Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 7 of 189
Found at i:2434661 original size:21 final size:23
Alignment explanation
Indices: 2434611--2434661 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
2434601 AATATTATTA
2434611 TATTAATAAATTTTTAAACTAAAT
1 TATTAATAAATTTTTAAAC-AAAT
*
2434635 TTTTAA-AAA-TTTTAAA-AATAT
1 TATTAATAAATTTTTAAACAA-AT
2434656 TATTAA
1 TATTAA
2434662 CTATAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 7 0.29
22 7 0.29
23 3 0.12
24 5 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTAATAAATTTTTAAACAAAT
Found at i:2442690 original size:25 final size:25
Alignment explanation
Indices: 2442656--2442706 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2442646 GTTTAAACTT
2442656 CATTTCGATCAATATTGTCTTGTAC
1 CATTTCGATCAATATTGTCTTGTAC
2442681 CATTTCGATCAATATTGTCTTGTAC
1 CATTTCGATCAATATTGTCTTGTAC
2442706 C
1 C
2442707 GGTGAGTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (25 bp):
CATTTCGATCAATATTGTCTTGTAC
Found at i:2442997 original size:5 final size:5
Alignment explanation
Indices: 2442987--2443040 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
2442977 CAACCTCACA
* *
2442987 TGGTT TGGTTT TGGTTT TGGTTT TGGTT TGGTT TGGTT TGCTT TTGTT
1 TGGTT TGG-TT TGG-TT TGG-TT TGGTT TGGTT TGGTT TGGTT TGGTT
*
2443035 TAGTT T
1 TGGTT T
2443041 TATGGACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 27 0.61
6 17 0.39
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.65
Consensus pattern (5 bp):
TGGTT
Found at i:2443001 original size:6 final size:6
Alignment explanation
Indices: 2442990--2443025 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2442980 CCTCACATGG
2442990 TTTGGT TTTGGT TTTGGT TTTGG- TTTGG- TTTGGT TT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TT
2443026 GCTTTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (6 bp):
TTTGGT
Found at i:2443003 original size:11 final size:11
Alignment explanation
Indices: 2442987--2443041 Score: 69
Period size: 10 Copynumber: 5.1 Consensus size: 11
2442977 CAACCTCACA
2442987 TGGTTTGGTTT
1 TGGTTTGGTTT
2442998 TGGTTTTGGTTT
1 TGG-TTTGGTTT
2443010 TGGTTTGG-TT
1 TGGTTTGGTTT
*
2443020 TGGTTTGCTTT
1 TGGTTTGGTTT
*
2443031 T-GTTTAGTTT
1 TGGTTTGGTTT
2443041 T
1 T
2443042 ATGGACAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
10 17 0.44
11 11 0.28
12 11 0.28
ACGTcount: A:0.02, C:0.02, G:0.31, T:0.65
Consensus pattern (11 bp):
TGGTTTGGTTT
Found at i:2448156 original size:33 final size:33
Alignment explanation
Indices: 2448095--2448160 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2448085 TACTAAGGTA
* *
2448095 TTAACTACATGTAAAATAAATTTACTTTTGATC
1 TTAACTACATGTAAAACAAATTCACTTTTGATC
* * *
2448128 TTAATTACATGTAAAACGAATTCGCTTTTGATC
1 TTAACTACATGTAAAACAAATTCACTTTTGATC
2448161 GTTATGTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (33 bp):
TTAACTACATGTAAAACAAATTCACTTTTGATC
Found at i:2451977 original size:5 final size:5
Alignment explanation
Indices: 2451967--2451998 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
2451957 GGTTGGTTTG
2451967 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
2451999 CTTTTTCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:2452091 original size:34 final size:35
Alignment explanation
Indices: 2452051--2452154 Score: 129
Period size: 34 Copynumber: 2.8 Consensus size: 35
2452041 TATATATCCC
*
2452051 TTTTGAACTTTCATATGTACGTATATATGAACTA-
1 TTTTGAACTTTCATATGTACGTATATATAAACTAT
2452085 TTTTGAACTTTCATATGTACGTATAAATAGTTTAAACTATT
1 TTTTGAACTTTCATATGTACGTAT--ATA---TAAACTA-T
2452126 TATTTGAACTTTCATATGTACGTATATAT
1 T-TTTGAACTTTCATATGTACGTATATAT
2452155 TCTTTGAAAC
Statistics
Matches: 61, Mismatches: 1, Indels: 13
0.81 0.01 0.17
Matches are distributed among these distances:
34 24 0.39
36 3 0.05
37 1 0.02
39 6 0.10
40 3 0.05
41 1 0.02
42 23 0.38
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (35 bp):
TTTTGAACTTTCATATGTACGTATATATAAACTAT
Found at i:2459447 original size:15 final size:15
Alignment explanation
Indices: 2459427--2459481 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
2459417 AAATTTTTCC
2459427 CAAAAATAAAGATAA
1 CAAAAATAAAGATAA
*
2459442 CAAAAATAAAAATAA
1 CAAAAATAAAGATAA
**
2459457 -ACCAATCAAA-ATAA
1 CAAAAAT-AAAGATAA
2459471 CAAAAATAAAG
1 CAAAAATAAAG
2459482 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (15 bp):
CAAAAATAAAGATAA
Found at i:2463353 original size:30 final size:30
Alignment explanation
Indices: 2463317--2463379 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
2463307 ACTTATTTTA
*
2463317 TTGTTAATTTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
2463347 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
2463377 TTG
1 TTG
2463380 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:2468371 original size:18 final size:17
Alignment explanation
Indices: 2468340--2468373 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2468330 ATATTATTCT
2468340 TTTAATTTTATAATTAA
1 TTTAATTTTATAATTAA
*
2468357 TTTATATTTTTTAATTA
1 TTTA-ATTTTATAATTA
2468374 GAATGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTAATTTTATAATTAA
Found at i:2471837 original size:2 final size:2
Alignment explanation
Indices: 2471832--2471856 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2471822 ATATTAAAAA
2471832 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2471857 CACTCCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2473443 original size:32 final size:32
Alignment explanation
Indices: 2473407--2473477 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
2473397 AAAAAATCAT
*
2473407 TTTAACTCTTTTTCAAAAGATTGATG-ATTAAA
1 TTTAACTCTTTTTCAAAAGATTGA-GAATCAAA
* * *
2473439 TTTAA-TTTTTTTTAAAAGGTTGAGAATCAAA
1 TTTAACTCTTTTTCAAAAGATTGAGAATCAAA
2473470 TTTAACTC
1 TTTAACTC
2473478 AAAAACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
30 1 0.03
31 25 0.78
32 6 0.19
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (32 bp):
TTTAACTCTTTTTCAAAAGATTGAGAATCAAA
Found at i:2475973 original size:32 final size:33
Alignment explanation
Indices: 2475936--2476006 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 33
2475926 GACTAAAATT
*
2475936 TCAAATTTTGAAAAGTAAAATGACTAGATTTGA
1 TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
* *
2475969 -CAAA-TTCGAAAAGTACAATGACTATATTTGA
1 TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
2476000 TCAAATT
1 TCAAATT
2476007 AAAGTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 24 0.73
32 8 0.24
33 1 0.03
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (33 bp):
TCAAATTTCGAAAAGTAAAATGACTAGATTTGA
Found at i:2476020 original size:29 final size:29
Alignment explanation
Indices: 2475946--2476021 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
2475936 TCAAATTTTG
*
2475946 AAAAGTAAAATGACTAGATTTGACAAATT
1 AAAAGTACAATGACTAGATTTGACAAATT
*
2475975 CGAAAAGTACAATGACTATATTTGATCAAATT
1 --AAAAGTACAATGACTAGATTTGA-CAAATT
*
2476007 -AAAGTACAAGGACTA
1 AAAAGTACAATGACTA
2476022 AATTCATAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 14 0.34
31 21 0.51
32 6 0.15
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAAGTACAATGACTAGATTTGACAAATT
Found at i:2478357 original size:24 final size:24
Alignment explanation
Indices: 2478329--2478433 Score: 131
Period size: 24 Copynumber: 4.3 Consensus size: 24
2478319 CTATATAATG
2478329 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
2478353 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
** *
2478377 GGAAGCTCATGCGAGCCAATAA-CG
1 GGAAGCTCATAAGAGCC-ATAATCA
* **
2478401 GGTAGCTCCGAAGAGCCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
2478426 GGAAGCTC
1 GGAAGCTC
2478434 CGAATAGCCA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
23 1 0.01
24 55 0.81
25 12 0.18
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:2478358 original size:73 final size:72
Alignment explanation
Indices: 2478252--2478433 Score: 177
Period size: 73 Copynumber: 2.5 Consensus size: 72
2478242 AATTCATATT
* * * ** * * *
2478252 CGGGAATGCTCATACGAGCACATAAACATGAAGCTCATGTGAGCCA-ATATCGGGAGGCTTATCC
1 CGGGAA-GCTCATAAGAGC-CATAATCAGGAAGCTCATAAGAGCCATA-ATCAGGAAGCTCATCC
* *
2478316 GGGCTATATAA
63 GAGCCA-ATAA
* *
2478327 TGGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATGCGAG
1 CGGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATCCGAG
2478392 CCAATAA
66 CCAATAA
* **
2478399 CGGGTAGCTCCGAAGAGCCATTAATCAGGAAGCTC
1 CGGGAAGCTCATAAGAGCCA-TAATCAGGAAGCTC
2478434 CGAATAGCCA
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
72 20 0.22
73 52 0.58
74 12 0.13
75 5 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (72 bp):
CGGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATAAGAGCCATAATCAGGAAGCTCATCCGAG
CCAATAA
Found at i:2478481 original size:73 final size:75
Alignment explanation
Indices: 2478323--2478523 Score: 202
Period size: 73 Copynumber: 2.7 Consensus size: 75
2478313 TCCGGGCTAT
*
2478323 ATAATGGGAAGCT-CATAAGAGCCA-TAATCAGGAAGCT-CATAAGAGCCATA-A-TCAGGAAGC
1 ATAACGGGAAGCTCCA-AAGAGCCATTAATCAGGAAGCTCCA-AAGAGCCATATATTCAGGAAGC
*
2478383 TCATGCGAGCCA
64 TCAAGCGAGCCA
* * * * * * *
2478395 ATAACGGGTAGCTCCGAAGAGCCATTAATCAGGAAGCTCCGAATAGCCATATATTGA-GAAGTTT
1 ATAACGGGAAGCTCCAAAGAGCCATTAATCAGGAAGCTCCAAAGAGCCATATATTCAGGAAGCTC
2478459 AAGCGAGCC-
66 AAGCGAGCCA
* *
2478468 ATATCGGGAAGCTCACAAAGAGCCAATTAA-CGGGAAGCTCACAAAGAGCCATATAT
1 ATAACGGGAAGCTC-CAAAGAGCC-ATTAATCAGGAAGCTC-CAAAGAGCCATATAT
2478524 CGGGATGCCC
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
72 19 0.18
73 35 0.33
74 32 0.30
75 20 0.19
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (75 bp):
ATAACGGGAAGCTCCAAAGAGCCATTAATCAGGAAGCTCCAAAGAGCCATATATTCAGGAAGCTC
AAGCGAGCCA
Found at i:2478655 original size:25 final size:25
Alignment explanation
Indices: 2478598--2478711 Score: 176
Period size: 25 Copynumber: 4.6 Consensus size: 25
2478588 TCCGAAAAGC
*
2478598 TATAACGGGAAGCTCGCAAGAA-CA
1 TATAACGGGAAGCTCGCAACAACCA
*
2478622 TATAACGGGAAGCTCGCAACAACTA
1 TATAACGGGAAGCTCGCAACAACCA
2478647 TATAACGGGAAGCTCGCAACAACCA
1 TATAACGGGAAGCTCGCAACAACCA
* *
2478672 TATAACGGGAAGCTCGTAATAACCA
1 TATAACGGGAAGCTCGCAACAACCA
*
2478697 TATAACGGAAAGCTC
1 TATAACGGGAAGCTC
2478712 ATAAGAGCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 21 0.25
25 62 0.75
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (25 bp):
TATAACGGGAAGCTCGCAACAACCA
Found at i:2480620 original size:5 final size:5
Alignment explanation
Indices: 2480613--2480652 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
2480603 ATTTCTTTAT
* *
2480613 TTCTT TTCTC TTCTC TTCTC TTCTC TTCTT TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
2480653 ACGTTACTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:2483646 original size:38 final size:38
Alignment explanation
Indices: 2483595--2483673 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
2483585 TTTTTTCAAT
*
2483595 TATTTTTATTTTATTTTACCATTATATCAT-TCTTTAAA
1 TATTTTTATTTTATTTTAACATTATATCATCT-TTTAAA
*
2483633 TATTTTTATTTTATTTTAACATTATATTATCTTTTAAA
1 TATTTTTATTTTATTTTAACATTATATCATCTTTTAAA
2483671 TAT
1 TAT
2483674 CTTACGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (38 bp):
TATTTTTATTTTATTTTAACATTATATCATCTTTTAAA
Found at i:2483871 original size:16 final size:15
Alignment explanation
Indices: 2483831--2483874 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
2483821 ATAAATTCAG
2483831 TACTTAATTTTTTAA
1 TACTTAATTTTTTAA
2483846 T-CTTTAATTTTTTAAA
1 TAC-TTAATTTTTT-AA
*
2483862 TACTTGATTTTTT
1 TACTTAATTTTTT
2483875 TTCACATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.44
16 12 0.48
17 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TACTTAATTTTTTAA
Found at i:2484135 original size:31 final size:31
Alignment explanation
Indices: 2484071--2484135 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
2484061 GTACATGTAC
* * *
2484071 TTTAATTTTATCAATTTTAGTCTTTGTAATT
1 TTTAAGTTTATCAATTTTAGTCTCTATAATT
* *
2484102 TTTAAGTTTGTCAATTTTAGTCTCTATACTT
1 TTTAAGTTTATCAATTTTAGTCTCTATAATT
2484133 TTT
1 TTT
2484136 TTAATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (31 bp):
TTTAAGTTTATCAATTTTAGTCTCTATAATT
Found at i:2496877 original size:41 final size:41
Alignment explanation
Indices: 2496832--2496913 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
2496822 TTAAAGTGAT
* *
2496832 ATTTTCAAAAGTATTTTGATGTTATAAGCGAATTTTTTTAA
1 ATTTTCAAAAGTATTATGATGTTATAAGCCAATTTTTTTAA
2496873 ATTTTCAAAAGTATTATGATGTTATAAGCCAATTTTTTTAA
1 ATTTTCAAAAGTATTATGATGTTATAAGCCAATTTTTTTAA
2496914 CTCACAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (41 bp):
ATTTTCAAAAGTATTATGATGTTATAAGCCAATTTTTTTAA
Found at i:2498001 original size:49 final size:50
Alignment explanation
Indices: 2497944--2498061 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 50
2497934 AACCCGTTAT
* * * *
2497944 CGTATAACCACTGTCAACTAGGG-G-CCTGAGTTATACTTGAATCCGTGAC
1 CGTATAACCACCGTCAACTAGGGAGCCCT-AGTTATACTTCAACCCATGAC
* *
2497993 TGTATAACCACCGTTAACT-GGGAGCCCTAGTTATACTTCAACCCATGAC
1 CGTATAACCACCGTCAACTAGGGAGCCCTAGTTATACTTCAACCCATGAC
*
2498042 CGTATAACCACCGTGAACTA
1 CGTATAACCACCGTCAACTA
2498062 AGAGCTTGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.05
49 52 0.90
50 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
CGTATAACCACCGTCAACTAGGGAGCCCTAGTTATACTTCAACCCATGAC
Found at i:2505177 original size:17 final size:17
Alignment explanation
Indices: 2505151--2505183 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
2505141 TATAAGTAAT
2505151 ATTTTTGGG-TTAAATC
1 ATTTTTGGGTTTAAATC
2505167 ATTTTTGGGGTTTAAAT
1 ATTTTT-GGGTTTAAAT
2505184 TTAACAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (17 bp):
ATTTTTGGGTTTAAATC
Found at i:2505711 original size:59 final size:57
Alignment explanation
Indices: 2505638--2505781 Score: 144
Period size: 58 Copynumber: 2.5 Consensus size: 57
2505628 AGTTGTCAAA
* * *
2505638 TTCAAGTTCTAATGTGGGAATAGTTGTTAAATTTAAGGCCTAACTTAAACCATAAAACT
1 TTCAAGCTCTAATGTGGGAATAGTTGTT-AATTCAA-GCCTAACTTAAACCAAAAAACT
** * * *
2505697 TTCAAGCTCTAATGTGAAAATGGTTGCCTAATTCAAGCCTAACTTAGACCAAAAAACT
1 TTCAAGCTCTAATGTGGGAATAGTTG-TTAATTCAAGCCTAACTTAAACCAAAAAACT
* * * * *
2505755 TTGAAGCCCTAATATAGGTATAGTTGT
1 TTCAAGCTCTAATGTGGGAATAGTTGT
2505782 CAAGTTCATG
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
58 38 0.57
59 28 0.42
60 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (57 bp):
TTCAAGCTCTAATGTGGGAATAGTTGTTAATTCAAGCCTAACTTAAACCAAAAAACT
Found at i:2507570 original size:12 final size:12
Alignment explanation
Indices: 2507555--2507583 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2507545 AAAGTTGTTG
2507555 ATTTAGTTGGGA
1 ATTTAGTTGGGA
2507567 ATTTAGTTGGGA
1 ATTTAGTTGGGA
2507579 ATTTA
1 ATTTA
2507584 TGATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (12 bp):
ATTTAGTTGGGA
Found at i:2528127 original size:31 final size:31
Alignment explanation
Indices: 2528086--2528155 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
2528076 CAAGTTAGTC
* *
2528086 CCTAAACTTGGTAATT-TGTCCCATATTGGGA
1 CCTAAACTTGGCAATTAT-TCCCACATTGGGA
* *
2528117 CCTGAACTTGGCAATTATTCCCACATTGGGG
1 CCTAAACTTGGCAATTATTCCCACATTGGGA
2528148 CCTAAACT
1 CCTAAACT
2528156 CTAGGGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (31 bp):
CCTAAACTTGGCAATTATTCCCACATTGGGA
Found at i:2530790 original size:28 final size:28
Alignment explanation
Indices: 2530715--2530790 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
2530705 GTTATAAAAA
* *
2530715 AATTATATTAATTATATATATTAAATAAT
1 AATTATATTAATAATTTA-ATTAAATAAT
* * *
2530744 ATTTATATTAAATCA-TTAATTCAATAAT
1 AATTATATT-AATAATTTAATTAAATAAT
*
2530772 AATTAAATTAATAATTTAA
1 AATTATATTAATAATTTAA
2530791 AACCTAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 4 0.11
28 20 0.53
29 10 0.26
30 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
AATTATATTAATAATTTAATTAAATAAT
Found at i:2533919 original size:13 final size:13
Alignment explanation
Indices: 2533897--2533926 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2533887 AAACTTAAAG
*
2533897 TAGGTGATCAAAA
1 TAGGTAATCAAAA
2533910 TAGGTAATCAAAA
1 TAGGTAATCAAAA
2533923 TAGG
1 TAGG
2533927 AACACGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (13 bp):
TAGGTAATCAAAA
Found at i:2542146 original size:30 final size:29
Alignment explanation
Indices: 2542076--2542160 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
2542066 CAATTCACAT
*
2542076 ATTCATAA-TTTAATTCAC-TTT-ATTC-A
1 ATTCATAACTTTAATT-ACTTTTCAATCAA
2542102 ATTCATAACTTTAATTTA-TTTTCCAATCAA
1 ATTCATAACTTTAA-TTACTTTT-CAATCAA
2542132 ATTCA-AACTATTAATTACTTTTCAATCAA
1 ATTCATAACT-TTAATTACTTTTCAATCAA
2542161 TATACTTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
26 8 0.16
27 9 0.18
28 2 0.04
29 17 0.34
30 14 0.28
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (29 bp):
ATTCATAACTTTAATTACTTTTCAATCAA
Found at i:2542211 original size:15 final size:15
Alignment explanation
Indices: 2542191--2542219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2542181 ATATTTCTTC
2542191 ATTCAATTCAAATTG
1 ATTCAATTCAAATTG
2542206 ATTCAATTCAAATT
1 ATTCAATTCAAATT
2542220 AATATTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (15 bp):
ATTCAATTCAAATTG
Found at i:2542665 original size:16 final size:18
Alignment explanation
Indices: 2542644--2542677 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
2542634 CTTATAGTTT
2542644 CTTTTA-CAATT-TAATC
1 CTTTTATCAATTCTAATC
2542660 CTTTTATCAATTCTAATC
1 CTTTTATCAATTCTAATC
2542678 AAAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTTTATCAATTCTAATC
Found at i:2546715 original size:23 final size:23
Alignment explanation
Indices: 2546689--2546741 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2546679 AGTATTAGTG
*
2546689 TTATATATAATTAT-ATTGGTTTA
1 TTATATATAATTATAATT-ATTTA
* *
2546712 TTATATATCATTTTAATTATTTA
1 TTATATATAATTATAATTATTTA
2546735 TTATATA
1 TTATATA
2546742 CCCATCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATATATAATTATAATTATTTA
Found at i:2552968 original size:52 final size:51
Alignment explanation
Indices: 2552897--2553394 Score: 602
Period size: 52 Copynumber: 9.8 Consensus size: 51
2552887 ATCAAGTGAC
* *
2552897 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
2552949 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2552995 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
2553047 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAG----------CTACACTTATCTGATCAAGTGACAAGT-G
*
2553109 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2553160 AAAAGTGATAAGTGATAG----GGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2553203 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2553254 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2553301 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
2553352 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATTTGATCAAG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
2553395 AAACAAAGTG
Statistics
Matches: 394, Mismatches: 19, Indels: 66
0.82 0.04 0.14
Matches are distributed among these distances:
42 17 0.04
46 110 0.28
48 24 0.06
51 1 0.00
52 191 0.48
62 51 0.13
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:2553003 original size:98 final size:98
Alignment explanation
Indices: 2552883--2553411 Score: 796
Period size: 98 Copynumber: 5.3 Consensus size: 98
2552873 TTTGAGTACT
* *
2552883 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2552948 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
2552981 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2553046 GAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTACACTTA
66 AAAAGTGATAAGTGATAGCTTC-G----GC-TA--T--ACTTA
*
2553089 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
2553154 CAAGTGAAAAGTGATAAGTGATAG----GGCTATACTTA
60 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
2553189 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2553254 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
2553287 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2553352 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* **
2553385 TTTGATCAAGAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
2553412 GCTACACTTA
Statistics
Matches: 400, Mismatches: 11, Indels: 40
0.89 0.02 0.09
Matches are distributed among these distances:
94 68 0.17
98 217 0.54
99 1 0.00
100 19 0.05
102 1 0.00
103 1 0.00
104 4 0.01
105 1 0.00
106 1 0.00
108 19 0.05
109 1 0.00
114 67 0.17
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:2553087 original size:62 final size:62
Alignment explanation
Indices: 2553018--2553143 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
2553008 ATAGCTTCAG
2553018 CTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
1 CTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
*
2553080 CTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTAT
1 CTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
2553142 CT
1 CT
2553144 GATCAAGTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (62 bp):
CTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCAGCTACACTTAT
Found at i:2553421 original size:37 final size:37
Alignment explanation
Indices: 2553374--2553483 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
2553364 TGATAGCTTC
* *
2553374 GGCTATACTTATTTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
2553411 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
**
2553448 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
2553483 G
1 G
2553484 ATCATACGTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.17
36 4 0.06
37 53 0.77
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
Found at i:2555126 original size:45 final size:45
Alignment explanation
Indices: 2555037--2555163 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 45
2555027 GTGCCGACTA
*
2555037 CGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC---T--
1 CGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
* *
2555077 -GTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTAC
1 CGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
* *
2555121 CGTTACTGTTACAGATTCAGCAC--TGTGTGTTGAATACTGTTAC
1 CGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
2555164 TGCTACCGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
39 36 0.48
42 1 0.01
43 19 0.25
45 19 0.25
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (45 bp):
CGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
Found at i:2555697 original size:13 final size:15
Alignment explanation
Indices: 2555679--2555710 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2555669 TATATGAAAT
2555679 AATGATT-TT-ATGA
1 AATGATTATTGATGA
2555692 AATGATTATTGATGA
1 AATGATTATTGATGA
2555707 AATG
1 AATG
2555711 CATGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:2560292 original size:18 final size:18
Alignment explanation
Indices: 2560271--2560307 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2560261 ATATGAAAAA
2560271 TTATACAAATGATATACT
1 TTATACAAATGATATACT
* *
2560289 TTATTCAAATTATATACT
1 TTATACAAATGATATACT
2560307 T
1 T
2560308 GATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATACAAATGATATACT
Found at i:2560322 original size:17 final size:18
Alignment explanation
Indices: 2560276--2560315 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2560266 AAAAATTATA
* *
2560276 CAAATGATATACTTTATT
1 CAAATTATATACTTGATT
2560294 CAAATTATATACTTGATT
1 CAAATTATATACTTGATT
2560312 -AAAT
1 CAAAT
2560316 ATAATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (18 bp):
CAAATTATATACTTGATT
Found at i:2560440 original size:22 final size:22
Alignment explanation
Indices: 2560414--2560529 Score: 80
Period size: 22 Copynumber: 5.1 Consensus size: 22
2560404 AATTTAAATG
2560414 AAATGAGAAAAAAAATAAATTA
1 AAATGAGAAAAAAAATAAATTA
* *
2560436 AAATG-GAAAGAAAGATAATTTAAA
1 AAATGAGAAA-AAAAATAAATT--A
2560460 TGAAATGAGAAAAAAAATTAAATTA
1 --AAATGAGAAAAAAAA-TAAATTA
* *
2560485 AAATG-GAAAGAAAGAT-AATTT
1 AAATGAGAAA-AAAAATAAATTA
2560506 AAATGA-AAGAAGAAAA-AAATTA
1 AAATGAGAA-AA-AAAATAAATTA
2560528 AA
1 AA
2560530 TTTAAATGGG
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
21 16 0.22
22 29 0.39
23 9 0.12
24 1 0.01
25 1 0.01
26 9 0.12
27 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (22 bp):
AAATGAGAAAAAAAATAAATTA
Found at i:2560493 original size:49 final size:49
Alignment explanation
Indices: 2560404--2560732 Score: 524
Period size: 48 Copynumber: 6.8 Consensus size: 49
2560394 AAAAAATGTA
* *
2560404 AATTTAAATGAAATGAGAAAAAAAA-TAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGGAAGATAGAT
* *
2560452 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGGAAGATAGAT
*
2560501 AATTTAAATGAAA-GA-AGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGA-AAAAAAATTAAATTAAAATGGGAAGATAGAT
* *
2560549 AATTTAAATGAAATAATAAAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGGAAGATAGAT
2560598 AATTTAAATGAAATGAG-AAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGGAAGATAGAT
*
2560646 AATTTAAATGAAATGAGAGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGA-AAAAAAATTAAATTAAAATGGGAAGATAGAT
*
2560696 AATTTAAATGAAATGAGAAAAAAAA-TAAATTTAAATG
1 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATG
2560733 AAATGAAACT
Statistics
Matches: 267, Mismatches: 8, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
47 1 0.00
48 128 0.48
49 89 0.33
50 49 0.18
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (49 bp):
AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGGAAGATAGAT
Found at i:2560505 original size:97 final size:97
Alignment explanation
Indices: 2560404--2560775 Score: 525
Period size: 97 Copynumber: 3.8 Consensus size: 97
2560394 AAAAAATGTA
2560404 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
* *
2560469 AAAAAAAATTAAATTAAAATGGAAAGAAAGAT
66 AAAAAAAATTAAATTAAAATGGGAAGATAGAT
* * * * *
2560501 AATTTAAATGAAA-GAAGAAAAAAATTAAATTTAAATGGGAAGATAGATAATTTAAATGAAATAA
1 AATTTAAATGAAATG-AGAAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGA
*
2560565 TAAAAAAAATTAAATTAAAATGGGAAGATAGAT
65 GAAAAAAAATTAAATTAAAATGGGAAGATAGAT
* * *
2560598 AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGGAAGATAGATAATTTAAATGAAATGAG
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
*
2560663 AGAAAAAAATTAAATTTAAATGGGAAGATAGAT
66 A-AAAAAAATTAAATTAAAATGGGAAGATAGAT
* **
2560696 AATTTAAATGAAATGAGAAAAAAAATAAATTTAAAT-GAAATGAAACTGA-AATAGAAATGAAAT
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAA-GAAA--GATAATTTAAATGAAAT
* *
2560759 GAAAAAAAAAATGAAAT
63 GAGAAAAAAAATTAAAT
2560776 GACATCTTAG
Statistics
Matches: 249, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
96 1 0.00
97 151 0.61
98 80 0.32
99 15 0.06
100 2 0.01
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (97 bp):
AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAG
AAAAAAAATTAAATTAAAATGGGAAGATAGAT
Found at i:2560745 original size:11 final size:10
Alignment explanation
Indices: 2560728--2560762 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
2560718 AAATAAATTT
2560728 AAATGAAATG
1 AAATGAAATG
2560738 AAACTGAAATAG
1 AAA-TGAAAT-G
2560750 AAATGAAATG
1 AAATGAAATG
2560760 AAA
1 AAA
2560763 AAAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 12 0.52
12 4 0.17
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (10 bp):
AAATGAAATG
Found at i:2560765 original size:48 final size:48
Alignment explanation
Indices: 2560404--2560775 Score: 480
Period size: 49 Copynumber: 7.6 Consensus size: 48
2560394 AAAAAATGTA
2560404 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
2560452 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAAA-TAAATTAAAATGGAAAGAAAGAT
* * * *
2560501 AATTTAAATGAAA-GAAGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATG-AGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
* * * *
2560549 AATTTAAATGAAATAATAAAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGAAAAAAAA-TAAATTAAAATGGAAAGAAAGAT
* * *
2560598 AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
* * *
2560646 AATTTAAATGAAATGAGAGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAGA-AAAAAAA-TAAATTAAAATGGAAAGAAAGAT
*
2560696 AATTTAAATGAAATGAGAAAAAAAATAAATTTAAAT-GAAATGAAACTGA-
1 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAA-GAAA--GAT
** *
2560745 AATAGAAATGAAATGAAAAAAAAAATGAAAT
1 AATTTAAATGAAATGAGAAAAAAAAT-AAAT
2560776 GACATCTTAG
Statistics
Matches: 296, Mismatches: 18, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
47 3 0.01
48 122 0.41
49 125 0.42
50 46 0.16
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (48 bp):
AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
Found at i:2560766 original size:49 final size:48
Alignment explanation
Indices: 2560404--2560775 Score: 464
Period size: 48 Copynumber: 7.6 Consensus size: 48
2560394 AAAAAATGTA
* * *
2560404 AATTTAAATGAAATGAGAAAAAAAATAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAAAAAAAAAATAAATTAAAATGGGAAGATAGAT
* * *
2560452 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGA-AAAAAAAAATAAATTAAAATGGGAAGATAGAT
* *
2560501 AATTTAAATGAAA-GAAGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAA-AAAAAAAATAAATTAAAATGGGAAGATAGAT
2560549 AATTTAAATGAAAT-AATAAAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAA-AAAAAAAA-TAAATTAAAATGGGAAGATAGAT
* *
2560598 AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGGAAGATAGAT
1 AATTTAAATGAAATGAAAAAAAAAATAAATTAAAATGGGAAGATAGAT
* *
2560646 AATTTAAATGAAATGAGAGAAAAAAATTAAATTTAAATGGGAAGATAGAT
1 AATTTAAATGAAATGA-A-AAAAAAAATAAATTAAAATGGGAAGATAGAT
* * * *
2560696 AATTTAAATGAAATGAGAAAAAAAATAAATTTAAAT-GAAATGAAACTGA-
1 AATTTAAATGAAATGAAAAAAAAAATAAATTAAAATGGGAA-GATA--GAT
**
2560745 AATAGAAATGAAATGAAAAAAAAAATGAAAT
1 AATTTAAATGAAATGAAAAAAAAAAT-AAAT
2560776 GACATCTTAG
Statistics
Matches: 294, Mismatches: 19, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
47 4 0.01
48 128 0.44
49 109 0.37
50 53 0.18
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (48 bp):
AATTTAAATGAAATGAAAAAAAAAATAAATTAAAATGGGAAGATAGAT
Found at i:2560770 original size:17 final size:17
Alignment explanation
Indices: 2560701--2560777 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
2560691 TAGATAATTT
*
2560701 AAATGAAATGAGAAAAA
1 AAATGAAATGAAAAAAA
** **
2560718 AAAT-AAAT-TTAAATG
1 AAATGAAATGAAAAAAA
* *
2560733 AAATGAAACTG-AAATAG
1 AAATGAAA-TGAAAAAAA
2560750 AAATGAAATGAAAAAAA
1 AAATGAAATGAAAAAAA
2560767 AAATGAAATGA
1 AAATGAAATGA
2560778 CATCTTAGAC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
15 7 0.15
16 9 0.19
17 31 0.66
ACGTcount: A:0.66, C:0.01, G:0.14, T:0.18
Consensus pattern (17 bp):
AAATGAAATGAAAAAAA
Found at i:2560774 original size:22 final size:22
Alignment explanation
Indices: 2560701--2560777 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
2560691 TAGATAATTT
*
2560701 AAATGAAATGAGAAAAAAAAT-
1 AAATGAAATGAAAAAAAAAATG
* *
2560722 AAATTTAAATGAAATGAAACTGAAATAG
1 AAA-TGAAATGAAA--AAA--AAAAT-G
2560750 AAATGAAATGAAAAAAAAAATG
1 AAATGAAATGAAAAAAAAAATG
2560772 AAATGA
1 AAATGA
2560778 CATCTTAGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
21 3 0.07
22 15 0.34
23 4 0.09
24 3 0.07
25 3 0.07
26 4 0.09
27 9 0.20
28 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.14, T:0.18
Consensus pattern (22 bp):
AAATGAAATGAAAAAAAAAATG
Found at i:2560777 original size:5 final size:5
Alignment explanation
Indices: 2560728--2560762 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
2560718 AAATAAATTT
2560728 AAATG AAATG AAACTG AAATAG AAATG AAATG AAA
1 AAATG AAATG AAA-TG AAAT-G AAATG AAATG AAA
2560763 AAAAAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:2561040 original size:20 final size:21
Alignment explanation
Indices: 2561006--2561045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2560996 CTAATTAATA
2561006 TGAAAAAAATATGAAATGAAT
1 TGAAAAAAATATGAAATGAAT
*
2561027 TGAAAAAAAT-TGAATTGAA
1 TGAAAAAAATATGAAATGAA
2561046 AAAAGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (21 bp):
TGAAAAAAATATGAAATGAAT
Found at i:2561062 original size:5 final size:5
Alignment explanation
Indices: 2561054--2561175 Score: 50
Period size: 5 Copynumber: 22.4 Consensus size: 5
2561044 AAAAAAGATT
* *
2561054 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
* * * *
2561106 AATGA ATATAA AATGA AATGA GATGTTA AATGA ATATAA AATAA AATG-
1 AATGA A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA
* *
2561154 -ATGA TTATGA AATGG AATGA AA
1 AATGA -AATGA AATGA AATGA AA
2561176 GTTTAAATGA
Statistics
Matches: 91, Mismatches: 14, Indels: 24
0.71 0.11 0.19
Matches are distributed among these distances:
3 3 0.03
5 49 0.54
6 25 0.27
7 14 0.15
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:2561110 original size:35 final size:33
Alignment explanation
Indices: 2561054--2561154 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 33
2561044 AAAAAAGATT
* *
2561054 AATGAAATGAAATGTTAAATGAAATATGAATATGA
1 AATGAAATGTAATGTTAAATG-AATAT-AAAATGA
*
2561089 AATGAAATGTAAT-TTGTAATGAATATAAAATGA
1 AATGAAATGTAATGTT-AAATGAATATAAAATGA
*
2561122 AATG--A-G--ATGTTAAATGAATATAAAATAA
1 AATGAAATGTAATGTTAAATGAATATAAAATGA
2561150 AATGA
1 AATGA
2561155 TGATTATGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
28 21 0.36
29 2 0.03
30 1 0.02
31 1 0.02
33 10 0.17
34 7 0.12
35 16 0.28
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (33 bp):
AATGAAATGTAATGTTAAATGAATATAAAATGA
Found at i:2561291 original size:5 final size:5
Alignment explanation
Indices: 2561281--2561357 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
2561271 AAATAAATTT
*
2561281 AAATG AAATG AAAATG AAAATAC AAATG AAATG AAAATG AAA-- AAATG
1 AAATG AAATG -AAATG -AAAT-G AAATG AAATG -AAATG AAATG AAATG
* * *
2561328 AAATG AATTGG AAATAT AAATA AAATG AAA
1 AAATG AAAT-G AAAT-G AAATG AAATG AAA
2561358 AAAAAGAGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
3 3 0.05
5 28 0.48
6 27 0.47
ACGTcount: A:0.65, C:0.01, G:0.14, T:0.19
Consensus pattern (5 bp):
AAATG
Found at i:2561293 original size:23 final size:23
Alignment explanation
Indices: 2561281--2561357 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
2561271 AAATAAATTT
*
2561281 AAATGAAATGAAAATGAAAATAC
1 AAATGAAATGAAAATAAAAATAC
*
2561304 AAATGAAATGAAAATGAAAAA-ATG
1 AAATGAAATGAAAAT-AAAAATA-C
* * *
2561328 AAATGAATTGGAAATATAAATA-
1 AAATGAAATGAAAATAAAAATAC
2561350 AAATGAAA
1 AAATGAAA
2561358 AAAAAGAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
22 7 0.16
23 20 0.44
24 18 0.40
ACGTcount: A:0.65, C:0.01, G:0.14, T:0.19
Consensus pattern (23 bp):
AAATGAAATGAAAATAAAAATAC
Found at i:2561358 original size:6 final size:6
Alignment explanation
Indices: 2561281--2561323 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
2561271 AAATAAATTT
2561281 AAATG- AAATGA AAATGA AAAT-A CAAATG- AAATGA AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA -AAATGA AAATGA AAATGA AAA
2561324 AATGAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 11 0.32
6 23 0.68
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (6 bp):
AAATGA
Found at i:2561745 original size:20 final size:19
Alignment explanation
Indices: 2561706--2561756 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
2561696 TTTATATTTA
2561706 AATATTTTTTAAAAATAAT
1 AATATTTTTTAAAAATAAT
2561725 AATATTTTATTCAAAAA-AAT
1 AATATTTT-TT-AAAAATAAT
2561745 AATATTTTTTAA
1 AATATTTTTTAA
2561757 TTCATTGGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 13 0.43
21 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTTTTTAAAAATAAT
Found at i:2562961 original size:17 final size:17
Alignment explanation
Indices: 2562939--2562973 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2562929 GGGGAATATT
*
2562939 AATATTTCTTATAGATA
1 AATATTTATTATAGATA
*
2562956 AATATTTATTATGGATA
1 AATATTTATTATAGATA
2562973 A
1 A
2562974 TTTGTATTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (17 bp):
AATATTTATTATAGATA
Found at i:2576391 original size:22 final size:22
Alignment explanation
Indices: 2576366--2576426 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
2576356 TATTAAACAG
2576366 AGAGCACTAAAGTGCTATACAA
1 AGAGCACTAAAGTGCTATACAA
*
2576388 AGAGCAC-AAATGTGCTATACAG
1 AGAGCACTAAA-GTGCTATACAA
*
2576410 AGAGCACTAATGTGCTA
1 AGAGCACTAAAGTGCTA
2576427 ATAATCGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (22 bp):
AGAGCACTAAAGTGCTATACAA
Found at i:2576442 original size:25 final size:25
Alignment explanation
Indices: 2576363--2576536 Score: 122
Period size: 25 Copynumber: 7.4 Consensus size: 25
2576353 CACTATTAAA
*
2576363 CAGAGAGCACTAAAGTGCT-AT-A-
1 CAGAGAGCACTAATGTGCTAATAAT
* *
2576385 CAAAGAGCACAAATGTGCT-AT-A-
1 CAGAGAGCACTAATGTGCTAATAAT
2576407 CAGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
2576432 CGGAGAGCACTAACGTGCTAGA-AAT
1 CAGAGAGCACTAATGTGCTA-ATAAT
* *
2576457 CAGAGAG--C-GA-GT--TAGTAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* * * *
2576476 CAGAGAGCACTGACGTGCTAATGAC
1 CAGAGAGCACTAATGTGCTAATAAT
* *
2576501 CAGAGAGCATTGATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
*
2576526 TAGAGAGCACT
1 CAGAGAGCACT
2576537 CTAAACTCCC
Statistics
Matches: 122, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.10
21 3 0.02
22 39 0.32
23 5 0.04
24 1 0.01
25 61 0.50
26 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:2581720 original size:6 final size:6
Alignment explanation
Indices: 2581709--2581735 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2581699 AATATATCGC
2581709 AAATAG AAATAG AAATAG AAATAG AAA
1 AAATAG AAATAG AAATAG AAATAG AAA
2581736 AATAAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAATAG
Found at i:2586843 original size:2 final size:2
Alignment explanation
Indices: 2586836--2586868 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2586826 TCTCGATCTT
2586836 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2586869 GTTCTTCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2593706 original size:22 final size:22
Alignment explanation
Indices: 2593693--2593736 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
2593683 ATATCTAATT
2593693 ATATAATATA-T-TATTAATAA
1 ATATAATATATTATATTAATAA
* *
2593713 ATATAATATATTATTTTTATAA
1 ATATAATATATTATATTAATAA
2593735 AT
1 AT
2593737 TATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATAATATATTATATTAATAA
Found at i:2603197 original size:7 final size:7
Alignment explanation
Indices: 2603187--2603213 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2603177 TTTTACCATT
2603187 TATTTTA
1 TATTTTA
2603194 TATTTTA
1 TATTTTA
2603201 TATTTTA
1 TATTTTA
2603208 TATTTT
1 TATTTT
2603214 TCTTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTA
Found at i:2606084 original size:46 final size:45
Alignment explanation
Indices: 2606017--2606378 Score: 368
Period size: 46 Copynumber: 8.6 Consensus size: 45
2606007 TTTGAGTACT
* * *
2606017 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
2606063 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
2606099 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
2606135 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
2606181 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
2606217 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
2606263 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
2606309 TCTGATCAAGTGACAAAGTGATAAGTGATAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
2606354 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
2606379 ATCATACGTA
Statistics
Matches: 279, Mismatches: 17, Indels: 43
0.82 0.05 0.13
Matches are distributed among these distances:
36 93 0.33
37 2 0.01
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 6 0.02
43 15 0.05
44 3 0.01
45 22 0.08
46 130 0.47
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:2606096 original size:36 final size:36
Alignment explanation
Indices: 2606055--2606243 Score: 252
Period size: 36 Copynumber: 5.0 Consensus size: 36
2606045 TAGCTTTAGT
2606055 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
2606091 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
* *
2606127 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGC
1 TACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GC
2606173 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
* *
2606209 TATACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
2606244 TTAGCCTTAG
Statistics
Matches: 137, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 99 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
Found at i:2606175 original size:82 final size:81
Alignment explanation
Indices: 2606089--2606378 Score: 386
Period size: 82 Copynumber: 3.5 Consensus size: 81
2606079 AGTGATAAGT
*
2606089 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGACAAAGT
*
2606154 GATAAGTGGTAGCTTTA
66 GATAAGTGATAGC-TTA
*
2606171 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGACAAAGT
*
2606236 GATAAGTGTTAGCCTTA
66 GATAAGTGATAG-CTTA
*
2606253 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTATCTGATCAA
*
2606318 GTGACAAAGTGATAAGTGATAGCCTA
56 GTGACAAAGTGATAAGTGATAGCTTA
* *
2606344 GCTACACTTATCTGATC-AG-GGACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
2606379 ATCATACGTA
Statistics
Matches: 187, Mismatches: 10, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
82 108 0.58
83 4 0.02
88 3 0.02
89 8 0.04
90 2 0.01
91 21 0.11
92 39 0.21
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (81 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGATAGCTTA
Found at i:2608080 original size:15 final size:17
Alignment explanation
Indices: 2608060--2608094 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
2608050 ACATTGTGTG
2608060 AAAAATAAA-T-AAAAC
1 AAAAATAAATTAAAAAC
2608075 AAAAATAAATTAAAAAC
1 AAAAATAAATTAAAAAC
2608092 AAA
1 AAA
2608095 TTAACTAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAATAAATTAAAAAC
Found at i:2608418 original size:12 final size:13
Alignment explanation
Indices: 2608388--2608418 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2608378 AACGTAATTT
*
2608388 ATTTTTTATATAA
1 ATTTTTTACATAA
2608401 ATTTTTTACATAA
1 ATTTTTTACATAA
2608414 ATTTT
1 ATTTT
2608419 CACCCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTTTACATAA
Found at i:2616584 original size:31 final size:29
Alignment explanation
Indices: 2616520--2616585 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2616510 GATAGTTCAT
*
2616520 GTACCACATTAGATATTTTCAAAGTATAT
1 GTACCACATTAGATATTTTCAAAGTATAG
* * *
2616549 GTACCACATTGGATACTTTATGAAAGTGTAG
1 GTACCACATTAGATA-TTT-TCAAAGTATAG
2616580 GTACCA
1 GTACCA
2616586 TAATAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 14 0.45
30 3 0.10
31 14 0.45
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (29 bp):
GTACCACATTAGATATTTTCAAAGTATAG
Found at i:2616661 original size:92 final size:92
Alignment explanation
Indices: 2616493--2616664 Score: 256
Period size: 92 Copynumber: 1.9 Consensus size: 92
2616483 ATCAAATACT
** *
2616493 ATAATAAAACACATATTGATAGTTCATGTACCACATTAGATATTTTCAAAGTATATGTACCACAT
1 ATAATAAAACACATATTGATAGTTCAAATACCACATTAGATATTTTCAAAGTACATGTACCACAT
* *
2616558 TGGATACTTTATGAAAGTGTAGGTACC
66 TGAACACTTTATGAAAGTGTAGGTACC
* *
2616585 ATAATAAAATACATATTGATAGTTCAAATATCACATT-GAATATTTTCAAAGTACATGTACCACA
1 ATAATAAAACACATATTGATAGTTCAAATACCACATTAG-ATATTTTCAAAGTACATGTACCACA
*
2616649 TTGAACATTTTATGAA
65 TTGAACACTTTATGAA
2616665 TGTATAGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 1 0.01
92 70 0.99
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (92 bp):
ATAATAAAACACATATTGATAGTTCAAATACCACATTAGATATTTTCAAAGTACATGTACCACAT
TGAACACTTTATGAAAGTGTAGGTACC
Found at i:2617546 original size:29 final size:31
Alignment explanation
Indices: 2617476--2617547 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
2617466 TTTTTGAAAC
* *
2617476 TGTGTATAGTTGAACCAAAATCAAAATTTTA
1 TGTGTATAATTGAACCAAAATCAAAATTTCA
** * *
2617507 TGTGTGCAATT-AACC-AAATTAAAGTTTCA
1 TGTGTATAATTGAACCAAAATCAAAATTTCA
2617536 TGTGTATAATTG
1 TGTGTATAATTG
2617548 CATCAAATTG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
29 20 0.62
30 4 0.12
31 8 0.25
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (31 bp):
TGTGTATAATTGAACCAAAATCAAAATTTCA
Found at i:2618603 original size:18 final size:20
Alignment explanation
Indices: 2618577--2618613 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
2618567 TTTTCGTCCA
*
2618577 TATTAATTTTTATT-TTTTT
1 TATTAATTTATATTATTTTT
2618596 TATT-ATTTATATTATTTT
1 TATTAATTTATATTATTTT
2618614 AATTTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (20 bp):
TATTAATTTATATTATTTTT
Found at i:2618619 original size:22 final size:21
Alignment explanation
Indices: 2618586--2618658 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
2618576 ATATTAATTT
*
2618586 TTATTTT-TTTTATTATTTATA
1 TTATTTTAATTTATTATTTA-A
*
2618607 TTATTTTAATTTAATATTTAA
1 TTATTTTAATTTATTATTTAA
* *
2618628 TAAATTTATATTTATTTATTTAAA
1 TTATTTTA-ATTTA-TTATTT-AA
2618652 TT-TTTTA
1 TTATTTTA
2618659 TATAGTCACC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 14 0.34
22 15 0.37
23 9 0.22
24 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTAATTTATTATTTAA
Found at i:2628190 original size:23 final size:21
Alignment explanation
Indices: 2628147--2628190 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
2628137 AAGTTTTGGA
*
2628147 AAATTTATAATTTTTTTTTAT
1 AAATTTATAATTATTTTTTAT
2628168 AAATATTATATATTATTTTTTAT
1 AAAT-TTATA-ATTATTTTTTAT
2628191 TTAATTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AAATTTATAATTATTTTTTAT
Found at i:2628203 original size:23 final size:23
Alignment explanation
Indices: 2628160--2628206 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2628150 TTTATAATTT
*
2628160 TTTTTTATAAATATTATATATTA
1 TTTTTTATAAATATTACATATTA
*
2628183 TTTTTTATTTAAT-TTACATATTA
1 TTTTTTA-TAAATATTACATATTA
2628206 T
1 T
2628207 AAAAAGGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTATAAATATTACATATTA
Found at i:2628617 original size:6 final size:6
Alignment explanation
Indices: 2628606--2628634 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2628596 ATTTTACATA
2628606 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
2628635 GGTTGAGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:2644820 original size:2 final size:2
Alignment explanation
Indices: 2644813--2644838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2644803 TCTTAAATTC
2644813 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2644839 TACATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2645375 original size:24 final size:23
Alignment explanation
Indices: 2645331--2645377 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2645321 TATTCACACA
2645331 TATTATTACTTAATTTCAAATGT
1 TATTATTACTTAATTTCAAATGT
*
2645354 TATTACTTACCTTACTTT-AAATGT
1 TATTA-TTA-CTTAATTTCAAATGT
2645378 CCCATGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (23 bp):
TATTATTACTTAATTTCAAATGT
Found at i:2645652 original size:22 final size:24
Alignment explanation
Indices: 2645610--2645653 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
2645600 TAACCAAGCT
2645610 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
2645634 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
2645654 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:2646038 original size:22 final size:20
Alignment explanation
Indices: 2646013--2646067 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
2646003 TCTTCCGCTG
2646013 TTTTCGTCTTTTTCTCTGTTTC
1 TTTTCGTCTTTTT-T-TGTTTC
*
2646035 TTTTCTGTTCTTCTTTTGTTTC
1 TTTTC-G-TCTTTTTTTGTTTC
2646057 -TTT-GTCTTTTT
1 TTTTCGTCTTTTT
2646068 ATTTTACTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 6 0.21
19 1 0.03
21 3 0.10
22 11 0.38
23 2 0.07
24 6 0.21
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (20 bp):
TTTTCGTCTTTTTTTGTTTC
Found at i:2647860 original size:45 final size:45
Alignment explanation
Indices: 2647796--2647885 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
2647786 TTTAGCAGAG
2647796 GAGCAAATGCAATCCGAATCCCAATATAAAAGCTTTCATAGTATT
1 GAGCAAATGCAATCCGAATCCCAATATAAAAGCTTTCATAGTATT
2647841 GAGCAAATGCAATCCGAATCCCAATATAAAAGCTTTCATAGTATT
1 GAGCAAATGCAATCCGAATCCCAATATAAAAGCTTTCATAGTATT
2647886 TTTACCTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (45 bp):
GAGCAAATGCAATCCGAATCCCAATATAAAAGCTTTCATAGTATT
Found at i:2648157 original size:59 final size:59
Alignment explanation
Indices: 2648085--2648199 Score: 230
Period size: 59 Copynumber: 1.9 Consensus size: 59
2648075 TGAAAGAATC
2648085 AAATGAACAAGATCACCATGTAAAATGGAAGATATTTCTACAAACTATTTATAATTTCT
1 AAATGAACAAGATCACCATGTAAAATGGAAGATATTTCTACAAACTATTTATAATTTCT
2648144 AAATGAACAAGATCACCATGTAAAATGGAAGATATTTCTACAAACTATTTATAATT
1 AAATGAACAAGATCACCATGTAAAATGGAAGATATTTCTACAAACTATTTATAATT
2648200 CCTATACATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (59 bp):
AAATGAACAAGATCACCATGTAAAATGGAAGATATTTCTACAAACTATTTATAATTTCT
Found at i:2649495 original size:32 final size:32
Alignment explanation
Indices: 2649454--2649521 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
2649444 AAAAACCCGA
2649454 TCAAACATTTTAAAAAAGAACACCAGAATGGT
1 TCAAACATTTTAAAAAAGAACACCAGAATGGT
2649486 TCAAACATTTTAAAAAAGAACACCAGAATGGT
1 TCAAACATTTTAAAAAAGAACACCAGAATGGT
2649518 TCAA
1 TCAA
2649522 TCTCAAGGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (32 bp):
TCAAACATTTTAAAAAAGAACACCAGAATGGT
Found at i:2654640 original size:18 final size:18
Alignment explanation
Indices: 2654602--2654666 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
2654592 ATTTTTTAAT
2654602 ATTTTATAA-ATATT-AATA
1 ATTTTATAATAT-TTCAA-A
*
2654620 ATTTTATAATCTTTCAAA
1 ATTTTATAATATTTCAAA
**
2654638 ATTTTATGTTATTTCAAA
1 ATTTTATAATATTTCAAA
2654656 ATTTTTATAAT
1 A-TTTTATAAT
2654667 GTTTAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 28 0.74
19 10 0.26
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTTATAATATTTCAAA
Found at i:2657130 original size:14 final size:15
Alignment explanation
Indices: 2657108--2657184 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
2657098 CAATCAAACA
2657108 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
2657122 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
2657137 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
2657157 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
2657171 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
2657185 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:2657149 original size:20 final size:20
Alignment explanation
Indices: 2657124--2657163 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2657114 AATATTTTCC
*
2657124 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
2657144 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
2657164 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:2657169 original size:34 final size:35
Alignment explanation
Indices: 2657112--2657178 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
2657102 CAAACACCAG
*
2657112 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
2657147 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
2657179 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:2672198 original size:44 final size:44
Alignment explanation
Indices: 2672132--2672759 Score: 476
Period size: 44 Copynumber: 14.3 Consensus size: 44
2672122 TCCACTTCCT
* * *
2672132 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCGC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
2672176 GCCAATACATGAAGACAAGATCTGC-GTCGTCGATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * * *
2672218 TACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * *
2672263 GCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* * *
2672308 ACC-AT-TATGGAAGACAAAATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAT-GAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* ** * * * *
2672349 TACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
2672394 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTATTTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
** * * *
2672439 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCAC-TCCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
2672481 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
2672526 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
** * *
2672571 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
2672613 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
2672658 GCCAATACATGAAGACAAGATCTACTTTCTGT-GATCTACTTCGCC
1 ACCAATATATGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* * *
2672703 ACCAATAT-GGGAGACAAGATCTGC-ATCTTTGATCTACTTC-C
1 ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
*
2672744 TACCAATATAGGAAGA
1 -ACCAATATATGAAGA
2672760 TAGGATATGT
Statistics
Matches: 452, Mismatches: 107, Indels: 51
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.00
42 16 0.04
43 120 0.27
44 252 0.56
45 62 0.14
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
ACCAATATATGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
Found at i:2672517 original size:132 final size:132
Alignment explanation
Indices: 2672150--2672759 Score: 965
Period size: 132 Copynumber: 4.6 Consensus size: 132
2672140 AGGAAGGCAG
* * * *** *
2672150 GATCTGCTATCTTCGATCTACTTCG-CGCCAATACATGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * * *
2672214 TTCCTACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
2672279 AA
131 AA
* * *
2672281 GATCTGCTTTCTGTGATCTACTTCGCCACCATTAT-GGAAGACAAAATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
** **
2672345 TTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
2672410 AA
131 AA
*
2672412 GATCTGCTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
2672477 TCCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
2672542 AA
131 AA
2672544 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
2672609 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
2672674 AA
131 AA
* * * * *
2672676 GATCTACTTTCTGTGATCTACTTCGCCACCAATATGGG-AGACAAGATCTGCATCTTTGATCTAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
2672740 TTCCTACCAATATAGGAAGA
66 TTCCTACCAATATAGGAAGA
2672760 TAGGATATGT
Statistics
Matches: 447, Mismatches: 30, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 185 0.41
132 262 0.59
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:2678173 original size:266 final size:265
Alignment explanation
Indices: 2677700--2678230 Score: 981
Period size: 266 Copynumber: 2.0 Consensus size: 265
2677690 GCGGATACAT
*
2677700 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCGTTCGAGCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
*
2677765 CTCACGAACTCTTCAAAAGGGACGTTTCTTATATCTCCTTTTACTCAATCCGGGCCGTGACTCGT
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTACTCAATCCGGGCCGTGACTCGT
* *
2677830 TGCTCACTAAACCTCATGGTTCTCGTTGGCTCCTCTTTTAAGAAAGTTCAGCGGCTCTCGAATAA
131 TGCTCACTAAACCTCATGGTGCTCGTTGGCTCCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATAA
2677895 TCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTCTGTGGTCCTCCATTAAACTATCAT
196 TCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTCTGTGGTCCTCCATTAAACTATCAT
2677960 CCTTC
261 CCTTC
* *
2677965 ATACGGCTTTGCCCTCATATGCTGAGACATTCGATCATTTTCTTCATTCGATCGTTAAGATAAGT
1 ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
2678030 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTTACTCAATCCGGGCCGTGACTCG
66 CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCC-TTTTACTCAATCCGGGCCGTGACTCG
*
2678095 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTTCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
130 TTGCTCACTAAACCTCATGGTGCTCGTTGGCTCCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATA
*
2678160 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTGTGTGGTCCTCCATTAAACTATCA
195 ATCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTCTGTGGTCCTCCATTAAACTATCA
2678225 TCCTTC
260 TCCTTC
2678231 TCTTATCACG
Statistics
Matches: 257, Mismatches: 8, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
265 99 0.39
266 158 0.61
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (265 bp):
ATACGGCTTTGCCCTCATATGCGGAGACATTCGATCATTTTCTTCATTCGAGCGTTAAGATAAGT
CTCACGAACTCTTCAAAAGGGACGTATCTTATATCTCCTTTTACTCAATCCGGGCCGTGACTCGT
TGCTCACTAAACCTCATGGTGCTCGTTGGCTCCTCTTTTAAGAAAGTTCAGCGGCTCTCAAATAA
TCCTTGTCACATTAAATTCTCGGGCCACGGAGCAATGGTTCTGTGGTCCTCCATTAAACTATCAT
CCTTC
Found at i:2682607 original size:7 final size:7
Alignment explanation
Indices: 2682595--2682627 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
2682585 ATAATAAAAT
2682595 ATATAAA
1 ATATAAA
2682602 ATATAAA
1 ATATAAA
2682609 ATATAAA
1 ATATAAA
2682616 ATATCAAA
1 ATAT-AAA
2682624 ATAT
1 ATAT
2682628 TAGAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:2682634 original size:23 final size:23
Alignment explanation
Indices: 2682583--2682634 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
2682573 ATAATGATGT
*
2682583 GAATAATAAAATATATAAAATATA
1 GAAT-ATAAAATATACAAAATATA
*
2682607 AAATATAAAATAT-CAAAATATTA
1 GAATATAAAATATACAAAATA-TA
2682630 GAATA
1 GAATA
2682635 ATAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
GAATATAAAATATACAAAATATA
Found at i:2682801 original size:20 final size:20
Alignment explanation
Indices: 2682749--2682805 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
2682739 ATACTACATC
*
2682749 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
2682770 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
2682789 AATATGTACATAATATA
1 AATATGTACATAATATA
2682806 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:2682847 original size:22 final size:24
Alignment explanation
Indices: 2682784--2682848 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
2682774 CGTGATAATA
*
2682784 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
2682809 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
2682832 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
2682849 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:2682873 original size:30 final size:29
Alignment explanation
Indices: 2682837--2682904 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
2682827 TATAGTTAAG
*
2682837 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
2682867 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
*
2682896 ATACATAAA
1 ATATATAAA
2682905 ATAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:2682895 original size:25 final size:25
Alignment explanation
Indices: 2682867--2683000 Score: 84
Period size: 25 Copynumber: 5.6 Consensus size: 25
2682857 GTAAAAATAT
2682867 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
2682892 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
2682917 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
2682943 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
2682965 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
2682988 AAATA-AAATAATA
1 ATATATAAATAATA
2683001 ACAAAAAAAG
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.16
23 19 0.23
24 4 0.05
25 32 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:2683286 original size:18 final size:18
Alignment explanation
Indices: 2683263--2683306 Score: 74
Period size: 16 Copynumber: 2.6 Consensus size: 18
2683253 TTTTGATTAA
2683263 TCTCCAAAAAAACTAGCT
1 TCTCCAAAAAAACTAGCT
2683281 TCTCC--AAAAACTAGCT
1 TCTCCAAAAAAACTAGCT
2683297 TCTCCAAAAA
1 TCTCCAAAAA
2683307 CTAGCCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 16 0.67
18 8 0.33
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.23
Consensus pattern (18 bp):
TCTCCAAAAAAACTAGCT
Found at i:2683315 original size:17 final size:16
Alignment explanation
Indices: 2683270--2683311 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
2683260 TAATCTCCAA
2683270 AAAAACTAGCTTCTCC
1 AAAAACTAGCTTCTCC
2683286 AAAAACTAGCTTCTCC
1 AAAAACTAGCTTCTCC
2683302 AAAAACTAGC
1 AAAAACTAGC
2683312 CTTCACCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (16 bp):
AAAAACTAGCTTCTCC
Found at i:2683539 original size:30 final size:30
Alignment explanation
Indices: 2683501--2683681 Score: 245
Period size: 30 Copynumber: 5.8 Consensus size: 30
2683491 TAGGTACAAG
* *
2683501 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
2683531 TTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
2683561 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGA------GT
*
2683597 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
2683627 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
2683657 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
2683682 TGAGAAAAGT
Statistics
Matches: 133, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
30 105 0.79
36 28 0.21
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:2683599 original size:36 final size:36
Alignment explanation
Indices: 2683559--2683661 Score: 146
Period size: 36 Copynumber: 3.0 Consensus size: 36
2683549 GGCTAGTGGA
2683559 GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
1 GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
* *
2683595 GTTGGTGGTGGAAAAAGAGTGGCTAGTGGA------
1 GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
2683625 GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
1 GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
2683661 G
1 G
2683662 GTGGAAAAGG
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
30 28 0.49
36 29 0.51
ACGTcount: A:0.19, C:0.03, G:0.50, T:0.28
Consensus pattern (36 bp):
GTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGT
Found at i:2683611 original size:66 final size:65
Alignment explanation
Indices: 2683501--2683661 Score: 269
Period size: 66 Copynumber: 2.5 Consensus size: 65
2683491 TAGGTACAAG
*
2683501 TGGTGGTGGAGAAGGTGTGGCTAGTGGA----GT-TTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGTTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
2683561 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGTT-GTGGTGGAAAAAGAGTGGCTAGTGGAG
2683626 T
65 T
2683627 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
2683662 GTGGAAAAGG
Statistics
Matches: 94, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
60 27 0.29
64 2 0.02
65 2 0.02
66 63 0.67
ACGTcount: A:0.20, C:0.03, G:0.49, T:0.27
Consensus pattern (65 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGTTGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:2683665 original size:96 final size:96
Alignment explanation
Indices: 2683501--2683681 Score: 299
Period size: 96 Copynumber: 1.9 Consensus size: 96
2683491 TAGGTACAAG
* * * *
2683501 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTTGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
*
2683566 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGT
66 GTGGAAAAGGAGTGGCTAGTGGAGTTGGTGT
* *
2683597 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTG
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
2683662 GTGGAAAAGGAGTGGCTAGT
66 GTGGAAAAGGAGTGGCTAGT
2683682 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.27
Consensus pattern (96 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
GTGGAAAAGGAGTGGCTAGTGGAGTTGGTGT
Found at i:2684626 original size:14 final size:14
Alignment explanation
Indices: 2684603--2684637 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2684593 GTTGATTTTT
2684603 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
2684617 TTGAAGAACAGAAA
1 TTGAAAAACAGAAA
2684631 TTGAAAA
1 TTGAAAA
2684638 GACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:2684668 original size:164 final size:156
Alignment explanation
Indices: 2684445--2685250 Score: 830
Period size: 164 Copynumber: 5.1 Consensus size: 156
2684435 ATATAAATTG
* *
2684445 AAAACAGAAATTGAAAAGTAGAATTAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCT
1 AAAACAGAAATTAAAAAG-A-AATTAAAA-ACCTCAGC-TGTGAGCCGAGGCTCAACTCACCTCT
2684510 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
62 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
*
2684575 TCACCTTTCGCAATATGAGTTGATTTTTTTGA
127 TCACCTCTCGCAATATGAGTTGA--TTTTTGA
2684607 AAAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCT
1 AAAACAGAAATT-AA-AA-AGAAATT-AAAA-ACCTCAGC-TGTGAGCCGAGGCTCAACTCACCT
2684672 CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCA
60 CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCA
*
2684737 ACTCACCTCTCGCAATATGAGTCGATTTTTGA
125 ACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
2684769 AAAACAGAAATT--TAA-AAA-T----ACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGC
1 AAAACAGAAATTAAAAAGAAATTAAAAACCTCAGCTGTGAGCC-GAGGCTCAACTCACCTCTCGC
* **
2684824 AATATGAGTTGATTTTTTTTACGAACAGAAATTGAAAACAGAAATTGAAAAGACCTCAGCATGTG
65 AATATGAGTT-A--ATTTTT--G-AC---------AAACAGAAATTGAAATTACCTCAGC--GTG
**
2684889 AGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
113 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * * *
2684933 CAAACAGAAATT-----TAAATT----ACCTCAGC-GTG-TCTTGAGGCTCAACTCACCTCTCGC
1 AAAACAGAAATTAAAAAGAAATTAAAAACCTCAGCTGTGAGC-CGAGGCTCAACTCACCTCTCGC
* * *
2684987 AATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCA
65 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
2685052 CCTCTCGCAATATGAGTTGA-TTTT-A
130 CCTCTCGCAATATGAGTTGATTTTTGA
* *
2685077 AAAACAGAAATTAAAAACCAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCT
1 AAAACAGAAATT-AAAA--AGAAATT-AAAA-ACCTCAG-CTGTGAGCCGAGGCTCAACTCACCT
* * ** * * ** *
2685142 CTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCA
60 CTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCA
*
2685207 ACTCACCTCTCGTAATATGAGTTGATTTTTGA
125 ACTCACCTCTCGCAATATGAGTTGATTTTTGA
* *
2685239 CAAACAAAAATT
1 AAAACAGAAATT
2685251 GAAATTACCT
Statistics
Matches: 560, Mismatches: 40, Indels: 88
0.81 0.06 0.13
Matches are distributed among these distances:
144 12 0.02
145 4 0.01
146 39 0.07
147 34 0.06
148 24 0.04
149 8 0.01
150 5 0.01
152 6 0.01
153 2 0.00
155 1 0.00
156 3 0.01
157 3 0.01
158 9 0.02
160 102 0.18
161 5 0.01
162 68 0.12
163 50 0.09
164 183 0.33
165 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (156 bp):
AAAACAGAAATTAAAAAGAAATTAAAAACCTCAGCTGTGAGCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTGA
Found at i:2684701 original size:89 final size:89
Alignment explanation
Indices: 2684534--2684710 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 89
2684524 ATTTTTGACA
** * *
2684534 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
2684599 TTTTTTGAAAAACAGAAATTGAAG
66 ATTTTTGAAAAACAGAAATTGAAG
*
2684623 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AACAGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
2684687 A-ATTTTTGACAAACAGAAATTGAA
64 ATATTTTTGAAAAACAGAAATTGAA
2684711 ATTACCTCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 43 0.54
90 1 0.01
91 35 0.44
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (89 bp):
AACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
ATTTTTGAAAAACAGAAATTGAAG
Found at i:2684748 original size:73 final size:73
Alignment explanation
Indices: 2684623--2684861 Score: 325
Period size: 73 Copynumber: 3.2 Consensus size: 73
2684613 GAAATTGAAG
* **
2684623 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
2684688 ATTTTTGACA
64 ATTTTTGACA
* **
2684698 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
2684763 TTTTGAAA
66 TTTTGACA
* *
2684771 AACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
* * *
2684836 TTTTTTTTACG
64 -ATTTTTGACA
2684847 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
2684862 CAGAAATTGA
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
73 52 0.36
74 50 0.35
75 28 0.19
76 14 0.10
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACA
Found at i:2684767 original size:237 final size:237
Alignment explanation
Indices: 2684490--2685457 Score: 1344
Period size: 237 Copynumber: 4.1 Consensus size: 237
2684480 AGCATGTGAG
* *
2684490 CCGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
* *
2684555 AGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
*
2684620 AAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
131 AAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
2684685 TTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
196 TTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
* * * *
2684727 CCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAGAAATTTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCT
* **
2684792 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATT
65 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATT
2684857 G-AAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGA
130 GAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
2684921 GTTGATTTTTGACAAACAGAAATTTAAATTACCTCAGCGTGTC
195 GTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
**
2684964 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
*
2685029 AGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTT-AAAAACAGAAATT-
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
* ** * *
2685089 AAAAACCAGAAATTGAAAATACCTCAGTGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGA
131 AAAAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGA
* ** * * **
2685154 GCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTC
195 GTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
* * *
2685197 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
* * *
2685262 AGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTG--AAACATAAATT
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAAATT
* * *
2685323 AAAAAAC-GAAAATTGAAAA-TCCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATAT
130 GAAAAACAG-AAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATAT
* * * *
2685383 GAGTTGAA--ATT-AAAACACAAAAATTGAAAATACCTCAGCGTG-C
193 GAGTT-AATTTTTGACAA-ACAGAAATTGAAATTACCTCAGCGTGTC
*
2685426 CTCGAGGCTCAACTCACCTCTTGCAATATGAG
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAG
2685458 CTAATTTTGA
Statistics
Matches: 658, Mismatches: 59, Indels: 35
0.88 0.08 0.05
Matches are distributed among these distances:
229 4 0.01
230 53 0.08
231 66 0.10
232 17 0.03
233 165 0.25
234 21 0.03
235 9 0.01
236 53 0.08
237 199 0.30
238 71 0.11
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (237 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG
AAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
Found at i:2684865 original size:13 final size:13
Alignment explanation
Indices: 2684847--2684874 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2684837 TTTTTTTACG
2684847 AACAGAAATTGAA
1 AACAGAAATTGAA
2684860 AACAGAAATTGAA
1 AACAGAAATTGAA
2684873 AA
1 AA
2684875 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (13 bp):
AACAGAAATTGAA
Found at i:2685092 original size:13 final size:14
Alignment explanation
Indices: 2685074--2685107 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2685064 TGAGTTGATT
2685074 TTAAAAA-CAGAAA
1 TTAAAAACCAGAAA
2685087 TTAAAAACCAGAAA
1 TTAAAAACCAGAAA
*
2685101 TTGAAAA
1 TTAAAAA
2685108 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (14 bp):
TTAAAAACCAGAAA
Found at i:2685309 original size:73 final size:72
Alignment explanation
Indices: 2684893--2685307 Score: 438
Period size: 73 Copynumber: 5.5 Consensus size: 72
2684883 CATGTGAGCC
* *
2684893 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTTAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
*
2684958 CGTGTCTT
66 CG-GTCCT
*
2684966 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
*
2685031 CGTGTTCT
66 CG-GTCCT
* * *
2685039 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAATTAAAAACCAGAAATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-----------TGACAAA-CAAAAATTG
* *
2685104 AAAATACCTCAGTGTGTGAGCC-
54 AAATTACCTCAGCG-GT---CCT
* * * * ** * * **
2685126 AAGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
2685191 CGTGTCCT
66 CG-GTCCT
*
2685199 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
*
2685264 C-GTCTT
66 CGGTCCT
*
2685270 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
2685308 TTTGAAACAT
Statistics
Matches: 292, Mismatches: 34, Indels: 34
0.81 0.09 0.09
Matches are distributed among these distances:
71 40 0.14
72 2 0.01
73 162 0.55
75 21 0.07
76 4 0.01
84 5 0.02
85 24 0.08
87 33 0.11
88 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (72 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAG
CGGTCCT
Found at i:2685439 original size:72 final size:71
Alignment explanation
Indices: 2685318--2685457 Score: 228
Period size: 72 Copynumber: 2.0 Consensus size: 71
2685308 TTTGAAACAT
*
2685318 AAATTAAAAAACGAAAATTGAAAATCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAAACAAAAATTGAAAATCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
2685383 GAGTTG
66 GAGTTG
* *
2685389 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAACAAAAATTGAAAAT-CCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAAT
2685453 ATGAG
64 ATGAG
2685458 CTAATTTTGA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
71 26 0.41
72 38 0.59
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (71 bp):
AAATTAAAAAACAAAAATTGAAAATCCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTG
Found at i:2685484 original size:158 final size:156
Alignment explanation
Indices: 2685185--2685471 Score: 402
Period size: 158 Copynumber: 1.8 Consensus size: 156
2685175 ATTAAAACCA
* ** *
2685185 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAAT
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAAT
* * * * *
2685250 TGAAATTACCTCAGCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAA
66 TGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TATTTTGAAA
*
2685315 CATAAATTAAAAAACGAAAATTGAAAAT
129 AATAAATTAAAAAACGAAAATTGAAAAT
2685343 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAA
1 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAA
*
2685406 TTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGCT-A-ATTTTGAA
65 TTGAAAATACCTCAGCGT--CTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATATTTTGAA
2685469 AAA
128 AAA
2685472 GTAGAAATTA
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
155 9 0.08
156 3 0.03
157 26 0.23
158 47 0.41
159 30 0.26
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (156 bp):
CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAAT
TGAAAATACCTCAGCGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATATTTTGAAAAA
TAAATTAAAAAACGAAAATTGAAAAT
Found at i:2685794 original size:77 final size:76
Alignment explanation
Indices: 2685609--2686259 Score: 388
Period size: 72 Copynumber: 8.5 Consensus size: 76
2685599 CAGTGTGTAA
* * * **
2685609 TCTGAAGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTTTAAAAAAACAGAAATTGAAAA
1 TCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTT-TGAAAACAGAAATTGAAAA
*
2685674 TACCTCAGCATGTG
65 TACCTCA--ACGTG
* ** *
2685688 AACCAAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTTAAAA
1 -TCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAA
2685753 TACCTCAACGTG
65 TACCTCAACGTG
* ** * *
2685765 TCTTGAGGCTCAACTTATTTCTCGCAATATAAGTTGA-----ATTTTGAAAACAGAAATTGAAAT
1 TC-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAA
*
2685825 TACCTCAGCGTG
65 TACCTCAACGTG
* * *
2685837 TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTTTTT-ACGAACAGAAATTGAAG
1 T-CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGA-AAACAGAAATT---G
* ** * *
2685900 AACAAAAATTGAAAAGACCTCAG
61 AA-AATACCT---CA-ACGT--G
* * * * * ** ** *
2685923 -CATGTGAGC-CGAGGCTCAACTCACTC--TCGCAA-TATGAGTTAATTTTTTGCAAACAGAAAT
1 TC-TGAG-GCTC-A-ACTCACCTCTCGCAAT-ATAAGT-TGA-TTTTTTTTTTGAAAACAGAAAT
*
2685983 TG-AAATACCTCAGCGTG
59 TGAAAATACCTCAACGTG
2686000 TGAC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTG-AAACAG-AATTG-A
1 T--CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTTTTGAAAACAGAAATTGAA
2686061 AAT--CTC-ACGTG
63 AATACCTCAACGTG
** *
2686072 TCTTGAGGCTCAACTCAATTTCTCGC-ATATAAGTTGA-----ATTTTGAAAACAGAAATTGAAA
1 TC-TGAGGCTCAACTC-ACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAA
* *
2686131 TTACCTCAGCGTG
64 ATACCTCAACGTG
** *
2686144 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTTTTT-AACAACAGAAATTGAAA
1 T-CTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAA-AACAGAAATTGAAA
* *
2686206 TTACCTCAGCGTG
64 ATACCTCAACGTG
* *
2686219 TCATGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 TC-TGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
2686260 GAAAAACAAA
Statistics
Matches: 446, Mismatches: 74, Indels: 105
0.71 0.12 0.17
Matches are distributed among these distances:
66 5 0.01
67 6 0.01
68 5 0.01
69 3 0.01
70 1 0.00
71 12 0.03
72 117 0.26
73 12 0.03
74 3 0.01
75 73 0.16
76 30 0.07
77 53 0.12
78 5 0.01
79 28 0.06
80 44 0.10
83 5 0.01
84 4 0.01
85 7 0.02
86 8 0.02
87 8 0.02
88 17 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (76 bp):
TCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAAT
ACCTCAACGTG
Found at i:2686268 original size:75 final size:73
Alignment explanation
Indices: 2685933--2686260 Score: 361
Period size: 75 Copynumber: 4.5 Consensus size: 73
2685923 CATGTGAGCC
* **
2685933 GAGGCTCAACTCA-CTCTCGCAATATGAGTTAATTTT-TTGCAAACAGAAATTGAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGTTTAAAACAGAAATTGAAATACCTCAG
* *
2685996 CGTGTGAC
66 CGTGTCAT
* * *
2686004 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAACAG-AATTGAAAT--CT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGTTTAAAACAGAAATTGAAATACCT
*
2686066 CA-CGTGTCTT
63 CAGCGTGTCAT
** *
2686076 GAGGCTCAACTCAATTTCTCGC-ATATAAGTTGAATTTTG---AAAACAGAAATTGAAATTACCT
1 GAGGCTCAACTC-ACCTCTCGCAATATGAGTTG-ATTTTGTTTAAAACAGAAATTGAAA-TACCT
*
2686137 CAGCGTGTCCT
63 CAGCGTGTCAT
** *
2686148 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGTTTAA-AACAGAAATTGAAA-TACCTC
2686213 AGCGTGTCAT
64 AGCGTGTCAT
*
2686223 GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
2686261 AAAAACAAAA
Statistics
Matches: 221, Mismatches: 19, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
67 6 0.03
68 8 0.04
69 1 0.00
70 4 0.02
71 31 0.14
72 72 0.33
73 12 0.05
74 2 0.01
75 77 0.35
76 8 0.04
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGTTTAAAACAGAAATTGAAATACCTCAG
CGTGTCAT
Found at i:2694723 original size:7 final size:7
Alignment explanation
Indices: 2694711--2694743 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
2694701 ATAATAAAAT
2694711 ATATAAA
1 ATATAAA
2694718 ATATAAA
1 ATATAAA
2694725 ATATAAA
1 ATATAAA
2694732 ATATCAAA
1 ATAT-AAA
2694740 ATAT
1 ATAT
2694744 TAGAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:2694750 original size:23 final size:23
Alignment explanation
Indices: 2694699--2694750 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
2694689 ATAATGATGT
*
2694699 GAATAATAAAATATATAAAATATA
1 GAAT-ATAAAATATACAAAATATA
*
2694723 AAATATAAAATAT-CAAAATATTA
1 GAATATAAAATATACAAAATA-TA
2694746 GAATA
1 GAATA
2694751 ATAATAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
GAATATAAAATATACAAAATATA
Found at i:2694965 original size:22 final size:24
Alignment explanation
Indices: 2694902--2694966 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
2694892 CGTGATAATA
*
2694902 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
2694927 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
2694950 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
2694967 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Done.