Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001701.1 Hibiscus syriacus cultivar Beakdansim tig00003403_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: 790467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:400016 original size:157 final size:157
Alignment explanation
Indices: 399469--400255 Score: 1542
Period size: 156 Copynumber: 5.0 Consensus size: 157
399459 GATGACACAA
399469 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
1 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
399534 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTT-
66 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
399598 TGTCTCATGTTTCATTAGTTTGGCATT
131 TGTCTCATGTTTCATTAGTTTGGCATT
399625 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
1 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
399690 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTT
66 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGG-TTTTTTTT
399755 ATGTCTCATGTTTCATTAGTTTGGCATT
130 ATGTCTCATGTTTCATTAGTTTGGCATT
*
399783 TTTCTCTTGCGTTAGTATATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
1 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
399848 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
66 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
399913 TGTCTCATGTTTCATTAGTTTGGCATT
131 TGTCTCATGTTTCATTAGTTTGGCATT
399940 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
1 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
400005 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGG-TTTTTTTA
66 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
400069 TGTCTCATGTTTCATTAGTTTGGCATT
131 TGTCTCATGTTTCATTAGTTTGGCATT
400096 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
1 TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
400161 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
66 TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
400226 TGTCTCATGTTTCATTAGTTTGGCATT
131 TGTCTCATGTTTCATTAGTTTGGCATT
400253 TTT
1 TTT
400256 GTTTATTTTA
Statistics
Matches: 626, Mismatches: 2, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
156 277 0.44
157 202 0.32
158 147 0.23
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (157 bp):
TTTCTCTTGCGTTAGTCTATATTTAACTCTGTGATCTGTGCTCGAGATCGTTGGCCGAAACCAAC
TGGAGTCATGTAAGGAGCTTTTTAGAAGTTCATTCACCTGTTTATCATTTTAAGGGTTTTTTTTA
TGTCTCATGTTTCATTAGTTTGGCATT
Found at i:408110 original size:21 final size:20
Alignment explanation
Indices: 408054--408106 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
408044 TACTGCAACT
* *
408054 ATTTCAGATAGCACCGTAGTC
1 ATTTCAGAT-GCACCGCAGCC
408075 ATTTTC-GATGTCACCGCAGCC
1 A-TTTCAGATG-CACCGCAGCC
408096 ATTTCAGATGC
1 ATTTCAGATGC
408107 CACCACCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.22
21 17 0.63
22 4 0.15
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (20 bp):
ATTTCAGATGCACCGCAGCC
Found at i:408571 original size:44 final size:44
Alignment explanation
Indices: 408503--408671 Score: 284
Period size: 44 Copynumber: 3.8 Consensus size: 44
408493 GATAGACTTG
408503 TTTTTATTTATTTTTGTTTCTTAATGTTTTTATTTAATTATGAAC
1 TTTTTATTTA-TTTTGTTTCTTAATGTTTTTATTTAATTATGAAC
*
408548 TTTTTATTTATTTTGTTTCTTAATATTTTTATTTAATTATGAAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAAC
*
408592 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATG--TTT-TTATTTAATTATGAAC
408639 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
408672 ATTTAATGGT
Statistics
Matches: 118, Mismatches: 3, Indels: 7
0.92 0.02 0.05
Matches are distributed among these distances:
44 62 0.53
45 13 0.11
46 3 0.03
47 40 0.34
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (44 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAAC
Found at i:408626 original size:24 final size:25
Alignment explanation
Indices: 408501--408675 Score: 98
Period size: 25 Copynumber: 7.6 Consensus size: 25
408491 TCGATAGACT
408501 TGTTTTTATTTATTTTTGTTTCTTAA
1 TGTTTTTATTTA-TTTTGTTTCTTAA
*
408527 TGTTTTTATTTAATTATG------AA
1 TGTTTTTATTT-ATTTTGTTTCTTAA
*
408547 -CTTTTTATTTATTTTGTTTCTTAA
1 TGTTTTTATTTATTTTGTTTCTTAA
* *
408571 TATTTTTATTTAATTATG------AA
1 TGTTTTTATTT-ATTTTGTTTCTTAA
*
408591 -CTTTTTATTTATTTTGTTTCTTAA
1 TGTTTTTATTTATTTTGTTTCTTAA
** * **
408615 TGTTTTTA-TTA-TTTAATTATGGA
1 TGTTTTTATTTATTTTGTTTCTTAA
*
408638 -CTTTTTATTTATTTTGTTTCTTAA
1 TGTTTTTATTTATTTTGTTTCTTAA
408662 TGTTTTTA-TTATTT
1 TGTTTTTATTTATTT
408676 AATGGTTTGA
Statistics
Matches: 110, Mismatches: 20, Indels: 40
0.65 0.12 0.24
Matches are distributed among these distances:
18 10 0.09
19 18 0.16
20 4 0.04
22 6 0.05
23 10 0.09
24 20 0.18
25 21 0.19
26 20 0.18
27 1 0.01
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (25 bp):
TGTTTTTATTTATTTTGTTTCTTAA
Found at i:408656 original size:91 final size:89
Alignment explanation
Indices: 408503--408671 Score: 286
Period size: 91 Copynumber: 1.9 Consensus size: 89
408493 GATAGACTTG
408503 TTTTTATTTATTTTTGTTTCTTAATGTTTTTATTTAATTATGAACTTTTTATTTATTTTGTTTCT
1 TTTTTATTTATTTTTGTTTCTTAATGTTTTTATTTAATTATGAACTTTTTATTTATTTTGTTTCT
408568 TAATATTTTTATTTAATTATGAAC
66 TAATATTTTTATTTAATTATGAAC
*
408592 TTTTTATTTA-TTTTGTTTCTTAATGTTTTTATTATTTAATTATGGACTTTTTATTTATTTTGTT
1 TTTTTATTTATTTTTGTTTCTTAATG--TTT-TTATTTAATTATGAACTTTTTATTTATTTTGTT
*
408656 TCTTAATGTTTTTATT
63 TCTTAATATTTTTATT
408672 ATTTAATGGT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
88 15 0.20
89 10 0.13
90 3 0.04
91 47 0.63
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (89 bp):
TTTTTATTTATTTTTGTTTCTTAATGTTTTTATTTAATTATGAACTTTTTATTTATTTTGTTTCT
TAATATTTTTATTTAATTATGAAC
Found at i:408706 original size:91 final size:90
Alignment explanation
Indices: 408508--408710 Score: 238
Period size: 91 Copynumber: 2.3 Consensus size: 90
408498 ACTTGTTTTT
*
408508 ATTTATTTTTGTTTCTTAATG--TTT-TTATTTAATTATGAACTTTTTATTTATTTTGTTTCTTA
1 ATTTA-TTTTGTATCTTAATGTTTTTATTATTTAATTATGAACTTTTTATTTATTTTGTTTCTTA
**
408570 ATATTTTTATTTAATTATGAACTTTTT
65 ATATTTTTATTTAATTATG-ACTTTGA
* *
408597 ATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGGACTTTTTATTTATTTTGTTTCTTAA
1 ATTTATTTTGTATCTTAATGTTTTTATTATTTAATTATGAACTTTTTATTTATTTTGTTTCTTAA
* * *
408662 TGTTTTTA-TTATTTAATG-GTTTGA
66 TATTTTTATTTAATT-ATGACTTTGA
408686 ATTGTAATGTTTGTAT-TTAATGTTT
1 ATT-T-AT-TTTGTATCTTAATGTTT
408711 ATGTTTAATT
Statistics
Matches: 100, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
88 15 0.15
89 11 0.11
90 9 0.09
91 59 0.59
92 6 0.06
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (90 bp):
ATTTATTTTGTATCTTAATGTTTTTATTATTTAATTATGAACTTTTTATTTATTTTGTTTCTTAA
TATTTTTATTTAATTATGACTTTGA
Found at i:408708 original size:13 final size:13
Alignment explanation
Indices: 408671--408729 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
408661 ATGTTTTTAT
408671 TATTTAATGGTTTG
1 TATTTAAT-GTTTG
*
408685 AATTGTAATGTTTG
1 TATT-TAATGTTTG
*
408699 TATTTAATGTTTA
1 TATTTAATGTTTG
* *
408712 TGTTTAATTGTTTT
1 TATTTAA-TGTTTG
408726 TATT
1 TATT
408730 ATTTAGTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 14 0.38
14 19 0.51
15 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (13 bp):
TATTTAATGTTTG
Found at i:413021 original size:20 final size:20
Alignment explanation
Indices: 412996--413088 Score: 87
Period size: 21 Copynumber: 4.5 Consensus size: 20
412986 TTTTCCCAAT
*
412996 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
413016 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
413036 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
413057 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
413078 TCGCAATGCGA
1 TCGCAATGCGA
413089 TACTGACTAT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 26 0.46
21 31 0.54
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:413042 original size:21 final size:20
Alignment explanation
Indices: 413013--413088 Score: 89
Period size: 21 Copynumber: 3.7 Consensus size: 20
413003 GTGAATAAGT
413013 AAATCGCAACGCGAATTGGG
1 AAATCGCAACGCGAATTGGG
* ** *
413033 AAATTCGCAATGCGAATAAGT
1 AAA-TCGCAACGCGAATTGGG
413054 AAATCGCAACGCGAATTGGG
1 AAATCGCAACGCGAATTGGG
*
413074 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
413089 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (20 bp):
AAATCGCAACGCGAATTGGG
Found at i:413050 original size:41 final size:41
Alignment explanation
Indices: 412993--413088 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
412983 CGATTTTCCC
*
412993 AATTCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
413034 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
413075 AAATCGCAATGCGA
1 AATTCGCAATGCGA
413089 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:413102 original size:20 final size:20
Alignment explanation
Indices: 413077--413170 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
413067 AATTGGGAAA
*
413077 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
413097 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
413118 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
413138 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
413158 TTCGCAACGCGAT
1 ATCGCAACGCGAT
413171 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:413151 original size:41 final size:41
Alignment explanation
Indices: 413074--413151 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
413064 GCGAATTGGG
* * **
413074 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
413115 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
413152 CTGACTTTCG
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:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:413618 original size:19 final size:19
Alignment explanation
Indices: 413575--413639 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
413565 CGAGAATGAG
* *
413575 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
413595 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
413614 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
413633 AATCGCA
1 AATCGCA
413640 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:413657 original size:19 final size:19
Alignment explanation
Indices: 413635--413702 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
413625 GAAACCAAAA
*
413635 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
413654 TCGCGTTGCGA-TTTAATT
1 TCGCGTTGCGATTTTCATT
413672 TCGCGGTTGCGATTTTTCATT
1 TCGC-GTTGCGA-TTTTCATT
413693 TCGCGTTGCG
1 TCGCGTTGCG
413703 TTGTTTCTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.23
19 17 0.40
20 6 0.14
21 10 0.23
ACGTcount: A:0.12, C:0.21, G:0.24, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:413753 original size:31 final size:32
Alignment explanation
Indices: 413688--413768 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 32
413678 TTGCGATTTT
* *
413688 TCATTTCGCGTTGCGTTGTTTCTGGTCGCGATAG
1 TCATTTCGCGTTGC--TGATTCTCGTCGCGATAG
*
413722 TCATTTCGCGTTGC-GATTCTCGTTGCGATAG
1 TCATTTCGCGTTGCTGATTCTCGTCGCGATAG
413753 TCATTTCCGCGTTGCT
1 TCATTT-CGCGTTGCT
413769 TCTCATTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 20 0.48
32 8 0.19
34 14 0.33
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.41
Consensus pattern (32 bp):
TCATTTCGCGTTGCTGATTCTCGTCGCGATAG
Found at i:415606 original size:6 final size:6
Alignment explanation
Indices: 415595--415622 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
415585 TTAATTCAAT
415595 TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATA
415623 TAGTATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:417235 original size:306 final size:306
Alignment explanation
Indices: 416678--417291 Score: 1053
Period size: 306 Copynumber: 2.0 Consensus size: 306
416668 TTATATTTAT
416678 TTTAATATTTTTACCTTAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTA
1 TTTAATATTTTTACCTTAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTA
416743 TGGTTTTTAACTCATATGTTATGACTTGCTTTGACTTGTGATATAAAAAATTATATTTTATTAAA
66 TGGTTTTTAACTCATATGTTATGACTTGCTTTGACTTGTGATATAAAAAATTATATTTTATTAAA
* *
416808 TATTTTTGGTATTTTTATTTAATTTTTTAATAATTATGATGTGGTTCTTCTTCAGACTGGTCGAA
131 TATTTTTGGTA--TTTATTT-ATTTTTAAATAATTATGATGTGGTCCTTCTTCAGACTGGTCGAA
416873 TCGATTCGACCGATTGAACCATTAAACCAATAGCATGATCGATTCGCTAACCGGTCCGATTCTAA
193 TCGATTCGACCGATTGAACCATTAAACCAATAGCATGATCGATTCGCTAACCGGTCCGATTCT-A
416938 AAAACCATAATTTAAAAGATCTTTTCATTATGGATTTAATGTTTAAATTA
257 AAAACCATAATTTAAAAGATCTTTTCATTATGGATTTAATGTTTAAATTA
416988 TTTAATATGTTTTACCTTAAATATTATGTTGTAGTTAA-TTGAATCATTTTGTTTCACTTGA-TT
1 TTTAATAT-TTTTACCTT-AATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTT
417051 TATGGTTTTTAACTCATATATGTTATGACTTGCTTTGACTTGTGATATAAAAAATTATATTTTAT
64 TATGGTTTTTAACTC--ATATGTTATGACTTGCTTTGACTTGTGATATAAAAAATTATATTTTAT
*
417116 T-AATA-TTTTGGTA-TT-TTT-TTTTTAAATAATTATGATGTTGTCCGATTCTTCAGACTGGTC
127 TAAATATTTTTGGTATTTATTTATTTTTAAATAATTATGATGTGGTCC--TTCTTCAGACTGGTC
417176 GAATCGATTCGACCGATTGAACCATTAAACCAATAGCATGATCGATTCGCTAACCGGTCCGATTC
190 GAATCGATTCGACCGATTGAACCATTAAACCAATAGCATGATCGATTCGCTAACCGGTCCGATTC
*
417241 TAAAAACCATAATTTAAAAGATCTTTTCATTATGGATTTAATGTTTTAATT
255 TAAAAACCATAATTTAAAAGATCTTTTCATTATGGATTTAATGTTTAAATT
417292 TATTAAATCA
Statistics
Matches: 294, Mismatches: 4, Indels: 17
0.93 0.01 0.05
Matches are distributed among these distances:
304 22 0.07
305 49 0.17
306 84 0.29
307 2 0.01
310 33 0.11
311 36 0.12
312 68 0.23
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (306 bp):
TTTAATATTTTTACCTTAATATTATGTTGTAGTTAATTTGAATCATTTTGTTTCACTTGATTTTA
TGGTTTTTAACTCATATGTTATGACTTGCTTTGACTTGTGATATAAAAAATTATATTTTATTAAA
TATTTTTGGTATTTATTTATTTTTAAATAATTATGATGTGGTCCTTCTTCAGACTGGTCGAATCG
ATTCGACCGATTGAACCATTAAACCAATAGCATGATCGATTCGCTAACCGGTCCGATTCTAAAAA
CCATAATTTAAAAGATCTTTTCATTATGGATTTAATGTTTAAATTA
Found at i:419109 original size:19 final size:21
Alignment explanation
Indices: 419080--419119 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
419070 TTTGTATTAA
419080 ACTATATATA-TATAAGATAT
1 ACTATATATAGTATAAGATAT
419100 ACTA-ATATATGTATAAGATA
1 ACTATATATA-GTATAAGATA
419120 AGGTGGCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
ACTATATATAGTATAAGATAT
Found at i:420078 original size:2 final size:2
Alignment explanation
Indices: 420071--420096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
420061 CAAACAATTT
420071 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
420097 AAATATTAGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:425997 original size:9 final size:9
Alignment explanation
Indices: 425993--426026 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
425983 ATAATAATAA
425993 AAATAAAAT
1 AAATAAAAT
426002 AAATAAAAT
1 AAATAAAAT
426011 -AA-AAAAT
1 AAATAAAAT
426018 AAATAAAAT
1 AAATAAAAT
426027 CCCAGACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.22
8 4 0.17
9 14 0.61
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:426018 original size:16 final size:16
Alignment explanation
Indices: 425988--426026 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
425978 TAATTATAAT
*
425988 AATAAAA-ATAAAATA
1 AATAAAATAAAAAATA
426003 AATAAAATAAAAAATA
1 AATAAAATAAAAAATA
426019 AATAAAAT
1 AATAAAAT
426027 CCCAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAATAAAAAATA
Found at i:426026 original size:21 final size:21
Alignment explanation
Indices: 425983--426024 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
425973 TTTAATAATT
425983 ATAATAATAAAAATAAAATAA
1 ATAATAATAAAAATAAAATAA
426004 ATAA-AATAAAAA-ATAAATAA
1 ATAATAATAAAAATA-AAATAA
426024 A
1 A
426025 ATCCCAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 15 0.75
21 4 0.20
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (21 bp):
ATAATAATAAAAATAAAATAA
Found at i:426268 original size:53 final size:53
Alignment explanation
Indices: 426183--426454 Score: 408
Period size: 53 Copynumber: 5.2 Consensus size: 53
426173 TCTCTTCTTT
*
426183 GAACAATCTTCGACC-AGCGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCTACCTA-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* *
426236 GAACAATCTTCTTCCTACGGGTTCGCTTCCTCTTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* * * *
426289 GAATAATCTTCTACCTACGGGTTCGCTCCCTCTTGC-TCGGGGAGTAGAATTT
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* *
426341 GAATAATCTTC--CTTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* *
426392 GAACAATCTTCTGCCTACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
426445 GAACAATCTT
1 GAACAATCTT
426455 ATGGTGTGAT
Statistics
Matches: 199, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
50 22 0.11
51 23 0.12
52 24 0.12
53 129 0.65
54 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (53 bp):
GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
Found at i:426381 original size:103 final size:105
Alignment explanation
Indices: 426183--426454 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 105
426173 TCTCTTCTTT
*
426183 GAACAATCTTCGACC-AGCGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
1 GAACAATCTTCTACCTA-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
*
426247 TTCCTACGGGTTCGCTTCCTCTTGCTTCAGGGAGTAGAACTC
65 -TCCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* * * * *
426289 GAATAATCTTCTACCTACGGGTTCGCTCCCTCTTGC-TCGGGGAGTAGAATTTGAATAATCTTC-
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
*
426352 CTTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
66 CCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
* *
426392 GAACAATCTTCTGCCTACGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAACAATCTT
1 GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
426455 ATGGTGTGAT
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
103 71 0.48
104 22 0.15
105 23 0.15
106 32 0.21
107 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (105 bp):
GAACAATCTTCTACCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
CCTACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
Found at i:426888 original size:41 final size:42
Alignment explanation
Indices: 426831--426949 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 42
426821 GGTCTTATGG
* *
426831 ATGACCTGAAGGATTT-ATCATCTTGCTCGAGAGACTCACAA
1 ATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTCACAA
* * **
426872 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
1 ATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTCACAA
* *
426914 ATGACCTGAAGGATTTCATCATCATGCTCAAAAGAC
1 ATGACCTGAAGGATTTAATCATCATGCTCGAAAGAC
426950 GTACTGATGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 15 0.22
42 53 0.78
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGACCTGAAGGATTTAATCATCATGCTCGAAAGACTCACAA
Found at i:427048 original size:42 final size:42
Alignment explanation
Indices: 427002--427081 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
426992 CAGTTACCCG
427002 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCA
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCA
*
427044 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
427082 CACTTACTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (42 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCA
Found at i:427152 original size:93 final size:93
Alignment explanation
Indices: 427044--427268 Score: 396
Period size: 93 Copynumber: 2.4 Consensus size: 93
427034 TGATGGACCA
* *
427044 AAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGACGGATTTGCTTCACTAC
1 AAGGATTTAATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACGGATTTGCTTCACTAC
427109 TCTTCCGTGAAAGCTTAAAAATTACCCG
66 TCTTCCGTGAAAGCTTAAAAATTACCCG
* *
427137 AAGGATTTAATCATCATACTCGAAAGACTTATTGATGGCACTTACTGACGGATTTGTTTCACTAC
1 AAGGATTTAATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACGGATTTGCTTCACTAC
* *
427202 TCTTTCGTGAAGGCTTAAAAATTACCCG
66 TCTTCCGTGAAAGCTTAAAAATTACCCG
427230 AAGGATTTAATCATCATACTCGAAAGACTTACTGATGGC
1 AAGGATTTAATCATCATACTCGAAAGACTTACTGATGGC
427269 CCGAAGGACT
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 125 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (93 bp):
AAGGATTTAATCATCATACTCGAAAGACTTACTGATGGCACTTACTGACGGATTTGCTTCACTAC
TCTTCCGTGAAAGCTTAAAAATTACCCG
Found at i:433878 original size:21 final size:21
Alignment explanation
Indices: 433848--433918 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
433838 ATATCTTGGC
*
433848 CTTCACTCCTTTAAAGGAAGT
1 CTTCAATCCTTTAAAGGAAGT
*
433869 CTTCAATCCTTTAAAAGAAGT
1 CTTCAATCCTTTAAAGGAAGT
*
433890 CTTCAATCATTTAAAGGAAGT
1 CTTCAATCCTTTAAAGGAAGT
433911 CTTCAATC
1 CTTCAATC
433919 AGCTTCAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (21 bp):
CTTCAATCCTTTAAAGGAAGT
Found at i:436015 original size:2 final size:2
Alignment explanation
Indices: 436008--436045 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
435998 AAGCACGTGA
436008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
436046 TTTATGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:438204 original size:333 final size:329
Alignment explanation
Indices: 437728--438549 Score: 1180
Period size: 333 Copynumber: 2.5 Consensus size: 329
437718 TTTATTTTTT
* * * *
437728 ATAATAATAAATTTTTTATAATTTTAAAAATTAAAAATTTCATATA-TTTTGAAAAAAATATTTT
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTAT
* * *
437792 CTTTTAAAATTAATTGTTTAAAAATAT-TAAAATATTAAAATAAACTTTTAATTACAATTAAGGG
66 CTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGG
* *
437856 ATCAAATGAATTATTATTCATTAATTTTTATTTTTTAATAACAGTTAATAATGTTTATTCATTTT
131 ATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGTTAATAATGTTTATTCATTTT
** * * *
437921 TAATAAAATTATTTTGATTTTTGCATTAAAATGGCACAATACGTCTAATCTAG-TTTGAGGGTAA
196 TAATAAAATTA-TTAAATTTTTGCATTAAAATGACACAATACATATAATCTAGATTTGAGGGTAA
437985 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGATAA
260 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATG---A
438050 TGATGATG
322 TGATGATG
* *
438058 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAATATTATTAC
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTAT
438123 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTATAATTGAGG
66 CTTTTAAAATTAATTGTTTAAAAATAT-AAAAAATATTAAAATAAACTTTTAATTATAATTGAGG
*
438188 GATCAAATGAATTATTATTTATTAATTTTTAATTTTTAACAACAGTTAATAATGTTTATTCATTT
130 GATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGTTAATAATGTTTATTCATTT
* *
438253 TTAATAAAATTATTAAATTTTTGCATTAAAATTACATAATACATATAATCTAGTATATAAAAACT
195 TTAATAAAATTATTAAATTTTTGCATTAAAATGACACAATACATATAATCTAG---------A-T
*
438318 TTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTTTAC
250 TTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTAC
438383 AAAATGATGATGATG
315 AAAATGATGATGATG
* *
438398 ------ATAAATA-TTTATAA-TTTAAAAATTATAAATTTCATAAATTTTTGAAAAAATTATTGT
1 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTAT
* * *
438455 CTTTTAAAAGTAATTGTTTAAAAACATAAAAAATATTAAAATACACTTTTAATTATAATTGAGGG
66 CTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGG
* *
438520 ATCAAATAAATTATTATTCAATAATGTTTT
131 ATCAAATGAATTATTATTCATTAAT-TTTT
438550 TAAAATATAT
Statistics
Matches: 447, Mismatches: 30, Indels: 28
0.89 0.06 0.06
Matches are distributed among these distances:
330 44 0.10
331 100 0.22
332 102 0.23
333 114 0.26
334 7 0.02
340 9 0.02
343 71 0.16
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (329 bp):
ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTAT
CTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGG
ATCAAATGAATTATTATTCATTAATTTTTAATTTTTAACAACAGTTAATAATGTTTATTCATTTT
TAATAAAATTATTAAATTTTTGCATTAAAATGACACAATACATATAATCTAGATTTGAGGGTAAG
TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGATGAT
GATG
Found at i:438574 original size:25 final size:26
Alignment explanation
Indices: 438546--438594 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
438536 TTCAATAATG
*
438546 TTTTTAAAA-TATATAAAATTTATAA
1 TTTTTAAAATTATAAAAAATTTATAA
438571 TTTTTAAAATTATAAAAAATTTAT
1 TTTTTAAAATTATAAAAAATTTAT
438595 TATTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTTAAAATTATAAAAAATTTATAA
Found at i:438599 original size:332 final size:324
Alignment explanation
Indices: 437733--438576 Score: 1080
Period size: 331 Copynumber: 2.6 Consensus size: 324
437723 TTTTTATAAT
* * * *
437733 AATAAATTTTTTATAATTTTAAAAATTAAAAATTTCATATA-TTTTGAAAAAAATATTTTCTTTT
1 AATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTATCTTTT
* * *
437797 AAAATTAATTGTTTAAAAATAT-TAAAATATTAAAATAAACTTTTAATTACAATTAAGGGATCAA
66 AAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGGATCAA
* *
437861 ATGAATTATTATTCATTAATTTTTATTTTTTAATAACAGTTAATAATGTTTATTCATTTTTAATA
131 ATGAATTATTATTCATTAATTTTTAATTTTT-ATAA-AATTAATAATGTTTATTCATTTTTAA-A
* * * *
437926 AAATTATT-TT-GATTTTTGCATTAAAATGGCACAATACGTCTAATCTAGTTTGAGGGTAAGTAT
193 AAATTATTATTAAATTTTTGCATTAAAATGACACAATACATATAATCTAGTTTGAGGGTAAGTAT
437989 TTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGATAATGAT
258 TTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATG--AATGAT
438054 GATG
321 GATG
* *
438058 ATAATAATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAATATTATTAC
1 -----AATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTAT
438123 CTTTTAAAATTAATTGTTTAAAAATATAAAAAAATATTAAAATAAACTTTTAATTATAATTGAGG
61 CTTTTAAAATTAATTGTTTAAAAATAT-AAAAAATATTAAAATAAACTTTTAATTATAATTGAGG
*
438188 GATCAAATGAATTATTATTTATTAATTTTTAATTTTTA-ACAACAGTTAATAATGTTTATTCATT
125 GATCAAATGAATTATTATTCATTAATTTTTAATTTTTATA-AA-A-TTAATAATGTTTATTCATT
* * *
438252 TTTAATAAA--ATTATTAAATTTTTGCATTAAAATTACATAATACATATAATCTAGTATATAAAA
187 TTTAAAAAATTATTATTAAATTTTTGCATTAAAATGACACAATACATATAATCTAG---------
*
438315 ACTTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTCTTT
243 --TTTGAGGGTAAGTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTT
438380 TACAAAATG-ATGATGATG
306 TACAAAATGAATGATGATG
* *
438398 -ATAAATA-TTTATAA-TTTAAAAATTATAAATTTCATAAATTTTTGAAAAAATTATTGTCTTTT
1 AATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTATCTTTT
* * *
438460 AAAAGTAATTGTTTAAAAACATAAAAAATATTAAAATACACTTTTAATTATAATTGAGGGATCAA
66 AAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGGATCAA
* * ** * * *
438525 ATAAATTATTATTCAATAATGTTTTTAAAATATATAAAATTTATAATTTTTA
131 ATGAATTATTATTCATTAA--TTTTTAATTTTTATAAAATTAATAATGTTTA
438577 AAATTATAAA
Statistics
Matches: 457, Mismatches: 35, Indels: 43
0.85 0.07 0.08
Matches are distributed among these distances:
330 42 0.09
331 114 0.25
332 102 0.22
333 111 0.24
334 8 0.02
340 9 0.02
343 71 0.16
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (324 bp):
AATAAATATTTTATAATTTTAAAAATTATAAATTTCATATATTTTTGAAAAAATTATTATCTTTT
AAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTATAATTGAGGGATCAA
ATGAATTATTATTCATTAATTTTTAATTTTTATAAAATTAATAATGTTTATTCATTTTTAAAAAA
TTATTATTAAATTTTTGCATTAAAATGACACAATACATATAATCTAGTTTGAGGGTAAGTATTTT
AAAATATGAATAATTTTATAAAAGTTTTATAACTAGTATTTATTTTACAAAATGAATGATGATG
Found at i:438605 original size:26 final size:25
Alignment explanation
Indices: 438551--438610 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
438541 TAATGTTTTT
* *
438551 AAAATATATAAAATTTATAATTTTTA
1 AAAATATAAAAAATTTATAA-TTATA
* *
438577 AAATTATAAAAAATTTATTATTATA
1 AAAATATAAAAAATTTATAATTATA
438602 AAAA-ATAAA
1 AAAATATAAA
438611 CTTGTGACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 5 0.17
25 7 0.24
26 17 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATATAAAAAATTTATAATTATA
Found at i:440929 original size:7 final size:7
Alignment explanation
Indices: 440917--440943 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
440907 ATTTCAATCC
440917 TACCAAG
1 TACCAAG
440924 TACCAAG
1 TACCAAG
440931 TACCAAG
1 TACCAAG
440938 TACCAA
1 TACCAA
440944 CAAATACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (7 bp):
TACCAAG
Found at i:443054 original size:19 final size:19
Alignment explanation
Indices: 443027--443093 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
443017 TTCATTATAT
*
443027 TATATTATATATTATTTTG
1 TATAATATATATTATTTTG
* *
443046 TATAATATATATTATATGG
1 TATAATATATATTATTTTG
*
443065 TATGATATTATATATATATTT-
1 TATAATA-TATAT-TAT-TTTG
443086 TATAATAT
1 TATAATAT
443094 TTATAAAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 22 0.58
20 6 0.16
21 9 0.24
22 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (19 bp):
TATAATATATATTATTTTG
Found at i:443055 original size:2 final size:2
Alignment explanation
Indices: 443022--443323 Score: 153
Period size: 2 Copynumber: 159.5 Consensus size: 2
443012 TCTTTTTCAT
* *
443022 TA TA T- TA TA T- TA TA TA T- TA T- TT TG TA TA -A 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 TA
* * *
443058 TA TA TGG TA TGA TA T- TA TA TA TA TA T- TT TA TA -A TA TT TA TA
1 TA TA T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
443099 AA GTA TA TA TCA T- TA TA TA GT- TT TA TA GTA TA T- TA T- TA TA
1 TA -TA TA TA T-A TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
443139 GTA T- TA TA -A TA TA TA T- TA TA TA T- 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
*
443178 TA TA TA TA TA TA T- TA TA GTA GTA TA TA T- TA TG TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA -TA -TA TA TA TA TA TA TA TA TA TA TA
* *
443219 TA T- TG TA TA TA TA TA T- TA TA TA T- TA TA GTA TG TA TA T- TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A
*
443259 TA T- TA TA TA T- TA TA GTA TA TA TA T- TCA TA T- TA TA TG TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA T-A TA TA TA TA TA TA TA
*
443299 TG TA T- TA GTA TA T- TA TA -A TA TA TA T
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA T
443324 TACGTATTAG
Statistics
Matches: 237, Mismatches: 19, Indels: 88
0.69 0.06 0.26
Matches are distributed among these distances:
1 31 0.13
2 182 0.77
3 24 0.10
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (2 bp):
TA
Found at i:443116 original size:80 final size:76
Alignment explanation
Indices: 443022--443255 Score: 222
Period size: 80 Copynumber: 2.9 Consensus size: 76
443012 TCTTTTTCAT
* *
443022 TATATTATATTATATA-TTATTTTGTATAATATATATTATATGGTATGATATTATATA-TATATT
1 TATA-TATATTATATAGTTATTTTGTATATTATATATTATAT-ATAT-ATATTATATATTATA-T
* *
443085 TTATAATATTTATAAA
62 ATAT-ATATATATAAA
* *
443101 GTATATATCATTATATAGTT-TTATAGTATATTATTATAGTATTATAATATATATTATATATTAT
1 -TATATAT-ATTATATAGTTATT-TTGTATATTA-TATATTA-TAT-ATATATATTATATATTAT
*
443165 ATATATATATATATATA
60 ATATATATATATATAAA
*
443182 TATATATATTATAGTAGTATATATTATGTATATTATATATTGTATATATATATTATATATTATAG
1 TATATATATTATA-TAGT-TAT-TT-TGTATATTATATATTATATATATATATTATATATTATA-
*
443247 TATGTATAT
61 TATATATAT
443256 TCATATTATA
Statistics
Matches: 130, Mismatches: 12, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
79 9 0.07
80 44 0.34
81 31 0.24
82 27 0.21
83 19 0.15
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (76 bp):
TATATATATTATATAGTTATTTTGTATATTATATATTATATATATATATTATATATTATATATAT
ATATATATAAA
Found at i:443179 original size:97 final size:100
Alignment explanation
Indices: 443022--443298 Score: 274
Period size: 97 Copynumber: 2.8 Consensus size: 100
443012 TCTTTTTCAT
* **
443022 TATATTATAT-TATATATTAT-TTTGTATAATATATATTATATGGTATGATAT-TATATATATAT
1 TATATTATATATATATATTATATAT-TATAATATATATTATATATTAT-ATATATATATATATAT
*
443084 TTTATA-ATATTTATA-AAGTATATATCAT-TATA-TA
64 TATATATATA-TTATAGAAGTATATATCATGTATATTA
443118 GT-T-TTATAGTATAT-TATTATAGTATTATAATATATATTATATATTATATATATATATATATA
1 -TATATTATA-TATATATATTATA-TATTATAATATATATTATATATTATATATATATATATATA
* *
443180 -TATATATATATTATAGTAGTATATATTATGTATATTA
63 TTATATATATATTATAGAAGTATATATCATGTATATTA
* * *
443217 TATATTGTATATATATATTATATATTATAGTATGTATATT-CATATTATATATTATAGTATATAT
1 TATATTATATATATATATTATATATTATA--ATATATATTATATATTATATA-TATA-TATATAT
443281 ATTCATAT-TATATGTATA
62 ATT-ATATATATAT-TATA
443299 TGTATTAGTA
Statistics
Matches: 152, Mismatches: 9, Indels: 31
0.79 0.05 0.16
Matches are distributed among these distances:
95 5 0.03
96 22 0.14
97 48 0.32
98 7 0.05
99 15 0.10
100 21 0.14
101 12 0.08
102 8 0.05
103 6 0.04
104 8 0.05
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (100 bp):
TATATTATATATATATATTATATATTATAATATATATTATATATTATATATATATATATATATTA
TATATATATTATAGAAGTATATATCATGTATATTA
Found at i:443263 original size:56 final size:53
Alignment explanation
Indices: 443027--443325 Score: 192
Period size: 54 Copynumber: 5.8 Consensus size: 53
443017 TTCATTATAT
* **
443027 TATATTATATATTAT--TTTGTATAATATATATTATATGGTATGATATTATATATA
1 TATATTATATATTATAGTATGTAT-AT-TATATTATATATTAT-ATATTATATATA
* * *
443081 TATTTTATAATATT-TA-TAAAGTATA-TATCATTATATAGTT-T-TA-TA-GTATA
1 TATATTAT-ATATTATAGT-ATGTATATTAT-ATTATATA-TTATATATTATATATA
* *
443131 T-TATTATAGTATTATAATATATAT-TATATATTATATA-TATATA-TATATATA
1 TATATTATA-TATTATAGTATGTATAT-TATATTATATATTATATATTATATATA
* *
443182 TATA---TATATTATAGTA-GTATA-TAT-TATGTATATTATATATTGTATATA
1 TATATTATATATTATAGTATGTATATTATAT-TATATATTATATATTATATATA
443230 TATATTATATATTATAGTATGTATATTCATATTATATATTATAGTA-TATATAT-
1 TATATTATATATTATAGTATGTATATT-ATATTATATATTATA-TATTATATATA
* *
443283 TCATATTATAT-GTATATGTATTAGTATATTATAATATATATTA
1 T-ATATTATATATTATA-GTA-T-GTATATTATATTATATATTA
443326 CGTATTAGTT
Statistics
Matches: 197, Mismatches: 18, Indels: 59
0.72 0.07 0.22
Matches are distributed among these distances:
45 1 0.01
46 8 0.04
47 9 0.05
48 22 0.11
49 12 0.06
50 23 0.12
51 23 0.12
52 9 0.05
53 9 0.05
54 46 0.23
55 24 0.12
56 11 0.06
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (53 bp):
TATATTATATATTATAGTATGTATATTATATTATATATTATATATTATATATA
Found at i:443303 original size:27 final size:25
Alignment explanation
Indices: 443020--443321 Score: 156
Period size: 27 Copynumber: 12.1 Consensus size: 25
443010 GTTCTTTTTC
443020 ATTATAT-TATAT-TA-TATATTAT
1 ATTATATGTATATATATTATATTAT
* * * **
443042 TTTGTAT-AATATATATTATATGGT
1 ATTATATGTATATATATTATATTAT
* * * *
443066 ATGATATTATATATATATTTTATAAT
1 ATTATA-TGTATATATATTATATTAT
*
443092 ATTTATAAAGTATATATCATTATA-TAGT
1 A-TTAT-ATGTATATAT-ATTATATTA-T
* *
443120 TTTATA-GTATAT-TATTATA--GT
1 ATTATATGTATATATATTATATTAT
*
443141 ATTATA-ATATATAT-TATATATTAT
1 ATTATATGTATATATAT-TATATTAT
*
443165 A-TATATATATATATA-TATATATAT
1 ATTATATGTATATATATTATAT-TAT
443189 ATTATAGTAGTATATATTATGTATATTAT
1 ATTATA-T-GTATATA-TAT-TATATTAT
443218 A-TAT-TGTATATATA-TAT-TATAT
1 ATTATATGTATATATATTATAT-TAT
*
443240 ATTATA-GTATGTATATTCATATTAT
1 ATTATATGTATATATATT-ATATTAT
443265 A-TATTATAGTATATATATTCATATTAT
1 ATTA-TAT-GTATATATATT-ATATTAT
*
443292 ATGTATATGTATTAGTATATTATAATAT
1 AT-TATATGTA-TA-TATATTATATTAT
443320 AT
1 AT
443322 ATTACGTATT
Statistics
Matches: 220, Mismatches: 26, Indels: 62
0.71 0.08 0.20
Matches are distributed among these distances:
21 13 0.06
22 21 0.10
23 28 0.13
24 29 0.13
25 26 0.12
26 18 0.08
27 43 0.20
28 25 0.11
29 12 0.05
30 5 0.02
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (25 bp):
ATTATATGTATATATATTATATTAT
Found at i:443739 original size:20 final size:21
Alignment explanation
Indices: 443710--443756 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
443700 CGAATAACCG
443710 AGAAACAACCC-AAAATGCTC
1 AGAAACAACCCTAAAATGCTC
* * *
443730 AGAAATAACCCTAAGATGCTT
1 AGAAACAACCCTAAAATGCTC
443751 AGAAAC
1 AGAAAC
443757 TACCACTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (21 bp):
AGAAACAACCCTAAAATGCTC
Found at i:443865 original size:21 final size:21
Alignment explanation
Indices: 443815--443866 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
443805 GACACAGTGG
* *
443815 AAACACGAGAAAACCAACGGA
1 AAACACAAGAAAACCAACAGA
443836 AAACACAAGAAAA-CAACAGA
1 AAACACAAGAAAACCAACAGA
*
443856 AATCATCAAGA
1 AAACA-CAAGA
443867 GAAATCCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.62, C:0.21, G:0.13, T:0.04
Consensus pattern (21 bp):
AAACACAAGAAAACCAACAGA
Found at i:453320 original size:18 final size:18
Alignment explanation
Indices: 453287--453326 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
453277 ATGTTTAAGG
453287 AAAGTTAAAGATTGATAGA
1 AAAGTTAAAGATTGATA-A
*
453306 AAAGTTTAAGA-TGATAA
1 AAAGTTAAAGATTGATAA
453323 AAAG
1 AAAG
453327 AGATATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
19 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (18 bp):
AAAGTTAAAGATTGATAA
Found at i:456737 original size:15 final size:14
Alignment explanation
Indices: 456717--456747 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
456707 TTAATAGTCA
456717 TATTTTTTATTTTTT
1 TATTTTTT-TTTTTT
456732 TATTTTTTTTTTTT
1 TATTTTTTTTTTTT
456746 TA
1 TA
456748 AACATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TATTTTTTTTTTTT
Found at i:456757 original size:33 final size:33
Alignment explanation
Indices: 456718--456780 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
456708 TAATAGTCAT
** * *
456718 ATTTTTTATTTTTTTATTTTTTTTTTTTTAAAC
1 ATTTTTTAAATTTTTAATTTATTTTTTTTAAAC
456751 ATTTTTTAAATTTTTAATTTATTTTTTTTA
1 ATTTTTTAAATTTTTAATTTATTTTTTTTA
456781 TTTTAAGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (33 bp):
ATTTTTTAAATTTTTAATTTATTTTTTTTAAAC
Found at i:456784 original size:19 final size:19
Alignment explanation
Indices: 456719--456800 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
456709 AATAGTCATA
456719 TTTTTTATTTT--TTTATT
1 TTTTTTATTTTAATTTATT
* **
456736 TTTTTTTTTTTAA-ACATT
1 TTTTTTATTTTAATTTATT
**
456754 TTTTAAATTTTTAATTTATT
1 TTTTTTA-TTTTAATTTATT
* *
456774 TTTTTTATTTTAAGTTAAT
1 TTTTTTATTTTAATTTATT
*
456793 TTTGTTAT
1 TTTTTTAT
456801 CTAACAATAA
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
17 10 0.21
18 7 0.15
19 23 0.48
20 8 0.17
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTATTTTAATTTATT
Found at i:458253 original size:2 final size:2
Alignment explanation
Indices: 458243--458462 Score: 64
Period size: 2 Copynumber: 114.0 Consensus size: 2
458233 AAAATGAAAA
458243 AT AT A- AT AT AT AT AT AT AT A- AT AT A- AGT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
458281 AGT TT AT AT AT AA ACT AT AT AT AT A- AT AT A- AGT TT AT AT AT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
458322 AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A- AGT
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
* * * *
458362 -T AT AT AT AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT A-T
* * * * *
458404 AT AT AT GT AA AT -T AT AT AT GT AT AA ACT AT A- AT TT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
458444 A- AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
458463 GTTGAGATTT
Statistics
Matches: 157, Mismatches: 31, Indels: 60
0.63 0.12 0.24
Matches are distributed among these distances:
1 19 0.12
2 130 0.83
3 8 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:458266 original size:13 final size:13
Alignment explanation
Indices: 458242--458462 Score: 74
Period size: 13 Copynumber: 16.5 Consensus size: 13
458232 AAAAATGAAA
458242 AATATA-ATATAT
1 AATATATATATAT
458254 -ATATATATAATAT
1 AATATATAT-ATAT
458267 AAGTATATA-ATAT
1 AA-TATATATATAT
458280 AAGT-T-TATATAT
1 AA-TATATATATAT
458292 AA-ACTATATATAT
1 AATA-TATATATAT
458305 AATATAAGTTTATATAT
1 AATAT-A---TATATAT
*
458322 AA-ACTATATTTAT
1 AATA-TATATATAT
* *
458335 ATTATAAACTATAT
1 AATATATA-TATAT
458349 AAT-TAT-TATA-
1 AATATATATATAT
*
458359 AGT-TATATATAT
1 AATATATATATAT
* *
458371 AAATTATGTTTATAT
1 -AA-TATATATATAT
458386 GAACTATATATATA-
1 -AA-TATATATATAT
*
458400 AACTATATATGTA-
1 AA-TATATATATAT
*
458413 AATTATATATGTAT
1 AA-TATATATATAT
*
458427 AAACTATAATTTATATT
1 -AA-TAT-ATATATA-T
*
458444 AATATGTATATAT
1 AATATATATATAT
458457 -ATATAT
1 AATATAT
458463 GTTGAGATTT
Statistics
Matches: 162, Mismatches: 22, Indels: 50
0.69 0.09 0.21
Matches are distributed among these distances:
10 5 0.03
11 15 0.09
12 15 0.09
13 60 0.37
14 16 0.10
15 31 0.19
16 9 0.06
17 11 0.07
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (13 bp):
AATATATATATAT
Found at i:458291 original size:30 final size:30
Alignment explanation
Indices: 458253--458341 Score: 126
Period size: 30 Copynumber: 2.9 Consensus size: 30
458243 ATATAATATA
458253 TATATATATAA-TATAAGTATATAATATAAGTT
1 TATATATA-AACTAT-A-TATATAATATAAGTT
458285 TATATATAAACTATATATATAATATAAGTT
1 TATATATAAACTATATATATAATATAAGTT
* *
458315 TATATATAAACTATATTTATATTATAA
1 TATATATAAACTATATATATAATATAA
458342 ACTATATAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
30 40 0.74
31 3 0.06
32 11 0.20
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATATAAACTATATATATAATATAAGTT
Found at i:458421 original size:28 final size:28
Alignment explanation
Indices: 458390--458464 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
458380 TTATATGAAC
*
458390 TATATATATAAACTATATATGTAAATTA
1 TATATGTATAAACTATATATGTAAATTA
* *
458418 TATATGTATAAACTATA-ATTTATATTA
1 TATATGTATAAACTATATATGTAAATTA
*
458445 -ATATGTATATA-TATATATGT
1 TATATGTATAAACTATATATGT
458465 TGAGATTTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.10
26 13 0.32
27 8 0.20
28 16 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (28 bp):
TATATGTATAAACTATATATGTAAATTA
Found at i:459559 original size:17 final size:17
Alignment explanation
Indices: 459537--459570 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
459527 CTCCCCCTTA
459537 CTTTAACACCTTAACAC
1 CTTTAACACCTTAACAC
459554 CTTTAACACCTTAACAC
1 CTTTAACACCTTAACAC
459571 TTCTCCCCCT
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:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (17 bp):
CTTTAACACCTTAACAC
Found at i:459561 original size:9 final size:8
Alignment explanation
Indices: 459539--459570 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
459529 CCCCCTTACT
459539 TTAACACC
1 TTAACACC
459547 TTAACACC
1 TTAACACC
459555 TTTAACACC
1 -TTAACACC
459564 TTAACAC
1 TTAACAC
459571 TTCTCCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (8 bp):
TTAACACC
Found at i:460509 original size:14 final size:14
Alignment explanation
Indices: 460490--460516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
460480 TTATTGAACT
460490 AAATGAATTATTTA
1 AAATGAATTATTTA
460504 AAATGAATTATTT
1 AAATGAATTATTT
460517 TTCTTTTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
AAATGAATTATTTA
Found at i:460649 original size:19 final size:20
Alignment explanation
Indices: 460606--460653 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
460596 TCTAAATCAT
*
460606 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
460626 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
460645 TTTTCAAAA
1 TTTTCAAAA
460654 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:462428 original size:19 final size:20
Alignment explanation
Indices: 462406--462450 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
462396 TTGAGAATAT
**
462406 AGGGAAATT-GACCATTTAG
1 AGGGAAATTGGAAAATTTAG
462425 AGGGAAATTGGAAAATTTAG
1 AGGGAAATTGGAAAATTTAG
462445 AGGGAA
1 AGGGAA
462451 TAAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.42, C:0.04, G:0.31, T:0.22
Consensus pattern (20 bp):
AGGGAAATTGGAAAATTTAG
Found at i:462444 original size:20 final size:19
Alignment explanation
Indices: 462406--462479 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
462396 TTGAGAATAT
**
462406 AGGGAAATTGACCATTTAG
1 AGGGAAATTGAAAATTTAG
462425 AGGGAAATTGGAAAATTTAG
1 AGGGAAATT-GAAAATTTAG
** *
462445 AGGG-AATAAAAAATTTTGG
1 AGGGAAATTGAAAA-TTTAG
*
462464 AGGGAAATTGAGAATT
1 AGGGAAATTGAAAATT
462480 GAGATTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 4 0.09
19 22 0.50
20 18 0.41
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.26
Consensus pattern (19 bp):
AGGGAAATTGAAAATTTAG
Found at i:462695 original size:4 final size:4
Alignment explanation
Indices: 462688--462716 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
462678 TGTGTGTGTG
462688 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
462717 ATAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:462735 original size:16 final size:15
Alignment explanation
Indices: 462716--462749 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
462706 TATGTATGTA
462716 TATAAAATATATAATT
1 TATAAAAT-TATAATT
462732 TAT-AAATTATAATT
1 TATAAAATTATAATT
462746 TATA
1 TATA
462750 TTAATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.59
15 4 0.24
16 3 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAAATTATAATT
Found at i:462744 original size:14 final size:15
Alignment explanation
Indices: 462720--462749 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
462710 TATGTATATA
462720 AAATATATAATTTAT
1 AAATATATAATTTAT
462735 AAAT-TATAATTTAT
1 AAATATATAATTTAT
462749 A
1 A
462750 TTAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATATATAATTTAT
Found at i:462803 original size:2 final size:2
Alignment explanation
Indices: 462796--462850 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
462786 ATCTATATTT
462796 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
462838 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
462851 GAAACACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:462999 original size:20 final size:21
Alignment explanation
Indices: 462969--463011 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
462959 TTATAGTACA
*
462969 TATAGTATAAACCATGTATAG
1 TATAGTATAAACCATGTAAAG
*
462990 TATA-TATAAACTATGTAAAG
1 TATAGTATAAACCATGTAAAG
463010 TA
1 TA
463012 AATTACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (21 bp):
TATAGTATAAACCATGTAAAG
Found at i:463322 original size:23 final size:24
Alignment explanation
Indices: 463295--463344 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
463285 TTATTTTTTC
463295 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
*
463318 TTTATTTAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
463342 TTT
1 TTT
463345 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:463474 original size:30 final size:30
Alignment explanation
Indices: 463447--463656 Score: 358
Period size: 30 Copynumber: 7.2 Consensus size: 30
463437 ATCATAATAA
* *
463447 ATATTTTATAATAACATTTAAAAA-TAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463476 ATA-TTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463505 --A-TTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
*
463532 ATATTTTTTAATTACATTTAAAAAGTTATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463562 ATATTTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463592 ATATTTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463622 ATATTTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTTTAATTACATTTAAAAAGTAATC
463652 ATATT
1 ATATT
463657 AATTTTTTCT
Statistics
Matches: 173, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
27 27 0.16
28 18 0.10
29 9 0.05
30 119 0.69
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATTTTTTAATTACATTTAAAAAGTAATC
Found at i:463831 original size:16 final size:16
Alignment explanation
Indices: 463807--463848 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
463797 AAATCTTTTG
463807 TTTTT-GATTTCGTTT
1 TTTTTCGATTTCGTTT
463822 TTTTTCGATTTCGTTT
1 TTTTTCGATTTCGTTT
*
463838 GTTTTCGATTT
1 TTTTTCGATTT
463849 GTGGCGGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.07, C:0.10, G:0.14, T:0.69
Consensus pattern (16 bp):
TTTTTCGATTTCGTTT
Found at i:464353 original size:20 final size:21
Alignment explanation
Indices: 464316--464375 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
464306 AAATAATTTT
*
464316 ATATAATATGTATGTATAAACC
1 ATAT-ATATGTATATATAAACC
* *
464338 ATGTATA-GTATATATAAACT
1 ATATATATGTATATATAAACC
464358 ATATATATGTATAGTATA
1 ATATATATGTATA-TATA
464376 TATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.53
21 8 0.25
22 7 0.22
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
ATATATATGTATATATAAACC
Found at i:464375 original size:13 final size:13
Alignment explanation
Indices: 464341--464383 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
464331 ATAAACCATG
464341 TATAGTATATATA
1 TATAGTATATATA
* *
464354 AACTA-TATATATG
1 TA-TAGTATATATA
464367 TATAGTATATATA
1 TATAGTATATATA
464380 TATA
1 TATA
464384 TAAACTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (13 bp):
TATAGTATATATA
Found at i:464392 original size:15 final size:15
Alignment explanation
Indices: 464341--464394 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
464331 ATAAACCATG
464341 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
464357 TATATATATGTATAGTA-
1 TATATATA--TATA-AAC
464374 TATATATATATAAAC
1 TATATATATATAAAC
464389 TATATA
1 TATATA
464395 AAATTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 1 0.03
15 14 0.44
16 4 0.12
17 12 0.38
18 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:464471 original size:17 final size:17
Alignment explanation
Indices: 464432--464470 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
464422 AACACTATGC
* *
464432 ATAAACTATATAATGTA
1 ATAAAATATATAATATA
464449 ATAAAATATATAATAT-
1 ATAAAATATATAATATA
464465 ATAAAA
1 ATAAAA
464471 ACCCTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAAAATATATAATATA
Found at i:469096 original size:33 final size:33
Alignment explanation
Indices: 469054--469119 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
469044 TTTTTTCCTT
469054 CTTTTTTTAAACACTAAAAGAATTTAAATCTGG
1 CTTTTTTTAAACACTAAAAGAATTTAAATCTGG
469087 CTTTTTTTAAACACTAAAAGAATTTAAATCTGG
1 CTTTTTTTAAACACTAAAAGAATTTAAATCTGG
469120 TAATTAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (33 bp):
CTTTTTTTAAACACTAAAAGAATTTAAATCTGG
Found at i:469436 original size:21 final size:20
Alignment explanation
Indices: 469412--469544 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 20
469402 CAGTTCCCAG
469412 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
469432 GAATCGCAATGCGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
* ** * * *
469453 AATTAGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTAT-GAA
*
469475 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGATTATGAA
**
469495 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
* *
469515 AATCGCAACGCGATTCTGAC
1 AATCGCAACGCGATTATGAA
*
469535 TATCGCAACG
1 AATCGCAACG
469545 AGTATCCGTA
Statistics
Matches: 85, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.02
20 46 0.54
21 33 0.39
22 3 0.04
23 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:469500 original size:20 final size:20
Alignment explanation
Indices: 469475--469730 Score: 157
Period size: 20 Copynumber: 12.7 Consensus size: 20
469465 GATTTTCCAG
*
469475 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
469495 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
469515 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
469535 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
469556 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
469576 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
469597 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
469617 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
469637 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
*
469657 AATCGCAACGAGAATAC-ATA
1 AATCGCAACGCGAATACGA-A
* * * *
469677 AATCACAATGCGTAT-CCATA
1 AATCGCAACGCGAATACGA-A
469697 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
469718 AATCGCAACGCGA
1 AATCGCAACGCGA
469731 TTTTTAAAGC
Statistics
Matches: 185, Mismatches: 35, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
19 4 0.02
20 128 0.69
21 52 0.28
22 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:469558 original size:61 final size:61
Alignment explanation
Indices: 469493--469727 Score: 196
Period size: 61 Copynumber: 3.9 Consensus size: 61
469483 CGCGAATATG
** * **
469493 AAAATCGCAACGCGAACATATAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCGT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGT-AAAATCGCAACGAGTATCCGT
* * *
469554 AAAATCGCAACGCGTATC-CGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGT
1 AAAATCGCAACGCG-AACACGTAAATCGCAACG-CGATACGTAAAATCGCAACGAGTATCCGT
* * * * *
469616 -AAATCGCAACGAGAATACGTAAATCGCAACGCG-TATCTGT-AAATCGCAACGAGAATACAT
1 AAAATCGCAACGCGAACACGTAAATCGCAACGCGATA-C-GTAAAATCGCAACGAGTATCCGT
* * * * *
469676 -AAATCACAATGCGTATC-CATAAATCGCAACGACAATACGTAAAATCGCAACG
1 AAAATCGCAACGCG-AACACGTAAATCGCAACG-CGATACGTAAAATCGCAACG
469728 CGATTTTTAA
Statistics
Matches: 141, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
59 2 0.01
60 44 0.31
61 68 0.48
62 26 0.18
63 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (61 bp):
AAAATCGCAACGCGAACACGTAAATCGCAACGCGATACGTAAAATCGCAACGAGTATCCGT
Found at i:469579 original size:81 final size:80
Alignment explanation
Indices: 469475--469729 Score: 266
Period size: 81 Copynumber: 3.1 Consensus size: 80
469465 GATTTTCCAG
* * * *
469475 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCGATTCTGACTATCG
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGAACATATAAATCGCAACGCGATTCTGA-AATCG
* *
469540 CAACGAGTATCCGTAA
65 CAACGAGAATACGTAA
* * * *
469556 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTA-AAATCGCAACGCG-TATCCGTAAA
1 AATCGCAACGCGTATCTGTAAATCGCAACG-CGA-ACATATAAATCGCAACGCGAT-TCTG-AAA
469619 TCGCAACGAGAATACGT-A
62 TCGCAACGAGAATACGTAA
* * * * * *
469637 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACATAAATCACAATGCGTATCCAT-AAATC
1 AATCGCAACGCGTATCTGTAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGAAATC
*
469701 GCAACGACAATACGTAA
64 GCAACGAGAATACGTAA
469718 AATCGCAACGCG
1 AATCGCAACGCG
469730 ATTTTTAAAG
Statistics
Matches: 144, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
79 2 0.01
80 31 0.22
81 71 0.49
82 35 0.24
83 5 0.03
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (80 bp):
AATCGCAACGCGTATCTGTAAATCGCAACGCGAACATATAAATCGCAACGCGATTCTGAAATCGC
AACGAGAATACGTAA
Found at i:469651 original size:40 final size:41
Alignment explanation
Indices: 469536--469729 Score: 293
Period size: 40 Copynumber: 4.8 Consensus size: 41
469526 GATTCTGACT
* *
469536 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
469577 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
469618 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
469658 ATCGCAACGAGAATACAT-AAATCACAATGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
469698 ATCGCAACGACAATACGTAAAATCGCAACGCG
1 ATCGCAACGAGAATACGTAAAATCGCAACGCG
469730 ATTTTTAAAG
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 72 0.52
41 66 0.48
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:470039 original size:24 final size:25
Alignment explanation
Indices: 469999--470045 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
469989 CGAAGGTTAG
469999 TTTTTTTAATTATTTTTA-TTTTGA
1 TTTTTTTAATTATTTTTAGTTTTGA
*
470023 TTTTTTTGCATTA-TTTTAGTTTT
1 TTTTTTT-AATTATTTTTAGTTTT
470046 TTCATATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTTTTTAATTATTTTTAGTTTTGA
Found at i:470290 original size:20 final size:20
Alignment explanation
Indices: 470265--470361 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
470255 TTCTAAACTT
*
470265 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
*
470285 AAAATCGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
470305 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
470326 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
470345 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
470362 CCAAAATCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 19 0.29
20 30 0.46
21 16 0.25
ACGTcount: A:0.51, C:0.19, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:470367 original size:19 final size:19
Alignment explanation
Indices: 470326--470369 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
470316 GAGAGAAATG
**
470326 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACC
470345 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACC
470364 AAAATC
1 AAAATC
470370 ACATTGCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACC
Found at i:470409 original size:14 final size:14
Alignment explanation
Indices: 470390--470478 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
470380 TTTCATTTCG
470390 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
470404 CGTTGCGATTTTCATATCG
1 CGTTGCGA--TTC---TCT
470423 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
470437 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
470456 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
470470 CGTTGCGAT
1 CGTTGCGAT
470479 AGTCATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 29 0.48
16 6 0.10
17 6 0.10
19 20 0.33
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:470415 original size:33 final size:33
Alignment explanation
Indices: 470373--470527 Score: 211
Period size: 33 Copynumber: 4.5 Consensus size: 33
470363 CAAAATCACA
470373 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
470406 TTGCGATTTTCATATCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
470439 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
470472 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGC----G--ATTCTCTCG
470512 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
470528 AACCAAAAGA
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
33 76 0.71
34 7 0.07
38 1 0.01
39 1 0.01
40 22 0.21
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:470525 original size:20 final size:20
Alignment explanation
Indices: 470463--470518 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
470453 TCACGTTGCG
470463 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
470483 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
470503 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
470519 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:472351 original size:94 final size:94
Alignment explanation
Indices: 472190--472569 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
472180 TAGATTGCTT
* * *
472190 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACTCTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
472255 ATTTGTCTTTTGTTTTTTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
472284 AGTAAATTTATTCGGTTGATGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
472349 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
472378 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
472443 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
472472 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
472537 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
472565 AGTAA
1 AGTAA
472570 TGCAATCCAT
Statistics
Matches: 276, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
93 25 0.09
94 251 0.91
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:472673 original size:19 final size:19
Alignment explanation
Indices: 472617--472740 Score: 126
Period size: 19 Copynumber: 6.5 Consensus size: 19
472607 TAGTTTACTT
* *
472617 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
* **
472637 TCGCAACGTGAAAAATGACTA
1 TCGCAACGCG--AAATGAAAA
472658 TCGCAACGCGAAATG--AA
1 TCGCAACGCGAAATGAAAA
472675 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
472694 TCGCAACACAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
**
472713 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
472732 TCGCAACGC
1 TCGCAACGC
472741 AAAACTATAA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
17 16 0.18
19 48 0.55
20 8 0.09
21 12 0.14
22 3 0.03
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:472716 original size:55 final size:56
Alignment explanation
Indices: 472617--472725 Score: 141
Period size: 55 Copynumber: 1.9 Consensus size: 56
472607 TAGTTTACTT
* **
472617 TCGCAACACGAAACTTAAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATGAA
1 TCGCAACACGAAACTGAAAATCGCAAC--GAAAAATGAAAATCGCAACGCGAAATGAA
*
472675 TCGCAACGCGAAA-TGAAAATCGCAAC-ACAAAATGAAAATCGCAACGCGAAA
1 TCGCAACACGAAACTGAAAATCGCAACGA-AAAATGAAAATCGCAACGCGAAA
472726 CCAAAATCGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
54 1 0.02
55 21 0.46
57 12 0.26
58 12 0.26
ACGTcount: A:0.47, C:0.23, G:0.17, T:0.13
Consensus pattern (56 bp):
TCGCAACACGAAACTGAAAATCGCAACGAAAAATGAAAATCGCAACGCGAAATGAA
Found at i:472736 original size:57 final size:56
Alignment explanation
Indices: 472617--472754 Score: 138
Period size: 57 Copynumber: 2.4 Consensus size: 56
472607 TAGTTTACTT
* * ** **
472617 TCGCAACACGAAACTTAAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATGAA
1 TCGCAACGCGAAACTGAAAATCGCAAC--GAAAAATGAAAATCGCAACGCGAAAAAAA
472675 TCGCAACGCGAAA-TGAAAATCGCAAC-ACAAAATGAAAATCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTGAAAATCGCAACGA-AAAATGAAAATCGCAACGCGAAA--AAAA
* *
472732 TCGCAACGCAAAACT-ATAATCGC
1 TCGCAACGCGAAACTGAAAATCGC
472755 GTTGCGATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
54 1 0.01
55 21 0.31
57 33 0.49
58 13 0.19
ACGTcount: A:0.46, C:0.25, G:0.16, T:0.13
Consensus pattern (56 bp):
TCGCAACGCGAAACTGAAAATCGCAACGAAAAATGAAAATCGCAACGCGAAAAAAA
Found at i:472753 original size:38 final size:37
Alignment explanation
Indices: 472657--472754 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 37
472647 AAAAATGACT
* * **
472657 ATCGCAACGCGAAAT-GAATCGCAACGCGAAATGAAA
1 ATCGCAACGCAAAATAAAATCGCAACGCGAAACCAAA
*
472693 ATCGCAACACAAAATGAAAATCGCAACGCGAAACCAAA
1 ATCGCAACGCAAAAT-AAAATCGCAACGCGAAACCAAA
*
472731 ATCGCAACGCAAAACTATAATCGC
1 ATCGCAACGCAAAA-TAAAATCGC
472755 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 13 0.25
38 38 0.73
39 1 0.02
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.11
Consensus pattern (37 bp):
ATCGCAACGCAAAATAAAATCGCAACGCGAAACCAAA
Found at i:472773 original size:19 final size:19
Alignment explanation
Indices: 472751--472904 Score: 104
Period size: 19 Copynumber: 8.8 Consensus size: 19
472741 AAAACTATAA
472751 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
472770 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
472784 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
472803 TCACGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
472819 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
472836 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
472850 TCTCGTTACGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
472869 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
472890 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
472905 AAGTTCCAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
14 26 0.25
16 11 0.11
17 11 0.11
19 41 0.40
21 14 0.14
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:472794 original size:14 final size:14
Alignment explanation
Indices: 472775--472862 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 14
472765 TCATTTCGCA
472775 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
472789 TTGCGATTTTCATTTCACG
1 TTGCGA--TTC---TCTCG
*
472808 TTGCGATTCTATCG
1 TTGCGATTCTCTCG
*
472822 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
472841 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
472855 TTACGATT
1 TTGCGATT
472863 TTCATTTCGC
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 26 0.46
16 6 0.11
17 6 0.11
19 19 0.33
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:472796 original size:33 final size:33
Alignment explanation
Indices: 472754--472880 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
472744 ACTATAATCG
*
472754 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
472787 CGTTGCGATTTTCATTTCACGTTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
472820 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
472853 CGTTACGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
472881 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:473317 original size:42 final size:42
Alignment explanation
Indices: 473241--473329 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
473231 GACTCGCCTG
* *
473241 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
* * * * * *
473283 TCATTCCTCGAGAGTCCCCTCCCACCGTTTAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
473325 TCATC
1 TCATC
473330 GTTGAAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTGAAGAGGCCCCTA
Found at i:474710 original size:14 final size:14
Alignment explanation
Indices: 474691--474726 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
474681 ATTGTTTAAT
474691 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
474705 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
474719 TGATTTGT
1 TGATTTGT
474727 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:474857 original size:19 final size:19
Alignment explanation
Indices: 474833--474891 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
474823 AAAAATGACT
474833 ATCGCAATGCGAAAAGAAA
1 ATCGCAATGCGAAAAGAAA
*
474852 ATCGCAA--CG---AGAGA
1 ATCGCAATGCGAAAAGAAA
*
474866 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAAAGAAA
474885 ATCGCAA
1 ATCGCAA
474892 CGATAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 11 0.34
16 2 0.06
17 2 0.06
19 17 0.53
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAAAGAAA
Found at i:474875 original size:33 final size:33
Alignment explanation
Indices: 474833--474912 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
474823 AAAAATGACT
*
474833 ATCGCAATGCGAAAAGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAAGAAAATCGCAACGAGAAA
* *
474866 ATCGCAATGCGAAATGAAAATCGCAACGATAAA
1 ATCGCAATGCGAAAAGAAAATCGCAACGAGAAA
* *
474899 ATCACAACGCGAAA
1 ATCGCAATGCGAAA
474913 CTAAATTCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAAAGAAAATCGCAACGAGAAA
Found at i:474964 original size:33 final size:33
Alignment explanation
Indices: 474922--475088 Score: 190
Period size: 33 Copynumber: 4.8 Consensus size: 33
474912 ACTAAATTCG
*
474922 CGTTGCGATTTTCATTTCGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
474955 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTTT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---TCT
* * * * * *
474993 GAGTTGCGATATTCATATTCGCGTTGTGATTTTCA
1 -CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
*
475028 CGTTGCGATTTTCATTTCGCATTGCGATTCTTT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
475061 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
475089 AGACATTAAG
Statistics
Matches: 111, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
33 68 0.61
34 13 0.12
35 3 0.03
38 3 0.03
39 13 0.12
40 11 0.10
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:475018 original size:20 final size:19
Alignment explanation
Indices: 474918--475089 Score: 95
Period size: 19 Copynumber: 9.7 Consensus size: 19
474908 CGAAACTAAA
*
474918 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
474937 TTCGCTTTGCG--ATTC--
1 TTCGCGTTGCGATATTCAT
* *
474952 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
* *
474970 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATATTCA-T
* *
474990 TTTGAGTTGCGATATTCAT
1 TTCGCGTTGCGATATTCAT
*
475009 ATTCGCGTTGTG--A-T--T
1 -TTCGCGTTGCGATATTCAT
* *
475024 TTCACGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
475043 TTCGCATTGCG--ATTC-T
1 TTCGCGTTGCGATATTCAT
*
475059 TT--CGTTGCGATTTTCAT
1 TTCGCGTTGCGATATTCAT
*
475076 TTCGCATTGCGATA
1 TTCGCGTTGCGATA
475090 GACATTAAGA
Statistics
Matches: 110, Mismatches: 26, Indels: 34
0.65 0.15 0.20
Matches are distributed among these distances:
14 23 0.21
15 1 0.01
16 9 0.08
17 11 0.10
18 1 0.01
19 42 0.38
20 23 0.21
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
TTCGCGTTGCGATATTCAT
Found at i:477666 original size:24 final size:24
Alignment explanation
Indices: 477615--477666 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
477605 ATCTGAGTAT
** *
477615 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
477639 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
477663 TGAC
1 TGAC
477667 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:478586 original size:20 final size:20
Alignment explanation
Indices: 478536--478576 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
478526 AAATCATAAC
478536 GCGATTACGTAAATCGCAAT
1 GCGATTACGTAAATCGCAAT
*
478556 GCGATTACGTAAATCGTAAT
1 GCGATTACGTAAATCGCAAT
478576 G
1 G
478577 TATTTACGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (20 bp):
GCGATTACGTAAATCGCAAT
Found at i:478604 original size:40 final size:41
Alignment explanation
Indices: 478514--478604 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
478504 CAGAATCTCG
478514 TTGCGATTTAC-TAAATCATAACGCGATTACGTAAATCGCA
1 TTGCGATTTACGTAAATCATAACGCGATTACGTAAATCGCA
* * * * *
478554 ATGCGA-TTACGTAAATCGTAATG-TATTTACGT-ATTCGCA
1 TTGCGATTTACGTAAATCATAACGCGA-TTACGTAAATCGCA
478593 TTGCGATTTACG
1 TTGCGATTTACG
478605 GATACACGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
39 16 0.38
40 26 0.62
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (41 bp):
TTGCGATTTACGTAAATCATAACGCGATTACGTAAATCGCA
Found at i:478645 original size:21 final size:20
Alignment explanation
Indices: 478578--478698 Score: 109
Period size: 20 Copynumber: 6.0 Consensus size: 20
478568 ATCGTAATGT
* * *
478578 ATTTACGTATTCGCATTGCG
1 ATTTACGGATACGCGTTGCG
*
478598 ATTTACGGATACACGTTGCG
1 ATTTACGGATACGCGTTGCG
*
478618 ATTTACGGATACGCGTTGTG
1 ATTTACGGATACGCGTTGCG
* * *
478638 ATTTTACGTAT-TGTCGTTGTG
1 A-TTTACGGATACG-CGTTGCG
*
478659 ATTTACGAATACGCGTTGCG
1 ATTTACGGATACGCGTTGCG
* *
478679 ATTTTACAGATACTCGTTGC
1 A-TTTACGGATACGCGTTGC
478699 AGAATCGCGT
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
20 51 0.61
21 32 0.39
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTACGGATACGCGTTGCG
Found at i:478662 original size:61 final size:62
Alignment explanation
Indices: 478579--478697 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
478569 TCGTAATGTA
* *
478579 TTTACGTATTCGCATTGCGATTTACGGATACACGTTGCGA-TTTACGGATACGCGTTGTGAT
1 TTTACGTATTCGCATTGCGATTTACGAATACACGTTGCGATTTTACAGATACGCGTTGTGAT
* * * *
478640 TTTACGTATT-GTCGTTGTGATTTACGAATACGCGTTGCGATTTTACAGATACTCGTTG
1 TTTACGTATTCG-CATTGCGATTTACGAATACACGTTGCGATTTTACAGATACGCGTTG
478698 CAGAATCGCG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 1 0.02
61 34 0.68
62 15 0.30
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.39
Consensus pattern (62 bp):
TTTACGTATTCGCATTGCGATTTACGAATACACGTTGCGATTTTACAGATACGCGTTGTGAT
Found at i:478696 original size:41 final size:40
Alignment explanation
Indices: 478578--478698 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
478568 ATCGTAATGT
* * * *
478578 ATTTACGTATTCGCATTGCGA-TTTACGGATACACGTTGCG
1 ATTTACGAATACGCGTTGCGATTTTAC-GATACTCGTTGCG
* * ** *
478618 ATTTACGGATACGCGTTGTGATTTTACGTATTGTCGTTGTG
1 ATTTACGAATACGCGTTGCGATTTTACG-ATACTCGTTGCG
478659 ATTTACGAATACGCGTTGCGATTTTACAGATACTCGTTGC
1 ATTTACGAATACGCGTTGCGATTTTAC-GATACTCGTTGC
478699 AGAATCGCGT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
40 18 0.28
41 46 0.71
42 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (40 bp):
ATTTACGAATACGCGTTGCGATTTTACGATACTCGTTGCG
Found at i:478727 original size:20 final size:20
Alignment explanation
Indices: 478702--478755 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
478692 TCGTTGCAGA
478702 ATCGCGTTGCGATTTGTACT
1 ATCGCGTTGCGATTTGTACT
478722 ATCGCGTTGCGATTTGTACT
1 ATCGCGTTGCGATTTGTACT
478742 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
478756 CTTGATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
ATCGCGTTGCGATTTGTACT
Found at i:478811 original size:20 final size:21
Alignment explanation
Indices: 478702--478815 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 21
478692 TCGTTGCAGA
* *
478702 ATCGCGTTGCGATT-TGTACT
1 ATCGCGTTGCGATTCTGGACG
* *
478722 ATCGCGTTGCGATT-TGTACT
1 ATCGCGTTGCGATTCTGGACG
* **
478742 ATCGCGTTGCGATTCTTGATA
1 ATCGCGTTGCGATTCTGGACG
*
478763 AT-GCGTTGCAATTCTGG--G
1 ATCGCGTTGCGATTCTGGACG
* **
478781 AACTGATTTGCGATTCTGGA-G
1 ATC-GCGTTGCGATTCTGGACG
478802 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
478816 TTTATTTCGG
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
18 1 0.01
20 68 0.89
21 7 0.09
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (21 bp):
ATCGCGTTGCGATTCTGGACG
Found at i:480994 original size:25 final size:25
Alignment explanation
Indices: 480947--480995 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
480937 TAAATTAGAA
* *
480947 CATATAAAATAGTTGTGGTTCAGGG
1 CATATAAAATAGTCGTGATTCAGGG
480972 CATATAAAATAGTCGT-ATATCAGG
1 CATATAAAATAGTCGTGAT-TCAGG
480996 CAAGGAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (25 bp):
CATATAAAATAGTCGTGATTCAGGG
Found at i:483863 original size:16 final size:16
Alignment explanation
Indices: 483844--483875 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
483834 TTTTGATGAT
*
483844 TTTTATTTTTTTTAAA
1 TTTTATTATTTTTAAA
483860 TTTTATTATTTTTAAA
1 TTTTATTATTTTTAAA
483876 ATTAGCCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTATTTTTAAA
Found at i:484086 original size:3 final size:3
Alignment explanation
Indices: 484062--484117 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
484052 TGTCCATTTC
*
484062 TAT TAT TAAT TA- TAT ATGT TAT TAT TAT TA- TAT ATAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
484108 TAA TAT TAT T
1 TAT TAT TAT T
484118 GTTAATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 4 0.09
3 32 0.73
4 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:484099 original size:15 final size:15
Alignment explanation
Indices: 484062--484117 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
484052 TGTCCATTTC
484062 TATTATTAATTATATA
1 TATTATT-ATTATATA
484078 TGTTATTATTATTATATA
1 ---TATTATTATTATATA
484096 TATTATTATTAT-TAA
1 TATTATTATTATAT-A
484111 TATTATT
1 TATTATT
484118 GTTAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.03
15 20 0.56
18 8 0.22
19 7 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATTATTATATA
Found at i:484117 original size:18 final size:18
Alignment explanation
Indices: 484062--484113 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
484052 TGTCCATTTC
*
484062 TATTATTAATTATATATGT
1 TATTATT-ATTATATATAT
484081 TATTATTATTATATATAT
1 TATTATTATTATATATAT
484099 TATTATTATTA-ATAT
1 TATTATTATTATATAT
484114 TATTGTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 4 0.12
18 21 0.66
19 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTATTATATATAT
Found at i:485222 original size:31 final size:31
Alignment explanation
Indices: 485187--485407 Score: 399
Period size: 31 Copynumber: 7.2 Consensus size: 31
485177 GGTCACAATA
485187 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
485218 TAAACTGTTCATATGTG-CTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
485248 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
485279 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
485310 TAAACTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
485341 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
485372 TAAATTATTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
485403 TAAAC
1 TAAAC
485408 CCTCGACTCT
Statistics
Matches: 182, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
30 29 0.16
31 153 0.84
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:486171 original size:64 final size:64
Alignment explanation
Indices: 486063--486239 Score: 169
Period size: 64 Copynumber: 2.8 Consensus size: 64
486053 TTATGAAGGT
* ** ** ** * * **
486063 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGAG
1 ATGCATCGATGCACTACTTATGCATCAATGCACGAATTGCATTCGATGT-GTCACTATTAATGAG
* * * * *
486127 TTGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCAATGCA-CGAATTGCATTCGATGTGTCACTATTAATGAG
*
486191 ATGCATCGATGCACTACTTATGCATCAATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCAATGCACGAATTGCATTCGATGT
486240 CTTTATTTTA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
63 2 0.02
64 90 0.98
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCAATGCACGAATTGCATTCGATGTGTCACTATTAATGAG
Found at i:486260 original size:64 final size:64
Alignment explanation
Indices: 486128--486280 Score: 177
Period size: 64 Copynumber: 2.4 Consensus size: 64
486118 ATTGCTGAGT
* * * *
486128 TGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGGA
1 TGCATCGATGCACTACTTATGCATCAATGCACCGATTGCATTCGATGTTTCACTATTAAAGAGA
* * *
486192 TGCATCGATGCACTACTTATGCATCAATGCA-TGAATTGCATTCGATGTCTTTA-TTTTAAA-AG
1 TGCATCGATGCACTACTTATGCATCAATGCACCG-ATTGCATTCGATGT-TTCACTATTAAAGAG
486254 A
64 A
**
486255 GTGCATCGATGCACTACCAATGCATC
1 -TGCATCGATGCACTACTTATGCATC
486281 GGTGCACATT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
63 3 0.04
64 71 0.92
65 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (64 bp):
TGCATCGATGCACTACTTATGCATCAATGCACCGATTGCATTCGATGTTTCACTATTAAAGAGA
Found at i:489012 original size:31 final size:31
Alignment explanation
Indices: 488977--489198 Score: 399
Period size: 31 Copynumber: 7.2 Consensus size: 31
488967 GGTCACAATA
* *
488977 TAAACTATTCATATGTACCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
489008 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
489039 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
489070 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
489101 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
489132 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
489163 TAAAATGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
489194 TAAAC
1 TAAAC
489199 CCTCGACTCT
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 183 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:489084 original size:15 final size:15
Alignment explanation
Indices: 489064--489147 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
489054 TGCCTTTAAA
489064 CATATGTAAACTGTT
1 CATATGTAAACTGTT
**
489079 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
489092 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
**
489110 CATATGT-GCCT-TT
1 CATATGTAAACTGTT
489123 AAACATATGTAAACTGTT
1 ---CATATGTAAACTGTT
489141 CATATGT
1 CATATGT
489148 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (15 bp):
CATATGTAAACTGTT
Found at i:489964 original size:64 final size:64
Alignment explanation
Indices: 489896--490032 Score: 161
Period size: 64 Copynumber: 2.1 Consensus size: 64
489886 CATAAAAGGT
* ** * *
489896 ATTCGATGTAGTATTATTGCT-GAGATACATCGATGCACTCCTTATGCATCGATGCACCG-ATTG
1 ATTCGATGTAGTACTATTAATAG-GATACATCGATGCACTACTTATGCATCGATG-AACGAATTG
489959 C
64 C
** * *
489960 ATTCGATGTTTTACTATTAATAGGATGCATCGATGCACTACTTATGCATCGATGAATGAATTGC
1 ATTCGATGTAGTACTATTAATAGGATACATCGATGCACTACTTATGCATCGATGAACGAATTGC
490024 ATTCGATGT
1 ATTCGATGT
490033 CTTTATTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.03
64 59 0.95
65 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (64 bp):
ATTCGATGTAGTACTATTAATAGGATACATCGATGCACTACTTATGCATCGATGAACGAATTGC
Found at i:490053 original size:64 final size:64
Alignment explanation
Indices: 489923--490079 Score: 194
Period size: 64 Copynumber: 2.5 Consensus size: 64
489913 TGCTGAGATA
* * *
489923 CATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTTACTATTAATAGGATG
1 CATCGATGCACTACTTATGCATCGATGCAACGATTGCATTCGATGTTTTACTATTAAAAGGATG
* *
489987 CATCGATGCACTACTTATGCATCGATG-AATGAATTGCATTCGATGTCTTTA-TTTTAAAA-GAG
1 CATCGATGCACTACTTATGCATCGATGCAACG-ATTGCATTCGATGT-TTTACTATTAAAAGGA-
490049 TG
63 TG
** *
490051 CATCGATGCACTACCAATGCATCGGTGCA
1 CATCGATGCACTACTTATGCATCGATGCA
490080 CATTCAAACA
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 72 0.89
65 5 0.06
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (64 bp):
CATCGATGCACTACTTATGCATCGATGCAACGATTGCATTCGATGTTTTACTATTAAAAGGATG
Found at i:492806 original size:31 final size:31
Alignment explanation
Indices: 492771--492992 Score: 408
Period size: 31 Copynumber: 7.2 Consensus size: 31
492761 GGTCACAATA
492771 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
492802 TAAACTGTTCATATATGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
492833 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
492864 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
492895 TAAACTATTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
492926 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
492957 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
492988 TAAAC
1 TAAAC
492993 CCTCGACTCT
Statistics
Matches: 183, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 183 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:493781 original size:64 final size:65
Alignment explanation
Indices: 493713--493854 Score: 157
Period size: 64 Copynumber: 2.2 Consensus size: 65
493703 TATTGCTGAG
* *
493713 ATGCATCGATGCACCG-ATTGCATTCGATGT-TTCACTATT-AATGGGATGCATCGATGCACTAC
1 ATGCATCGATGCACCGAATTGCATTCGATGTCTTCA-TATTAAAAGAG-TGCATCGATGCACTAC
**
493775 TT
64 CA
* * * *
493777 ATGCATTGATGCA-TGAATTGCATTCGATGTCTTTATTTTAAAAGAGTGCATCGATGCACTACCA
1 ATGCATCGATGCACCGAATTGCATTCGATGTCTTCATATTAAAAGAGTGCATCGATGCACTACCA
*
493841 ATGCATCGGTGCAC
1 ATGCATCGATGCAC
493855 ATTCAAACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
63 1 0.02
64 56 0.88
65 7 0.11
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (65 bp):
ATGCATCGATGCACCGAATTGCATTCGATGTCTTCATATTAAAAGAGTGCATCGATGCACTACCA
Found at i:496515 original size:31 final size:31
Alignment explanation
Indices: 496480--496670 Score: 364
Period size: 31 Copynumber: 6.2 Consensus size: 31
496470 GGTCACAATA
496480 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
496511 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
496542 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
496573 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
496604 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
496635 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
496666 TAAAC
1 TAAAC
496671 CCTCGACTCT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:497436 original size:64 final size:64
Alignment explanation
Indices: 497331--497504 Score: 181
Period size: 64 Copynumber: 2.7 Consensus size: 64
497321 TGAAGGTATG
* * ** ** * * **
497331 CATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-ATTATTGCTGAGATA
1 CATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-GTCACTATTAATGAGATA
* * * *
497395 CATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGGATG
1 CATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTGTCACTATTAATGAGATA
*
497459 CATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 CATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
497505 CTTTATTTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 89 0.98
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
CATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTGTCACTATTAATGAGATA
Found at i:507165 original size:42 final size:41
Alignment explanation
Indices: 507093--507186 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
507083 CACAAATTTG
* * *
507093 TAAATCCTT-GGGTTATCTGTCAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG-A
* **
507134 TAAATCCTTCGGGTCATTTGTTGGTCTTTCGAGCAAGATGA
1 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGA
*
507175 TAAGTCCTTCGG
1 TAAATCCTTCGG
507187 CCATCCGTCA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (41 bp):
TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGA
Found at i:507410 original size:43 final size:42
Alignment explanation
Indices: 507341--507423 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
507331 CACAAATTTG
*
507341 TAAATCCTTCGGGTCATATGTCAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATATGTCAGTCTTTCGAGCAAGATGCT
* * *
507383 TAAATCCTTTGGGGTCATCTGTTAGTCTTTCGAGCAAGATG
1 TAAATCC-TTCGGGTCATATGTCAGTCTTTCGAGCAAGATG
507424 ATAAGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATATGTCAGTCTTTCGAGCAAGATGCT
Done.