Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 63 of 153
Found at i:20273972 original size:86 final size:86
Alignment explanation
Indices: 20273851--20274019 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 86
20273841 CCTCCTCTCT
* *
20273851 TTTTTTTGTACTCAATTGAGCACATGAACTTTCAAAATGCATAAAAAATG-CCCTCAAACTTCTT
1 TTTTTTTGTACTCAATTGAGCACATAAACTTTCAAAATACATAAAAAA-GACCCTCAAA-TTCTT
20273915 CAAAAAAAGCAATTAAGCCCCTA
64 CAAAAAAAGCAATTAAGCCCCTA
* * * * *
20273938 TTTTTTT-TACTCAATTG-GATACTTAAACTTTCAAAATACATCAAAAAGACCCTCAAATTTTTT
1 TTTTTTTGTACTCAATTGAG-CACATAAACTTTCAAAATACATAAAAAAGACCCTCAAATTCTTC
*
20274001 AAAAAAAGTAATTAAGCCC
65 AAAAAAAGCAATTAAGCCC
20274020 TGCTCTTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
85 24 0.33
86 41 0.57
87 7 0.10
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (86 bp):
TTTTTTTGTACTCAATTGAGCACATAAACTTTCAAAATACATAAAAAAGACCCTCAAATTCTTCA
AAAAAAGCAATTAAGCCCCTA
Found at i:20274089 original size:19 final size:20
Alignment explanation
Indices: 20274046--20274090 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
20274036 AGAAAAAATT
20274046 ATAAAAATAATAAATTTTAG
1 ATAAAAATAATAAATTTTAG
* *
20274066 A-AAAATTATTAAATTTTA-
1 ATAAAAATAATAAATTTTAG
20274084 ATAAAAA
1 ATAAAAA
20274091 GAAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAAAATAATAAATTTTAG
Found at i:20274298 original size:29 final size:28
Alignment explanation
Indices: 20274265--20274364 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 28
20274255 TTACATTTTG
*
20274265 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTATGAATTTATAAAATTT
** * *
20274294 TATAATTTTTTTAAAAATTTCTATATATTT
1 TATAA-TTTTTTATGAATTTATA-AAATTT
*
20274324 TATAATTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTATGA-ATTTATAAAATTT
*
20274353 TACAATTTTTTA
1 TATAATTTTTTA
20274365 ATTTTTTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 38 0.67
30 19 0.33
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
TATAATTTTTTATGAATTTATAAAATTT
Found at i:20274360 original size:19 final size:19
Alignment explanation
Indices: 20274282--20274406 Score: 84
Period size: 19 Copynumber: 6.7 Consensus size: 19
20274272 TTCTTATGAC
20274282 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAATT
*
20274301 TTTTTAAAAATTTCTAT-ATAT
1 TTTAT-AAAATTT-TATAAT-T
** *
20274322 TTTATAATTTTTTATGATT
1 TTTATAAAATTTTATAATT
*
20274341 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
*
20274360 TTT-T--AATTTTTTAA--
1 TTTATAAAATTTTATAATT
* *
20274374 TTT-TACAATTTTTTAATT
1 TTTATAAAATTTTATAATT
*
20274392 TTTAATAATATTTTA
1 TTT-ATAAAATTTTA
20274407 ATTAAAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.05
16 18 0.22
18 4 0.05
19 26 0.31
20 23 0.28
21 8 0.10
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:20274380 original size:24 final size:26
Alignment explanation
Indices: 20274354--20274406 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 26
20274344 ATAAAATTTT
20274354 ACAATTTTTTAATTTTT-T-AATTTT
1 ACAATTTTTTAATTTTTATAAATTTT
20274378 ACAATTTTTTAATTTTTAATAATATTTT
1 ACAATTTTTTAATTTTT-ATAA-ATTTT
20274406 A
1 A
20274407 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 17 0.68
26 1 0.04
27 1 0.04
28 6 0.24
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ACAATTTTTTAATTTTTATAAATTTT
Found at i:20274391 original size:8 final size:8
Alignment explanation
Indices: 20274356--20274409 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
20274346 AAAATTTTAC
20274356 AATTTTTT
1 AATTTTTT
20274364 AATTTTTT
1 AATTTTTT
**
20274372 AATTTTAC
1 AATTTTTT
20274380 AATTTTTT
1 AATTTTTT
20274388 AATTTTTAAT
1 AATTTTT--T
*
20274398 AATATTTT
1 AATTTTTT
20274406 AATT
1 AATT
20274410 AAAATTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
8 31 0.82
10 7 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (8 bp):
AATTTTTT
Found at i:20274400 original size:10 final size:9
Alignment explanation
Indices: 20274321--20274472 Score: 75
Period size: 9 Copynumber: 16.6 Consensus size: 9
20274311 TTTCTATATA
20274321 TTTTATAATT
1 TTTTATAA-T
*
20274331 TTTTATGAT
1 TTTTATAAT
*
20274340 TTTTATAAAA
1 TTTTAT-AAT
*
20274350 TTTTACAAT
1 TTTTATAAT
20274359 TTTT-TAAT
1 TTTTATAAT
20274367 TTTT-TAA-
1 TTTTATAAT
*
20274374 TTTTACAAT
1 TTTTATAAT
20274383 TTTT-TAAT
1 TTTTATAAT
20274391 TTTTAATAAT
1 TTTT-ATAAT
*
20274401 ATTTTAATTAAAA
1 -TTTT-A-T-AAT
*
20274414 TTTAATAAT
1 TTTTATAAT
*
20274423 ATTTAT-AT
1 TTTTATAAT
*
20274431 CTTTTATTGA-
1 -TTTTA-TAAT
*
20274441 TTTTA-AGT
1 TTTTATAAT
20274449 TTTTATATAT
1 TTTTATA-AT
*
20274459 TTTAATAAT
1 TTTTATAAT
20274468 TTTTA
1 TTTTA
20274473 ATAAAAGCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 29
0.69 0.12 0.18
Matches are distributed among these distances:
7 4 0.04
8 26 0.24
9 39 0.36
10 26 0.24
11 8 0.07
12 4 0.04
13 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:20274615 original size:84 final size:86
Alignment explanation
Indices: 20274483--20274652 Score: 227
Period size: 84 Copynumber: 2.0 Consensus size: 86
20274473 ATAAAAGCAC
* * *
20274483 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGTGTCTTTTTTATGCATTTTAAAAATTCAAGTA
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
* *
20274548 TTTAATTGAGTACAAAAAAAA
66 CTTAAATGAGTACAAAAAAAA
** * * *
20274569 GGGCTTAATTGC-TTTTTTG-AAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAATTA
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
*
20274632 CTTAAATGAGTGCAAAAAAAA
66 CTTAAATGAGTACAAAAAAAA
20274653 AACATAGGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 54 0.74
85 7 0.10
86 12 0.16
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (86 bp):
GGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAATTCAAGTA
CTTAAATGAGTACAAAAAAAA
Found at i:20279046 original size:31 final size:31
Alignment explanation
Indices: 20278991--20279053 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
20278981 AACAACCTAG
*
20278991 TGACTTAAATAAAAACATCTGAATAGTTTAA
1 TGACTTAAATAAAAACATCTGAATAGTCTAA
* *
20279022 TGACTTAAATCAAAAC-TTTCGAATAGTCTAA
1 TGACTTAAATAAAAACATCT-GAATAGTCTAA
20279053 T
1 T
20279054 ACTATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACATCTGAATAGTCTAA
Found at i:20280968 original size:13 final size:14
Alignment explanation
Indices: 20280939--20280974 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
20280929 CAATTTAGCC
20280939 AAATATATTTATAAA
1 AAATA-ATTTATAAA
20280954 AAATAATTT-TAAA
1 AAATAATTTATAAA
20280967 AAATAATT
1 AAATAATT
20280975 GAGGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.57
14 4 0.19
15 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATAATTTATAAA
Found at i:20286531 original size:23 final size:23
Alignment explanation
Indices: 20286505--20286549 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20286495 TGTGTATGTG
*
20286505 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
20286528 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
20286550 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:20297139 original size:191 final size:195
Alignment explanation
Indices: 20296804--20297195 Score: 612
Period size: 191 Copynumber: 2.0 Consensus size: 195
20296794 TATTTAGATT
20296804 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATAC-AG-T-AA-GATTACTT
* * * * *
20296869 AAATGTTTGTTTCTTGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGTTTCT
62 AAATGGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCT
* *
20296934 TAAGCAGTTCCTGACCCTGAGCATTAAGTGCACTTGGGTGTTTAAAACTCCAGATGGCCAATTTC
127 TAAGCAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTC
20296999 AGGG
192 AGGG
* *
20297003 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATA-A-T-A-CTTACTTTAAT
1 ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAAT
*
20297064 GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCTGGTTCTTAAG
66 GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAG
* *
20297129 CAGCTCCTGACCCTGAGCATTATGTGCACTTGGATGTTTAAAATTCCAGATGGCCAATTTCAGGG
131 CAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGG
20297194 AT
1 AT
20297196 TCCCATTTGT
Statistics
Matches: 181, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
191 131 0.72
193 1 0.01
195 1 0.01
197 1 0.01
199 47 0.26
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (195 bp):
ATAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAAT
GGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAG
CAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGG
Found at i:20303643 original size:115 final size:110
Alignment explanation
Indices: 20303504--20303764 Score: 292
Period size: 112 Copynumber: 2.3 Consensus size: 110
20303494 CCTCAAGACA
* * *
20303504 TTTTTTTTTAC-TTTGAGACATTGATGGCCGACACTAATGTCATTTTAAAATTTTTTTTGGGTGT
1 TTTTTTTTTACTTTTG-GACATTGATGGCCGACACCAATGCCA-TTTAAAATTTTTTTT--GTGC
*** *
20303568 TGACCAGTAGATGACC-AGCACCAAGTACATTTTTTGGCTCCCAATGCAC
62 TGACCAGTAGATGACCGA-CACCAAGTACATTTTTCAACTCCCAAGGCAC
* * * *
20303617 TTTTTTTATATGCTTTTGGACATTGATAGCCAACACCAGTGCCATTTAAAATTTTTTTTGTGCTG
1 TTTTTTT-T-TACTTTTGGACATTGATGGCCGACACCAATGCCATTTAAAATTTTTTTTGTGCTG
* * *
20303682 GCTAGTAGATGGCCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
64 ACCAGTAGATGACCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
* * *
20303729 TTTTTTTTTACTTTGGGAAACTGATGGCCGACACCA
1 TTTTTTTTTACTTTTGGACATTGATGGCCGACACCA
20303765 CATTTTTTGG
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
110 22 0.18
111 1 0.01
112 50 0.40
113 8 0.06
114 16 0.13
115 23 0.19
116 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (110 bp):
TTTTTTTTTACTTTTGGACATTGATGGCCGACACCAATGCCATTTAAAATTTTTTTTGTGCTGAC
CAGTAGATGACCGACACCAAGTACATTTTTCAACTCCCAAGGCAC
Found at i:20306963 original size:22 final size:22
Alignment explanation
Indices: 20306938--20307007 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
20306928 TTCTTATTCC
20306938 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
** * * **
20306960 TAATACAATATACATATGTATT-
1 TAATTTAAAACACAT-TAAATTA
20306982 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
20307004 TAAT
1 TAAT
20307008 ACAATTTACA
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
21 4 0.12
22 26 0.76
23 4 0.12
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (22 bp):
TAATTTAAAACACATTAAATTA
Found at i:20306988 original size:44 final size:44
Alignment explanation
Indices: 20306938--20307125 Score: 229
Period size: 44 Copynumber: 4.5 Consensus size: 44
20306928 TTCTTATTCC
**
20306938 TAATTTAAAACACATTAAATTATAATACAATATACATATGTATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
20306982 TAATTTAAAACACATTAAATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
20307026 T-A-TT--------TT--ATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
20307058 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
20307102 TATTTTAAAACATATTAAATTATA
1 TAATTTAAAACACATTAAATTATA
20307126 TTAATTCAAC
Statistics
Matches: 126, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
32 27 0.21
34 4 0.03
42 4 0.03
43 1 0.01
44 90 0.71
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.41
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:20307018 original size:22 final size:22
Alignment explanation
Indices: 20306949--20307018 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
20306939 AATTTAAAAC
20306949 ACATTAAATTATAATACAATAT
1 ACATTAAATTATAATACAATAT
** ** * *
20306971 ACATATGTATT-TAATTTAAAAC
1 ACAT-TAAATTATAATACAATAT
*
20306993 ACATTAAATTATAATACAATTT
1 ACATTAAATTATAATACAATAT
20307015 ACAT
1 ACAT
20307019 ACATATTTAT
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
21 4 0.12
22 25 0.76
23 4 0.12
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (22 bp):
ACATTAAATTATAATACAATAT
Found at i:20307036 original size:32 final size:32
Alignment explanation
Indices: 20307000--20307064 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
20306990 AACACATTAA
20307000 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
20307032 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
20307064 A
1 A
20307065 AAACACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTATAATACAATTTACATACATATTTATTTT
Found at i:20307050 original size:76 final size:76
Alignment explanation
Indices: 20306956--20307108 Score: 261
Period size: 76 Copynumber: 2.0 Consensus size: 76
20306946 AACACATTAA
** *
20306956 ATTATAATACAATATACATATGTATTTAATTTAAAACACATTAAATTATAATACAATTTACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
20307021 ATATTTATTTT
66 ATATTTATTTT
* *
20307032 ATTATAATACAATTTACATACATATTTATTTTAAAACACATTAAATTATAATACAATATACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
20307097 ATATTTATTTT
66 ATATTTATTTT
20307108 A
1 A
20307109 AAACATATTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (76 bp):
ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
ATATTTATTTT
Found at i:20307827 original size:17 final size:18
Alignment explanation
Indices: 20307789--20307828 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
20307779 AATAAATTAT
*
20307789 AAATTTAAATGAAAACAA
1 AAATTGAAATGAAAACAA
20307807 AAATTGAAATGAAAA-AA
1 AAATTGAAATGAAAACAA
20307824 AAATT
1 AAATT
20307829 AATATCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATTGAAATGAAAACAA
Found at i:20307893 original size:23 final size:23
Alignment explanation
Indices: 20307861--20307916 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
20307851 AATATAAAAA
*
20307861 AAATTGAAATGAGAAAAAAA-ATT
1 AAATTTAAATGAGAAAAAAAGA-T
20307884 AAATTTAAATG-GAAAAAAAGAT
1 AAATTTAAATGAGAAAAAAAGAT
20307906 -AATTTAAATGA
1 AAATTTAAATGA
20307917 AATGGAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 9 0.30
23 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (23 bp):
AAATTTAAATGAGAAAAAAAGAT
Found at i:20307899 original size:21 final size:22
Alignment explanation
Indices: 20307856--20307916 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
20307846 TTATTAATAT
*
20307856 AAAAA-AAATTGAAATGAGAAA
1 AAAAAGAAATTTAAATGAGAAA
*
20307877 AAAAATTAAATTTAAATG-G-AA
1 AAAAA-GAAATTTAAATGAGAAA
20307898 AAAAAGATAATTTAAATGA
1 AAAAAGA-AATTTAAATGA
20307917 AATGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 22 0.65
22 1 0.03
23 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (22 bp):
AAAAAGAAATTTAAATGAGAAA
Found at i:20322702 original size:113 final size:114
Alignment explanation
Indices: 20322573--20322894 Score: 375
Period size: 113 Copynumber: 2.8 Consensus size: 114
20322563 GTGGTGCCAA
* * * * *
20322573 CCATCAGTGTCCCAAAATAAAAAAAAAGCG-CATTAGGAGTCGAAAAATGTACTTAGTGCCGGCC
1 CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
* * * *
20322637 ATCTACTGGTTAGCACCCAAAATATTTTATTAAATGACACTAGT-CTGTG
66 ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCG-G
* * * ***
20322686 CCATCAGTATCCCAAAATAAAAACAAAGTGTC-TTAGGAGCCGAAACATGTACTTGGTATAGACC
1 CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
* * *
20322750 ATCTATTGGTCAGCATCC-AAATTTTTTTTTAAATGACACTAATGCCGG
66 ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
* * * *
20322798 CCATCAATTTCCCAAAGTAAAAAAAGAAAGTGCCA-TGGGAGCCGAAAAATGTACTTGGTGCCGA
1 CCATCAGTATCCCAAAAT-AAAAAA-AAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGA
*
20322862 CCATCTATTGGTCAGCACCCAAAATAATTTATT
64 CCATCTATTGGTCAGCACCCAAAATATTTTATT
20322895 TTAAACCAAA
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
112 38 0.22
113 74 0.43
114 51 0.30
115 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (114 bp):
CCATCAGTATCCCAAAATAAAAAAAAAGTGCCATTAGGAGCCGAAAAATGTACTTGGTGCCGACC
ATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
Found at i:20324418 original size:21 final size:21
Alignment explanation
Indices: 20324394--20324527 Score: 53
Period size: 21 Copynumber: 6.4 Consensus size: 21
20324384 CCGTAAGGGA
20324394 TAAACGAAAGCTCATAAGAGC
1 TAAACGAAAGCTCATAAGAGC
** *
20324415 TAAAC-AAAAATCCATAA-AGGT
1 TAAACGAAAGCT-CATAAGA-GC
*
20324436 TAAACTG-AAGCTCAAAAGAGC
1 TAAAC-GAAAGCTCATAAGAGC
* * * * *
20324457 TGAACTGAAA-CCCAAAAGGGT
1 TAAAC-GAAAGCTCATAAGAGC
* * *
20324478 TAAACTAAAACTCATATGAG-
1 TAAACGAAAGCTCATAAGAGC
* * *
20324498 TTAACTAAAGCTCATGAGAGC
1 TAAACGAAAGCTCATAAGAGC
*
20324519 TAAATGAAA
1 TAAACGAAA
20324528 AGCAAACACG
Statistics
Matches: 81, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
20 24 0.30
21 51 0.63
22 6 0.07
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (21 bp):
TAAACGAAAGCTCATAAGAGC
Found at i:20324440 original size:42 final size:42
Alignment explanation
Indices: 20324388--20324493 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
20324378 GGAAACCCGT
* *
20324388 AAGGGATAAACGAAAGCTCATAAGAGCTAAACAAAAATCCATA
1 AAGGGTTAAACGAAAGCTCATAAGAGCTAAACAAAAACCCA-A
* * **
20324431 AA-GGTTAAACTG-AAGCTCAAAAGAGCTGAACTGAAACCCAA
1 AAGGGTTAAAC-GAAAGCTCATAAGAGCTAAACAAAAACCCAA
* *
20324472 AAGGGTTAAACTAAAACTCATA
1 AAGGGTTAAACGAAAGCTCATA
20324494 TGAGTTAACT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
41 3 0.06
42 45 0.88
43 3 0.06
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.16
Consensus pattern (42 bp):
AAGGGTTAAACGAAAGCTCATAAGAGCTAAACAAAAACCCAA
Found at i:20326208 original size:18 final size:18
Alignment explanation
Indices: 20326185--20326223 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
20326175 TTCTCACAAA
20326185 TATTATGACTCAACAAGG
1 TATTATGACTCAACAAGG
20326203 TATTATGACTCAACAAGG
1 TATTATGACTCAACAAGG
20326221 TAT
1 TAT
20326224 AACTTTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (18 bp):
TATTATGACTCAACAAGG
Found at i:20326321 original size:21 final size:20
Alignment explanation
Indices: 20326297--20326337 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
20326287 TACTTGGAAA
20326297 ATTA-ATTTTGATATAACAAAT
1 ATTATATTTTGA-ATAA-AAAT
20326318 ATTATATTTTGAATAAAAAT
1 ATTATATTTTGAATAAAAAT
20326338 CATTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTATATTTTGAATAAAAAT
Found at i:20326415 original size:43 final size:43
Alignment explanation
Indices: 20326363--20326448 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
20326353 TTACCAATAA
20326363 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
1 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
*
20326406 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTCAT
1 TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
20326449 ACTTTCAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (43 bp):
TTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTAAACTCAT
Found at i:20331317 original size:62 final size:62
Alignment explanation
Indices: 20331218--20331344 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 62
20331208 CTTGTCTTTT
* ** * *
20331218 TCTAGACCAAGCTTGACTACGGACTCAACTACGGTCATGGC-TTCTGA-AGGCTTTTGGACACC
1 TCTAGACCAAGCTTGACCACAAACTCAACTACCGTCATAGCTTTC-GACA-GCTTTTGGACACC
*
20331280 TCTAGACCAAGCTTGACCACAAACTCTACTACCGTCATAGCTTTCGACAGCTTTTGGACACC
1 TCTAGACCAAGCTTGACCACAAACTCAACTACCGTCATAGCTTTCGACAGCTTTTGGACACC
20331342 TCT
1 TCT
20331345 TTGTTCCACT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 53 0.93
63 4 0.07
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (62 bp):
TCTAGACCAAGCTTGACCACAAACTCAACTACCGTCATAGCTTTCGACAGCTTTTGGACACC
Found at i:20338476 original size:12 final size:12
Alignment explanation
Indices: 20338436--20338469 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20338426 CAAAACCCTA
*
20338436 TTTTTCCTT-TC
1 TTTTTCTTTCTC
20338447 TTTTTCTTTCTC
1 TTTTTCTTTCTC
20338459 TTTTTCTTTCT
1 TTTTTCTTTCT
20338470 TTCTTTCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:20345089 original size:8 final size:8
Alignment explanation
Indices: 20345078--20345110 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
20345068 AAATATTTAC
20345078 ATTATAAT
1 ATTATAAT
20345086 ATTATAAT
1 ATTATAAT
20345094 ATTAT-AT
1 ATTATAAT
*
20345101 ATTATTAT
1 ATTATAAT
20345109 AT
1 AT
20345111 ATTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTATAAT
Found at i:20345160 original size:5 final size:5
Alignment explanation
Indices: 20345136--20345179 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
20345126 GCTATAAATT
*
20345136 ATATA ATAT- ATAT- ATAATA ACATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
20345180 TTCTAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 6 0.17
5 28 0.80
6 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:20346992 original size:26 final size:26
Alignment explanation
Indices: 20346963--20347012 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
20346953 AAGTTTAATT
* *
20346963 AATTTTATATTTAAATAAGTTAATAA
1 AATTATATATTTAAATAAGATAATAA
20346989 AATTATATATTTAAATAAGATAAT
1 AATTATATATTTAAATAAGATAAT
20347013 TTATTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTATATATTTAAATAAGATAATAA
Found at i:20347777 original size:17 final size:17
Alignment explanation
Indices: 20347747--20347780 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20347737 CTAACTACAT
**
20347747 AAATTAAATTATATAAA
1 AAATTAAAGCATATAAA
20347764 AAATTAAAGCATATAAA
1 AAATTAAAGCATATAAA
20347781 TTAACTCTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAGCATATAAA
Found at i:20348233 original size:19 final size:20
Alignment explanation
Indices: 20348209--20348252 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20348199 GTGAACGTGA
20348209 CAAAAAGCAT-TTT-GTGAGG
1 CAAAAAGCATATTTGGTG-GG
*
20348228 CAAAAATCATATTTGGTGGG
1 CAAAAAGCATATTTGGTGGG
20348248 CAAAA
1 CAAAA
20348253 GCCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
CAAAAAGCATATTTGGTGGG
Found at i:20348599 original size:67 final size:67
Alignment explanation
Indices: 20348491--20348624 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
20348481 AGGCTAGCTT
20348491 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
1 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
20348556 CG
66 CG
*
20348558 CTACCTGAACTATTTGTCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
1 CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
20348623 CG
66 CG
20348625 TTGCCTAGAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (67 bp):
CTACCTGAACTATTTATCAAGCTGAAATAGTTTACTTGGTCAGTGGTTCCACATATGTTACCTAT
CG
Found at i:20356852 original size:18 final size:18
Alignment explanation
Indices: 20356829--20356893 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
20356819 ATTTGTTTTT
20356829 TTTTGTACTTTTTTTAAC
1 TTTTGTACTTTTTTTAAC
* **
20356847 TTTTGTCCTATTTTTTATTT
1 TTTTGTACT-TTTTTTA-AC
* *
20356867 TTTTTTA-TTTTTTTAAG
1 TTTTGTACTTTTTTTAAC
20356884 TTTTGT-CTTT
1 TTTTGTACTTT
20356894 GTCCTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
17 8 0.22
18 15 0.42
19 8 0.22
20 5 0.14
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTGTACTTTTTTTAAC
Found at i:20356868 original size:37 final size:37
Alignment explanation
Indices: 20356818--20356890 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
20356808 TCTATTACTT
20356818 TATTTG-TTTTTTTTTGTACTTTTTTTAACTTTTGTCC
1 TATTTGTTTTTTTTTTGTA-TTTTTTTAACTTTTGTCC
* *
20356855 TATTT-TTTATTTTTTTTTATTTTTTTAAGTTTTGTC
1 TATTTGTTT-TTTTTTTGTATTTTTTTAACTTTTGTC
20356891 TTTGTCCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 23 0.72
38 9 0.28
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (37 bp):
TATTTGTTTTTTTTTTGTATTTTTTTAACTTTTGTCC
Found at i:20357004 original size:25 final size:25
Alignment explanation
Indices: 20356935--20357011 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
20356925 AAAAAACTTG
* * *
20356935 AAATGTATATTTGAAATGTTTTATA
1 AAATATATTTTTGAAATATTTTATA
* *
20356960 ATATATATTTTTTAAA-ATTTTA-A
1 AAATATATTTTTGAAATATTTTATA
*
20356983 AAATATATTTTTGAATATATTTTTTA
1 AAATATATTTTTGAA-ATATTTTATA
20357009 AAA
1 AAA
20357012 ATTTAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 17 0.41
26 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (25 bp):
AAATATATTTTTGAAATATTTTATA
Found at i:20357007 original size:35 final size:34
Alignment explanation
Indices: 20356962--20357027 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
20356952 GTTTTATAAT
*
20356962 ATATATTTTTTAAAATTTTAAAAATATATTTTTGA
1 ATATATTTTTTAAAAATTTAAAAAT-TATTTTTGA
*
20356997 ATATATTTTTTAAAAATTTAAATATTATTTT
1 ATATATTTTTTAAAAATTTAAAAATTATTTT
20357028 CAAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (34 bp):
ATATATTTTTTAAAAATTTAAAAATTATTTTTGA
Found at i:20357020 original size:21 final size:21
Alignment explanation
Indices: 20356996--20357066 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 21
20356986 TATATTTTTG
20356996 AATATATTTTTTAAAAATTTA
1 AATATATTTTTTAAAAATTTA
* *
20357017 AATAT-TATTTT-CAAATATTA
1 AATATATTTTTTAAAAAT-TTA
* *
20357037 AATATATTTTTTTAATAATATA
1 AATATA-TTTTTTAAAAATTTA
20357059 AA-ATATTT
1 AATATATTT
20357067 AAATATTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.10
20 16 0.40
21 8 0.20
22 9 0.22
23 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATATTTTTTAAAAATTTA
Found at i:20357032 original size:19 final size:19
Alignment explanation
Indices: 20357010--20357046 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
20357000 TATTTTTTAA
20357010 AAAT-TTAAATATTATTTTC
1 AAATATTAAATA-TATTTTC
20357029 AAATATTAAATATATTTT
1 AAATATTAAATATATTTT
20357047 TTTAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTAAATATATTTTC
Found at i:20357053 original size:20 final size:20
Alignment explanation
Indices: 20356996--20357066 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
20356986 TATATTTTTG
*
20356996 AATATATTTTTTAAAAATTTA
1 AATATATTTTTTAAATA-TTA
*
20357017 AATAT-TATTTTCAAATATTA
1 AATATAT-TTTTTAAATATTA
*
20357037 AATATATTTTTTTAATAATATA
1 AATATATTTTTTAAAT-AT-TA
20357059 AA-ATATTT
1 AATATATTT
20357067 AAATATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 16 0.38
21 22 0.52
22 4 0.10
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATATTTTTTAAATATTA
Found at i:20357078 original size:40 final size:42
Alignment explanation
Indices: 20356991--20357083 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 42
20356981 AAAAATATAT
* * *
20356991 TTTTGAATATA-TTTTTTAAAAATTTAAATATTATTTTCAAA
1 TTTTAAATATATTTTTTTAAAAATATAAATATTATTTTAAAA
* *
20357032 TATTAAATATATTTTTTTAATAATATAAA-A-TA-TTTAAATA
1 TTTTAAATATATTTTTTTAAAAATATAAATATTATTTTAAA-A
*
20357072 TTTTAAAGATAT
1 TTTTAAATATAT
20357084 GACCTTTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.12
40 13 0.30
41 10 0.23
42 15 0.35
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTTAAATATATTTTTTTAAAAATATAAATATTATTTTAAAA
Found at i:20357131 original size:16 final size:17
Alignment explanation
Indices: 20357104--20357135 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
20357094 ATTTATTATT
20357104 AATTTTATAATATTTTA
1 AATTTTATAATATTTTA
20357121 AATTTTA-AATATTTT
1 AATTTTATAATATTTT
20357136 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTATAATATTTTA
Found at i:20357139 original size:18 final size:18
Alignment explanation
Indices: 20357104--20357151 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
20357094 ATTTATTATT
20357104 AATTTTATAATA--TTTTA
1 AATTTTA-AATATTTTTTA
20357121 AATTTTAAATATTTTTTA
1 AATTTTAAATATTTTTTA
* *
20357139 AAATTAAAATATT
1 AATTTTAAATATT
20357152 AATCCTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 16 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTAAATATTTTTTA
Found at i:20357305 original size:32 final size:33
Alignment explanation
Indices: 20357226--20357329 Score: 128
Period size: 32 Copynumber: 3.2 Consensus size: 33
20357216 TAATAATTTA
*
20357226 TAAAATTTATATTT-AAATTT-TAAAATACATT
1 TAAAATATATATTTAAAATTTATAAAATACATT
* *
20357257 TAAAATATGTATTTAAAATATTATAAAATA-AAT
1 TAAAATATATATTTAAAAT-TTATAAAATACATT
20357290 TAAAATA-ATATTTAAAATTTA-AAATATACATT
1 TAAAATATATATTTAAAATTTATAAA-ATACATT
20357322 TAAAATAT
1 TAAAATAT
20357330 TATAAAACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
30 3 0.05
31 18 0.29
32 23 0.37
33 11 0.18
34 7 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (33 bp):
TAAAATATATATTTAAAATTTATAAAATACATT
Found at i:20357313 original size:19 final size:20
Alignment explanation
Indices: 20357289--20357327 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20357279 ATAAAATAAA
*
20357289 TTAAAATA-ATATTTAAAAT
1 TTAAAATATACATTTAAAAT
20357308 TTAAAATATACATTTAAAAT
1 TTAAAATATACATTTAAAAT
20357328 ATTATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATATACATTTAAAAT
Found at i:20357450 original size:21 final size:20
Alignment explanation
Indices: 20357391--20357451 Score: 95
Period size: 21 Copynumber: 3.0 Consensus size: 20
20357381 TTTTATATTA
*
20357391 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAAAAT
20357411 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAAAAT
20357432 TTAAAAAATATATTATAAAA
1 TTAAAAAATATATT-TAAAA
20357452 CATTTTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:20357544 original size:34 final size:35
Alignment explanation
Indices: 20357506--20357591 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 35
20357496 AATAAAATAA
*
20357506 ATAAATAAGGACA-AAGACAAAACTT-AAAAAAAGT
1 ATAAATAAAGA-ATAAGACAAAACTTAAAAAAAAGT
* * *
20357540 ATAAAAAAAGAATAGGACAAAAGTTAAAAAAAAGT
1 ATAAATAAAGAATAAGACAAAACTTAAAAAAAAGT
*
20357575 A-AAATAAAAGAAAAAGA
1 ATAAAT-AAAGAATAAGA
20357592 AAGTAACAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.02
34 22 0.52
35 19 0.45
ACGTcount: A:0.70, C:0.05, G:0.13, T:0.13
Consensus pattern (35 bp):
ATAAATAAAGAATAAGACAAAACTTAAAAAAAAGT
Found at i:20357584 original size:35 final size:34
Alignment explanation
Indices: 20357521--20357586 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
20357511 TAAGGACAAA
20357521 GACAAAACTTAAAAAAAGTATAAAAAAAGAATAG
1 GACAAAACTTAAAAAAAGTATAAAAAAAGAATAG
*
20357555 GACAAAAGTTAAAAAAAAGTA-AAATAAAAGAA
1 GACAAAACTT-AAAAAAAGTATAAA-AAAAGAA
20357587 AAAGAAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (34 bp):
GACAAAACTTAAAAAAAGTATAAAAAAAGAATAG
Found at i:20357936 original size:16 final size:16
Alignment explanation
Indices: 20357915--20357948 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20357905 ACATAAGTAT
*
20357915 TTTTGAACTACAACTA
1 TTTTGAACAACAACTA
20357931 TTTTGAACAACAACTA
1 TTTTGAACAACAACTA
20357947 TT
1 TT
20357949 CTAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (16 bp):
TTTTGAACAACAACTA
Found at i:20362478 original size:12 final size:12
Alignment explanation
Indices: 20362461--20362508 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 12
20362451 AATTAAAGTA
20362461 AAATAATATTTT
1 AAATAATATTTT
*
20362473 AAATAAT-TATT
1 AAATAATATTTT
*
20362484 -AATAATATTAT
1 AAATAATATTTT
20362495 AAA-AATA-TTT
1 AAATAATATTTT
20362505 AAAT
1 AAAT
20362509 GTTCTCGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
10 11 0.38
11 9 0.31
12 9 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:20371988 original size:21 final size:21
Alignment explanation
Indices: 20371964--20372005 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20371954 TGGATACCTT
20371964 AATTGACT-GACCAAACATTAA
1 AATT-ACTGGACCAAACATTAA
*
20371985 AATTACTGGACCAAACTTTAA
1 AATTACTGGACCAAACATTAA
20372006 TACGACACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (21 bp):
AATTACTGGACCAAACATTAA
Found at i:20374624 original size:12 final size:12
Alignment explanation
Indices: 20374607--20374634 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20374597 TGTTACCCTT
20374607 AATATATTATAA
1 AATATATTATAA
20374619 AATATATTATAA
1 AATATATTATAA
20374631 AATA
1 AATA
20374635 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATATTATAA
Found at i:20376350 original size:4 final size:4
Alignment explanation
Indices: 20376341--20376371 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20376331 AAGTGAATAA
20376341 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
20376372 CCTCAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:20389918 original size:19 final size:19
Alignment explanation
Indices: 20389859--20389935 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
20389849 AGTATTTGTT
*
20389859 AATAATAAAGATTATTGAA
1 AATAATAAAAATTATTGAA
* * *
20389878 AATATTTAATTAAAATATTTGAT
1 AATA-ATAA--AAATTA-TTGAA
20389901 AATAATAAAAATTATTGAA
1 AATAATAAAAATTATTGAA
* *
20389920 AATATTAAAATTTATT
1 AATAATAAAAATTATT
20389936 AATATTATCT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
19 22 0.49
20 8 0.18
22 7 0.16
23 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
AATAATAAAAATTATTGAA
Found at i:20398594 original size:18 final size:18
Alignment explanation
Indices: 20398556--20398594 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20398546 GTTATGTTTG
**
20398556 ATTTTAAAATTTAATCGA
1 ATTTTAAAATTTAATAAA
*
20398574 ATTTTAAATTTTAATAAA
1 ATTTTAAAATTTAATAAA
20398592 ATT
1 ATT
20398595 AATATATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
ATTTTAAAATTTAATAAA
Found at i:20398614 original size:28 final size:29
Alignment explanation
Indices: 20398574--20398633 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
20398564 ATTTAATCGA
*
20398574 ATTTTAAATTTTA-ATAAAATTAATATAT
1 ATTTTAAATTTTATATAAAAGTAATATAT
* *
20398602 ATTTT-AATATTTATATCAAAGTATTATAT
1 ATTTTAAAT-TTTATATAAAAGTAATATAT
20398631 ATT
1 ATT
20398634 ATTATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 9 0.33
29 15 0.56
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
ATTTTAAATTTTATATAAAAGTAATATAT
Found at i:20399692 original size:16 final size:15
Alignment explanation
Indices: 20399671--20399711 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
20399661 GTTTAATTAA
20399671 TTTTAAGGTTATGGCT
1 TTTTAAGGTTATGG-T
*
20399687 TTTTAAGATTATGGT
1 TTTTAAGGTTATGGT
*
20399702 TTTTAGGGTT
1 TTTTAAGGTT
20399712 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (15 bp):
TTTTAAGGTTATGGT
Found at i:20399704 original size:15 final size:16
Alignment explanation
Indices: 20399671--20399706 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
20399661 GTTTAATTAA
*
20399671 TTTTAAGGTTATGGCT
1 TTTTAAGATTATGGCT
20399687 TTTTAAGATTATGG-T
1 TTTTAAGATTATGGCT
20399702 TTTTA
1 TTTTA
20399707 GGGTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.56
Consensus pattern (16 bp):
TTTTAAGATTATGGCT
Found at i:20400225 original size:27 final size:27
Alignment explanation
Indices: 20400194--20400250 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
20400184 TTTTAGGGTT
20400194 AATTCATTAAATTAACTATTAATTTTA
1 AATTCATTAAATTAACTATTAATTTTA
20400221 AATTCATTAAATTAACTATTAATTTTA
1 AATTCATTAAATTAACTATTAATTTTA
20400248 AAT
1 AAT
20400251 ACTAAATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTCATTAAATTAACTATTAATTTTA
Found at i:20404172 original size:7 final size:7
Alignment explanation
Indices: 20404160--20404223 Score: 128
Period size: 7 Copynumber: 9.1 Consensus size: 7
20404150 TATTACTTAT
20404160 ATACATA
1 ATACATA
20404167 ATACATA
1 ATACATA
20404174 ATACATA
1 ATACATA
20404181 ATACATA
1 ATACATA
20404188 ATACATA
1 ATACATA
20404195 ATACATA
1 ATACATA
20404202 ATACATA
1 ATACATA
20404209 ATACATA
1 ATACATA
20404216 ATACATA
1 ATACATA
20404223 A
1 A
20404224 GACTAAATAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:20404235 original size:7 final size:7
Alignment explanation
Indices: 20404225--20404254 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
20404215 AATACATAAG
20404225 ACTAAAT
1 ACTAAAT
20404232 ACTAAAT
1 ACTAAAT
20404239 ACTAAAT
1 ACTAAAT
20404246 ACTAAAT
1 ACTAAAT
20404253 AC
1 AC
20404255 GAAACAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (7 bp):
ACTAAAT
Found at i:20405197 original size:48 final size:49
Alignment explanation
Indices: 20405145--20405252 Score: 116
Period size: 48 Copynumber: 2.2 Consensus size: 49
20405135 AAAATTGCAT
*
20405145 AAATTATTAA-TACAAACATCATAAATGAA-AAAAAATCAAGCAGTATTG-
1 AAATT-TTAATTACAAACAT-ATAAATGAATAAAAAATCAAACAGTATTGC
* ** * *
20405193 AAATTTTAATTATAATGATATAAATGAATAAAATATCAAATAGTATTGC
1 AAATTTTAATTACAAACATATAAATGAATAAAAAATCAAACAGTATTGC
20405242 AAA-TTTAATTA
1 AAATTTTAATTA
20405253 AATTTGCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
47 13 0.25
48 35 0.69
49 3 0.06
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (49 bp):
AAATTTTAATTACAAACATATAAATGAATAAAAAATCAAACAGTATTGC
Found at i:20405264 original size:48 final size:47
Alignment explanation
Indices: 20405164--20405297 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 47
20405154 ATACAAACAT
* **
20405164 CATAAATGAA-AAAAAATCAAGCAGTATTGAAATTTTAATTATAATGA
1 CATAAATGAATAAAATATCAAATAGTATTGAAA-TTTAATTATAATGA
*
20405211 TATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTA-AATTTG-
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTAATTATAA--TGA
* *
20405259 CATAAATTAATAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAATAAAATATCAAATAGTATTG-AAATTTAA
20405298 AATTATCACT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
47 11 0.15
48 59 0.79
49 5 0.07
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (47 bp):
CATAAATGAATAAAATATCAAATAGTATTGAAATTTAATTATAATGA
Found at i:20406589 original size:18 final size:18
Alignment explanation
Indices: 20406561--20406629 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
20406551 AAATGTAAAA
20406561 AAAAATCATAAAAAGTATT
1 AAAAATCATAAAAA-TATT
*
20406580 AAAAAT-ATAAATACTATT
1 AAAAATCATAAA-AATATT
*
20406598 AAAAA-GA-AAAAATATT
1 AAAAATCATAAAAATATT
20406614 AAAAATCATAAAAATA
1 AAAAATCATAAAAATA
20406630 ATTTTAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 10 0.23
17 4 0.09
18 22 0.51
19 7 0.16
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATCATAAAAATATT
Found at i:20406615 original size:16 final size:16
Alignment explanation
Indices: 20406570--20406618 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
20406560 AAAAAATCAT
* *
20406570 AAAAAGTATTAAAAAT
1 AAAAAATATTAAAAAG
*
20406586 ATAAATACTATTAAAAAG
1 A-AAA-AATATTAAAAAG
20406604 AAAAAATATTAAAAA
1 AAAAAATATTAAAAA
20406619 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.39
17 6 0.21
18 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
AAAAAATATTAAAAAG
Found at i:20406627 original size:10 final size:10
Alignment explanation
Indices: 20406604--20406660 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
20406594 TATTAAAAAG
20406604 AAAAAA-TAT
1 AAAAAATTAT
* *
20406613 TAAAAATCAT
1 AAAAAATTAT
*
20406623 AAAAATAATTTT
1 -AAAA-AATTAT
*
20406635 AAAAAATTAC
1 AAAAAATTAT
20406645 AAAAAATTAT
1 AAAAAATTAT
20406655 AAAAAA
1 AAAAAA
20406661 AATTTAAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
9 5 0.14
10 21 0.57
11 7 0.19
12 4 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:20409719 original size:30 final size:30
Alignment explanation
Indices: 20409685--20409750 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
20409675 TAGTTAAAAT
* *
20409685 AAGTTACAATTTGA-TCATTGAATTATTCAA
1 AAGTTAC-ATTTAAGTCATTGAACTATTCAA
* *
20409715 AAGTTTTCATTTAAGTTATTGAACTATTCAA
1 AAG-TTACATTTAAGTCATTGAACTATTCAA
20409746 AAGTT
1 AAGTT
20409751 TTTATTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (30 bp):
AAGTTACATTTAAGTCATTGAACTATTCAA
Found at i:20409736 original size:31 final size:31
Alignment explanation
Indices: 20409701--20409763 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
20409691 CAATTTGATC
*
20409701 ATTGAATTATTCAAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
*
20409732 ATTGAACTATTCAAAAGTTTTTATTTAAGTT
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTT
20409763 A
1 A
20409764 CTTGTTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTT
Found at i:20418776 original size:2 final size:2
Alignment explanation
Indices: 20418771--20418820 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
20418761 AAAAAGGAAA
20418771 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20418813 AG AG AG AG
1 AG AG AG AG
20418821 GGGTGCTACC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20421426 original size:140 final size:140
Alignment explanation
Indices: 20421174--20421454 Score: 454
Period size: 140 Copynumber: 2.0 Consensus size: 140
20421164 TGGAATTTTC
* * *
20421174 ATTAGTTCTGAAATTTCAATTTTGCGTAGTCCTAAAATATTATGGTATCTATGTATCCATATCCT
1 ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
* * *
20421239 GCTCTCATACTCTTCATAGCCTACTCTACTAGTCCTAAAGTTTAGATGAAAGGAGTCAACCTTGG
66 GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
20421304 ATCAAATCTA
131 ATCAAATCTA
* * * *
20421314 ATTAGTTCTGAAATTTCAATTTTGTATAGTCCTATAATATTATGGTATCCATGTATCCTTATTCA
1 ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
* *
20421379 GCTCTCAGACTTTTCATAGCCTTCTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
66 GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
20421444 ATCAAATCTA
131 ATCAAATCTA
20421454 A
1 A
20421455 ACTAGAACCC
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
140 129 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (140 bp):
ATTAGTTCTGAAATTTCAATTTTGCATAGTCCTAAAATATTATGGTATCCATGTATCCATATCCA
GCTCTCAGACTCTTCATAGCCTACTCTACTAGTCCAAAAGTTTAGATGAAAGGAGTCAACCTAGG
ATCAAATCTA
Found at i:20425043 original size:17 final size:17
Alignment explanation
Indices: 20425021--20425073 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
20425011 TAAAAATAAA
20425021 TTTTAATTTTATTTATT
1 TTTTAATTTTATTTATT
20425038 TTTTAATTTTA---ATT
1 TTTTAATTTTATTTATT
20425052 TTATTAATATTTATATTATT
1 TT-TTAAT-TTTAT-TTATT
20425072 TT
1 TT
20425074 CAATAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 4 0.13
17 11 0.37
20 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTATTTATT
Found at i:20426475 original size:67 final size:67
Alignment explanation
Indices: 20426367--20426496 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 67
20426357 CCAACTGGCT
*
20426367 AGTTAGCACCAATTTAAACAACCCCTTTAGCACCAATTTAGGGTTTAAAAAGAAAAAGAAGAATA
1 AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAGGGTTTAAAAAGAAAAAGAAGAATA
20426432 AC
66 AC
* * * * * *
20426434 AGTTAGCACCAATTTAAATAGCCCTTTTAACACCAATTTAGGTTTTAAAAAGAGAAAGGAGAA
1 AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAGGGTTTAAAAAGAAAAAGAAGAA
20426497 GAAGGAGTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.25
Consensus pattern (67 bp):
AGTTAGCACCAATTTAAACAACCCCTTTAACACCAATTTAGGGTTTAAAAAGAAAAAGAAGAATA
AC
Found at i:20427239 original size:31 final size:31
Alignment explanation
Indices: 20427204--20427278 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
20427194 TCAAGTAGCC
*
20427204 ACCACTTTTCACTGATCAGGTAGCCGGAGCT
1 ACCACTTTTCACTGATCAGGTAGCCGAAGCT
*
20427235 ACCACTTTTCACTGATCAGGTAGCTGAAGCT
1 ACCACTTTTCACTGATCAGGTAGCCGAAGCT
20427266 ACCACTTTTCACT
1 ACCACTTTTCACT
20427279 TGTCATTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
ACCACTTTTCACTGATCAGGTAGCCGAAGCT
Found at i:20427259 original size:25 final size:25
Alignment explanation
Indices: 20427193--20427259 Score: 62
Period size: 31 Copynumber: 2.4 Consensus size: 25
20427183 TCATTCATCA
* *
20427193 ATCAAGTAGCCACCACTTTTCACTG
1 ATCAGGTAGCTACCACTTTTCACTG
20427218 ATCAGGTAGCCGGAGCTACCACTTTTCACTG
1 ATCAGGT------AGCTACCACTTTTCACTG
20427249 ATCAGGTAGCT
1 ATCAGGTAGCT
20427260 GAAGCTACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
25 10 0.29
31 24 0.71
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (25 bp):
ATCAGGTAGCTACCACTTTTCACTG
Found at i:20427360 original size:50 final size:51
Alignment explanation
Indices: 20427254--20427382 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
20427244 CACTGATCAG
* * *
20427254 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
20427305 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
20427355 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
20427383 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:20430638 original size:23 final size:23
Alignment explanation
Indices: 20430595--20430638 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
20430585 CCAATTCAAC
*
20430595 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
20430618 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
20430639 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:20436559 original size:24 final size:24
Alignment explanation
Indices: 20436532--20436580 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20436522 TCAGTAAAAC
20436532 ATGAATGACAATATCACTAATCAA
1 ATGAATGACAATATCACTAATCAA
20436556 ATGAATGACAATATCACTAATCAA
1 ATGAATGACAATATCACTAATCAA
20436580 A
1 A
20436581 CACATCGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
ATGAATGACAATATCACTAATCAA
Found at i:20436919 original size:15 final size:14
Alignment explanation
Indices: 20436889--20436935 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
20436879 AGTAAATAAG
20436889 TAAAA-AAATGAAAA
1 TAAAAGAAA-GAAAA
*
20436903 TAAAAGAAACTAAAA
1 TAAAAGAAA-GAAAA
*
20436918 TAAAATAAAGAAAA
1 TAAAAGAAAGAAAA
20436932 TAAA
1 TAAA
20436936 GAATATAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (14 bp):
TAAAAGAAAGAAAA
Found at i:20436938 original size:9 final size:10
Alignment explanation
Indices: 20436893--20436935 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
20436883 AATAAGTAAA
20436893 AAAATGAAAAT
1 AAAA-GAAAAT
*
20436904 AAAAGAAACT
1 AAAAGAAAAT
*
20436914 AAAATAAAAT
1 AAAAGAAAAT
20436924 -AAAGAAAAT
1 AAAAGAAAAT
20436933 AAA
1 AAA
20436936 GAATATAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.30
10 15 0.56
11 4 0.15
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (10 bp):
AAAAGAAAAT
Found at i:20440890 original size:6 final size:6
Alignment explanation
Indices: 20440874--20440903 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
20440864 AGTAAATTAA
20440874 AAAATAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAA
20440904 AATGTTCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:20441148 original size:108 final size:108
Alignment explanation
Indices: 20440959--20441175 Score: 353
Period size: 108 Copynumber: 2.0 Consensus size: 108
20440949 ATGGGTCATG
* * *
20440959 AAACTAACTAATATTTTGACAAAGGCAAGCGTACCTATCGAATAGTAGTATAGCTATGATGAGTT
1 AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
* *
20441024 CGGAATATTGTATTCACAATGACTAAAAGTACTAGTAATAACT
66 CGGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
* * *
20441067 AAACTAACTACTATTTCGACGAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGGTGAGTT
1 AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
*
20441132 CGGAATTTTATATTCACAAGGACTAAAAGTACTAGTAATAACT
66 CGGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
20441175 A
1 A
20441176 TCTTTATATT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (108 bp):
AAACTAACTAATATTTCGACAAAGGCAAGCGCACCTATCGAATAATAGTATAGCTATGATGAGTT
CGGAATATTATATTCACAAGGACTAAAAGTACTAGTAATAACT
Found at i:20443722 original size:42 final size:42
Alignment explanation
Indices: 20443597--20443722 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
20443587 CATTTTCTCG
** * ** *
20443597 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATAATCACAT-ATCA
* *
20443639 ATGCCATAGCCCAGATATGGTCTTACACATATTCATC-TATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATAATCA-CATATCA
*
20443681 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCA
20443723 CATATCGGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 3 0.04
42 68 0.94
43 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATAATCACATATCA
Found at i:20443904 original size:31 final size:31
Alignment explanation
Indices: 20443869--20443986 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
20443859 CTTGTCACTT
* *
20443869 GTAGCTGAAGCTACCACTATTCACTGATTAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
20443900 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAG-CTGAAGCTACCACTTTTCACTGATCAG
* * *
20443931 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
20443962 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
20443987 TGTCATTTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
30 3 0.04
31 69 0.92
32 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:20444073 original size:50 final size:50
Alignment explanation
Indices: 20443962--20444138 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
20443952 CACTGATCAG
* * * *
20443962 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
20444013 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
* *
20444063 GTAGCGGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGACAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
20444113 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
20444139 GTTGCCATGG
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
50 92 0.78
51 26 0.22
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:20447764 original size:43 final size:39
Alignment explanation
Indices: 20447679--20447774 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 39
20447669 AAAAAATGGC
* **
20447679 AATCAATTTCTAACCCTAGACCCTGTTAATCGATTATTG
1 AATCAATTTCTAACCCTAAACCCTGTTAATCGATTACCG
* *
20447718 AATCAATTTTTAACCCTAAACCAACCTTGTTAATCGATTCCCG
1 AATCAATTTCTAACCCTAAA-C--CC-TGTTAATCGATTACCG
20447761 AATCAATTTCTAAC
1 AATCAATTTCTAAC
20447775 ATAAATCCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 18 0.38
40 1 0.02
42 2 0.04
43 26 0.55
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.34
Consensus pattern (39 bp):
AATCAATTTCTAACCCTAAACCCTGTTAATCGATTACCG
Found at i:20451394 original size:18 final size:19
Alignment explanation
Indices: 20451364--20451400 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
20451354 GCATTAGTCA
20451364 TATTTATTATTTG-AATTT
1 TATTTATTATTTGTAATTT
20451382 TATTCTATT-TTTGTAATTT
1 TATT-TATTATTTGTAATTT
20451401 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTTATTATTTGTAATTT
Found at i:20452672 original size:17 final size:17
Alignment explanation
Indices: 20452650--20452684 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20452640 GATACATGCT
20452650 TGTTGGATACTAATACC
1 TGTTGGATACTAATACC
20452667 TGTTGGATACTAATACC
1 TGTTGGATACTAATACC
20452684 T
1 T
20452685 ATCTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (17 bp):
TGTTGGATACTAATACC
Found at i:20455380 original size:9 final size:9
Alignment explanation
Indices: 20455368--20455435 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
20455358 AAAAGTATAA
20455368 AATTAACCG
1 AATTAACCG
*
20455377 AATTAACCA
1 AATTAACCG
*
20455386 AATTAATCG
1 AATTAACCG
*
20455395 AATTCACCG
1 AATTAACCG
*
20455404 AATT-ACTCA
1 AATTAAC-CG
20455413 AATTAACCG
1 AATTAACCG
20455422 AATTAACCG
1 AATTAACCG
20455431 AATTA
1 AATTA
20455436 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.92
10 2 0.04
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:20455398 original size:27 final size:28
Alignment explanation
Indices: 20455368--20455435 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
20455358 AAAAGTATAA
*
20455368 AATTAACCGAATTAAC-CAAATTAATCG
1 AATTAACCGAATTAACTCAAATTAACCG
*
20455395 AATTCACCGAATT-ACTCAAATTAACCG
1 AATTAACCGAATTAACTCAAATTAACCG
20455422 AATTAACCGAATTA
1 AATTAACCGAATTA
20455436 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (28 bp):
AATTAACCGAATTAACTCAAATTAACCG
Found at i:20455483 original size:18 final size:18
Alignment explanation
Indices: 20455456--20455507 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
20455446 ATTATATGTT
*
20455456 TTTTATTTTTATTTTTAG
1 TTTTAGTTTTATTTTTAG
**
20455474 TTTTAGTTTTAGATTTAG
1 TTTTAGTTTTATTTTTAG
*
20455492 ATTTAGATTTTTATTT
1 TTTTAG--TTTTATTT
20455508 ATTAAATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 20 0.77
20 6 0.23
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTTAGTTTTATTTTTAG
Found at i:20455491 original size:12 final size:12
Alignment explanation
Indices: 20455463--20455501 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20455453 GTTTTTTATT
* *
20455463 TTTATTTTTAGT
1 TTTAGTTTTAGA
20455475 TTTAGTTTTAGA
1 TTTAGTTTTAGA
*
20455487 TTTAGATTTAGA
1 TTTAGTTTTAGA
20455499 TTT
1 TTT
20455502 TTATTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (12 bp):
TTTAGTTTTAGA
Found at i:20455543 original size:5 final size:5
Alignment explanation
Indices: 20455533--20455558 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20455523 ACTTTTATGA
20455533 TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG T
20455559 ACTTGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:20455678 original size:18 final size:18
Alignment explanation
Indices: 20455655--20455689 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20455645 TTTATTTATT
20455655 AATTTTTTCGATTAACTA
1 AATTTTTTCGATTAACTA
*
20455673 AATTTTTTCGGTTAACT
1 AATTTTTTCGATTAACT
20455690 GACCGGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (18 bp):
AATTTTTTCGATTAACTA
Found at i:20456265 original size:11 final size:11
Alignment explanation
Indices: 20456245--20456300 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
20456235 ATAGAAGTTG
20456245 AGAGAATTGAA
1 AGAGAATTGAA
* *
20456256 AGATAATTGAG
1 AGAGAATTGAA
*
20456267 AGAGAATTGAG
1 AGAGAATTGAA
* *
20456278 AGAGAACTAAA
1 AGAGAATTGAA
*
20456289 AGAAAATTGAA
1 AGAGAATTGAA
20456300 A
1 A
20456301 AAAATGAAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.55, C:0.02, G:0.25, T:0.18
Consensus pattern (11 bp):
AGAGAATTGAA
Found at i:20461283 original size:17 final size:17
Alignment explanation
Indices: 20461241--20461283 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
20461231 TTATTTTAAC
* *
20461241 ATTTTATTTAATTTTTA
1 ATTTTTTTTAATTCTTA
*
20461258 ATCTTTTTTAATTCTTA
1 ATTTTTTTTAATTCTTA
20461275 ATTTTTTTT
1 ATTTTTTTT
20461284 TGTTAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTTTTTAATTCTTA
Found at i:20468170 original size:13 final size:12
Alignment explanation
Indices: 20468133--20468181 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
20468123 GAAAATTCTA
20468133 TTTTCTTTCTTTC
1 TTTT-TTTCTTTC
*
20468146 TTTTTTCACTTTC
1 TTTTTT-TCTTTC
*
20468159 TTTTCTTTCTTTA
1 TTTT-TTTCTTTC
20468172 TTTTTTTCTT
1 TTTTTTTCTT
20468182 CAGATCAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 8 0.26
13 21 0.68
14 2 0.06
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:20470883 original size:17 final size:17
Alignment explanation
Indices: 20470861--20470893 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20470851 ATGCCGAATA
20470861 GCTGTTTGCTGCAATTT
1 GCTGTTTGCTGCAATTT
20470878 GCTGTTTGCTGCAATT
1 GCTGTTTGCTGCAATT
20470894 CTATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.45
Consensus pattern (17 bp):
GCTGTTTGCTGCAATTT
Found at i:20472463 original size:320 final size:320
Alignment explanation
Indices: 20471880--20472519 Score: 1271
Period size: 320 Copynumber: 2.0 Consensus size: 320
20471870 AGTTATATTT
20471880 AGTATATTATTTAAAATTTTTTTAATAACATGTTATGATCCGATTCGATATATAAAATATATACT
1 AGTATATTATTTAAAATTTTTTTAATAACATGTTATGATCCGATTCGATATATAAAATATATACT
20471945 TTTAAAAAATAAAATATAAAAATTAATTATTCTATATACATGATGCTTATAAAGTATTTCACTAT
66 TTTAAAAAATAAAATATAAAAATTAATTATTCTATATACATGATGCTTATAAAGTATTTCACTAT
20472010 TATCAAGTAATAACGTTACTTATTTTATAGAATTACATTTACTATGTAGTTTTAATATTTAACAT
131 TATCAAGTAATAACGTTACTTATTTTATAGAATTACATTTACTATGTAGTTTTAATATTTAACAT
*
20472075 TTAAAATATTTTGTAAAAAATTATGACTTATTTATCCATATATATTAAAATTATTAACGTATATA
196 TTAAAATATTTTGTAAAAAATTATGACTTATTTATCCATATATATTAAAATTATTAACGTACATA
20472140 TTGCATCAAATCAATAAATTGGAAGCTTTAGGCAACCAATAGGGATACATATTCATTCCA
261 TTGCATCAAATCAATAAATTGGAAGCTTTAGGCAACCAATAGGGATACATATTCATTCCA
20472200 AGTATATTATTTAAAATTTTTTTAATAACATGTTATGATCCGATTCGATATATAAAATATATACT
1 AGTATATTATTTAAAATTTTTTTAATAACATGTTATGATCCGATTCGATATATAAAATATATACT
20472265 TTTAAAAAATAAAATATAAAAATTAATTATTCTATATACATGATGCTTATAAAGTATTTCACTAT
66 TTTAAAAAATAAAATATAAAAATTAATTATTCTATATACATGATGCTTATAAAGTATTTCACTAT
20472330 TATCAAGTAATAACGTTACTTATTTTATAGAATTACATTTACTATGTAGTTTTAATATTTAACAT
131 TATCAAGTAATAACGTTACTTATTTTATAGAATTACATTTACTATGTAGTTTTAATATTTAACAT
20472395 TTAAAATATTTTGTAAAAAATTATGACTTATTTATCCATATATATTAAAATTATTAACGTACATA
196 TTAAAATATTTTGTAAAAAATTATGACTTATTTATCCATATATATTAAAATTATTAACGTACATA
20472460 TTGCATCAAATCAATAAATTGGAAGCTTTAGGCAACCAATAGGGATACATATTCATTCCA
261 TTGCATCAAATCAATAAATTGGAAGCTTTAGGCAACCAATAGGGATACATATTCATTCCA
20472520 TTGACTAAAT
Statistics
Matches: 319, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 319 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (320 bp):
AGTATATTATTTAAAATTTTTTTAATAACATGTTATGATCCGATTCGATATATAAAATATATACT
TTTAAAAAATAAAATATAAAAATTAATTATTCTATATACATGATGCTTATAAAGTATTTCACTAT
TATCAAGTAATAACGTTACTTATTTTATAGAATTACATTTACTATGTAGTTTTAATATTTAACAT
TTAAAATATTTTGTAAAAAATTATGACTTATTTATCCATATATATTAAAATTATTAACGTACATA
TTGCATCAAATCAATAAATTGGAAGCTTTAGGCAACCAATAGGGATACATATTCATTCCA
Found at i:20474076 original size:297 final size:297
Alignment explanation
Indices: 20473542--20474142 Score: 1193
Period size: 297 Copynumber: 2.0 Consensus size: 297
20473532 TCAAGATCAA
20473542 AATGTAATTGTCAGAGTGGTGGCTTCAGTTTTAGCTTTTGGGGCTCTTTGGATTAAAAAATTAAA
1 AATGTAATTGTCAGAGTGGTGGCTTCAGTTTTAGCTTTTGGGGCTCTTTGGATTAAAAAATTAAA
20473607 AACTAGGAAGGAAACTGCTTCTCACCCTCATGTGAATCAAGATTATGAAAGGAAAAATTATATTA
66 AACTAGGAAGGAAACTGCTTCTCACCCTCATGTGAATCAAGATTATGAAAGGAAAAATTATATTA
20473672 ATAGTATTTTATATAGTGGTGACCAGCATTGTATTGATCTGATAATGATAAGACCGATTGCCTTT
131 ATAGTATTTTATATAGTGGTGACCAGCATTGTATTGATCTGATAATGATAAGACCGATTGCCTTT
20473737 TTTAATTTGTGTGATATTCTTAGTAGGAATAATTTGTTACAATCAACTAAGTCTGTGAATATTAG
196 TTTAATTTGTGTGATATTCTTAGTAGGAATAATTTGTTACAATCAACTAAGTCTGTGAATATTAG
*
20473802 GGAGCAAGTAGTTATATTTTTACATGTAATTGGTCAT
261 GGAGCAAGTAGTTATATTTTTACATATAATTGGTCAT
20473839 AATGTAATTGTCAGAGTGGTGGCTTCAGTTTTAGCTTTTGGGGCTCTTTGGATTAAAAAATTAAA
1 AATGTAATTGTCAGAGTGGTGGCTTCAGTTTTAGCTTTTGGGGCTCTTTGGATTAAAAAATTAAA
20473904 AACTAGGAAGGAAACTGCTTCTCACCCTCATGTGAATCAAGATTATGAAAGGAAAAATTATATTA
66 AACTAGGAAGGAAACTGCTTCTCACCCTCATGTGAATCAAGATTATGAAAGGAAAAATTATATTA
20473969 ATAGTATTTTATATAGTGGTGACCAGCATTGTATTGATCTGATAATGATAAGACCGATTGCCTTT
131 ATAGTATTTTATATAGTGGTGACCAGCATTGTATTGATCTGATAATGATAAGACCGATTGCCTTT
20474034 TTTAATTTGTGTGATATTCTTAGTAGGAATAATTTGTTACAATCAACTAAGTCTGTGAATATTAG
196 TTTAATTTGTGTGATATTCTTAGTAGGAATAATTTGTTACAATCAACTAAGTCTGTGAATATTAG
20474099 GGAGCAAGTAGTTATATTTTTACATATAATTGGTCAT
261 GGAGCAAGTAGTTATATTTTTACATATAATTGGTCAT
20474136 AATGTAA
1 AATGTAA
20474143 GGTTTCGAGT
Statistics
Matches: 303, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 303 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (297 bp):
AATGTAATTGTCAGAGTGGTGGCTTCAGTTTTAGCTTTTGGGGCTCTTTGGATTAAAAAATTAAA
AACTAGGAAGGAAACTGCTTCTCACCCTCATGTGAATCAAGATTATGAAAGGAAAAATTATATTA
ATAGTATTTTATATAGTGGTGACCAGCATTGTATTGATCTGATAATGATAAGACCGATTGCCTTT
TTTAATTTGTGTGATATTCTTAGTAGGAATAATTTGTTACAATCAACTAAGTCTGTGAATATTAG
GGAGCAAGTAGTTATATTTTTACATATAATTGGTCAT
Found at i:20475231 original size:21 final size:21
Alignment explanation
Indices: 20475207--20475272 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 21
20475197 GTCTTGAATT
20475207 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
20475228 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
*
20475253 TGTTAGATACTGAATTTATT
1 TGTTAGATATTGAATTTATT
20475273 TGGTTGGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 13 0.36
22 2 0.06
23 4 0.11
24 2 0.06
25 15 0.42
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:20476602 original size:28 final size:28
Alignment explanation
Indices: 20476534--20476605 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
20476524 AAATCATTGC
*
20476534 AATATATGTAAAAACAATTTAAAGTATA
1 AATATATGTAAAAACAATTTAAAATATA
* *
20476562 AGTTTAT-TAAAAAACAATTTAAAATATA
1 AATATATGT-AAAAACAATTTAAAATATA
*
20476590 AATACATGTAAAAACA
1 AATATATGTAAAAACA
20476606 GCTTTTCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.03
28 34 0.94
29 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (28 bp):
AATATATGTAAAAACAATTTAAAATATA
Found at i:20476737 original size:20 final size:19
Alignment explanation
Indices: 20476677--20476741 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
20476667 CATCCAAACA
*
20476677 CCAGAAAAGTAAATCATTT
1 CCAGAAAACTAAATCATTT
20476696 CCAGAAAACTAAATCATTT
1 CCAGAAAACTAAATCATTT
20476715 CCAGAAAACTAAATCATTTT
1 CCAGAAAACTAAATCA-TTT
20476735 CCAGAAA
1 CCAGAAA
20476742 TCATTTTCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 34 0.77
20 10 0.23
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.25
Consensus pattern (19 bp):
CCAGAAAACTAAATCATTT
Found at i:20476772 original size:15 final size:14
Alignment explanation
Indices: 20476729--20476773 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20476719 AAAACTAAAT
* *
20476729 CATTTTCCAGAAAT
1 CATTTTCTAGAAAA
*
20476743 CATTTTCTGGAAAA
1 CATTTTCTAGAAAA
20476757 CATTTTACTAGAAAA
1 CATTTT-CTAGAAAA
20476772 CA
1 CA
20476774 AACGGATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (14 bp):
CATTTTCTAGAAAA
Found at i:20482066 original size:13 final size:13
Alignment explanation
Indices: 20482029--20482079 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
20482019 GAAAATTCTA
20482029 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
*
20482042 TTTT-TTCACTTTC
1 TTTTCTT-TCTTTC
*
20482055 TTTTCTTTCTTTA
1 TTTTCTTTCTTTC
*
20482068 TTTTTTTTCTTT
1 TTTTCTTTCTTT
20482080 AGATCAAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:20486916 original size:68 final size:68
Alignment explanation
Indices: 20486757--20486916 Score: 266
Period size: 68 Copynumber: 2.4 Consensus size: 68
20486747 TTCTTTTTTA
* * * *
20486757 AAAATTAATTAAATTAGGGTTTAAGAGTTTTAAATAAATTAATTAAATTTGGGTTTAATGTTTTT
1 AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
20486822 AAG
66 AAG
*
20486825 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
1 AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
20486890 AAG
66 AAG
*
20486893 AAAATTAATTAAATTTGGGTTTAG
1 AAAATTAATTAAATTAGGGTTTAG
20486917 TCTTTTTAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.41, C:0.01, G:0.16, T:0.42
Consensus pattern (68 bp):
AAAATTAATTAAATTAGGGTTTAGGAGTTTTAAATAAATTAAATAAATTTGGGTTCAATATTTTT
AAG
Found at i:20486923 original size:34 final size:33
Alignment explanation
Indices: 20486750--20486930 Score: 193
Period size: 34 Copynumber: 5.4 Consensus size: 33
20486740 TTTAGTGTTC
* *
20486750 TTTTTTAAAAATTAATTAAATTAGGGTTTAAG-A
1 TTTTTAAAAAATTAATTAAATTTGGGTTT-AGTA
* * *
20486783 GTTTTAAATAAATTAATTAAATTTGGGTTTAATG
1 TTTTTAAA-AAATTAATTAAATTTGGGTTTAGTA
* **
20486817 TTTTTAAGAAAATTAATTAAATTAGGGTTTAGGG
1 TTTTTAA-AAAATTAATTAAATTTGGGTTTAGTA
* * * *
20486851 GTTTTAAATAAATTAAATAAATTTGGGTTCAATA
1 TTTTTAAA-AAATTAATTAAATTTGGGTTTAGTA
*
20486885 TTTTTAAGAAAATTAATTAAATTTGGGTTTAGTC
1 TTTTTAA-AAAATTAATTAAATTTGGGTTTAGTA
20486919 TTTTTAAAAAAT
1 TTTTTAAAAAAT
20486931 AATATTGTGT
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
33 13 0.11
34 107 0.88
35 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTTGGGTTTAGTA
Found at i:20490353 original size:45 final size:41
Alignment explanation
Indices: 20490255--20490375 Score: 111
Period size: 41 Copynumber: 2.9 Consensus size: 41
20490245 GTGCTAAAGC
* *
20490255 ATAGCCAAAGTTATTATAATCTCGCATACTAAGTGCCTTTT
1 ATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTT
* * *
20490296 ATAGCCGAAGCTATT-TCAATCTCTCACACTAAGTTCCATATATAT
1 ATAGCCAAAGCTATTAT-AATCTCGCACACTAAGTGCC-T-T-T-T
* * *
20490341 ATAGCCAAAGCTATTCTGAT-TCACACACTAAGTGC
1 ATAGCCAAAGCTATTATAATCTCGCACACTAAGTGC
20490376 TATATATAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 30 0.46
42 1 0.02
43 1 0.02
44 14 0.22
45 17 0.26
46 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (41 bp):
ATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTT
Found at i:20492536 original size:24 final size:23
Alignment explanation
Indices: 20492483--20492536 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 23
20492473 AACTTCTATT
20492483 TTATTAAAAATATAAAAATAAT-
1 TTATTAAAAATATAAAAATAATC
*
20492505 TTACTATTAAAATATTAAAAATAACTC
1 TTA-T-TAAAAATA-TAAAAATAA-TC
20492532 TTATT
1 TTATT
20492537 TTATTAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 3 0.12
23 1 0.04
24 7 0.27
25 10 0.38
26 2 0.08
27 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (23 bp):
TTATTAAAAATATAAAAATAATC
Found at i:20503757 original size:21 final size:20
Alignment explanation
Indices: 20503733--20503772 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20503723 CATGTATTTT
20503733 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
20503754 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
20503773 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:20503780 original size:20 final size:21
Alignment explanation
Indices: 20503738--20503780 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20503728 ATTTTAATGA
*
20503738 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
20503759 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
20503779 TT
1 TT
20503781 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:20522616 original size:23 final size:23
Alignment explanation
Indices: 20522576--20522622 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20522566 TATATCATTT
*
20522576 TCAATGATAGATCCAATAAATCA
1 TCAATGATAGATCAAATAAATCA
** *
20522599 TCAATGATATTTCAAATAACTCA
1 TCAATGATAGATCAAATAAATCA
20522622 T
1 T
20522623 GAACCTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (23 bp):
TCAATGATAGATCAAATAAATCA
Found at i:20532859 original size:17 final size:18
Alignment explanation
Indices: 20532827--20532860 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20532817 AATTTCTTTT
20532827 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
20532845 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
20532861 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:20533335 original size:17 final size:18
Alignment explanation
Indices: 20533305--20533348 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
20533295 CCTTCATTTC
*
20533305 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTAATCTTTTATG
20533323 TTTCTTTAATCTTTTATG
1 TTTCTTTAATCTTTTATG
*
20533341 TTTATTTA
1 TTTCTTTA
20533349 CTGTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTCTTTAATCTTTTATG
Found at i:20537752 original size:13 final size:13
Alignment explanation
Indices: 20537734--20537768 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
20537724 TACCCCATTT
20537734 TCACACGGCCGTC
1 TCACACGGCCGTC
20537747 TCACACGGCCGTC
1 TCACACGGCCGTC
20537760 TCACACGGC
1 TCACACGGC
20537769 TGTGTTTCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.14
Consensus pattern (13 bp):
TCACACGGCCGTC
Found at i:20544392 original size:13 final size:13
Alignment explanation
Indices: 20544374--20544400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20544364 GCTTGGCAGG
20544374 GACACGCCCGTGT
1 GACACGCCCGTGT
20544387 GACACGCCCGTGT
1 GACACGCCCGTGT
20544400 G
1 G
20544401 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:20548736 original size:18 final size:19
Alignment explanation
Indices: 20548702--20548741 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
20548692 AACACAACTA
*
20548702 AAATTAATAATAATAAAAT
1 AAATGAATAATAATAAAAT
20548721 AAATGAATAA-AATAAAAT
1 AAATGAATAATAATAAAAT
20548739 AAA
1 AAA
20548742 AACAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AAATGAATAATAATAAAAT
Found at i:20552587 original size:23 final size:23
Alignment explanation
Indices: 20552557--20552604 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
20552547 AAGTGAAGTC
20552557 TAAGTGGATTCTTCC-TGAGGTAT
1 TAAGTGGATTCTTCCTTG-GGTAT
20552580 TAAGTGGATTCTTCCTTGGGTAT
1 TAAGTGGATTCTTCCTTGGGTAT
20552603 TA
1 TA
20552605 TCTTCTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (23 bp):
TAAGTGGATTCTTCCTTGGGTAT
Found at i:20557693 original size:9 final size:9
Alignment explanation
Indices: 20557679--20557729 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
20557669 CTCTGAGTTC
20557679 ATTTATTTT
1 ATTTATTTT
20557688 ATTTATTTT
1 ATTTATTTT
20557697 ATTT-TTGTT
1 ATTTATT-TT
20557706 -TTTA-TTT
1 ATTTATTTT
*
20557713 -TTTCTTTT
1 ATTTATTTT
20557721 ATTTATTTT
1 ATTTATTTT
20557730 TTGAAGACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 5 0.14
8 9 0.25
9 22 0.61
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (9 bp):
ATTTATTTT
Done.