Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 92 of 295
Found at i:27097604 original size:96 final size:96
Alignment explanation
Indices: 27097440--27097621 Score: 310
Period size: 96 Copynumber: 1.9 Consensus size: 96
27097430 TAAGATGCTC
* * *
27097440 ATGCCATGTCCTAAACATGGTCTTACACTAGCTCTCGTAATAAAGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAACA
27097505 TGGTCTTACACTGGCTCACATATTGAGGCCG
66 TGGTCTTACACTGGCTCACATATTGAGGCCG
* *
27097536 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAACA
*
27097601 TGGTCTTACATTGGCTCACAT
66 TGGTCTTACACTGGCTCACAT
27097622 GTACCCTAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAACAAAGCCGATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATTGAGGCCG
Found at i:27101746 original size:24 final size:24
Alignment explanation
Indices: 27101719--27101770 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
27101709 TTTTATATAA
27101719 TTAATTTAATATGGATTAATATTT
1 TTAATTTAATATGGATTAATATTT
27101743 TTAATTTAATATGGATTAATATTT
1 TTAATTTAATATGGATTAATATTT
27101767 TTAA
1 TTAA
27101771 CATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (24 bp):
TTAATTTAATATGGATTAATATTT
Found at i:27101998 original size:27 final size:27
Alignment explanation
Indices: 27101955--27102008 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27101945 TAAATATTTG
* *
27101955 CAAACTTGAGAGTTTTTAATTTCACAA
1 CAAACTTGAAAGCTTTTAATTTCACAA
* *
27101982 CAAACTTGAAAGCTTTTATTTTTACAA
1 CAAACTTGAAAGCTTTTAATTTCACAA
27102009 AATTTAAAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (27 bp):
CAAACTTGAAAGCTTTTAATTTCACAA
Found at i:27109366 original size:47 final size:44
Alignment explanation
Indices: 27109257--27109522 Score: 182
Period size: 47 Copynumber: 5.8 Consensus size: 44
27109247 ATATACGCGT
* *
27109257 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTATTA
* * *
27109301 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATC-TCTATTAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGC-A-CAACTATT-A
* * *
27109347 GGCTGATGCATGTCTCAGACATGTCTTACACTGGCACTCATCTCTGT-
1 -GCTGATGCATGTCCCAGACATGTCTTACACTGGCA--CAACTAT-TA
* * *
27109394 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATAGC-A-TG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGC-A-CA-A-CTATTA
* * * * *
27109442 GATGATGCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGTG
1 GCTGATGCATGTCCCAGACAT-GTCTTACACTGGCACAAC-T-AT-TA
* *
27109489 GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGC
27109523 GCACAAATCA
Statistics
Matches: 182, Mismatches: 22, Indels: 34
0.76 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
44 31 0.17
45 7 0.04
46 21 0.12
47 95 0.52
48 24 0.13
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTATTA
Found at i:27109451 original size:94 final size:95
Alignment explanation
Indices: 27109209--27109522 Score: 367
Period size: 94 Copynumber: 3.3 Consensus size: 95
27109199 GATATATTGT
* *
27109209 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGT-GCTGATGCATGTCCCA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-TATA-GCATGGCTGATGCATGTCCCA
*
27109273 GACATGTCTTACACTAGCA--CAACTCT-TAGC
63 GACATGTCTTACACTAGCACTCATCTCTGTAGC
* * ** * *
27109303 CGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCTCTATTAAGGCTGATGCATGTCTCAGAC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
*
27109367 ATGTCTTACACTGGCACTCATCTCTGT-GC
66 ATGTCTTACACTAGCACTCATCTCTGTAGC
* *
27109396 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-ATAGCATGGATGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGA
* ** *
27109460 CATGGTCTTACACTAGCTCTCAT-AATGTGGC
65 CAT-GTCTTACACTAGCACTCATCTCTGTAGC
*
27109491 CGAAGCATGTCCCAGACAT-GTCTTACACTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
27109523 GCACAAATCA
Statistics
Matches: 188, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
91 36 0.19
92 16 0.09
93 38 0.20
94 59 0.31
95 39 0.21
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (95 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTATAGCATGGCTGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCATCTCTGTAGC
Found at i:27109509 original size:141 final size:138
Alignment explanation
Indices: 27109215--27109522 Score: 354
Period size: 141 Copynumber: 2.2 Consensus size: 138
27109205 TTGTCGATGC
* *
27109215 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGT
* * * * *
27109280 CTTACACTAGCACAACTCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCTCTATT
65 CTTACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTAGC-ATCTCTAAT
* *
27109345 AAGGCTGATG
129 AAGGCCGAAG
* * *
27109355 CATGTCTCAGACATGTCTTACACTGGCACTCATCT-C-TGTGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATG-CATGTCCCAGACAT-G
* * *
27109418 TCTTACACTAGCTATCATA-GCATGGATGATGCATGTCCCAGACATGGTCTTACACTAGC-TCTC
64 TCTTACACTAGC-A-CA-ACGCATAGACGATGCATGTCCCAGACA-CGTCTTACACTAGCATCTC
**
27109481 ATAATGTGGCCGAAG
125 -TAATAAGGCCGAAG
27109496 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
27109523 GCACAAATCA
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
137 8 0.06
138 15 0.10
139 32 0.22
140 18 0.13
141 57 0.40
142 13 0.09
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (138 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATACGCGTGCCGATGCATGTCCCAGACATGTC
TTACACTAGCACAACGCATAGACGATGCATGTCCCAGACACGTCTTACACTAGCATCTCTAATAA
GGCCGAAG
Found at i:27109894 original size:30 final size:30
Alignment explanation
Indices: 27109853--27109910 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27109843 AAATTTACAT
* *
27109853 CTTTGGTAAAATAACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
27109883 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
27109911 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:27113582 original size:9 final size:9
Alignment explanation
Indices: 27113570--27113616 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
27113560 AAAAATATGG
*
27113570 AAAAGTGTA
1 AAAAGTATA
*
27113579 AAAATTATA
1 AAAAGTATA
27113588 AAAAGTATA
1 AAAAGTATA
27113597 AAAA-TATA
1 AAAAGTATA
*
27113605 TAAAAGTTTA
1 -AAAAGTATA
27113615 AA
1 AA
27113617 TTCTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 4 0.12
9 25 0.78
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AAAAGTATA
Found at i:27113582 original size:18 final size:17
Alignment explanation
Indices: 27113559--27113616 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
27113549 TATTAAAAAT
* *
27113559 TAAAAATATGGAAAAGTG
1 TAAAAATAT-AAAAAGTA
27113577 TAAAAATTATAAAAAGTA
1 TAAAAA-TATAAAAAGTA
*
27113595 TAAAAATATATAAAAGTT
1 TAAAAATATA-AAAAGTA
27113613 TAAA
1 TAAA
27113617 TTCTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.11
18 28 0.80
19 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (17 bp):
TAAAAATATAAAAAGTA
Found at i:27113591 original size:10 final size:9
Alignment explanation
Indices: 27113498--27113609 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
27113488 AAAAGGTTAA
27113498 AAAAATTAT
1 AAAAATTAT
*
27113507 -AGAATTGAT
1 AAAAATT-AT
*
27113516 AGAAAATCAT
1 A-AAAATTAT
*
27113526 AAAAATTAC
1 AAAAATTAT
*
27113535 AAATA-TAT
1 AAAAATTAT
* *
27113543 ATAATTTATT
1 AAAAATTA-T
27113553 AAAAA-T-T
1 AAAAATTAT
27113560 AAAAA-TAT
1 AAAAATTAT
* * *
27113568 GGAAAAGTGT
1 -AAAAATTAT
27113578 AAAAATTAT
1 AAAAATTAT
*
27113587 AAAAAGTAT
1 AAAAATTAT
27113596 AAAAATATAT
1 AAAAAT-TAT
27113606 AAAA
1 AAAA
27113610 GTTTAAATTC
Statistics
Matches: 75, Mismatches: 19, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
7 7 0.09
8 10 0.13
9 38 0.51
10 16 0.21
11 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:27114261 original size:19 final size:18
Alignment explanation
Indices: 27114237--27114281 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
27114227 CATCTACAGT
27114237 AAAAAAAAACTGAAAAT-TG
1 AAAAAAAAACTG--AATCTG
*
27114256 AAAAAAAAATTGAATCTG
1 AAAAAAAAACTGAATCTG
27114274 AAAAAAAA
1 AAAAAAAA
27114282 TTGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 10 0.42
19 11 0.46
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (18 bp):
AAAAAAAAACTGAATCTG
Found at i:27117632 original size:64 final size:63
Alignment explanation
Indices: 27117511--27117667 Score: 287
Period size: 64 Copynumber: 2.5 Consensus size: 63
27117501 AATTGAGCTT
*
27117511 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCTAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
27117574 ATGTTGTAATGTATTTAATTTATATAAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
1 ATGTTGTAATGTATTTAATTTATAT-AAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
*
27117638 ATGTTGTAATGTATTTAATTTATATTAAAA
1 ATGTTGTAATGTATTTAATTTATATAAAAA
27117668 GACTAAATTT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 29 0.32
64 62 0.68
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (63 bp):
ATGTTGTAATGTATTTAATTTATATAAAAAAATTATATTGCAAAGTTTGTTCCAATTAGATTA
Found at i:27118249 original size:72 final size:72
Alignment explanation
Indices: 27118163--27118302 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
27118153 ATCCGCCCCC
* * *
27118163 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCTAAATGATAATAAGTATCAGCTGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
27118228 AATGCGA
66 AATGCGA
** * * * **
27118235 TGACGAGCCCGAGAAATTTTCATTGCTCTGTAAATCCGGATGATAAGAAGTATCAGCCGAATGTG
1 TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
27118300 AAT
66 AAT
27118303 ATGATCGCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (72 bp):
TGACGAGCCCGAGAAATAGTCATTGCCCGGCAAATCCAAATGATAAGAAGTATCAGCCGAATGTG
AATGCGA
Found at i:27120634 original size:152 final size:152
Alignment explanation
Indices: 27120402--27121407 Score: 1473
Period size: 151 Copynumber: 6.6 Consensus size: 152
27120392 TTTTTTTATT
* * * *
27120402 CCGTGATTTTGGCCTTTTGTTTGTATTTTTAAATTTTTTGGATTTTTATTTTTTAAAATATACTG
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTA
* *
27120467 TTTTCATATTTTATTTTTTATATTAATTTAGTAAATAATGTTTCAAATGTATTATTTTCGTGTTT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
27120532 TTTTATATTAATTTAGTAAATAA
130 TTTTATATTAATTTAGTAAATAA
*
27120555 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * * *
27120620 TTTCATATTTTATTTTTTAATACTATTTTAGTATATAATTTTTAAAATGTATTATTTTCGTGTTT
66 TTTCATATTTTATTTTTT-ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
27120685 TTTTATATTAATTTAGTAAATAA
130 TTTTATATTAATTTAGTAAATAA
* *
27120708 CCGTGATTTTAGCCCTTTGTTTGTATTTTTAAAA-TTTCTGGATTTTATTTATTTTTTAAAGTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTC-GGA---T-TTTATTTTTTAAAATAT
* *
27120772 ACTATTTTCATATTTTATTTTTTATACTATTTTTGTACATAATGTTTCAAATGTATTATTTTCGT
61 ACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT
*
27120837 GTTTCTTTATATTAATTTAGTAAATAA
126 GTTTTTTTATATTAATTTAGTAAATAA
* * *
27120864 CCGTGATTTTAGCCCTTTGTTTGTATCTTTAAAATTTTCAGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * *
27120929 TTTCGTATTTTATTTTTTATATTACTTTAGTACATAATGTTTCTAATGTATTATTTTCGTG-TTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27120993 TTTATATTAATTTAGTAAATAA
131 TTTATATTAATTTAGTAAATAA
* * * *
27121015 ACGTGATTTTGGCCATTTGGTTGTATTTTTAAAAATTTT-GGATTTTACTTTTTAAAATATACTA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTT-AAAATTTTCGGATTTTATTTTTTAAAATATACTA
*
27121079 TTTTCGTATTTTATTTTTTTATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCGTGGG
65 TTTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT--G
* *
27121142 GTTTTATATATT--TTTAGTAAATAA
127 TTTTTTTATATTAATTTAGTAAATAA
*
27121166 CCGTGATTTTGGCCCTTTGTTTGTACTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTA-
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * *
27121230 TTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTGTTTTCGT-ATTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
27121294 TTTATATTAATTTAGTAAATAA
131 TTTATATTAATTTAGTAAATAA
* * * *
27121316 ACAT-ATTTTGGGCCTTTGTTTGTATTTTTAAAATTTTCTGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
*
27121380 TTTC---TTAT-TTTTTTATATTATTTTAGTA
66 TTTCATATTTTATTTTTTATATTATTTTAGTA
27121408 AAAAAAACTC
Statistics
Matches: 785, Mismatches: 50, Indels: 43
0.89 0.06 0.05
Matches are distributed among these distances:
146 20 0.03
147 3 0.00
148 10 0.01
149 77 0.10
150 62 0.08
151 171 0.22
152 150 0.19
153 149 0.19
156 100 0.13
157 43 0.05
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (152 bp):
CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
TTTATATTAATTTAGTAAATAA
Found at i:27120660 original size:26 final size:26
Alignment explanation
Indices: 27120613--27120662 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
27120603 TTTTTAAAAT
* *
27120613 ATACTATTTTCATATTTTATTTTTTA
1 ATACTATTTTCATATATAATTTTTTA
27120639 ATACTATTTT-AGTATATAATTTTT
1 ATACTATTTTCA-TATATAATTTTT
27120663 AAAATGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (26 bp):
ATACTATTTTCATATATAATTTTTTA
Found at i:27120854 original size:309 final size:302
Alignment explanation
Indices: 27120403--27121407 Score: 1494
Period size: 309 Copynumber: 3.3 Consensus size: 302
27120393 TTTTTTATTC
* * * *
27120403 CGTGATTTTGGCCTTTTGTTTGTATTTTTAAATTTTTTGGATTTTTATTTTTTAAAATATACTGT
1 CGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTCTGGA-TTTTATTTTTTAAAATATACTAT
* *
27120468 TTTCATATTTTATTTTTTATATTAATTTAGTAAATAATGTTTCAAATGTATTATTTTCGTGTTTT
65 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG-TTT
*
27120533 TTTATATTAATTTAGTAAATAACCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGAT
129 TTTATATTAATTTAGTAAATAACCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGAT
* * * *
27120598 TTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTAATACTATTTTAGTATATAATTTTT
194 TTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTT-ATATTATTTTAGTACATAATGTTT
* *
27120663 AAAATGTATTATTTTCGTGTTTTTTTATATTAATTTAGTAAATAAC
258 CAAATGTATTATTTTCGTG-TTTTTTATATTAATTTAGTAAATAAA
* *
27120709 CGTGATTTTAGCCCTTTGTTTGTATTTTTAAAATTTCTGGATTTTATTTATTTTTTAAAGTATAC
1 CGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTCTGGA---T-TTTATTTTTTAAAATATAC
* *
27120774 TATTTTCATATTTTATTTTTTATACTATTTTTGTACATAATGTTTCAAATGTATTATTTTCGTGT
62 TATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGT
* * *
27120839 TTCTTTATATTAATTTAGTAAATAACCGTGATTTTAGCCCTTTGTTTGTATCTTTAAAATTTTCA
127 TT-TTTATATTAATTTAGTAAATAACCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCG
*
27120904 GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTACTTTAGTACATAATGT
191 GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGT
*
27120969 TTCTAATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
256 TTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
* * *
27121016 CGTGATTTTGGCCATTTGGTTGTATTTTTAAAAATTT-TGGATTTTACTTTTTAAAATATACTAT
1 CGTGATTTTGGCCCTTTGTTTGTATTTTT-AAAATTTCTGGATTTTATTTTTTAAAATATACTAT
*
27121080 TTTCGTATTTTATTTTTTTATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCGTGGGG
65 TTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGT---G
* *
27121143 TTTTATATATT--TTTAGTAAATAACCGTGATTTTGGCCCTTTGTTTGTACTTTTAAAATTTTCG
126 TTTTTTATATTAATTTAGTAAATAACCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCG
27121206 GATTTTATTTTTTAAAATATACTA-TTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGT
191 GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGT
* *
27121270 TTCAAATGTATTGTTTTCGTATTTTTTATATTAATTTAGTAAATAAA
256 TTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
* *
27121317 CAT-ATTTTGGGCCTTTGTTTGTATTTTTAAAATTTTCT-GATTTTATTTTTTAAAATATACTAT
1 CGTGATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTCTGGATTTTATTTTTTAAAATATACTAT
*
27121380 TTTC---TTAT-TTTTTTATATTATTTTAGTA
65 TTTCATATTTTATTTTTTATATTATTTTAGTA
27121408 AAAAAAACTC
Statistics
Matches: 643, Mismatches: 45, Indels: 33
0.89 0.06 0.05
Matches are distributed among these distances:
295 20 0.03
297 3 0.00
299 4 0.01
300 53 0.08
301 86 0.13
302 97 0.15
303 31 0.05
304 27 0.04
305 4 0.01
306 37 0.06
307 55 0.09
308 49 0.08
309 177 0.28
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (302 bp):
CGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTCTGGATTTTATTTTTTAAAATATACTATT
TTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTT
TATATTAATTTAGTAAATAACCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTT
TATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
ATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
Found at i:27121381 original size:22 final size:23
Alignment explanation
Indices: 27121340--27121382 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27121330 TTTGTTTGTA
* *
27121340 TTTTTAAAATTTTCTGATTTTAT
1 TTTTTAAAATATACTGATTTTAT
27121363 TTTTTAAAATATACT-ATTTT
1 TTTTTAAAATATACTGATTTT
27121383 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTTAAAATATACTGATTTTAT
Found at i:27123544 original size:28 final size:30
Alignment explanation
Indices: 27123489--27123542 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
27123479 TAAAAAATAA
27123489 AAAATATGAAAAACAAACTCTTTAAAATTC
1 AAAATATGAAAAACAAACTCTTTAAAATTC
*
27123519 AAAATAT-AAAAATAAA-T-TTTAAAA
1 AAAATATGAAAAACAAACTCTTTAAAA
27123543 ATATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 7 0.30
28 1 0.04
29 8 0.35
30 7 0.30
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (30 bp):
AAAATATGAAAAACAAACTCTTTAAAATTC
Found at i:27131648 original size:11 final size:11
Alignment explanation
Indices: 27131632--27131658 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27131622 TAGAAATTAG
27131632 TTTGTGAAACT
1 TTTGTGAAACT
27131643 TTTGTGAAACT
1 TTTGTGAAACT
27131654 TTTGT
1 TTTGT
27131659 ATTTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:27133194 original size:92 final size:92
Alignment explanation
Indices: 27133057--27133250 Score: 277
Period size: 92 Copynumber: 2.1 Consensus size: 92
27133047 TTGATTTTAG
* * *
27133057 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGGAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
27133121 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
27133148 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
27133213 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
27133241 CAAATTCATA
1 TAAATTCATA
27133251 AACTATAATC
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
91 17 0.18
92 42 0.46
93 30 0.33
94 3 0.03
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:27133298 original size:48 final size:52
Alignment explanation
Indices: 27133228--27133326 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
27133218 AATAATTATT
27133228 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
27133276 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
27133327 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:27133308 original size:17 final size:17
Alignment explanation
Indices: 27133283--27133316 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27133273 ATAATTTTAA
*
27133283 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
27133300 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
27133317 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:27133333 original size:17 final size:16
Alignment explanation
Indices: 27133288--27133335 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
27133278 TTTAAATTTT
27133288 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
27133305 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
27133319 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
27133336 TAATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:27133423 original size:16 final size:17
Alignment explanation
Indices: 27133385--27133424 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
27133375 AATTTTATTA
27133385 AATAA-TATATTTTAAT
1 AATAATTATATTTTAAT
*
27133401 TAT-ATTATA-TTTAAT
1 AATAATTATATTTTAAT
27133416 AATAATTAT
1 AATAATTAT
27133425 GTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTATATTTTAAT
Found at i:27133529 original size:18 final size:17
Alignment explanation
Indices: 27133501--27133535 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27133491 ATTATTAAGA
*
27133501 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27133518 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27133536 TTATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27133535 original size:16 final size:17
Alignment explanation
Indices: 27133501--27133542 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27133491 ATTATTAAGA
27133501 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
27133518 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
27133534 ATTTATAAT
1 ATTT-TAAT
27133543 AATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:27133644 original size:143 final size:147
Alignment explanation
Indices: 27133489--27133759 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
27133479 ATAAGAATAT
*
27133489 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
27133553 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
27133615 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
27133632 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
27133697 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
27133760 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 48 0.40
144 42 0.35
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:27133672 original size:18 final size:17
Alignment explanation
Indices: 27133644--27133678 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27133634 ATTATTAAGA
*
27133644 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27133661 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27133679 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27133889 original size:44 final size:45
Alignment explanation
Indices: 27133840--27133934 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
27133830 TTACACCTCT
* *
27133840 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
27133884 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
27133929 ATTACA
1 ATTACA
27133935 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:27133934 original size:16 final size:16
Alignment explanation
Indices: 27133913--27133945 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27133903 TTGATTTGCT
*
27133913 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
27133929 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
27133945 A
1 A
27133946 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27133955 original size:21 final size:21
Alignment explanation
Indices: 27133926--27133968 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
27133916 ACACCTCTAT
*
27133926 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
27133947 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
27133968 T
1 T
27133969 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:27135529 original size:22 final size:22
Alignment explanation
Indices: 27135500--27135551 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
27135490 ATTGTTTAAT
*
27135500 TAGGGTTTAAGGTTTATTAAAG
1 TAGGGTTTAAGGTTAATTAAAG
* * *
27135522 TATGGTTTATGGTTAATTAAAT
1 TAGGGTTTAAGGTTAATTAAAG
27135544 TAGGGTTT
1 TAGGGTTT
27135552 TATTATTGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (22 bp):
TAGGGTTTAAGGTTAATTAAAG
Found at i:27144793 original size:13 final size:13
Alignment explanation
Indices: 27144775--27144800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27144765 TACCATCCAT
27144775 ACCAAAACAATCA
1 ACCAAAACAATCA
27144788 ACCAAAACAATCA
1 ACCAAAACAATCA
27144801 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:27149536 original size:17 final size:18
Alignment explanation
Indices: 27149513--27149547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27149503 AGTTTTGTGA
*
27149513 TTTTTTGACTCTTTGGTC
1 TTTTTGGACTCTTTGGTC
*
27149531 TTTTTGGACTGTTTGGT
1 TTTTTGGACTCTTTGGT
27149548 TTGAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.11, G:0.23, T:0.60
Consensus pattern (18 bp):
TTTTTGGACTCTTTGGTC
Found at i:27151761 original size:3 final size:3
Alignment explanation
Indices: 27151753--27151782 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
27151743 CCTCTGAAAT
27151753 TTC TTC TTC TTC TTC TTC TTC TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
27151783 TTTTTTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:27153200 original size:27 final size:28
Alignment explanation
Indices: 27153160--27153215 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
27153150 ACTTTTAGTG
* *
27153160 TCTAAATTATCCCTAGTAATTTTTTATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
* *
27153188 TCTAAAATA-CCCTATTGATTTTTAATA
1 TCTAAAATATCCCTAGTAATTTTTAATA
27153215 T
1 T
27153216 TACCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (28 bp):
TCTAAAATATCCCTAGTAATTTTTAATA
Found at i:27153265 original size:4 final size:4
Alignment explanation
Indices: 27153256--27153308 Score: 97
Period size: 4 Copynumber: 13.2 Consensus size: 4
27153246 GGAACTAGTT
*
27153256 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAA ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
27153304 ATAG A
1 ATAG A
27153309 GAAAAAGATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:27153317 original size:16 final size:16
Alignment explanation
Indices: 27153256--27153319 Score: 92
Period size: 16 Copynumber: 4.0 Consensus size: 16
27153246 GGAACTAGTT
*
27153256 ATAGATAGATAGATAG
1 ATAGATAAATAGATAG
*
27153272 ATAGATAGATAGATAG
1 ATAGATAAATAGATAG
27153288 ATAGATAAATAGATAG
1 ATAGATAAATAGATAG
* *
27153304 ATAGAGAAAAAGATAG
1 ATAGATAAATAGATAG
27153320 GGTAAATTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.22
Consensus pattern (16 bp):
ATAGATAAATAGATAG
Found at i:27153389 original size:39 final size:41
Alignment explanation
Indices: 27153320--27153403 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 41
27153310 AAAAAGATAG
27153320 GGTAAATTAGGGAAAAAAAAGTAAAAAAAAAATGGCAAAGTA
1 GGTAAATTAGGG-AAAAAAAGTAAAAAAAAAATGGCAAAGTA
**
27153362 GGTAAATTAGGG-AAAAAAGT-CGAAAAAAATGGCAAAGTA
1 GGTAAATTAGGGAAAAAAAGTAAAAAAAAAATGGCAAAGTA
27153401 GGT
1 GGT
27153404 CGCTTTTTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 20 0.50
40 8 0.20
42 12 0.30
ACGTcount: A:0.56, C:0.04, G:0.25, T:0.15
Consensus pattern (41 bp):
GGTAAATTAGGGAAAAAAAGTAAAAAAAAAATGGCAAAGTA
Found at i:27157482 original size:9 final size:9
Alignment explanation
Indices: 27157468--27157528 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
27157458 TTCTTACTAG
27157468 TTTTATTAT
1 TTTTATTAT
27157477 TTTTATT-T
1 TTTTATTAT
27157485 TTATTATTAT
1 TT-TTATTAT
* *
27157495 GTTTATTCT
1 TTTTATTAT
*
27157504 TGTTATGATAAT
1 T-TT-T-ATTAT
27157516 TTTTATTAT
1 TTTTATTAT
27157525 TTTT
1 TTTT
27157529 TATCATTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
8 3 0.07
9 26 0.63
10 5 0.12
11 3 0.07
12 4 0.10
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:27159047 original size:18 final size:17
Alignment explanation
Indices: 27159011--27159049 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
27159001 ATTTGTTTTA
*
27159011 TTTATTTTCTTTTTCTT
1 TTTATTTTATTTTTCTT
*
27159028 TTTATCTTTATTTTTGTT
1 TTTAT-TTTATTTTTCTT
27159046 TTTA
1 TTTA
27159050 GTTGTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTTATTTTTCTT
Found at i:27166674 original size:90 final size:90
Alignment explanation
Indices: 27166507--27166675 Score: 214
Period size: 90 Copynumber: 1.9 Consensus size: 90
27166497 TCTGCAAATC
* * * *
27166507 TGGTGGTTCATCCACATATTATCTGGCAACTTTTATCTTCAAAAATGTTGTGTATTCATAACCAT
1 TGGTGGTTCACCCACATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCAT
*
27166572 CTGGCAGTGTATTAGTTTGCAACCT
66 CTGGCAGCGTATTAGTTTGCAACCT
* * ** *
27166597 TGGTGGTTCACCCATC-TGTTATCTAGCAGCTTTTATCTGCAATTATGTTGTGTATTCACAACCG
1 TGGTGGTTCACCCA-CATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCA
* *
27166661 TCTTGTAGCGTATTA
65 TCTGGCAGCGTATTA
27166676 ACCTGCAATA
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 65 0.98
91 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (90 bp):
TGGTGGTTCACCCACATATTATCTAGCAACTTTTATCTGCAAAAATGTTGTGTATTCACAACCAT
CTGGCAGCGTATTAGTTTGCAACCT
Found at i:27170649 original size:16 final size:16
Alignment explanation
Indices: 27170628--27170661 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27170618 TTAGTGTAAG
27170628 AATTAAATATGGTAGA
1 AATTAAATATGGTAGA
27170644 AATTAAATATGGTAGA
1 AATTAAATATGGTAGA
27170660 AA
1 AA
27170662 AAGAATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (16 bp):
AATTAAATATGGTAGA
Found at i:27170668 original size:16 final size:16
Alignment explanation
Indices: 27170632--27170670 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27170622 TGTAAGAATT
*
27170632 AAATATGGTAGAAATT
1 AAATATGGTAGAAATA
27170648 AAATATGGTAGAAA-A
1 AAATATGGTAGAAATA
27170663 AGAATATG
1 A-AATATG
27170671 ATATGTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (16 bp):
AAATATGGTAGAAATA
Found at i:27171414 original size:29 final size:28
Alignment explanation
Indices: 27171306--27171416 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 28
27171296 TGGGCCGTTG
*
27171306 GTTTTCCAGATTTTATAGTTTTGCCACT
1 GTTTTCCAGATTTTACAGTTTTGCCACT
* * *
27171334 GTTATTCCAGATTTT-TAGTTCTGTCACT
1 GTT-TTCCAGATTTTACAGTTTTGCCACT
* **
27171362 GGTTTTCCAAATTTTACAAATTTGCCACT
1 -GTTTTCCAGATTTTACAGTTTTGCCACT
27171391 AGTTTTCCAGATTTTACAGTTTTGCC
1 -GTTTTCCAGATTTTACAGTTTTGCC
27171417 GCTCTTCTTC
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 24 0.35
29 44 0.65
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (28 bp):
GTTTTCCAGATTTTACAGTTTTGCCACT
Found at i:27174407 original size:51 final size:49
Alignment explanation
Indices: 27174343--27174526 Score: 181
Period size: 50 Copynumber: 3.7 Consensus size: 49
27174333 TGAGGTCGCA
*
27174343 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAATTG-G-TCACG
* * ** *
27174394 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TTAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCT-GAAAAT-TGGTCACG
* * * *** * *
27174444 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAATTGGTCACG
* *
27174493 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
27174527 AGATAGCTTC
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 35 0.32
50 40 0.36
51 35 0.32
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCTGAAAATTGGTCACG
Found at i:27176211 original size:34 final size:35
Alignment explanation
Indices: 27176173--27176250 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
27176163 AAGCATGAAT
* *
27176173 TTTGCTACT-AAGTTGATCTGTTATAAGCATATT-A
1 TTTGCTACTGAA-TTGAACTGTCATAAGCATATTGA
*
27176207 TTTGCTACTGTATTGAACTGTCATAAGCATATTGA
1 TTTGCTACTGAATTGAACTGTCATAAGCATATTGA
27176242 -TTGCTACTG
1 TTTGCTACTG
27176251 TATTAATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (35 bp):
TTTGCTACTGAATTGAACTGTCATAAGCATATTGA
Found at i:27176270 original size:34 final size:34
Alignment explanation
Indices: 27176185--27176254 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
27176175 TGCTACTAAG
* *
27176185 TTGATCTGTTATAAGCATATTATTTGCTACTGTA
1 TTGAACTGTCATAAGCATATTATTTGCTACTGTA
27176219 TTGAACTGTCATAAGCATATTGA-TTGCTACTGTA
1 TTGAACTGTCATAAGCATATT-ATTTGCTACTGTA
27176253 TT
1 TT
27176255 AATTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (34 bp):
TTGAACTGTCATAAGCATATTATTTGCTACTGTA
Found at i:27177817 original size:39 final size:39
Alignment explanation
Indices: 27177766--27177844 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
27177756 TATTATTAAG
*
27177766 TATAGTTATTATTTATTTTGATTTAAAATTCATTTTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
*
27177805 TATAGTTGTTATTTATTTTGATTTAAAATTCATATTTAT
1 TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
27177844 T
1 T
27177845 TATTGGATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (39 bp):
TATAGTTATTATTTATTTTGATTTAAAATTCATATTTAT
Found at i:27178218 original size:21 final size:21
Alignment explanation
Indices: 27178194--27178234 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27178184 AATAGTTAAA
* *
27178194 AATATTAAAAATATATATTAG
1 AATACTAAAAATAAATATTAG
*
27178215 AATACTAAAATTAAATATTA
1 AATACTAAAAATAAATATTA
27178235 TAATGTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AATACTAAAAATAAATATTAG
Found at i:27178327 original size:14 final size:14
Alignment explanation
Indices: 27178289--27178317 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27178279 TAATAACATA
27178289 ATAAATTA-TTAAT
1 ATAAATTATTTAAT
27178302 ATAAATTATTTAAT
1 ATAAATTATTTAAT
27178316 AT
1 AT
27178318 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATTATTTAAT
Found at i:27181073 original size:23 final size:24
Alignment explanation
Indices: 27181024--27181073 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
27181014 TATATATAAT
* *
27181024 TATATGAAATTAAAAAATTCAATA
1 TATATGAAATTAAAAAATTAAAAA
27181048 TATAT-AAATTTAAAAAA-TAAAAA
1 TATATGAAA-TTAAAAAATTAAAAA
27181071 TAT
1 TAT
27181074 TTAGATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
TATATGAAATTAAAAAATTAAAAA
Found at i:27181085 original size:23 final size:23
Alignment explanation
Indices: 27180997--27181085 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 23
27180987 AACAAGTACT
* *
27180997 ATATATAAAATAAAAATTATATATAA
1 ATATATAAATTAAAAA--A-ATAAAA
* * * *
27181023 TTATATGAAATTAAAAAATTCAAT
1 ATATAT-AAATTAAAAAAATAAAA
*
27181047 ATATATAAATTTAAAAAATAAAA
1 ATATATAAATTAAAAAAATAAAA
* *
27181070 ATATTTAGATTAAAAA
1 ATATATAAATTAAAAA
27181086 TTGATCAGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
23 26 0.54
24 7 0.15
25 1 0.02
26 5 0.10
27 9 0.19
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATATAAATTAAAAAAATAAAA
Found at i:27183925 original size:20 final size:20
Alignment explanation
Indices: 27183900--27183949 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
27183890 TGGCTTAAAA
27183900 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
27183920 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
27183937 GTGGTAGTGGATT
1 TTGGTAGTGGATT
27183950 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:27185473 original size:46 final size:44
Alignment explanation
Indices: 27185369--27185476 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
27185359 GGTCTTTAAC
** * * *
27185369 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
27185413 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27185459 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27185477 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27185851 original size:30 final size:30
Alignment explanation
Indices: 27185815--27185872 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27185805 CCTCGACTCT
*
27185815 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27185845 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27185873 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27186431 original size:40 final size:40
Alignment explanation
Indices: 27186369--27186463 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
27186359 CTTTTCTTTC
* *
27186369 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
27186410 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
27186450 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
27186464 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:27186488 original size:8 final size:8
Alignment explanation
Indices: 27186477--27186508 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
27186467 TTTGTCATAT
27186477 ATATAATA
1 ATATAATA
27186485 ATATAATA
1 ATATAATA
27186493 ATATAATA
1 ATATAATA
27186501 ATATAATA
1 ATATAATA
27186509 TAAAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:27188495 original size:13 final size:13
Alignment explanation
Indices: 27188477--27188504 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27188467 GATAAAAGAG
27188477 CATATAGAATACC
1 CATATAGAATACC
27188490 CATATAGAATACC
1 CATATAGAATACC
27188503 CA
1 CA
27188505 GAAGAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:27191009 original size:46 final size:44
Alignment explanation
Indices: 27190905--27191012 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
27190895 GGTCTTTAAC
** * * *
27190905 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
27190949 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
27190995 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
27191013 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:27191388 original size:30 final size:30
Alignment explanation
Indices: 27191352--27191409 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27191342 CCTCGACTCT
*
27191352 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
27191382 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
27191410 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:27191968 original size:40 final size:40
Alignment explanation
Indices: 27191906--27192000 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
27191896 CTTTTCTTTC
* *
27191906 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
27191947 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
27191987 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
27192001 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:27192025 original size:8 final size:8
Alignment explanation
Indices: 27192014--27192045 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
27192004 TTTGTCATAT
27192014 ATATAATA
1 ATATAATA
27192022 ATATAATA
1 ATATAATA
27192030 ATATAATA
1 ATATAATA
27192038 ATATAATA
1 ATATAATA
27192046 TAAAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:27196996 original size:20 final size:20
Alignment explanation
Indices: 27196971--27197020 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
27196961 TGGCTTAAAA
27196971 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
27196991 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
27197008 GTGGTAGTGGATT
1 TTGGTAGTGGATT
27197021 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:27200224 original size:25 final size:26
Alignment explanation
Indices: 27200170--27200224 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
27200160 ATGATTTATA
**
27200170 ACATCAAACATTAAGTCATTTTGCAAG
1 ACATCAAACAAGAAGTCA-TTTGCAAG
27200197 ACATCAAACAAGAAGTCA-TTGCAAG
1 ACATCAAACAAGAAGTCATTTGCAAG
27200222 ACA
1 ACA
27200225 AAACTTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 10 0.38
27 16 0.62
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (26 bp):
ACATCAAACAAGAAGTCATTTGCAAG
Found at i:27204236 original size:14 final size:14
Alignment explanation
Indices: 27204217--27204243 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27204207 AAATTTGAGA
27204217 TTTATTTTTTATAT
1 TTTATTTTTTATAT
27204231 TTTATTTTTTATA
1 TTTATTTTTTATA
27204244 ATGTATTAAC
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTTTATAT
Found at i:27206008 original size:20 final size:20
Alignment explanation
Indices: 27205967--27206004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27205957 AATAATATCA
27205967 TTGATATATATATTTTTAAT
1 TTGATATATATATTTTTAAT
*
27205987 TTGATATTTAT-TTTTTAA
1 TTGATATATATATTTTTAA
27206005 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTGATATATATATTTTTAAT
Found at i:27206260 original size:17 final size:17
Alignment explanation
Indices: 27206238--27206274 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27206228 AAGAACATTT
27206238 AAAATTAATATTAAA-TA
1 AAAATTAA-ATTAAACTA
27206255 AAAATTAAATTAAACTA
1 AAAATTAAATTAAACTA
27206272 AAA
1 AAA
27206275 TAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTAAATTAAACTA
Found at i:27206261 original size:11 final size:11
Alignment explanation
Indices: 27206247--27206286 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
27206237 TAAAATTAAT
27206247 ATTAAATAAAA
1 ATTAAATAAAA
*
27206258 ATTAAATTAAA
1 ATTAAATAAAA
* *
27206269 CTAAAATAAAA
1 ATTAAATAAAA
27206280 ATTAAAT
1 ATTAAAT
27206287 CTCTCCCTCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTAAATAAAA
Found at i:27210718 original size:132 final size:132
Alignment explanation
Indices: 27210478--27210729 Score: 407
Period size: 132 Copynumber: 1.9 Consensus size: 132
27210468 TACAATGTAA
* * * *
27210478 TAAATTGAACTAAGTAGTATAAAATTAAAAATTTAAAATAATTTATTATCAAACTAAATTTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
* *
27210543 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATTACTTGTATTTCTGCAATTATTATCAA
66 TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
27210608 AC
131 AC
* * *
27210610 TAAATTGAACTAAGTAGTCCAAAACTAGAAATTTAGAATAAATTATTATCAAACTAAAATTATAA
1 TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
27210675 TTTATTCACAAAATCCTATTAACATGCTCCTAA-CCAATCACTTGTATCTCTGCAA
66 TTTATTCACAAAATCCTATTAACATGCTCC-AACCCAATCACTTGTATCTCTGCAA
27210730 GCTCAAGCAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
132 108 0.98
133 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.35
Consensus pattern (132 bp):
TAAATTGAACTAAGTAGTACAAAACTAAAAATTTAAAATAAATTATTATCAAACTAAAATTATAA
TTTATTCACAAAATCCTATTAACATGCTCCAACCCAATCACTTGTATCTCTGCAATTATTATCAA
AC
Found at i:27212890 original size:21 final size:20
Alignment explanation
Indices: 27212866--27212905 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27212856 CCGTGTTGGT
27212866 TTTGTATATTGGCCCATTTTC
1 TTTGT-TATTGGCCCATTTTC
* *
27212887 TTTGTTTTTGGCCCGTTTT
1 TTTGTTATTGGCCCATTTT
27212906 TCGTTCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.57
Consensus pattern (20 bp):
TTTGTTATTGGCCCATTTTC
Found at i:27223819 original size:5 final size:6
Alignment explanation
Indices: 27223794--27223818 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27223784 ATGAGGAAGA
27223794 GGAGGG GGAGGG GGAGGG GGAGGG G
1 GGAGGG GGAGGG GGAGGG GGAGGG G
27223819 AACGAAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.84, T:0.00
Consensus pattern (6 bp):
GGAGGG
Found at i:27236080 original size:27 final size:26
Alignment explanation
Indices: 27236049--27236226 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 26
27236039 TAAATTGTAC
27236049 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
27236076 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
27236102 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
27236130 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
*
27236158 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
27236185 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
27236212 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27236227 GACTCGATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 105 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:27236165 original size:82 final size:81
Alignment explanation
Indices: 27236050--27236205 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27236040 AAATTGTACA
*
27236050 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
27236114 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
27236131 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
27236196 TGCGAGTTGA
65 TGCGAATTGA
27236206 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27236217 original size:82 final size:81
Alignment explanation
Indices: 27236046--27236226 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27236036 GATTAAATTG
*
27236046 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
27236111 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
27236127 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
27236191 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27236209 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27236227 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27241029 original size:19 final size:19
Alignment explanation
Indices: 27241007--27241067 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
27240997 AAAAATCAAT
27241007 AAAAATTATTAAAATTTAA
1 AAAAATTATTAAAATTTAA
* **
27241026 AAAAGTTAAAAAAATTT--
1 AAAAATTATTAAAATTTAA
* *
27241043 AAAATTTATTAAAAATTAGA
1 AAAAATTATTAAAATTTA-A
27241063 AAAAA
1 AAAAA
27241068 ATTGTAAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 13 0.42
19 14 0.45
20 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAATTATTAAAATTTAA
Found at i:27242139 original size:6 final size:6
Alignment explanation
Indices: 27242131--27242192 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
27242121 ACACGATTTT
* *
27242131 CCCTTT CCCTTC CCCTTC CCCTTT CCCTT- CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
27242178 CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCC
27242193 CATCTTTTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.09
6 48 0.91
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTTC
Found at i:27242171 original size:29 final size:29
Alignment explanation
Indices: 27242129--27242191 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
27242119 CAACACGATT
* *
27242129 TTCCCTTTCCCTTCCCCTTCCCCTTTCCC
1 TTCCCTTCCCCTTCCCCTTCCCCTTCCCC
27242158 TTCCCTTCCCCTTCCCCTTCCCCTTCCCC
1 TTCCCTTCCCCTTCCCCTTCCCCTTCCCC
27242187 TTCCC
1 TTCCC
27242192 CCATCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (29 bp):
TTCCCTTCCCCTTCCCCTTCCCCTTCCCC
Found at i:27247492 original size:26 final size:25
Alignment explanation
Indices: 27247463--27247543 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
27247453 GAAGTTTGTC
27247463 ATAATTATAAATTTAAAAATTTAAAA
1 ATAATTATAAATTTAAAAATTT-AAA
* *
27247489 ATAATTAT-AATTTAATAGAAGTTATA
1 ATAATTATAAATTTAA-A-AATTTAAA
* *
27247515 ATAATTACATATTTAAAAATAATTAAA
1 ATAATTATAAATTTAAAAAT--TTAAA
27247542 AT
1 AT
27247544 TTAAATTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 9 0.20
26 19 0.43
27 16 0.36
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATTATAAATTTAAAAATTTAAA
Found at i:27247547 original size:17 final size:18
Alignment explanation
Indices: 27247514--27247548 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27247504 TAGAAGTTAT
*
27247514 AATAATTACATATTTAAA
1 AATAATTACAAATTTAAA
27247532 AATAATTA-AAATTTAAA
1 AATAATTACAAATTTAAA
27247549 TTACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAATTACAAATTTAAA
Found at i:27250229 original size:17 final size:17
Alignment explanation
Indices: 27250207--27250245 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27250197 ACTTTATTGT
27250207 ATTTATTAATT-AATATA
1 ATTTATT-ATTAAATATA
*
27250224 ATTTATTATTAAATTTA
1 ATTTATTATTAAATATA
27250241 ATTTA
1 ATTTA
27250246 ATAAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATTATTAAATATA
Found at i:27252253 original size:13 final size:13
Alignment explanation
Indices: 27252235--27252261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27252225 TTTAAAGTGC
27252235 TTAATTGCTATGA
1 TTAATTGCTATGA
27252248 TTAATTGCTATGA
1 TTAATTGCTATGA
27252261 T
1 T
27252262 ATTAGACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TTAATTGCTATGA
Found at i:27253823 original size:13 final size:13
Alignment explanation
Indices: 27253805--27253834 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27253795 CTGGCAATCA
27253805 TGTCACACGGCCG
1 TGTCACACGGCCG
*
27253818 TGTCACACGGGCG
1 TGTCACACGGCCG
27253831 TGTC
1 TGTC
27253835 CCTGCTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:27269588 original size:40 final size:40
Alignment explanation
Indices: 27269528--27269798 Score: 335
Period size: 40 Copynumber: 6.8 Consensus size: 40
27269518 GAAATTTCCA
* * **
27269528 TGAAAGCACATACGTGCCCCTGTTTTTACTTCAGTATGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * * *
27269568 TAAATGCACATACGTGCCCCTATTTATACTTCAGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * *
27269608 TGAATGCACATATGTGCCCCTGTTTGTACTTCAATACGCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* ** *
27269648 TGAATGCACATACATGCCCCTGTTTGTACTTTGGTGCCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
** * *
27269688 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTGCCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * *
27269728 TAAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
*
27269768 TGAATGCACATACGTGCCCCTATTTGTACTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTT
27269799 TGAAACCCCA
Statistics
Matches: 202, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 202 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:27269624 original size:20 final size:20
Alignment explanation
Indices: 27269601--27269788 Score: 85
Period size: 20 Copynumber: 9.4 Consensus size: 20
27269591 TTATACTTCA
*
27269601 GTGCCCCTGAATGCACATAT
1 GTGCCCCTGAATGCACATAC
** * *
27269621 GTGCCCCTGTTTGTAC-TTC
1 GTGCCCCTGAATGCACATAC
* * *
27269640 AATACGCCTGAATGCACATAC
1 -GTGCCCCTGAATGCACATAC
* ** * * **
27269661 ATGCCCCTGTTTGTACTTTG
1 GTGCCCCTGAATGCACATAC
27269681 GTGCCCCTGAATGCACATAC
1 GTGCCCCTGAATGCACATAC
** * * **
27269701 GTGCCCCTGTTTGTACTTTG
1 GTGCCCCTGAATGCACATAC
* *
27269721 GTGCCCTTAAATGCACATAC
1 GTGCCCCTGAATGCACATAC
* * *
27269741 GTGCCCCT-ATTTGTAC-TTC
1 GTGCCCCTGA-ATGCACATAC
*
27269760 GGTACCCCTGAATGCACATAC
1 -GTGCCCCTGAATGCACATAC
27269781 GTGCCCCT
1 GTGCCCCT
27269789 ATTTGTACTT
Statistics
Matches: 112, Mismatches: 50, Indels: 12
0.64 0.29 0.07
Matches are distributed among these distances:
19 4 0.04
20 103 0.92
21 5 0.04
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (20 bp):
GTGCCCCTGAATGCACATAC
Found at i:27278744 original size:27 final size:27
Alignment explanation
Indices: 27278724--27278869 Score: 193
Period size: 27 Copynumber: 5.4 Consensus size: 27
27278714 CCTTAATTGA
27278724 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * **
27278751 TAAAATGACTGTTTTACAGTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
27278778 TAAAATGACTGTTTTGCCTTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGG
*
27278805 TAAAATGACTATTTTTCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* **
27278832 TAAAATGATTATTTTTACCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
27278859 TAAAATGACTA
1 TAAAATGACTA
27278870 AAATGCCCCT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:27288843 original size:50 final size:50
Alignment explanation
Indices: 27288767--27289005 Score: 295
Period size: 50 Copynumber: 4.8 Consensus size: 50
27288757 TGATGCTAGG
*
27288767 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* *
27288817 GAGATATGAGAGCTAGTGTAATACCATGTCTGGGACATGGCATTAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* *
27288867 AAGATATGAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CTC
* * * * **
27288917 GATAGATGAGAGCAAATGTAAGACCATGTCTGGGACATGGCATC-GAAT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
** * * * *
27288965 TTGATATGTGAGCCAGTGTAAGACCATGTTTAGGACATGGC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
27289006 GTCGGCACCT
Statistics
Matches: 163, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
48 32 0.20
49 1 0.01
50 129 0.79
51 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
Found at i:27298462 original size:21 final size:22
Alignment explanation
Indices: 27298426--27298469 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
27298416 TTTCTTCACA
*
27298426 ATCATAAGTCATACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27298448 ATCAT-AGTCAAACATCATCAT
1 ATCATAAGTCAAACATCATCAT
27298469 A
1 A
27298470 AAGTCCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (22 bp):
ATCATAAGTCAAACATCATCAT
Found at i:27299041 original size:24 final size:24
Alignment explanation
Indices: 27298989--27299044 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27298979 TAGCATGCGT
*
27298989 ATATATATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27299013 ATATCTATCATCATCCCTTTGTAC
1 ATATCTATCATCATCCCTTTGTAC
27299037 ATATCTAT
1 ATATCTAT
27299045 TTCATAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.43
Consensus pattern (24 bp):
ATATCTATCATCATCCCTTTGTAC
Found at i:27302737 original size:19 final size:18
Alignment explanation
Indices: 27302703--27302738 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27302693 TCAGTTTAAT
*
27302703 TAAACACAACGTTTTTCC
1 TAAACACAACGATTTTCC
27302721 TAAACACAAACGATTTTC
1 TAAACAC-AACGATTTTC
27302739 TTTAAATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.31
Consensus pattern (18 bp):
TAAACACAACGATTTTCC
Found at i:27306565 original size:16 final size:16
Alignment explanation
Indices: 27306544--27306576 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27306534 TTTAATTTAA
27306544 TTTGATAGTTAAATAT
1 TTTGATAGTTAAATAT
27306560 TTTGATAGTTAAATAT
1 TTTGATAGTTAAATAT
27306576 T
1 T
27306577 GAACACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGATAGTTAAATAT
Found at i:27313518 original size:31 final size:31
Alignment explanation
Indices: 27313465--27313529 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
27313455 TCGATTTAAA
* * *
27313465 TAATAAAAAATAATATTTTAAAATTTAATTT
1 TAATAAAAAATAATAATATAAAAATTAATTT
* * *
27313496 TAATTAAAAATATTAATATAAAAATTATTTT
1 TAATAAAAAATAATAATATAAAAATTAATTT
27313527 TAA
1 TAA
27313530 ATATTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TAATAAAAAATAATAATATAAAAATTAATTT
Found at i:27315177 original size:46 final size:47
Alignment explanation
Indices: 27315111--27315299 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 47
27315101 TAATTATTTT
27315111 ATTATATATTATTTATATTATTATTTATTATATATTATTTTTCAC-AA
1 ATTATATATTATTTA-ATTATTATTTATTATATATTATTTTTCACTAA
* *
27315158 ATTAT-TATTATTTACATTATTATTTA-TATATTATTATATTTTTACTTAT
1 ATTATATATTATTTA-ATTATTATTTATTATA-TATTAT-TTTTCAC-TAA
27315207 ATTATATATT-TATTAATTATTTATATATATTATATATTATTTTT-ACATATA
1 ATTATATATTAT-TTAATTA-TTAT-T-TATTATATATTATTTTTCAC-TA-A
27315258 TACTTTATATTATATATTATAATTA-T-TTTATTATATATTATT
1 -A--TTATA-TAT-TATT-TAATTATTATTTATTATATATTATT
27315300 ATGTCATTTG
Statistics
Matches: 119, Mismatches: 5, Indels: 31
0.77 0.03 0.20
Matches are distributed among these distances:
45 4 0.03
46 26 0.22
47 11 0.09
49 11 0.09
50 15 0.13
51 5 0.04
52 23 0.19
53 5 0.04
54 6 0.05
55 4 0.03
56 2 0.02
57 7 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (47 bp):
ATTATATATTATTTAATTATTATTTATTATATATTATTTTTCACTAA
Found at i:27315258 original size:50 final size:51
Alignment explanation
Indices: 27315110--27315258 Score: 174
Period size: 50 Copynumber: 3.1 Consensus size: 51
27315100 ATAATTATTT
*
27315110 TATTATATATTATTTATATTA-TTAT-T-TATTATATATTATTTTTCACA-A
1 TATTATATATTATTTACATTATTTATATATATTATATATTATTTTT-ACATA
* *
27315158 -ATTAT-TATTATTTACATTATTATTTATATATTAT-TA-TATTTTTACTTA
1 TATTATATATTATTTACATTATT-TATATATATTATATATTATTTTTACATA
27315206 TATTATATATT-TATTA-ATTATTTATATATATTATATATTATTTTTACATA
1 TATTATATATTAT-TTACATTATTTATATATATTATATATTATTTTTACATA
27315256 TAT
1 TAT
27315259 ACTTTATATT
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
46 13 0.15
47 8 0.09
48 21 0.24
49 17 0.20
50 27 0.31
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (51 bp):
TATTATATATTATTTACATTATTTATATATATTATATATTATTTTTACATA
Found at i:27315289 original size:14 final size:15
Alignment explanation
Indices: 27315085--27315343 Score: 118
Period size: 15 Copynumber: 17.6 Consensus size: 15
27315075 ACCTTATTTT
*
27315085 TATATTA-TATATTA
1 TATATTATTTTATTA
27315099 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
27315115 TATATTA-TTTA-TA
1 TATATTATTTTATTA
27315128 T-TATTA-TTTATTA
1 TATATTATTTTATTA
*
27315141 TATATTATTTT-TCA
1 TATATTATTTTATTA
* *
27315155 CAAATTATTATTATT-
1 TATATTATT-TTATTA
* *
27315170 TACATTATTAT-TTA
1 TATATTATTTTATTA
*
27315184 TATATTATTATATT-
1 TATATTATTTTATTA
* *
27315198 TTTACTTATATTA-TA
1 TATA-TTATTTTATTA
*
27315213 TAT-TTA-TTAATTA
1 TATATTATTTTATTA
* *
27315226 TTTA-TA-TATATTA
1 TATATTATTTTATTA
*
27315239 TATATTATTTTTACATA
1 TATATTA-TTTTA-TTA
*
27315256 TATACTTTATATTATATA
1 TATA--TTATTTTAT-TA
27315274 TTATAATTATTTTATTA
1 -TAT-ATTATTTTATTA
* * *
27315291 TATATTATTATGTCA
1 TATATTATTTTATTA
* * *
27315306 TTTGTTATATTATTA
1 TATATTATTTTATTA
*
27315321 TACA-T-TTTTATCTA
1 TATATTATTTTAT-TA
27315335 TATATTATT
1 TATATTATT
27315344 ATCATTAAAG
Statistics
Matches: 182, Mismatches: 38, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
12 11 0.06
13 30 0.16
14 44 0.24
15 50 0.27
16 18 0.10
17 8 0.04
18 14 0.08
19 6 0.03
20 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:27323031 original size:45 final size:45
Alignment explanation
Indices: 27322979--27323436 Score: 167
Period size: 45 Copynumber: 10.9 Consensus size: 45
27322969 ATAAAAAAAT
*
27322979 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCTAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* *
27323024 AGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAG--ATGA-C
* * * *
27323071 AGATCTGA---C-CT-TCAT---C-AGG-GCAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* * * *
27323106 AGATCTTATCTCTCTGTATTTGACGGGAAGCAGATTGAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAG--ATGA-C
* * *
27323153 AGATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* * * * *
27323188 AGATTTTATCTCTCTGTATTTGATGGGGAGTAGATCGAAGACAT-AGC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAG--ATGA-C
* * *
27323235 AGATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* * * * *
27323270 AGATCTTATCTCTCTGTATTCGAAGGGGAGCAGATTGAAGACAT-AGT
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAG--ATGA-C
* * * * *
27323317 AGATCTGA---C-CT-TCAT----TGGG-GTAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* * *
27323352 AGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGAC
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
* *
27323397 AGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAG
1 AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAG
27323437 GCGTAGCAGA
Statistics
Matches: 300, Mismatches: 57, Indels: 112
0.64 0.12 0.24
Matches are distributed among these distances:
35 38 0.13
36 4 0.01
37 36 0.12
38 14 0.05
39 10 0.03
40 9 0.03
42 8 0.03
43 9 0.03
44 14 0.05
45 116 0.39
46 4 0.01
47 38 0.13
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
AGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCGAAGATGAC
Found at i:27323112 original size:82 final size:82
Alignment explanation
Indices: 27323008--27323392 Score: 608
Period size: 82 Copynumber: 4.7 Consensus size: 82
27322998 TAGACGGGGA
*
27323008 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
*
27323073 ATCTGACCTTCATCAGG
66 ATCTGACCTTCATCGGG
* * *
27323090 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGACGGGAAGCAGATTGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
27323155 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* * * *
27323172 GCAGATCCAAGATGACAGATTTTATCTCTCTGTATTTGATGGGGAGTAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
27323237 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGGG
* * *
27323254 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGAAGGGGAGCAGATTGAAGACATAGTAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
*
27323319 ATCTGACCTTCATTGGG
66 ATCTGACCTTCATCGGG
* * * * *
27323336 GTAGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGA
27323393 TGACAGATCT
Statistics
Matches: 279, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 279 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (82 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACATAGCAG
ATCTGACCTTCATCGGG
Found at i:27324894 original size:16 final size:16
Alignment explanation
Indices: 27324873--27325130 Score: 62
Period size: 14 Copynumber: 16.8 Consensus size: 16
27324863 AATCTAACCC
*
27324873 TATATATTTATTTTTA
1 TATATATATATTTTTA
27324889 TATATATATATTTTT-
1 TATATATATATTTTTA
* *
27324904 TAT-TGT-TATTTGTTT
1 TATATATATATTT-TTA
* *
27324919 TATTTTTAACCTTATTTTTA
1 TATATAT-A---TATTTTTA
27324939 TAT-TATATA---TTA
1 TATATATATATTTTTA
27324951 TATA-AT-TA-TTTTA
1 TATATATATATTTTTA
*
27324964 T-TATATAT-TATTTA
1 TATATATATATTTTTA
27324978 TAT-TAT-TATTTATTA
1 TATATATATATTT-TTA
*
27324993 TATAT-TAT-TTTTCA
1 TATATATATATTTTTA
* *
27325007 CAAAT-TAT-TATTTTA
1 TATATATATAT-TTTTA
* *
27325022 CAT-TAT-TATTTATA
1 TATATATATATTTTTA
27325036 TATTATTATTATATTTTTA
1 TA-TA-TA-TATATTTTTA
27325055 CTTATATTATATATTTATTA
1 --TATA-TATATATTT-TTA
* * *
27325075 TTTATTTATATATATTA
1 TATATATATAT-TTTTA
27325092 TATAT-TAT-TTTTTA
1 TATATATATATTTTTA
* *
27325106 CA-A-ATATACTTTTA
1 TATATATATATTTTTA
27325120 TAT-TATATATT
1 TATATATATATT
27325131 ATAATTATTT
Statistics
Matches: 183, Mismatches: 24, Indels: 71
0.66 0.09 0.26
Matches are distributed among these distances:
11 2 0.01
12 10 0.05
13 16 0.09
14 42 0.23
15 35 0.19
16 21 0.11
17 15 0.08
18 6 0.03
19 16 0.09
20 13 0.07
21 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (16 bp):
TATATATATATTTTTA
Found at i:27324949 original size:7 final size:7
Alignment explanation
Indices: 27324937--27325153 Score: 116
Period size: 7 Copynumber: 31.1 Consensus size: 7
27324927 ACCTTATTTT
27324937 TATATTA
1 TATATTA
27324944 TATATTA
1 TATATTA
27324951 TATAATTA
1 TAT-ATTA
*
27324959 TTTTATTA
1 -TATATTA
27324967 TATATTA
1 TATATTA
*
27324974 TTTA-TA
1 TATATTA
27324980 T-TATTA
1 TATATTA
*
27324986 TTTATTA
1 TATATTA
27324993 TATATTA
1 TATATTA
*
27325000 T-TTTTCA
1 TATATT-A
* *
27325007 CAAATTA
1 TATATTA
*
27325014 T-TATTT
1 TATATTA
*
27325020 TACATTA
1 TATATTA
27325027 T-TATTTA
1 TATA-TTA
27325034 TATATTA
1 TATATTA
27325041 T-TATTA
1 TATATTA
*
27325047 TATTTTTA
1 TA-TATTA
27325055 CTTATATTA
1 --TATATTA
27325064 TATATT-
1 TATATTA
27325070 TATTATT-
1 TA-TATTA
*
27325077 TATTTATA
1 TATAT-TA
27325085 TATATTA
1 TATATTA
27325092 TATATTA
1 TATATTA
*
27325099 T-T-TTT
1 TATATTA
* *
27325104 TACA-AA
1 TATATTA
*
27325110 TATACTTT
1 TATA-TTA
27325118 TATATTA
1 TATATTA
27325125 TATATTA
1 TATATTA
27325132 TA-ATTA
1 TATATTA
*
27325138 TTTTATTA
1 -TATATTA
27325146 TATATTA
1 TATATTA
27325153 T
1 T
27325154 TATCATTAAA
Statistics
Matches: 160, Mismatches: 28, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.03
6 32 0.20
7 87 0.54
8 28 0.17
9 6 0.04
10 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:27324975 original size:26 final size:25
Alignment explanation
Indices: 27324930--27325156 Score: 109
Period size: 27 Copynumber: 8.8 Consensus size: 25
27324920 ATTTTTAACC
27324930 TTATTT-TTATATTATATATTATATAA
1 TTATTTATTATA-TAT-TATTATATAA
*
27324956 TTATTTTATTATATATTATTTATATTA
1 TTA-TTTATTATATATTA-TTATATAA
* *
27324983 TTATTTATTATATATTATTTTTCACAAA
1 TTATTTATTATATATTA-TTAT-A-TAA
* *
27325011 TTA-TTATTTTACATTATTATTTATATA
1 TTATTTATTATATATTATTA--TATA-A
* *
27325038 TTA-TTATTATATTTTTACTTATATTA
1 TTATTTATTATA-TATTA-TTATATAA
*
27325064 TATATTTATTATTTA-T-TTATATATA
1 T-TATTTATTATATATTATTATATA-A
* *
27325089 TTATATATTAT-T-TT-TTACA-AA
1 TTATTTATTATATATTATTATATAA
*
27325110 -TA--TACTTTTATATTATATATTATAA
1 TTATTTA-TTATATATTAT-TA-TATAA
27325135 TTATTTTATTATATATTATTAT
1 TTA-TTTATTATATATTATTAT
27325157 CATTAAAGGT
Statistics
Matches: 156, Mismatches: 20, Indels: 50
0.69 0.09 0.22
Matches are distributed among these distances:
18 2 0.01
19 3 0.02
20 3 0.02
21 3 0.02
22 2 0.01
23 8 0.05
24 16 0.10
25 4 0.03
26 32 0.21
27 48 0.31
28 30 0.19
29 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTTATTATATATTATTATATAA
Found at i:27325073 original size:58 final size:55
Alignment explanation
Indices: 27324930--27325156 Score: 156
Period size: 54 Copynumber: 4.1 Consensus size: 55
27324920 ATTTTTAACC
27324930 TTATT-TT-TATATTA-TATATTATATAATTATT-TTATT-ATATATTATTTATATTA
1 TTATTATTATATATTATTATATTATATAATTATTATT-TTAAT-TATTATTTATA-TA
*
27324983 TTATTTATTATATATTATT-T-TTCACA-AATTATTATTTTACATTATTATTTATATA
1 TTA-TTATTATATATTATTATATT-ATATAATTATTATTTTA-ATTATTATTTATATA
* * *
27325038 TTATTATTATATTTTTACTTATATTATATATTTATTA-TTTATTTATATATATTATATA
1 TTATTATTATA-TATTA-TTATATTATATAATTATTATTTTAATTAT-TAT-TTATATA
** * * * *
27325096 TTATT-TT-T-TACAAATATACTTTTAT-ATTATATATTATAATTATTTTATTATATA
1 TTATTATTATATATTATTATA-TTATATAATTAT-TATTTTAATTATTAT-TTATATA
27325150 TTATTAT
1 TTATTAT
27325157 CATTAAAGGT
Statistics
Matches: 141, Mismatches: 14, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
53 11 0.08
54 34 0.24
55 30 0.21
56 30 0.21
57 15 0.11
58 21 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (55 bp):
TTATTATTATATATTATTATATTATATAATTATTATTTTAATTATTATTTATATA
Found at i:27325148 original size:99 final size:100
Alignment explanation
Indices: 27324939--27325143 Score: 255
Period size: 99 Copynumber: 2.1 Consensus size: 100
27324929 CTTATTTTTA
* * * *
27324939 TATTA-TATATTATATAATTATTTTATTATATATTATTTATATTATTATTTATTATATATTATTT
1 TATTATTATATT-TTTACTTATATTATTATATATTATTTATATTATTATATATTATATATTATTT
27325003 TTCACAAATTATTATTTTACATTATTATTTATATAT
65 TTCACAAATTATTATTTTACATTATTATTTATATAT
*
27325039 TATTATTATATTTTTACTTATATTATATATTTATTATTTAT-TTA-TATATATTATATATTATTT
1 TATTATTATATTTTTACTTATATTAT-TATATATTATTTATATTATTATATATTATATATTATTT
* *
27325102 TTTACAAA-TA-TACTTTTATATTA-TATATTATA-AT
65 TTCACAAATTATTA-TTTTACATTATTAT-TTATATAT
27325136 TATT-TTAT
1 TATTATTAT
27325144 TATATATTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
96 4 0.04
97 11 0.12
98 16 0.17
99 25 0.27
100 19 0.20
101 19 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (100 bp):
TATTATTATATTTTTACTTATATTATTATATATTATTTATATTATTATATATTATATATTATTTT
TCACAAATTATTATTTTACATTATTATTTATATAT
Found at i:27325185 original size:99 final size:98
Alignment explanation
Indices: 27324930--27325164 Score: 229
Period size: 97 Copynumber: 2.4 Consensus size: 98
27324920 ATTTTTAACC
* * * * *
27324930 TTATTTTTATATTATATATTATATAATTA-TTTTATTATATA-TTATTTATATTATTAT-T-TAT
1 TTATTTATATATTAT-TATTATATTATTACTTATATTAAAGATTTA-TTAT-TTATTATATATAT
27324991 TATATATTATTTTTCACAAATTATTATTTTACATTA
63 TATATATTATTTTTCACAAATTATTATTTTACATTA
* * *
27325027 TTATTTATATATTATTATTATATTTTTACTTATATTATATATTTATTATTTATTTATATATATTA
1 TTATTTATATATTATTATTATATTATTACTTATATTAAAGATTTATTATTTA-TTATATATATTA
* *
27325092 TATATTATTTTTTACAAA-TA-TACTTTTATATTA
65 TATATTATTTTTCACAAATTATTA-TTTTACATTA
27325125 -TATATTATA-ATTATT-TTATTATATATTA-TTATCATTAAAG
1 TTAT-TTATATATTATTATTA-TAT-TATTACTTAT-ATTAAAG
27325165 GTTTTTAACT
Statistics
Matches: 119, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
96 17 0.14
97 51 0.43
98 29 0.24
99 22 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (98 bp):
TTATTTATATATTATTATTATATTATTACTTATATTAAAGATTTATTATTTATTATATATATTAT
ATATTATTTTTCACAAATTATTATTTTACATTA
Found at i:27325345 original size:23 final size:21
Alignment explanation
Indices: 27325296--27325347 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
27325286 ATCATTAATT
*
27325296 ACTTATTTTATATTATTCTAA
1 ACTTATTTTATATTATTATAA
27325317 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATAT-TATTATA-A
27325341 A-TTATTT
1 ACTTATTT
27325348 CATTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 10 0.37
24 2 0.07
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
ACTTATTTTATATTATTATAA
Found at i:27325438 original size:18 final size:17
Alignment explanation
Indices: 27325414--27325473 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
27325404 CCAATATATT
27325414 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
27325431 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
27325447 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
27325465 TTATATTTT
1 TTATATTTT
27325474 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:27325458 original size:15 final size:16
Alignment explanation
Indices: 27325415--27325473 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
27325405 CAATATATTT
27325415 TATATTTTTTATATAA
1 TATATTTTTTATATAA
27325431 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
27325447 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
27325465 TTATATTTT
1 -TATATTTT
27325474 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:27326932 original size:22 final size:21
Alignment explanation
Indices: 27326902--27326948 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
27326892 TACAAATTAA
27326902 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTACAAG-TCAT
* * *
27326924 ATCTTCAAGATTGCATGTCAT
1 ATCTCCAAGATTACAAGTCAT
27326945 ATCT
1 ATCT
27326949 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAAGTCAT
Found at i:27326954 original size:19 final size:19
Alignment explanation
Indices: 27326919--27326999 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
27326909 AGATTACAAG
27326919 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
27326940 GTCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27326959 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27326978 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
27326997 ATC
1 ATC
27327000 CTTAAAGATT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
19 50 0.86
20 1 0.02
21 7 0.12
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:27331147 original size:11 final size:11
Alignment explanation
Indices: 27331131--27331173 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27331121 GTTTTAATTA
27331131 AATAAAATATT
1 AATAAAATATT
*
27331142 AAT-AAATATCC
1 AATAAAATAT-T
27331153 AATTAAAATATT
1 AA-TAAAATATT
27331165 AATAAAATA
1 AATAAAATA
27331174 ATATTTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.22
11 12 0.44
12 3 0.11
13 6 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:27331772 original size:4 final size:4
Alignment explanation
Indices: 27331763--27331790 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
27331753 AAGTTTTATT
27331763 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
27331791 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:27334186 original size:23 final size:22
Alignment explanation
Indices: 27334160--27334212 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
27334150 TTAAGAGTGA
*
27334160 AAAAGAAATT-GAAGAAAGAAGAG
1 AAAAGAAATTAGAA-AAAGAA-AC
27334183 AAAATG-AATTAGAAAAAGAAAC
1 AAAA-GAAATTAGAAAAAGAAAC
27334205 AAAAGAAA
1 AAAAGAAA
27334213 AAGACGTGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.04
22 7 0.27
23 14 0.54
24 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:27335575 original size:4 final size:4
Alignment explanation
Indices: 27335566--27335593 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
27335556 AAGTTTTATT
27335566 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
27335594 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:27347751 original size:27 final size:27
Alignment explanation
Indices: 27347713--27347794 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
27347703 CAACTTGATA
*
27347713 TGGCCCTTCTTCTTGTAGTAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
27347740 TGGCCCTTCTTCTTGCAGTAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
*
27347767 TGGCCCTTCTTTTTGCAGTAGCCACAT
1 TGGCCCTTCTTCTTGCAGTAGCCACAT
27347794 T
1 T
27347795 CTTTGCCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.37
Consensus pattern (27 bp):
TGGCCCTTCTTCTTGCAGTAGCCACAT
Found at i:27348174 original size:31 final size:31
Alignment explanation
Indices: 27348139--27348202 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
27348129 TAGACTCACC
27348139 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
*
27348170 TTCGGTTATTTTAAACGTGTAGAGATGTTGT
1 TTCGGTTATTCTAAACGTGTAGAGATGTTGT
27348201 TT
1 TT
27348203 TAACACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.08, G:0.25, T:0.45
Consensus pattern (31 bp):
TTCGGTTATTCTAAACGTGTAGAGATGTTGT
Found at i:27348923 original size:25 final size:25
Alignment explanation
Indices: 27348878--27348928 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
27348868 AGCTAATCAG
*
27348878 AGTTTAAGTGAGAAACTAAAAACAA
1 AGTTTAAGTGAGAAACGAAAAACAA
* *
27348903 AGTTTAATTGAGAGAA-GAAAACCAA
1 AGTTTAAGTGAGA-AACGAAAAACAA
27348928 A
1 A
27348929 AAACTTGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.20
Consensus pattern (25 bp):
AGTTTAAGTGAGAAACGAAAAACAA
Found at i:27351645 original size:7 final size:7
Alignment explanation
Indices: 27351633--27351660 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27351623 TCATAAGTCA
27351633 ATTTGAT
1 ATTTGAT
27351640 ATTTGAT
1 ATTTGAT
27351647 ATTTGAT
1 ATTTGAT
27351654 ATTTGAT
1 ATTTGAT
27351661 GCAACACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
ATTTGAT
Found at i:27352128 original size:13 final size:13
Alignment explanation
Indices: 27352110--27352136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27352100 TGAGACGAAT
27352110 GATTTTTTTTTCA
1 GATTTTTTTTTCA
27352123 GATTTTTTTTTCA
1 GATTTTTTTTTCA
27352136 G
1 G
27352137 TTCAATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.11, T:0.67
Consensus pattern (13 bp):
GATTTTTTTTTCA
Found at i:27355896 original size:20 final size:20
Alignment explanation
Indices: 27355859--27355896 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27355849 GCGCACTATT
*
27355859 TTTTTCTTTATTTTTTTTCC
1 TTTTTCTTTATTTATTTTCC
27355879 TTTTTCTTT-TCTTATTTT
1 TTTTTCTTTAT-TTATTTT
27355897 AACAAGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTATTTATTTTCC
Found at i:27366247 original size:22 final size:19
Alignment explanation
Indices: 27366221--27366268 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
27366211 ATGCAATCTT
27366221 AGATATGATACAATCTTAGA
1 AGATATGAT-CAATCTTAGA
27366241 TATGATATG--CAATCTTAGA
1 -A-GATATGATCAATCTTAGA
27366260 AGATATGAT
1 AGATATGAT
27366269 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (19 bp):
AGATATGATCAATCTTAGA
Found at i:27366266 original size:17 final size:19
Alignment explanation
Indices: 27366209--27366259 Score: 88
Period size: 17 Copynumber: 2.8 Consensus size: 19
27366199 ATAATCTTCA
27366209 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27366228 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
27366245 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
27366260 AGATATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.57
19 13 0.43
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Done.