Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 58 of 129
Found at i:8535520 original size:57 final size:56
Alignment explanation
Indices: 8535412--8535588 Score: 162
Period size: 59 Copynumber: 3.0 Consensus size: 56
8535402 GAAGAAAAAG
* *
8535412 AAAAGAAAAAAAAATGAAAATAAAAATATAATAGTAATAATAATAATAATAATAAT
1 AAAAGAAAAAAAAATGAAAATAAAAATATAAAAGGAATAATAATAATAATAATAAT
*
8535468 AAAAGAAAATAAACATAGAAAAATAAAAATA-AAAAGGAAAGTAATAATAATAATAATAAT
1 AAAAGAAAA-AAAAAT-G-AAAATAAAAATATAAAAGG-AA-TAATAATAATAATAATAAT
* * * * * *
8535528 AATAACAATAATAATAA-GAATAATAATAATATAATAA-TAATAATAATAACAATGATAAT
1 AA-AAGAA-AA-AAAAATGAA-AATAAAAATATAA-AAGGAATAATAATAATAATAATAAT
8535587 AA
1 AA
8535589 TACTTTATAC
Statistics
Matches: 101, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
56 9 0.09
57 5 0.05
58 5 0.05
59 35 0.35
60 33 0.33
61 6 0.06
62 8 0.08
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (56 bp):
AAAAGAAAAAAAAATGAAAATAAAAATATAAAAGGAATAATAATAATAATAATAAT
Found at i:8536275 original size:23 final size:23
Alignment explanation
Indices: 8536249--8536299 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
8536239 GAAAAAAATA
*
8536249 AAAATAGATA-ATTAAGTTTGTTC
1 AAAATAGATAGA-TAAGTATGTTC
8536272 AAAATAGATAGATAAGTATGTTC
1 AAAATAGATAGATAAGTATGTTC
8536295 AAAAT
1 AAAAT
8536300 GAACAATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (23 bp):
AAAATAGATAGATAAGTATGTTC
Found at i:8541510 original size:12 final size:12
Alignment explanation
Indices: 8541493--8541526 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8541483 TTTATCTAAA
8541493 TATATTAAAAAT
1 TATATTAAAAAT
8541505 TATATT-AAAAT
1 TATATTAAAAAT
*
8541516 AATATTAAAAA
1 TATATTAAAAA
8541527 ATTTAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TATATTAAAAAT
Found at i:8541534 original size:9 final size:11
Alignment explanation
Indices: 8541490--8541534 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
8541480 AAATTTATCT
8541490 AAAT-ATATTAA
1 AAATAATATT-A
*
8541501 AAATTATATTA
1 AAATAATATTA
8541512 AAATAATATTA
1 AAATAATATTA
8541523 AAA-AAT-TTA
1 AAATAATATTA
8541532 AAA
1 AAA
8541535 CCTAAAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 6 0.19
10 3 0.09
11 18 0.56
12 5 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATAATATTA
Found at i:8548536 original size:32 final size:32
Alignment explanation
Indices: 8548500--8548590 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 32
8548490 TTACCTTGTA
8548500 TTATATATTATGTTTAAATTTTACTTATT-AAT
1 TTATATATTAT-TTTAAATTTTACTTATTAAAT
*
8548532 TTATATTTATTTAATTTTTAAATTTTAATTTATTAAAT
1 TTATA--TA-TT-A-TTTTAAATTTT-ACTTATTAAAT
8548570 TT-TATA-TATTTTATAATTTTA
1 TTATATATTATTTTA-AATTTTA
8548591 TCATTTATGG
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
31 6 0.12
32 12 0.24
33 1 0.02
34 2 0.04
35 4 0.08
36 11 0.22
37 9 0.18
38 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (32 bp):
TTATATATTATTTTAAATTTTACTTATTAAAT
Found at i:8548545 original size:29 final size:30
Alignment explanation
Indices: 8548503--8548564 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
8548493 CCTTGTATTA
* *
8548503 TATATTATGTTTAAATTTT-ACTTATTAATT
1 TATATTATATTTAAATTTTAAATT-TTAATT
*
8548533 TATATT-TATTTAATTTTTAAATTTTAATT
1 TATATTATATTTAAATTTTAAATTTTAATT
8548562 TAT
1 TAT
8548565 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
TATATTATATTTAAATTTTAAATTTTAATT
Found at i:8548555 original size:23 final size:23
Alignment explanation
Indices: 8548531--8548582 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
8548521 TACTTATTAA
*
8548531 TTTATATTTATTTAATTTTTAAAT
1 TTTA-ATTTATTAAATTTTTAAAT
*
8548555 TTTAATTTATTAAATTTTATATAT
1 TTTAATTTATTAAATTTT-TAAAT
8548579 TTTA
1 TTTA
8548583 TAATTTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTAATTTATTAAATTTTTAAAT
Found at i:8548567 original size:15 final size:14
Alignment explanation
Indices: 8548541--8548590 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 14
8548531 TTTATATTTA
8548541 TTTAATTTTTAAAT
1 TTTAATTTTTAAAT
8548555 TTTAATTTATTAAAT
1 TTTAATTT-TTAAAT
8548570 TTTATATATTTTATAAT
1 TTTA-AT-TTTTA-AAT
8548587 TTTA
1 TTTA
8548591 TCATTTATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.25
15 10 0.31
16 5 0.16
17 9 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTTTTAAAT
Found at i:8549457 original size:63 final size:63
Alignment explanation
Indices: 8549336--8549458 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 63
8549326 CAAAAAGCAT
* * * * * *
8549336 CTTAAATAATCACTTCATAAAAATTTAAAGTAGATTATTGAAGGTATTTTTGACAAAAAATAC
1 CTTAAATAATCACTTCATAAAAATTTAAAGGAGATTATTCAAGGCATATTTAAAAAAAAATAC
* * * *
8549399 CTTAAATAATCCCTTACA-AAAAGTTTAATGGAGGTTATTCAAGGCATATTTAAAAAAAAA
1 CTTAAATAATCACTT-CATAAAAATTTAAAGGAGATTATTCAAGGCATATTTAAAAAAAAA
8549459 AAAACACCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
63 47 0.96
64 2 0.04
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (63 bp):
CTTAAATAATCACTTCATAAAAATTTAAAGGAGATTATTCAAGGCATATTTAAAAAAAAATAC
Found at i:8550381 original size:23 final size:23
Alignment explanation
Indices: 8550354--8550397 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8550344 AATTGGATCA
*
8550354 AATTGAAATCAAATTTTTTAATG
1 AATTGAAATCAAAATTTTTAATG
8550377 AATTGAAATCAAAATTTTTAA
1 AATTGAAATCAAAATTTTTAA
8550398 GTAAAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
AATTGAAATCAAAATTTTTAATG
Found at i:8551279 original size:22 final size:22
Alignment explanation
Indices: 8551254--8551295 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8551244 ATTTATGTGA
*
8551254 TAATTTTTTTATTTTA-ATAAAT
1 TAATTTTATT-TTTTACATAAAT
8551276 TAATTTTATTTTTTACATAA
1 TAATTTTATTTTTTACATAA
8551296 TTTCTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATTTTATTTTTTACATAAAT
Found at i:8569257 original size:63 final size:63
Alignment explanation
Indices: 8569121--8569261 Score: 194
Period size: 63 Copynumber: 2.2 Consensus size: 63
8569111 TTTTTGAGAA
** * *
8569121 AAAATACCTTTAATAATTTTTTATTAAAAATTGTTTGGGATTATTAAAGGTAACTTGTAGTAG
1 AAAATACCTTTAATAATTTCCTATTAAAAATTGTTTGGGATTATTAAAGGTAACTTATAGCAG
* * *
8569184 AGAATGCCTTTAATAATTTCCTATTAAAAATTGTTTGGGATTATTAAAGGTGTA-TTATAGCAG
1 AAAATACCTTTAATAATTTCCTATTAAAAATTGTTTGGGATTATTAAAGGT-AACTTATAGCAG
*
8569247 AAAACACCTTTAATA
1 AAAATACCTTTAATA
8569262 TTCCACTACT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
63 66 0.99
64 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (63 bp):
AAAATACCTTTAATAATTTCCTATTAAAAATTGTTTGGGATTATTAAAGGTAACTTATAGCAG
Found at i:8569621 original size:239 final size:238
Alignment explanation
Indices: 8569186--8569947 Score: 992
Period size: 238 Copynumber: 3.2 Consensus size: 238
8569176 TGTAGTAGAG
* * * * * *
8569186 AATGCCTTTAATAATTTCCTATTAAAAATTGTTTGGGATTATTAAAGGTGTATTATAGCAGAAAA
1 AATGCCTTTAATAATTTCCTTTTAAAAATTATTTGGGATTATTAAAGGCGTCTTCTAGTAGAAAA
* * * *
8569251 CACCTTTAATATTCCACTACTAAAATTTTAA-GGGGTTATTGAAGCCGTTTATTCAAGAAAAATG
66 CACCTTCAATATTCCACTACTAAAATTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAATG
* * *
8569315 TCTTCACTAATTCATTCTAATTTTTGAAAGAATTTATTGAAGGCATTGTTTGCATTATACGCCTT
131 -CTTTACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTT
*
8569380 CAATCATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATA
195 CAATAATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATA
* * * * * *
8569424 AATACCTTCAATAATTTCGTTTTAAAAATTGTTTGGGATTATTATAGGCGTCTTCTAGTAAAAAA
1 AATGCCTTTAATAATTTCCTTTTAAAAATTATTTGGGATTATTAAAGGCGTCTTCTAGTAGAAAA
*
8569489 AACCTTCAATATTCCACTACTAAAATTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAATG
66 CACCTTCAATATTCCACTACTAAAATTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAATG
* * * ** * *
8569554 CCTTTACTAAATCGTTCTAGTTTTTGAAGGAATTTGGTGAAGGCGTTTTTTGCATTATACACCTT
131 -CTTTACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTT
* * * * *
8569619 CAATAATTTTTGTACAAAATTATTGAAGGTGTATATTTAGATTA
195 CAATAATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATA
* * *
8569663 AATGCCTTTAATAATTT--TTTTAAAAAATTATTTGAGATTATTAAAGGCTTCTCCTAGTAGAAA
1 AATGCCTTTAATAATTTCCTTTT-AAAAATTATTTGGGATTATTAAAGGCGTCTTCTAGTAGAAA
* ** *
8569726 ACACCTTCAATATTTCACTACTAAAATTTTAAGGAAGTTATTGAAGGTGTTTATTCCATAAAAAT
65 ACACCTTCAATATTCCACTACTAAAATTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAAT
* * * * * *
8569791 GCTTTCACTAATTCGTTCTAATTTTTGAAAAAAATTATTAAAGGTATTTTTTGTATTATATGCCT
130 GCTTT-ACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCT
* *
8569856 TCAATAATTTTTGTACAGAATTATTAAAGGCA-TTTTTTAGAATA
194 TCAATAATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATA
* * * *
8569900 AACGCCTTAAATAATTTCCTTTGAAAAATTATTTGGGATTATTTAAGG
1 AATGCCTTTAATAATTTCCTTTTAAAAATTATTTGGGATTATTAAAGG
8569948 TATTTTTTAG
Statistics
Matches: 449, Mismatches: 70, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
237 32 0.07
238 277 0.62
239 140 0.31
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (238 bp):
AATGCCTTTAATAATTTCCTTTTAAAAATTATTTGGGATTATTAAAGGCGTCTTCTAGTAGAAAA
CACCTTCAATATTCCACTACTAAAATTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAATG
CTTTACTAATTCGTTCTAATTTTTGAAAGAATTTATTGAAGGCATTTTTTGCATTATACGCCTTC
AATAATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATA
Found at i:8569907 original size:51 final size:51
Alignment explanation
Indices: 8569809--8569916 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
8569799 TAATTCGTTC
* * * * *
8569809 TAATTTTTGAAAAAAATTATTAAAGGTATTTTTTGTATTATATGCCTTCAA
1 TAATTTTTGAAAAAAATTATTAAAGGCATTTTTTGTAATAAACGCCTTAAA
* * *
8569860 TAATTTTTGTACAGAATTATTAAAGGCATTTTTTAG-AATAAACGCCTTAAA
1 TAATTTTTGAAAAAAATTATTAAAGGCATTTTTT-GTAATAAACGCCTTAAA
8569911 TAATTT
1 TAATTT
8569917 CCTTTGAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (51 bp):
TAATTTTTGAAAAAAATTATTAAAGGCATTTTTTGTAATAAACGCCTTAAA
Found at i:8570156 original size:476 final size:470
Alignment explanation
Indices: 8569190--8570090 Score: 1063
Period size: 476 Copynumber: 1.9 Consensus size: 470
8569180 GTAGAGAATG
* * * *
8569190 CCTTTAATAATTTCCTATT-AAAAATTGTTTGGGATTATTAAAGGTGTATTATAGCAGAAAACAC
1 CCTTTAATAATTT--TTTTAAAAAATTATTTGAGATTATTAAAGGTGTATCATAGCAGAAAACAC
* *
8569254 CTTTAATATTCCACTACTAAAATTTTAAGGGGTTATTGAAGCCGTTTATTCAAGAAAAATGTCTT
64 CTTCAATATTCCACTACTAAAATTTTAAGGAGTTATTGAAGCCGTTTATTCAAGAAAAATGTCTT
* * *
8569319 CACTAATTCATTCTAATTTTTGAAAGAATTTATTGAAGGCATTGTTTGCATTATACGCCTTCAAT
129 CACTAATTCATTCTAATTTTTGAAAAAAATTATTAAAGGCATTGTTTGCATTATACGCCTTCAAT
* * * * * * *
8569384 CATTTTTGTACAGAATTATTGAAGGTATTTTTTTAGAATAAATACCTTCAATAATTTCGTTTTAA
194 AATTTTTGTACAGAATTATTAAAGGCATTTTTTTAGAATAAACACCTTAAATAATTTCCTTTGAA
* * *
8569449 AAATTGTTTGGGATTATTATAGGCGTCTTCTAGTAAAAAAAACCTTCAATATTCCACTACTAAAA
259 AAATTATTTGGGATTATTATAGGCATCTTCTAGT-AAAAAAA-CTGC-A-ATTCCAC-ACT-AAA
* * * * * * *
8569514 TTTTAAGGGGGTTATTGAAGGCGTTTATTCCATAAAAATGCCTTTACTAAATCGTTCTAGTTTTT
318 TTTTAAGGAGATTATTAAAGGCGTTTATTCCAAAAAAATACATTTACTAAATCGCTCTAGTTTTT
* * * *
8569579 GAAGGAATTTGGTGAAGGCGTTTTTTGCATTATACACCTTCAATAATTTTTGTACAAAATTATTG
383 GAAGGAATTTAGTGAAGGCGTTTTCTGCATAATACACCTTCAATAATTTTTGTACAAAATTAGTG
** * *
8569644 AAGGTGTATATTTAGATTAAATG
448 AAGACGTATATTTAGATAAAATA
* * *
8569667 CCTTTAATAATTTTTTTAAAAAATTATTTGAGATTATTAAAGGCT-TCTCCTAGTAGAAAACACC
1 CCTTTAATAATTTTTTTAAAAAATTATTTGAGATTATTAAAGG-TGTATCATAGCAGAAAACACC
* ** * *
8569731 TTCAATATTTCACTACTAAAATTTTAAGGAAGTTATTGAAGGTGTTTATTCCATAAAAATG-CTT
65 TTCAATATTCCACTACTAAAATTTTAAGG-AGTTATTGAAGCCGTTTATTCAAGAAAAATGTC-T
* * * * *
8569795 TCACTAATTCGTTCTAATTTTTGAAAAAAATTATTAAAGGTATTTTTTGTATTATATGCCTTCAA
128 TCACTAATTCATTCTAATTTTTGAAAAAAATTATTAAAGGCATTGTTTGCATTATACGCCTTCAA
*
8569860 TAATTTTTGTACAGAATTATTAAAGGCA-TTTTTTAGAATAAACGCCTTAAATAATTTCCTTTGA
193 TAATTTTTGTACAGAATTATTAAAGGCATTTTTTTAGAATAAACACCTTAAATAATTTCCTTTGA
* * * * *
8569924 AAAATTATTTGGGATTATT-TAAGGTATTTTTTAGT-ATAAAA-TGC-CTT-CA-A-T-AATTTT
258 AAAATTATTTGGGATTATTAT-AGGCATCTTCTAGTAAAAAAACTGCAATTCCACACTAAATTTT
* * * *
8569981 AAGGAGATTATTAAAGGCGTTTCTTCCAAAAAAATACATTTACTAATTTGCTCTAATTTTTTGAA
322 AAGGAGATTATTAAAGGCGTTTATTCCAAAAAAATACATTTACTAAATCGCTCT-AGTTTTTGAA
* *
8570046 -GAATTTATTGAAGGTGTTTTCTGCATAATACACCTTCAATAATTT
386 GGAATTTAGTGAAGGCGTTTTCTGCATAATACACCTTCAATAATTT
8570091 CCTCCATTCT
Statistics
Matches: 364, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
463 90 0.25
464 9 0.02
465 1 0.00
466 1 0.00
468 2 0.01
469 2 0.01
472 2 0.01
474 5 0.01
475 4 0.01
476 125 0.34
477 123 0.34
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (470 bp):
CCTTTAATAATTTTTTTAAAAAATTATTTGAGATTATTAAAGGTGTATCATAGCAGAAAACACCT
TCAATATTCCACTACTAAAATTTTAAGGAGTTATTGAAGCCGTTTATTCAAGAAAAATGTCTTCA
CTAATTCATTCTAATTTTTGAAAAAAATTATTAAAGGCATTGTTTGCATTATACGCCTTCAATAA
TTTTTGTACAGAATTATTAAAGGCATTTTTTTAGAATAAACACCTTAAATAATTTCCTTTGAAAA
ATTATTTGGGATTATTATAGGCATCTTCTAGTAAAAAAACTGCAATTCCACACTAAATTTTAAGG
AGATTATTAAAGGCGTTTATTCCAAAAAAATACATTTACTAAATCGCTCTAGTTTTTGAAGGAAT
TTAGTGAAGGCGTTTTCTGCATAATACACCTTCAATAATTTTTGTACAAAATTAGTGAAGACGTA
TATTTAGATAAAATA
Found at i:8573976 original size:35 final size:35
Alignment explanation
Indices: 8573922--8573990 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
8573912 TATATAAACC
* *
8573922 AAATGTCTTCTGGGTATAAACCTACAACTCACTTA
1 AAATGTCTTCTGGGCATAAACCAACAACTCACTTA
* * *
8573957 AAATGTTTTTTGGGCATAAACCAACAACTGACTT
1 AAATGTCTTCTGGGCATAAACCAACAACTCACTT
8573991 CACATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (35 bp):
AAATGTCTTCTGGGCATAAACCAACAACTCACTTA
Found at i:8574305 original size:126 final size:126
Alignment explanation
Indices: 8574092--8574347 Score: 297
Period size: 126 Copynumber: 2.0 Consensus size: 126
8574082 ATTAAAGGCA
* * * * *
8574092 TTTTTAACCAAAATCGCCTTCAATAATCTCACCTAAAAATTTATTGTCCAGATTATTAAAGGCGT
1 TTTTTAACAAAAACCGCCTTCAATAATCCCACCTAAAAATTTATTGTCCAGATTATTAAAAGCGC
* * * * * *
8574157 TTTGGGCCAAAAACAGCTTCAAGAATCCGTTGCA-ACTTTTTTGTATGGATTATTGAA-GGTG
66 TTTGCGACAAAAACAGCTTCAAGAATCCATTCCATA-TTTTTTCTATAGATTATT-AAGGGTG
* ** *
8574218 TTTTTAACAAAAACCGCCTTCAATAATCCCACTTAAAAATTTATTGAT-TGGATTATTAAAAGTG
1 TTTTTAACAAAAACCGCCTTCAATAATCCCACCTAAAAATTTATTG-TCCAGATTATTAAAAGCG
8574282 CTTT-CGACAAAAA-ATGCCTTCAAGAATCCATTCCATATTTTTTCTATAGATTATTAAGGGTG
65 CTTTGCGACAAAAACA-G-CTTCAAGAATCCATTCCATATTTTTTCTATAGATTATTAAGGGTG
8574344 TTTT
1 TTTT
8574348 CTTGTTAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
124 1 0.01
125 10 0.09
126 97 0.88
127 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (126 bp):
TTTTTAACAAAAACCGCCTTCAATAATCCCACCTAAAAATTTATTGTCCAGATTATTAAAAGCGC
TTTGCGACAAAAACAGCTTCAAGAATCCATTCCATATTTTTTCTATAGATTATTAAGGGTG
Found at i:8582959 original size:19 final size:18
Alignment explanation
Indices: 8582918--8582955 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8582908 CAACCACTAC
8582918 AACAATTTAAAAAAAGTA
1 AACAATTTAAAAAAAGTA
8582936 AACAATTTAAAGAAAA-TA
1 AACAATTTAAA-AAAAGTA
8582954 AA
1 AA
8582956 ACAACAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AACAATTTAAAAAAAGTA
Found at i:8584324 original size:19 final size:20
Alignment explanation
Indices: 8584300--8584341 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
8584290 ACACATATAG
8584300 TATATGTAATAAT-AAATTT
1 TATATGTAATAATAAAATTT
8584319 TATATGTAATAATAAAATTT
1 TATATGTAATAATAAAATTT
8584339 TAT
1 TAT
8584342 CATATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TATATGTAATAATAAAATTT
Found at i:8584914 original size:13 final size:13
Alignment explanation
Indices: 8584885--8584913 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8584875 CCTAGTAAAC
8584885 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
8584898 TTTTCTTTTT-TT
1 TTTTCTTTTTCTT
8584910 TTTT
1 TTTT
8584914 TTGCAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:8594664 original size:16 final size:17
Alignment explanation
Indices: 8594633--8594667 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8594623 TTAAAATAAT
8594633 TTATTTATTACTTAAAA
1 TTATTTATTACTTAAAA
*
8594650 TTATTT-TTTCTTAAAA
1 TTATTTATTACTTAAAA
8594666 TT
1 TT
8594668 TATATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTATTACTTAAAA
Found at i:8594670 original size:17 final size:18
Alignment explanation
Indices: 8594630--8594670 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
8594620 AAATTAAAAT
8594630 AATTTATTTATTACTTAA
1 AATTTATTTATTACTTAA
*
8594648 AA-TTATTT-TTTCTTAA
1 AATTTATTTATTACTTAA
8594664 AATTTAT
1 AATTTAT
8594671 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTATTTATTACTTAA
Found at i:8595636 original size:2 final size:2
Alignment explanation
Indices: 8595629--8595657 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8595619 GAGTGTGCAC
8595629 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
8595658 AGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:8595662 original size:2 final size:2
Alignment explanation
Indices: 8595657--8595687 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8595647 GTGTGTGTGT
8595657 GA GA GA GA GA GA GA GA GA G- GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
8595688 ACAGTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8603024 original size:75 final size:75
Alignment explanation
Indices: 8602901--8603126 Score: 416
Period size: 75 Copynumber: 3.0 Consensus size: 75
8602891 TAAGCAGAAC
* * *
8602901 TTAATTAACTCAAAATTAAAAGCATAAAAAGTCATCAGAAAATCAAAACCCTATAGTGTCAAATA
1 TTAATTAATTCAAAATTAAAAGCATAAAAGGTCATCAGTAAATCAAAACCCTATAGTGTCAAATA
8602966 ATACAACTCA
66 ATACAACTCA
8602976 TTAATTAATTCAAAATTAAAAGCATAAAAGGTCATCAGTAAATCAAAACCCTATAGTGTCAAATA
1 TTAATTAATTCAAAATTAAAAGCATAAAAGGTCATCAGTAAATCAAAACCCTATAGTGTCAAATA
8603041 ATACAACTCA
66 ATACAACTCA
*
8603051 TTAATTAATTCAAAATTAAAAGCATAAAAGATCATCAGTAAATCAAAACCCTATAGTGTCAAATA
1 TTAATTAATTCAAAATTAAAAGCATAAAAGGTCATCAGTAAATCAAAACCCTATAGTGTCAAATA
8603116 ATACAACTCA
66 ATACAACTCA
8603126 T
1 T
8603127 GACAAACCAT
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 147 1.00
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.26
Consensus pattern (75 bp):
TTAATTAATTCAAAATTAAAAGCATAAAAGGTCATCAGTAAATCAAAACCCTATAGTGTCAAATA
ATACAACTCA
Found at i:8607271 original size:20 final size:19
Alignment explanation
Indices: 8607248--8607381 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 19
8607238 GCACTAAGCT
*
8607248 TAAACCCTAAACCCTAAAAC
1 TAAACCCTAAACCCT-AACC
*
8607268 TAAACTTCTAAACCCTAACC
1 TAAAC-CCTAAACCCTAACC
* * **
8607288 TAAACCCCAAAACCTAAAA
1 TAAACCCTAAACCCTAACC
*
8607307 TAAACCCCCAAACCCTAACC
1 TAAA-CCCTAAACCCTAACC
*
8607327 TAAACCCTTAAACCTTAACC
1 TAAACCC-TAAACCCTAACC
*
8607347 TAGACCCTTAAACCCTAACC
1 TAAACCC-TAAACCCTAACC
8607367 TAAACCCCTAAACCC
1 TAAA-CCCTAAACCC
8607382 CTAAACCCTA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
19 16 0.17
20 67 0.71
21 12 0.13
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.17
Consensus pattern (19 bp):
TAAACCCTAAACCCTAACC
Found at i:8607375 original size:13 final size:12
Alignment explanation
Indices: 8607316--8607392 Score: 57
Period size: 14 Copynumber: 5.8 Consensus size: 12
8607306 ATAAACCCCC
8607316 AAACCCTAACCT
1 AAACCCTAACCT
8607328 AAACCCTTAAACCT
1 AAACCC-T-AACCT
*
8607342 TAA-CCTAGACCCTT
1 AAACCCTA-A-CC-T
8607356 AAACCCTAACCT
1 AAACCCTAACCT
8607368 AAACCCCTAAACCCCT
1 AAA-CCCT-AA--CCT
8607384 AAACCCTAA
1 AAACCCTAA
8607393 ATTTAAACCC
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
11 1 0.02
12 12 0.23
13 11 0.21
14 15 0.28
15 8 0.15
16 6 0.11
ACGTcount: A:0.40, C:0.40, G:0.01, T:0.18
Consensus pattern (12 bp):
AAACCCTAACCT
Found at i:8607787 original size:12 final size:12
Alignment explanation
Indices: 8607768--8607845 Score: 74
Period size: 12 Copynumber: 6.7 Consensus size: 12
8607758 AACCAACTCG
8607768 AACC-TAACCTA
1 AACCTTAACCTA
*
8607779 AACCCTAACC-A
1 AACCTTAACCTA
* *
8607790 AACTTTAAGCTA
1 AACCTTAACCTA
8607802 AACCTTAAGCC-A
1 AACCTTAA-CCTA
*
8607814 AACCTTAAGCTA
1 AACCTTAACCTA
8607826 AACCTTAAGCC-A
1 AACCTTAA-CCTA
8607838 AACCTTAA
1 AACCTTAA
8607846 ACCTTAAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
11 13 0.24
12 40 0.73
13 2 0.04
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.21
Consensus pattern (12 bp):
AACCTTAACCTA
Found at i:8607821 original size:24 final size:24
Alignment explanation
Indices: 8607768--8607845 Score: 115
Period size: 24 Copynumber: 3.3 Consensus size: 24
8607758 AACCAACTCG
* *
8607768 AACC-TAACCTAAACCCTAA-CCA
1 AACCTTAAGCTAAACCTTAAGCCA
*
8607790 AACTTTAAGCTAAACCTTAAGCCA
1 AACCTTAAGCTAAACCTTAAGCCA
8607814 AACCTTAAGCTAAACCTTAAGCCA
1 AACCTTAAGCTAAACCTTAAGCCA
8607838 AACCTTAA
1 AACCTTAA
8607846 ACCTTAAAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 3 0.06
23 13 0.26
24 34 0.68
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.21
Consensus pattern (24 bp):
AACCTTAAGCTAAACCTTAAGCCA
Found at i:8610064 original size:18 final size:19
Alignment explanation
Indices: 8610041--8610086 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
8610031 TGTTCTTGTA
8610041 AAAAATGTTAAAAAATT-G
1 AAAAATGTTAAAAAATTAG
*
8610059 AAAAAT-TTTAAAAATTAG
1 AAAAATGTTAAAAAATTAG
8610077 AAAATATGTT
1 AAAA-ATGTT
8610087 TTGAGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 2 0.08
20 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
AAAAATGTTAAAAAATTAG
Found at i:8610117 original size:3 final size:3
Alignment explanation
Indices: 8610109--8610144 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
8610099 TTCTTATTTA
8610109 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
8610145 AGTTTGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8610771 original size:9 final size:9
Alignment explanation
Indices: 8610743--8610832 Score: 63
Period size: 9 Copynumber: 9.3 Consensus size: 9
8610733 TGTTTGTTTT
*
8610743 AAGAGAAAA
1 AAGAAAAAA
8610752 AAGAAGGAAAA
1 AAGAA--AAAA
8610763 AAGAAAAAA
1 AAGAAAAAA
8610772 AAGAAAAAA
1 AAGAAAAAA
**
8610781 CTAATTAAAAA
1 --AAGAAAAAA
* *
8610792 AGGAAAAAG
1 AAGAAAAAA
*
8610801 AAGAGAAAGA
1 AAGA-AAAAA
*
8610811 AAGAATAAA
1 AAGAAAAAA
8610820 AAGATAAAAA
1 AAGA-AAAAA
8610830 AAG
1 AAG
8610833 GTTATTTGGA
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
9 32 0.52
10 14 0.23
11 16 0.26
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.06
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:8610832 original size:19 final size:18
Alignment explanation
Indices: 8610749--8610832 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
8610739 TTTTAAGAGA
*
8610749 AAAAAGAAGGAAAAAAGA-
1 AAAAA-AAGAAAAAAAGAT
8610767 AAAAAAAGAAAAAACTA-ATT
1 AAAAAAAGAAAAAA--AGA-T
* *
8610787 AAAAAAGGAAAAAGAAGAG
1 AAAAAAAGAAAAA-AAGAT
*
8610806 AAAGAAAGAATAAAAAGAT
1 AAAAAAAGAA-AAAAAGAT
8610825 AAAAAAAG
1 AAAAAAAG
8610833 GTTATTTGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
17 8 0.15
18 6 0.12
19 21 0.40
20 16 0.31
21 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGAT
Found at i:8615022 original size:91 final size:91
Alignment explanation
Indices: 8614867--8615048 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
8614857 ATAAAGTCAT
8614867 CTATTTGCACATATCAAAGCAAGTATGTATATGTATTCAAACTTATACATCATATCATAAAGTCG
1 CTATTTGCACATATCAAAGCAAGTATGTATATGTATTCAAACTTATACATCATATCATAAAGTCG
8614932 ATACATTTACCTCCATCATGTCAAGC
66 ATACATTTACCTCCATCATGTCAAGC
8614958 CTATTTGCACATATCAAAGCAAGTATGTATATGTATTCAAACTTATACATCATATCATAAAGTCG
1 CTATTTGCACATATCAAAGCAAGTATGTATATGTATTCAAACTTATACATCATATCATAAAGTCG
*
8615023 ATACATTTACCTCCATCATGTTAAGC
66 ATACATTTACCTCCATCATGTCAAGC
8615049 TTTGTTGTTC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (91 bp):
CTATTTGCACATATCAAAGCAAGTATGTATATGTATTCAAACTTATACATCATATCATAAAGTCG
ATACATTTACCTCCATCATGTCAAGC
Found at i:8618013 original size:157 final size:157
Alignment explanation
Indices: 8617727--8618042 Score: 623
Period size: 157 Copynumber: 2.0 Consensus size: 157
8617717 AGCTCATCCA
8617727 ACTTTCTCCATATCTCATTTGAGGTTGCGCATTTTGAGACCAAGTTGAAGTTGTGGGGTCAAGAG
1 ACTTTCTCCATATCTCATTTGAGGTTGCGCATTTTGAGACCAAGTTGAAGTTGTGGGGTCAAGAG
8617792 CTCCATATAGTAAGCACTCTACCTTGGCATCATTCATCACTTGCCTTATATAATTTCCATCATTT
66 CTCCATATAGTAAGCACTCTACCTTGGCATCATTCATCACTTGCCTTATATAATTTCCATCATTT
8617857 GAAGGAATTCCAAGCCTTTTCTCTATC
131 GAAGGAATTCCAAGCCTTTTCTCTATC
8617884 ACTTTCTCCATATCTCATTTGAGGTTGCGCATTTTGAGACCAAGTTGAAGTTGTGGGGTCAAGAG
1 ACTTTCTCCATATCTCATTTGAGGTTGCGCATTTTGAGACCAAGTTGAAGTTGTGGGGTCAAGAG
*
8617949 CTCCATATAGTAAGCACTCTACCTTGGCATCATTCATCACTTGCCTTATATAATTTGCATCATTT
66 CTCCATATAGTAAGCACTCTACCTTGGCATCATTCATCACTTGCCTTATATAATTTCCATCATTT
8618014 GAAGGAATTCCAAGCCTTTTCTCTATC
131 GAAGGAATTCCAAGCCTTTTCTCTATC
8618041 AC
1 AC
8618043 ATTCCAAGCT
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (157 bp):
ACTTTCTCCATATCTCATTTGAGGTTGCGCATTTTGAGACCAAGTTGAAGTTGTGGGGTCAAGAG
CTCCATATAGTAAGCACTCTACCTTGGCATCATTCATCACTTGCCTTATATAATTTCCATCATTT
GAAGGAATTCCAAGCCTTTTCTCTATC
Found at i:8620598 original size:5 final size:5
Alignment explanation
Indices: 8620588--8620615 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8620578 AATATAAACC
8620588 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
8620616 CAAACTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:8624098 original size:18 final size:19
Alignment explanation
Indices: 8624072--8624111 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8624062 ACTTGTTTCT
8624072 AAACAAAATAGAAATA-GC
1 AAACAAAATAGAAATATGC
* *
8624090 AAACTAAATATAAATATGC
1 AAACAAAATAGAAATATGC
8624109 AAA
1 AAA
8624112 TTGAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.65, C:0.10, G:0.07, T:0.17
Consensus pattern (19 bp):
AAACAAAATAGAAATATGC
Found at i:8626352 original size:21 final size:21
Alignment explanation
Indices: 8626323--8626367 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
8626313 GGTTAAACAT
*
8626323 AAATA-AAAAGAATCA-CCAA
1 AAATAGAAAAAAATCATCCAA
*
8626342 AAATAGAAAAAAATCATCCAT
1 AAATAGAAAAAAATCATCCAA
8626363 AAATA
1 AAATA
8626368 CCGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 9 0.41
21 8 0.36
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAGAAAAAAATCATCCAA
Found at i:8631710 original size:33 final size:33
Alignment explanation
Indices: 8631661--8631727 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
8631651 TTGGACATAT
*
8631661 CACATAAAATGTGATTAGATAAAAAGTTGTCAC
1 CACATAAAATGGGATTAGATAAAAAGTTGTCAC
* *
8631694 CACATAAGATGGGATTAGATAAGAAGTTGTCAC
1 CACATAAAATGGGATTAGATAAAAAGTTGTCAC
8631727 C
1 C
8631728 TAATTAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (33 bp):
CACATAAAATGGGATTAGATAAAAAGTTGTCAC
Found at i:8642216 original size:541 final size:542
Alignment explanation
Indices: 8641194--8644445 Score: 5564
Period size: 541 Copynumber: 6.0 Consensus size: 542
8641184 TTACTCTAAT
*
8641194 TAGGCTAGGCATTTTCTTTAACTAATCCTC-AAGGGATCGACACTCAGACTTTGTAATCTCTATT
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAA-GGATCGACACTCAGACTTTGTAGTCTCTATT
* *
8641258 ATTACTTGATGGCCTGTGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCACCATTACAGAGGA
65 ATTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGA
8641323 TTAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTT
130 TTAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTT
* * * *
8641388 TTGTGTATATAACTTAGGCTAGAAATTAAATTTACTTTAGTTCTAGGTGTATATACTTAGAGTTT
195 TTGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTT
8641453 TTATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTA
260 TTATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTA
* *
8641518 GGAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACACATAGGAGGATTAGGGGTAAG
325 GGAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAG
*
8641583 ATACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTAT
390 AGACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTAT
*
8641648 GCCTGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGAT
455 GCCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGAT
* * *
8641713 TAAAAGTACAAT-ATCCAAATGG
520 TAAAACTGCAATCATCCAAATGA
8641735 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
*
8641800 TTACTTGATGGCCTATGTGCTTGTAAGATTTTGCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
66 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
8641865 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
131 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
* *
8641930 TGTGTATATACCTTAGGCTAGAAATTAAATTTGCTTTAGTTCTAGGTTTACATACTTAGAGTTTT
196 TGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
8641995 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
261 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
* * * *
8642060 GAATCATGAATTGATTTCTTTAGATCTTAAGGTTGGGGCTACTCGTAGAAGGATTAGGGGTAAGA
326 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
* * *
8642125 GACAAACTGATCCTACTATCACCATGGTTGAGCAAGACACCAGAGACTTTAAGGATTATGCTATG
391 GACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
*
8642190 CCTGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
456 CCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
*
8642255 AAAACTCCAATCATCCAAATGA
521 AAAACTGCAATCATCCAAATGA
*
8642277 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAGGGATCGACACTCAGACTTTGTAGTCTCTATTA
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
* *
8642342 TTACTTGATGGCCTGTGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCACCATTACAGAGGAT
66 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
8642407 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
131 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
* *
8642472 TGTGTATATACCTTAGGCTAGAAACTAGATTTGCTTTAGTTCTAGATGTACATACTTAGAGTTTT
196 TGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
* * *
8642537 TATC-TTTTTCTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCGTGTATGCACTTTAGTAG
261 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
8642601 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
326 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
* * *
8642666 GACAAACTGATCCTACTATCATCATGATTGAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
391 GACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
* *
8642731 CCCGATCTCCATGGTTTTAGCCTAACATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
456 CCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
*
8642796 AAAACTGCAATCATCTAAATGA
521 AAAACTGCAATCATCCAAATGA
* *
8642818 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAGGGATCGACACTCAGACTTTGTAGTCTTTATTA
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
*
8642883 TTACTTGATGGCCTGTGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
66 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
*
8642948 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCACTTT
131 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
* *
8643013 TATGTATATACCTTAGGCTAGAAACTAGATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
196 TGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
* *
8643078 TATCTTTTTTTCAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGTACTTTATTAG
261 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
* * * * *
8643143 GAATCATGAATTGATCTCTTTCGATCTTAAGCTTAAGGCTACACATAGGAGGATTAGGGGTAAAA
326 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
* * * * * ** *
8643208 GATAAATTGATCATACTATCACCGTGGTTAAGCAAAACACTAGAGTGTTTAAGGATTATGCTATT
391 GACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
* *
8643273 CCTGATCTCTATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
456 CCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
8643338 AAAACTGCAATCATCCAAATGA
521 AAAACTGCAATCATCCAAATGA
8643360 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
* * ** *
8643425 TTACTTGATGGCTTATGTGCTTGTAAGATTTTGCCAATCAAGTTTTTGGCTTTATTATAGAGGAT
66 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
* *
8643490 TAGGTGTAAAAAATCCTAGGTTAATATTAACTTTCACTACACTAAGCTATAGATTGGTTCGCTTT
131 TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
* *
8643555 TGTGTATATACCTTAGGCTAAAAATTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
196 TGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
*
8643620 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGTACTTTATTAG
261 TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
8643685 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
326 GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
* * *
8643750 GACAAACTAATCCTACTATCACCATGGTTAAGCAAGACACTAGTGCCTTTAAGGATTATGCGATG
391 GACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
8643815 CCCGATCTCCATGGTTTCAGCC-AGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
456 CCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
*
8643879 AAAACTGCAATCATCCCAATGA
521 AAAACTGCAATCATCCAAATGA
* * * * *
8643901 TGGGCTAGGTATTTTCTTTAACTAATCCTCAAAGGATTGACACTCATACTTTGTAGTCTCTATTA
1 TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
8643966 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCAT-CATTACAGAGGA
66 TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGC-TCCATTACAGAGGA
*
8644030 TTAGGTGTAAAAAATCCTAGGTTAATATTGACCTTCACCACACTAAGCTATAGATTGGTTCGCTT
130 TTAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTT
*
8644095 TTGTGTATATACCTTAGGCTAGAAACTAGATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTT
195 TTGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTT
* * *
8644160 TTATCTTTTTTTCTAGAGTGGTTTATTAGGTTTAGCGTTCTTGAGGCTCATGTATGCATTTTATT
260 TTATCTTTTTTT-TAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATT
* *
8644225 AGGAATCATGAATTGATTTCTTTAGATCTTAAGCTTGAGGCTACTCGGAGGAGGATTAGGGGTAA
324 AGGAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAA
*
8644290 GAGACAAACTGATCCTACTATCACCATGGTTGAA-CAAGACTA-TAGAGCCTTTAAAGATTATGC
389 GAGACAAACTGATCCTACTATCACCATGGTT-AAGCAAGAC-ACTAGAGCCTTTAAGGATTATGC
*
8644353 TATGCCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATAAAAGCCAATAATTTTGA
452 TATGCCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGA
* * *
8644418 GATTAAAATTGTAATCATCTAAATGA
517 GATTAAAACTGCAATCATCCAAATGA
8644444 TA
1 TA
8644446 CAGTAGTTGG
Statistics
Matches: 2561, Mismatches: 142, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
541 1345 0.53
542 1153 0.45
543 63 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (542 bp):
TAGGCTAGGCATTTTCTTTAACTAATCCTCGAAGGATCGACACTCAGACTTTGTAGTCTCTATTA
TTACTTGATGGCCTATGTGCTTGTAAGATTTTCCCAATCAAGTTTTTGGCTCCATTACAGAGGAT
TAGGTGTAAAAAATCCTAGGTTAATATTGACTTTCACCACACTAAGCTATAGATTGGTTCGCTTT
TGTGTATATACCTTAGGCTAGAAACTAAATTTGCTTTAGTTCTAGGTGTACATACTTAGAGTTTT
TATCTTTTTTTTAGAGTGGTTTATTAGGTTTAGTGTTCTTGAGGCCCATGTATGCACTTTATTAG
GAATCATGAATTGATCTCTTTAGATCTTAAGCTTGAGGCTACTCGTAGGAGGATTAGGGGTAAGA
GACAAACTGATCCTACTATCACCATGGTTAAGCAAGACACTAGAGCCTTTAAGGATTATGCTATG
CCCGATCTCCATGGTTTCAGCCTAGCATTAGGAGGCTAGCCATACAAGCCAATAATTTTGAGATT
AAAACTGCAATCATCCAAATGA
Found at i:8646580 original size:27 final size:27
Alignment explanation
Indices: 8646550--8646775 Score: 162
Period size: 27 Copynumber: 8.4 Consensus size: 27
8646540 TTTGACTTTG
**
8646550 GGGTTTTAATTTTAAGGTTTCGATTTA
1 GGGTTTTAATTTTAAGGTTTTAATTTA
* *
8646577 GGGTTTCAA-TTTAATGTTTTAATTTTA
1 GGGTTTTAATTTTAAGGTTTTAA-TTTA
** *
8646604 GGGTTTT-GGTTTAAAGTTTTAATTTA
1 GGGTTTTAATTTTAAGGTTTTAATTTA
8646630 GGGTTTTAATTTT-AGAGTTTTAATTTA
1 GGGTTTTAATTTTAAG-GTTTTAATTTA
* *
8646657 GGGTTTCAATTTT-AGGTTTTTATTTTA
1 GGGTTTTAATTTTAAGG-TTTTAATTTA
* ** *
8646684 AGGTTTT-GGTTTAAAGTTTTAATTTA
1 GGGTTTTAATTTTAAGGTTTTAATTTA
* * * *
8646710 AGGTTATAATTTT-AGGATTTCAGTTTA
1 GGGTTTTAATTTTAAGG-TTTTAATTTA
* * *
8646737 GGATTTTCA--TTCAGAGTTTTAATTTTA
1 GGGTTTTAATTTTAAG-GTTTTAA-TTTA
8646764 GGGTTTTAATTT
1 GGGTTTTAATTT
8646776 AGTGTTTCAA
Statistics
Matches: 154, Mismatches: 32, Indels: 24
0.73 0.15 0.11
Matches are distributed among these distances:
25 2 0.01
26 49 0.32
27 102 0.66
29 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (27 bp):
GGGTTTTAATTTTAAGGTTTTAATTTA
Found at i:8646598 original size:40 final size:40
Alignment explanation
Indices: 8646551--8646785 Score: 199
Period size: 40 Copynumber: 5.9 Consensus size: 40
8646541 TTGACTTTGG
*
8646551 GGTTTTAATTTTAAGGTTTCGATTTAGGGTTTCAATTTAA
1 GGTTTTAATTTTAAGGTTTTGATTTAGGGTTTCAATTTAA
* * * ** * *
8646591 TGTTTTAATTTTAGGGTTTTGGTTTAAAGTTTTAATTTAG
1 GGTTTTAATTTTAAGGTTTTGATTTAGGGTTTCAATTTAA
* *
8646631 GGTTTTAATTTT-AGAGTTTTAATTTAGGGTTTCAATTTTA
1 GGTTTTAATTTTAAG-GTTTTGATTTAGGGTTTCAATTTAA
* * ** *
8646671 GGTTTTTATTTTAAGGTTTTGGTTTAAAGTTTTAATTTAA
1 GGTTTTAATTTTAAGGTTTTGATTTAGGGTTTCAATTTAA
* * * * *
8646711 GGTTATAATTTT-AGGATTTCAGTTTAGGATTTTC-A-TTCA
1 GGTTTTAATTTTAAGGTTTTGA-TTTAGG-GTTTCAATTTAA
* * *
8646750 GAGTTTTAATTTTAGGGTTTTAATTTAGTGTTTCAA
1 G-GTTTTAATTTTAAGGTTTTGATTTAGGGTTTCAA
8646786 CCTTAAGAAT
Statistics
Matches: 148, Mismatches: 40, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
39 15 0.10
40 122 0.82
41 11 0.07
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.54
Consensus pattern (40 bp):
GGTTTTAATTTTAAGGTTTTGATTTAGGGTTTCAATTTAA
Found at i:8646637 original size:80 final size:77
Alignment explanation
Indices: 8646550--8646770 Score: 273
Period size: 80 Copynumber: 2.8 Consensus size: 77
8646540 TTTGACTTTG
8646550 GGGTTTTAATTTTAAGGTTTCGATTTAGGGTTTCAATTTAATGTTTTAATTTTAGGGTTTTGGTT
1 GGGTTTTAATTTT-AGGTTTC-ATTTAGGGTTTCAATTTAA-GTTTTAATTTTAGGGTTTTGGTT
8646615 TAAAGTTTTAATTTA
63 TAAAGTTTTAATTTA
* * * *
8646630 GGGTTTTAATTTTAGAGTTTTAATTTAGGGTTTCAATTTTAGGTTTTTATTTTAAGGTTTTGGTT
1 GGGTTTTAATTTTAG-G-TTTCATTTAGGGTTTCAA-TTTAAGTTTTAATTTTAGGGTTTTGGTT
8646695 TAAAGTTTTAATTTA
63 TAAAGTTTTAATTTA
* * * *
8646710 AGGTTATAATTTTAGGATTTCAGTTTAGGATTTTC-ATTCAGAGTTTTAATTTTAGGGTTTT
1 GGGTTTTAATTTTAGG-TTTCA-TTTAGG-GTTTCAATTTA-AGTTTTAATTTTAGGGTTTT
8646771 AATTTAGTGT
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 10 0.08
80 101 0.83
81 11 0.09
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (77 bp):
GGGTTTTAATTTTAGGTTTCATTTAGGGTTTCAATTTAAGTTTTAATTTTAGGGTTTTGGTTTAA
AGTTTTAATTTA
Found at i:8646782 original size:13 final size:12
Alignment explanation
Indices: 8646551--8646782 Score: 104
Period size: 13 Copynumber: 17.4 Consensus size: 12
8646541 TTGACTTTGG
8646551 GGTTTTAATTTTAA
1 GGTTTTAA-TTT-A
**
8646565 GGTTTCGATTTA
1 GGTTTTAATTTA
*
8646577 GGGTTTCAATTTAA
1 -GGTTTTAATTT-A
*
8646591 TGTTTTAATTTTA
1 GGTTTTAA-TTTA
**
8646604 GGGTTTTGGTTTAA
1 -GGTTTTAATTT-A
*
8646618 AGTTTTAATTTA
1 GGTTTTAATTTA
8646630 GGGTTTTAATTTTA
1 -GGTTTTAA-TTTA
8646644 GAGTTTTAATTTA
1 G-GTTTTAATTTA
*
8646657 GGGTTTCAATTTTA
1 -GGTTTTAA-TTTA
*
8646671 GGTTTTTATTTTAA
1 GG-TTTTAATTT-A
**
8646685 GGTTTTGGTTTAA
1 GGTTTTAATTT-A
*
8646698 AGTTTTAATTTAA
1 GGTTTTAATTT-A
*
8646711 GGTTATAATTTTA
1 GGTTTTAA-TTTA
* *
8646724 GGATTTCAGTTTA
1 GG-TTTTAATTTA
* *
8646737 GGATTTTCATTCA
1 GG-TTTTAATTTA
8646750 GAGTTTTAATTTTA
1 G-GTTTTAA-TTTA
8646764 GGGTTTTAATTTA
1 -GGTTTTAATTTA
8646777 GTGTTT
1 G-GTTT
8646783 CAACCTTAAG
Statistics
Matches: 169, Mismatches: 31, Indels: 37
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.02
13 109 0.64
14 56 0.33
15 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (12 bp):
GGTTTTAATTTA
Found at i:8648594 original size:25 final size:25
Alignment explanation
Indices: 8648565--8648634 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
8648555 AAGCTTTTCC
*
8648565 TTATATTTTTTATTAATTTTTTA-TT
1 TTATATTTTTTATT-ATTTATTATTT
8648590 TTATATTATTTTA-TATTTATTATTT
1 TTATATT-TTTTATTATTTATTATTT
*
8648615 TTATATTTATTA-TATTTATT
1 TTATATTTTTTATTATTTATT
8648635 TGATTTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 19 0.46
25 17 0.41
26 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTATATTTTTTATTATTTATTATTT
Found at i:8648603 original size:15 final size:15
Alignment explanation
Indices: 8648568--8648633 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
8648558 CTTTTCCTTA
*
8648568 TATTTTTTATTA-AT
1 TATTTTATATTATAT
*
8648582 T-TTTTATTTTATAT
1 TATTTTATATTATAT
8648596 TATTTTATATT-TAT
1 TATTTTATATTATAT
8648610 TATTTTTATATT-TAT
1 TA-TTTTATATTATAT
8648625 TATATTTAT
1 TAT-TTTAT
8648634 TTGATTTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.18
14 10 0.22
15 27 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:8648607 original size:24 final size:23
Alignment explanation
Indices: 8648565--8648646 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 23
8648555 AAGCTTTTCC
8648565 TTATATTTTTTATTAATTTTTTATT
1 TTATATTTTTTA-T-ATTTTTTATT
*
8648590 TTATATTATTTTATATTTATTATTT
1 TTATATT-TTTTATATTTTTTA-TT
*
8648615 TTATATTTATTATATTTATTTGATT
1 TTATATTTTTTATATTT-TTT-ATT
8648640 TATATAT
1 T-TATAT
8648647 ATACAAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 16 0.33
25 22 0.45
26 11 0.22
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (23 bp):
TTATATTTTTTATATTTTTTATT
Found at i:8648613 original size:17 final size:16
Alignment explanation
Indices: 8648573--8648631 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
8648563 CCTTATATTT
*
8648573 TTTATTA-ATTTTTTA
1 TTTATTATATTTTATA
8648588 TTT-TATATTATTTTATA
1 TTTAT-TA-TATTTTATA
8648605 TTTATTAT-TTTTATA
1 TTTATTATATTTTATA
8648620 TTTATTATATTT
1 TTTATTATATTT
8648632 ATTTGATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 20 0.53
16 4 0.11
17 12 0.32
18 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTATATTTTATA
Found at i:8648617 original size:9 final size:9
Alignment explanation
Indices: 8648571--8648634 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
8648561 TTCCTTATAT
8648571 TTTTTATTA
1 TTTTTATTA
*
8648580 ATTTT-TTA
1 TTTTTATTA
8648588 TTTTATATTA
1 TTTT-TATTA
8648598 TTTTATATTTA
1 TTTT-TA-TTA
8648609 TTATTT-TTA
1 TT-TTTATTA
*
8648618 TATTTATTA
1 TTTTTATTA
*
8648627 TATTTATT
1 TTTTTATT
8648635 TGATTTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 9 0.19
9 20 0.43
10 10 0.21
11 6 0.13
12 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTATTA
Found at i:8648640 original size:9 final size:9
Alignment explanation
Indices: 8648590--8648648 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
8648580 ATTTTTTATT
*
8648590 TTATATTATT
1 TTATATT-TA
8648600 TTATATTTA
1 TTATATTTA
8648609 -T-TATTT-
1 TTATATTTA
8648615 TTATATTTA
1 TTATATTTA
8648624 TTATATTTA
1 TTATATTTA
8648633 TT-TGATTTA
1 TTAT-ATTTA
8648642 TATATAT
1 T-TATAT
8648649 ACAAATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
7 6 0.14
8 7 0.17
9 18 0.43
10 10 0.24
11 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTATATTTA
Found at i:8649458 original size:35 final size:35
Alignment explanation
Indices: 8649419--8649497 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 35
8649409 AAGATGACCG
* * *
8649419 AGACTAAGTTGTAAGTTGAGAAATAACGATAAACA
1 AGACTAAGTTGCAAGTTAAGAAATAAAGATAAACA
* * *
8649454 AGACTAAGCTGCAAGTTAAGAAATAAAGATGACCA
1 AGACTAAGTTGCAAGTTAAGAAATAAAGATAAACA
*
8649489 AGACGAAGT
1 AGACTAAGT
8649498 CATAAGTCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.22, T:0.19
Consensus pattern (35 bp):
AGACTAAGTTGCAAGTTAAGAAATAAAGATAAACA
Found at i:8650639 original size:19 final size:19
Alignment explanation
Indices: 8650608--8650686 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 19
8650598 TCTTTTTCCA
8650608 TTTTTTTTCTTTTC-TTTT
1 TTTTTTTTCTTTTCATTTT
8650626 TTTTTTTTCATTTTCATTTT
1 TTTTTTTTC-TTTTCATTTT
* ** * *
8650646 CATTTTCCTATTTTTATTTT
1 -TTTTTTTTCTTTTCATTTT
*
8650666 ATTTCTTTTTCTTTTCCTTTT
1 -TTT-TTTTTCTTTTCATTTT
8650687 CCTTTAGGTG
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
18 9 0.20
19 5 0.11
20 15 0.33
21 16 0.36
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTTCTTTTCATTTT
Found at i:8650660 original size:30 final size:29
Alignment explanation
Indices: 8650612--8650683 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
8650602 TTTCCATTTT
* * *
8650612 TTTTCTTTTCTTTTTTTTTTTTCATTTTCA
1 TTTTCTTTTCCTATTTTTATTTCA-TTTCA
* *
8650642 TTTTCATTTTCCTATTTTTATTTTATTTCT
1 TTTTC-TTTTCCTATTTTTATTTCATTTCA
8650672 TTTTCTTTTCCT
1 TTTTCTTTTCCT
8650684 TTTCCTTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.19
30 14 0.39
31 15 0.42
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (29 bp):
TTTTCTTTTCCTATTTTTATTTCATTTCA
Found at i:8650687 original size:35 final size:34
Alignment explanation
Indices: 8650622--8650689 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
8650612 TTTTCTTTTC
8650622 TTTTTTTTTTTTCATTTTCATTTTCATTTTCCTA
1 TTTTTTTTTTTTCATTTTCATTTTCATTTTCCTA
* *
8650656 TTTTTATTTTATTTCTTTTTC-TTTTCCTTTTCCT
1 TTTTT-TTTT-TTTCATTTTCATTTTCATTTTCCT
8650690 TTAGGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 5 0.17
35 16 0.53
36 9 0.30
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (34 bp):
TTTTTTTTTTTTCATTTTCATTTTCATTTTCCTA
Found at i:8659954 original size:20 final size:19
Alignment explanation
Indices: 8659927--8659983 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
8659917 GTGTGTATAT
8659927 ATTCTTGTTGGCAGCACAC
1 ATTCTTGTTGGCAGCACAC
* ** **
8659946 ATTCTTTGTTGTCATTACTT
1 ATTC-TTGTTGGCAGCACAC
8659966 ATTCTTGTTGGCAGCACA
1 ATTCTTGTTGGCAGCACA
8659984 TGTTTTTGTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (19 bp):
ATTCTTGTTGGCAGCACAC
Found at i:8669809 original size:19 final size:19
Alignment explanation
Indices: 8669750--8669801 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
8669740 TGTGTATATA
*
8669750 TTCTTGTTGGCAGTACACG
1 TTCTTGTTGGCAGTACATG
* *
8669769 TTCTTTGTTGGCATTACTTG
1 TTC-TTGTTGGCAGTACATG
8669789 TTCTTGTTGGCAG
1 TTCTTGTTGGCAG
8669802 CAAATGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (19 bp):
TTCTTGTTGGCAGTACATG
Found at i:8671037 original size:20 final size:20
Alignment explanation
Indices: 8671009--8671049 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8670999 ATTCCTCTTC
*
8671009 TAGTACTTCTCCATCTTTCT
1 TAGTACTTCTACATCTTTCT
* *
8671029 TAGTTCTTCTACTTCTTTCT
1 TAGTACTTCTACATCTTTCT
8671049 T
1 T
8671050 GGATCCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.27, G:0.05, T:0.56
Consensus pattern (20 bp):
TAGTACTTCTACATCTTTCT
Found at i:8675996 original size:20 final size:20
Alignment explanation
Indices: 8675956--8676002 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
8675946 GTTGTAGACA
*
8675956 TGAAAATCTAGAAATTTCAT
1 TGAAAATCTAGAAATTACAT
8675976 TGCAAAATCTA-AAATTACAT
1 TG-AAAATCTAGAAATTACAT
8675996 TGAAAAT
1 TGAAAAT
8676003 GAGTGTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 12 0.48
21 8 0.32
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (20 bp):
TGAAAATCTAGAAATTACAT
Found at i:8682983 original size:18 final size:18
Alignment explanation
Indices: 8682960--8683001 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8682950 AAATTGAATA
8682960 GAATAAGAAAAAAAAAAG
1 GAATAAGAAAAAAAAAAG
*
8682978 GAATAAGAAAAAGAAAAG
1 GAATAAGAAAAAAAAAAG
*
8682996 CAATAA
1 GAATAA
8683002 AGTGGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (18 bp):
GAATAAGAAAAAAAAAAG
Found at i:8683035 original size:24 final size:24
Alignment explanation
Indices: 8682959--8683035 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
8682949 GAAATTGAAT
* *
8682959 AGAATAAG-AAAAAAAAAAGGAATA
1 AGAAAAAGAAAAAAAAAAAAGAA-A
** * ***
8682983 AGAAAAAGAAAAGCAATAAAGTGG
1 AGAAAAAGAAAAAAAAAAAAGAAA
*
8683007 TGAAAAAGAAAAAAAAAAAAGAAA
1 AGAAAAAGAAAAAAAAAAAAGAAA
8683031 AGAAA
1 AGAAA
8683036 GAAAAATAGG
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
24 28 0.78
25 8 0.22
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.06
Consensus pattern (24 bp):
AGAAAAAGAAAAAAAAAAAAGAAA
Found at i:8688606 original size:11 final size:11
Alignment explanation
Indices: 8688545--8688596 Score: 104
Period size: 11 Copynumber: 4.7 Consensus size: 11
8688535 TATAATTCAC
8688545 TTAAAAAAATA
1 TTAAAAAAATA
8688556 TTAAAAAAATA
1 TTAAAAAAATA
8688567 TTAAAAAAATA
1 TTAAAAAAATA
8688578 TTAAAAAAATA
1 TTAAAAAAATA
8688589 TTAAAAAA
1 TTAAAAAA
8688597 TATAAGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 41 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TTAAAAAAATA
Found at i:8711399 original size:52 final size:52
Alignment explanation
Indices: 8711296--8711400 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
8711286 TATAACCATA
*
8711296 CAAACTTGTCTATTAAGAATCCCTTTCCTTTTAGAATTCTTCTTCTACAAGT
1 CAAACTTGTCTATTAAGAATCCCTTTCCTTTTAGAATTCTTATTCTACAAGT
** * * *
8711348 CAAACTTGTCTATTAAGAATCTTTTTTCTTTTAGAATTCTTATTTTGCAAGT
1 CAAACTTGTCTATTAAGAATCCCTTTCCTTTTAGAATTCTTATTCTACAAGT
8711400 C
1 C
8711401 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.46
Consensus pattern (52 bp):
CAAACTTGTCTATTAAGAATCCCTTTCCTTTTAGAATTCTTATTCTACAAGT
Found at i:8711715 original size:31 final size:32
Alignment explanation
Indices: 8711675--8711757 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
8711665 TCGAACCATG
*
8711675 CTCTGATACCACTTGTTAAGG-ATCACCATAA
1 CTCTTATACCACTTGTTAAGGAATCACCATAA
* * * *
8711706 CTCTTATACCATTTGTTAGGGAATTACCATAG
1 CTCTTATACCACTTGTTAAGGAATCACCATAA
*
8711738 GT-TTGATACCACTTGTTAAG
1 CTCTT-ATACCACTTGTTAAG
8711758 CTAAAAGGCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 20 0.48
32 22 0.52
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (32 bp):
CTCTTATACCACTTGTTAAGGAATCACCATAA
Found at i:8712324 original size:52 final size:52
Alignment explanation
Indices: 8712253--8712357 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
8712243 TATAACCATA
* * *
8712253 CAAACTTGTCTATTAAGAATTCATTTTC-TTTTAGAATTCTTCTTTTACAAGT
1 CAAACTTGCCTATTAAGAA-TCATTTCCTTTTTAGAATTCTTCTTCTACAAGT
*
8712305 CAAACTTGCCTATTAAGAATCCTTTCCTTTTTAGAATTCTTCTTCTACAAGT
1 CAAACTTGCCTATTAAGAATCATTTCCTTTTTAGAATTCTTCTTCTACAAGT
8712357 C
1 C
8712358 TTCTTATTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 6 0.12
52 42 0.88
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.45
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCATTTCCTTTTTAGAATTCTTCTTCTACAAGT
Found at i:8712510 original size:28 final size:28
Alignment explanation
Indices: 8712479--8712532 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8712469 AGATAAGAAA
*
8712479 TTAACAAGAAC-ATGAATGAACATGAATG
1 TTAA-AAGAACTATGAATGAAAATGAATG
*
8712507 TTAAAAGAACTATGAATTAAAATGAA
1 TTAAAAGAACTATGAATGAAAATGAA
8712533 AAACACAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (28 bp):
TTAAAAGAACTATGAATGAAAATGAATG
Found at i:8719103 original size:21 final size:22
Alignment explanation
Indices: 8719074--8719135 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 22
8719064 AAAAATGAAA
8719074 AAATGAAAAA-AAAAAACAAAAG
1 AAATGAAAAAGAAAAAA-AAAAG
*
8719096 AAAT-AAAAAGTAAAAAAAAAG
1 AAATGAAAAAGAAAAAAAAAAG
* *
8719117 AGA-GAAAAAGAAAATAAAA
1 AAATGAAAAAGAAAAAAAAA
8719136 TGGAAGACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 25 0.74
22 9 0.26
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (22 bp):
AAATGAAAAAGAAAAAAAAAAG
Found at i:8719116 original size:11 final size:10
Alignment explanation
Indices: 8719079--8719135 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
8719069 TGAAAAAATG
8719079 AAAAAAA-AA
1 AAAAAAAGAA
*
8719088 AACAAAAGAA
1 AAAAAAAGAA
*
8719098 ATAAAAAGTAA
1 AAAAAAAG-AA
*
8719109 AAAAAAAGAG
1 AAAAAAAGAA
*
8719119 AGAAAAAGAA
1 AAAAAAAGAA
8719129 AATAAAA
1 AA-AAAA
8719136 TGGAAGACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 6 0.16
10 18 0.49
11 13 0.35
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:8720190 original size:44 final size:44
Alignment explanation
Indices: 8720124--8720221 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
8720114 TGCCAAACCT
**
8720124 TAAAATTTTTTGAATGTGAATCTTTGAA-ATTTAGGATGTGA-ATCCC
1 TAAAA-TTTTTGAATGAAAATCTTT-AATATTTA-GATGTGAGA-CCC
*
8720170 -AAAATTTTTGAATGAAAATCTTTAATTTTTAGATGTGAGACCC
1 TAAAATTTTTGAATGAAAATCTTTAATATTTAGATGTGAGACCC
8720213 TAAAATTTT
1 TAAAATTTT
8720222 CAAACATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 12 0.26
44 30 0.65
45 4 0.09
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (44 bp):
TAAAATTTTTGAATGAAAATCTTTAATATTTAGATGTGAGACCC
Found at i:8720290 original size:17 final size:17
Alignment explanation
Indices: 8720268--8720303 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8720258 CGAAGCTTTG
*
8720268 AATTTCTTGCGAACCTA
1 AATTTCTTGCGAAACTA
8720285 AATTTCTTGCGAAACTA
1 AATTTCTTGCGAAACTA
8720302 AA
1 AA
8720304 ACTCTTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (17 bp):
AATTTCTTGCGAAACTA
Found at i:8720388 original size:17 final size:17
Alignment explanation
Indices: 8720366--8720468 Score: 71
Period size: 17 Copynumber: 5.9 Consensus size: 17
8720356 TGAGTCTTTG
* *
8720366 AATTTCTTTCAAACCTA
1 AATTTCTTACAAAACTA
8720383 AATTTCTTACAAAACTA
1 AATTTCTTACAAAACTA
* * *
8720400 AATCTCTTGCAAAACTTTG
1 AATTTCTTACAAAAC--TA
* * *
8720419 AATTTCTTATAAACCTG
1 AATTTCTTACAAAACTA
* **
8720436 AATTTTTTATGAAACTA
1 AATTTCTTACAAAACTA
* *
8720453 AAGTTCTTACGAAACT
1 AATTTCTTACAAAACT
8720469 TTGAATTTCT
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
17 56 0.82
19 12 0.18
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (17 bp):
AATTTCTTACAAAACTA
Found at i:8720424 original size:53 final size:53
Alignment explanation
Indices: 8720361--8720484 Score: 153
Period size: 53 Copynumber: 2.3 Consensus size: 53
8720351 TTTTATGAGT
*
8720361 CTTTGAATTTCTTTCAAACCTAAATTTCTTACAAAACTAAA-TCTCTTGCAAAA
1 CTTTGAATTTCTTTCAAACCTAAATTTCTTACAAAACTAAAGT-TCTTACAAAA
* * ** *
8720414 CTTTGAATTTCTTAT-AAACCTGAATTTTTTATGAAACTAAAGTTCTTACGAAA
1 CTTTGAATTTCTT-TCAAACCTAAATTTCTTACAAAACTAAAGTTCTTACAAAA
*
8720467 CTTTGAATTTCTTGCAAA
1 CTTTGAATTTCTTTCAAA
8720485 TTTTTGAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
53 59 0.97
54 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (53 bp):
CTTTGAATTTCTTTCAAACCTAAATTTCTTACAAAACTAAAGTTCTTACAAAA
Found at i:8720522 original size:71 final size:70
Alignment explanation
Indices: 8720364--8720525 Score: 175
Period size: 71 Copynumber: 2.3 Consensus size: 70
8720354 TATGAGTCTT
* * *
8720364 TGAATTTCTTTC-AAACCTAAATTTCTTACAAAACTAAATCTCTTGCAAAACTTTGAATTTCTTA
1 TGAATTTCTTACGAAA-CTAAAGTTCTTACAAAACTAAATCTCTTGCAAAACTTTGAATATCTTA
8720428 TAAACC
65 TAAACC
* * * * * **
8720434 TGAATTTTTTATGAAACTAAAGTTCTTACGAAACTTTGAATTTCTTGCAAATTTTTGAA-ATCTT
1 TGAATTTCTTACGAAACTAAAGTTCTTACAAAAC--TAAATCTCTTGCAAAACTTTGAATATCTT
* *
8720498 GTGAACC
64 ATAAACC
8720505 TGAATTTCTTACGAAACTAAA
1 TGAATTTCTTACGAAACTAAA
8720526 ACTCTTGTGA
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
70 25 0.33
71 31 0.41
72 19 0.25
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (70 bp):
TGAATTTCTTACGAAACTAAAGTTCTTACAAAACTAAATCTCTTGCAAAACTTTGAATATCTTAT
AAACC
Found at i:8720569 original size:71 final size:72
Alignment explanation
Indices: 8720405--8720576 Score: 168
Period size: 71 Copynumber: 2.4 Consensus size: 72
8720395 AACTAAATCT
* * * * * **
8720405 CTTGCAAAACTTTGAATTTCTTATAAACCTGAATTTTTTATGAAACTAAAGTTCTTACGAAACTT
1 CTTGCAAATCTTTGAATTTCTTGTGAACCTGAATTTCTTACGAAACTAAAACTCTTACGAAACTT
**
8720470 TGAATTT
66 TGAATAG
* * ** *
8720477 CTTGCAAATTTTTGAA-ATCTTGTGAACCTGAATTTCTTACGAAACTAAAACTCTTGTG-AATTT
1 CTTGCAAATCTTTGAATTTCTTGTGAACCTGAATTTCTTACGAAACTAAAACTCTTACGAAACTT
*
8720540 TTAATAG
66 TGAATAG
* * *
8720547 GTTGCCAATCTTTGAATTTCTTGCGAACCT
1 CTTGCAAATCTTTGAATTTCTTGTGAACCT
8720577 AAAACCTTTG
Statistics
Matches: 79, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
70 21 0.27
71 44 0.56
72 14 0.18
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (72 bp):
CTTGCAAATCTTTGAATTTCTTGTGAACCTGAATTTCTTACGAAACTAAAACTCTTACGAAACTT
TGAATAG
Found at i:8720679 original size:86 final size:86
Alignment explanation
Indices: 8720572--8720805 Score: 270
Period size: 86 Copynumber: 2.7 Consensus size: 86
8720562 ATTTCTTGCG
* *
8720572 AACCTAAAACCTTTGCAAATCTAGAACCTTTGCAAAACTTGGAATCTTGCAAATCTTCCATTCTT
1 AACCTAAAACCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTTGTAAATCTTCCATTCTT
* *
8720637 ACAAATATGAAAGTCCTTGCA
66 ACAAATATAAAAGTCCTCGCA
** * * ** * * *
8720658 AATTTGAAACCTTTGCGAATCTAGAACCTTAGTGAAACTTGAAATCTTGTGAGTCTTCCATTCTT
1 AACCTAAAACCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTTGTAAATCTTCCATTCTT
** * **
8720723 ATGAATCTAAAAGTCCTCGTG
66 ACAAATATAAAAGTCCTCGCA
* * * *
8720744 AACCTAAAACTTTTGCGAATCTAGAACCTTTACAAAACTTAGAATCTTGTTAATCTTCCATT
1 AACCTAAAACCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTTGTAAATCTTCCATT
8720806 TTTGTAAATT
Statistics
Matches: 118, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
86 118 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (86 bp):
AACCTAAAACCTTTGCGAATCTAGAACCTTTGCAAAACTTGGAATCTTGTAAATCTTCCATTCTT
ACAAATATAAAAGTCCTCGCA
Found at i:8721965 original size:16 final size:16
Alignment explanation
Indices: 8721946--8721986 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8721936 TCATCTTATT
*
8721946 TTTTGTTTTGATTTTA
1 TTTTATTTTGATTTTA
* *
8721962 TTTTATTTTGCTTTTT
1 TTTTATTTTGATTTTA
8721978 TTTTATTTT
1 TTTTATTTT
8721987 TTTAGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTATTTTGATTTTA
Found at i:8723615 original size:21 final size:21
Alignment explanation
Indices: 8723545--8723615 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
8723535 GCATGTAAAA
*
8723545 TAAAGTAAAGAACTTGGAATT
1 TAAAGTAAAGAACTTGAAATT
* * *
8723566 TAGAGTGCAAAGTAA-GTAAAATT
1 TAAAGT--AAAG-AACTTGAAATT
**
8723589 GCAAGTAAAGAACTTGAAATT
1 TAAAGTAAAGAACTTGAAATT
8723610 TAAAGT
1 TAAAGT
8723616 GCAAGAAATC
Statistics
Matches: 35, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
20 2 0.06
21 19 0.54
23 12 0.34
24 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.27
Consensus pattern (21 bp):
TAAAGTAAAGAACTTGAAATT
Found at i:8737290 original size:17 final size:17
Alignment explanation
Indices: 8737268--8737304 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
8737258 AAGGAGTTTG
8737268 ATCTCTAAAAGAACTCT
1 ATCTCTAAAAGAACTCT
8737285 ATCTCTAAAAGAACTCT
1 ATCTCTAAAAGAACTCT
8737302 ATC
1 ATC
8737305 CATTCGACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (17 bp):
ATCTCTAAAAGAACTCT
Found at i:8738954 original size:15 final size:16
Alignment explanation
Indices: 8738934--8738969 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8738924 GGTAAAGATT
8738934 GGTTTTAGA-GTTTAG
1 GGTTTTAGAGGTTTAG
8738949 GGTTTTAGAGGTTTAG
1 GGTTTTAGAGGTTTAG
8738965 GGTTT
1 GGTTT
8738970 AAGGTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (16 bp):
GGTTTTAGAGGTTTAG
Found at i:8739073 original size:22 final size:22
Alignment explanation
Indices: 8739045--8739091 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
8739035 AACTAATTAC
8739045 AAAACCTAGGCATTTGCAAACT
1 AAAACCTAGGCATTTGCAAACT
8739067 AAAACCTAGGCATTTGCAAACT
1 AAAACCTAGGCATTTGCAAACT
8739089 AAA
1 AAA
8739092 TTAGAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (22 bp):
AAAACCTAGGCATTTGCAAACT
Found at i:8740786 original size:52 final size:51
Alignment explanation
Indices: 8740671--8740912 Score: 266
Period size: 52 Copynumber: 4.8 Consensus size: 51
8740661 CATTGGTAAC
* * * * **
8740671 TAACTTTAAAAATCTTTCCTTTTGAGAAAAATGATACTATAAATTTAGGCAAG
1 TAACTTT-AAAATCTTTCTTTTTGA-AAAAGTGCTCCTATAAACATAGGCAAG
* **
8740724 TAACTTTAAAATCTTTTTTTTTTTAAAAGTGCTCCTATAAACATAGGCAAG
1 TAACTTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG
8740775 TAACTTTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG
1 TAAC-TTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG
* * *
8740827 ------TAAAAT-ATTCTTTTTGAAAAA-TGCTCCTATAAACATAGGAAAA
1 TAACTTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG
* *
8740870 TGACTTTAAAAATCTTTCTTTTTGAAAATGTGCTCCTATAAAC
1 TAACTTT-AAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAAC
8740913 TTTTTTTTGA
Statistics
Matches: 162, Mismatches: 17, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
43 20 0.12
44 14 0.09
45 6 0.04
49 1 0.01
50 5 0.03
51 39 0.24
52 70 0.43
53 7 0.04
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (51 bp):
TAACTTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG
Found at i:8740919 original size:28 final size:29
Alignment explanation
Indices: 8740883--8740940 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
8740873 CTTTAAAAAT
8740883 CTTTCTTTTTGAAAATGTGCTCCTATAAA
1 CTTTCTTTTTGAAAATGTGCTCCTATAAA
8740912 CTTT-TTTTTGAAAATGTGCTCCTATAAA
1 CTTTCTTTTTGAAAATGTGCTCCTATAAA
8740940 C
1 C
8740941 ATAGGCAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (29 bp):
CTTTCTTTTTGAAAATGTGCTCCTATAAA
Found at i:8740999 original size:50 final size:49
Alignment explanation
Indices: 8740928--8741113 Score: 264
Period size: 49 Copynumber: 3.8 Consensus size: 49
8740918 TTTGAAAATG
*
8740928 TGCTCCTATAAACATAGGCAAGTGACTTTTAAAAATCTTTATTTAAAAAA
1 TGCTCCTATAAACATAGGCAAGTGAC-TTTAAAAATCTTTCTTTAAAAAA
* * * *
8740978 TGCTCTTATAAACATAGGCAAGTAACTTTAAAATTCTTTCTTTGAAAAA
1 TGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTTTCTTTAAAAAA
* * * *
8741027 TGCTCCTATAAACATAGGCAAGTTACTTTAAGAATCTTTCTCTAAAAATT
1 TGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTTTCTTTAAAAA-A
*
8741077 TGCTCCTATAAACATAGGCAAGTGACTTTAAATATCT
1 TGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCT
8741114 CCTATAAACA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 62 0.52
50 58 0.48
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (49 bp):
TGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTTTCTTTAAAAAA
Found at i:8741008 original size:130 final size:121
Alignment explanation
Indices: 8740788--8741039 Score: 310
Period size: 130 Copynumber: 2.0 Consensus size: 121
8740778 CTTTTAAAAT
* *
8740788 CTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAGTAAAATATTCTTTTTGAAAAATGCTC
1 CTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAGTAAAAAATTCTTTTTAAAAAATGCTC
* *
8740853 CTATAAACATAGGAAAATGACTTTAAAAATCTTTCTTTTTGAAAATGTGCTCCTATAAA
66 CTATAAACATAGGAAAATAACTTTAAAAATCTTTC--TTTGAAAA-ATGCTCCTATAAA
*
8740912 CTTT-TTTTTGAAAATGTGCTCCTATAAACATAGGCAAGTGACTTTTAAAAA-TCTTTATTTAAA
1 CTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAGT-A-----AAAAATTC-TT-TTTAAA
* * * *
8740975 AAATGCTCTTATAAACATAGGCAAGTAACTTTAAAATTCTTTCTTTGAAAAATGCTCCTATAAA
58 AAATGCTCCTATAAACATAGGAAAATAACTTTAAAAATCTTTCTTTGAAAAATGCTCCTATAAA
8741039 C
1 C
8741040 ATAGGCAAGT
Statistics
Matches: 111, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
123 34 0.31
124 5 0.05
127 13 0.12
128 10 0.09
129 6 0.05
130 43 0.39
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.37
Consensus pattern (121 bp):
CTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAGTAAAAAATTCTTTTTAAAAAATGCTC
CTATAAACATAGGAAAATAACTTTAAAAATCTTTCTTTGAAAAATGCTCCTATAAA
Found at i:8741027 original size:49 final size:48
Alignment explanation
Indices: 8740918--8741113 Score: 250
Period size: 50 Copynumber: 3.9 Consensus size: 48
8740908 TAAACTTTTT
* *
8740918 TTTGAAAATGTGCTCCTATAAACATAGGCAAGTGACTTTTAAAAATCTTTA
1 TTTGAAAA-ATGCTCCTATAAACATAGGCAAGTGAC-TTT-AAAATCTTTC
* * *
8740969 TTTAAAAAATGCTCTTATAAACATAGGCAAGTAACTTTAAAATTCTTTC
1 TTTGAAAAATGCTCCTATAAACATAGGCAAGTGACTTTAAAA-TCTTTC
*
8741018 TTTGAAAAATGCTCCTATAAACATAGGCAAGTTACTTTAAGAATCTTTC
1 TTTGAAAAATGCTCCTATAAACATAGGCAAGTGACTTTAA-AATCTTTC
*
8741067 TCT-AAAAATTTGCTCCTATAAACATAGGCAAGTGACTTTAAATATCT
1 TTTGAAAAA--TGCTCCTATAAACATAGGCAAGTGACTTTAAA-ATCT
8741114 CCTATAAACA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
48 9 0.07
49 54 0.42
50 60 0.46
51 7 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (48 bp):
TTTGAAAAATGCTCCTATAAACATAGGCAAGTGACTTTAAAATCTTTC
Found at i:8741037 original size:99 final size:100
Alignment explanation
Indices: 8740918--8741108 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 100
8740908 TAAACTTTTT
* *
8740918 TTTGAAAATGTGCTCCTATAAACATAGGCAAGTGACTTTTAAAAATCTTTATTTAAAAA-ATGCT
1 TTTGAAAATATGCTCCTATAAACATAGGCAAGTGAC-TTTAAAAATCTTTATCTAAAAATATGCT
*
8740982 CTTATAAACATAGGCAAGTAACTTTAAAATTCTTTC
65 CCTATAAACATAGGCAAGTAACTTTAAAATTCTTTC
* * * *
8741018 TTTGAAAA-ATGCTCCTATAAACATAGGCAAGTTACTTTAAGAATCTTTCTCTAAAAATTTGCTC
1 TTTGAAAATATGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTTTATCTAAAAATATGCTC
*
8741082 CTATAAACATAGGCAAGTGACTTTAAA
66 CTATAAACATAGGCAAGTAACTTTAAA
8741109 TATCTCCTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
98 19 0.23
99 55 0.67
100 8 0.10
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (100 bp):
TTTGAAAATATGCTCCTATAAACATAGGCAAGTGACTTTAAAAATCTTTATCTAAAAATATGCTC
CTATAAACATAGGCAAGTAACTTTAAAATTCTTTC
Found at i:8741121 original size:33 final size:33
Alignment explanation
Indices: 8741079--8741147 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
8741069 TAAAAATTTG
*
8741079 CTCCTATAAACATAGGCAAGTGACTTTAAATAT
1 CTCCTATAAACATAGGCAAGTGACTTTAAAAAT
8741112 CTCCTATAAACATAGGCAAGTGACTTTAAAAAT
1 CTCCTATAAACATAGGCAAGTGACTTTAAAAAT
8741145 CTC
1 CTC
8741148 TCTTTGAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (33 bp):
CTCCTATAAACATAGGCAAGTGACTTTAAAAAT
Found at i:8741138 original size:132 final size:132
Alignment explanation
Indices: 8740980--8741390 Score: 468
Period size: 132 Copynumber: 3.0 Consensus size: 132
8740970 TTAAAAAATG
*
8740980 CTCTTATAAACATAGGCAAGTAACTTTAAAATTCTTTCTTTGAAAAATGCTCCTATAAACATAGG
1 CTCTTATAAACATAGGCAAGTGACTTTAAAA-TCTTTCTTTGAAAAATGCTCCTATAAACATAGG
* * * * * *
8741045 CAAGTTACTTTAAGAATCTTTCTCTAAAAATTTGCTCCTATAAACATAGGCAAGTGACTTTAAAT
65 CAAGTAACTTTAAAAATCTTTCTTTAAAAA-GTGCTCCTATAAACATAGGCAAGTAACTTTAAAA
8741110 ATCT
129 ATCT
* **
8741114 C-C-TATAAACATAGGCAAGTGACTTTAAAAATCTCTCTTTGAAATGTGCTCCTATAAACATAGG
1 CTCTTATAAACATAGGCAAGTGACTTT-AAAATCTTTCTTTGAAAAATGCTCCTATAAACATAGG
* * *
8741177 CAAGTAACTTCAAAAATCTTTTTTTGAAAAAGTGCTCTTATAAACATAGGCAAGTAACTTTAAAA
65 CAAGTAACTTTAAAAATCTTTCTTT-AAAAAGTGCTCCTATAAACATAGGCAAGTAACTTTAAAA
8741242 ATCTTT
129 ATC--T
* ** * * *
8741248 CTTTGAACTTATAAACAAAGAAAAGTGACTTTAAAA-GTTTCTCTTCAAAAAGTACTCCTATAAA
1 C--T---CTTATAAACATAGGCAAGTGACTTTAAAATCTTTCT-TTGAAAAA-TGCTCCTATAAA
* * * * *
8741312 CATAGGCAAATGACTTTAAAAATCTTTGTTTGAAAAGTACTCCTATAAACATAGGCAAGTAACTT
59 CATAGGCAAGTAACTTTAAAAATCTTTCTTTAAAAAGTGCTCCTATAAACATAGGCAAGTAACTT
8741377 TAAAAATCT
124 TAAAAATCT
8741386 CTCTT
1 CTCTT
8741391 TGAAAATGCT
Statistics
Matches: 235, Mismatches: 29, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
132 105 0.45
133 13 0.06
134 3 0.01
136 1 0.00
138 2 0.01
139 4 0.02
140 49 0.21
141 58 0.25
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (132 bp):
CTCTTATAAACATAGGCAAGTGACTTTAAAATCTTTCTTTGAAAAATGCTCCTATAAACATAGGC
AAGTAACTTTAAAAATCTTTCTTTAAAAAGTGCTCCTATAAACATAGGCAAGTAACTTTAAAAAT
CT
Found at i:8741192 original size:49 final size:49
Alignment explanation
Indices: 8741112--8741472 Score: 374
Period size: 49 Copynumber: 7.6 Consensus size: 49
8741102 CTTTAAATAT
* *
8741112 CTCCTATAAACATAGGCAAGTGACTTTAAAAATCTCTCTTTGAAATGTG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
* * *
8741161 CTCCTATAAACATAGGCAAGTAACTTCAAAAATCTTTTTTTGAAAAAGTG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTG-AAAAGTG
* *
8741211 CTCTTATAAACATAGGCAAGTAACTTTAAAAATCTTTCTTTG--AA---
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
* ** * * * ** *
8741255 CT--TATAAACAAAGAAAAGTGACTTTAAAAGTTTCTCTTCAAAAAGTA
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
* * * * *
8741302 CTCCTATAAACATAGGCAAATGACTTTAAAAATCTTTGTTTGAAAAGTA
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
8741351 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAA-TG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
* * *
8741399 CTCCTATAAACATAGACAAG------T-AAAATCTTTCTTTTAAAAAGTG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTC-TTTGAAAAGTG
*
8741442 TTCCTATAAACATAGGCAAGTAACTTTAAAA
1 CTCCTATAAACATAGGCAAGTAACTTTAAAA
8741473 GTCTTTTTTC
Statistics
Matches: 258, Mismatches: 37, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
41 9 0.03
42 37 0.14
43 20 0.08
44 4 0.02
47 4 0.02
48 20 0.08
49 116 0.45
50 48 0.19
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (49 bp):
CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAAAGTG
Found at i:8741215 original size:231 final size:225
Alignment explanation
Indices: 8740707--8741487 Score: 661
Period size: 231 Copynumber: 3.4 Consensus size: 225
8740697 AAAAATGATA
** * *
8740707 CTATAAATTTAGGCAAGTAACTTTAAAATCTTTTTTTTTTTAAAAGTGCTCCTATAAACATAGGC
1 CTATAAACATAGGCAAGTAACTTAAAAATC---TTTTTTTAAAAAGTGCTCCTATAAACATAGGC
8740772 AAGTAACTTTTAAAATCTTTCTTTTTGAAAAAGTGCTCCTATAAACATAGGCAAG-TA----AAA
63 AAGTAAC-TTTAAAATCTTTC--TTTGAAAAA-TGCTCCTATAAACATAGGCAAGTTACTTTAAA
* * * * *
8740832 TATTCTTT-T-TGAAAAATGCTCCTATAAACATAGGAAAATGACTTTAAAAATCTTTCTTTTTGA
124 -A-TCTTTCTCTCAAAAATGCTCCTATAAACATAGGCAAATGACTTTAAATATC--TC-CTAT-A
* * * * *
8740895 AA-AT-GTGC---TCCTAT-AAACT-TTTTTTTGAAAATGTGCTC
183 AACATAG-GCAAGTACTTTAAAAATCTCTCTTTG-AAATGTGCTC
* * * *
8740933 CTATAAACATAGGCAAGTGACTTTTAAAAATCTTTATTTAAAAAATGCTCTTATAAACATAGGCA
1 CTATAAACATAGGCAAGTAAC--TTAAAAATCTTTTTTTAAAAAGTGCTCCTATAAACATAGGCA
8740998 AGTAACTTTAAAATTCTTTCTTTGAAAAATGCTCCTATAAACATAGGCAAGTTACTTTAAGAATC
64 AGTAACTTTAAAA-TCTTTCTTTGAAAAATGCTCCTATAAACATAGGCAAGTTACTTTAA-AATC
*
8741063 TTTCTCT-AAAAATTTGCTCCTATAAACATAGGCAAGTGACTTTAAATATCTCCTATAAACATAG
127 TTTCTCTCAAAAA--TGCTCCTATAAACATAGGCAAATGACTTTAAATATCTCCTATAAACATAG
8741127 GCAAGTGACTTTAAAAATCTCTCTTTGAAATGTGCTC
190 GCAAGT-ACTTTAAAAATCTCTCTTTGAAATGTGCTC
*
8741164 CTATAAACATAGGCAAGTAACTTCAAAAATCTTTTTTTGAAAAAGTGCTCTTATAAACATAGGCA
1 CTATAAACATAGGCAAGTAACTT-AAAAATCTTTTTTT-AAAAAGTGCTCCTATAAACATAGGCA
* ** * *
8741229 AGTAACTTTAAAAATCTTTCTTTG---AA--CT--TATAAACAAAGAAAAGTGACTTTAAAA-GT
64 AGTAACTTT-AAAATCTTTCTTTGAAAAATGCTCCTATAAACATAGGCAAGTTACTTTAAAATCT
*
8741286 TTCTCTTCAAAAAGTACTCCTATAAACATAGGCAAATGACTTTAAAAATCTTTGTTTGAAAAGTA
128 TTCTC-TCAAAAA-TGCTCCTATAAACATAGGCAAATGACTTT--AAA--------T----A-T-
*
8741351 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTCTCTTTGAAA-ATGCTC
175 CTCCTATAAACATAGGCAAGT-ACTTTAAAAATCTCTCTTTGAAATGTGCTC
* *
8741402 CTATAAACATAGACAAG-----T-AAAATCTTTCTTTTAAAAAGTGTTCCTATAAACATAGGCAA
1 CTATAAACATAGGCAAGTAACTTAAAAATCTTT-TTTTAAAAAGTGCTCCTATAAACATAGGCAA
*
8741461 GTAACTTTAAAAGTCTTT-TTTCAAAAA
65 GTAACTTTAAAA-TCTTTCTTTGAAAAA
8741488 ATTTTGAAAG
Statistics
Matches: 473, Mismatches: 35, Indels: 87
0.79 0.06 0.15
Matches are distributed among these distances:
222 28 0.06
223 41 0.09
224 33 0.07
225 47 0.10
226 31 0.07
227 12 0.03
228 12 0.03
229 36 0.08
230 23 0.05
231 125 0.26
232 14 0.03
233 4 0.01
237 1 0.00
238 22 0.05
239 44 0.09
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (225 bp):
CTATAAACATAGGCAAGTAACTTAAAAATCTTTTTTTAAAAAGTGCTCCTATAAACATAGGCAAG
TAACTTTAAAATCTTTCTTTGAAAAATGCTCCTATAAACATAGGCAAGTTACTTTAAAATCTTTC
TCTCAAAAATGCTCCTATAAACATAGGCAAATGACTTTAAATATCTCCTATAAACATAGGCAAGT
ACTTTAAAAATCTCTCTTTGAAATGTGCTC
Found at i:8741438 original size:140 final size:136
Alignment explanation
Indices: 8741161--8741486 Score: 388
Period size: 140 Copynumber: 2.3 Consensus size: 136
8741151 TTGAAATGTG
* * *
8741161 CTCCTATAAACATAGGCAAGTAACTTCAAAAATCTTTTTTTGAAAAAGTGCTCTTATAAACATAG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATC-TTTTTTG-AAAAGTACTCCTATAAACATAG
* *
8741226 GCAAGTAACTTTAAAAATCTTTCTTTGAACTTATAAACAAAGAAAAGTGACTTTAAAAGTTTCTC
64 GCAAGTAACTTTAAAAATCTCTCTTTGAACTTATAAACAAAGAAAAGTGA---TAAAACTTTCTC
8741291 TTCAAAAAGTA
126 TTCAAAAAGTA
* *
8741302 CTCCTATAAACATAGGCAAATGACTTTAAAAATCTTTGTTTGAAAAGTACTCCTATAAACATAGG
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTTT-TTTGAAAAGTACTCCTATAAACATAGG
* * *
8741367 CAAGTAACTTTAAAAATCTCTCTTTGAAAATGCTCCTATAAACATAGACAAGT-A-AAATCTTTC
65 CAAGTAACTTTAAAAATCTCTCTTTG--AA--CT--TATAAACAAAGAAAAGTGATAAAACTTTC
* *
8741430 T-TTTAAAAAGTG
124 TCTTCAAAAAGTA
* * *
8741442 TTCCTATAAACATAGGCAAGTAACTTTAAAAGTCTTTTTTCAAAA
1 CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTTTTTTGAAAA
8741487 AATTTTGAAA
Statistics
Matches: 161, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
139 7 0.04
140 91 0.57
141 43 0.27
142 2 0.01
144 2 0.01
145 1 0.01
146 15 0.09
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (136 bp):
CTCCTATAAACATAGGCAAGTAACTTTAAAAATCTTTTTTGAAAAGTACTCCTATAAACATAGGC
AAGTAACTTTAAAAATCTCTCTTTGAACTTATAAACAAAGAAAAGTGATAAAACTTTCTCTTCAA
AAAGTA
Found at i:8741454 original size:43 final size:41
Alignment explanation
Indices: 8741379--8741464 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 41
8741369 AGTAACTTTA
*
8741379 AAAATCTCTCTTTGAAAATGCTCCTATAAACATAGACAAGT
1 AAAATCTCTCTTTAAAAATGCTCCTATAAACATAGACAAGT
* * *
8741420 AAAATCTTTCTTTTAAAAAGTGTTCCTATAAACATAGGCAAGT
1 AAAATCTCTC-TTTAAAAA-TGCTCCTATAAACATAGACAAGT
8741463 AA
1 AA
8741465 CTTTAAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 9 0.23
42 7 0.18
43 23 0.59
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.31
Consensus pattern (41 bp):
AAAATCTCTCTTTAAAAATGCTCCTATAAACATAGACAAGT
Found at i:8751548 original size:17 final size:15
Alignment explanation
Indices: 8751526--8751598 Score: 69
Period size: 17 Copynumber: 4.6 Consensus size: 15
8751516 TCTTTATTCG
8751526 TTTTTTAATGATTTTAT
1 TTTTTTAAT--TTTTAT
8751543 TTTTTT--TTTTTAT
1 TTTTTTAATTTTTAT
8751556 TTTTTATCAATTTTTCAT
1 TTTTT-T-AATTTTT-AT
8751574 TTTTCTTAATTTTTAT
1 TTTT-TTAATTTTTAT
*
8751590 TTTTCTAAT
1 TTTTTTAAT
8751599 GATTTCATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
15 5 0.10
16 6 0.12
17 18 0.37
18 7 0.14
19 1 0.02
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTTTAATTTTTAT
Found at i:8752132 original size:19 final size:19
Alignment explanation
Indices: 8752098--8752138 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
8752088 TAAAAACAAG
8752098 ATAAATAACAATAATTTAAA
1 ATAAATAACAATAA-TTAAA
*
8752118 ATAAATGAC-ATAATTAAA
1 ATAAATAACAATAATTAAA
8752136 ATA
1 ATA
8752139 TGCATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAATAACAATAATTAAA
Found at i:8752317 original size:20 final size:21
Alignment explanation
Indices: 8752294--8752333 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8752284 ATGAATTAAG
8752294 ATTAAA-AAACAA-TTAGGACC
1 ATTAAATAAA-AATTTAGGACC
8752314 ATTAAATAAAAATTTAGGAC
1 ATTAAATAAAAATTTAGGAC
8752334 AACACACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
ATTAAATAAAAATTTAGGACC
Found at i:8753123 original size:20 final size:21
Alignment explanation
Indices: 8753087--8753125 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8753077 AATGCATGGC
8753087 AATTAAAAAATGCATGTAACA
1 AATTAAAAAATGCATGTAACA
*
8753108 AATTAAAACATG-ATGTAA
1 AATTAAAAAATGCATGTAA
8753126 ATGCATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (21 bp):
AATTAAAAAATGCATGTAACA
Found at i:8753188 original size:7 final size:7
Alignment explanation
Indices: 8753178--8753269 Score: 85
Period size: 7 Copynumber: 12.4 Consensus size: 7
8753168 TGTTTTAAAA
8753178 TTTAGGG
1 TTTAGGG
*
8753185 TTTAGGCT
1 TTTAGG-G
8753193 TTTAGGG
1 TTTAGGG
**
8753200 TTTAAAG
1 TTTAGGG
*
8753207 TTTAAGGT
1 TTT-AGGG
8753215 TTTAGGG
1 TTTAGGG
8753222 TTTAGGG
1 TTTAGGG
*
8753229 TTTTAGGA
1 -TTTAGGG
*
8753237 TTTAGGT
1 TTTAGGG
8753244 TTTAGGG
1 TTTAGGG
8753251 TTTTAGAGG
1 -TTTAG-GG
8753260 TTTAGGG
1 TTTAGGG
8753267 TTT
1 TTT
8753270 CATGGAATTA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
7 41 0.59
8 26 0.38
9 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:8753196 original size:15 final size:14
Alignment explanation
Indices: 8753178--8753265 Score: 77
Period size: 15 Copynumber: 5.9 Consensus size: 14
8753168 TGTTTTAAAA
8753178 TTTAGGGTTTAGGCT
1 TTTAGGGTTTAGG-T
*
8753193 TTTAGGGTTTAAAGT
1 TTTAGGGTTT-AGGT
* * *
8753208 TTAAGGTTTTAGGG
1 TTTAGGGTTTAGGT
*
8753222 TTTAGGGTTTTAGGA
1 TTTAGGG-TTTAGGT
*
8753237 TTTAGGTTTTAGGGT
1 TTTAGGGTTTA-GGT
8753252 TTTAGAGGTTTAGG
1 TTTAG-GGTTTAGG
8753266 GTTTCATGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
14 11 0.19
15 40 0.69
16 7 0.12
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAGGT
Found at i:8753203 original size:22 final size:21
Alignment explanation
Indices: 8753149--8753269 Score: 102
Period size: 22 Copynumber: 5.6 Consensus size: 21
8753139 GTTAAAGATT
8753149 GGTTTTAGGGTTTA-GG-TTA
1 GGTTTTAGGGTTTAGGGTTTA
* ***
8753168 TGTTTTAAAATTTAGGGTTTA
1 GGTTTTAGGGTTTAGGGTTTA
**
8753189 GGCTTTTAGGGTTTAAAGTTTAA
1 GG-TTTTAGGGTTTAGGGTTT-A
8753212 GGTTTTAGGGTTTAGGGTTTTA
1 GGTTTTAGGGTTTAGGG-TTTA
* *
8753234 GGATTTAGGTTTTAGGGTTTTA
1 GGTTTTAGGGTTTAGGG-TTTA
*
8753256 GAGGTTTAGGGTTT
1 G-GTTTTAGGGTTT
8753270 CATGGAATTA
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 10 0.12
20 2 0.03
21 4 0.05
22 48 0.60
23 16 0.20
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (21 bp):
GGTTTTAGGGTTTAGGGTTTA
Found at i:8756810 original size:77 final size:77
Alignment explanation
Indices: 8756683--8756826 Score: 189
Period size: 77 Copynumber: 1.9 Consensus size: 77
8756673 ACCTTTATAT
* * *
8756683 TCATTGCGTTAAGGCATATAGGCAAACACAAACCCCATTTTTTGCCAACATGTTTAATGCACCCT
1 TCATTGCGTTAAGGCATATAGGCAAACACAAACCCCATTTTCTACCAACATGCTTAATGCACCCT
8756748 TGTGTGCCATAC
66 TGTGTGCCATAC
* ** * * * * *
8756760 TCATTGTGTTAAGGTTTATGGGCGAACATAAACCCCATTTTCTACTAACATGCTTAATGCATCCT
1 TCATTGCGTTAAGGCATATAGGCAAACACAAACCCCATTTTCTACCAACATGCTTAATGCACCCT
8756825 TG
66 TG
8756827 CACACTATGT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (77 bp):
TCATTGCGTTAAGGCATATAGGCAAACACAAACCCCATTTTCTACCAACATGCTTAATGCACCCT
TGTGTGCCATAC
Found at i:8760956 original size:189 final size:189
Alignment explanation
Indices: 8760622--8760986 Score: 468
Period size: 189 Copynumber: 1.9 Consensus size: 189
8760612 TTGTTATGGG
* * * *
8760622 TGAAACACATATGATCCAAGGTAGGCTTACAAGGATGTCTATTTGGTGGCCACGTTCTAAGAGCC
1 TGAAACACATATGATCCAAGGTAGGCTTACAAAGATGCCTATTTGGTGGCCACGTACCAAGAGCC
** * * * * *
8760687 AAGTCTTTGAGCTACTCAACCACCACATTTTTTCTCTTGTCTTGTTTTCCCTTTCTTTTCCCAAT
66 AAGTCCCTGAGCTACTCAACCACCACATTTTTTCTATTATCTTATTTTCCCTTTCTATTCCCAAC
* *
8760752 AATGAAGACATTTACATCAACAATAGAAGCCTTTACCTCTCTAATGGAATCATTATAGT
131 AAAGAAGACATTTACATCAACAATAGAAGCCATTACCTCTCTAATGGAATCATTATAGT
* * * *
8760811 TGAAACACATATGATCTAGGGTAGGCTTGCAAAGATGCCTATTTGGTGGCCATGTACC-AGAAGC
1 TGAAACACATATGATCCAAGGTAGGCTTACAAAGATGCCTATTTGGTGGCCACGTACCAAG-AGC
*
8760875 CAAGTCCCTGAGCTACTCAACCACCAC-CTTTTTCTTATTATCTTATTTT-CCTTTCCTATTCCC
65 CAAGTCCCTGAGCTACTCAACCACCACATTTTTTC-TATTATCTTATTTTCCCTTT-CTATTCCC
* * * *
8760938 AACAACAG-AGATATTTACATTAGCAATAGGAGCCATTACCTCTCTAATG
128 AACAA-AGAAGACATTTACATCAACAATAGAAGCCATTACCTCTCTAATG
8760987 ACAATGCCAC
Statistics
Matches: 150, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
188 13 0.09
189 136 0.91
190 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (189 bp):
TGAAACACATATGATCCAAGGTAGGCTTACAAAGATGCCTATTTGGTGGCCACGTACCAAGAGCC
AAGTCCCTGAGCTACTCAACCACCACATTTTTTCTATTATCTTATTTTCCCTTTCTATTCCCAAC
AAAGAAGACATTTACATCAACAATAGAAGCCATTACCTCTCTAATGGAATCATTATAGT
Found at i:8768192 original size:13 final size:13
Alignment explanation
Indices: 8768174--8768200 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8768164 AGCAAATAGA
8768174 AAAAAATAAAGGC
1 AAAAAATAAAGGC
8768187 AAAAAATAAAGGC
1 AAAAAATAAAGGC
8768200 A
1 A
8768201 TTTTTTTAGG
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:0.70, C:0.07, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAAAATAAAGGC
Found at i:8775603 original size:88 final size:88
Alignment explanation
Indices: 8775496--8775684 Score: 247
Period size: 88 Copynumber: 2.1 Consensus size: 88
8775486 TAATATTTTG
* * * **
8775496 AAAAATAAATTTTTTCATAATATATTTTCAACAAAAATCACT-TTTTTAATCTTAAAAACAT-TG
1 AAAAATAAATTTTTACATAATAGATTTTCAACAAAAATCA-TGTTTTTAATCTAAAAAACATAAC
* *
8775559 TCTTTATTGAAATTATAAAATTCTT
65 T-TTTATTGAAACTATAAAATTCTA
* *
8775584 AAAAATAAATTTTTACATAATAGATTTTTAACAAAGATCATGTTTTTAATCTAAAAAACATAACT
1 AAAAATAAATTTTTACATAATAGATTTTCAACAAAAATCATGTTTTTAATCTAAAAAACATAACT
* *
8775649 TTTTTTTAAACTATAAAATTCTA
66 TTTATTGAAACTATAAAATTCTA
8775672 AAAAATAAATTTT
1 AAAAATAAATTTT
8775685 AATCAATTGA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 1 0.01
88 86 0.98
89 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (88 bp):
AAAAATAAATTTTTACATAATAGATTTTCAACAAAAATCATGTTTTTAATCTAAAAAACATAACT
TTTATTGAAACTATAAAATTCTA
Found at i:8792774 original size:13 final size:13
Alignment explanation
Indices: 8792756--8792781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8792746 TTTCTCCTAC
8792756 CCTCTAAAAGAAT
1 CCTCTAAAAGAAT
8792769 CCTCTAAAAGAAT
1 CCTCTAAAAGAAT
8792782 AAGGAAAAAA
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CCTCTAAAAGAAT
Found at i:8797681 original size:56 final size:56
Alignment explanation
Indices: 8797592--8797704 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
8797582 TCGAATGAAG
* *
8797592 CCTATGGAATACAAAGGTTTTGCAAGGGTATTGTAAAGGGTTACAATTATGAGATC
1 CCTATGGAATACAAAGGCTTTGCAAGGGCATTGTAAAGGGTTACAATTATGAGATC
* *
8797648 CCTATGGAATATAGAGGCTTTGC-AGGAGCATTGTAAAGGGTTACAATTATGAGATC
1 CCTATGGAATACAAAGGCTTTGCAAGG-GCATTGTAAAGGGTTACAATTATGAGATC
8797704 C
1 C
8797705 TTACATATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 3 0.06
56 49 0.94
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (56 bp):
CCTATGGAATACAAAGGCTTTGCAAGGGCATTGTAAAGGGTTACAATTATGAGATC
Found at i:8810314 original size:50 final size:48
Alignment explanation
Indices: 8810012--8810315 Score: 134
Period size: 50 Copynumber: 6.1 Consensus size: 48
8810002 ATAAAACCAC
* * * * *
8810012 CATATTCTTTCAATTCAAGAACAAGTCTTAACA-ACCTTTAAAACGAAATC
1 CATATTCTTT-AATTCAAGAACAAGTC-TAA-AGACCCTTGAAGCGAAGTT
* * * * * *
8810062 CAAATCTCTTCAATTCAAGAACAAATCTCAACGACCCTTAATATG-G-AGTA
1 CATAT-TCTTTAATTCAAGAACAAGTCT-AAAGACCCTTGA-A-GCGAAGTT
*** * *
8810112 CATATTCCAACAATTCAAGAACAAGTCTCAATGACTCTTGAAGCGAAGTT
1 CATATT-CTTTAATTCAAGAACAAGTCT-AAAGACCCTTGAAGCGAAGTT
* * * * **
8810162 CATACTTCTTTGATTTAGGAACAAGTCTTAAA-AACCTT-AAATGAAG-T
1 CATA-TTCTTTAATTCAAGAACAAGTC-TAAAGACCCTTGAAGCGAAGTT
* * * * * * ***
8810209 CTAAATTTTTTTAATTCAAGAATATGTCTCAAAGACTCTTGAAGCAAAACC
1 C-ATA-TTCTTTAATTCAAGAACAAGTCT-AAAGACCCTTGAAGCGAAGTT
*
8810260 CATATACCTTTAATTCAAGAACAAGTCTAAATGACCCTTGAAGCGAAGTT
1 CATAT-TCTTTAATTCAAGAACAAGTCTAAA-GACCCTTGAAGCGAAGTT
8810310 CATATT
1 CATATT
8810316 TTCTCAATTC
Statistics
Matches: 184, Mismatches: 53, Indels: 35
0.68 0.19 0.13
Matches are distributed among these distances:
47 3 0.02
48 28 0.15
49 16 0.09
50 127 0.69
51 10 0.05
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (48 bp):
CATATTCTTTAATTCAAGAACAAGTCTAAAGACCCTTGAAGCGAAGTT
Found at i:8814151 original size:15 final size:15
Alignment explanation
Indices: 8814131--8814164 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8814121 GTCCCAAATA
8814131 ATCTTTTACGTGTTT
1 ATCTTTTACGTGTTT
8814146 ATCTTTTACGTGTTT
1 ATCTTTTACGTGTTT
8814161 ATCT
1 ATCT
8814165 ACATTAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (15 bp):
ATCTTTTACGTGTTT
Found at i:8817582 original size:145 final size:142
Alignment explanation
Indices: 8817143--8817684 Score: 419
Period size: 145 Copynumber: 3.7 Consensus size: 142
8817133 TAAAACACCA
* * * * * ** * * * * *
8817143 AAAAATCATGAAATATTATAAGATTATGATCTGAAAATTTTTGTTAAATTCTGAGCTCGAAAAAG
1 AAAAATCATGAAATATTATAAAACTA-GATTTAAAAAGTTTCATAAAATTTTGAGCTTGGAAAGG
* * * * * * *
8817208 -CTAAATTACAAAAATACCCCTATGAGGGTATTTTAGTAATTTCACACTTCTTGGAGTATTGTTA
65 TC-AAATTATAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTC-CGG-GAAATGTTA
* *
8817272 TAATTTCAAATGCATC
127 TGATTTTAAATGCATC
* * * *
8817288 AAAAATCATAAAATATTATAAAACTAGGA-TCAAAAAGTTTTATAAAATTTTAAGCTTGGAAAGG
1 AAAAATCATGAAATATTATAAAACTA-GATTTAAAAAGTTTCATAAAATTTTGAGCTTGGAAAGG
* * * * ** * *
8817352 CCCAATTATGAAAATA-CCATCGAAGAGTATTTTGGTAATTTCACACTTCTCGGGAAAAATATTA
65 TCAAATTATAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTC-CGGG--AAATGTTA
* *
8817416 TGATTCTAAACT-CACC
127 TGATTTTAAA-TGCATC
* * * *
8817432 AAAAATCATGAAATGTTACAAAAGTGAGATTTAAAAAGTTTCACAAAATTTTGAGCTTGGAAAGG
1 AAAAATCATGAAATATTATAAAACT-AGATTTAAAAAGTTTCATAAAATTTTGAGCTTGGAAAGG
** *
8817497 TCAAATTATAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTTCCAAGGG-ACCGTTG
65 TCAAATTATAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACAC-TTCC--GGGAAATGTTA
8817561 TGATTTTAAATGCATC
127 TGATTTTAAATGCATC
* ** * * * * * * ***
8817577 AAAAATTATGAAATATTATAGGATTAAGGTCTGAAAAGTTTCATAAAAATCTGAGCTCAAAAAGG
1 AAAAATCATGAAATATTATAAAACT-AGATTTAAAAAGTTTCATAAAATTTTGAGCTTGGAAAGG
*
8817642 TCAAATTATGAAAATACCCCTTATAAGGGTATTTTGGTAATTT
65 TCAAATTATAAAAATA-CCCTTATAAGGGTATTTTGGTAATTT
8817685 GGCCTCTCCC
Statistics
Matches: 315, Mismatches: 70, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
142 1 0.00
143 30 0.10
144 74 0.23
145 151 0.48
146 53 0.17
147 3 0.01
148 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (142 bp):
AAAAATCATGAAATATTATAAAACTAGATTTAAAAAGTTTCATAAAATTTTGAGCTTGGAAAGGT
CAAATTATAAAAATACCCTTATAAGGGTATTTTGGTAATTTCACACTTCCGGGAAATGTTATGAT
TTTAAATGCATC
Found at i:8818120 original size:1 final size:1
Alignment explanation
Indices: 8818114--8818150 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
8818104 TTTCTTCTCA
* *
8818114 TTTTTTTTTTTGTTTTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8818151 GAAACTATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:8818233 original size:22 final size:22
Alignment explanation
Indices: 8818208--8818250 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
8818198 CCTCCAATCA
8818208 GAGGCCATGAAACTTTGAATTG
1 GAGGCCATGAAACTTTGAATTG
8818230 GAGGCCATGAAACTTTGAATT
1 GAGGCCATGAAACTTTGAATT
8818251 TAAAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (22 bp):
GAGGCCATGAAACTTTGAATTG
Found at i:8818338 original size:67 final size:67
Alignment explanation
Indices: 8818230--8818390 Score: 286
Period size: 67 Copynumber: 2.4 Consensus size: 67
8818220 CTTTGAATTG
*
8818230 GAGGCCATGAAACTTTGAATTTAAAATGTTTTACAAATCACAAAGCTTTTGAATGCTCCTCCAAT
1 GAGGCCATGAAACTTTGAATTTAAAATGTTTTACAAATCACAAAACTTTTGAATGCTCCTCCAAT
8818295 CA
66 CA
**
8818297 GAGGCCATGAAACTTTGAATTTAAAATGTTTTATGAATCACAAAACTTTTGAATGCTCCTCCAAT
1 GAGGCCATGAAACTTTGAATTTAAAATGTTTTACAAATCACAAAACTTTTGAATGCTCCTCCAAT
8818362 CA
66 CA
*
8818364 AAGGCCATGAAACTTTGAATTTAAAAT
1 GAGGCCATGAAACTTTGAATTTAAAAT
8818391 ATTTATAGAA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 90 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (67 bp):
GAGGCCATGAAACTTTGAATTTAAAATGTTTTACAAATCACAAAACTTTTGAATGCTCCTCCAAT
CA
Found at i:8818511 original size:22 final size:22
Alignment explanation
Indices: 8818492--8818553 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
8818482 TTTTGCCTAG
8818492 AGGTCTTGAAA-ATTATGCCTTA
1 AGGTCTT-AAAGATTATGCCTTA
*
8818514 AGGTCTTAAAGATTATGTCC-AA
1 AGGTCTTAAAGATTATG-CCTTA
*
8818536 AAGTCTTAAAGATTATGC
1 AGGTCTTAAAGATTATGC
8818554 TTTGTGGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 30 0.83
23 2 0.06
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (22 bp):
AGGTCTTAAAGATTATGCCTTA
Found at i:8818955 original size:104 final size:104
Alignment explanation
Indices: 8818650--8818958 Score: 442
Period size: 104 Copynumber: 3.0 Consensus size: 104
8818640 AAATTAGGTC
* * * * *
8818650 CAAAGGTATTAAAGATTATGCCAGGAGCTCTTACAA-ATCTCAAAATCTTTGAATTCTCCTCCAA
1 CAAAGGTCTTAAAAATTATGCCAGGAGGTCTTA-AAGATTTCAAAATCTTTGAATGCTCCTCCAA
*
8818714 TCAAAGGCCATGAAACTTTAAAAATTTTAAATGGTTTGCT
65 TCAAAGGCCATGAAACTTTAAAAATTTTAAATGTTTTGCT
* ** * * *
8818754 CAAAGGTCTTAAAAATTATGCCTGGAGGTCTTAGGGATTTTAAAATCTTTGAATGCTCATTCAAT
1 CAAAGGTCTTAAAAATTATGCCAGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCCAAT
* *
8818819 CAGAGGCCATGAAACTTTAAAAAGTTTAAATGTTTTGC-
66 CAAAGGCCATGAAACTTTAAAAATTTTAAATGTTTTGCT
* *
8818857 CTAGAGGTCTTAAAAATTATGCCCGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCCAA
1 C-AAAGGTCTTAAAAATTATGCCAGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCCAA
8818922 TCAAAGGCCATGAAACTTTAAAAATTTTAAATGTTTT
65 TCAAAGGCCATGAAACTTTAAAAATTTTAAATGTTTT
8818959 ACAAATGGAT
Statistics
Matches: 180, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
103 1 0.01
104 179 0.99
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (104 bp):
CAAAGGTCTTAAAAATTATGCCAGGAGGTCTTAAAGATTTCAAAATCTTTGAATGCTCCTCCAAT
CAAAGGCCATGAAACTTTAAAAATTTTAAATGTTTTGCT
Found at i:8819469 original size:18 final size:18
Alignment explanation
Indices: 8819443--8819482 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8819433 AAATGATGCT
8819443 AATGAAAATGTCAATGAA
1 AATGAAAATGTCAATGAA
* *
8819461 AATGCAAATGTCAATGTA
1 AATGAAAATGTCAATGAA
8819479 AATG
1 AATG
8819483 TAAGAATGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (18 bp):
AATGAAAATGTCAATGAA
Found at i:8819642 original size:41 final size:41
Alignment explanation
Indices: 8819574--8819691 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
8819564 ACAAATACCT
* * *
8819574 TTTCTTAGGATGCAAATGCAAGT-ATGCAAATGCAAATTTC
1 TTTCTTATGATGCAAATGCAAGTGATGCAAATACAAATGTC
8819614 TTTCTTATGATGCAAATGCAAGTGATGCAAATACAAATGTC
1 TTTCTTATGATGCAAATGCAAGTGATGCAAATACAAATGTC
*
8819655 TTT-TTCATGATGCAAATGCAAGTGGTGCAAAATACAA
1 TTTCTT-ATGATGCAAATGCAAGTGATGC-AAATACAA
8819692 GTGCTAGTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 24 0.34
41 39 0.55
42 8 0.11
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (41 bp):
TTTCTTATGATGCAAATGCAAGTGATGCAAATACAAATGTC
Found at i:8822160 original size:7 final size:7
Alignment explanation
Indices: 8822124--8822154 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8822114 TTACAAATCT
8822124 TTTTTTG
1 TTTTTTG
8822131 TTTTTTG
1 TTTTTTG
8822138 TTTTTTG
1 TTTTTTG
8822145 TTTTTT-
1 TTTTTTG
8822151 TTTT
1 TTTT
8822155 CGTTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (7 bp):
TTTTTTG
Found at i:8825645 original size:87 final size:87
Alignment explanation
Indices: 8825513--8825779 Score: 403
Period size: 87 Copynumber: 3.1 Consensus size: 87
8825503 CATCAATTGG
* *
8825513 GCCATTTGTTGTTTTATCT-CTAAAGCTTGAGCCAAAATT-TCTCTTGATTCAACTCTAATGTAC
1 GCCATTTGTTGTTTTATCTCCTAAAGCTCGAGCCAAAATTAT-TCTTGATTCAACTCCAATGTAC
8825576 TAATCTTTGCTTCCAATTAATCT
65 TAATCTTTGCTTCCAATTAATCT
* *
8825599 GTCATTTGTTGTTTTATCTCCTAAAGCTCGAGCCAAAATTATTCTTGATTCAACTCCAATTTACT
1 GCCATTTGTTGTTTTATCTCCTAAAGCTCGAGCCAAAATTATTCTTGATTCAACTCCAATGTACT
* * *
8825664 AATCTTTGCTTTCAATTGATTT
66 AATCTTTGCTTCCAATTAATCT
* *
8825686 GCCATTTGTTGTTTTATCTCCTAAAGCTCGAGCTAAAATTATTCTTGATTTAACTCCAATGTACT
1 GCCATTTGTTGTTTTATCTCCTAAAGCTCGAGCCAAAATTATTCTTGATTCAACTCCAATGTACT
* * *
8825751 AATCATTGCTTCCAATTGATTT
66 AATCTTTGCTTCCAATTAATCT
8825773 GCCATTT
1 GCCATTT
8825780 TTACCATTCT
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 18 0.11
87 147 0.89
88 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (87 bp):
GCCATTTGTTGTTTTATCTCCTAAAGCTCGAGCCAAAATTATTCTTGATTCAACTCCAATGTACT
AATCTTTGCTTCCAATTAATCT
Found at i:8826350 original size:30 final size:30
Alignment explanation
Indices: 8826314--8826414 Score: 150
Period size: 30 Copynumber: 3.4 Consensus size: 30
8826304 ACGTGTATAA
*
8826314 AATGGGATGCATATACTATCCATT-AGTGTG
1 AATGGGATGCATGTACTATCCATTGA-TGTG
8826344 AATGGGATGCATGTACTATCCATTGATGTG
1 AATGGGATGCATGTACTATCCATTGATGTG
* *
8826374 AATGGGATGCATGTCCTATCTATTGATGTG
1 AATGGGATGCATGTACTATCCATTGATGTG
*
8826404 GATGGGATGCA
1 AATGGGATGCA
8826415 ATGCATGTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
30 65 0.98
31 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (30 bp):
AATGGGATGCATGTACTATCCATTGATGTG
Found at i:8826487 original size:35 final size:35
Alignment explanation
Indices: 8826375--8826495 Score: 91
Period size: 35 Copynumber: 3.4 Consensus size: 35
8826365 ATTGATGTGA
* * * *
8826375 ATGGGATGCATGTCCTATCTATTGATG-TGGATGGG
1 ATGGGATGCATATACTATTTATT-ATGATGAATGGG
** * * * **
8826410 ATGCAATGCATGTATTATCTTATTATAATGTAATCAG
1 ATGGGATGCATATACTAT-TTATTATGATG-AATGGG
*
8826447 ATGGGATGCATATACTATTTATTATGATGCATGGG
1 ATGGGATGCATATACTATTTATTATGATGAATGGG
*
8826482 ATGGGATGTATATA
1 ATGGGATGCATATA
8826496 ATATCAGATT
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
35 32 0.49
36 16 0.25
37 17 0.26
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (35 bp):
ATGGGATGCATATACTATTTATTATGATGAATGGG
Found at i:8838985 original size:21 final size:21
Alignment explanation
Indices: 8838913--8838990 Score: 61
Period size: 21 Copynumber: 3.7 Consensus size: 21
8838903 AAAACTCATC
*
8838913 TGATCAATCCC-TTTATGGAGG
1 TGATCAATCCCTTTTAT-AAGG
* * *
8838934 AGATCAAT-CCTCTCTATAGGG
1 TGATCAATCCCT-TTTATAAGG
* *
8838955 TGACCGATCCCTTTTATAAGG
1 TGATCAATCCCTTTTATAAGG
*
8838976 TGATCAATCCTTTTT
1 TGATCAATCCCTTTT
8838991 GATGATTTTC
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
20 2 0.05
21 33 0.79
22 7 0.17
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (21 bp):
TGATCAATCCCTTTTATAAGG
Found at i:8845073 original size:26 final size:26
Alignment explanation
Indices: 8845021--8845074 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8845011 TGATGTCCGC
*
8845021 TGTTGAATATGCTATGCATGTGTTTG
1 TGTTGAATATGCTATGCATGTCTTTG
* *
8845047 TGTTGAATTTGCT-TGCATTTCTCTTG
1 TGTTGAATATGCTATGCATGTCT-TTG
8845073 TG
1 TG
8845075 CAATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.15, C:0.11, G:0.24, T:0.50
Consensus pattern (26 bp):
TGTTGAATATGCTATGCATGTCTTTG
Done.