Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 95 of 163
Found at i:26996974 original size:51 final size:51
Alignment explanation
Indices: 26996898--26996999 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
26996888 GAAACGGGTT
* *
26996898 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTATGGATTGAAGGTC
1 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
*
26996949 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTGAGGGTC
1 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
26997000 TGATCACTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
Found at i:26997016 original size:51 final size:51
Alignment explanation
Indices: 26996898--26997031 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 51
26996888 GAAACGGGTT
* * * *
26996898 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCTTTATGGATTGAAGGTC
1 CGATCACTAAGAGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
* * *
26996949 CGATGACTAAGTGTCATTGTGAGTAAATGAATCCATGATGGATTGAGGGTC
1 CGATCACTAAGAGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
* ** ** *
26997000 TGATCACTCCGAGTCATCATGAGTATATGAAT
1 CGATCACTAAGAGTCATTGTGAGTAAATGAAT
26997032 TCCTATACGG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
CGATCACTAAGAGTCATTGTGAGTAAATGAATCCATGATGGATTGAAGGTC
Found at i:26998373 original size:50 final size:50
Alignment explanation
Indices: 26998257--26998418 Score: 173
Period size: 50 Copynumber: 3.2 Consensus size: 50
26998247 AGTTTCAGGA
* *
26998257 GTATAAGATTCGCCCTTGC-GACTTCAATCTACCCCTCTACAGCTTTAGGC
1 GTATAAGATTCGCCATTGCAG-CTTCAATCTGCCCCTCTACAGCTTTAGGC
* * * * *
26998307 ATATGAGGTTCGCCATTGCAGCTTCAATCTGCCCCTCTACAACTTTAGGT
1 GTATAAGATTCGCCATTGCAGCTTCAATCTGCCCCTCTACAGCTTTAGGC
** * * * ** *
26998357 GTATAAGATTTTCCATTGCGGCTTTAATCCGTTCCTCTACAGCTTTAGGG
1 GTATAAGATTCGCCATTGCAGCTTCAATCTGCCCCTCTACAGCTTTAGGC
26998407 GTATAAGATTCG
1 GTATAAGATTCG
26998419 TTATTTTGTC
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
50 89 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (50 bp):
GTATAAGATTCGCCATTGCAGCTTCAATCTGCCCCTCTACAGCTTTAGGC
Found at i:27010170 original size:30 final size:29
Alignment explanation
Indices: 27010136--27010259 Score: 133
Period size: 30 Copynumber: 4.1 Consensus size: 29
27010126 CATTAAAACC
27010136 GGGTCAAATTTGAATTTTTGAAAAGTTCGA
1 GGGTCAAATTTGAATTTTTGAAAAGTT-GA
*
27010166 GGGTCAAATTTGAATTTTT-AGAAAGTTTGG
1 GGGTCAAATTTGAATTTTTGA-AAAG-TTGA
* * *
27010196 GGGTTAAATTTGAATTTTTGGAAAGTTTA
1 GGGTCAAATTTGAATTTTTGAAAAGTTGA
* * *
27010225 GGGGTTAAATTTGAATTTTTGGAAAATTTAA
1 -GGGTCAAATTTGAATTTTT-GAAAAGTTGA
27010256 GGGT
1 GGGT
27010260 AAAAACATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.04
30 69 0.85
31 9 0.11
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (29 bp):
GGGTCAAATTTGAATTTTTGAAAAGTTGA
Found at i:27010235 original size:60 final size:60
Alignment explanation
Indices: 27010136--27010249 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
27010126 CATTAAAACC
*
27010136 GGGTCAAATTTGAATTTTTGAAAAGTTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTGG
1 GGGTCAAATTTGAATTTTTGAAAAGTTAGAGGGTCAAATTTGAATTTTTAGAAAGTTTGG
* * * *
27010196 GGGTTAAATTTGAATTTTTGGAAAGTTTAG-GGGTTAAATTTGAATTTTTGGAAA
1 GGGTCAAATTTGAATTTTTGAAAAG-TTAGAGGGTCAAATTTGAATTTTTAGAAA
27010250 ATTTAAGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 45 0.94
61 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.40
Consensus pattern (60 bp):
GGGTCAAATTTGAATTTTTGAAAAGTTAGAGGGTCAAATTTGAATTTTTAGAAAGTTTGG
Found at i:27010729 original size:19 final size:20
Alignment explanation
Indices: 27010697--27010735 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
27010687 TGATGGTCGA
*
27010697 AAGTCCCAAAAAAAACCCTT
1 AAGTCCCAAAAAAAAACCTT
27010717 AAGTCCC-AAAAAAAACCTT
1 AAGTCCCAAAAAAAAACCTT
27010736 TCTACGCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.15
Consensus pattern (20 bp):
AAGTCCCAAAAAAAAACCTT
Found at i:27011497 original size:20 final size:20
Alignment explanation
Indices: 27011472--27011510 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27011462 TATAAATAGG
27011472 TAAATAAATAAAAATAAAAA
1 TAAATAAATAAAAATAAAAA
*
27011492 TAAATAAATAAAATTAAAA
1 TAAATAAATAAAAATAAAA
27011511 CGAAATTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAATAAATAAAAATAAAAA
Found at i:27011516 original size:20 final size:20
Alignment explanation
Indices: 27011473--27011516 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
27011463 ATAAATAGGT
*
27011473 AAATAAATAAAAATAAAAAT
1 AAATAAATAAAAATAAAAAG
* *
27011493 AAATAAATAAAATTAAAACG
1 AAATAAATAAAAATAAAAAG
27011513 AAAT
1 AAAT
27011517 TGGGTCTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAAATAAAAATAAAAAG
Found at i:27011603 original size:16 final size:16
Alignment explanation
Indices: 27011582--27011626 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
27011572 ACTTACATTT
* *
27011582 ATAAAATGATAAATAA
1 ATAAAATAAAAAATAA
27011598 ATAAAATAAAAAATAA
1 ATAAAATAAAAAATAA
*
27011614 A-AAAAAAAAAAAT
1 ATAAAATAAAAAAT
27011627 TGGGTTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:27011616 original size:13 final size:12
Alignment explanation
Indices: 27011590--27011626 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27011580 TTATAAAATG
27011590 ATAAATAAATAAA
1 ATAAA-AAATAAA
27011603 ATAAAAAATAAA
1 ATAAAAAATAAA
27011615 A-AAAAAA-AAA
1 ATAAAAAATAAA
27011625 AT
1 AT
27011627 TGGGTTTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.17
11 6 0.26
12 8 0.35
13 5 0.22
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:27012418 original size:22 final size:24
Alignment explanation
Indices: 27012379--27012426 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
27012369 GAGAAGGAGT
*
27012379 AAAAGATTTTGGGAAAAAA-GTAA
1 AAAAGATTTAGGGAAAAAATGTAA
*
27012402 AAAAG-TTTAGGGTAAAAATGTAA
1 AAAAGATTTAGGGAAAAAATGTAA
27012425 AA
1 AA
27012427 TATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (24 bp):
AAAAGATTTAGGGAAAAAATGTAA
Found at i:27012418 original size:23 final size:23
Alignment explanation
Indices: 27012379--27012426 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27012369 GAGAAGGAGT
*
27012379 AAAAGATTTTGGGAAAAAAGTAA
1 AAAAGATTTAGGGAAAAAAGTAA
*
27012402 AAAAG-TTTAGGGTAAAAATGTAA
1 AAAAGATTTAGGG-AAAAAAGTAA
27012425 AA
1 AA
27012427 TATTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (23 bp):
AAAAGATTTAGGGAAAAAAGTAA
Found at i:27013177 original size:27 final size:27
Alignment explanation
Indices: 27013147--27013211 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
27013137 TTTTAATGTA
* *
27013147 ATTTAATTATTTTTGATATTAAATTAT-
1 ATTTAATTATTATT-ATATTAAAATATG
* *
27013174 ATTTAATAATAATTATATTAAAATATG
1 ATTTAATTATTATTATATTAAAATATG
*
27013201 ATTAAATTATT
1 ATTTAATTATT
27013212 CATTTACCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTAATTATTATTATATTAAAATATG
Found at i:27018947 original size:8 final size:8
Alignment explanation
Indices: 27018934--27018976 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
27018924 ATAGTAAAAA
27018934 TTTATAAT
1 TTTATAAT
27018942 TTTATAAT
1 TTTATAAT
*
27018950 TTTAATATT
1 TTT-ATAAT
27018959 TTTAT-AT
1 TTTATAAT
27018966 TTTATAAT
1 TTTATAAT
27018974 TTT
1 TTT
27018977 TAAAAGATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATAAT
Found at i:27018953 original size:16 final size:15
Alignment explanation
Indices: 27018934--27018976 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
27018924 ATAGTAAAAA
27018934 TTTATAATTTTATAAT
1 TTTATAATTTTAT-AT
*
27018950 TTTAATATTTTTATAT
1 TTT-ATAATTTTATAT
27018966 TTTATAATTTT
1 TTTATAATTTT
27018977 TAAAAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATAATTTTATAT
Found at i:27019547 original size:3 final size:3
Alignment explanation
Indices: 27019539--27019570 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
27019529 ATTTTAGACT
27019539 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27019571 TTTAGTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:27026128 original size:20 final size:19
Alignment explanation
Indices: 27026105--27026158 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
27026095 TTTTTCAAAA
*
27026105 TTTAAAAGTCAAAAAATTAT
1 TTTAAAAAT-AAAAAATTAT
*
27026125 TTTAAAAATTAAAAATTAT
1 TTTAAAAATAAAAAATTAT
**
27026144 TAGAAAAATAAAAAA
1 TTTAAAAATAAAAAA
27026159 AATATGCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
TTTAAAAATAAAAAATTAT
Found at i:27026150 original size:18 final size:18
Alignment explanation
Indices: 27026116--27026157 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27026106 TTAAAAGTCA
*
27026116 AAAAATTATTTTAAAAATT
1 AAAAATTA-TTTAAAAAAT
27026135 AAAAATTA-TTAGAAAAAT
1 AAAAATTATTTA-AAAAAT
27026153 AAAAA
1 AAAAA
27026158 AAATATGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
19 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATTATTTAAAAAAT
Found at i:27026803 original size:7 final size:7
Alignment explanation
Indices: 27026793--27026825 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
27026783 TAAATTTGAG
27026793 ATTTAAT
1 ATTTAAT
27026800 ATTTAAT
1 ATTTAAT
27026807 ATTTAAT
1 ATTTAAT
27026814 ATTTAAT
1 ATTTAAT
27026821 -TTTAA
1 ATTTAA
27026826 CATAATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:27027464 original size:29 final size:29
Alignment explanation
Indices: 27027394--27027474 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
27027384 AATATCAAAA
* *
27027394 TTATACATGAACTTTAATGTAATGTATAATT
1 TTATACATGAACTTTAAT-T-TTGTACAATT
* *
27027425 TTATACATGAACTTTAATTTTGTGCGATT
1 TTATACATGAACTTTAATTTTGTACAATT
*
27027454 TTATACATGAAATTTTAATTT
1 TTATACATG-AACTTTAATTT
27027475 GATTAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (29 bp):
TTATACATGAACTTTAATTTTGTACAATT
Found at i:27027856 original size:15 final size:15
Alignment explanation
Indices: 27027833--27027871 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
27027823 ATTTTAATGG
*
27027833 AATGCGATTCCTTAA-
1 AATGTGATTCC-TAAT
27027848 AATGTGATTCCTAAT
1 AATGTGATTCCTAAT
27027863 AATGTGATT
1 AATGTGATT
27027872 ATTGGGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (15 bp):
AATGTGATTCCTAAT
Found at i:27031568 original size:23 final size:23
Alignment explanation
Indices: 27031513--27031569 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
27031503 AAATAAGTAA
*
27031513 TTAACCAAGACCATCCATTATATC
1 TTAA-CAAAACCATCCATTATATC
* * * *
27031537 TAAATAAAACCATCCATTGTATG
1 TTAACAAAACCATCCATTATATC
27031560 TTAACAAAAC
1 TTAACAAAAC
27031570 TATCTATATG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (23 bp):
TTAACAAAACCATCCATTATATC
Found at i:27034907 original size:37 final size:36
Alignment explanation
Indices: 27034845--27034929 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 36
27034835 AATAGCAAAC
**
27034845 ATAACAT-ACATAGCAGTAAACATAACATACATACAA
1 ATAACATAACATAATAGTAAACATAACATACATA-AA
*
27034881 ATATACA-AACATAATAGTAAATATAACATACATAAA
1 ATA-ACATAACATAATAGTAAACATAACATACATAAA
27034917 ATAACATAACATA
1 ATAACATAACATA
27034930 CAGAATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
35 3 0.07
36 14 0.33
37 26 0.60
ACGTcount: A:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (36 bp):
ATAACATAACATAATAGTAAACATAACATACATAAA
Found at i:27034915 original size:21 final size:21
Alignment explanation
Indices: 27034831--27034958 Score: 92
Period size: 21 Copynumber: 6.3 Consensus size: 21
27034821 AGTCATACAA
*
27034831 ACATAATAGCAAACATAACAT
1 ACATAATAGTAAACATAACAT
**
27034852 ACATAGCAGTAAACATAACAT
1 ACATAATAGTAAACATAACAT
* * *
27034873 AC---ATA-CAAATAT-ACAA
1 ACATAATAGTAAACATAACAT
*
27034889 ACATAATAGTAAATATAACAT
1 ACATAATAGTAAACATAACAT
*
27034910 ACATAA-AAT-AACATAACAT
1 ACATAATAGTAAACATAACAT
*
27034929 ACAGAATTA-TATATACATAACAT
1 ACATAA-TAGTA-A-ACATAACAT
27034952 ACATAAT
1 ACATAAT
27034959 TATACATACA
Statistics
Matches: 83, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.06
17 5 0.06
18 1 0.01
19 17 0.20
20 9 0.11
21 30 0.36
22 2 0.02
23 14 0.17
ACGTcount: A:0.57, C:0.16, G:0.04, T:0.23
Consensus pattern (21 bp):
ACATAATAGTAAACATAACAT
Found at i:27034922 original size:14 final size:16
Alignment explanation
Indices: 27034888--27034929 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27034878 CAAATATACA
*
27034888 AACATAATAGTAAATAT
1 AACATAACA-TAAATAT
27034905 AACAT-ACATAAA-AT
1 AACATAACATAAATAT
27034919 AACATAACATA
1 AACATAACATA
27034930 CAGAATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 9 0.39
16 2 0.09
17 5 0.22
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (16 bp):
AACATAACATAAATAT
Found at i:27034945 original size:58 final size:58
Alignment explanation
Indices: 27034825--27034933 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
27034815 ATAAACAGTC
* * *
27034825 ATACAAACATAATAGCAAACATAACATACATAGCAGTAAACATAACATACATACAAAT
1 ATACAAACATAATAGCAAACATAACATACATAGAAATAAACATAACATACAGACAAAT
* *
27034883 ATACAAACATAATAGTAAATATAACATACATA-AAAT-AACATAACATACAGA
1 ATACAAACATAATAGCAAACATAACATACATAGAAATAAACATAACATACAGA
27034934 ATTATATATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 14 0.30
57 2 0.04
58 30 0.65
ACGTcount: A:0.59, C:0.17, G:0.05, T:0.20
Consensus pattern (58 bp):
ATACAAACATAATAGCAAACATAACATACATAGAAATAAACATAACATACAGACAAAT
Found at i:27034950 original size:23 final size:23
Alignment explanation
Indices: 27034920--27034970 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
27034910 ACATAAAATA
*
27034920 ACATAACATACAGAATTATATAT
1 ACATAACATACAGAATTATACAT
*
27034943 ACATAACATACATAATTATACAT
1 ACATAACATACAGAATTATACAT
27034966 ACATA
1 ACATA
27034971 CACAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (23 bp):
ACATAACATACAGAATTATACAT
Found at i:27035116 original size:30 final size:30
Alignment explanation
Indices: 27035082--27035145 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
27035072 AACAAAAGCA
27035082 AAAAAATAAAAGTTAGATATAATAC-AAATT
1 AAAAAATAAAAGTTAGATATAATACGAAA-T
*
27035112 AAAAAATAAAAGTTATATATAATACGAAAT
1 AAAAAATAAAAGTTAGATATAATACGAAAT
27035142 AAAA
1 AAAA
27035146 CAAAAGGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (30 bp):
AAAAAATAAAAGTTAGATATAATACGAAAT
Found at i:27035326 original size:23 final size:23
Alignment explanation
Indices: 27035296--27035339 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
27035286 AATCTTGAAT
27035296 ACTACTCGATCATGAAACAAACG
1 ACTACTCGATCATGAAACAAACG
27035319 ACTACTCGATCATGAAACAAA
1 ACTACTCGATCATGAAACAAA
27035340 TAGTAGGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.18
Consensus pattern (23 bp):
ACTACTCGATCATGAAACAAACG
Found at i:27044943 original size:94 final size:93
Alignment explanation
Indices: 27044844--27045023 Score: 272
Period size: 94 Copynumber: 1.9 Consensus size: 93
27044834 AAATAACTGC
* *
27044844 CTGTAATATTATTTGAGATTTAAATTATATTTGTTTTTAAATTTTTATTATAAATAAAAATATA-
1 CTGTAATATTATTTGAGATTTAAATCATATTTATTTTTAAATTTTTATTAT-AAT-AAAATATAG
**
27044908 AAATATAATTTTATTTATTAAAAGATATAT
64 AAATATAATTCCATTTATTAAAAGATATAT
* *
27044938 CTGTAATATTATTTGAGATTTAAATCATATTTATTTTTTAATTTTTATTATAATAAACTATAGAA
1 CTGTAATATTATTTGAGATTTAAATCATATTTATTTTTAAATTTTTATTATAATAAAATATAGAA
*
27045003 ATATAGTTCCATTTATTAAAA
66 ATATAATTCCATTTATTAAAA
27045024 CTTATTTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 7 0.09
93 23 0.29
94 48 0.62
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (93 bp):
CTGTAATATTATTTGAGATTTAAATCATATTTATTTTTAAATTTTTATTATAATAAAATATAGAA
ATATAATTCCATTTATTAAAAGATATAT
Found at i:27067059 original size:90 final size:89
Alignment explanation
Indices: 27066938--27067169 Score: 265
Period size: 90 Copynumber: 2.6 Consensus size: 89
27066928 TCTCAACTTT
* * * * *
27066938 TTTTTTTTGCA-TTCATTTGGGTATTTAAACTTTCAAAATATATCGAAAAGACCCTCAAACTTTT
1 TTTTTTTTGCACTT-AATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAAC-TTT
* *
27067002 TTC-TAAAAAGCAATTAAGCCACTGA
64 TTCAAAAAAAGCAATTAAGCCACTAA
* * * *
27067027 TTTTATTTTGCACTTAATTGGGTACTTGAACTTTTAAAATGCATAAAAAAGAACCTCAAACTTTT
1 TTTT-TTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAACTTTT
*
27067092 TCAAAAAAAGCAATTAAGCCCCTAA
65 TCAAAAAAAGCAATTAAGCCACTAA
* * * *
27067117 TTTTTTTTACAC-TCATTGGGTACTTGAAATGTC-AAATACATCAAAAAGACCCT
1 TTTTTTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCT
27067170 TTGACCGTTA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
87 17 0.14
88 17 0.14
89 17 0.14
90 67 0.56
91 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (89 bp):
TTTTTTTTGCACTTAATTGGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCAAACTTTTT
CAAAAAAAGCAATTAAGCCACTAA
Found at i:27067612 original size:179 final size:181
Alignment explanation
Indices: 27067409--27067733 Score: 489
Period size: 179 Copynumber: 1.8 Consensus size: 181
27067399 AATTAGGGAC
* * *
27067409 AGTTCAAGTATCCAATTGAGTGCAAAA-AAATATCAGGGGCTTAATTGTTTTTTTTTTTGAAAAA
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAA-AACAGGGGCTTAATTGCTTTTTTTTTTGAAAAA
* * * * **
27067473 GTTTGAGGGTC-TTTCGATGTATTTTGAAAGTTCAAGTA-CTTAATTGAGTGCAAAATAAAAGCA
65 GTTTAAGGGCCTTTTCGATGCATTTTGAAAGTTCAAGTATC-CAAGAGAGTGCAAAATAAAAGCA
27067536 -ATGACTTAATT-TTTTTTGAAAAAGTTTGAGGGTATTTTTGATGCATTTTGAA
129 GA-GACTTAATTGTTTTTTGAAAAAGTTTGAGGGTATTTTTGATGCATTTTGAA
27067588 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAACAGGGGCTTAATTGCTTTTTTTTTTGAAAAAG
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAACAGGGGCTTAATTGCTTTTTTTTTTGAAAAAG
*
27067653 TTTAAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTATCCAAGAGAGTGCAAAATAAAAGCAGA
66 TTTAAGGGCCTTTTCGATGCATTTTGAAAGTTCAAGTATCCAAGAGAGTGCAAAATAAAAGCAGA
*
27067718 GGCTTAATTGTTTTTT
131 GACTTAATTGTTTTTT
27067734 TTTTAATGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
179 66 0.51
180 56 0.43
181 8 0.06
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (181 bp):
AGTTCAAGTACCCAATTGAGTGCAAAATAAAAACAGGGGCTTAATTGCTTTTTTTTTTGAAAAAG
TTTAAGGGCCTTTTCGATGCATTTTGAAAGTTCAAGTATCCAAGAGAGTGCAAAATAAAAGCAGA
GACTTAATTGTTTTTTGAAAAAGTTTGAGGGTATTTTTGATGCATTTTGAA
Found at i:27067685 original size:93 final size:92
Alignment explanation
Indices: 27067409--27067737 Score: 429
Period size: 93 Copynumber: 3.6 Consensus size: 92
27067399 AATTAGGGAC
* *
27067409 AGTTCAAGTATCCAATTGAGTGCAAAA-AAATATCAGGGGCTTAATTGTTTTTTTTTTTGAAAAA
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAA-AGCAGGGGCTTAATTG-TTTTTTTTTTGAAAAA
* *
27067473 GTTTGAGGGTC-TTTCGATGTATTTTGAA
64 GTTTGAGGGTCTTTTTGATGCATTTTGAA
** ** *
27067501 AGTTCAAGTACTTAATTGAGTGCAAAATAAAAGCAATGACTTAA-----TTTTTTTTGAAAAAGT
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAGCAGGGGCTTAATTGTTTTTTTTTTGAAAAAGT
*
27067561 TTGAGGGTATTTTTGATGCATTTTGAA
66 TTGAGGGTCTTTTTGATGCATTTTGAA
*
27067588 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAACAGGGGCTTAATTGCTTTTTTTTTTGAAAAAG
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAGCAGGGGCTTAATTG-TTTTTTTTTTGAAAAAG
* *
27067653 TTTAAGGGCCTTTTTGATGCATTTTGAA
65 TTTGAGGGTCTTTTTGATGCATTTTGAA
* ** *
27067681 AGTTCAAGTATCCAAGAGAGTGCAAAATAAAAGCAGAGGCTTAATTGTTTTTTTTTT
1 AGTTCAAGTACCCAATTGAGTGCAAAATAAAAGCAGGGGCTTAATTGTTTTTTTTTT
27067738 AATGTTTAAG
Statistics
Matches: 205, Mismatches: 24, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
86 24 0.12
87 53 0.26
92 43 0.21
93 85 0.41
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (92 bp):
AGTTCAAGTACCCAATTGAGTGCAAAATAAAAGCAGGGGCTTAATTGTTTTTTTTTTGAAAAAGT
TTGAGGGTCTTTTTGATGCATTTTGAA
Found at i:27070033 original size:28 final size:28
Alignment explanation
Indices: 27070001--27070060 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
27069991 AAAACGAGAC
27070001 TTTTGGATACCCGAGGGCAAAATGGTAA
1 TTTTGGATACCCGAGGGCAAAATGGTAA
*** *
27070029 TTTTGGATGTGCGGGGGCAAAATGGTAA
1 TTTTGGATACCCGAGGGCAAAATGGTAA
27070057 TTTT
1 TTTT
27070061 TGGTGAGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.32
Consensus pattern (28 bp):
TTTTGGATACCCGAGGGCAAAATGGTAA
Found at i:27070101 original size:29 final size:28
Alignment explanation
Indices: 27070069--27070468 Score: 212
Period size: 29 Copynumber: 13.8 Consensus size: 28
27070059 TTTGGTGAGA
*
27070069 TCGAGGTTAAAAATGGAATCTTGGAAAGT
1 TCGAGGTT-AAAATGGAATTTTGGAAAGT
* *
27070098 TCGAGGGTAAAATGGTAATTTTTAATGAAA--
1 TCGAGGTTAAAATGG-AA-TTTT--GGAAAGT
* *
27070128 CCGGGGTTAATAATGGAATTTTGGAAAGT
1 TCGAGGTTAA-AATGGAATTTTGGAAAGT
* * * *
27070157 TCGAGGATAAAATGATAATTTTTGATGAGAT
1 TCGAGGTTAAAATG-GAATTTTGGA-AAG-T
* *
27070188 T-GGGGTTAAAAATGGAATTTTGGAAAGC
1 TCGAGGTT-AAAATGGAATTTTGGAAAGT
* *
27070216 TCGAGGGTAAAATGATAATTTTGGTGAAA--
1 TCGAGGTTAAAATG-GAATTTT-G-GAAAGT
*
27070245 TCGAGGTTAAAAATGGAATTTTGGGAAGT
1 TCGAGGTT-AAAATGGAATTTTGGAAAGT
* *
27070274 TCGGGGGT-AAATGGTAATTTTTGATGAAA--
1 TCGAGGTTAAAATGG-AA-TTTTG--GAAAGT
* *
27070303 TCGGGGTTAAAAATGGAATTTTGGGAAGT
1 TCGAGGTT-AAAATGGAATTTTGGAAAGT
* *
27070332 TCGGGGGTAAAATGGTAATTTTTGATGAAA--
1 TCGAGGTTAAAATGG-AA-TTTTG--GAAAGT
* *
27070362 CCGAGGTTAAAACGGAATTTTGGAAAGT
1 TCGAGGTTAAAATGGAATTTTGGAAAGT
*
27070390 TCGAGGGTAAAATGGTAATTTTGATGAAA--
1 TCGAGGTTAAAATGG-AATTTTG--GAAAGT
* * *
27070419 TCGGGGTTAAAACGGAATTTTAGAAAGT
1 TCGAGGTTAAAATGGAATTTTGGAAAGT
** *
27070447 TTAAGGGTAAAATGGTAATTTT
1 TCGAGGTTAAAATGG-AATTTT
27070469 TGGACAGTCT
Statistics
Matches: 285, Mismatches: 48, Indels: 76
0.70 0.12 0.19
Matches are distributed among these distances:
26 8 0.03
27 16 0.06
28 61 0.21
29 112 0.39
30 51 0.18
31 30 0.11
32 7 0.02
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (28 bp):
TCGAGGTTAAAATGGAATTTTGGAAAGT
Found at i:27070266 original size:58 final size:59
Alignment explanation
Indices: 27070019--27070470 Score: 583
Period size: 59 Copynumber: 7.7 Consensus size: 59
27070009 ACCCGAGGGC
* * * * * * *
27070019 AAAATGGTAATTTTGG-ATGTGCGGGGGCAAAATGGTAATTTTTGGTGAGATCGAGGTTA
1 AAAATGG-AATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* * *
27070078 AAAATGGAATCTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTAATGAAACCGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* * * * *
27070137 ATAATGGAATTTTGGAAAGTTCGAGGATAAAATGATAATTTTTGATGAGATTGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* * * *
27070196 AAAATGGAATTTTGGAAAGCTCGAGGGTAAAATGATAA-TTTTGGTGAAATCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* *
27070254 AAAATGGAATTTTGGGAAGTTCGGGGGT-AAATGGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* * * *
27070312 AAAATGGAATTTTGGGAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGAGGTT-
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
*
27070370 AAAACGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAA-TTTTGATGAAATCGGGGTT-
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
* * **
27070427 AAAACGGAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTTG
1 AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTG
27070471 GACAGTCTAG
Statistics
Matches: 348, Mismatches: 41, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
57 60 0.17
58 134 0.39
59 154 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
AAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTA
Found at i:27070457 original size:28 final size:29
Alignment explanation
Indices: 27070369--27070468 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 29
27070359 AAACCGAGGT
* **
27070369 TAAAACGG-AATTTTGGAAAGTTCGAGGG
1 TAAAACGGTAATTTTAGAAAGTTTAAGGG
* **
27070397 TAAAATGGTAATTTTGATGAAA---TCGGGG
1 TAAAACGGTAATTTT-A-GAAAGTTTAAGGG
27070425 TTAAAACGG-AATTTTAGAAAGTTTAAGGG
1 -TAAAACGGTAATTTTAGAAAGTTTAAGGG
*
27070454 TAAAATGGTAATTTT
1 TAAAACGGTAATTTT
27070469 TGGACAGTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
26 4 0.07
27 1 0.02
28 23 0.42
29 23 0.42
31 4 0.07
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (29 bp):
TAAAACGGTAATTTTAGAAAGTTTAAGGG
Found at i:27070778 original size:162 final size:163
Alignment explanation
Indices: 27070511--27070861 Score: 478
Period size: 162 Copynumber: 2.2 Consensus size: 163
27070501 CTAAGAAAGG
* ** *
27070511 GTGACACGTGGCAGCCTCATAG-GCA-TCAAAGAAGTCAAAGGACGAATTTGTAAATCTTGAAAA
1 GTGACACGTGGCAGCCTC-TGGTGCAGTCAAAGAAGTCAAAGGACGAATTTAAAAATCTTCAAAA
* * *
27070574 ATTATTGGGCCAATTTTGTAGTTAAGCAGAAGTTGATTTGAGGATTAAATTAAAACAAAT-TAAA
65 ATTATTGGGCCAATTTTGTAATTAAGCAGAAGTTAATTTGAGGATTAAATTAAAACAAATAAAAA
*
27070638 AATGACAGGGACTAGATACATAAATAAACCAAAAA
130 AATGACAGGGACTAGATACATAAAGAAACC-AAAA
* *
27070673 GTGACACGTGGCAGCCTCTGGTGCAGTCAAA-CAGTCAAAGGACTAATTTAAAAATC-TCAAAAG
1 GTGACACGTGGCAGCCTCTGGTGCAGTCAAAGAAGTCAAAGGACGAATTTAAAAATCTTCAAAA-
* * * * *
27070736 ATTTTTTGGTCAATTTTGTAATTAAGTAGAAGTTAATTTGAGGGTTAAATTAAAACAAATAAAAA
65 ATTATTGGGCCAATTTTGTAATTAAGCAGAAGTTAATTTGAGGATTAAATTAAAACAAATAAAAA
* *
27070801 AATGATAGGGACTAGATGCATAAAGAAACCAAAA
130 AATGACAGGGACTAGATACATAAAGAAACCAAAA
*
27070835 GTGACACGTGGTAGCCTCTGGTGCAGT
1 GTGACACGTGGCAGCCTCTGGTGCAGT
27070862 TGGTGAAGAT
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
161 7 0.04
162 125 0.75
163 35 0.21
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (163 bp):
GTGACACGTGGCAGCCTCTGGTGCAGTCAAAGAAGTCAAAGGACGAATTTAAAAATCTTCAAAAA
TTATTGGGCCAATTTTGTAATTAAGCAGAAGTTAATTTGAGGATTAAATTAAAACAAATAAAAAA
ATGACAGGGACTAGATACATAAAGAAACCAAAA
Found at i:27071153 original size:11 final size:12
Alignment explanation
Indices: 27071130--27071163 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
27071120 TTATTTGGAC
27071130 TTTTAATTTAAA
1 TTTTAATTTAAA
27071142 TTTTAA-TTAAA
1 TTTTAATTTAAA
27071153 TTTTAAATTTA
1 TTTT-AATTTA
27071164 TTTCAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.45
12 8 0.40
13 3 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTAATTTAAA
Found at i:27071163 original size:17 final size:17
Alignment explanation
Indices: 27071136--27071203 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 17
27071126 GGACTTTTAA
27071136 TTTAAATTTTAATTAAAT
1 TTTAAA-TTTAATTAAAT
*
27071154 TTTAAATTTATTTCAAATATT
1 TTTAAATTTAATT--AA-A-T
*
27071175 TTTAAATTTAAAATAAA-
1 TTTAAATTT-AATTAAAT
27071192 TTTAAATTTAAT
1 TTTAAATTTAAT
27071204 AATGAATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
16 2 0.05
17 15 0.37
18 6 0.15
19 3 0.07
20 3 0.07
21 10 0.24
22 2 0.05
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAATTAAAT
Found at i:27071213 original size:18 final size:17
Alignment explanation
Indices: 27071134--27071215 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
27071124 TTGGACTTTT
* *
27071134 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAATA
27071151 AATTTTAAATTTATTTCAAATA
1 AA-TTTAAATTTA----AAATA
**
27071173 TTTTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
27071190 AATTTAAATTTAATAATG
1 AATTTAAATTTAA-AATA
27071208 AATTTAAA
1 AATTTAAA
27071216 CCTAAAGATC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
17 18 0.35
18 20 0.38
21 10 0.19
22 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:27071611 original size:76 final size:76
Alignment explanation
Indices: 27071485--27072244 Score: 1268
Period size: 76 Copynumber: 10.0 Consensus size: 76
27071475 AGGCTTCATC
* * * *
27071485 TTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
27071550 AGGAAATGATT
66 AGGAAATGATG
*
27071561 TTGCTCTTACTTCAATTTCGGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* *
27071626 AGGAAATAATC
66 AGGAAATGATG
* * * *
27071637 TTGCTCTTTCTTCAATTTCGGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAGGGT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
* *
27071702 AGGAAATAATC
66 AGGAAATGATG
* * *
27071713 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27071778 AGGAAATGATG
66 AGGAAATGATG
27071789 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27071854 AGGAAATGATG
66 AGGAAATGATG
* * *
27071865 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27071930 AGGAAATGATG
66 AGGAAATGATG
* * * *
27071941 TTGCTATTACTTCAATTTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGA
1 TTGCTCTTACTTCAA-TTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGA
27072006 TAGGAAATGATG
65 TAGGAAATGATG
*
27072018 TTGGTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27072083 AGGAAATGATG
66 AGGAAATGATG
*
27072094 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTTAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27072159 AGGAAATGATG
66 AGGAAATGATG
*
27072170 TTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
27072235 AGGAAATGAT
66 AGGAAATGAT
27072245 CTGGTTTGAT
Statistics
Matches: 648, Mismatches: 35, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
76 574 0.89
77 74 0.11
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (76 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGATG
Found at i:27081679 original size:29 final size:28
Alignment explanation
Indices: 27081647--27082036 Score: 94
Period size: 29 Copynumber: 13.5 Consensus size: 28
27081637 AGACCGAGGT
*
27081647 TAAAAATGGAATCTTGGAAAGTTCGGGGG
1 TAAAAATGGAATTTTGGAAAGTT-GGGGG
*
27081676 T-AAAATGGTAATTTTTGATGAAA-TTGGGGT
1 TAAAAATGG-AA-TTTTG--GAAAGTTGGGGG
* *
27081706 TAATAATGGAATTTTAGAAAGTTTGGGGG
1 TAAAAATGGAATTTTGGAAAG-TTGGGGG
* * ** *
27081735 T-AAAATGGTAATTTTTGATGAGACCGGGGT
1 TAAAAATGG-AATTTTGGA-AAG-TTGGGGG
* * * *
27081765 TAAAAATGAAATTTTAGAAAGCTCGAGGG
1 TAAAAATGGAATTTTGGAAAG-TTGGGGG
* * * *
27081794 T-AAAATGATAATTTTGGTGAAA-TCGAGGT
1 TAAAAATG-GAATTTT-G-GAAAGTTGGGGG
*
27081823 TAAAAATGGAATTTTGTAAAGTT-----
1 TAAAAATGGAATTTTGGAAAGTTGGGGG
* * ** *
27081846 TTAAAATGGAAATTTTTATGAAA-TAAGGGT
1 TAAAAATGG-AA-TTTT-GGAAAGTTGGGGG
* ** *
27081876 TAAAAATGGAATATTGGGAATTTTAGGGG
1 TAAAAATGGAAT-TTTGGAAAGTTGGGGG
* *
27081905 T-AAAATGGTAATTTTTGATGAAA-TTAGGGT
1 TAAAAATGG-AA-TTTTG--GAAAGTTGGGGG
* *
27081935 TAAAAATAGAATTTTGGGAAGTTCGGGGG
1 TAAAAATGGAATTTTGGAAAGTT-GGGGG
*
27081964 T-AAAATGGTAATTTTTGATGAAA--TCGGGG
1 TAAAAATGG-AA-TTTTG--GAAAGTTGGGGG
* * *
27081993 TTAAAATAGAATTTTGGAAAGTTTAGGGG
1 TAAAAATGGAATTTTGGAAAG-TTGGGGG
27082022 T-AAAATGGTAATTTT
1 TAAAAATGG-AATTTT
27082037 TAATGAAATC
Statistics
Matches: 272, Mismatches: 48, Indels: 82
0.68 0.12 0.20
Matches are distributed among these distances:
23 8 0.03
24 2 0.01
25 5 0.02
26 7 0.03
27 10 0.04
28 51 0.19
29 93 0.34
30 62 0.23
31 27 0.10
32 7 0.03
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (28 bp):
TAAAAATGGAATTTTGGAAAGTTGGGGG
Found at i:27081682 original size:59 final size:59
Alignment explanation
Indices: 27081611--27082095 Score: 533
Period size: 59 Copynumber: 8.4 Consensus size: 59
27081601 TTTGGACGAA
* * * * *
27081611 TGGGGGCAAAATGGTAATTTTTGGTGAGACCGAGGTTAAAAATGGAATCTTGGAAAGTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * *
27081670 CGGGGGTAAAATGGTAATTTTTGATGAAATTGGGGTTAATAATGGAATTTTAGAAAGTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * * *
27081729 TGGGGGTAAAATGGTAATTTTTGATGAGACCGGGGTTAAAAATGAAATTTTAGAAAGCT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * *
27081788 CGAGGGTAAAATGATAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGTAAAGTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * * *
27081846 T-----TAAAATGGAAATTTTT-ATGAAAT-AAGGGTTAAAAATGGAATATTGGGAATTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTT
* * * *
27081899 TAGGGGTAAAATGGTAATTTTTGATGAAAT-TAGGGTTAAAAATAGAATTTTGGGAAGTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTT
* * *
27081958 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-AAAATAGAATTTTGGAAAGTT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* * * *
27082016 TAGGGGTAAAATGGTAATTTTTAATGAAATCGAGGTT-AAAACGGAATTTTGGAAAATT
1 TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
*
27082074 TAGGGGTAAAATGGTAATTTTT
1 TGGGGGTAAAATGGTAATTTTT
27082096 AGACAGTCCA
Statistics
Matches: 363, Mismatches: 54, Indels: 19
0.83 0.12 0.04
Matches are distributed among these distances:
52 1 0.00
53 38 0.10
54 4 0.01
58 141 0.39
59 179 0.49
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (59 bp):
TGGGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:27082046 original size:229 final size:228
Alignment explanation
Indices: 27081644--27082066 Score: 609
Period size: 229 Copynumber: 1.9 Consensus size: 228
27081634 GTGAGACCGA
* * *
27081644 GGTTAAAAATGGAATCTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATTGGGGTTAA
1 GGTTAAAAATGGAATATTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAA
* * * *
27081709 TAATGGAATTTTAGAAAGTTTGGGGGTAAAATGGTAATTTTTGATGAGACCGGGGTTAAAAATGA
66 AAATAGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGGGGTTAAAAATGA
* ** *
27081774 AATTTTAGAAAGCTCGAGGGTAAAATGATAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTG
131 AATTTTAGAAAGCTAGAGGGTAAAATGATAATTTTAATGAAATCGAGGTT-AAAACGGAATTTTG
27081839 TAAAGTTTTAAAATGGAAATTTTTATGAAATAAG
195 TAAAGTTTTAAAATGGAAATTTTTATGAAATAAG
* * *
27081873 GGTTAAAAATGGAATATTGGGAATTTTAGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAA
1 GGTTAAAAATGGAATATTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAA
* * *
27081938 AAATAGAATTTTGGGAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTT-AAAAT-A
66 AAATAGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGGGGTTAAAAATGA
* * *
27082001 GAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATTTTTAATGAAATCGAGGTTAAAACGGAATTT
131 -AATTTTAGAAAG-CTAGAGGGTAAAATGATAA-TTTTAATGAAATCGAGGTTAAAACGGAATTT
27082065 TG
193 TG
27082067 GAAAATTTAG
Statistics
Matches: 171, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
227 1 0.01
228 42 0.25
229 128 0.75
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.34
Consensus pattern (228 bp):
GGTTAAAAATGGAATATTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGATGAAATTAGGGTTAA
AAATAGAATTTTAGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAACCGGGGTTAAAAATGA
AATTTTAGAAAGCTAGAGGGTAAAATGATAATTTTAATGAAATCGAGGTTAAAACGGAATTTTGT
AAAGTTTTAAAATGGAAATTTTTATGAAATAAG
Found at i:27082839 original size:18 final size:17
Alignment explanation
Indices: 27082785--27082841 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
27082775 TAAATTTTAA
* **
27082785 TTAAATTTCAAATATTT
1 TTAAATTTAAAATAAAT
27082802 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
27082819 TTAAATTTAATAATGAAT
1 TTAAATTTAA-AATAAAT
27082837 TTAAA
1 TTAAA
27082842 CCTAAAGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
17 24 0.69
18 11 0.31
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:27098324 original size:21 final size:21
Alignment explanation
Indices: 27098275--27098330 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
27098265 GTGATGGTTA
27098275 AGGATGTTGATA-AGGCAAAG
1 AGGATGTTGATAGAGGCAAAG
* *
27098295 AGGAAGTTGATAGAGGCAGAG
1 AGGATGTTGATAGAGGCAAAG
*
27098316 ATGG-TGTTGAAAGAG
1 A-GGATGTTGATAGAG
27098331 TCTAAGATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 17 0.57
22 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.39, T:0.20
Consensus pattern (21 bp):
AGGATGTTGATAGAGGCAAAG
Found at i:27099441 original size:24 final size:24
Alignment explanation
Indices: 27099405--27099451 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27099395 AGTTGGATAC
27099405 AAATAAAACTCTAAAAAGATAATTA
1 AAATAAAACTCTAAAAA-ATAATTA
* *
27099430 AAATTAAA-TCTAAACAATAATT
1 AAATAAAACTCTAAAAAATAATT
27099452 CTCTAGTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.28
Consensus pattern (24 bp):
AAATAAAACTCTAAAAAATAATTA
Found at i:27101548 original size:29 final size:30
Alignment explanation
Indices: 27101515--27101581 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
27101505 CTTTTATGGA
* *
27101515 AAATCTCTGTTTAAC-AATGCCTTTGTGGC
1 AAATCTCTGTTAAACAAAAGCCTTTGTGGC
*
27101544 AAATCTTTGTTAAACAAAAGCCTTTGTGGC
1 AAATCTCTGTTAAACAAAAGCCTTTGTGGC
27101574 AAATCTCT
1 AAATCTCT
27101582 AAAAAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (30 bp):
AAATCTCTGTTAAACAAAAGCCTTTGTGGC
Found at i:27104056 original size:45 final size:45
Alignment explanation
Indices: 27103992--27104135 Score: 189
Period size: 54 Copynumber: 3.0 Consensus size: 45
27103982 ATCCTTAACC
27103992 ATCAAACTATTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
1 ATCAAACTATTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
27104037 ATCAAACTATTATATGGGTTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
1 ATCAAAC-----TA----TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
* *
27104091 ATCAAACTATCATATGGGTTCTATTAATCTCAAATTTATGTGTTT
1 ATCAAACTATTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
27104136 CTGATTGGTT
Statistics
Matches: 88, Mismatches: 2, Indels: 18
0.81 0.02 0.17
Matches are distributed among these distances:
45 41 0.47
49 2 0.02
50 2 0.02
54 43 0.49
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (45 bp):
ATCAAACTATTATATGGGTTCTATTAATCTCAAGTTTATGTGTTT
Found at i:27104083 original size:54 final size:54
Alignment explanation
Indices: 27104001--27104110 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
27103991 CATCAAACTA
*
27104001 TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTTATCAAACTATTATATGGG
1 TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTTATCAAACTATCATATGGG
27104055 TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTTATCAAACTATCATATGGG
1 TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTTATCAAACTATCATATGGG
27104109 TT
1 TT
27104111 CTATTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.46
Consensus pattern (54 bp):
TTATATGGGTTCTATTAATCTCAAGTTTATGTGTTTATCAAACTATCATATGGG
Found at i:27114020 original size:30 final size:30
Alignment explanation
Indices: 27113955--27114013 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
27113945 TACGTTAGCA
* *
27113955 AGACACACCTCCCATTTTCAAGTGGTTGTT
1 AGACACACCTCACATTTCCAAGTGGTTGTT
*
27113985 AGACACCCCTCACATTTCCAAGTGGTTGT
1 AGACACACCTCACATTTCCAAGTGGTTGT
27114014 AGGACACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (30 bp):
AGACACACCTCACATTTCCAAGTGGTTGTT
Found at i:27115985 original size:15 final size:14
Alignment explanation
Indices: 27115948--27115988 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
27115938 TTTTCTTTGA
27115948 TTTCACAATTTGAAG
1 TTTCACAATTT-AAG
27115963 -TT-ACAATTTAAG
1 TTTCACAATTTAAG
27115975 CTTTCACAATTTAA
1 -TTTCACAATTTAA
27115989 AGCCACTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 7 0.30
14 4 0.17
15 9 0.39
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (14 bp):
TTTCACAATTTAAG
Found at i:27116496 original size:165 final size:167
Alignment explanation
Indices: 27116312--27116615 Score: 377
Period size: 165 Copynumber: 1.8 Consensus size: 167
27116302 TATAAAATTT
27116312 AAATATAGAATATAATCTGTT-AATCTGCT-AGAATAAATCCCGAAACAAATTTAGTCAACTTAT
1 AAATATAGAATATAATCTGTTGAA-C-GCTGAGAATAAATCCCGAAACAAATTTAGTCAACTTAT
* * ** ** *
27116375 T-TTA-TTTGGAAACAAAATCAAACTGGAATAAAATCTGTTAAACGGTGG-GAATAAATCCCGAA
64 TATCATTTTGGAAA-AAAATCAAAATAAAATAAAATCTGTTAAACGAAGGAAAATAAATCCCGAA
*
27116437 ACATATTTATTTACTTAATTATTATTTGGAACCAAAATCC
128 ACAGATTTATTTACTTAATTATTATTTGGAACCAAAATCC
* * * * *
27116477 AAATATAGAAT-TCAATCTGTTGAACGGTGGGAATAAATCTCGAAACAGATTTATTCAACTTATT
1 AAATATAGAATAT-AATCTGTTGAACGCTGAGAATAAATCCCGAAACAAATTTAGTCAACTTATT
* * * *
27116541 ATCATTTTTGAAATAAATTAAAATAAAATAAAATCTGTTAAACGAAGGAAAATAAATCCTGAAAC
65 ATCATTTTGGAAAAAAATCAAAATAAAATAAAATCTGTTAAACGAAGGAAAATAAATCCCGAAAC
27116606 AGATTTATTT
130 AGATTTATTT
27116616 TCCAATTTTA
Statistics
Matches: 116, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
164 3 0.03
165 51 0.44
166 32 0.28
167 30 0.26
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (167 bp):
AAATATAGAATATAATCTGTTGAACGCTGAGAATAAATCCCGAAACAAATTTAGTCAACTTATTA
TCATTTTGGAAAAAAATCAAAATAAAATAAAATCTGTTAAACGAAGGAAAATAAATCCCGAAACA
GATTTATTTACTTAATTATTATTTGGAACCAAAATCC
Found at i:27116507 original size:84 final size:80
Alignment explanation
Indices: 27116316--27116614 Score: 269
Period size: 84 Copynumber: 3.6 Consensus size: 80
27116306 AAATTTAAAT
* * * * *
27116316 ATAGAATATAATCTGTTAATCTGCT-AGAATAAATCCCGAAACAAATTTAGTCAACTTATTTTAT
1 ATAGAATAAAATCTGTTAAAC-GGTGGGAATAAATCCCGAAACAAATTTA-TTAACTTATTTTAT
27116380 TTGGAAACAAAATCAAA
64 TTGGAAACAAAATCAAA
* * * *
27116397 CTGGAATAAAATCTGTTAAACGGTGGGAATAAATCCCGAAACATATTTATTTACTTAATTATTAT
1 ATAGAATAAAATCTGTTAAACGGTGGGAATAAATCCCGAAACAAATTTATTAACTT-ATT-TTAT
*
27116462 TTGGAACCAAAATCCAAA
64 TTGGAAACAAAAT-CAAA
** * * * *
27116480 TATAGAATTCAATCTGTTGAACGGTGGGAATAAATCTCGAAACAGATTTATTCAACTTATTATCA
1 -ATAGAATAAAATCTGTTAAACGGTGGGAATAAATCCCGAAACAAATTTATT-AACTTATT-TTA
* * *
27116545 TTTTTGAAA-TAAATTAAA
63 -TTTGGAAACAAAATCAAA
* ** * * *
27116563 ATAAAATAAAATCTGTTAAACGAAGGAAAATAAATCCTGAAACAGATTTATT
1 ATAGAATAAAATCTGTTAAACGGTGG-GAATAAATCCCGAAACAAATTTATT
27116615 TTCCAATTTT
Statistics
Matches: 178, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
80 7 0.04
81 42 0.24
82 36 0.20
83 29 0.16
84 54 0.30
85 10 0.06
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (80 bp):
ATAGAATAAAATCTGTTAAACGGTGGGAATAAATCCCGAAACAAATTTATTAACTTATTTTATTT
GGAAACAAAATCAAA
Found at i:27116909 original size:49 final size:49
Alignment explanation
Indices: 27116822--27116918 Score: 110
Period size: 49 Copynumber: 2.0 Consensus size: 49
27116812 AAAACAAAAC
* *
27116822 AGATCTAAACAAAATCAATTAAATAAATATTTATTTTATATATAACATT
1 AGATCTAAACAAAATCAATTAAATAAATATATATTTTATATAAAACATT
* *
27116871 AGATCTAAAC-AAATCACTTTTAAATATAA-ATATA-TTTATTTAAAACAT
1 AGATCTAAACAAAATCA--ATTAAATA-AATATATATTTTATATAAAACAT
27116919 CAAATCTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
48 6 0.15
49 22 0.54
50 11 0.27
51 2 0.05
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (49 bp):
AGATCTAAACAAAATCAATTAAATAAATATATATTTTATATAAAACATT
Found at i:27124463 original size:22 final size:19
Alignment explanation
Indices: 27124438--27124488 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
27124428 AAAAAAATTA
27124438 ATTTTCTTTATATATTCTTTAG
1 ATTTT-TTTA-ATATT-TTTAG
*
27124460 ATTTTTTTAATATTTTTAT
1 ATTTTTTTAATATTTTTAG
*
27124479 AATTTTTTAA
1 ATTTTTTTAA
27124489 AGAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 13 0.48
20 5 0.19
21 4 0.15
22 5 0.19
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAATATTTTTAG
Found at i:27124483 original size:20 final size:22
Alignment explanation
Indices: 27124436--27124486 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
27124426 TAAAAAAAAT
27124436 TAATTTTCTTTATATATTCTTTA
1 TAATTTT-TTTATATATTCTTTA
*
27124459 -GATTTTTTTA-ATATT-TTTA
1 TAATTTTTTTATATATTCTTTA
27124478 TAATTTTTT
1 TAATTTTTT
27124487 AAAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 4 0.16
22 5 0.20
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (22 bp):
TAATTTTTTTATATATTCTTTA
Found at i:27124529 original size:17 final size:17
Alignment explanation
Indices: 27124494--27124535 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27124484 TTTAAAGAAA
*
27124494 TATAAATTTTGAATTTT
1 TATAAATTTTGAATATT
27124511 TATAAATATTTGAA-ATT
1 TATAAAT-TTTGAATATT
27124528 TA-AAATTT
1 TATAAATTT
27124536 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 11 0.48
18 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
TATAAATTTTGAATATT
Found at i:27127292 original size:58 final size:58
Alignment explanation
Indices: 27127200--27127330 Score: 183
Period size: 58 Copynumber: 2.2 Consensus size: 58
27127190 AAAAAATGAA
* * *
27127200 AAAAAAACATCAATTTAGTTGTTTCACTAAATTCACAAATAATCGAGCCCTCGCTTTAAT
1 AAAAAAA-ATCAATTGAGTTATTGCACTAAATTCACAAATAATCGAG-CCTCGCTTTAAT
* **
27127260 -AAAAAAATCAATTGAGTTATTGCACTAAATTCACAAATAATTGAGCCTTTCTTTAAT
1 AAAAAAAATCAATTGAGTTATTGCACTAAATTCACAAATAATCGAGCCTCGCTTTAAT
27127317 AAAAAAAATCAATT
1 AAAAAAAATCAATT
27127331 AAGCCTCTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
57 10 0.16
58 48 0.75
59 6 0.09
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (58 bp):
AAAAAAAATCAATTGAGTTATTGCACTAAATTCACAAATAATCGAGCCTCGCTTTAAT
Found at i:27127528 original size:10 final size:10
Alignment explanation
Indices: 27127515--27127567 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
27127505 ATAAACTTAT
27127515 AAAATTATAAA
1 AAAATTAT-AA
27127526 AAAATTCATAA
1 AAAATT-ATAA
*
27127537 AAACTTAT-A
1 AAAATTATAA
*
27127546 AAAATTATTA
1 AAAATTATAA
*
27127556 TAAATTATAA
1 AAAATTATAA
27127566 AA
1 AA
27127568 TTAATAAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 8 0.23
10 12 0.34
11 13 0.37
12 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:27127538 original size:20 final size:20
Alignment explanation
Indices: 27127511--27127572 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 20
27127501 TTATATAAAC
27127511 TTATAAAATTATAAAAA-AA
1 TTATAAAATTATAAAAATAA
*
27127530 TTCATAAAAACTTATAAAAATTA
1 TT-AT-AAAA-TTATAAAAATAA
*
27127553 TTAT-AAATTATAAAATTAA
1 TTATAAAATTATAAAAATAA
27127572 T
1 T
27127573 AAACCATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 13 0.36
20 5 0.14
21 4 0.11
22 11 0.31
23 3 0.08
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TTATAAAATTATAAAAATAA
Found at i:27127541 original size:30 final size:31
Alignment explanation
Indices: 27127496--27127553 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
27127486 TTAAAATTTT
* *
27127496 AAAATTTATATAAACTTAT-AAAATTATAAA
1 AAAATTCATAAAAACTTATAAAAATTATAAA
27127526 AAAATTCATAAAAACTTATAAAAATTAT
1 AAAATTCATAAAAACTTATAAAAATTAT
27127554 TATAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATTCATAAAAACTTATAAAAATTATAAA
Found at i:27127558 original size:22 final size:20
Alignment explanation
Indices: 27127488--27127567 Score: 60
Period size: 19 Copynumber: 4.0 Consensus size: 20
27127478 AAAATATTTT
* * *
27127488 AAAATTTTAAAATTTAT-AT
1 AAAATTATAAAAATTATAAA
*
27127507 AAACTTAT-AAAATTATAAA
1 AAAATTATAAAAATTATAAA
27127526 AAAATTCATAAAAACTTAT--A
1 AAAATT-ATAAAAA-TTATAAA
*
27127546 AAAATTATTATAAATTATAAA
1 AAAATTA-TAAAAATTATAAA
27127567 A
1 A
27127568 TTAATAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
18 7 0.15
19 17 0.35
20 14 0.29
21 6 0.12
22 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAATTATAAAAATTATAAA
Found at i:27127561 original size:30 final size:27
Alignment explanation
Indices: 27127487--27127567 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 27
27127477 TAAAATATTT
*
27127487 TAAAATT-TTAAAATTTATATAAACTTA
1 TAAAATTATTAAAA-TTATAAAAACTTA
*
27127514 TAAAATTATAAAAAAATTCATAAAAACTTA
1 TAAAATTAT--TAAAATT-ATAAAAACTTA
27127544 TAAAAATTATTATAAATTATAAAA
1 T-AAAATTATTA-AAATTATAAAA
27127568 TTAATAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 7 0.16
28 1 0.02
29 9 0.20
30 20 0.44
31 8 0.18
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAATTATTAAAATTATAAAAACTTA
Found at i:27127570 original size:8 final size:8
Alignment explanation
Indices: 27127487--27127575 Score: 52
Period size: 10 Copynumber: 9.5 Consensus size: 8
27127477 TAAAATATTT
*
27127487 TAAAATTT
1 TAAAATTA
27127495 TAAAATTTA
1 TAAAA-TTA
27127504 TATAAACTTA
1 TA-AAA-TTA
27127514 TAAAATTA
1 TAAAATTA
27127522 TAAAAAAATTCA
1 T---AAAATT-A
27127534 TAAAAACTTA
1 T-AAAA-TTA
27127544 TAAAAATTA
1 T-AAAATTA
27127553 TTATAAATTA
1 -TA-AAATTA
27127563 TAAAATTAA
1 TAAAATT-A
27127572 TAAA
1 TAAA
27127576 CCATATTTGG
Statistics
Matches: 69, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
8 14 0.20
9 18 0.26
10 27 0.39
11 8 0.12
12 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAATTA
Found at i:27127937 original size:18 final size:17
Alignment explanation
Indices: 27127914--27127947 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
27127904 ATTAAAATTA
27127914 TTTTTTAAAAATATAAAC
1 TTTTTTAAAAA-ATAAAC
27127932 TTTTTTAAAAAATAAA
1 TTTTTTAAAAAATAAA
27127948 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTTTAAAAAATAAAC
Found at i:27127941 original size:17 final size:18
Alignment explanation
Indices: 27127914--27127947 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27127904 ATTAAAATTA
*
27127914 TTTTTTAAAAATATAAAC
1 TTTTTTAAAAAAATAAAC
27127932 TTTTTT-AAAAAATAAA
1 TTTTTTAAAAAAATAAA
27127948 ATTATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTTTAAAAAAATAAAC
Found at i:27136502 original size:19 final size:19
Alignment explanation
Indices: 27136473--27136522 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27136463 TTTTATAAGG
*
27136473 TTTTATAAATTTTTTA-CTAT
1 TTTTAT-AATTTTTGATC-AT
*
27136493 TTTTATAATTATTGATCAT
1 TTTTATAATTTTTGATCAT
27136512 TTTTATAATTT
1 TTTTATAATTT
27136523 ATTATATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTGATCAT
Found at i:27136749 original size:20 final size:19
Alignment explanation
Indices: 27136719--27136860 Score: 69
Period size: 20 Copynumber: 7.2 Consensus size: 19
27136709 TTTCTGAATT
27136719 TTTTATAAATTTTTTATTAA
1 TTTTAT-AATTTTTTATTAA
*
27136739 GTTTTATAATTTCTTA-TAA
1 -TTTTATAATTTTTTATTAA
* *
27136758 -TTTACAA-TTTTT-TTATG
1 TTTTATAATTTTTTATTA-A
*
27136775 TTTTATTAGATTTTATTATTAT
1 TTTTA-TA-ATTTT-TTATTAA
*
27136797 TATTTATAAGTTTTTTAATAAA
1 T-TTTATAA-TTTTTT-ATTAA
*
27136819 TTTTA-AATATGATTTATTAA
1 TTTTATAAT-T-TTTTATTAA
* * *
27136839 TTTTATAAATTATTAATAA
1 TTTTATAATTTTTTATTAA
27136858 TTT
1 TTT
27136861 ATTAGAATTT
Statistics
Matches: 93, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
16 6 0.06
17 6 0.06
18 4 0.04
19 14 0.15
20 22 0.24
21 21 0.23
22 13 0.14
23 7 0.08
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTATTAA
Found at i:27136848 original size:29 final size:30
Alignment explanation
Indices: 27136808--27136910 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 30
27136798 ATTTATAAGT
27136808 TTTTTAATAAATTTTAAATATGATTTATT-AA
1 TTTTT-ATAAATTTTAAATAT-ATTTATTAAA
27136839 -TTTTATAAATTATT-AATA-ATTTATTAGAA
1 TTTTTATAAATT-TTAAATATATTTATTA-AA
* *
27136868 TTTTTATAAAATTTATAA-ATA-TTATAAAA
1 TTTTTATAAATTTTA-AATATATTTATTAAA
27136897 TTTTT-T-AATTTTAA
1 TTTTTATAAATTTTAA
27136911 TAATTTTATA
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
26 1 0.02
27 13 0.21
28 1 0.02
29 22 0.35
30 22 0.35
31 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTATAAATTTTAAATATATTTATTAAA
Found at i:27136849 original size:9 final size:9
Alignment explanation
Indices: 27136809--27136924 Score: 67
Period size: 9 Copynumber: 12.2 Consensus size: 9
27136799 TTTATAAGTT
27136809 TTTTAATAAA
1 TTTT-ATAAA
27136819 TTTTA-AATA
1 TTTTATAA-A
*
27136828 TGATTTATTAA
1 T--TTTATAAA
27136839 TTTTATAAA
1 TTTTATAAA
*
27136848 TTATTAATAAT
1 TT-TT-ATAAA
* *
27136859 TTATTAGAAT
1 TT-TTATAAA
27136869 TTTTATAAA
1 TTTTATAAA
*
27136878 ATTTATAAA
1 TTTTATAAA
*
27136887 TATTATAAAA
1 TTTTAT-AAA
*
27136897 TTTT-TTAA
1 TTTTATAAA
27136905 TTTTA-ATAA
1 TTTTATA-AA
27136914 TTTTATAAA
1 TTTTATAAA
27136923 TT
1 TT
27136925 GTATGATTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
8 8 0.10
9 41 0.49
10 19 0.23
11 15 0.18
12 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TTTTATAAA
Found at i:27138157 original size:17 final size:17
Alignment explanation
Indices: 27138070--27138159 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 17
27138060 AATATTTATA
27138070 TTATATTATTTTAATAT
1 TTATATTATTTTAATAT
*
27138087 TTA-ATAATTTATAAT-T
1 TTATATTATTT-TAATAT
* * *
27138103 TTTTATT-TATTGAAAAT
1 TTATATTAT-TTTAATAT
**
27138120 TT-TA-TATAGTAAT-T
1 TTATATTATTTTAATAT
27138134 TTAATATTATTTTAATAT
1 TT-ATATTATTTTAATAT
27138152 TTATATTA
1 TTATATTA
27138160 GAGTAGTATT
Statistics
Matches: 53, Mismatches: 11, Indels: 18
0.65 0.13 0.22
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 17 0.32
17 27 0.51
18 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTATATTATTTTAATAT
Found at i:27139783 original size:18 final size:19
Alignment explanation
Indices: 27139739--27139786 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
27139729 ACGTTATGGC
27139739 TAAACCACTCATCGTTGTGGA
1 TAAACCACTCA-C-TTGTGGA
**
27139760 CGAACCACTCA-TTGTGGA
1 TAAACCACTCACTTGTGGA
27139778 TAAACCACT
1 TAAACCACT
27139787 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 14 0.61
21 9 0.39
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (19 bp):
TAAACCACTCACTTGTGGA
Found at i:27143556 original size:42 final size:42
Alignment explanation
Indices: 27143510--27143606 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
27143500 TTGAGACGCA
* *
27143510 AGTCTTCCTTTAAACATAATCTCATGCTCATCCTGAGGCATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
27143552 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
1 AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
27143594 AGTCTTCCATTTA
1 AGTCTTCC-TTTA
27143607 TAAATCAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
42 48 0.92
43 4 0.08
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCATCCCGAGACATG
Found at i:27144794 original size:18 final size:19
Alignment explanation
Indices: 27144755--27144791 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27144745 AAAAGCGTAC
* *
27144755 GAAAAATACTCACTTGATT
1 GAAAAATACTAACTTCATT
27144774 GAAAAATACTAACTTCAT
1 GAAAAATACTAACTTCAT
27144792 GAAGAAGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (19 bp):
GAAAAATACTAACTTCATT
Found at i:27146493 original size:42 final size:40
Alignment explanation
Indices: 27146390--27146494 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 40
27146380 ATTTATATTA
*
27146390 TTGTTTTGTGCTATTTTTTTACTGTTTTGGTTACTTTTTTTG
1 TTGTTTTG-GCTATTTTTTTACTATTTTGGTTA-TTTTTTTG
*
27146432 CTGTTTT-GCTATTGTTTTTTACTATTTTGGTGT-TTTCTTTTG
1 TTGTTTTGGCTA-T-TTTTTTACTATTTTGGT-TATTT-TTTTG
*
27146474 TTGTTTTGGCTGTTATTTTTA
1 TTGTTTTGGCTATT-TTTTTA
27146495 TTGTTGTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
40 4 0.08
41 5 0.09
42 40 0.75
43 4 0.08
ACGTcount: A:0.08, C:0.08, G:0.17, T:0.68
Consensus pattern (40 bp):
TTGTTTTGGCTATTTTTTTACTATTTTGGTTATTTTTTTG
Found at i:27146499 original size:12 final size:12
Alignment explanation
Indices: 27146484--27146523 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
27146474 TTGTTTTGGC
*
27146484 TGTTATTTTTAT
1 TGTTATTTTTGT
*
27146496 TGTTGTTTTTGT
1 TGTTATTTTTGT
27146508 TGTTATTTTTGT
1 TGTTATTTTTGT
27146520 TGTT
1 TGTT
27146524 TGGATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.75
Consensus pattern (12 bp):
TGTTATTTTTGT
Found at i:27146503 original size:24 final size:22
Alignment explanation
Indices: 27146390--27146539 Score: 82
Period size: 21 Copynumber: 7.0 Consensus size: 22
27146380 ATTTATATTA
* *
27146390 TTGTTTT-GTGCTATTTTTTTA
1 TTGTTTTGGTGTTATTTTTTTG
*
27146411 CTGTTTT-G-GTTACTTTTTTTG
1 TTGTTTTGGTGTTA-TTTTTTTG
* * * * *
27146432 CTGTTTTGCTATT-GTTTTTTA
1 TTGTTTTGGTGTTATTTTTTTG
* * *
27146453 CTATTTTGGTGTT-TTCTTTTG
1 TTGTTTTGGTGTTATTTTTTTG
27146474 TTGTTTTGGCTGTTATTTTTATTG
1 TTGTTTTGG-TGTTATTTTT-TTG
*
27146498 TTGTTTT--TGTTGTTATTTTTG
1 TTGTTTTGGTGTTATT-TTTTTG
*
27146519 TTG-TTTGGATATTATTTTTTT
1 TTGTTTTGG-TGTTATTTTTTT
27146540 ATGTATTTTT
Statistics
Matches: 100, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
20 6 0.06
21 61 0.61
22 12 0.12
23 11 0.11
24 10 0.10
ACGTcount: A:0.08, C:0.05, G:0.17, T:0.69
Consensus pattern (22 bp):
TTGTTTTGGTGTTATTTTTTTG
Found at i:27146537 original size:21 final size:22
Alignment explanation
Indices: 27146456--27146538 Score: 75
Period size: 24 Copynumber: 3.8 Consensus size: 22
27146446 TTTTTTACTA
27146456 TTTTGG-TGTT-TTCTTTTGTTG
1 TTTTGGATGTTATT-TTTTGTTG
*
27146477 TTTTGGCTGTTATTTTTATTGTTG
1 TTTTGGATGTTA-TTTT-TTGTTG
* *
27146501 TTTTTGTTGTTA-TTTTTGTTG
1 TTTTGGATGTTATTTTTTGTTG
*
27146522 -TTTGGATATTATTTTTT
1 TTTTGGATGTTATTTTTT
27146539 TATGTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.15
21 17 0.33
22 7 0.13
23 2 0.04
24 18 0.35
ACGTcount: A:0.07, C:0.02, G:0.19, T:0.71
Consensus pattern (22 bp):
TTTTGGATGTTATTTTTTGTTG
Found at i:27155860 original size:19 final size:20
Alignment explanation
Indices: 27155823--27155863 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27155813 AATGAGAATG
* *
27155823 AATATCAAACATTGGTCAAA
1 AATATCAAACATCGATCAAA
27155843 AATATC-AACATCGATCAAA
1 AATATCAAACATCGATCAAA
27155862 AA
1 AA
27155864 GTGGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.22
Consensus pattern (20 bp):
AATATCAAACATCGATCAAA
Found at i:27167900 original size:31 final size:31
Alignment explanation
Indices: 27167859--27167941 Score: 157
Period size: 31 Copynumber: 2.7 Consensus size: 31
27167849 TCTGTTAATC
27167859 AGTGACTGTTTTGTCACTTTTCGATAACGTT
1 AGTGACTGTTTTGTCACTTTTCGATAACGTT
*
27167890 AGTGATTGTTTTGTCACTTTTCGATAACGTT
1 AGTGACTGTTTTGTCACTTTTCGATAACGTT
27167921 AGTGACTGTTTTGTCACTTTT
1 AGTGACTGTTTTGTCACTTTT
27167942 TCAAAGTTGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTCGATAACGTT
Found at i:27168888 original size:15 final size:15
Alignment explanation
Indices: 27168869--27168906 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
27168859 AAATAAAAGG
*
27168869 TAAAAACATAA-AAA
1 TAAAAAAATAACAAA
27168883 TAAAAAAATAACAAA
1 TAAAAAAATAACAAA
27168898 TAAATAAAA
1 TAAA-AAAA
27168907 CGCACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 7 0.33
16 4 0.19
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAAAATAACAAA
Found at i:27180696 original size:6 final size:6
Alignment explanation
Indices: 27180672--27180709 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
27180662 AAATAAAATC
* *
27180672 TATAA- TATAAT TATGAT TATAAT TATAAT TATAGT TAT
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATAAT TAT
27180710 TTTATTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:27183757 original size:4 final size:4
Alignment explanation
Indices: 27183736--27183803 Score: 50
Period size: 4 Copynumber: 16.2 Consensus size: 4
27183726 TGGTAAGATA
* * *
27183736 AAAT AAAT GAAAT GAAT AAAT -AAT AAAT -AGT AAAAT AAAAT AAAGG
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAA-T
27183782 ACAAT AAAT AAAT AAAT AAAT A
1 A-AAT AAAT AAAT AAAT AAAT A
27183804 TAAAAAGAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 5 0.10
4 32 0.62
5 13 0.25
6 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:27183774 original size:37 final size:38
Alignment explanation
Indices: 27183718--27183808 Score: 123
Period size: 37 Copynumber: 2.4 Consensus size: 38
27183708 TAATAATGAC
* * * *
27183718 ATAATAAATGGTAAGATAAAATAAATGA-AATGAATAA
1 ATAATAAATAGTAAAATAAAATAAAGGACAATAAATAA
27183755 ATAATAAATAGTAAAATAAAATAAAGGACAATAAATAA
1 ATAATAAATAGTAAAATAAAATAAAGGACAATAAATAA
27183793 ATAAATAAATA-TAAAA
1 AT-AATAAATAGTAAAA
27183809 AGAATAACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
37 25 0.52
38 15 0.31
39 8 0.17
ACGTcount: A:0.67, C:0.01, G:0.09, T:0.23
Consensus pattern (38 bp):
ATAATAAATAGTAAAATAAAATAAAGGACAATAAATAA
Found at i:27183777 original size:17 final size:16
Alignment explanation
Indices: 27183655--27183779 Score: 52
Period size: 17 Copynumber: 6.8 Consensus size: 16
27183645 ACAAATAATA
27183655 AAAATAAAATAAATAGT
1 AAAATAAAATAAAT-GT
* *
27183672 AAGATAAAATAAATGACA
1 AAAATAAAATAAATG--T
* *
27183690 ATAAATAAAGTATGAATTT
1 A-AAATAAA--ATAAATGT
27183709 AATAATGACATAATAAATGGT
1 AA-AAT-A-A-AATAAAT-GT
* *
27183730 AAGATAAAATAAATGA
1 AAAATAAAATAAATGT
27183746 AATGAATAAATAATAAATAGT
1 AA--AAT-AA-AATAAAT-GT
27183767 AAAATAAAATAAA
1 AAAATAAAATAAA
27183780 GGACAATAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
16 4 0.05
17 26 0.32
18 7 0.09
19 16 0.20
20 15 0.19
21 12 0.15
22 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAATGT
Found at i:27189672 original size:24 final size:23
Alignment explanation
Indices: 27189658--27189704 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
27189648 TATTATTATC
27189658 AAATT-TTAATTTTATAGATTTTAA
1 AAATTATTAATTTTAT--ATTTTAA
27189682 AAATTATTAATTTTATATATTTA
1 AAATTATTAATTTTATAT-TTTA
27189705 TTATATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 9 0.43
25 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AAATTATTAATTTTATATTTTAA
Found at i:27190092 original size:15 final size:17
Alignment explanation
Indices: 27190053--27190099 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
27190043 GTTGGGCTCA
27190053 GATTTTCTAGAGCTTAG
1 GATTTTCTAGAGCTTAG
* *
27190070 GCTTTTCT-GAG-TTCG
1 GATTTTCTAGAGCTTAG
*
27190085 GATTTTCTTGAGCTT
1 GATTTTCTAGAGCTT
27190100 CAATCTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 6 0.24
17 9 0.36
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (17 bp):
GATTTTCTAGAGCTTAG
Found at i:27199647 original size:73 final size:73
Alignment explanation
Indices: 27199519--27199658 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
27199509 ACCATAGAAG
* * * * *
27199519 AATGAATAGTGAGTTACACGGTCTAGGTACACGAGCGTGTCTTTGACTGTATGTACCTACTTTTT
1 AATGAATAATGAGTTACACGGTCTAGGTACACGAGCGTGTCTTCGACCGTATGTACATACTGTTT
27199584 TGGAAATC
66 TGGAAATC
* * * * *
27199592 AATGGATAATGAGTTACGCGGTCT-GGCTACACGGGCTTGTCTTCGACCGTGTGTACATACTGTT
1 AATGAATAATGAGTTACACGGTCTAGG-TACACGAGCGTGTCTTCGACCGTATGTACATACTGTT
27199656 TTG
65 TTG
27199659 ACACAATTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 2 0.04
73 54 0.96
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (73 bp):
AATGAATAATGAGTTACACGGTCTAGGTACACGAGCGTGTCTTCGACCGTATGTACATACTGTTT
TGGAAATC
Found at i:27211577 original size:52 final size:52
Alignment explanation
Indices: 27211497--27211732 Score: 409
Period size: 52 Copynumber: 4.5 Consensus size: 52
27211487 ATGCAAAATA
* *
27211497 TCCGATGACTATGTGTCATCGTGGGTATATGAATCCTTTACAGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
*
27211549 TTCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
*
27211601 TCCGATGACTATGTGTCATCGTAAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
*
27211653 TCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
1 TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
* *
27211705 TCCGATGACAAAGTGTCATCGTGAGTAT
1 TCCGATGACTATGTGTCATCGTGAGTAT
27211733 TAAATGAGAA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 174 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGG
Found at i:27214741 original size:21 final size:21
Alignment explanation
Indices: 27214717--27214759 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27214707 TTCAATCTTG
*
27214717 TCAAACTTTTGGATTTGTTCT
1 TCAAACTTTTGGATGTGTTCT
* *
27214738 TCAATCTTTTTGATGTGTTCT
1 TCAAACTTTTGGATGTGTTCT
27214759 T
1 T
27214760 GTGATGATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (21 bp):
TCAAACTTTTGGATGTGTTCT
Found at i:27216258 original size:19 final size:19
Alignment explanation
Indices: 27216234--27216272 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27216224 TCAACAACAT
27216234 TACTAGGATTTTTTTTACA
1 TACTAGGATTTTTTTTACA
27216253 TACTAGGATTTTTTTTACA
1 TACTAGGATTTTTTTTACA
27216272 T
1 T
27216273 GAACCAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (19 bp):
TACTAGGATTTTTTTTACA
Found at i:27217530 original size:32 final size:32
Alignment explanation
Indices: 27217494--27217554 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
27217484 ACAAAGAAAG
27217494 AGAATACCAAAC-AAACCAGCAAACAAAACTGT
1 AGAAT-CCAAACAAAACCAGCAAACAAAACTGT
***
27217526 AGAATCCCCTCAAAACCAGCAAACAAAAC
1 AGAATCCAAACAAAACCAGCAAACAAAAC
27217555 ACAATCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.54, C:0.30, G:0.08, T:0.08
Consensus pattern (32 bp):
AGAATCCAAACAAAACCAGCAAACAAAACTGT
Found at i:27218042 original size:23 final size:23
Alignment explanation
Indices: 27218016--27218060 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
27218006 ATCAATTTCG
**
27218016 AATCGAATTAATCATTAATCGAA
1 AATCGAAAAAATCATTAATCGAA
* *
27218039 AATCTAAAAAATTATTAATCGA
1 AATCGAAAAAATCATTAATCGA
27218061 CCCCCGATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (23 bp):
AATCGAAAAAATCATTAATCGAA
Found at i:27221192 original size:26 final size:24
Alignment explanation
Indices: 27221141--27221188 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27221131 AGAATAAGCA
* *
27221141 AAGAAAAGAGAATATTAAAGAAAG
1 AAGAAAAGAGAAAATAAAAGAAAG
27221165 AAGAAAAGAGAGAAATAAAAGAAA
1 AAGAAAAGAGA-AAATAAAAGAAA
27221189 AGAAAGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (24 bp):
AAGAAAAGAGAAAATAAAAGAAAG
Found at i:27223643 original size:12 final size:12
Alignment explanation
Indices: 27223628--27223652 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27223618 TTCTTTTTTT
27223628 TGAAATAAAAAA
1 TGAAATAAAAAA
27223640 TGAAATAAAAAA
1 TGAAATAAAAAA
27223652 T
1 T
27223653 CTACTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (12 bp):
TGAAATAAAAAA
Found at i:27223867 original size:11 final size:11
Alignment explanation
Indices: 27223851--27223875 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27223841 GAAAAAAAAA
27223851 AGAAGGGAGAG
1 AGAAGGGAGAG
27223862 AGAAGGGAGAG
1 AGAAGGGAGAG
27223873 AGA
1 AGA
27223876 GTTGAGAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (11 bp):
AGAAGGGAGAG
Found at i:27224449 original size:30 final size:29
Alignment explanation
Indices: 27224395--27224595 Score: 144
Period size: 29 Copynumber: 7.0 Consensus size: 29
27224385 AAACCTTTCC
* *
27224395 AAAATTACATTTTAAC-CTCTAAACTTTTT
1 AAAATTATATTTAAACAC-CTAAACTTTTT
27224424 AAAATTATATTTAAAACACCTAAACTTTTT
1 AAAATTATATTT-AAACACCTAAACTTTTT
* *
27224454 AAAATTATATTTTAACCCCTAAAC-TTTT
1 AAAATTATATTTAAACACCTAAACTTTTT
* ** **
27224482 AAAATTACATTTTGAC-CCTAAA-TTTCC
1 AAAATTATATTTAAACACCTAAACTTTTT
* ** * *
27224509 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTATATTTAAACACCTAAACTTTT-T
* * *
27224539 AAAATCATATTTTAAC-CCTAAACTTTTCC
1 AAAATTATATTTAAACACCTAAACTTTT-T
* * *
27224568 AAAATTACATTTTAACCCCTAAA-TTTTT
1 AAAATTATATTTAAACACCTAAACTTTTT
27224596 CCAAAACTAC
Statistics
Matches: 150, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
27 24 0.16
28 24 0.16
29 55 0.37
30 46 0.31
31 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAATTATATTTAAACACCTAAACTTTTT
Found at i:27224596 original size:30 final size:30
Alignment explanation
Indices: 27224385--27224734 Score: 396
Period size: 30 Copynumber: 11.9 Consensus size: 30
27224375 AGAGGTCCTC
* *
27224385 AAACCTTTCCAAAATTACATTTTAACCTCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * * *
27224415 AAACTTTT-TAAAATTATATTTAAAACACCT
1 AAACTTTTCCAAAATTACATTT-TAACCCCT
* *
27224445 AAACTTTT-TAAAATTATATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
27224474 AAACTTTT--AAAATTACATTTTGA-CCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
27224501 AAA--TTTCCAAAATTACATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
27224529 AAACTTTTCCAAAATCATATTTTAA-CCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
27224558 AAACTTTTCCAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * *
27224588 AAATTTTTCCAAAACTACATTTTGA-CCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* *
27224617 CAAACTTTTCCAAAATTACATTTTGACCCTT
1 -AAACTTTTCCAAAATTACATTTTAACCCCT
* *
27224648 AAACTTTTCCAAAATTACATTTTGACCCCC
1 AAACTTTTCCAAAATTACATTTTAACCCCT
* * * *
27224678 AAACTTTTTCAAAGTCACATTTTAACTCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCT
*
27224708 AAACTTTTCC-AAATCACATTTTAACCC
1 AAACTTTTCCAAAATTACATTTTAACCC
27224735 TCGAGCTTTT
Statistics
Matches: 279, Mismatches: 32, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
25 3 0.01
27 22 0.08
28 20 0.07
29 71 0.25
30 160 0.57
31 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.38
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCCT
Found at i:27224596 original size:59 final size:59
Alignment explanation
Indices: 27224385--27224759 Score: 397
Period size: 59 Copynumber: 6.4 Consensus size: 59
27224375 AGAGGTCCTC
* * * * * *
27224385 AAACCTTTCCAAAATTACATTTTAACCTCTAAACTTTT-TAAAATTATATTTAAAACACCT
1 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTT-TAAC-CCT
* * * *
27224445 AAACTTTT-TAAAATTATATTTTAACCCCTAAACTTTT--AAAATTACATTTTGACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTAACCCT
* *
27224501 AAA--TTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCATATTTTAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTAACCCT
* *
27224558 AAACTTTTCCAAAATTACATTTTAACCCCTAAATTTTTCCAAAA-CTACATTTTGACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATC-ACATTTTAACCCT
* * * * *
27224617 CAAACTTTTCCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTGACCCCC
1 -AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTT-AACCCT
* * * *
27224678 AAACTTTTTCAAAGTCACATTTTAACTCCTAAACTTTTCC-AAATCACATTTTAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTAACCCT
* * * *
27224736 CGAGCTTTTCTAAAATTTCATTTT
1 -AAACTTTTCCAAAATTACATTTT
27224760 CATCCCGAGT
Statistics
Matches: 265, Mismatches: 40, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
54 3 0.01
55 26 0.10
56 6 0.02
57 21 0.08
58 16 0.06
59 101 0.38
60 89 0.34
61 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (59 bp):
AAACTTTTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTAACCCT
Found at i:27231174 original size:11 final size:11
Alignment explanation
Indices: 27231163--27231226 Score: 65
Period size: 11 Copynumber: 5.8 Consensus size: 11
27231153 CAAGTCAAAT
*
27231163 CGTTGACCAAT
1 CGTTGACCAAC
* **
27231174 CGTTGATCGGC
1 CGTTGACCAAC
*
27231185 CGTTAACCAAC
1 CGTTGACCAAC
*
27231196 CGTTGACCAGC
1 CGTTGACCAAC
*
27231207 CGTTGACCGAC
1 CGTTGACCAAC
27231218 CGTTGACCA
1 CGTTGACCA
27231227 TTGACTGTCG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (11 bp):
CGTTGACCAAC
Found at i:27231188 original size:22 final size:22
Alignment explanation
Indices: 27231163--27231226 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
27231153 CAAGTCAAAT
* * *
27231163 CGTTGACCAATCGTTGATCGGC
1 CGTTGACCAACCGTTGACCAGC
*
27231185 CGTTAACCAACCGTTGACCAGC
1 CGTTGACCAACCGTTGACCAGC
*
27231207 CGTTGACCGACCGTTGACCA
1 CGTTGACCAACCGTTGACCA
27231227 TTGACTGTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (22 bp):
CGTTGACCAACCGTTGACCAGC
Found at i:27231211 original size:33 final size:33
Alignment explanation
Indices: 27231163--27231226 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
27231153 CAAGTCAAAT
* * *
27231163 CGTTGACCAATCGTTGATCGGCCGTTAACCAAC
1 CGTTGACCAACCGTTGACCGACCGTTAACCAAC
* *
27231196 CGTTGACCAGCCGTTGACCGACCGTTGACCA
1 CGTTGACCAACCGTTGACCGACCGTTAACCA
27231227 TTGACTGTCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.23, T:0.22
Consensus pattern (33 bp):
CGTTGACCAACCGTTGACCGACCGTTAACCAAC
Found at i:27238449 original size:22 final size:22
Alignment explanation
Indices: 27238414--27238488 Score: 116
Period size: 22 Copynumber: 3.4 Consensus size: 22
27238404 ACCAAGTCAA
*
27238414 ACCGTTGA-TCGGCCATTGATCG
1 ACCGTTGACT-GGCCATTGACCG
*
27238436 ACTGTTGACTGGCCATTGACCG
1 ACCGTTGACTGGCCATTGACCG
27238458 ACCGTTGACTGGCCATTGACCG
1 ACCGTTGACTGGCCATTGACCG
27238480 ACCGTTGAC
1 ACCGTTGAC
27238489 CGTTCACTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
22 48 0.98
23 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (22 bp):
ACCGTTGACTGGCCATTGACCG
Found at i:27238487 original size:11 final size:11
Alignment explanation
Indices: 27238414--27238490 Score: 55
Period size: 11 Copynumber: 7.0 Consensus size: 11
27238404 ACCAAGTCAA
*
27238414 ACCGTTGATCG
1 ACCGTTGACCG
* * *
27238425 GCCATTGATCG
1 ACCGTTGACCG
* *
27238436 ACTGTTGACTG
1 ACCGTTGACCG
* *
27238447 GCCATTGACCG
1 ACCGTTGACCG
*
27238458 ACCGTTGACTG
1 ACCGTTGACCG
* *
27238469 GCCATTGACCG
1 ACCGTTGACCG
27238480 ACCGTTGACCG
1 ACCGTTGACCG
27238491 TTCACTTTGA
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (11 bp):
ACCGTTGACCG
Found at i:27238507 original size:20 final size:20
Alignment explanation
Indices: 27238479--27238520 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
27238469 GCCATTGACC
*
27238479 GACCGTTGACCGTTCACTTT
1 GACCATTGACCGTTCACTTT
* *
27238499 GACCATTGATCGTTGACTTT
1 GACCATTGACCGTTCACTTT
27238519 GA
1 GA
27238521 TCGTTCACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (20 bp):
GACCATTGACCGTTCACTTT
Found at i:27240496 original size:49 final size:49
Alignment explanation
Indices: 27240413--27240882 Score: 278
Period size: 49 Copynumber: 9.6 Consensus size: 49
27240403 TTTTACAGGT
* * * * *
27240413 TTCATTACCACGAAGATATGAAGGGAAAAATTTAAGCCGTAACGGCGAA
1 TTCAGTACCATGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * *
27240462 TTCAGTACCATGAAGATGTGGAGGGAAAGGTTTAAGTCGCAACGGCGAA
1 TTCAGTACCATGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * * * * *
27240511 CCTT--GCACC-TCAGGAGCATGAAGGGAAAGATTTAAGCCACAACGGCGAA
1 --TTCAGTACCATGAAGA-TATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * * * *
27240560 TCCAGTACCACGAGGACATGCAA-GGAAAGGTTTAAGTCGCAACGGCGAA
1 TTCAGTACCATGAAGATATG-AAGGGAAAGATTTAAGTCGCAACGGCGAA
*
27240609 CCTT--GTACC-TCAGAA-ACATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
1 --TTCAGTACCAT--GAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * *
27240658 -TCTAGTACCAGGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAA
1 TTC-AGTACCATGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * * *
27240707 CCTT--GTACC-TCAGAAG-CATGAAGGGAGAA-ATTTAAGCCACAACGGCAAA
1 --TTCAGTACCAT--GAAGATATGAAGGGA-AAGATTTAAGTCGCAACGGCGAA
* * * * *
27240756 TCCAGTACCACGAAGATATGGAGGGAAAGATTTAAGTCGTAACCGCGAA
1 TTCAGTACCATGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
* * * *
27240805 CCTT-A-TACC-TCGAA-AGCATGAAGAGAAAGATTTAAGCCGCAACGGTGAA
1 --TTCAGTACCAT-GAAGA-TATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
**
27240854 -TCTAGTACCACAAAGATATGGAA-GGAAAG
1 TTC-AGTACCATGAAGATAT-GAAGGGAAAG
27240883 GTTTCGACCG
Statistics
Matches: 322, Mismatches: 61, Indels: 76
0.70 0.13 0.17
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 17 0.05
49 277 0.86
50 19 0.06
51 4 0.01
52 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (49 bp):
TTCAGTACCATGAAGATATGAAGGGAAAGATTTAAGTCGCAACGGCGAA
Found at i:27240599 original size:98 final size:98
Alignment explanation
Indices: 27240430--27240886 Score: 639
Period size: 98 Copynumber: 4.7 Consensus size: 98
27240420 CCACGAAGAT
* * * * *
27240430 ATGAAGGGAAAAATTTAAGCCGTAACGGCGAATTCAGTACCATGAAGATGTGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
* *
27240495 AAGTCGCAACGGCGAACCTTGCACCTCAGGAGC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
* * * * *
27240528 ATGAAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAGGACATGCAAGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
*
27240593 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
* * *
27240626 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCAGGAAGATATGGAGGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
27240691 AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
66 AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
* * *
27240724 ATGAAGGGAGAA-ATTTAAGCCACAACGGCAAATCCAGTACCACGAAGATATGGAGGGAAAGATT
1 ATGAAGGGA-AAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTT
* * *
27240788 TAAGTCGTAACCGCGAACCTTATACCTC-GAAAGC
65 TAAGTCGCAACGGCGAACCTTGTACCTCAG-AAGC
* * * * *
27240822 ATGAAGAGAAAGATTTAAGCCGCAACGGTGAATCTAGTACCACAAAGATATGGAAGGAAAGGTTT
1 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
27240887 CGACCGCAAC
Statistics
Matches: 317, Mismatches: 39, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
97 3 0.01
98 312 0.98
99 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.18
Consensus pattern (98 bp):
ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATATGGAGGGAAAGGTTT
AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
Found at i:27240929 original size:98 final size:98
Alignment explanation
Indices: 27240430--27240947 Score: 567
Period size: 98 Copynumber: 5.3 Consensus size: 98
27240420 CCACGAAGAT
* * ** * * * *
27240430 ATGAAGGGAAAAATTTAAGCCGTAACGGCGAATTCAGTACCATGAAGATGTGGAGGGAAAGGTTT
1 ATGAAGAGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTTT
* * * *
27240495 AAGTCGCAACGGCGAACCTTGCACCTCAGGAGC
66 AAGTCGCAACGGCGAACCTAGTACCTCAGAAAC
* * * *
27240528 ATGAAGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAGGACATGCAAGGAAAGGTTT
1 ATGAAGAGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTTT
*
27240593 AAGTCGCAACGGCGAACCTTGTACCTCAGAAAC
66 AAGTCGCAACGGCGAACCTAGTACCTCAGAAAC
* * * * * *
27240626 ATGAAGGGAAAGATTTAAGTCGCAACGGCGAATCTAGTACCAGGAAGATATGGAGGGAAAGGTTT
1 ATGAAGAGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTTT
* *
27240691 AAGTCGCAACGGCGAACCTTGTACCTCAGAAGC
66 AAGTCGCAACGGCGAACCTAGTACCTCAGAAAC
* * * *
27240724 ATGAAGGGAGAA-ATTTAAGCCACAACGGCAAATCCAGTACCACGAAGATATGGAGGGAAAGATT
1 ATGAAGAGA-AAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTT
* *
27240788 TAAGTCGTAACCGCGAACCTTA-TACCTC-GAAAGC
65 TAAGTCGCAACGGCGAACC-TAGTACCTCAGAAA-C
* * * *
27240822 ATGAAGAGAAAGATTTAAGCCGCAACGGTGAATCTAGTACCACAAAGATATGGAAGGAAAGGTTT
1 ATGAAGAGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTTT
* * ** * *
27240887 -CGACCGCAACGGTAAACCCAGTACCTTAGAAAC
66 AAG-TCGCAACGGCGAACCTAGTACCTCAGAAAC
* ** *
27240920 ATGACGAGAAAGATCGAACCCACAACGG
1 ATGAAGAGAAAGATTTAAGCCACAACGG
27240948 TGAAACTTCT
Statistics
Matches: 360, Mismatches: 53, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
97 7 0.02
98 346 0.96
99 7 0.02
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (98 bp):
ATGAAGAGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGATATGGAAGGAAAGGTTT
AAGTCGCAACGGCGAACCTAGTACCTCAGAAAC
Found at i:27241273 original size:102 final size:103
Alignment explanation
Indices: 27240984--27241311 Score: 500
Period size: 102 Copynumber: 3.2 Consensus size: 103
27240974 GGATCAGATC
* *
27240984 AAAACTAAATAGCAAGTCTTTATCTCTCTGAAGTTGCAATAAGAGCAAGATGAAGCTTCAACGTC
1 AAAACTAAATAACAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGTC
*
27241049 AAATCCTATCCTCTTGAAGTTATAGTGAAGTTGGATTA
66 AAATCCTATCCTCTTGAAGTTGTAGTGAAGTTGGATTA
27241087 AAAACTACAATAACAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGT
1 AAAACTA-AATAACAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGT
*
27241152 CAAATCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATTA
65 CAAATCCTATCCTCTTGAAGTTGTAGTGAAGTTGGATTA
* * *
27241191 AAAAC-AAATAACAGGTCTTTATCTCTCTGAAGTTGCAGTAAAAGCAAGATGAAACTTCAACGTC
1 AAAACTAAATAACAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGTC
* * *
27241255 AAATTCTATCTTGC-TGAAGTTGCAGTGAAGTTGGATTA
66 AAATCCTATCCT-CTTGAAGTTGTAGTGAAGTTGGATTA
* * *
27241293 GAAAC-AAATAGCAAATCTT
1 AAAACTAAATAACAAGTCTT
27241312 GATTTCCCCA
Statistics
Matches: 208, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
102 102 0.49
103 9 0.04
104 97 0.47
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (103 bp):
AAAACTAAATAACAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGTC
AAATCCTATCCTCTTGAAGTTGTAGTGAAGTTGGATTA
Found at i:27243287 original size:30 final size:30
Alignment explanation
Indices: 27243248--27243448 Score: 280
Period size: 30 Copynumber: 6.8 Consensus size: 30
27243238 TCTCCGAACC
*
27243248 TTTCCAAAATTACATTTTAACCCTTAAACT
1 TTTCCAAAATTACATTTTAACCCCTAAACT
* * *
27243278 TTTCTAAAATTATATTTTGACCCCTAAACT
1 TTTCCAAAATTACATTTTAACCCCTAAACT
*
27243308 TTTCCAAAATTACATTTTAACCTC-AAACT
1 TTTCCAAAATTACATTTTAACCCCTAAACT
27243337 TTTCCAAAATTACATTTTAACCCCTAAACT
1 TTTCCAAAATTACATTTTAACCCCTAAACT
*
27243367 TTTCCAAAATTACATTTTGACCCCTAAAC-
1 TTTCCAAAATTACATTTTAACCCCTAAACT
* * * *
27243396 TTTCCAAAGTCACACTTTAACCCCCAAACT
1 TTTCCAAAATTACATTTTAACCCCTAAACT
* *
27243426 TTTCCAAAATCACATTTTGACCC
1 TTTCCAAAATTACATTTTAACCC
27243449 TCGAGCTTTT
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
29 52 0.34
30 99 0.66
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (30 bp):
TTTCCAAAATTACATTTTAACCCCTAAACT
Found at i:27243360 original size:59 final size:59
Alignment explanation
Indices: 27243248--27243466 Score: 269
Period size: 59 Copynumber: 3.7 Consensus size: 59
27243238 TCTCCGAACC
* * * *
27243248 TTTCCAAAATTACATTTTAACCCTTAAACTTTTCTAAAATTATATTTTGACCCCTAAACT
1 TTTCCAAAATTACATTTTAA-CCTCAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
27243308 TTTCCAAAATTACATTTTAACCTCAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
1 TTTCCAAAATTACATTTTAACCTCAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
* * * * * *
27243367 TTTCCAAAATTACATTTTGACCCCTAAAC-TTTCCAAAGTCACACTTTAACCCCCAAACT
1 TTTCCAAAATTACATTTTAACCTC-AAACTTTTCCAAAATTACATTTTAACCCCTAAACT
* * * * *
27243426 TTTCCAAAATCACATTTTGACCCTCGAGCTTTTCTAAAATT
1 TTTCCAAAATTACATTTT-AACCTCAAACTTTTCCAAAATT
27243467 TCCTTTTCAT
Statistics
Matches: 137, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
59 102 0.74
60 35 0.26
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (59 bp):
TTTCCAAAATTACATTTTAACCTCAAACTTTTCCAAAATTACATTTTAACCCCTAAACT
Found at i:27243458 original size:89 final size:89
Alignment explanation
Indices: 27243248--27243466 Score: 307
Period size: 89 Copynumber: 2.5 Consensus size: 89
27243238 TCTCCGAACC
* *
27243248 TTTCCAAAATTACATTTTAACCCTTAAACTTTTCTAAAATTATATTTTGACCCCTAAACTTTTCC
1 TTTCCAAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCC
* * *
27243313 AAAATTACATTTTAACCTCAAACT
66 AAAATCACACTTTAACCCCAAACT
*
27243337 TTTCCAAAATTACATTTTAACCC-CTAAACTTTTCCAAAATTACATTTTGACCCCTAAAC-TTTC
1 TTTCCAAAATTACATTTTAACCCTC-AAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTC
*
27243400 CAAAGTCACACTTTAACCCCCAAACT
65 CAAAATCACACTTTAA-CCCCAAACT
* * * *
27243426 TTTCCAAAATCACATTTTGACCCTCGAGCTTTTCTAAAATT
1 TTTCCAAAATTACATTTTAACCCTCAAACTTTTCTAAAATT
27243467 TCCTTTTCAT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
88 17 0.15
89 97 0.84
90 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (89 bp):
TTTCCAAAATTACATTTTAACCCTCAAACTTTTCTAAAATTACATTTTGACCCCTAAACTTTTCC
AAAATCACACTTTAACCCCAAACT
Found at i:27248729 original size:14 final size:14
Alignment explanation
Indices: 27248707--27248745 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
27248697 TATTTATTTG
*
27248707 AAAAAATATTTTTT
1 AAAAAATATTTTAT
*
27248721 AAGAAATA-TTTAT
1 AAAAAATATTTTAT
27248734 AAAAAATATTTT
1 AAAAAATATTTT
27248746 GAAATTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
AAAAAATATTTTAT
Found at i:27249662 original size:14 final size:13
Alignment explanation
Indices: 27249637--27249669 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
27249627 AAAATAAATA
27249637 TAATTTAATTAAT
1 TAATTTAATTAAT
27249650 TAATTTAAATTAAT
1 TAATTT-AATTAAT
27249664 TAATTT
1 TAATTT
27249670 TTCAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATTTAATTAAT
Found at i:27249678 original size:16 final size:16
Alignment explanation
Indices: 27249641--27249691 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
27249631 TAAATATAAT
*
27249641 TTAATTAATTAATTTAAA
1 TTAATTAATT--TTTCAA
27249659 TTAATTAATTTTTCAA
1 TTAATTAATTTTTCAA
*
27249675 TTAAATAATTTTCTCAA
1 TTAATTAATTTT-TCAA
27249692 CCAAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 16 0.53
17 4 0.13
18 10 0.33
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATTAATTTTTCAA
Found at i:27253129 original size:16 final size:16
Alignment explanation
Indices: 27253108--27253139 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27253098 AGAAATTTTT
*
27253108 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
27253124 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
27253140 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:27253902 original size:94 final size:93
Alignment explanation
Indices: 27253738--27253963 Score: 321
Period size: 94 Copynumber: 2.4 Consensus size: 93
27253728 TTTGCATATT
* * * * * *
27253738 CTCGTCAGCTTAGTGTGAGCAGCATTGT-TA-GGGAACAGTTATATGTACAGATACTGTATCGAT
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACGGTAATAGTTATATGAACAAATACCGTATCGAT
*
27253801 GGCTGAGGTATTGCATATGTTGCGAGTC
66 GGCTGAGGTATCGCATATGTTGCGAGTC
27253829 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAATAGTTATATGAACAAATACCGTATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATAC-GGTAATAGTTATATGAACAAATACCGTATCGA
*
27253894 TGGCTGAGGTATCGCATATGTTGCTAGTC
65 TGGCTGAGGTATCGCATATGTTGCGAGTC
* * *
27253923 CTCGTTAACTTAGTGTGAGCAGCATCATATACCGGTAATAG
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATA-CGGTAATAG
27253964 AAATGACATT
Statistics
Matches: 120, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 27 0.22
92 2 0.02
94 90 0.75
95 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (93 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCGTATACGGTAATAGTTATATGAACAAATACCGTATCGAT
GGCTGAGGTATCGCATATGTTGCGAGTC
Found at i:27260356 original size:16 final size:16
Alignment explanation
Indices: 27260331--27260367 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27260321 AAGTCTAACT
*
27260331 TTTAATAATCCAAAAA
1 TTTAACAATCCAAAAA
*
27260347 TTTAACAATCCAAACA
1 TTTAACAATCCAAAAA
27260363 TTTAA
1 TTTAA
27260368 TCCATTACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.32
Consensus pattern (16 bp):
TTTAACAATCCAAAAA
Done.