGTAGAAT
*
8396248 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
8396262 ATATAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCCCGTAGAAT
Found at i:8396601 original size:189 final size:186
Alignment explanation
Indices: 8396265--8396639 Score: 682
Period size: 187 Copynumber: 2.0 Consensus size: 186
8396255 TAGTGCCATA
8396265 TAATGATGTCCCTAAGGACCACATAGAATTCCTTAAGAATCATATACATATACTATGGATCAAGT
1 TAATGATGTCCCTAAGGACCACATAGAATTCCTTAAGAATCATATACATATACTATGGATCAAGT
*
8396330 GTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACATATGTCCTAAAGAACCGAGTATCCCCT
66 GTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACATATGTCCTAAAGAACCGAGTATACCCT
8396395 CTACCCTTGGCATGCCAAACTATACCTATAGTTCTCATCTACATAACATGGGCTTTT
131 CTACCCTTGGCATGCC-AACTATACCTATAGTTCTCATCTACATAACATGGGCTTTT
8396452 TAATGATGTCCCTAAGGACCACATAGAATTCCTTAAGAATCATATAC-TATACTATGGATCAAGT
1 TAATGATGTCCCTAAGGACCACATAGAATTCCTTAAGAATCATATACATATACTATGGATC-A--
8396516 ATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATA-ACATATGTCCTAAAGAACCGAGTATA
63 A-GTGTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACATATGTCCTAAAGAACCGAGTATA
8396580 CCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATCTACATAACATGGGCTTTT
127 CCCTCTACCCTTGGCATGCCAACTATACCTATAGTTCTCATCTACATAACATGGGCTTTT
8396640 ACATTTCACG
Statistics
Matches: 183, Mismatches: 1, Indels: 7
0.96 0.01 0.04
Matches are distributed among these distances:
186 13 0.07
187 48 0.26
188 40 0.22
189 46 0.25
190 36 0.20
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (186 bp):
TAATGATGTCCCTAAGGACCACATAGAATTCCTTAAGAATCATATACATATACTATGGATCAAGT
GTCTTTCAAGACTTCACACAGGTTCCAAAGAATATACATATGTCCTAAAGAACCGAGTATACCCT
CTACCCTTGGCATGCCAACTATACCTATAGTTCTCATCTACATAACATGGGCTTTT
Found at i:8397175 original size:65 final size:66
Alignment explanation
Indices: 8397056--8397185 Score: 201
Period size: 65 Copynumber: 2.0 Consensus size: 66
8397046 TTTTCTCATG
*
8397056 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATTCTGGAATTCATATTCGTTG
1 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGGAATTCATATTCGTTG
8397121 A
66 A
* * *
8397122 GGGGTATCGGTT-CCCCCCTGGGGGTATCGATT-CCCTCTAGTATACTGGAAATTCATATTCGTT
1 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGG-AATTCATATTCGTT
8397185 G
65 G
8397186 CTCAAACATA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 13 0.22
65 35 0.59
66 11 0.19
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (66 bp):
GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCACTAGCATACTGGAATTCATATTCGTTG
A
Found at i:8398277 original size:25 final size:25
Alignment explanation
Indices: 8398249--8398303 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
8398239 AATATTATAT
8398249 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
8398274 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
8398299 ATATA
1 ATATA
8398304 TAAAATATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:8398280 original size:34 final size:34
Alignment explanation
Indices: 8398237--8398321 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
8398227 CCCGAACCCG
8398237 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
*
8398271 AAAATATTATATATATAATTAATATAAAATATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
8398305 AAAATATTATATATATA
1 AAAATATTATATATATA
8398322 TAATCGGGTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:8399195 original size:41 final size:41
Alignment explanation
Indices: 8399157--8399345 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
8399147 CTTTTTTTGA
*
8399157 ACAAACGCCGCTATAGACTCATACTTTAGTGGTGTTTTTAT
1 ACAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
* * * * * *
8399198 ACGAACGCCGCTAAAGAATCCTACTTTAGTGGCCTTTTTTT
1 ACAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
** **
8399239 ATGAACTTCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
* * **
8399280 ACTAACGCCGCTATAGGCTTGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
* * *
8399321 ACAAACGTCGCTAAAGACTCGTACT
1 ACAAACGCCGCTATAGACTCATACT
8399346 AAGTTTACAA
Statistics
Matches: 121, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 121 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (41 bp):
ACAAACGCCGCTATAGACTCATACTTTAGTGGCGTTTTTAT
Found at i:8399305 original size:82 final size:82
Alignment explanation
Indices: 8399157--8399345 Score: 243
Period size: 82 Copynumber: 2.3 Consensus size: 82
8399147 CTTTTTTTGA
* *
8399157 ACAAACGCCGCTATAGACTCATACTTTAGTGGTGTTTTTATACGAACGCCGCTAAAGAATCCTAC
1 ACAAACGTCGCTATAGACTCATACTTTAGTGGCGTTTTTATACGAACGCCGCTAAAGAATCCTAC
*
8399222 TTTAGTGGCCTTTTTTT
66 TTTAGTGGCCTTTTTAT
** * * * ** **
8399239 ATGAACTTCGCTATAGACTCATACTTTAGTGGCGTTTTTATACTAACGCCGCTATAGGCTTGTAC
1 ACAAACGTCGCTATAGACTCATACTTTAGTGGCGTTTTTATACGAACGCCGCTAAAGAATCCTAC
*
8399304 TTTAGTGGCGTTTTTAT
66 TTTAGTGGCCTTTTTAT
* *
8399321 ACAAACGTCGCTAAAGACTCGTACT
1 ACAAACGTCGCTATAGACTCATACT
8399346 AAGTTTACAA
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
82 89 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (82 bp):
ACAAACGTCGCTATAGACTCATACTTTAGTGGCGTTTTTATACGAACGCCGCTAAAGAATCCTAC
TTTAGTGGCCTTTTTAT
Found at i:8405556 original size:46 final size:45
Alignment explanation
Indices: 8405502--8405598 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 45
8405492 GTAATATTAT
*
8405502 TTATGACTT-AGACAATATT-TTAGCTTTAATGTGTTATAGTACTAA
1 TTATGACTTCA-ACAATATTGTT-GCTTTAATGTGTTATAGCACTAA
* * *
8405547 TTATAGACTTCAACAATATTGTTGGTTTGATGTGTTGTAGCACTAA
1 TTAT-GACTTCAACAATATTGTTGCTTTAATGTGTTATAGCACTAA
8405593 TTATGA
1 TTATGA
8405599 ATTAAACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
45 6 0.13
46 36 0.80
47 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (45 bp):
TTATGACTTCAACAATATTGTTGCTTTAATGTGTTATAGCACTAA
Found at i:8405832 original size:12 final size:12
Alignment explanation
Indices: 8405815--8405840 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8405805 TATATCAATT
8405815 ATTGTTGTTTTA
1 ATTGTTGTTTTA
8405827 ATTGTTGTTTTA
1 ATTGTTGTTTTA
8405839 AT
1 AT
8405841 GTGATGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (12 bp):
ATTGTTGTTTTA
Found at i:8408992 original size:16 final size:16
Alignment explanation
Indices: 8408971--8409021 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
8408961 ATTTTTTGAT
*
8408971 GAGCTTAACGAGCAAC
1 GAGCTTAATGAGCAAC
8408987 GAGCTTAATGAGCAAC
1 GAGCTTAATGAGCAAC
8409003 GAGCTTAATGAGCAAC
1 GAGCTTAATGAGCAAC
8409019 GAG
1 GAG
8409022 TTTGTTTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (16 bp):
GAGCTTAATGAGCAAC
Found at i:8409574 original size:21 final size:22
Alignment explanation
Indices: 8409545--8409590 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
8409535 CAGTAAAAAA
* *
8409545 TTACGTAAAACATT-ATTTTTT
1 TTACCTAAAACATTAATGTTTT
8409566 TTACCTAAAACATTAATGTTTT
1 TTACCTAAAACATTAATGTTTT
8409588 TTA
1 TTA
8409591 ACATTTACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (22 bp):
TTACCTAAAACATTAATGTTTT
Found at i:8411867 original size:25 final size:25
Alignment explanation
Indices: 8411838--8411888 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8411828 ACTCCTTCAC
8411838 TAAACCAGTAAGCCATAAAGCTTCT
1 TAAACCAGTAAGCCATAAAGCTTCT
8411863 TAAACCAGTAAGCCATAAAGCTTCT
1 TAAACCAGTAAGCCATAAAGCTTCT
8411888 T
1 T
8411889 TTGCAGCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (25 bp):
TAAACCAGTAAGCCATAAAGCTTCT
Found at i:8417419 original size:3 final size:3
Alignment explanation
Indices: 8417411--8417488 Score: 133
Period size: 3 Copynumber: 26.3 Consensus size: 3
8417401 TTCGGATACC
8417411 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8417459 ATT ATT ATT ATT ATCT ATT -TT ATT -TT ATT A
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A
8417489 ATTTTCAGGT
Statistics
Matches: 72, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 65 0.90
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8418637 original size:108 final size:110
Alignment explanation
Indices: 8418447--8418702 Score: 336
Period size: 108 Copynumber: 2.3 Consensus size: 110
8418437 ATCATGCGTA
* ** * *
8418447 GGTCCCCCTAAGTTAGCCGTGTTTTTGCATGTTGGTCACTTGGGAGGACCGAAGTTGATATTTAC
1 GGTCCCCCTAAGTTAGCCGTGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTCATATTTAC
* *
8418512 CCATTTTCATGCATGTTATATA-TTTTTTGGGATATTTGTTGTTT
66 CAATTTTCATGCATGTTATATATTTTTTTGGAATATTTGTTGTTT
* * * *
8418556 GGTCCCCCTAAGTTA-TCTTGTTTTTGTATGTTGGTCACCTACGAGGACCAAAGTTCTTATTTAC
1 GGTCCCCCTAAGTTAGCCGTGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTCATATTTAC
*
8418620 CAATTTTCATGCATGTTATGTATTTTTTTGGAATATTTGTTGTTT
66 CAATTTTCATGCATGTTATATATTTTTTTGGAATATTTGTTGTTT
* * * ** *
8418665 AGTCCCCCTTATTTAGGTGTGTTTTTGCATTTTGGTCA
1 GGTCCCCCTAAGTTAGCCGTGTTTTTGCATGTTGGTCA
8418703 TGTGTAGTGA
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
108 60 0.48
109 48 0.38
110 17 0.14
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.45
Consensus pattern (110 bp):
GGTCCCCCTAAGTTAGCCGTGTTTTTGCATGTTGGTCACCTACGAGGACCAAAGTTCATATTTAC
CAATTTTCATGCATGTTATATATTTTTTTGGAATATTTGTTGTTT
Found at i:8425842 original size:33 final size:33
Alignment explanation
Indices: 8425792--8425857 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8425782 CCTTTACAAC
* *
8425792 TCCCTAGTTTTTCACAGGCTAAACTAGAACCAA
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACCAA
* *
8425825 TCCCTAGCTTTTAACAGGCTCAGCTAGAACCAA
1 TCCCTAGCTTTTAACAGGCTAAACTAGAACCAA
8425858 AACCCCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (33 bp):
TCCCTAGCTTTTAACAGGCTAAACTAGAACCAA
Found at i:8431701 original size:3 final size:3
Alignment explanation
Indices: 8431693--8431745 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
8431683 TATATTAGTA
8431693 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8431741 AAT AA
1 AAT AA
8431746 CATGACAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8432169 original size:133 final size:132
Alignment explanation
Indices: 8431896--8432259 Score: 453
Period size: 133 Copynumber: 2.8 Consensus size: 132
8431886 TGTCACTCAA
* * * * * * *
8431896 GGAATATCAGATATGAGGATTTTGGTCCATTCTACTGTCACTCAGGGAAGACTGAA-TCGGGTAG
1 GGAATATCAGATCTGGGGATGTTGATCCATTCTGCTGTCACTCAGGGAAGATTGAATTGGGGTAG
* * * * * * * *
8431960 ACTTGTTCCGTTGTTACTCAGAGAATATCAAATTTTGGAAGAGGGATATGTTCTGCTTCTTTTGA
66 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGGACATATTCTGCTTCTTCTGA
8432025 AG
131 AG
* * * *
8432027 GGAATATCAGATCTGGGGATGTTGATCCATTCCGCTGTCACTCAAGGAAGATTAAATTGGGGTAT
1 GGAATATCAGATCTGGGGATGTTGATCCATTCTGCTGTCACTCAGGGAAGATTGAATTGGGGTAG
* * *
8432092 ACTTGTTCCACTGTCACTCTGGGAATATCAAATCTTGAAAAGAGGGACCTATTCTGCTTCTTCTG
66 ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTG-AAAGAGGGACATATTCTGCTTCTTCTG
8432157 AAG
130 AAG
* * *
8432160 GGAATATCAGATCTGAGGGA-GTTGATCAATTCTGCTGTCACTTAGGGAAGATTGAATTGGGGAA
1 GGAATATCAGATCTG-GGGATGTTGATCCATTCTGCTGTCACTCAGGGAAGATTGAATTGGGGTA
* *
8432224 GACCTGTTCTGCTGTCACTCAGGGAATATCAAATCT
65 GACTTGTTCCGCTGTCACTCAGGGAATATCAAATCT
8432260 GTAAATTAAA
Statistics
Matches: 197, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
131 47 0.24
132 37 0.19
133 109 0.55
134 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (132 bp):
GGAATATCAGATCTGGGGATGTTGATCCATTCTGCTGTCACTCAGGGAAGATTGAATTGGGGTAG
ACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGGGACATATTCTGCTTCTTCTGA
AG
Found at i:8434937 original size:21 final size:20
Alignment explanation
Indices: 8434913--8435025 Score: 50
Period size: 21 Copynumber: 5.3 Consensus size: 20
8434903 CTATGTTGTC
8434913 CTTCGGGATAATTATGTGGTA
1 CTTCGGGA-AATTATGTGGTA
* *
8434934 CTTCGATGCAAACTTA--TGGTC
1 CTTCG--GGAAA-TTATGTGGTA
* *
8434955 CTTTGGAACAATTATGTGGTA
1 CTTCGGGA-AATTATGTGGTA
** *
8434976 CTTCGGTGCAAACCAATGTGGTC
1 CTTCGG-G-AAA-TTATGTGGTA
* *
8434999 CTTCAGGATAATTATGTGGCA
1 CTTCGGGA-AATTATGTGGTA
8435020 CTTCGG
1 CTTCGG
8435026 TGCAAGTTAC
Statistics
Matches: 66, Mismatches: 16, Indels: 20
0.65 0.16 0.20
Matches are distributed among these distances:
19 5 0.08
20 2 0.03
21 34 0.52
22 7 0.11
23 18 0.27
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
CTTCGGGAAATTATGTGGTA
Found at i:8441890 original size:21 final size:21
Alignment explanation
Indices: 8441838--8441909 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
8441828 CTTTAGGGAT
* *
8441838 AATTAAGTGGCACTTCGGTGC
1 AATTATGTGGCATTTCGGTGC
*
8441859 AAACCTATGTGGTCA-TTCGG-GAC
1 -AA-TTATGTGG-CATTTCGGTG-C
8441882 AATTATGTGGCATTTCGGTGC
1 AATTATGTGGCATTTCGGTGC
8441903 AATTATG
1 AATTATG
8441910 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
20 2 0.05
21 20 0.48
22 6 0.14
23 12 0.29
24 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (21 bp):
AATTATGTGGCATTTCGGTGC
Found at i:8441892 original size:44 final size:44
Alignment explanation
Indices: 8441775--8441904 Score: 179
Period size: 44 Copynumber: 3.0 Consensus size: 44
8441765 GTCGACGGTT
* * * *
8441775 CTATGTGGTCCTTCGAGACAATTATGTGGAACTTCGATGCAAAC
1 CTATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAAAC
* * * *
8441819 CTATGTGGTCTTTAGGGATAATTAAGTGGCACTTCGGTGCAAAC
1 CTATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAAAC
*
8441863 CTATGTGGTCATTCGGGACAATTATGTGGCATTTCGGTGCAA
1 CTATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAA
8441905 TTATGAGCTG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
CTATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAAAC
Found at i:8442999 original size:24 final size:25
Alignment explanation
Indices: 8442948--8443001 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
8442938 ATCTTTGTGG
8442948 ATTTTTGTCTTTAGCCCCTTTTCAA
1 ATTTTTGTCTTTAGCCCCTTTTCAA
*
8442973 ATTTTTGTCTTTATCCCCTTTTC-A
1 ATTTTTGTCTTTAGCCCCTTTTCAA
8442997 ATTTT
1 ATTTT
8443002 CCTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.15, C:0.22, G:0.06, T:0.57
Consensus pattern (25 bp):
ATTTTTGTCTTTAGCCCCTTTTCAA
Found at i:8453959 original size:16 final size:15
Alignment explanation
Indices: 8453940--8454014 Score: 57
Period size: 18 Copynumber: 4.8 Consensus size: 15
8453930 TGAAAGTGAA
8453940 AAAAGAAAGAAAAATG
1 AAAA-AAAGAAAAATG
*
8453956 AAAAAATGAAAAAATG
1 AAAAAAAG-AAAAATG
*
8453972 AAAAAAAGAGAAAAAAAG
1 -AAAAAA-AG-AAAAATG
8453990 AGAAAAAAG-AAAAT-
1 A-AAAAAAGAAAAATG
8454004 -AAAAAAGAAAA
1 AAAAAAAGAAAA
8454015 TAAAATAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
12 7 0.14
13 3 0.06
15 7 0.14
16 11 0.22
17 9 0.18
18 13 0.26
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (15 bp):
AAAAAAAGAAAAATG
Found at i:8453962 original size:8 final size:8
Alignment explanation
Indices: 8453949--8453977 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8453939 AAAAAGAAAG
8453949 AAAAATGA
1 AAAAATGA
8453957 AAAAATGA
1 AAAAATGA
8453965 AAAAATGA
1 AAAAATGA
8453973 AAAAA
1 AAAAA
8453978 AGAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAATGA
Found at i:8453969 original size:10 final size:9
Alignment explanation
Indices: 8453938--8454029 Score: 64
Period size: 10 Copynumber: 9.8 Consensus size: 9
8453928 AATGAAAGTG
8453938 AAAAAAGAA
1 AAAAAAGAA
8453947 AGAAAAATG-A
1 A-AAAAA-GAA
*
8453957 AAAAATG-A
1 AAAAAAGAA
*
8453965 AAAAATGAA
1 AAAAAAGAA
8453974 AAAAAGAGAA
1 AAAAA-AGAA
8453984 AAAAAGAGAA
1 AAAAA-AGAA
8453994 AAAAGAA-AA
1 AAAA-AAGAA
8454003 TAAAAAAGAA
1 -AAAAAAGAA
*
8454013 AATAAAATAA
1 AA-AAAAGAA
*
8454023 ATAAAAG
1 AAAAAAG
8454030 GGGTTGAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
8 9 0.13
9 21 0.30
10 38 0.54
11 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:8453978 original size:19 final size:18
Alignment explanation
Indices: 8453915--8454014 Score: 73
Period size: 19 Copynumber: 5.3 Consensus size: 18
8453905 GTACTTTGCC
*
8453915 TGAATAAAGAAAAAATGAAA
1 TGAAAAAAGAAAAAA--AAA
*
8453935 GTGAAAAAAGAAAGAAAAA
1 -TGAAAAAAGAAAAAAAAA
8453954 TGAAAAAATG---AAAAAA
1 TGAAAAAA-GAAAAAAAAA
8453970 TGAAAAAAAGAGAAAAAAAGA
1 TG-AAAAAAGA-AAAAAAA-A
8453991 -GAAAAAAGAAAATAAAAA
1 TGAAAAAAGAAAA-AAAAA
*
8454009 AGAAAA
1 TGAAAA
8454015 TAAAATAAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
16 8 0.12
17 6 0.09
18 12 0.18
19 21 0.31
20 6 0.09
21 14 0.21
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
TGAAAAAAGAAAAAAAAA
Found at i:8453985 original size:8 final size:9
Alignment explanation
Indices: 8453947--8453996 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
8453937 GAAAAAAGAA
8453947 AGAAAAATG
1 AGAAAAATG
8453956 A-AAAAATG
1 AGAAAAATG
8453964 A-AAAAATG
1 AGAAAAATG
*
8453972 A-AAAAAAG
1 AGAAAAATG
*
8453980 AGAAAAAAAG
1 AG-AAAAATG
8453990 AGAAAAA
1 AGAAAAA
8453997 AGAAAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 23 0.61
9 6 0.16
10 9 0.24
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (9 bp):
AGAAAAATG
Found at i:8454019 original size:11 final size:12
Alignment explanation
Indices: 8453992--8454019 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8453982 AAAAAAAGAG
8453992 AAAAAAGAAAAT
1 AAAAAAGAAAAT
8454004 AAAAAAGAAAAT
1 AAAAAAGAAAAT
8454016 AAAA
1 AAAA
8454020 TAAATAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:8455685 original size:3 final size:3
Alignment explanation
Indices: 8455677--8455715 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
8455667 TTCGGATACC
8455677 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8455716 ATTTTCAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8457110 original size:109 final size:106
Alignment explanation
Indices: 8456863--8457112 Score: 261
Period size: 107 Copynumber: 2.3 Consensus size: 106
8456853 CACATAGGTT
* * *
8456863 CCCCTAAGTTA-GCAGTGTTTTTGCATATTGGTCACCTACGAGGACCGAAGTTGCTATTTACCCT
1 CCCCTAATTTAGGCA-TATTTTTGCATATTGGTCACCTACAAGGACCGAAGTTGCTATTTACCCT
* * **
8456927 TTTCATGCATATTATATTTTTTTGGGATATTTTATGTTTGGTC
65 TTTCATGCATATTATATTTTTTTGGAATATTTGATGTTT-GAA
*** * * * *
8456970 CCCCTAATTTAGTTGTGTTTTTGCATGTTGGTGACCTGCAAGGACCGAAGTTGCTATTTACCCAT
1 CCCCTAATTTAGGCATATTTTTGCATATTGGTCACCTACAAGGACCGAAGTTGCTATTTACCC-T
* * *
8457035 TTTCATGCCTGTTATGTATTTGTTTTGGAATATTTGCTGTTT-AA
65 TTTCATGCATATTA--TATTT-TTTTGGAATATTTGATGTTTGAA
* *
8457079 CCCCTTATTTAGGCATATTTTTGCATTTTGGTCA
1 CCCCTAATTTAGGCATATTTTTGCATATTGGTCA
8457113 TGTATAGTGA
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
107 54 0.47
108 13 0.11
109 27 0.23
110 5 0.04
111 17 0.15
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.44
Consensus pattern (106 bp):
CCCCTAATTTAGGCATATTTTTGCATATTGGTCACCTACAAGGACCGAAGTTGCTATTTACCCTT
TTCATGCATATTATATTTTTTTGGAATATTTGATGTTTGAA
Found at i:8458944 original size:2 final size:2
Alignment explanation
Indices: 8458937--8458975 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8458927 TTTGGTAGTC
8458937 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8458976 TAATCCGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8472778 original size:16 final size:16
Alignment explanation
Indices: 8472757--8472789 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8472747 CCCATTTATC
*
8472757 ATTTTAAAACATACTT
1 ATTTTAAAACACACTT
8472773 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
8472789 A
1 A
8472790 AAACACACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:8475101 original size:20 final size:21
Alignment explanation
Indices: 8475055--8475115 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
8475045 ATTCCCCTGT
*
8475055 GGGGGAATCCGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
8475078 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
8475098 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
8475116 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:8482303 original size:31 final size:32
Alignment explanation
Indices: 8482268--8482328 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
8482258 TTTTAAGTTT
* *
8482268 TTTTAATTTTATTACT-TAACTTTCAAATTAC
1 TTTTAATTTAATCACTCTAACTTTCAAATTAC
8482299 TTTTAATTTAATCACTCTAACTTTCAAATT
1 TTTTAATTTAATCACTCTAACTTTCAAATT
8482329 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTTAATTTAATCACTCTAACTTTCAAATTAC
Found at i:8484068 original size:17 final size:17
Alignment explanation
Indices: 8484046--8484079 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8484036 TATAATATTA
8484046 CTTATACATTAAAAATT
1 CTTATACATTAAAAATT
8484063 CTTATACATTAAAAATT
1 CTTATACATTAAAAATT
8484080 TTAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
CTTATACATTAAAAATT
Found at i:8484289 original size:3 final size:3
Alignment explanation
Indices: 8484281--8484329 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
8484271 CTTTTCGTCA
*
8484281 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TATT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
8484326 TAT T
1 TAT T
8484330 TTTTTTTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8484337 original size:19 final size:19
Alignment explanation
Indices: 8484285--8484329 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
8484275 TCGTCATATT
*
8484285 ATTATTATTATATTATTATT
1 ATTATTATTAT-TTATTATA
8484305 ATTATTATTATTTATTATA
1 ATTATTATTATTTATTATA
8484324 ATTATT
1 ATTATT
8484330 TTTTTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATTATTATTTATTATA
Found at i:8484959 original size:10 final size:10
Alignment explanation
Indices: 8484944--8484976 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8484934 TCGGGGCTCG
8484944 ATTTAGGGTT
1 ATTTAGGGTT
*
8484954 ATTTAGGGTC
1 ATTTAGGGTT
8484964 ATTTA-GGTT
1 ATTTAGGGTT
8484973 ATTT
1 ATTT
8484977 TTAGCCTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.52
Consensus pattern (10 bp):
ATTTAGGGTT
Found at i:8488172 original size:6 final size:6
Alignment explanation
Indices: 8488161--8488190 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8488151 TAACACCTTG
*
8488161 TGCATT TGCATT TGCATT TGCATT TACATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT
8488191 CTCGTTTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TGCATT
Found at i:8491685 original size:11 final size:11
Alignment explanation
Indices: 8491669--8491693 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8491659 AAAGTGACAA
8491669 GATTGAAAACT
1 GATTGAAAACT
8491680 GATTGAAAACT
1 GATTGAAAACT
8491691 GAT
1 GAT
8491694 AAAACAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (11 bp):
GATTGAAAACT
Found at i:8494025 original size:42 final size:42
Alignment explanation
Indices: 8493978--8494082 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
8493968 AATTTACAAG
* * *
8493978 TCCTTCGGGCCATCAGTAAGTCTTCCGAGTATGATGTATAAA
1 TCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCATAAA
*
8494020 TCCTTCGGGTCATCAGTAAGTCTTCTGAGCATGATGCATAAA
1 TCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCATAAA
*
8494062 TCCTTCGGGTCATCTGTAAGT
1 TCCTTCGGGTCATCAGTAAGT
8494083 TTTTCGAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (42 bp):
TCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCATAAA
Found at i:8494294 original size:42 final size:42
Alignment explanation
Indices: 8494247--8494361 Score: 194
Period size: 42 Copynumber: 2.7 Consensus size: 42
8494237 CTAAAATTTA
* *
8494247 TAAGTCTTCCGAGCATGATTCATAAATCCTTCGGGTCATCAG
1 TAAGTCTTCTGAGCATGATGCATAAATCCTTCGGGTCATCAG
*
8494289 TAAGTCTTCTGAGCATGATGCATAAATCATTCGGGTCATCAG
1 TAAGTCTTCTGAGCATGATGCATAAATCCTTCGGGTCATCAG
*
8494331 TAAGTCTTCTTAGCATGATGCATAAATCCTT
1 TAAGTCTTCTGAGCATGATGCATAAATCCTT
8494362 TAGATCTGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (42 bp):
TAAGTCTTCTGAGCATGATGCATAAATCCTTCGGGTCATCAG
Found at i:8494443 original size:47 final size:48
Alignment explanation
Indices: 8494363--8494477 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 48
8494353 TAAATCCTTT
** **
8494363 AGATCTGATATTCCCTTCAG-AGCAAGCAAAACATGTCTCTCTTTTCC
1 AGATCTGATATTCCCTTCAGAAGCAAGCAAAACATAACTCTCTCCTCC
* *
8494410 AGATCTGATATTCCCTTCAGAAG-AAGTAGAACATAACTCTCTCCTCC
1 AGATCTGATATTCCCTTCAGAAGCAAGCAAAACATAACTCTCTCCTCC
*
8494457 AGATTTGATATTCCCTTCAGA
1 AGATCTGATATTCCCTTCAGA
8494478 GCCAGCGGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 58 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (48 bp):
AGATCTGATATTCCCTTCAGAAGCAAGCAAAACATAACTCTCTCCTCC
Found at i:8494710 original size:3 final size:3
Alignment explanation
Indices: 8494702--8494773 Score: 112
Period size: 3 Copynumber: 24.3 Consensus size: 3
8494692 TTTTCTGTCA
*
8494702 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TA- TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8494748 TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT T
8494774 TGTTTTTTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8494726 original size:20 final size:20
Alignment explanation
Indices: 8494701--8494773 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
8494691 TTTTTCTGTC
8494701 ATATTATTATTATTATTATT
1 ATATTATTATTATTATTATT
*
8494721 ATATTATTATTATTATTATA
1 ATATTATTATTATTATTATT
8494741 ATATTATTATTATTATTATT
1 ATATTATTATTATTATTATT
8494761 -TATTATTATTATT
1 ATATTATTATTATT
8494774 TGTTTTTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 13 0.25
20 38 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTATTATTATTATTATT
Found at i:8494727 original size:17 final size:17
Alignment explanation
Indices: 8494705--8494773 Score: 111
Period size: 17 Copynumber: 3.9 Consensus size: 17
8494695 TCTGTCATAT
8494705 TATTATTATTATTATTA
1 TATTATTATTATTATTA
8494722 TATTATTATTATTATTA
1 TATTATTATTATTATTA
*
8494739 TAATATTATTATTATTA
1 TATTATTATTATTATTA
8494756 TTATTTATTATTATTATT
1 -TA-TTATTATTATTATT
8494774 TGTTTTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 33 0.69
18 2 0.04
19 13 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:8496698 original size:14 final size:14
Alignment explanation
Indices: 8496679--8496707 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8496669 TCGATTGGAG
8496679 TAAGAATCGATTGC
1 TAAGAATCGATTGC
8496693 TAAGAATCGATTGC
1 TAAGAATCGATTGC
8496707 T
1 T
8496708 TCAAGGTATG
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:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (14 bp):
TAAGAATCGATTGC
Found at i:8498400 original size:2 final size:2
Alignment explanation
Indices: 8498393--8498451 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
8498383 AAATATGAAT
8498393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8498435 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
8498452 GATTACATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8506134 original size:2 final size:2
Alignment explanation
Indices: 8506127--8506157 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8506117 AACTCTTTTA
8506127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8506158 AAATTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8515065 original size:23 final size:23
Alignment explanation
Indices: 8515021--8515071 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8515011 TCGTGAATGC
* *
8515021 TAAATGAACACGTTCGCAAACAT
1 TAAATGAACACGTTCGAAAACAA
*
8515044 TAAATGAACATGTTC-AAGAACAA
1 TAAATGAACACGTTCGAA-AACAA
8515067 TAAAT
1 TAAAT
8515072 AAATTAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (23 bp):
TAAATGAACACGTTCGAAAACAA
Found at i:8516350 original size:19 final size:18
Alignment explanation
Indices: 8516319--8516362 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
8516309 TTAAAAAAAA
8516319 TATTAATTATATTTAT-TAT
1 TATT-ATTATA-TTATCTAT
8516338 TATTATTACTATTATCTAT
1 TATTATTA-TATTATCTAT
8516357 TATTAT
1 TATTAT
8516363 CAATAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATTATATTATCTAT
Found at i:8516633 original size:23 final size:23
Alignment explanation
Indices: 8516580--8516625 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8516570 CTAACCTGAC
8516580 CCCTAGGGTTTCTAAAACCCTAA
1 CCCTAGGGTTTCTAAAACCCTAA
8516603 CCCTAGGGTTTCTAAAACCCTAA
1 CCCTAGGGTTTCTAAAACCCTAA
8516626 TCGTAGGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
CCCTAGGGTTTCTAAAACCCTAA
Found at i:8527216 original size:21 final size:21
Alignment explanation
Indices: 8527183--8527234 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
8527173 TGACGGTAGA
* *
8527183 TTCTCGAT-TACTTCTACCTT
1 TTCTCTATCTACTTATACCTT
8527203 TTCTCTATCTACTTATACCTT
1 TTCTCTATCTACTTATACCTT
8527224 TTCTCTATCTA
1 TTCTCTATCTA
8527235 ATTCAATACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.17, C:0.29, G:0.02, T:0.52
Consensus pattern (21 bp):
TTCTCTATCTACTTATACCTT
Found at i:8533725 original size:7 final size:7
Alignment explanation
Indices: 8533715--8533740 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8533705 TTTAAGAATG
8533715 AATTTTA
1 AATTTTA
8533722 AATTTTA
1 AATTTTA
8533729 AATTTTA
1 AATTTTA
8533736 AATTT
1 AATTT
8533741 ACATATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:8536999 original size:45 final size:44
Alignment explanation
Indices: 8536948--8537034 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
8536938 TCTCGTATAA
* *
8536948 TTTGCACTGAAGTGCAACATAATTGTCCCGAAAGGACCACATAGG
1 TTTGCACCGAAGTGCAACATAATTATCCCG-AAGGACCACATAGG
* *
8536993 TTTGCACCGAAGTGCCACATAATTATCCTGAAGGACCACATA
1 TTTGCACCGAAGTGCAACATAATTATCCCGAAGGACCACATA
8537035 AAACCCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 12 0.32
45 26 0.68
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (44 bp):
TTTGCACCGAAGTGCAACATAATTATCCCGAAGGACCACATAGG
Found at i:8539473 original size:7 final size:7
Alignment explanation
Indices: 8539461--8539495 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
8539451 TGATTTTTCC
8539461 GTTGACT
1 GTTGACT
*
8539468 GTTGACC
1 GTTGACT
*
8539475 GTTGACC
1 GTTGACT
8539482 GTTGACT
1 GTTGACT
8539489 GTTGACT
1 GTTGACT
8539496 TTCTTTGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.37
Consensus pattern (7 bp):
GTTGACT
Found at i:8541084 original size:32 final size:32
Alignment explanation
Indices: 8541033--8541094 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
8541023 ACACTCCTGG
*
8541033 ACATGAAATTCCATAACAATCATGATCATACT
1 ACATAAAATTCCATAACAATCATGATCATACT
* *
8541065 ACATAAAATTCTATGACAATCATGATCATA
1 ACATAAAATTCCATAACAATCATGATCATA
8541095 TTAGGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (32 bp):
ACATAAAATTCCATAACAATCATGATCATACT
Found at i:8550287 original size:18 final size:18
Alignment explanation
Indices: 8550264--8550308 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
8550254 CTTGAAGGAA
*
8550264 AGAGAGGTGGGATATCAT
1 AGAGAGGTGGGATAGCAT
*
8550282 AGAGAGGTGGGATGGCAT
1 AGAGAGGTGGGATAGCAT
8550300 AGAAGAGGT
1 AG-AGAGGT
8550309 TGACGATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.33, C:0.04, G:0.44, T:0.18
Consensus pattern (18 bp):
AGAGAGGTGGGATAGCAT
Found at i:8559787 original size:32 final size:31
Alignment explanation
Indices: 8559751--8559824 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
8559741 GGGGCCATGA
*
8559751 GGCCTACCTAAGAATACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAAT-CATCTCAGGGCCGCAG
** *
8559783 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAATCATCTCAGGGCCGCAG
*
8559814 AGCCTACCTAA
1 GGCCTACCTAA
8559825 AATTCACATT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.27, C:0.31, G:0.26, T:0.16
Consensus pattern (31 bp):
GGCCTACCTAAGAATCATCTCAGGGCCGCAG
Found at i:8560564 original size:19 final size:19
Alignment explanation
Indices: 8560515--8560567 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
8560505 AATGCATTTT
*
8560515 ATGCATCGATGAACATACC
1 ATGCATCGATGCACATACC
8560534 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
8560553 ATGCATCGATGCACA
1 ATGCATCGATGCACA
8560568 CATGATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:8560609 original size:65 final size:64
Alignment explanation
Indices: 8560533--8560676 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 64
8560523 ATGAACATAC
8560533 CATGCATCGATGCACATA-CCATGCATCGATGCACACAT-GAT-TTTATAAAAACATCGAATGCA
1 CATGCATCGATGCACA-AGCCATGCATCGATGCACAC-TGGATATTT-T-AAAACATCGAATGCA
8560595 TTT
62 TTT
* * * *
8560598 GATGCATCGATGCACAAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCACACTGGATATTTTAAAACATCGAATGCATTT
*
8560662 CATGCATCGGTGCAC
1 CATGCATCGATGCAC
8560677 TCTTAGTGCA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
64 32 0.46
65 35 0.50
66 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCACACTGGATATTTTAAAACATCGAATGCATTT
Found at i:8561925 original size:6 final size:6
Alignment explanation
Indices: 8561914--8561939 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8561904 CGAGACACCA
8561914 AAGGAG AAGGAG AAGGAG AAGGAG AA
1 AAGGAG AAGGAG AAGGAG AAGGAG AA
8561940 AAACATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:8565774 original size:21 final size:22
Alignment explanation
Indices: 8565725--8565775 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
8565715 TTTAACAAAA
8565725 AGGGGGAGAAATGTTAAATGTT
1 AGGGGGAGAAATGTTAAATGTT
** *
8565747 ATAGGGAGAAGTGTTAAA-GTT
1 AGGGGGAGAAATGTTAAATGTT
8565768 AGGGGGAG
1 AGGGGGAG
8565776 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (22 bp):
AGGGGGAGAAATGTTAAATGTT
Found at i:8566184 original size:18 final size:18
Alignment explanation
Indices: 8566161--8566202 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
8566151 ATAAATTGAA
*
8566161 CATCGAATGCATTTTATG
1 CATCGAATACATTTTATG
8566179 CATCGAATACATTTTATG
1 CATCGAATACATTTTATG
8566197 CATCGA
1 CATCGA
8566203 TGAAATACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (18 bp):
CATCGAATACATTTTATG
Found at i:8566256 original size:64 final size:64
Alignment explanation
Indices: 8566179--8566335 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
8566169 GCATTTTATG
* * *
8566179 CATCGAATACATTTTATGCATCGATG-A-AATACCATGGATCGAT-CAACTCAGGAT-TTTATGA
1 CATCGAATGCATTTCATGCATCGATGCACAA-ACCATGCATCGATGC-ACTCAGGATATTT-TGA
8566240 AA
63 AA
* * * *
8566242 TCATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCTGGCTATTTTGAAA
1 -CATCGAATGCATTTCATGCATCGATGCACAAACCATGCATCGATGCACTCAGGATATTTTGAAA
8566307 CATCGAATGCATTTCATGCATCGATGCAC
1 CATCGAATGCATTTCATGCATCGATGCAC
8566336 TCTTAGTGCA
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
64 52 0.63
65 24 0.29
66 6 0.07
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (64 bp):
CATCGAATGCATTTCATGCATCGATGCACAAACCATGCATCGATGCACTCAGGATATTTTGAAA
Found at i:8566350 original size:19 final size:19
Alignment explanation
Indices: 8566323--8566372 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
8566313 ATGCATTTCA
*
8566323 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
8566342 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
8566361 TGCACCGATGCA
1 TGCACCGATGCA
8566373 TTAAGGGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:8566351 original size:64 final size:64
Alignment explanation
Indices: 8566237--8566357 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
8566227 CAGGATTTTA
* *
8566237 TGAAATCATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCTGGCTATTT
1 TGAAATCATCGAATGCATTTCATGCATCGATGCAC-AGCCATGCACCGATGCACTCTGGCTATTT
* *
8566302 TGAAA-CATCGAATGCATTTCATGCATCGATGCAC-TCTTAGTGCACCGATGCACTCT
1 TGAAATCATCGAATGCATTTCATGCATCGATGCACAGC-CA-TGCACCGATGCACTCT
8566358 TAGTGCACCG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
62 1 0.02
63 1 0.02
64 43 0.86
65 5 0.10
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (64 bp):
TGAAATCATCGAATGCATTTCATGCATCGATGCACAGCCATGCACCGATGCACTCTGGCTATTT
Found at i:8587122 original size:18 final size:17
Alignment explanation
Indices: 8587068--8587116 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8587058 TTGGACTCCT
* *
8587068 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
8587086 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
8587104 AGTGCATTCGATG
1 AGTGCA-TCGATG
8587117 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:8587137 original size:64 final size:63
Alignment explanation
Indices: 8587068--8587247 Score: 165
Period size: 64 Copynumber: 2.8 Consensus size: 63
8587058 TTGGACTCCT
* *
8587068 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG
* * * * * *
8587129 CCTGGTGCATCGATGCTTGGCT-TG-G-GCATCGATGCATCAAATGTATTCGATGTTTTAATTAA
1 ---AGTGCATCGATGC---ACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-TAA
8587191 ATCAG
59 ATCAG
*
8587196 AGTGCATCGATGCA-TGAAGAGTGCATCGGTGCATGAAATGCATTCGATGTTT
1 AGTGCATCGATGCACT-AAGAGTGCATCGATGCATGAAATGCATTCGATGTTT
8587248 CAATTTATTC
Statistics
Matches: 92, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
60 1 0.01
62 1 0.01
63 1 0.01
64 79 0.86
65 1 0.01
66 5 0.05
67 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG
Found at i:8587218 original size:19 final size:19
Alignment explanation
Indices: 8587194--8587244 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
8587184 TAATTAAATC
8587194 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
8587213 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCGATGCATGA
8587232 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
8587245 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:8589916 original size:24 final size:22
Alignment explanation
Indices: 8589845--8589924 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
8589835 CATGGTCTTG
*
8589845 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACA-TCAAGGGA
* *
8589868 TGCATCGGTG--CATCATGCGGA
1 TGCATCGATGCACATCAAG-GGA
8589889 TGCATCGATGCACATACAAAGGGA
1 TGCATCGATGCACAT-C-AAGGGA
8589913 TGCATCGATGCA
1 TGCATCGATGCA
8589925 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 12 0.26
24 16 0.34
25 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (22 bp):
TGCATCGATGCACATCAAGGGA
Found at i:8595772 original size:18 final size:17
Alignment explanation
Indices: 8595718--8595766 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
8595708 TTGGACTCCT
* *
8595718 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
8595736 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
8595754 AGTGCATTCGATG
1 AGTGCA-TCGATG
8595767 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:8595860 original size:19 final size:19
Alignment explanation
Indices: 8595836--8595874 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8595826 TAATTAAATC
8595836 AGAGTGCATCAATGCATGA
1 AGAGTGCATCAATGCATGA
**
8595855 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCAATGCATGA
8595874 A
1 A
8595875 ATGCATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCAATGCATGA
Found at i:8597935 original size:20 final size:20
Alignment explanation
Indices: 8597910--8597967 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
8597900 ATGTGAAATT
8597910 TGTCCCGAAGTACCTATGTA
1 TGTCCCGAAGTACCTATGTA
*
8597930 TGTCCCGAA-TGACCTCTGTA
1 TGTCCCGAAGT-ACCTATGTA
* *
8597950 TGTCCCAAAGGACCTATG
1 TGTCCCGAAGTACCTATG
8597968 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (20 bp):
TGTCCCGAAGTACCTATGTA
Found at i:8603356 original size:18 final size:18
Alignment explanation
Indices: 8603333--8603377 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
8603323 CTTGAAGGAA
*
8603333 AGAGAGGTGAGATGGCAT
1 AGAGAGGTGAGATGACAT
*
8603351 AGAGAGGTGGGATGACAT
1 AGAGAGGTGAGATGACAT
8603369 AGAAGAGGT
1 AG-AGAGGT
8603378 TGGTGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.36, C:0.04, G:0.44, T:0.16
Consensus pattern (18 bp):
AGAGAGGTGAGATGACAT
Found at i:8603514 original size:30 final size:30
Alignment explanation
Indices: 8603480--8603542 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
8603470 CCTACGTCAA
*
8603480 CTTCTTTCTTC-TAGGATCCTT-CGACAACAT
1 CTTCTTT-TTCTTAAGAT-CTTGCGACAACAT
*
8603510 CTTCTTTTTCTTAAGATCTTGCGACATCAT
1 CTTCTTTTTCTTAAGATCTTGCGACAACAT
8603540 CTT
1 CTT
8603543 TAGGGATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (30 bp):
CTTCTTTTTCTTAAGATCTTGCGACAACAT
Found at i:8606509 original size:32 final size:33
Alignment explanation
Indices: 8606466--8606534 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
8606456 CCTGGAAATG
8606466 AAATTCCATGACAATCATGATCATACTA-CATA
1 AAATTCCATGACAATCATGATCATACTAGCATA
* * *
8606498 AAATTCTATGACAATCATTATCATACTAGGATA
1 AAATTCCATGACAATCATGATCATACTAGCATA
8606531 AAAT
1 AAAT
8606535 ATTTTTCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.30
Consensus pattern (33 bp):
AAATTCCATGACAATCATGATCATACTAGCATA
Found at i:8607996 original size:195 final size:195
Alignment explanation
Indices: 8607750--8608135 Score: 693
Period size: 195 Copynumber: 2.0 Consensus size: 195
8607740 ACGACGTTGT
8607750 TGTAGTATAGTAGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGACAACGG
1 TGTAGTATAGTAGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGACAACGG
8607815 CGTAAGATTTTAAATTTTTCTCCTTTTCTATCGATGTAAACAATGCTAAAAAGAATTGAAGAAAA
66 CGTAAGATTTTAAATTTTTCTCCTTTTCTATCGATGTAAACAATGCTAAAAAGAATTGAAGAAAA
8607880 CTGGCGTCGCCCGGACATGAACCGGACATGGACAAATTGTTCCATTACGTATTATAATTTCTCGC
131 CTGGCGTCGCCCGGACATGAACCGGACATGGACAAATTGTTCCATTACGTATTATAATTTCTCGC
* * *
8607945 TGTAGTATAGTGGTGAGTATTCCCGCCTGTCACG-GTGGTGACCTGGGTTCGATCCCCGGCAACG
1 TGTAGTATAGTAGTGAGTATTCCCGCCTGTCACGCG-GGTGACCCGGGTTCGATCCCCGACAACG
*
8608009 GCGTAAGATTTTAAATTTTTCTCCTTTTCTATCTATGTAAACAATGCTAAAAAGAATTGAAGAAA
65 GCGTAAGATTTTAAATTTTTCTCCTTTTCTATCGATGTAAACAATGCTAAAAAGAATTGAAGAAA
* * *
8608074 ACTGGCGTCGCCCGGACTTGAACCGGAGATGGACACATTGTTCCATTACGTATTATAATTTC
130 ACTGGCGTCGCCCGGACATGAACCGGACATGGACAAATTGTTCCATTACGTATTATAATTTC
8608136 GTTTACAAGT
Statistics
Matches: 183, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
194 1 0.01
195 182 0.99
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (195 bp):
TGTAGTATAGTAGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGACAACGG
CGTAAGATTTTAAATTTTTCTCCTTTTCTATCGATGTAAACAATGCTAAAAAGAATTGAAGAAAA
CTGGCGTCGCCCGGACATGAACCGGACATGGACAAATTGTTCCATTACGTATTATAATTTCTCGC
Found at i:8616009 original size:64 final size:65
Alignment explanation
Indices: 8615884--8616027 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 65
8615874 AATGAGCCTA
* * * ** *
8615884 GAGTTCATCGATGCATGGTCTATGCTTCGGTACACAAAATGCATTCGATGTTCAAAATATTC-AG
1 GAGTGCATCGATGCATGCTCTATGCATCGGTACACAAAATGCATTCGAAATACAAAATATTCAAG
* * **
8615948 GAGTGCATCGATGCATGC-CTTGTGCATCGGTACACAGAATGCATTCGAAATACAATTTATTCAA
1 GAGTGCATCGATGCATGCTC-TATGCATCGGTACACAAAATGCATTCGAAATACAAAATATTCAA
8616012 G
65 G
*
8616013 G-GTGCATCGGTGCAT
1 GAGTGCATCGATGCAT
8616028 TAGATGGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 63 0.94
65 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (65 bp):
GAGTGCATCGATGCATGCTCTATGCATCGGTACACAAAATGCATTCGAAATACAAAATATTCAAG
Found at i:8618395 original size:32 final size:33
Alignment explanation
Indices: 8618359--8618427 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
8618349 CCTGGACAAG
8618359 AAATTCCATGACAATCATGATCATACTA-CATA
1 AAATTCCATGACAATCATGATCATACTAGCATA
* *
8618391 AAATTCTATGACAATCATGATCATACTAGGATA
1 AAATTCCATGACAATCATGATCATACTAGCATA
8618424 AAAT
1 AAAT
8618428 ATTTTTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 27 0.79
33 7 0.21
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (33 bp):
AAATTCCATGACAATCATGATCATACTAGCATA
Found at i:8622402 original size:3 final size:3
Alignment explanation
Indices: 8622388--8622453 Score: 78
Period size: 3 Copynumber: 21.7 Consensus size: 3
8622378 TTTTGCCCGT
* * * *
8622388 TTA TTT TTA TTA TTAA TTA TTA TTA TTA TAA TTA TTA TAA TTG TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
8622434 TAA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
8622454 GTTACTAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:8623833 original size:140 final size:137
Alignment explanation
Indices: 8623701--8623961 Score: 324
Period size: 138 Copynumber: 1.9 Consensus size: 137
8623691 TATAAATTAC
* * * *
8623701 TTTTAAATTA-TTTTA-AT-CATG-TTTTA-A-TATTTGTTTTTCCATATTAAG-AAAG-GGTAG
1 TTTTAAATTATTTTTAGATAAATGTTTTTATATTATTTATTTTT-AATATTAAGAAAAGAGAT-G
* * * *
8623758 TCTTAAAGCAACTGGATGTCCATTTTTTTGATATTTTTAAATAAATAAATATCTTACTA-ATATA
64 TCTTAAAGCAACTAGAAGT-CA-TTTTCTGATATTTCTAAATAAATAAATATCTTA-TACATATA
8623822 AAATATATATAT
126 AAATATATATAT
8623834 TTTTAAATTATTTTTAGATAAATGTTTTTATATTTATTTATTTTTAATATTAAGAAAAGAGATGT
1 TTTTAAATTATTTTTAGATAAATGTTTTTATA-TTATTTATTTTTAATATTAAGAAAAGAGATGT
*
8623899 CTTAAAGCATCTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATACATATAAA
65 CTTAAAGCAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATACATATAAA
8623962 TTAATAGATT
Statistics
Matches: 109, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
133 10 0.09
134 5 0.05
135 2 0.02
136 3 0.03
137 7 0.06
138 39 0.36
139 10 0.09
140 31 0.28
141 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (137 bp):
TTTTAAATTATTTTTAGATAAATGTTTTTATATTATTTATTTTTAATATTAAGAAAAGAGATGTC
TTAAAGCAACTAGAAGTCATTTTCTGATATTTCTAAATAAATAAATATCTTATACATATAAAATA
TATATAT
Found at i:8625277 original size:23 final size:23
Alignment explanation
Indices: 8625223--8625269 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8625213 TCGAAATAAA
8625223 TAAAAATAAGAAAAATAGATGAT
1 TAAAAATAAGAAAAATAGATGAT
8625246 TAAAAATAAGAAAAATAGATGAT
1 TAAAAATAAGAAAAATAGATGAT
8625269 T
1 T
8625270 GGAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (23 bp):
TAAAAATAAGAAAAATAGATGAT
Found at i:8629681 original size:23 final size:23
Alignment explanation
Indices: 8629613--8629682 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
8629603 AAACGAACGT
* *
8629613 TGAACATGTTCGTGAACACTAAA
1 TGAACATGTTCATGAACAATAAA
** * ** * *
8629636 TGAACACATTGACAAATATTAAA
1 TGAACATGTTCATGAACAATAAA
8629659 TGAACATGTTCATGAACAATAAA
1 TGAACATGTTCATGAACAATAAA
8629682 T
1 T
8629683 AAAATAAGAC
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (23 bp):
TGAACATGTTCATGAACAATAAA
Found at i:8670889 original size:46 final size:46
Alignment explanation
Indices: 8670846--8671658 Score: 1189
Period size: 46 Copynumber: 17.7 Consensus size: 46
8670836 TTATTCATTA
* * * *
8670846 ATTTTAGTTATGGTATCTTTTCATGCCTTAATACATCCGTTCATAC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
** *
8670892 ATTTTAGTTATAACATCCTTTCATGCCTTAATGCATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8670938 ATTTTACTTATGGCATCCTTTTATGCCTTCATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8670984 ATTTTAGTTTTGGCATCCTTTCATGCCTTAATGCATCTGTTCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
8671030 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGTATCCATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671076 ATTGT--TTATGACATCCTTTCATGCCTTAATGCATCTGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
*
8671120 ATTTTAGTTATGGCATCTTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
8671166 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671212 ATTTTAGTTATGGCATCCTATCATGCCTTAATGCATCCCTTTATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * * *
8671258 ATTTTAGTTATGGCATCCTTTCATTCTTTAATGCATCCATTCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671304 ATTTTAGTTATGACATCCTTTCATGCCTTAATACATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671350 ATTTTAGTTATGACATCCTTTCATGGCTTAATGCATCCGTTCATAC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* **
8671396 ATTTTAGTTATGTCATCCTTTCATGCCTTAATTAATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671442 ATTTTAGTTATGACATCCTTTCATGCCTTAAAGCATCCGTTCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* * *
8671488 ATTTTAGTTATGGCATCCTTTTATGCCTTAATGCATACGTTCATCC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
* *
8671534 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGTATTCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
** * *
8671580 ATTTTAGTTATAACATCTTTTCATGCCTTAATGCATCTGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
8671626 ATTTTAGTTATGGCATCCTTTCATGCCTTAATG
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATG
8671659 ATAACATAGT
Statistics
Matches: 682, Mismatches: 83, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
44 39 0.06
46 643 0.94
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGC
Found at i:8671052 original size:26 final size:25
Alignment explanation
Indices: 8670970--8671054 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
8670960 ATGCCTTCAT
* *
8670970 GCATCCGTTCATGCATTTTAGTTTTG
1 GCATCCTTTCATG-ATTTTAGTTATG
**
8670996 GCATCCTTTCATG-CCTTA---AT-
1 GCATCCTTTCATGATTTTAGTTATG
8671016 GCAT-CTGTTCATGTATTTTAGTTATG
1 GCATCCT-TTCATG-ATTTTAGTTATG
8671042 GCATCCTTTCATG
1 GCATCCTTTCATG
8671055 CCTTAATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
19 2 0.04
20 10 0.22
21 1 0.02
22 3 0.07
24 3 0.07
25 2 0.04
26 22 0.49
27 2 0.04
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (25 bp):
GCATCCTTTCATGATTTTAGTTATG
Found at i:8671116 original size:20 final size:20
Alignment explanation
Indices: 8671093--8671211 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
8671083 ATGACATCCT
8671093 TTCATGCCTTAATGCATCTG
1 TTCATGCCTTAATGCATCTG
* *
8671113 TTCATGCATTTTAGTTATGGCATCTT
1 TTCATGC--CTTA---AT-GCATCTG
*
8671139 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCTG
*
8671159 TTCATGCATTTTAGTTATGGCATCCT-
1 TTCATGC--CTTA---AT-GCAT-CTG
*
8671185 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCTG
8671205 TTCATGC
1 TTCATGC
8671212 ATTTTAGTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 28
0.67 0.08 0.25
Matches are distributed among these distances:
19 1 0.01
20 30 0.39
21 4 0.05
22 6 0.08
24 6 0.08
25 4 0.05
26 24 0.32
27 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCTG
Found at i:8671249 original size:20 final size:19
Alignment explanation
Indices: 8671042--8671249 Score: 65
Period size: 20 Copynumber: 9.3 Consensus size: 19
8671032 TTTAGTTATG
8671042 GCATCCTTTCATGCCTTAAT
1 GCATCC-TTCATGCCTTAAT
* * *
8671062 GTATCCATTCATGCATTGTTTAT
1 GCATCC-TTCATGC---CTTAAT
8671085 GACATCCTTTCATGCCTTAAT
1 G-CATCC-TTCATGCCTTAAT
* *
8671106 GCATCTGTTCATGCATTTTAGTTAT
1 GCATC-CTTCATGC--CTTA---AT
*
8671131 GGCATCTTTTCATGCCTTAAT
1 -GCATC-CTTCATGCCTTAAT
*
8671152 GCATCCGTTCATGCATTTTAGTTAT
1 GCATCC-TTCATGC--CTTA---AT
8671177 GGCATCCTTTCATGCCTTAAT
1 -GCATCC-TTCATGCCTTAAT
*
8671198 GCATCCGTTCATGCATTTTAGTTAT
1 GCATCC-TTCATGC--CTTA---AT
8671223 GGCATCCTATCATGCCTTAAT
1 -GCATCCT-TCATGCCTTAAT
8671244 GCATCC
1 GCATCC
8671250 CTTTATGCAT
Statistics
Matches: 144, Mismatches: 19, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
20 54 0.38
21 11 0.08
22 9 0.06
23 5 0.03
24 20 0.14
25 7 0.05
26 38 0.26
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (19 bp):
GCATCCTTCATGCCTTAAT
Found at i:8675015 original size:16 final size:16
Alignment explanation
Indices: 8674994--8675026 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8674984 ATACCGGGTT
*
8674994 AGTGACTAAATTTGAA
1 AGTGACTAAATTGGAA
8675010 AGTGACTAAATTGGAA
1 AGTGACTAAATTGGAA
8675026 A
1 A
8675027 ATTTCAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (16 bp):
AGTGACTAAATTGGAA
Found at i:8675848 original size:64 final size:64
Alignment explanation
Indices: 8675780--8676000 Score: 207
Period size: 64 Copynumber: 3.5 Consensus size: 64
8675770 TTGAAGGTGT
* * **
8675780 ATCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTCATA
1 ATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTCATA
8675843 C
64 C
* * ** *
8675844 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATAC
** * * ** * *
8675908 ATCGATGCATAAGG-AGTGCATCGATGCATCCCAACAATAATAATACATCGAATACCTTTTATGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATAC
* *
8675972 ACCGATGAATCA-GTAGTGCATCGATGCAT
1 ATCGATGCAT-AGGTAGTGCATCGATGCAT
8676001 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 124 0.95
65 6 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATAC
Found at i:8676515 original size:18 final size:15
Alignment explanation
Indices: 8676476--8676508 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
8676466 GAGGGTATAA
8676476 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
8676491 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
8676506 TAG
1 TAG
8676509 GAGTCCTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:8686762 original size:21 final size:21
Alignment explanation
Indices: 8686737--8686779 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8686727 CATCAGAGTC
*
8686737 TTTGTTGAAGCCATGAAATCT
1 TTTGTCGAAGCCATGAAATCT
* *
8686758 TTTGTCGAGGCCATGAATTCT
1 TTTGTCGAAGCCATGAAATCT
8686779 T
1 T
8686780 GCAATGAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (21 bp):
TTTGTCGAAGCCATGAAATCT
Done.