Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 67 of 284
Found at i:23311849 original size:22 final size:20
Alignment explanation
Indices: 23311791--23311842 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
23311781 ATCACCCCAA
*
23311791 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
23311811 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
23311833 TTTTATTTTA
1 TTTTATTTTA
23311843 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:23311896 original size:16 final size:17
Alignment explanation
Indices: 23311875--23311916 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
23311865 ATTCTTATAC
23311875 TTATATTTAAATTTTT-
1 TTATATTTAAATTTTTA
*
23311891 TTATATTTTAATTTTTA
1 TTATATTTAAATTTTTA
23311908 TTAT-TTTAA
1 TTATATTTAA
23311917 TTTCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATATTTAAATTTTTA
Found at i:23311912 original size:15 final size:15
Alignment explanation
Indices: 23311878--23311924 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
23311868 CTTATACTTA
* *
23311878 TATTTAAATTTTTTT
1 TATTTTAATTTTTAT
23311893 ATATTTTAATTTTTAT
1 -TATTTTAATTTTTAT
*
23311909 TATTTTAATTTCTAT
1 TATTTTAATTTTTAT
23311924 T
1 T
23311925 TTGTTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTAATTTTTAT
Found at i:23311956 original size:14 final size:14
Alignment explanation
Indices: 23311891--23311958 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
23311881 TTAAATTTTT
*
23311891 TTATATTTTAATTT-
1 TTAT-TTTTTATTTC
23311905 TTATTATTTTAATTTC
1 TTATT-TTTT-ATTTC
23311921 -TATTTTGTTATTTC
1 TTATTTT-TTATTTC
* *
23311935 TATTTTTTTTCTTTC
1 T-TATTTTTTATTTC
23311950 TTATTTTTT
1 TTATTTTTT
23311959 TTACTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.02
14 21 0.48
15 17 0.39
16 5 0.11
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (14 bp):
TTATTTTTTATTTC
Found at i:23311958 original size:15 final size:14
Alignment explanation
Indices: 23311896--23311959 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
23311886 TTTTTTTATA
* *
23311896 TTTTAATTTTTATT
1 TTTTTATTTCTATT
*
23311910 ATTTTAATTTCTATT
1 -TTTTTATTTCTATT
*
23311925 TTGTTATTTCTATTT
1 TTTTTATTTCTA-TT
*
23311940 TTTTTCTTTCTTATT
1 TTTTTATTTC-TATT
23311955 TTTTT
1 TTTTT
23311960 TACTATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 10 0.24
15 30 0.71
16 2 0.05
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTTATTTCTATT
Found at i:23314994 original size:401 final size:401
Alignment explanation
Indices: 23314251--23315044 Score: 1444
Period size: 401 Copynumber: 2.0 Consensus size: 401
23314241 AGATGAAACC
23314251 TTTGACGGATCTTATTATTTAATTTTTTGAATTACATGATAAATACTTGTTCTTGCTCTTAATTA
1 TTTGACGGATCTTATTATTTAATTTTTTGAATTACATGATAAATACTTGTTCTTGCTCTTAATTA
23314316 TGTGTTATTAATTCTTGCCTTAATATTTTTAGGATATTAATTCAAGTTTGATGTGCTTATTCAAT
66 TGTGTTATTAATTCTTGCCTTAATATTTTTAGGATATTAATTCAAGTTTGATGTGCTTATTCAAT
23314381 GGAGCAAAAGTCCCTGTTTAAGAGTAGATCTAGCATAACTTAGCGAAGTTGATTGCAATCCTAGA
131 GGAGCAAAAGTCCCTGTTTAAGAGTAGATCTAGCATAACTTAGCGAAGTTGATTGCAATCCTAGA
23314446 AATAGGACGACATAAATCTGTCAGATTAGAGTCAAATCTAATAAGGGAATCCATAGATCGAATTA
196 AATAGGACGACATAAATCTGTCAGATTAGAGTCAAATCTAATAAGGGAATCCATAGATCGAATTA
* * * *
23314511 ATGCGACAATATGAGTTTTAATTAGAATGAGATTCCAATTAATCAACCTAGAGTCAATTGTTCTT
261 AAGCGACAATAGGAGTTTTAATTAGAAAGAGATTCCAATTAATCAACCTAGAATCAATTGTTCTT
* **
23314576 AGTCTCAAAAGAGATATTAACATGATTTAGGGATTTTTACGGATCAAGACAAGTGAATAAATCAT
326 AGTCTCAAAAGAGATATTAACATAATTTAGGGATTCCTACGGATCAAGACAAGTGAATAAATCAT
23314641 TTATTTAATTT
391 TTATTTAATTT
23314652 TTTGACGGATCTTATTATTTAATTTTTTGAATTACATGATAAATACTTGTTCTTGCTCTTAATTA
1 TTTGACGGATCTTATTATTTAATTTTTTGAATTACATGATAAATACTTGTTCTTGCTCTTAATTA
23314717 TGTGTTATTAATTCTTGCCTTAATATTTTTAGGATATTAATTCAAGTTTGATGTGCTTATTCAAT
66 TGTGTTATTAATTCTTGCCTTAATATTTTTAGGATATTAATTCAAGTTTGATGTGCTTATTCAAT
23314782 GGAGCAAAAGTCCCTGTTTAAGAGTAGATCTAGCATAACTTAGCGAAGTTGATTGCAATCCTAGA
131 GGAGCAAAAGTCCCTGTTTAAGAGTAGATCTAGCATAACTTAGCGAAGTTGATTGCAATCCTAGA
*
23314847 AATAGGACGACATAAATCTGTCAGATTAGAGTCAAATCTAATAAGGGAATCCATAGATCGAGTTA
196 AATAGGACGACATAAATCTGTCAGATTAGAGTCAAATCTAATAAGGGAATCCATAGATCGAATTA
* * * * *
23314912 AAGTGACAATAGGGGTTTTACTTAGAAAGAGATTTCAATTAATCAACCTAGAATCAGTTGTTCTT
261 AAGCGACAATAGGAGTTTTAATTAGAAAGAGATTCCAATTAATCAACCTAGAATCAATTGTTCTT
** *
23314977 AGTCTTGAAAGAGATATTAACATAATTTAGGGATTCCTACGGATCAAGACAAGTGAATAAATCTT
326 AGTCTCAAAAGAGATATTAACATAATTTAGGGATTCCTACGGATCAAGACAAGTGAATAAATCAT
23315042 TTA
391 TTA
23315045 ATTCAGAGTC
Statistics
Matches: 377, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
401 377 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (401 bp):
TTTGACGGATCTTATTATTTAATTTTTTGAATTACATGATAAATACTTGTTCTTGCTCTTAATTA
TGTGTTATTAATTCTTGCCTTAATATTTTTAGGATATTAATTCAAGTTTGATGTGCTTATTCAAT
GGAGCAAAAGTCCCTGTTTAAGAGTAGATCTAGCATAACTTAGCGAAGTTGATTGCAATCCTAGA
AATAGGACGACATAAATCTGTCAGATTAGAGTCAAATCTAATAAGGGAATCCATAGATCGAATTA
AAGCGACAATAGGAGTTTTAATTAGAAAGAGATTCCAATTAATCAACCTAGAATCAATTGTTCTT
AGTCTCAAAAGAGATATTAACATAATTTAGGGATTCCTACGGATCAAGACAAGTGAATAAATCAT
TTATTTAATTT
Found at i:23323947 original size:28 final size:28
Alignment explanation
Indices: 23323884--23324121 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
23323874 ATATTAAGTC
* *
23323884 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23323911 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23323939 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23323967 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23323995 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23324023 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23324051 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
23324079 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
23324107 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23324122 GTACAATTTA
Statistics
Matches: 203, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
27 22 0.11
28 181 0.89
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:23330881 original size:147 final size:147
Alignment explanation
Indices: 23330614--23330907 Score: 570
Period size: 147 Copynumber: 2.0 Consensus size: 147
23330604 CATATCTTGA
*
23330614 ATTTCGTAACTCGAAAATCAGTTCTGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATG
1 ATTTCGTAACTCGAAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATG
23330679 TAATTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTT
66 TAATTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTT
23330744 GCAGGGGTCGACTACAC
131 GCAGGGGTCGACTACAC
23330761 ATTTCGTAACTCGAAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATG
1 ATTTCGTAACTCGAAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATG
*
23330826 TAATTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTT
66 TAATTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTT
23330891 GCAGGGGTCGACTACAC
131 GCAGGGGTCGACTACAC
23330908 TGACCTTTGC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (147 bp):
ATTTCGTAACTCGAAAATCAGTTCCGTAATTTTTCCCAGAAACTAGACTCATGTGCCCATCTATG
TAATTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCAAGTT
GCAGGGGTCGACTACAC
Found at i:23335763 original size:21 final size:20
Alignment explanation
Indices: 23335735--23335773 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23335725 TAATTTTTAA
23335735 TTTTATTCAATT-AATTATTT
1 TTTTATTC-ATTGAATTATTT
23335755 TTTTAATTCATTGAATTAT
1 TTTT-ATTCATTGAATTAT
23335774 CAAAAATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTATTCATTGAATTATTT
Found at i:23341582 original size:43 final size:43
Alignment explanation
Indices: 23341522--23341660 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 43
23341512 TCTCAAATGT
* * *
23341522 GGTCTTACATGT-GATCAAATATTGATGCCACTATCCTAGACAA
1 GGTCTTACACGTAAATCAAATATTGATGCCA-TATCCCAGACAA
* * * *
23341565 GGTCTTACACG-AAATCAAATA-CGATGCTGATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATATTGATGC-CATATCCCAGACAA
* * * **
23341607 GGTCTTACACGTAAATCTTAA-ATTGATGCCAACATCCCAAACTT
1 GGTCTTACACGTAAATC-AAATATTGATGCC-ATATCCCAGACAA
23341651 GGTCTTACAC
1 GGTCTTACAC
23341661 AAAATCTCAT
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
42 25 0.33
43 25 0.33
44 26 0.34
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAATATTGATGCCATATCCCAGACAA
Found at i:23344716 original size:42 final size:42
Alignment explanation
Indices: 23344669--23344790 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
23344659 TAGGGTTAGT
* *
23344669 TGAGATTACGTATAAGACCATATCTGGGATATGGCATCAATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* * * *
23344711 TGAGATTTCGCGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATA
*
23344754 TGAAATTTCGTGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
23344791 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:23353283 original size:13 final size:13
Alignment explanation
Indices: 23353265--23353298 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23353255 GTTTATTAAA
*
23353265 CTAATTATCTAAT
1 CTAATTAACTAAT
23353278 CTAATTAACTAAT
1 CTAATTAACTAAT
*
23353291 TTAATTAA
1 CTAATTAA
23353299 AGCAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (13 bp):
CTAATTAACTAAT
Found at i:23356016 original size:40 final size:39
Alignment explanation
Indices: 23355965--23356097 Score: 146
Period size: 40 Copynumber: 3.3 Consensus size: 39
23355955 GTCGGTATCA
* *
23355965 CACACTTAGTGCCTTATATAGTCGAAGCTAT-TCCAACTCG
1 CACACTTAGTGCCTT-TATAGCCGAAGCTATAT-AAACTCG
* *
23356005 CACACTTAGTGCCATTTGTAGCCGAAGCTATATTAAAC-CT
1 CACACTTAGTGCC-TTTATAGCCGAAGCTATA-TAAACTCG
*
23356045 CACACTTAGTGTCATTTATAGCCGAAGCTATATTAAA-TCG
1 CACACTTAGTG-CCTTTATAGCCGAAGCTATA-TAAACTCG
23356085 CACACTTAGTGCC
1 CACACTTAGTGCC
23356098 AAGCATAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 72 0.90
41 6 0.08
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (39 bp):
CACACTTAGTGCCTTTATAGCCGAAGCTATATAAACTCG
Found at i:23363839 original size:48 final size:48
Alignment explanation
Indices: 23363767--23363995 Score: 314
Period size: 48 Copynumber: 4.8 Consensus size: 48
23363757 CAAGATAAAT
* * * * *
23363767 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * * * *
23363815 ATATGTGTATGTGGTAAAGTCGAATGGCTGATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
23363863 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
23363911 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
23363959 ATATGTATATATGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
23363996 TGTTGTAACA
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 164 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:23367495 original size:40 final size:40
Alignment explanation
Indices: 23367447--23367540 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
23367437 GTCGGTATCA
23367447 CACACTTAGCGCC-TTATATAGTCGAAGCTAT-TCAAACTCG
1 CACACTTAGCGCCATT-TATAGTCGAAGCTATATCAAAC-CG
* * *
23367487 CACACTTAGTGCCATTTGTAGTCGAAGCTATATTAAACCG
1 CACACTTAGCGCCATTTATAGTCGAAGCTATATCAAACCG
*
23367527 CACACTTAGTGCCA
1 CACACTTAGCGCCA
23367541 AGCATAATCG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (40 bp):
CACACTTAGCGCCATTTATAGTCGAAGCTATATCAAACCG
Found at i:23367552 original size:40 final size:40
Alignment explanation
Indices: 23367468--23367552 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
23367458 CCTTATATAG
**** *
23367468 TCGAAGCTATTCAAACTCGCACACTTAGTGCCATTTGTAG
1 TCGAAGCTATTCAAACTCGCACACTTAGTGCCAAGCATAA
*
23367508 TCGAAGCTATATTAAAC-CGCACACTTAGTGCCAAGCATAA
1 TCGAAGCTAT-TCAAACTCGCACACTTAGTGCCAAGCATAA
23367548 TCGAA
1 TCGAA
23367553 TATCAGCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TCGAAGCTATTCAAACTCGCACACTTAGTGCCAAGCATAA
Found at i:23372235 original size:5 final size:5
Alignment explanation
Indices: 23372208--23372263 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
23372198 TTCATACATC
*
23372208 TTTCTT TTTCTT TTTGT TATTCT TTTCT TTTCT TTTC- TTTCT TTTCT
1 TTTC-T TTTC-T TTTCT T-TTCT TTTCT TTTCT TTTCT TTTCT TTTCT
23372255 TTTCCT TTT
1 TTT-CT TTT
23372264 TCCTACCTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.09
5 23 0.51
6 18 0.40
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTCT
Found at i:23372242 original size:10 final size:10
Alignment explanation
Indices: 23372208--23372263 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
23372198 TTCATACATC
23372208 TTTCTTTTTCTT
1 TTTC-TTTTC-T
*
23372220 TTTGTTATTCT
1 TTTCTT-TTCT
23372231 TTTCTTTTCT
1 TTTCTTTTCT
23372241 TTTC-TTTCT
1 TTTCTTTTCT
23372250 TTTCTTTTCCT
1 TTTCTTTT-CT
23372261 TTT
1 TTT
23372264 TCCTACCTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 9 0.23
10 11 0.28
11 13 0.33
12 6 0.15
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTCTTTTCT
Found at i:23372250 original size:14 final size:14
Alignment explanation
Indices: 23372231--23372258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23372221 TTGTTATTCT
23372231 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
23372245 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
23372259 CTTTTTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:23372251 original size:19 final size:19
Alignment explanation
Indices: 23372206--23372263 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
23372196 TGTTCATACA
*
23372206 TCTTTCTTTTTCTTTT-TGT
1 TCTTTC-TTTTCTTTTCTTT
*
23372225 T-ATTCTTTTCTTTTCTTT
1 TCTTTCTTTTCTTTTCTTT
23372243 TCTTTCTTTTCTTTTCCTTT
1 TCTTTCTTTTCTTTT-CTTT
23372263 T
1 T
23372264 TCCTACCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 9 0.27
18 6 0.18
19 13 0.39
20 5 0.15
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (19 bp):
TCTTTCTTTTCTTTTCTTT
Found at i:23379501 original size:44 final size:44
Alignment explanation
Indices: 23379446--23379539 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
23379436 TGGATGTCAC
* * *
23379446 ATGCATCGCATCCATAATGAACTCGGACCAACTCGACGAGCTCGG
1 ATGC-TCGCATCCATAATGAACTCGAACCAACTCAACGAGCTCAG
* * *
23379491 ATGCTCGCATCTATAATGAGCTTGAACCAACTCAACGAGCTCAG
1 ATGCTCGCATCCATAATGAACTCGAACCAACTCAACGAGCTCAG
23379535 ATGCT
1 ATGCT
23379540 TCACATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 39 0.91
45 4 0.09
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
ATGCTCGCATCCATAATGAACTCGAACCAACTCAACGAGCTCAG
Found at i:23379629 original size:45 final size:45
Alignment explanation
Indices: 23379519--23379630 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
23379509 AGCTTGAACC
* **
23379519 AACTCAACGAGCTC-AGA-TGCTTCACATATATCATGAACTTGGACA
1 AACTCAACGAGCTCGA-ATTTC-TCACATATATCACAAACTTGGACA
** * * *
23379564 AACTCAATAAGTTCGGATTTCTCACATATATCACAAACTTGGACT
1 AACTCAACGAGCTCGAATTTCTCACATATATCACAAACTTGGACA
23379609 AACTCAACGAGCTCGAATTTCT
1 AACTCAACGAGCTCGAATTTCT
23379631 AAATTCCTAG
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
45 51 0.96
46 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (45 bp):
AACTCAACGAGCTCGAATTTCTCACATATATCACAAACTTGGACA
Found at i:23381657 original size:19 final size:19
Alignment explanation
Indices: 23381633--23381672 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
23381623 GCAGTGACAA
23381633 CCACAACTATG-AAGATTGT
1 CCACAAC-ATGAAAGATTGT
23381652 CCACAACATGCAAAGATTGT
1 CCACAACATG-AAAGATTGT
23381672 C
1 C
23381673 TTTTATGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 7 0.37
20 9 0.47
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (19 bp):
CCACAACATGAAAGATTGT
Found at i:23388206 original size:8 final size:8
Alignment explanation
Indices: 23388193--23388223 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
23388183 ATAAACTATG
23388193 TTTAATAA
1 TTTAATAA
23388201 TTTAATAA
1 TTTAATAA
23388209 TTTAATAA
1 TTTAATAA
23388217 TTGTAAT
1 TT-TAAT
23388224 TGTTGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (8 bp):
TTTAATAA
Found at i:23391162 original size:39 final size:40
Alignment explanation
Indices: 23391117--23391288 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
23391107 GCTCCTCGTT
* * *
23391117 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
23391157 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
23391196 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
23391236 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
23391276 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23391289 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:23391217 original size:40 final size:39
Alignment explanation
Indices: 23391119--23391341 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
23391109 TCCTCGTTCA
* * * *
23391119 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
23391158 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
23391197 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
23391237 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
23391277 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
23391318 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23391342 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:23391301 original size:80 final size:79
Alignment explanation
Indices: 23391117--23391341 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
23391107 GCTCCTCGTT
* * * * *
23391117 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
23391181 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
23391196 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
23391261 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
23391276 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
23391340 GA
63 GA
23391342 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:23391350 original size:41 final size:41
Alignment explanation
Indices: 23391273--23391350 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23391263 TTTGTATCTC
* * *
23391273 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23391314 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23391351 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23393736 original size:25 final size:25
Alignment explanation
Indices: 23393705--23393773 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
23393695 GCTATAAACG
23393705 GTAAGCTCCTCTGAGCTGAATAACA
1 GTAAGCTCCTCTGAGCTGAATAACA
**
23393730 GTAAGCTCCTCTGAGCTGAATAATG
1 GTAAGCTCCTCTGAGCTGAATAACA
* *
23393755 GTAAGCTCATGTGAGCTGA
1 GTAAGCTCCTCTGAGCTGA
23393774 GTATTGACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (25 bp):
GTAAGCTCCTCTGAGCTGAATAACA
Found at i:23411015 original size:33 final size:33
Alignment explanation
Indices: 23410977--23411043 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
23410967 AATAATCTAG
*
23410977 ATGCATTTGCATGGTCTCTGGCAATGGAAATGC
1 ATGCATTTGCATGGTCTCTGGCAATGCAAATGC
23411010 ATGCATTTGCATGGTCTCTGGCAATGCAAATGC
1 ATGCATTTGCATGGTCTCTGGCAATGCAAATGC
23411043 A
1 A
23411044 CTTTTAGCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (33 bp):
ATGCATTTGCATGGTCTCTGGCAATGCAAATGC
Found at i:23427194 original size:82 final size:84
Alignment explanation
Indices: 23427038--23427207 Score: 299
Period size: 82 Copynumber: 2.0 Consensus size: 84
23427028 AAGGCATCTA
*
23427038 TAAAATCTGCTTTGACCTAAGAAAATAAAACAATAAAATTAAGAAATAAAGCAAGAAAGAAAAAA
1 TAAAATCTGCTTTGACCTAAGAAAATAAAACAATAAAA-TAAGAAAGAAAGCAAGAAAGAAAAAA
23427103 GCAAATTGGAATATGAATGC
65 GCAAATTGGAATATGAATGC
*
23427123 TAAAATCTGCTTTGACCTAAGAAAATAAAACAAT-GAA-AAGAAAGAAAGCAAGAAAGAAAAAAG
1 TAAAATCTGCTTTGACCTAAGAAAATAAAACAATAAAATAAGAAAGAAAGCAAGAAAGAAAAAAG
23427186 CAAATTGGAATATGAATGC
66 CAAATTGGAATATGAATGC
23427205 TAA
1 TAA
23427208 CTGATGCAGG
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
82 47 0.57
84 2 0.02
85 34 0.41
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.19
Consensus pattern (84 bp):
TAAAATCTGCTTTGACCTAAGAAAATAAAACAATAAAATAAGAAAGAAAGCAAGAAAGAAAAAAG
CAAATTGGAATATGAATGC
Found at i:23430963 original size:34 final size:36
Alignment explanation
Indices: 23430920--23431006 Score: 97
Period size: 43 Copynumber: 2.3 Consensus size: 36
23430910 AGTTTCTTTT
23430920 ATTTTCATAA-T-TTCAGGGGAATCGACAATTAGCA
1 ATTTTCATAATTATTCAGGGGAATCGACAATTAGCA
23430954 ATTTTCATAATTGAAGAAACTTCAGGGGAATCGACAATTAGCA
1 ATTTTCATAATT------A-TTCAGGGGAATCGACAATTAGCA
23430997 ATTTTCATAA
1 ATTTTCATAA
23431007 ATTTTTCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
34 10 0.23
35 1 0.02
43 33 0.75
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (36 bp):
ATTTTCATAATTATTCAGGGGAATCGACAATTAGCA
Found at i:23433979 original size:40 final size:40
Alignment explanation
Indices: 23433924--23434392 Score: 857
Period size: 40 Copynumber: 11.7 Consensus size: 40
23433914 GAGCATTTGA
*
23433924 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23433964 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434004 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434044 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434084 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434124 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434164 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434204 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23434244 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
23434284 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23434324 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
** *
23434364 GGTATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATGTCCGGGCTAAGACCCGAAGGCAA
23434393 AGGTGTTTGC
Statistics
Matches: 418, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 418 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
AATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:23443040 original size:40 final size:40
Alignment explanation
Indices: 23442985--23443087 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
23442975 GTTTTAAATG
* *
23442985 TCCGGGCTATGACCCGAAGGCAATTATGCGAGATGATATA
1 TCCGGGCTAAGACCCGAAGGCAATTATGCAAGATGATATA
* *
23443025 TCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATG
1 TCCGGGCTAAGACCCGAAGGCAATTATGCAAGATGATATA
*
23443065 TCCGGGTTAAGACCCGAAGGCAA
1 TCCGGGCTAAGACCCGAAGGCAA
23443088 AGGTGTTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.20
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATTATGCAAGATGATATA
Found at i:23443216 original size:255 final size:255
Alignment explanation
Indices: 23442765--23443238 Score: 930
Period size: 255 Copynumber: 1.9 Consensus size: 255
23442755 AGCATTTGAA
*
23442765 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATATCCGGGTTAAGACCCGAAGG
23442830 CAAAGGTGTTTGCGGTTGTATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTT
66 CAAAGGTGTTTGCGGTTGTATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTT
23442895 GTGCTGTAACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTGTGTTGCATGTGCAT
131 GTGCTGTAACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTGTGTTGCATGTGCAT
23442960 TGGAAAAGTCGATTCGTTTTAAATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
196 TGGAAAAGTCGATTCGTTTTAAATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
*
23443020 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATATCCGGGTTAAGACCCGAAGG
23443085 CAAAGGTGTTTGCGGTTGTATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTT
66 CAAAGGTGTTTGCGGTTGTATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTT
23443150 GTGCTGTAACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTGTGTTGCATGTGCAT
131 GTGCTGTAACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTGTGTTGCATGTGCAT
23443215 TGGAAAAGTCGATTCGTTTTAAAT
196 TGGAAAAGTCGATTCGTTTTAAAT
23443239 AGTATTCGTG
Statistics
Matches: 217, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 217 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (255 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATATCCGGGTTAAGACCCGAAGG
CAAAGGTGTTTGCGGTTGTATTCGGTTAAATACCGAAGAAACTTGGGTTTGAATGTGAGCGTTTT
GTGCTGTAACTAATTCAATAAATATGCTCGACCAACCCGAACGATAAGGTGTGTTGCATGTGCAT
TGGAAAAGTCGATTCGTTTTAAATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
Found at i:23450936 original size:76 final size:76
Alignment explanation
Indices: 23450849--23450996 Score: 278
Period size: 76 Copynumber: 1.9 Consensus size: 76
23450839 TTTTATGGAT
* *
23450849 GGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCTAGTGATTTGGAGTTTTGTAGCTCCA
1 GGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTTTAGTAGCTCCA
23450914 GTTATAAATAA
66 GTTATAAATAA
23450925 GGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTTTAGTAGCTCCA
1 GGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTTTAGTAGCTCCA
23450990 GTTATAA
66 GTTATAA
23450997 GTAATTTAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (76 bp):
GGAAGATATACGAGTCTATATTCAGGGAAAATTAACGGCAAGTGATTTGGAGTTTAGTAGCTCCA
GTTATAAATAA
Found at i:23451591 original size:40 final size:40
Alignment explanation
Indices: 23451536--23451723 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
23451526 AGCATTTGAA
23451536 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
23451576 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
23451616 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
23451656 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
23451696 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
23451724 AGGTGTTTGC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:23460155 original size:40 final size:40
Alignment explanation
Indices: 23460095--23460323 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
23460085 GAGCATTTGA
23460095 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23460135 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
23460175 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23460215 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
23460255 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23460295 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
23460324 AGGTGTTTGC
Statistics
Matches: 171, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 171 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:23460229 original size:80 final size:80
Alignment explanation
Indices: 23460096--23460323 Score: 420
Period size: 80 Copynumber: 2.9 Consensus size: 80
23460086 AGCATTTGAA
23460096 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
23460161 CAATTATGCGAGATG
66 CAATTATGCGAGATG
23460176 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
23460241 CAATTATGCGAGATG
66 CAATTATGCGAGATG
* * * *
23460256 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
23460321 CAA
66 CAA
23460324 AGGTGTTTGC
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 144 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (80 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGACCCGAAGG
CAATTATGCGAGATG
Found at i:23462479 original size:50 final size:50
Alignment explanation
Indices: 23462414--23463449 Score: 1912
Period size: 50 Copynumber: 20.7 Consensus size: 50
23462404 TCATTCGATA
*
23462414 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462464 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462514 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462564 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462614 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462664 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462714 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462764 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462814 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462864 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462914 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23462964 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463014 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463064 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463114 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463164 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463214 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
23463264 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
* * *
23463314 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTATGGTT
* * * * * *** *
23463365 CACATAGTAGCCTTCACTTAGTACTACACATGTAACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAT-GGTT
*
23463416 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
23463450 TTCATCGATA
Statistics
Matches: 963, Mismatches: 19, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
49 3 0.00
50 886 0.92
51 70 0.07
52 4 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTATGGTT
Found at i:23467424 original size:50 final size:50
Alignment explanation
Indices: 23467355--23467548 Score: 210
Period size: 50 Copynumber: 3.9 Consensus size: 50
23467345 TAAATGATAC
* * * * *
23467355 CCGGTTCACATAGTAGCCTGCTCATAGTACTACACATGTGACCATTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCAT
* * * * *
23467405 CCGATACACGTAGTAGCCTGCACATATTACTACACACGTGATCAAAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATC-AT
** * * * * *
23467456 CCGGTATGCATAGTAGCCTGCATATAGTACTACAGATGCGACC-TATCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-T
23467506 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC
23467549 TAGCAACTTC
Statistics
Matches: 113, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 1 0.01
50 77 0.68
51 35 0.31
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCAT
Found at i:23467485 original size:101 final size:101
Alignment explanation
Indices: 23467363--23467546 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
23467353 ACCCGGTTCA
* *
23467363 CATAGTAGCCTGCTCATAGTACTACACATGTGACCATTTCA-TCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCTCATAGTACTACACATGCGACC-TATCATTCCGATACACGTAGTAGCCTGCA
*
23467427 CATATTACTACACACGTGATCAAAGCTATCCGGTATG
65 CATAGTACTACACACGTGATCAAAGCTATCCGGTATG
* *
23467464 CATAGTAGCCTGCAT-ATAGTACTACAGATGCGACCTATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGC-TCATAGTACTACACATGCGACCTATCATTCCGATACACGTAGTAGCCTGCA
23467528 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
23467547 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 4 0.05
101 71 0.93
102 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCTCATAGTACTACACATGCGACCTATCATTCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAGCTATCCGGTATG
Found at i:23470597 original size:20 final size:20
Alignment explanation
Indices: 23470551--23470602 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
23470541 GTGTGACCCC
23470551 TGTTTCAAAAATTTTTCAATTT
1 TGTTTC-AAAA-TTTTCAATTT
**
23470573 T-TTTCAAAATTTTCTGTTT
1 TGTTTCAAAATTTTCAATTT
23470592 TGTTTCAAAAT
1 TGTTTCAAAAT
23470603 GATCCCCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 9 0.33
20 13 0.48
21 4 0.15
22 1 0.04
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.56
Consensus pattern (20 bp):
TGTTTCAAAATTTTCAATTT
Found at i:23477997 original size:20 final size:20
Alignment explanation
Indices: 23477974--23478011 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23477964 TCTGCTCATG
23477974 TCAA-AAGTCAAGATTTTAAA
1 TCAACAAGTCAA-ATTTTAAA
*
23477994 TCAACAAGTGAAATTTTA
1 TCAACAAGTCAAATTTTA
23478012 GTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
TCAACAAGTCAAATTTTAAA
Found at i:23480854 original size:20 final size:20
Alignment explanation
Indices: 23480828--23480876 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
23480818 GTTTGGTTCT
*
23480828 CAAGAAAATCTGAGAAATGG
1 CAAGAAAATCTGAGAAATAG
* *
23480848 TAAGAAAATTTGAGAAATAG
1 CAAGAAAATCTGAGAAATAG
23480868 CAAGAAAAT
1 CAAGAAAAT
23480877 ATAAAGAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.20, T:0.18
Consensus pattern (20 bp):
CAAGAAAATCTGAGAAATAG
Found at i:23485245 original size:24 final size:24
Alignment explanation
Indices: 23485200--23485246 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23485190 CTCCTTTCGA
*
23485200 GCCTTCTGTCATCATCTCTGAAGG
1 GCCTTCTGTCATAATCTCTGAAGG
*
23485224 GCCTT-TGTCATAATTCTTTGAAG
1 GCCTTCTGTCATAA-TCTCTGAAG
23485247 TATCGTGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (24 bp):
GCCTTCTGTCATAATCTCTGAAGG
Found at i:23489355 original size:18 final size:18
Alignment explanation
Indices: 23489332--23489368 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23489322 AAGGGAGGAG
*
23489332 AGTGCCGGATCAATTCTA
1 AGTGCCAGATCAATTCTA
23489350 AGTGCCAGATCAATTCTA
1 AGTGCCAGATCAATTCTA
23489368 A
1 A
23489369 CCTAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (18 bp):
AGTGCCAGATCAATTCTA
Found at i:23491878 original size:50 final size:50
Alignment explanation
Indices: 23491754--23491932 Score: 175
Period size: 50 Copynumber: 3.6 Consensus size: 50
23491744 TGATAATACA
* * * * *
23491754 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
23491803 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * * ** *
23491853 TGCCCATGTCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
**
23491903 CACCAATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
23491933 TGGGGGACCT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 6 0.06
49 33 0.31
50 67 0.63
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:23491939 original size:50 final size:50
Alignment explanation
Indices: 23491805--23491966 Score: 189
Period size: 50 Copynumber: 3.2 Consensus size: 50
23491795 TTCTGTACTG
* * * * ** * * **
23491805 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGCA
* * *
23491855 CCCATGTCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGCA
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGCA
**
23491905 CCAATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAGCA
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGCA
23491955 CCAATGCCATGT
1 CCAATGCCATGT
23491967 AAAATTCTCT
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 96 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGCA
Found at i:23497750 original size:25 final size:25
Alignment explanation
Indices: 23497722--23497791 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
23497712 TTGTACATGT
*
23497722 ATGCTCACACGTGTTGTGAATCAGA
1 ATGCTCACACGAGTTGTGAATCAGA
*
23497747 ATGCTCACATGAGTTGTGAATCAGA
1 ATGCTCACACGAGTTGTGAATCAGA
23497772 ATGCTCACACGAGTTGTGAA
1 ATGCTCACACGAGTTGTGAA
23497792 AATGGGCTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (25 bp):
ATGCTCACACGAGTTGTGAATCAGA
Found at i:23508689 original size:37 final size:37
Alignment explanation
Indices: 23508628--23508706 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
23508618 TTATTACGAA
* *
23508628 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
23508665 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
23508702 GTCTT
1 GTCTT
23508707 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:23508903 original size:47 final size:47
Alignment explanation
Indices: 23508825--23509027 Score: 271
Period size: 47 Copynumber: 4.3 Consensus size: 47
23508815 CCCTTCGGGA
* * * * * * * *
23508825 CTTATCACATTTATGCACTTTCACCTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23508872 CCTGTCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23508919 CTTATCACCTATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23508966 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23509013 CTTATCACATATATA
1 CTTATCACATATATA
23509028 AATTTTCTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23511737 original size:40 final size:40
Alignment explanation
Indices: 23511692--23511886 Score: 196
Period size: 40 Copynumber: 4.9 Consensus size: 40
23511682 CGAATACACG
* * * *
23511692 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *** *
23511732 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
23511772 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
23511812 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* * *
23511853 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGG
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCGG
23511887 GCATCATTCA
Statistics
Matches: 133, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
40 119 0.89
41 8 0.06
42 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:23511848 original size:80 final size:81
Alignment explanation
Indices: 23511705--23511886 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 81
23511695 CCAGCATGAT
* * ***
23511705 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
23511770 T-ATCAC-TAGCACGAA
66 TGATCACTTAGCAC-AA
* * * *
23511785 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
*
23511849 ATGGTCACTTAGCACAA
65 ATGATCACTTAGCACAA
*
23511866 AGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
23511887 GCATCATTCA
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 71 0.83
81 9 0.10
82 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (81 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
TGATCACTTAGCACAA
Found at i:23512236 original size:29 final size:29
Alignment explanation
Indices: 23512197--23512275 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23512187 CTTAATAATC
*
23512197 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23512227 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23512256 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23512276 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23512318 original size:43 final size:43
Alignment explanation
Indices: 23512257--23512359 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
23512247 TGCATTTCAA
23512257 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23512300 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23512343 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
23512360 TGAAAACCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:23516322 original size:43 final size:42
Alignment explanation
Indices: 23516224--23516326 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 42
23516214 TATTTACGTA
* *
23516224 TAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCATG
1 TAAGACCACGTCTGGGACATCAGCATCGTATCTGATTACATG
* * *
23516266 TTAGACC-CTGTCTGGGACA-GAGGTATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTGGGACATCA-GCATCG-TATCTG-ATTACATG
23516309 TAAGACCACGTCTGGGAC
1 TAAGACCACGTCTGGGAC
23516327 GTTAGCATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
41 1 0.02
42 23 0.46
43 25 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATCAGCATCGTATCTGATTACATG
Found at i:23526340 original size:26 final size:28
Alignment explanation
Indices: 23526311--23526372 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
23526301 AATAATATCA
*
23526311 CAACAAAGCTGCCAGTAACAGTA-AT-G
1 CAACAAAGCTACCAGTAACAGTATATGG
*
23526337 CAACAAAGCTACCAGTATCAGTATATGG
1 CAACAAAGCTACCAGTAACAGTATATGG
23526365 C-ACAAAGC
1 CAACAAAGC
23526373 CATGAGTAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 21 0.66
27 9 0.28
28 2 0.06
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (28 bp):
CAACAAAGCTACCAGTAACAGTATATGG
Found at i:23526402 original size:20 final size:20
Alignment explanation
Indices: 23526363--23526529 Score: 134
Period size: 20 Copynumber: 8.8 Consensus size: 20
23526353 ATCAGTATAT
* *
23526363 GGCACAAAGCCATGAGTAGC
1 GGCACAAAGCCATCAATAGC
* *
23526383 GGCACGAAGCCTTCAATAGC
1 GGCACAAAGCCATCAATAGC
* * *
23526403 GGTACAAAGACATCAATAGT
1 GGCACAAAGCCATCAATAGC
*
23526423 GTCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
23526443 GG--C--A--CA--AATAGC
1 GGCACAAAGCCATCAATAGC
* * *
23526455 AGCACAAAGCTATCAATAGT
1 GGCACAAAGCCATCAATAGC
* * *
23526475 GGCATAAAGCCGTCAATAGT
1 GGCACAAAGCCATCAATAGC
**
23526495 GGCACTGAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
23526515 GGCACAAAGCCATCA
1 GGCACAAAGCCATCA
23526530 GTAGGTCCAC
Statistics
Matches: 111, Mismatches: 28, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
12 7 0.06
14 3 0.03
16 2 0.02
18 2 0.02
20 97 0.87
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (20 bp):
GGCACAAAGCCATCAATAGC
Found at i:23526475 original size:52 final size:52
Alignment explanation
Indices: 23526397--23526499 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
23526387 CGAAGCCTTC
* * *
23526397 AATAGCGGTACAAAGACATCAATAGTGTCACAAAGCCATCAATAGCGGCACA
1 AATAGCAGCACAAAGACATCAATAGTGGCACAAAGCCATCAATAGCGGCACA
* * *
23526449 AATAGCAGCACAAAG-CTATCAATAGTGGCATAAAGCCGTCAATAGTGGCAC
1 AATAGCAGCACAAAGAC-ATCAATAGTGGCACAAAGCCATCAATAGCGGCAC
23526500 TGAGCCATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (52 bp):
AATAGCAGCACAAAGACATCAATAGTGGCACAAAGCCATCAATAGCGGCACA
Found at i:23529353 original size:23 final size:23
Alignment explanation
Indices: 23529302--23529356 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
23529292 TCAGATCAAA
*
23529302 AGAGCTTACTGTTCTTAACTCGT
1 AGAGCTTACTGATCTTAACTCGT
*
23529325 ATGAGCTTACTGAT-TTAGCTCGT
1 A-GAGCTTACTGATCTTAACTCGT
23529348 CAGAGCTTA
1 -AGAGCTTA
23529357 TCGTTTCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGATCTTAACTCGT
Found at i:23531804 original size:31 final size:31
Alignment explanation
Indices: 23531761--23531839 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
23531751 TTTAACGGTT
23531761 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
23531792 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
23531823 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
23531840 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:23531910 original size:42 final size:42
Alignment explanation
Indices: 23531863--23531954 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
23531853 TAGCCCTTAG
* * ** *
23531863 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
23531905 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
23531947 GCCCATTT
1 GCCCATTT
23531955 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:23532144 original size:26 final size:26
Alignment explanation
Indices: 23532099--23532196 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
23532089 GCTTTTTAAT
23532099 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
23532124 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
23532150 AACTGGGGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
23532176 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
23532197 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:23533090 original size:27 final size:27
Alignment explanation
Indices: 23532999--23533082 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
23532989 AGGCATATTC
* * * *
23532999 GTCATTTTACCATACAAGGG-TATTACA
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
23533026 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
23533053 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
23533080 GTC
1 GTC
23533083 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:23533327 original size:81 final size:80
Alignment explanation
Indices: 23533232--23533466 Score: 346
Period size: 81 Copynumber: 2.9 Consensus size: 80
23533222 TTTGTAAATC
*
23533232 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTT
*
23533297 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
*
23533313 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTT
*
23533378 AGTAATTTTACAGACT
65 AGTAATTTTACAAACT
** * * **
23533394 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTT
23533458 AGTAATTTT
65 AGTAATTTT
23533467 GTAAATCGAG
Statistics
Matches: 141, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
80 63 0.45
81 77 0.55
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:23533471 original size:27 final size:27
Alignment explanation
Indices: 23533129--23533466 Score: 268
Period size: 27 Copynumber: 12.5 Consensus size: 27
23533119 TACAAGGTTG
* *
23533129 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* ** *
23533156 TTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*** * *
23533183 TTTCCATAATTTTTAGAAAGTCAAGGGTA
1 TTTTGGTAA-TTTTACAAA-CCAAGGGTA
* ** * *
23533212 TTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAACCAAGGGTA
***
23533239 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* *
23533266 TTTCGGTAATTTCACAAACC-AGTGGTA
1 TTTTGGTAATTTTACAAACCAAG-GGTA
* *
23533293 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
***
23533320 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
** *
23533347 TTTCAGTAATTTTACAAACCAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* * *
23533374 TTTTAGTAATTTTACAGA-CTAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
** * *
23533400 TTTTGGTAATTTTACTGATCGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
**
23533427 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*
23533454 TTTTAGTAATTTT
1 TTTTGGTAATTTT
23533467 GTAAATCGAG
Statistics
Matches: 248, Mismatches: 56, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
26 25 0.10
27 196 0.79
28 14 0.06
29 13 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAAGGGTA
Found at i:23533478 original size:27 final size:27
Alignment explanation
Indices: 23533148--23533560 Score: 219
Period size: 27 Copynumber: 15.3 Consensus size: 27
23533138 ATCTACAAAC
* *
23533148 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23533175 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
23533204 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
23533231 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
23533258 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23533284 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
* * *
23533311 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
** * * *
23533339 TGAGGGTATTTCAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23533366 CAGGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
23533392 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAT
* * * *
23533419 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
23533446 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** * *
23533473 CGAGGGTAAAACAGTAA-TCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
23533499 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** *
23533526 CGAGGGTAAAACAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
23533553 CAAGGGTA
1 CAAGGGTA
23533561 AAACGGTAAT
Statistics
Matches: 313, Mismatches: 61, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
26 48 0.15
27 236 0.75
28 15 0.05
29 14 0.04
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:23533525 original size:53 final size:54
Alignment explanation
Indices: 23533432--23533587 Score: 197
Period size: 53 Copynumber: 2.9 Consensus size: 54
23533422 GGGTATTTTG
* * *** *
23533432 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
* *
23533486 GTAA-TCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
* ** *
23533539 GTAATTTTGTAAATCAAGGGTAAAACGGTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTA
23533588 CTTTGATAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.52
54 42 0.48
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAGTAATTATGTAAATCGAGGGTAAAACA
Found at i:23533561 original size:27 final size:27
Alignment explanation
Indices: 23533432--23533580 Score: 174
Period size: 27 Copynumber: 5.6 Consensus size: 27
23533422 GGGTATTTTG
* ****
23533432 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAATCAAGGGTAAAACA
*
23533459 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCAAGGGTAAAACA
* *
23533486 GTAA-TCTGTAAATCAAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAACA
* * *
23533512 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCAAGGGTAAAACA
*
23533539 GTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCAAGGGTAAAACA
*
23533566 GTAATTATGTAAATC
1 GTAATTTTGTAAATC
23533581 GGGGGTACTT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
26 23 0.22
27 81 0.78
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (27 bp):
GTAATTTTGTAAATCAAGGGTAAAACA
Found at i:23544644 original size:24 final size:24
Alignment explanation
Indices: 23544617--23544700 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
23544607 TTGGAGGCCT
23544617 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
* *
23544641 AGCCCTTTTTGATAAACTGGGGAAA
1 AGCCC-TTTTAATAAACTGGGGCAA
** *
23544666 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
23544691 AGCCCTTTTA
1 AGCCCTTTTA
23544701 CACTTCCTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 14 0.27
25 36 0.71
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:23544667 original size:25 final size:25
Alignment explanation
Indices: 23544630--23544699 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23544620 CTCTTTTAAT
*
23544630 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
23544655 AACTGGGGAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
23544680 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
23544700 ACACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:23544777 original size:11 final size:11
Alignment explanation
Indices: 23544746--23544794 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
23544736 ATATGAATAC
23544746 ATCATGTACAT
1 ATCATGTACAT
23544757 ATCA--TACAT
1 ATCATGTACAT
*
23544766 ATCATGTGCAT
1 ATCATGTACAT
*
23544777 ATCATGT-CAA
1 ATCATGTACAT
23544787 ATCATGTA
1 ATCATGTA
23544795 TATCAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 9 0.27
10 9 0.27
11 15 0.45
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:23555226 original size:21 final size:21
Alignment explanation
Indices: 23555202--23555256 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
23555192 TGGTTAATGG
23555202 TTTAAGGTTTATGAGTTATAT
1 TTTAAGGTTTATGAGTTATAT
23555223 TTTAAGGTTTATGAGTTATAT
1 TTTAAGGTTTATGAGTTATAT
*
23555244 TTTAAGGATTATG
1 TTTAAGGTTTATG
23555257 GTTTAAGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTATGAGTTATAT
Found at i:23555285 original size:14 final size:14
Alignment explanation
Indices: 23555245--23555370 Score: 60
Period size: 14 Copynumber: 8.9 Consensus size: 14
23555235 GAGTTATATT
* * *
23555245 TTAAGGATTATGGT
1 TTAAGGTTTAGGGG
*
23555259 TTAAGGGTT-GGGG
1 TTAAGGTTTAGGGG
23555272 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
* * *
23555286 TCAGGGGTTAGGGG
1 TTAAGGTTTAGGGG
*
23555300 TTCAGAG-TTAGGGG
1 TTAAG-GTTTAGGGG
* * *
23555314 TTTATGTTTTA-GGA
1 -TTAAGGTTTAGGGG
*
23555328 TTCAAGGTTTAGGGT
1 TT-AAGGTTTAGGGG
* * *
23555343 TTAAGGATTAAGGA
1 TTAAGGTTTAGGGG
23555357 TTAAGGGTTTAGGG
1 TTAA-GGTTTAGGG
23555371 TTTAGATTAA
Statistics
Matches: 83, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
13 12 0.14
14 53 0.64
15 18 0.22
ACGTcount: A:0.23, C:0.02, G:0.39, T:0.36
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:23555349 original size:22 final size:22
Alignment explanation
Indices: 23555319--23555367 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
23555309 AGGGGTTTAT
* *
23555319 GTTTTAGGATTCAAGG-TTTAGG
1 GTTTAAGGATT-AAGGATTAAGG
23555341 GTTTAAGGATTAAGGATTAAGG
1 GTTTAAGGATTAAGGATTAAGG
23555363 GTTTA
1 GTTTA
23555368 GGGTTTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.39
Consensus pattern (22 bp):
GTTTAAGGATTAAGGATTAAGG
Found at i:23556979 original size:26 final size:26
Alignment explanation
Indices: 23556950--23557057 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
23556940 TGGTACAAAT
*
23556950 TGATAATGGGTTAGTTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23556976 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23557002 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23557028 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23557054 TGAT
1 TGAT
23557058 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23563030 original size:26 final size:26
Alignment explanation
Indices: 23562994--23563103 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
23562984 TGATACAAAT
23562994 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23563020 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
23563046 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23563072 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23563098 TGATAA
1 TGATAA
23563104 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:23564618 original size:26 final size:26
Alignment explanation
Indices: 23564588--23564640 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23564578 TTGACAGTTT
23564588 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23564614 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23564640 T
1 T
23564641 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23566439 original size:13 final size:13
Alignment explanation
Indices: 23566418--23566475 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
23566408 AAATTTTTCC
23566418 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
23566431 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* * *
23566444 AAAGCAGTTTTCC
1 AAAGCACTTCTCA
* *
23566457 ACAGCACTTTTCA
1 AAAGCACTTCTCA
23566470 AAAGCA
1 AAAGCA
23566476 ATGAAGAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:23567593 original size:22 final size:20
Alignment explanation
Indices: 23567551--23567593 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
23567541 TGATGTTTCT
*
23567551 TCCTTTTTCTTTTCTTCTCC
1 TCCTTTTTCTTTTCTTATCC
*
23567571 TCCTTCTTTCGTTTTTTTATCC
1 TCCTT-TTTC-TTTTCTTATCC
23567593 T
1 T
23567594 TGGAGTGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 4 0.21
22 10 0.53
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.65
Consensus pattern (20 bp):
TCCTTTTTCTTTTCTTATCC
Found at i:23570869 original size:42 final size:40
Alignment explanation
Indices: 23570817--23571001 Score: 164
Period size: 41 Copynumber: 4.5 Consensus size: 40
23570807 AATACTCGAT
* *
23570817 ATCTCGCACACTAAGTGCCAATACATAGCCAAAGCTATTACA
1 ATCTTGCACACTAAGTGCC-ATACATAGCCGAAGCTATT-CA
* *
23570859 ATCTTGCACACTAAGTGCCTTACACAGCCGAAGCTATCTCA
1 ATCTTGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCA
* * *
23570900 GTCTTGCACACTAAGTGCCATATATAGTCGAAGCTATTCCGA
1 ATCTTGCACACTAAGTGCCATACATAGCCGAAGCTATT-C-A
* ** *
23570942 ATC--GCACACTGAGTGCCGCATATAGCCGAAGCTATCTCAA
1 ATCTTGCACACTAAGTGCCATACATAGCCGAAGCTAT-TC-A
23570982 ATC--GCACACTATA-TGCCATA
1 ATCTTGCACACTA-AGTGCCATA
23571002 TGTATATTCG
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
40 46 0.38
41 52 0.43
42 22 0.18
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (40 bp):
ATCTTGCACACTAAGTGCCATACATAGCCGAAGCTATTCA
Found at i:23570969 original size:81 final size:82
Alignment explanation
Indices: 23570822--23570980 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 82
23570812 TCGATATCTC
**
23570822 GCACACTAAGTGCCAATACATAGCCAAAGCTATTACAATCTTGCACACTAAGTGCCTTACACAGC
1 GCACACTAAGTGCCAATACATAGCCAAAGCTATTACAATC-TGCACACTAAGTGCCGCACACAGC
23570887 CGAAGCTATCTCAGTCTT
65 CGAAGCTATCTCAGTCTT
* * * * * * *
23570905 GCACACTAAGTGCC-ATATATAGTCGAAGCTATTCCGAATC-GCACACTGAGTGCCGCATATAGC
1 GCACACTAAGTGCCAATACATAGCCAAAGCTATTAC-AATCTGCACACTAAGTGCCGCACACAGC
23570968 CGAAGCTATCTCA
65 CGAAGCTATCTCA
23570981 AATCGCACAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 31 0.47
82 17 0.26
83 18 0.27
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (82 bp):
GCACACTAAGTGCCAATACATAGCCAAAGCTATTACAATCTGCACACTAAGTGCCGCACACAGCC
GAAGCTATCTCAGTCTT
Found at i:23576640 original size:15 final size:15
Alignment explanation
Indices: 23576616--23576678 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
23576606 AGGAAACCGA
23576616 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
23576631 ATAGAGAAAT-CTAG
1 ATAAAGAAATCCAAG
*
23576645 AATAAAGAAATCCAAA
1 -ATAAAGAAATCCAAG
*
23576661 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23576676 ATA
1 ATA
23576679 CGATACTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 3 0.08
15 34 0.87
16 2 0.05
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23580817 original size:28 final size:28
Alignment explanation
Indices: 23580786--23580857 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
23580776 TCGATATTTT
*
23580786 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
23580814 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
23580842 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
23580858 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:23581242 original size:201 final size:201
Alignment explanation
Indices: 23580897--23581297 Score: 784
Period size: 201 Copynumber: 2.0 Consensus size: 201
23580887 ATTTTGTCGA
23580897 TATGTCGTCAGACATTAAAATATTCACGTATATACAATTTATACAATATTAAAGCATTAGAAACA
1 TATGTCGTCAGACATTAAAATATTCACGTATATACAATTTATACAATATTAAAGCATTAGAAACA
*
23580962 TCAATTTAACAATGCTTATTGCATACGAACTTACCTGGCTAAATTGTAGAGATACCAAAGTTTAG
66 TCAATTTAACAATGCTTATTGCATACGAACTTACCTGGCTAAATTGTAGAGATACCAAAGTTCAG
23581027 GGGCATTTTGGTAATTTTTTCATTTTTCTCGATTTTCCACCCGATCTTGATCTAAATTAATAATT
131 GGGCATTTTGGTAATTTTTTCATTTTTCTCGATTTTCCACCCGATCTTGATCTAAATTAATAATT
23581092 TCATTC
196 TCATTC
*
23581098 TATGTCGTCAGACATTAAAATATTCACGTATATACAATTTATACAATATTAAAGCATTAGAAACT
1 TATGTCGTCAGACATTAAAATATTCACGTATATACAATTTATACAATATTAAAGCATTAGAAACA
23581163 TCAATTTAACAATGCTTATTGCATACGAACTTACCTGGCTAAATTGTAGAGATACCAAAGTTCAG
66 TCAATTTAACAATGCTTATTGCATACGAACTTACCTGGCTAAATTGTAGAGATACCAAAGTTCAG
23581228 GGGCATTTTGGTAATTTTTTCATTTTTCTCGATTTTCCACCCGATCTTGATCTAAATTAATAATT
131 GGGCATTTTGGTAATTTTTTCATTTTTCTCGATTTTCCACCCGATCTTGATCTAAATTAATAATT
23581293 TCATT
196 TCATT
23581298 TAGTATATTA
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
201 198 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (201 bp):
TATGTCGTCAGACATTAAAATATTCACGTATATACAATTTATACAATATTAAAGCATTAGAAACA
TCAATTTAACAATGCTTATTGCATACGAACTTACCTGGCTAAATTGTAGAGATACCAAAGTTCAG
GGGCATTTTGGTAATTTTTTCATTTTTCTCGATTTTCCACCCGATCTTGATCTAAATTAATAATT
TCATTC
Found at i:23585840 original size:22 final size:22
Alignment explanation
Indices: 23585812--23585933 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
23585802 TTCCACATCC
23585812 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
23585834 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
23585858 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
23585881 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
23585905 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
23585928 ATCACA
1 ATCACA
23585934 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:23585847 original size:47 final size:47
Alignment explanation
Indices: 23585784--23585998 Score: 317
Period size: 47 Copynumber: 4.6 Consensus size: 47
23585774 CCCTTCGGGA
* * *
23585784 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
23585831 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
23585878 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
23585925 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
23585972 CTTATCTCATATATGCACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
23585999 TATTCAAATA
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 151 0.99
48 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:23587937 original size:56 final size:56
Alignment explanation
Indices: 23587870--23587989 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
23587860 TATTAGTTTA
23587870 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
23587926 TTGCCCATGCTTCTTATTTTATTTTTCTATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23587982 TTGCCCAT
1 TTGCCCAT
23587990 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:23590426 original size:57 final size:57
Alignment explanation
Indices: 23590333--23590634 Score: 451
Period size: 57 Copynumber: 5.3 Consensus size: 57
23590323 TGATCTCATT
** * * * * *
23590333 TCACACACTTAGTGCCCCAACAACCAATCTTGCACACACAGTGCTTGGTTACAGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23590390 TCGCACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
*
23590447 TCACACACACAGTGCCTCAACAACCGATCTCGCACACATAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23590504 TCACACACATAATGCCTCAACAACCGATCTCGCACACATAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23590561 TCGCACATACAGTGCCTCAACAACCGATCTCGTACACACAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
23590618 TCACACACACAGTGCCT
1 TCACACACACAGTGCCT
23590635 ATGTTCACTT
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 223 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (57 bp):
TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
Found at i:23590433 original size:29 final size:29
Alignment explanation
Indices: 23590389--23590604 Score: 168
Period size: 29 Copynumber: 7.6 Consensus size: 29
23590379 GGTTACAGAA
23590389 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23590418 CTCACACACACAGTG-CTCGGTTACAGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23590446 CTCACACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23590475 CTCGCACACATAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* * *
23590503 CTCACACACATAATGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23590532 CTCGCACACATAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23590560 CTCGCACATACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23590589 CTCGTACACACAGTGC
1 CTCGCACACACAGTGC
23590605 TCGGTTACGG
Statistics
Matches: 137, Mismatches: 47, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
28 62 0.45
29 75 0.55
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.18
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:23592647 original size:114 final size:114
Alignment explanation
Indices: 23592447--23592673 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 114
23592437 CAATACATCA
23592447 TGCTCAATGATTCGCACACAACCGTTCAAATTAGCAATTATAAGATGATTCCGCACATAGTCCAC
1 TGCTCAATGATTCGCACACAACCGTTCAAATTAGCAATTATAAGATGATTCCGCACATAGTCCAC
23592512 CCTTATCGATAATTTACGATGGTTTTGCCCTTACTCACATATATGACAT
66 CCTTATCGATAATTTACGATGGTTTTGCCCTTACTCACATATATGACAT
* *
23592561 TGCTCAATGATTCGCACACAACCGTTCAAATTAGCAATTATAAGATGATTTCGCTCATAGTCCAC
1 TGCTCAATGATTCGCACACAACCGTTCAAATTAGCAATTATAAGATGATTCCGCACATAGTCCAC
23592626 CCTTATCGATAATTTACGATGGTTTTGCCCTTACTCACATATATGACA
66 CCTTATCGATAATTTACGATGGTTTTGCCCTTACTCACATATATGACA
23592674 GAGGCATTTT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (114 bp):
TGCTCAATGATTCGCACACAACCGTTCAAATTAGCAATTATAAGATGATTCCGCACATAGTCCAC
CCTTATCGATAATTTACGATGGTTTTGCCCTTACTCACATATATGACAT
Found at i:23597896 original size:47 final size:47
Alignment explanation
Indices: 23597776--23597896 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
23597766 CCCTTCGGGA
* * *
23597776 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
23597823 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
23597870 CTTATCTCATATATGCACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
23597897 TATTCAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:23599835 original size:56 final size:56
Alignment explanation
Indices: 23599768--23599887 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
23599758 TATTAGTTTA
23599768 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
23599824 TTGCCCATGCTTCTTATTTTATTTTTCTATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
23599880 TTGCCCAT
1 TTGCCCAT
23599888 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:23602324 original size:57 final size:57
Alignment explanation
Indices: 23602231--23602532 Score: 451
Period size: 57 Copynumber: 5.3 Consensus size: 57
23602221 TGATCTCATT
** * * * * *
23602231 TCACACACTTAGTGCCCCAACAACCAATCTTGCACACACAGTGCTTGGTTACAGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23602288 TCGCACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
*
23602345 TCACACACACAGTGCCTCAACAACCGATCTCGCACACATAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23602402 TCACACACATAATGCCTCAACAACCGATCTCGCACACATAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
* * *
23602459 TCGCACATACAGTGCCTCAACAACCGATCTCGTACACACAGTGCTCGGTTACGGAAC
1 TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
23602516 TCACACACACAGTGCCT
1 TCACACACACAGTGCCT
23602533 ATGTTCACTT
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 223 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (57 bp):
TCACACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAAC
Found at i:23602331 original size:29 final size:29
Alignment explanation
Indices: 23602287--23602502 Score: 168
Period size: 29 Copynumber: 7.6 Consensus size: 29
23602277 GGTTACAGAA
23602287 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23602316 CTCACACACACAGTG-CTCGGTTACAGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23602344 CTCACACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23602373 CTCGCACACATAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
* * *
23602401 CTCACACACATAATGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* **** * *
23602430 CTCGCACACATAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23602458 CTCGCACATACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
23602487 CTCGTACACACAGTGC
1 CTCGCACACACAGTGC
23602503 TCGGTTACGG
Statistics
Matches: 137, Mismatches: 47, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
28 62 0.45
29 75 0.55
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.18
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:23621416 original size:45 final size:45
Alignment explanation
Indices: 23621352--23621438 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
23621342 CCAAAACATG
*
23621352 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGA
**
23621397 TGTCACATATATCTTGAACTCAAACCACAACTCAATGAGTTC
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTC
23621439 AGATTACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCGGA
Found at i:23627790 original size:20 final size:20
Alignment explanation
Indices: 23627752--23627789 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23627742 CTTCAAAGTA
23627752 AAAATGAATGTCAAATTTTG
1 AAAATGAATGTCAAATTTTG
*
23627772 AAAATGTATGTC-AATTTT
1 AAAATGAATGTCAAATTTT
23627790 TTATTTAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (20 bp):
AAAATGAATGTCAAATTTTG
Found at i:23628168 original size:22 final size:22
Alignment explanation
Indices: 23628143--23628197 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
23628133 TCTAGGTCAA
23628143 AAGTATCGATACCTTTTTGCCC
1 AAGTATCGATACCTTTTTGCCC
***
23628165 AAGTATCGATACCTTTTTGGTT
1 AAGTATCGATACCTTTTTGCCC
23628187 AAGTATCGATA
1 AAGTATCGATA
23628198 ATTTTGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (22 bp):
AAGTATCGATACCTTTTTGCCC
Found at i:23629630 original size:26 final size:25
Alignment explanation
Indices: 23629583--23629655 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
23629573 TTCTCATCCT
*
23629583 AATTTTACTCCAGTAAAATTTTAAC
1 AATTTTACCCCAGTAAAATTTTAAC
*
23629608 AATTTTACCCCTAGTAAATTTTTAAC
1 AATTTTACCCC-AGTAAAATTTTAAC
* *
23629634 GATTTTACCCCCGATAAAATTT
1 AATTTTACCCCAG-TAAAATTT
23629656 CGATAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
AATTTTACCCCAGTAAAATTTTAAC
Found at i:23629814 original size:12 final size:12
Alignment explanation
Indices: 23629797--23629830 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
23629787 AAGATGTAAG
23629797 TTTCCATTTTCA
1 TTTCCATTTTCA
23629809 TTTCCATTTTCA
1 TTTCCATTTTCA
23629821 TTTCCATTTT
1 TTTCCATTTT
23629831 TGGAAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCCATTTTCA
Found at i:23650702 original size:81 final size:81
Alignment explanation
Indices: 23650617--23650784 Score: 255
Period size: 81 Copynumber: 2.1 Consensus size: 81
23650607 TAGTGAATTA
* * * *
23650617 ATATTTGCTTATGATATAGATTAAATCATAAAGAAACGATAAATTCATTTATAAATTGAATTTGA
1 ATATTTGATTATGATATAGACTAAATCATAAAGAAACGATAAAGTCATTTATAAATTGAATATGA
*
23650682 TAAATTATAGTTTGAG
66 TAAATTATAATTTGAG
* * *
23650698 ATATTTGATTATGATATGGACTAAATCATAAAGAAATGATAAAGTGATTTATAAATTGAATATGA
1 ATATTTGATTATGATATAGACTAAATCATAAAGAAACGATAAAGTCATTTATAAATTGAATATGA
*
23650763 TAAATTATAATTTGAT
66 TAAATTATAATTTGAG
23650779 ATATTT
1 ATATTT
23650785 AGTGAATTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (81 bp):
ATATTTGATTATGATATAGACTAAATCATAAAGAAACGATAAAGTCATTTATAAATTGAATATGA
TAAATTATAATTTGAG
Found at i:23651622 original size:91 final size:89
Alignment explanation
Indices: 23651403--23651706 Score: 285
Period size: 91 Copynumber: 3.3 Consensus size: 89
23651393 CGAAATGTGT
* * * *
23651403 TGCTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAGTTTTAATTG-CTAAAAATT
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAATTTACA-TTTTAATTGTC-AGAAATT
* *
23651467 ATGGTGTCTGATTGTATTCTTTAATGA
64 ATGGTGTCTGATTGTA-TGTTTGATGA
* * * *
23651494 TACTCAAA-GATGATTTAAATGATG-TCTAAAATATGTTAATTTATCATTTTAATTGTCAGAAAT
1 TGCTTAAATG-TGATTTAAATGATGTTCGAAAGT-TGTTAATTTA-CATTTTAATTGTCAGAAAT
*
23651557 TATGGTGT-TCGAATGTATGTGTTGATGA
63 TATGGTGTCT-GATTGTATGT-TTGATGA
* * * *
23651585 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGTAAATTTTAATT-TCTGAAAACT
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTT-AATTTACATTTTAATTGTCAG-AAATT
*
23651649 ATAGTGTCTGATTGTATGCTTTGATGA
64 ATGGTGTCTGATTGTATG-TTTGATGA
* * * * *
23651676 TGTTTAAAGGCGATTAAAATGATGTTTGAAA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAA
23651707 ATGGTAAATT
Statistics
Matches: 175, Mismatches: 26, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
90 13 0.07
91 145 0.83
92 17 0.10
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (89 bp):
TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAATTTACATTTTAATTGTCAGAAATTAT
GGTGTCTGATTGTATGTTTGATGA
Found at i:23651729 original size:182 final size:183
Alignment explanation
Indices: 23651403--23651748 Score: 437
Period size: 182 Copynumber: 1.9 Consensus size: 183
23651393 CGAAATGTGT
* * *
23651403 TGCTTAAATGTGATTTAAGTGATGTTCGAAAGTGGTTAAATTACAGTTTTAATTGCTAAAAATTA
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTAAAAACTA
* * * * *
23651468 TGGTGTCTGATTGTATTCTTTAATGATACTCAAAGATGATTTAAATGATGTCTAAAATATGTTAA
66 TAGTGTCTGATTGTATGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAATATGGTAA
* * *
23651533 TTTATCATTTTAATTGTCA-GAAATTATGGTGTTCGAATGTATGTGTTGATGA
131 ATTAGCACTTTAATTGTCATGAAATTATGGTGTTCGAATGTATGTGTTGATGA
* * *
23651585 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTTGTTAAATGTA-AATTTTAATTTCTGAAAACT
1 TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAAT-TACAATTTTAATTGCTAAAAACT
* ** * * * *
23651649 ATAGTGTCTGATTGTATGCTTTGATGATGTTTAAAGGCGATTAAAATGATGTTTGAAA-ATGGTA
65 ATAGTGTCTGATTGTATGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAATATGGTA
* * *
23651713 AATTGGCAACTTTAATTGTTATGAATTTATGGTGTT
130 AATTAGC-ACTTTAATTGTCATGAAATTATGGTGTT
23651749 GGAAGCTTAA
Statistics
Matches: 137, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
181 9 0.07
182 113 0.82
183 15 0.11
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (183 bp):
TGCTTAAATGTGATTTAAATGATGTTCGAAAGTGGTTAAATTACAATTTTAATTGCTAAAAACTA
TAGTGTCTGATTGTATGCTTTAATGATACTCAAAGACGATTAAAATGATGTCTAAAATATGGTAA
ATTAGCACTTTAATTGTCATGAAATTATGGTGTTCGAATGTATGTGTTGATGA
Found at i:23652703 original size:13 final size:13
Alignment explanation
Indices: 23652685--23652709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23652675 AACAACATAC
23652685 AAAAAAACAAAAT
1 AAAAAAACAAAAT
23652698 AAAAAAACAAAA
1 AAAAAAACAAAA
23652710 AAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAACAAAAT
Found at i:23677160 original size:40 final size:40
Alignment explanation
Indices: 23677116--23677228 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
23677106 GAATACACGT
* * * *
23677116 CACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
23677156 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
23677196 CACTAGCATGAATGCTCTTCGGGACTTAGCCCG
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCG
23677229 AATTTAGTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:23677349 original size:40 final size:39
Alignment explanation
Indices: 23677132--23677349 Score: 178
Period size: 40 Copynumber: 5.5 Consensus size: 39
23677122 CATGATTACT
* * *
23677132 CTTCGGGACCTAGCCCGGATATA-ACACCAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATGC
* * *
23677171 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAATGC
* * * *
23677211 TCTTCGGGACTTAGCCCGAATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTCACTAGCA-CAATGC
*
23677252 CTTCGGG-CTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCA-CTAGCAC-AATGC
* * *
23677291 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAATGC
23677331 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
23677350 CATCATTCGA
Statistics
Matches: 146, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
38 4 0.03
39 29 0.20
40 91 0.62
41 22 0.15
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATGC
Found at i:23677694 original size:29 final size:29
Alignment explanation
Indices: 23677655--23677733 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23677645 CTTAATAATC
*
23677655 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23677685 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23677714 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23677734 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23677984 original size:40 final size:40
Alignment explanation
Indices: 23677929--23678009 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
23677919 CTTCCAGTTC
23677929 CATAGCCACATACAAAAATCACATTTATAGTCATAACACT
1 CATAGCCACATACAAAAATCACATTTATAGTCATAACACT
* *
23677969 CATAGCCACATACAAAAATCACATTTTTAGTCATAGCACT
1 CATAGCCACATACAAAAATCACATTTATAGTCATAACACT
23678009 C
1 C
23678010 TTTCAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (40 bp):
CATAGCCACATACAAAAATCACATTTATAGTCATAACACT
Found at i:23685874 original size:27 final size:26
Alignment explanation
Indices: 23685826--23685902 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
23685816 TCTTATCCTT
23685826 ATTTTACCCCCGATAAAATTTTGACA
1 ATTTTACCCCCGATAAAATTTTGACA
* *
23685852 ATTTTACCCCC-AGTAAATTTTTTGACG
1 ATTTTACCCCCGA-TAAA-ATTTTGACA
***
23685879 ATTTTACCAATGATAAAATTTTGA
1 ATTTTACCCCCGATAAAATTTTGA
23685903 GAAAATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 21 0.50
27 19 0.45
28 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCCGATAAAATTTTGACA
Found at i:23689739 original size:21 final size:23
Alignment explanation
Indices: 23689695--23689739 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
23689685 AACCTGAAAC
*
23689695 AATGCACACGATAATTAGAAATAG
1 AATGCACACGAT-AGTAGAAATAG
23689719 AATGCACACGAT-GTA-AAATAG
1 AATGCACACGATAGTAGAAATAG
23689740 TGGATTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
24 12 0.60
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (23 bp):
AATGCACACGATAGTAGAAATAG
Found at i:23696001 original size:60 final size:60
Alignment explanation
Indices: 23695934--23696054 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
23695924 CGACAGCATC
*
23695934 TTTCTTTTTCGGTGATAAAGGTAATCCCGTTACAAAATCCATAGTAACTCTTTCCTATTT
1 TTTCTTTTTCGGTGATAAAGGTAATCCCGTTACAAAATCCATAGTAACTCTTTCCCATTT
* * *
23695994 TTTCTTTTTCGGTGATAAAGGTAATCCCGTTGCAAAATCCATGGTAACTTTTTCCCATTT
1 TTTCTTTTTCGGTGATAAAGGTAATCCCGTTACAAAATCCATAGTAACTCTTTCCCATTT
23696054 T
1 T
23696055 CATTCTGGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (60 bp):
TTTCTTTTTCGGTGATAAAGGTAATCCCGTTACAAAATCCATAGTAACTCTTTCCCATTT
Found at i:23708449 original size:23 final size:20
Alignment explanation
Indices: 23708397--23708439 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
23708387 AGGCGAAAGG
*
23708397 TTTCTATTATTAACATTTTT
1 TTTCCATTATTAACATTTTT
23708417 TTTCCATTATTAACATTTTT
1 TTTCCATTATTAACATTTTT
23708437 TTT
1 TTT
23708440 AGACTCTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTCCATTATTAACATTTTT
Found at i:23709368 original size:21 final size:21
Alignment explanation
Indices: 23709337--23709388 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
23709327 ATATTTACTT
*
23709337 TTTTTAATATTATTACCATTA
1 TTTTTATTATTATTACCATTA
*
23709358 TATTTT-TTATTATTACTATTA
1 T-TTTTATTATTATTACCATTA
23709379 TTTTTATTAT
1 TTTTTATTAT
23709389 CCGTCCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATTATTATTACCATTA
Found at i:23709378 original size:30 final size:29
Alignment explanation
Indices: 23709312--23709380 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
23709302 TATTTTTAAC
* *
23709312 ACTATTATCATCATTATATTTACTTTTTTT
1 ACTATTATTACCATTATATTTA-TTTTTTT
*
23709342 AATATTATTACCATTATATTT-TTTATTATT
1 ACTATTATTACCATTATATTTATTT-TT-TT
23709372 ACTATTATT
1 ACTATTATT
23709381 TTTATTATCC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 2 0.06
30 28 0.85
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.59
Consensus pattern (29 bp):
ACTATTATTACCATTATATTTATTTTTTT
Found at i:23710294 original size:31 final size:31
Alignment explanation
Indices: 23710259--23710335 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
23710249 ATATGTATAA
* **
23710259 TTAAATCAAAATCAATGTTTTATGAATACAT
1 TTAAACCAAAATCAAAATTTTATGAATACAT
* * *
23710290 TTAAACCACAATCAAAATTTTATGTATACAA
1 TTAAACCAAAATCAAAATTTTATGAATACAT
*
23710321 TTACACC-AAATCAAA
1 TTAAACCAAAATCAAA
23710336 GTCATGTATC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 7 0.18
31 31 0.82
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (31 bp):
TTAAACCAAAATCAAAATTTTATGAATACAT
Found at i:23711347 original size:21 final size:20
Alignment explanation
Indices: 23711318--23711363 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
23711308 ATTTTTTAAG
*
23711318 TAATAATTTTAAAATAAAATA
1 TAATTATTTTAAAAT-AAATA
* *
23711339 TAATTATTTTTAAATATATA
1 TAATTATTTTAAAATAAATA
23711359 TAATT
1 TAATT
23711364 CTAACTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATTATTTTAAAATAAATA
Found at i:23712007 original size:76 final size:76
Alignment explanation
Indices: 23711881--23712108 Score: 438
Period size: 76 Copynumber: 3.0 Consensus size: 76
23711871 CATCCGCATC
23711881 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
1 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
23711946 GTTCCATTATA
66 GTTCCATTATA
23711957 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
1 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
23712022 GTTCCATTATA
66 GTTCCATTATA
* *
23712033 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATGAAAGCTCTATGTAA
1 CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
23712098 GTTCCATTATA
66 GTTCCATTATA
23712109 AGGAAACTGA
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 150 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (76 bp):
CTAACCTTGTGAGTTCTCTATAGAAAAGGAACATAAGGGGGGTGAGCTATAAAAGCTCTATGTGA
GTTCCATTATA
Found at i:23717569 original size:19 final size:20
Alignment explanation
Indices: 23717545--23717594 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
23717535 AAGTATATTT
23717545 TTGCTATAATTAG-ATTCAA
1 TTGCTATAATTAGTATTCAA
* *
23717564 TTGCTATATGTTAGTATTTAA
1 TTGCTATA-ATTAGTATTCAA
23717585 TTG-TATAATT
1 TTGCTATAATT
23717595 GTTACTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 8 0.31
21 8 0.31
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (20 bp):
TTGCTATAATTAGTATTCAA
Found at i:23719281 original size:16 final size:15
Alignment explanation
Indices: 23719265--23719298 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
23719255 AAATAACTTA
23719265 ATAGAGAAATTGTTT
1 ATAGAGAAATTGTTT
23719280 A-AGAGAAATTGTTTT
1 ATAGAGAAATTG-TTT
23719295 ATAG
1 ATAG
23719299 GTAATTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.59
15 5 0.29
16 2 0.12
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
ATAGAGAAATTGTTT
Done.