Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 78 of 175
Found at i:23944934 original size:22 final size:21
Alignment explanation
Indices: 23944903--23944945 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
23944893 GCGATCATGT
23944903 GAAAAAGTAAAATTCAAGATA
1 GAAAAAGTAAAATTCAAGATA
* *
23944924 GAAAAACGTAAACTTTAAGATA
1 GAAAAA-GTAAAATTCAAGATA
23944946 ATATGTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (21 bp):
GAAAAAGTAAAATTCAAGATA
Found at i:23950831 original size:20 final size:21
Alignment explanation
Indices: 23950784--23950831 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
23950774 GATGACACAA
*
23950784 GAAACAGAACAGATAAGTTAT
1 GAAACAGAACAGACAAGTTAT
** *
23950805 GCTACAGAACA-ACAATTTAT
1 GAAACAGAACAGACAAGTTAT
23950825 GAAACAG
1 GAAACAG
23950832 GGCCACATGG
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (21 bp):
GAAACAGAACAGACAAGTTAT
Found at i:23951732 original size:11 final size:10
Alignment explanation
Indices: 23951710--23951752 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 10
23951700 AAAAGCCAAA
23951710 AAGAAAAAAG
1 AAGAAAAAAG
23951720 AAGAAATAAAG
1 AAGAAA-AAAG
23951731 AAGAAAGAAAAG
1 AAG-AA-AAAAG
23951743 AGAGAAAAAA
1 A-AGAAAAAA
23951753 ATGATGGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.21
11 11 0.38
12 9 0.31
13 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:23951795 original size:16 final size:16
Alignment explanation
Indices: 23951770--23951813 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23951760 AGAACGTGAA
23951770 AAAG-AAAATAAAAAT
1 AAAGAAAAATAAAAAT
* *
23951785 AAATAAAAATAAACAT
1 AAAGAAAAATAAAAAT
*
23951801 TAAGAAAAATAAA
1 AAAGAAAAATAAA
23951814 TAATTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAGAAAAATAAAAAT
Found at i:23952969 original size:114 final size:114
Alignment explanation
Indices: 23952769--23952990 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
23952759 TTGAATCATA
* *
23952769 ATGTTATTCACGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTTATTCAAGCTTTGTGCCTAGCAG
1 ATGTTATTCACGCTTTGTGCCTAACAGGCTTAGTGCCAGTGTTATTCAAGCTTTGTGCCTAGCAA
* * *
23952834 GCTTAGTACCGGTGTTATTCAAGTTTTGTGCCTAGCAGGCTTAGTGCCT
66 GCTTAATACCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTAGTGCCT
* ** * *
23952883 ATGTTATTCAGGCTTTGTGCCTAACAGGCTTAGT-CTTGATGTTATTCAGGCTTTGTGCGTAGCA
1 ATGTTATTCACGCTTTGTGCCTAACAGGCTTAGTGCCAG-TGTTATTCAAGCTTTGTGCCTAGCA
* *
23952947 AGCTTAATGCCGGTGTTATTCAAGCTTAGTGCCTAGTAGGCTTA
65 AGCTTAATACCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTA
23952991 TTACCGGTGT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 2 0.02
114 93 0.98
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (114 bp):
ATGTTATTCACGCTTTGTGCCTAACAGGCTTAGTGCCAGTGTTATTCAAGCTTTGTGCCTAGCAA
GCTTAATACCGGTGTTATTCAAGCTTAGTGCCTAGCAGGCTTAGTGCCT
Found at i:23952998 original size:38 final size:38
Alignment explanation
Indices: 23952770--23953000 Score: 284
Period size: 38 Copynumber: 6.1 Consensus size: 38
23952760 TGAATCATAA
* *
23952770 TGTTATTCACGCTTTGTGCCTAGCAGGCTTAGTGCCAG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
*
23952808 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTACCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
* **
23952846 TGTTATTCAAGTTTTGTGCCTAGCAGGCTTAGTGCCTA
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
* * * *
23952884 TGTTATTCAGGCTTTGTGCCTAACAGGCTTAGT-CTTGA
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGC-CGG
* * * *
23952922 TGTTATTCAGGCTTTGTGCGTAGCAAGCTTAATGCCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
* * * *
23952960 TGTTATTCAAGCTTAGTGCCTAGTAGGCTTATTACCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
23952998 TGT
1 TGT
23953001 AATAAATTTT
Statistics
Matches: 166, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.01
38 164 0.99
39 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (38 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
Found at i:23981601 original size:42 final size:42
Alignment explanation
Indices: 23981554--23981636 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
23981544 AATATGTGTG
* *
23981554 AAACGTTTGAAATTCAAACATTTGAACTCTTTTTCTTATCCA
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTCATCCA
23981596 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTCATCC
1 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTCATCC
23981637 CTTTGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTCATCCA
Found at i:23987043 original size:22 final size:22
Alignment explanation
Indices: 23987018--23987069 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
23987008 TAATTAAAAT
* * *
23987018 TAAAATTAAAATTATTTTTTAA
1 TAAAATTAAAACTAATTGTTAA
*
23987040 TAAAATTAAAACTAATTGTTAT
1 TAAAATTAAAACTAATTGTTAA
23987062 TAAAATTA
1 TAAAATTA
23987070 GTTGTTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAATTAAAACTAATTGTTAA
Found at i:23987177 original size:9 final size:9
Alignment explanation
Indices: 23987165--23987208 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
23987155 ATTATCAAAT
23987165 TATTAATTG
1 TATTAATTG
23987174 TATTAATTG
1 TATTAATTG
23987183 --TTAATTG
1 TATTAATTG
23987190 TATTAATTG
1 TATTAATTG
23987199 TATTAATTG
1 TATTAATTG
23987208 T
1 T
23987209 TGTAACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
9 26 0.79
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:23987186 original size:16 final size:16
Alignment explanation
Indices: 23987162--23987199 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
23987152 AAAATTATCA
*
23987162 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
23987178 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
23987194 AATTGT
1 AATTGT
23987200 ATTAATTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:23995517 original size:51 final size:50
Alignment explanation
Indices: 23995396--23995578 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
23995386 AGTTGCTAGG
* * *
23995396 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * * * *
23995446 TCGCATGTGTAGTATTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGA
* * * * * * * *
23995497 TCACGTGTGTAGTACTATGTGTAGGCTAGTACGTGCATC-GGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATG-ATA-GA
*
23995548 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
23995579 TGTGAACCAG
Statistics
Matches: 103, Mismatches: 27, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
49 4 0.04
50 35 0.34
51 64 0.62
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:24001004 original size:13 final size:13
Alignment explanation
Indices: 24000983--24001025 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
24000973 GTATTACGAG
*
24000983 TTTGTAAAAAAAA
1 TTTGAAAAAAAAA
24000996 TTTGAAAAAAAAA
1 TTTGAAAAAAAAA
*
24001009 TTCCGAAAAAAAAA
1 TT-TGAAAAAAAAA
24001023 TTT
1 TTT
24001026 ATTTTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (13 bp):
TTTGAAAAAAAAA
Found at i:24001007 original size:14 final size:14
Alignment explanation
Indices: 24000988--24001024 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
24000978 ACGAGTTTGT
*
24000988 AAAAAAAATT-TGA
1 AAAAAAAATTCCGA
24001001 AAAAAAAATTCCGA
1 AAAAAAAATTCCGA
24001015 AAAAAAAATT
1 AAAAAAAATT
24001025 TATTTTGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTCCGA
Found at i:24006192 original size:10 final size:10
Alignment explanation
Indices: 24006179--24006203 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24006169 TTAGCTCGTG
24006179 TCAGCTCAAT
1 TCAGCTCAAT
24006189 TCAGCTCAAT
1 TCAGCTCAAT
24006199 TCAGC
1 TCAGC
24006204 ACTTAGCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (10 bp):
TCAGCTCAAT
Found at i:24027111 original size:26 final size:26
Alignment explanation
Indices: 24027082--24027131 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24027072 CAAGTGAGGA
24027082 AAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAGAAAAAGAGAATGAAAAAGAGC
* * * *
24027108 AAAAGGAGATGAGAGTGAAAAAGA
1 AAAAGAAAAAGAGAATGAAAAAGA
24027132 AATTGAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.28, T:0.06
Consensus pattern (26 bp):
AAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:24033821 original size:24 final size:25
Alignment explanation
Indices: 24033766--24033814 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24033756 CTACTTCTAA
*
24033766 AGAAAACTCAAGAGAGAATTCTTGG
1 AGAAAACTCAAGAGAGAATTCTTGC
*
24033791 AGGAAACTCAAG-GAGAATT-TTGC
1 AGAAAACTCAAGAGAGAATTCTTGC
24033814 A
1 A
24033815 CTAAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 7 0.32
25 11 0.50
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAAAACTCAAGAGAGAATTCTTGC
Found at i:24035565 original size:19 final size:17
Alignment explanation
Indices: 24035529--24035567 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
24035519 TCAGTTGCTG
24035529 ATTAGTTAAATAAATTA
1 ATTAGTTAAATAAATTA
*
24035546 ATTAGCTTAAGATTAATTA
1 ATTAG-TTAA-ATAAATTA
24035565 ATT
1 ATT
24035568 TAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTTAAATAAATTA
Found at i:24037834 original size:6 final size:6
Alignment explanation
Indices: 24037825--24037906 Score: 69
Period size: 6 Copynumber: 13.7 Consensus size: 6
24037815 AAAACAAAAA
* * *
24037825 AAAATG AAAATG AAAAAG AAAGTG AAGAA-G AAAATG AAAATG AAAAAG
1 AAAATG AAAATG AAAATG AAAATG AA-AATG AAAATG AAAATG AAAATG
* * * *
24037873 AAAAAG AAATTG CAAAA-G AAAAAG AAATTG AAAA
1 AAAATG AAAATG -AAAATG AAAATG AAAATG AAAA
24037907 AGTGAGAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
5 6 0.10
6 51 0.84
7 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.18, T:0.11
Consensus pattern (6 bp):
AAAATG
Found at i:24037907 original size:18 final size:18
Alignment explanation
Indices: 24037814--24037948 Score: 114
Period size: 18 Copynumber: 7.5 Consensus size: 18
24037804 ACATTGTAAT
*
24037814 AAAAACAAAAA-AAAATG
1 AAAAAGAAAAAGAAAATG
* *
24037831 AAAATGAAAAAGAAAGTG
1 AAAAAGAAAAAGAAAATG
* *
24037849 AAGAAGAAAATGAAAATG
1 AAAAAGAAAAAGAAAATG
*
24037867 AAAAAGAAAAAGAAATTG
1 AAAAAGAAAAAGAAAATG
* *
24037885 CAAAAGAAAAAGAAATTG
1 AAAAAGAAAAAGAAAATG
** *
24037903 AAAAAGTGAGAGAAAA--
1 AAAAAGAAAAAGAAAATG
*
24037919 AAAATGAAGAAAAGAAAATTG
1 AAAAAG-A-AAAAGAAAA-TG
24037940 AAAAAGAAA
1 AAAAAGAAA
24037949 TTGAGATTGA
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
16 5 0.05
17 9 0.10
18 69 0.76
19 2 0.02
20 1 0.01
21 5 0.05
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (18 bp):
AAAAAGAAAAAGAAAATG
Found at i:24037952 original size:12 final size:12
Alignment explanation
Indices: 24037824--24037948 Score: 88
Period size: 12 Copynumber: 9.8 Consensus size: 12
24037814 AAAAACAAAA
24037824 AAAAATGAAAATG
1 AAAAA-GAAAATG
*
24037837 AAAAAGAAAGTG
1 AAAAAGAAAATG
*
24037849 AAGAAGAAAATG
1 AAAAAGAAAATG
* *
24037861 AAAATGAAAAAG
1 AAAAAGAAAATG
*
24037873 AAAAAGAAATTG
1 AAAAAGAAAATG
* *
24037885 CAAAAGAAAAAG
1 AAAAAGAAAATG
**
24037897 AAATTGAAAAAGTG
1 AAAAAG-AAAA-TG
*
24037911 AGAGAAAAAAAATG
1 A-A-AAAGAAAATG
24037925 AAGAAAAGAAAATTG
1 -A-AAAAGAAAA-TG
24037940 AAAAAGAAA
1 AAAAAGAAA
24037949 TTGAGATTGA
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
12 46 0.53
13 17 0.20
14 12 0.14
15 10 0.12
16 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.19, T:0.10
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:24039988 original size:19 final size:17
Alignment explanation
Indices: 24039952--24039990 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
24039942 TCAGTTGCTG
24039952 ATTAGTTAAATAAATTA
1 ATTAGTTAAATAAATTA
*
24039969 ATTAGCTTAAGATTAATTA
1 ATTAG-TTAA-ATAAATTA
24039988 ATT
1 ATT
24039991 TAATAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTAGTTAAATAAATTA
Found at i:24059756 original size:47 final size:47
Alignment explanation
Indices: 24059704--24060348 Score: 1002
Period size: 47 Copynumber: 13.6 Consensus size: 47
24059694 GATAATTGTG
* * *
24059704 ATGTGAATGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24059751 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24059798 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24059847 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24059894 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24059941 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24059990 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * *
24060037 ATGTGAAAGTGTATACATGTGATAAGGCCGAACGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24060084 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24060133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24060182 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24060229 ATGTGAAAGTGTATATATGTGATGAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
24060276 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGAGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24060323 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
24060349 TCCCGAAGGG
Statistics
Matches: 556, Mismatches: 36, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 374 0.67
49 182 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24059811 original size:96 final size:94
Alignment explanation
Indices: 24059704--24060348 Score: 1002
Period size: 96 Copynumber: 6.8 Consensus size: 94
24059694 GATAATTGTG
* * *
24059704 ATGTGAATGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24059769 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
24059798 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
24059863 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24059894 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
24059959 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24059990 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
24060055 GTGATAAGGCCGAACGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
24060084 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
24060149 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24060182 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
24060247 GTGATGAGGCCTAATAGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * * *
24060276 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGAGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24060341 GTGATAAG
66 GTGATAAG
24060349 TCCCGAAGGG
Statistics
Matches: 509, Mismatches: 34, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
94 192 0.38
96 274 0.54
98 43 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24059853 original size:143 final size:143
Alignment explanation
Indices: 24059704--24060348 Score: 1060
Period size: 143 Copynumber: 4.5 Consensus size: 143
24059694 GATAATTGTG
* * *
24059704 ATGTGAATGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
24059769 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24059834 GCCGATGTGATGA
131 GCCGATGTGATGA
*
24059847 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24059912 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24059977 GCCGATGTGATGA
131 GCCGATGTGATGA
*
24059990 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATACAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24060055 GTGATAAGGCCGAACGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24060120 GCCGATGTGATGA
131 GCCGATGTGATGA
24060133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
24060198 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
*
24060261 TAGCCGATGTGATGA
129 TGGCCGATGTGATGA
* * * * * * * * *
24060276 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGAGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24060341 GTGATAAG
66 GTGATAAG
24060349 TCCCGAAGGG
Statistics
Matches: 475, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
141 53 0.11
143 333 0.70
145 89 0.19
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:24062636 original size:40 final size:40
Alignment explanation
Indices: 24062571--24062891 Score: 439
Period size: 40 Copynumber: 8.1 Consensus size: 40
24062561 AGGTCTCGAC
24062571 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
24062610 GATGTATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24062650 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24062690 GATGTATTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
24062730 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
24062770 GATGTATCCGGTCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
24062810 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
24062850 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
24062890 GA
1 GA
24062892 CATGTACTCG
Statistics
Matches: 250, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 243 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:24062727 original size:23 final size:23
Alignment explanation
Indices: 24062661--24062727 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
24062651 ATGTACCCGG
24062661 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
* * **
24062684 GCT-AGT---G-A-TGTATTCGG
1 GCTAAGTCCCGAAGAGCATTCAT
24062701 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
24062724 GCTA
1 GCTA
24062728 GTGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 4 0.13
19 1 0.03
21 1 0.03
22 4 0.13
23 12 0.40
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCAT
Found at i:24066498 original size:47 final size:47
Alignment explanation
Indices: 24066446--24067090 Score: 1040
Period size: 47 Copynumber: 13.6 Consensus size: 47
24066436 GATAATTGTG
* *
24066446 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066493 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24066540 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066589 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24066636 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24066683 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24066732 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24066779 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24066826 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066875 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066924 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066971 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
24067018 ATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
*
24067065 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
24067091 TCCCGAAGGG
Statistics
Matches: 563, Mismatches: 27, Indels: 15
0.93 0.04 0.02
Matches are distributed among these distances:
46 5 0.01
47 372 0.66
48 2 0.00
49 184 0.33
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24066553 original size:96 final size:94
Alignment explanation
Indices: 24066446--24067090 Score: 1040
Period size: 96 Copynumber: 6.8 Consensus size: 94
24066436 GATAATTGTG
* *
24066446 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24066511 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
24066540 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
24066605 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24066636 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
24066701 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
24066732 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
24066797 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
24066826 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
24066891 ATATGTGATAAGGCCTAATGGTCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24066924 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24066989 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
24067018 ATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATA
24067082 TGTGATAAG
65 TGTGATAAG
24067091 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 26, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
93 5 0.01
94 191 0.37
96 276 0.53
98 44 0.09
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24066595 original size:143 final size:143
Alignment explanation
Indices: 24066446--24067090 Score: 1098
Period size: 143 Copynumber: 4.5 Consensus size: 143
24066436 GATAATTGTG
* *
24066446 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
24066511 GTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24066576 GCCGATGTGATGA
131 GCCGATGTGATGA
*
24066589 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24066654 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24066719 GCCGATGTGATGA
131 GCCGATGTGATGA
24066732 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
24066797 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
24066862 GCCGATGTGATGA
131 GCCGATGTGATGA
*
24066875 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
24066940 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
24067003 TGGCCGATGTGATGA
129 TGGCCGATGTGATGA
* * * * * * *
24067018 ATGTGAAAGTGTATATATGTGA-CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATA
24067082 TGTGATAAG
65 TGTGATAAG
24067091 TCCCGAAGGG
Statistics
Matches: 481, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
140 5 0.01
141 48 0.10
143 338 0.70
145 90 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:24073828 original size:28 final size:28
Alignment explanation
Indices: 24073796--24073849 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
24073786 TTGATTCTGG
24073796 GAGCCGTTTGAAGGGAGTTGTGAGATTA
1 GAGCCGTTTGAAGGGAGTTGTGAGATTA
24073824 GAGCCGTTTGAAGGGAGTTGTGAGAT
1 GAGCCGTTTGAAGGGAGTTGTGAGAT
24073850 CTTTCGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.28
Consensus pattern (28 bp):
GAGCCGTTTGAAGGGAGTTGTGAGATTA
Found at i:24075587 original size:18 final size:20
Alignment explanation
Indices: 24075566--24075615 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
24075556 AAAGAAAGAC
24075566 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
* *
24075584 AGAAAAGGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
24075604 AGCAAAAAGAGA
1 AG-AAAAAGAGA
24075616 TTGAGAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 2 0.08
21 8 0.31
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:24077249 original size:32 final size:33
Alignment explanation
Indices: 24077155--24077277 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 33
24077145 CTTGTTCAAA
*
24077155 GCCTTCGGTACATAGCCCGGATAGTA-CTAGCA-AAT
1 GCCTTCGG-ACTTAG-CCGGAT-GTATCT-GCACAAT
*
24077190 GCCTTCGGACTTACCCGGAT-TAGTCTGCACAAT
1 GCCTTCGGACTTAGCCGGATGTA-TCTGCACAAT
24077223 GCCTTCGG-CTTAGCCGGATGTATCTGCACAAAT
1 GCCTTCGGACTTAGCCGGATGTATCTGCAC-AAT
24077256 GCCTTCGGATCTTAGTCCGGAT
1 GCCTTCGGA-CTTAG-CCGGAT
24077278 ATGGTCACTT
Statistics
Matches: 77, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
31 2 0.03
32 20 0.26
33 32 0.42
34 4 0.05
35 13 0.17
36 6 0.08
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (33 bp):
GCCTTCGGACTTAGCCGGATGTATCTGCACAAT
Found at i:24085162 original size:39 final size:39
Alignment explanation
Indices: 24085073--24085257 Score: 238
Period size: 39 Copynumber: 4.8 Consensus size: 39
24085063 ATAACCACTC
* * * *
24085073 GCAC-AAGCCTTCGGGTCTTAACCCGGATATGGTCACTA
1 GCACAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTA
*
24085111 GCATAAATGCCTTCGGGACTTAGCCCGGAT-TAGTCGCTA
1 GCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTCGCTA
*
24085150 GCACAAATGCCTTC-GGATCTTAGTCCGGAT-TAGT-GCTA
1 GCACAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTA
24085188 GCACAAAGCCTTC-GGACTTAGCCCGGATATAGTCGCTTA
1 GCACAAAGCCTTCGGGACTTAGCCCGGATATAGTCGC-TA
24085227 GCACAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAAGCCTTCGGGACTTAGCCCGGATAT
24085258 CATTTGAGTA
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
36 11 0.08
37 13 0.10
38 19 0.14
39 52 0.39
40 37 0.28
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTA
Found at i:24090303 original size:9 final size:9
Alignment explanation
Indices: 24090289--24090318 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24090279 CAAAAAATAT
24090289 TTTTTCCTA
1 TTTTTCCTA
*
24090298 TTTTTCGTA
1 TTTTTCCTA
24090307 TTTTTCCTA
1 TTTTTCCTA
24090316 TTT
1 TTT
24090319 CATTTTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTTCCTA
Found at i:24101984 original size:54 final size:54
Alignment explanation
Indices: 24101800--24101984 Score: 271
Period size: 54 Copynumber: 3.4 Consensus size: 54
24101790 CTAATGACTA
* * * *
24101800 AAATACCCCTATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCG
* * * * * *
24101854 AAATACCCTCACAAGGTAAAATAATTTAAATACCCCCACAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCG
*
24101908 AAATATCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCG
24101962 AAATACCCCCATAGGGTAAAATG
1 AAATACCCCCATAGGGTAAAATG
24101985 GCTGTTATAC
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (54 bp):
AAATACCCCCATAGGGTAAAATGATTGAAATACCCCCATAGGGTAAAATGACCG
Found at i:24101997 original size:27 final size:27
Alignment explanation
Indices: 24101800--24101984 Score: 235
Period size: 27 Copynumber: 6.9 Consensus size: 27
24101790 CTAATGACTA
* *
24101800 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
24101827 AAATACCCCTATAGGGTAAAATAACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * * * ***
24101854 AAATACCCTCACAAGGTAAAATAATTT
1 AAATACCCCCATAGGGTAAAATGACCG
*
24101881 AAATACCCCCACAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* **
24101908 AAATATCCCCATAGGGTAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACCG
24101935 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
24101962 AAATACCCCCATAGGGTAAAATG
1 AAATACCCCCATAGGGTAAAATG
24101985 GCTGTTATAC
Statistics
Matches: 136, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:24111698 original size:15 final size:16
Alignment explanation
Indices: 24111660--24111701 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
24111650 TTTAAAAATC
*
24111660 AAATTAAAATATTAAT
1 AAATTAATATATTAAT
*
24111676 AAACTAATAT-TTAAT
1 AAATTAATATATTAAT
*
24111691 TAATTAATATA
1 AAATTAATATA
24111702 AAATATCTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAATATATTAAT
Found at i:24112595 original size:50 final size:50
Alignment explanation
Indices: 24112519--24112714 Score: 275
Period size: 50 Copynumber: 3.8 Consensus size: 50
24112509 AACACATAGA
* * *
24112519 ACCTCTCATCTCGGTGCCAACACCATGTCCTAGACATGGTTTTACATGGG
1 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
24112569 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
1 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
* * *
24112619 ACCTCTCATCTCGGTGCCAACGCCATGTCCCGGACATGGTCTTACATGGG
1 ACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
*
24112669 ACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGT
1 ACCTCTC---ATCTC-A-G-TGCCAACGCCATGTCCCAGACATGGT
24112715 CTTATACGAG
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 101 0.77
53 5 0.04
55 1 0.01
56 24 0.18
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
ACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTTTTACATGGG
Found at i:24134652 original size:13 final size:13
Alignment explanation
Indices: 24134634--24134668 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
24134624 TTTCTATAAA
24134634 TTATGTTTTCAAG
1 TTATGTTTTCAAG
24134647 TTATGTTTTCAAG
1 TTATGTTTTCAAG
24134660 TTATGTTTT
1 TTATGTTTT
24134669 ATACGGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.60
Consensus pattern (13 bp):
TTATGTTTTCAAG
Found at i:24137817 original size:17 final size:17
Alignment explanation
Indices: 24137795--24137830 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24137785 ATGCACTATC
* *
24137795 ATTAAAATGCAATGACA
1 ATTAAAATACAACGACA
24137812 ATTAAAATACAACGACA
1 ATTAAAATACAACGACA
24137829 AT
1 AT
24137831 GTGCACTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.22
Consensus pattern (17 bp):
ATTAAAATACAACGACA
Found at i:24158579 original size:31 final size:33
Alignment explanation
Indices: 24158513--24158579 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
24158503 TTTATTAAAA
** *
24158513 AAAAGGAATAAAAGAGAAAAGGTAAGTTTGTTC
1 AAAAGGAATAAAAGAGAAAAGAAAAGTTTGCTC
*
24158546 AAAA-GAATAAAA-AGTAAAGAAAAGTTTGCTC
1 AAAAGGAATAAAAGAGAAAAGAAAAGTTTGCTC
24158577 AAA
1 AAA
24158580 GTTTGGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 18 0.60
32 8 0.27
33 4 0.13
ACGTcount: A:0.57, C:0.04, G:0.19, T:0.19
Consensus pattern (33 bp):
AAAAGGAATAAAAGAGAAAAGAAAAGTTTGCTC
Found at i:24163391 original size:50 final size:50
Alignment explanation
Indices: 24163284--24163481 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 50
24163274 ATTTGGGTAA
*
24163284 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGAG---ATG
*
24163340 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* * * * *
24163390 AGAGGTTCCC-CGTAAGACCATGTCTAGGACATTGCATGGGCACTGATATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** * * * *
24163440 AGAACTCCCATGTAAGACCATATCTGAGATATGACATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24163482 ATACAGAAAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.03
50 69 0.57
51 4 0.03
53 3 0.02
55 1 0.01
56 41 0.34
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:24163452 original size:100 final size:104
Alignment explanation
Indices: 24163295--24163481 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 104
24163285 GAGATCCCAT
* * **
24163295 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCA-T-AGATTATGAGAACTCCCATGTAAGACCA
* * *
24163360 TGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTTCCCC
64 TATCTGAGACATGACATTGGCACCGAGATGAGAGGTTCCCC
*
24163401 GTAAGACCATGTCTAGGACATTGCATGGGCA-C-T-GA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTAGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
*
24163462 TCTGAGATATGACATTGGCA
66 TCTGAGACATGACATTGGCA
24163482 ATACAGAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 40 0.56
101 2 0.03
103 1 0.01
105 1 0.01
106 28 0.39
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTAGGACATGGCATGGGCATCATAGATTATGAGAACTCCCATGTAAGACCATA
TCTGAGACATGACATTGGCACCGAGATGAGAGGTTCCCC
Found at i:24169568 original size:7 final size:7
Alignment explanation
Indices: 24169556--24169582 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24169546 CTCCTTTCTA
24169556 AACTAAG
1 AACTAAG
24169563 AACTAAG
1 AACTAAG
24169570 AACTAAG
1 AACTAAG
24169577 AACTAA
1 AACTAA
24169583 AGAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (7 bp):
AACTAAG
Found at i:24182072 original size:10 final size:10
Alignment explanation
Indices: 24182057--24182103 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
24182047 TAACATGTTG
24182057 AATTTTGATT
1 AATTTTGATT
*
24182067 AATTTTATAATT
1 AA-TTT-TGATT
24182079 AATTTTGATT
1 AATTTTGATT
24182089 AATTTTGATT
1 AATTTTGATT
24182099 -ATTTT
1 AATTTT
24182104 CGAAAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 16 0.48
11 6 0.18
12 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (10 bp):
AATTTTGATT
Found at i:24192662 original size:27 final size:27
Alignment explanation
Indices: 24192630--24192681 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24192620 ACAAGTGAGG
24192630 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* ** *
24192657 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
24192682 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:24197420 original size:14 final size:14
Alignment explanation
Indices: 24197401--24197428 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24197391 ATTTCCATAA
24197401 CGTCAATAAATTGT
1 CGTCAATAAATTGT
24197415 CGTCAATAAATTGT
1 CGTCAATAAATTGT
24197429 AGTGAAGGCG
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:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CGTCAATAAATTGT
Found at i:24206644 original size:43 final size:43
Alignment explanation
Indices: 24206531--24206661 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
24206521 ACATCGTTAT
* * * *
24206531 AGAACAGGACCTTTAGCGGCGC-TTCTCATAAAAATACCACTAA
1 AGAACATGACCTTTAGCGGCGCGTT-TCCTACAAATGCCACTAA
* *
24206574 AGAACATGACCTTTAGCGGCGGGTTTCCTACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCGTTTCCTACAAATGCCACTAA
* * *
24206617 AGAACATGACTTTTAGCGGCGCGTTTCCCACAAATGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCGTTTCCTACAAATGCCACTAA
24206660 AG
1 AG
24206662 GTCATGTTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 74 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCGTTTCCTACAAATGCCACTAA
Found at i:24213639 original size:100 final size:100
Alignment explanation
Indices: 24213513--24213704 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
24213503 TTTTTTGTAC
* * * ** * *
24213513 TGCCAATGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
24213578 CCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
66 CCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGG
* * *
24213613 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTTATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
24213678 CCAGACATGGTCTTACATGGGACCTCT
66 CCAGACATGGTCTTACATGGGACCTCT
24213705 TTACCCAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 1 0.01
100 80 0.99
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATATCCCAAACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:24213705 original size:50 final size:50
Alignment explanation
Indices: 24213513--24213704 Score: 251
Period size: 50 Copynumber: 3.8 Consensus size: 50
24213503 TTTTTTGTAC
* * * * ** *
24213513 TGCCAATGCCATATCCCATATATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
* * *
24213563 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATCTCGG
* *
24213613 TGCCAACGCCATGTCCCAAACATGGTCTTACATGAGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
*
24213663 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
24213705 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 123 0.98
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
Found at i:24218849 original size:13 final size:13
Alignment explanation
Indices: 24218831--24218860 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24218821 TGATTATCAT
24218831 CTTTAAATATTAA
1 CTTTAAATATTAA
*
24218844 CTTTAAATATTGA
1 CTTTAAATATTAA
24218857 CTTT
1 CTTT
24218861 TTTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (13 bp):
CTTTAAATATTAA
Found at i:24219153 original size:87 final size:90
Alignment explanation
Indices: 24219009--24219172 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 90
24218999 ATGAAAGGAT
* * *
24219009 AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTATGATAATTAAATATATTTATTTTT
1 AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTATAAAAATTAAATATATTTATTTAT
24219074 ATAAT-AATATTTTGAAAGATATTA
66 ATAATAAATATTTTGAAAGATATTA
* * *
24219098 AAAT-AATTTTAACAT-TA-AGATAAATATTATTTTTCTTTA-AAAAATTAAATGATATTTATTT
1 AAATAAATTTTAA-ATATATAGATAAACAATATTTGTCTTTATAAAAATTAAAT-ATATTTATTT
*
24219159 ATATGATAAATATT
64 ATATAATAAATATT
24219173 ATATTATGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
86 9 0.14
87 34 0.52
88 16 0.25
89 6 0.09
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (90 bp):
AAATAAATTTTAAATATATAGATAAACAATATTTGTCTTTATAAAAATTAAATATATTTATTTAT
ATAATAAATATTTTGAAAGATATTA
Found at i:24219829 original size:72 final size:71
Alignment explanation
Indices: 24219679--24219983 Score: 297
Period size: 72 Copynumber: 4.3 Consensus size: 71
24219669 ACATATTACC
* ** * * * * *
24219679 GAATAAACGATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTA-ATCTTCTCAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCT-TTTTAAAAACA
*
24219743 TATAACTT
65 CATAA-TT
* * * * *
24219751 GAATAAATGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTA-CCTTTTTAAAAACA
24219816 CATAATT
65 CATAATT
* * * ** *
24219823 GGATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAAATTTTTAAACACAC
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCTTTTTAAAAACAC
24219888 ATAATT
66 ATAATT
* * ** * * *
24219894 AAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAACCTTTTTAAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATT-ACCTTTTTAAAAACA
24219959 CATAATT
65 CATAATT
* **
24219966 AAATAAACGACTTTACTT
1 GAATAAACGGTTTTACTT
24219984 GATAATTAAT
Statistics
Matches: 189, Mismatches: 41, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
71 56 0.30
72 120 0.63
73 12 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (71 bp):
GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTACCTTTTTAAAAACAC
ATAATT
Found at i:24219962 original size:143 final size:144
Alignment explanation
Indices: 24219680--24219983 Score: 337
Period size: 143 Copynumber: 2.1 Consensus size: 144
24219670 CATATTACCG
* * * *
24219680 AATAAACGATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACATA
1 AATAAACGATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTCAAAACACA
* * * * * * * *
24219745 TAACTTGAATAAATGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTA
66 TAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTA
* *
24219810 AAAATACATAATTG
131 AAAACACATAATTA
* * * * * *
24219824 GATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAAAT-TT-TTAAACACA
1 AATAAACGATTCTACTTAATATCAAAACTCAATAAA-TCAAATAAATTAAATCTTCTCAAA-ACA
* * * *
24219887 CATAA-TTAAATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATTAACCTTTT
64 CATAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTT
24219951 TAAAAACACATAATTA
129 TAAAAACACATAATTA
24219967 AATAAACGACTT-TACTT
1 AATAAACGA-TTCTACTT
24219984 GATAATTAAT
Statistics
Matches: 131, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
143 77 0.59
144 43 0.33
145 11 0.08
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (144 bp):
AATAAACGATTCTACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTCAAAACACA
TAACTTAAATAAACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTA
AAAACACATAATTA
Found at i:24222091 original size:21 final size:23
Alignment explanation
Indices: 24222066--24222114 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
24222056 ATAACATAAT
*
24222066 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
24222087 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
24222109 AAAAAT
1 AAAAAT
24222115 AGATGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:24222316 original size:25 final size:25
Alignment explanation
Indices: 24222246--24222348 Score: 107
Period size: 25 Copynumber: 4.0 Consensus size: 25
24222236 TTGTTGTTTC
*
24222246 GGGGTAGAGGAGTGTCGACGATGAT
1 GGGGTAGAGGAGTGTCGACGGTGAT
**
24222271 GTAGTAGAGGAGTGTCGACGGTGAT
1 GGGGTAGAGGAGTGTCGACGGTGAT
* *
24222296 GGGGTAGAGGAGTGTTGACGGCGAT
1 GGGGTAGAGGAGTGTCGACGGTGAT
** * *
24222321 GCAGCAGAGGTGATAGTCGACGGTGAT
1 GGGGTAGAGGAG-T-GTCGACGGTGAT
24222348 G
1 G
24222349 AAACAATTGG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
25 51 0.81
26 1 0.02
27 11 0.17
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (25 bp):
GGGGTAGAGGAGTGTCGACGGTGAT
Found at i:24222330 original size:50 final size:52
Alignment explanation
Indices: 24222246--24222348 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 52
24222236 TTGTTGTTTC
* * *
24222246 GGGGTAGAGGAGTGTCGACGATGATGTAGTAGAGGAG-T-GTCGACGGTGAT
1 GGGGTAGAGGAGTGTCGACGACGATGCAGCAGAGGAGATAGTCGACGGTGAT
* * *
24222296 GGGGTAGAGGAGTGTTGACGGCGATGCAGCAGAGGTGATAGTCGACGGTGAT
1 GGGGTAGAGGAGTGTCGACGACGATGCAGCAGAGGAGATAGTCGACGGTGAT
24222348 G
1 G
24222349 AAACAATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 31 0.69
51 1 0.02
52 13 0.29
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (52 bp):
GGGGTAGAGGAGTGTCGACGACGATGCAGCAGAGGAGATAGTCGACGGTGAT
Found at i:24222468 original size:34 final size:32
Alignment explanation
Indices: 24222359--24222478 Score: 98
Period size: 35 Copynumber: 3.5 Consensus size: 32
24222349 AAACAATTGG
* *
24222359 TTGGGGAAAATCTAAGGGATTTAGGGAGTTTTGAT
1 TTGGGGAAAAACTAAGGGATTT-GGGA--TATGAT
* * *
24222394 TTGGGGAAAAATTAAGGGATTTGGGGAAAAT-TT
1 TTGGGGAAAAACTAAGGGATTT-GGG-ATATGAT
*
24222427 TTAGGGGAAAAAATAAGGGATTTCGAGGATATGAT
1 TT-GGGGAAAAACTAAGGGATTT-G-GGATATGAT
24222462 TTGGGGATAAAACTAAG
1 TTGGGGA-AAAACTAAG
24222479 CAGAGCAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
33 3 0.04
34 29 0.42
35 36 0.52
36 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.29
Consensus pattern (32 bp):
TTGGGGAAAAACTAAGGGATTTGGGATATGAT
Found at i:24222591 original size:40 final size:41
Alignment explanation
Indices: 24222520--24222614 Score: 138
Period size: 40 Copynumber: 2.3 Consensus size: 41
24222510 AAAATGATAC
* * *
24222520 TTTGTGGCATTTTTCTCATAAACGCCGCTATTGGTT-ACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
* *
24222560 TTTGCGGCGTTTTTCTCATAAATGCCACTATTGCTTGACCT
1 TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
24222601 TTTGTGGCGTTTTT
1 TTTGTGGCGTTTTT
24222615 TCGTTAGCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 31 0.65
41 17 0.35
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (41 bp):
TTTGTGGCGTTTTTCTCATAAACGCCACTATTGCTTGACCT
Found at i:24223887 original size:28 final size:30
Alignment explanation
Indices: 24223854--24223918 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
24223844 TGAATAAAAA
* *
24223854 TAATTTTATG-AGC-CTGGGGGCAAAATTG
1 TAATTTTATGAAACTCTGGGGGCAAAAATG
* *
24223882 TAATTTTGTGAAACTTTGGGGGCAAAAATG
1 TAATTTTATGAAACTCTGGGGGCAAAAATG
24223912 TAATTTT
1 TAATTTT
24223919 TCCAAAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 9 0.29
29 2 0.06
30 20 0.65
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (30 bp):
TAATTTTATGAAACTCTGGGGGCAAAAATG
Found at i:24224394 original size:41 final size:41
Alignment explanation
Indices: 24224210--24224449 Score: 191
Period size: 41 Copynumber: 5.7 Consensus size: 41
24224200 TTTGAATGTA
* * * *
24224210 AAGGGGTTGCTAAGTG-TAGATTCC-CTGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCT-GATTCCACCGTATCATTGAT-TAT
* * * * *
24224251 AAAGGGTTGCTAAGTGCAGATTCC-CTGAATTATTGATTAAT
1 AAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATT-AT
* * * *
24224292 AATGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGT
1 AA-GGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
*
24224334 GAAAGGGGTTGCTATGTGCTGATTCC-CCGTATCATTGATTAT
1 --AAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
* * **
24224376 AAGGTGGTTGCTAAGTGCTGATTCCACCGAGATCCTTTGAACAT
1 AAGG-GGTTGCTAAGTGCTGATTCCACCG-TAT-CATTGATTAT
*
24224420 GAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 AAGG-GGTTGCTAAGTGCTGATTCCACCGT
24224450 GTGACGGTTA
Statistics
Matches: 163, Mismatches: 26, Indels: 18
0.79 0.13 0.09
Matches are distributed among these distances:
40 4 0.02
41 55 0.34
42 36 0.22
43 31 0.19
44 37 0.23
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
Found at i:24224429 original size:85 final size:84
Alignment explanation
Indices: 24224254--24224449 Score: 234
Period size: 85 Copynumber: 2.3 Consensus size: 84
24224244 GATCAAAAAA
* * * * *
24224254 GGGTTGCTAAGTGCAGATTCCCTGAATTATTGATTAATAATGTGGTTGCTAAGTACTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
* ***
24224319 CGTATCCTTGATTGTGAAAG
66 CGGATCCTTGAACATG-AAG
* *
24224339 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATT-ATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
24224403 CGAGATCCTTTGAACATG-AG
66 CG-GATCC-TTGAACATGAAG
24224423 GTGGTTGCTAAGTGCTGATTCCACCGT
1 G-GGTTGCTAAGTGCTGATTCC-CCGT
24224450 GTGACGGTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
84 32 0.34
85 53 0.56
86 10 0.11
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
CGGATCCTTGAACATGAAG
Found at i:24224431 original size:44 final size:42
Alignment explanation
Indices: 24224255--24224449 Score: 189
Period size: 42 Copynumber: 4.6 Consensus size: 42
24224245 ATCAAAAAAG
* * * ** * *
24224255 GGTTGCTAAGTGCAGATTCC-CTGAATTATTGATTAATAATGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATT-ATGAGGT
* *
24224297 GGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATG--AGGT
* * *
24224340 GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATGAGGT
* **
24224381 GGTTGCTAAGTGCTGATTCCACCGAGATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACCG-TATCC-TTGATTATGAGGT
24224425 GGTTGCTAAGTGCTGATTCCACCGT
1 GGTTGCTAAGTGCTGATTCCACCGT
24224450 GTGACGGTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
40 3 0.02
41 19 0.15
42 36 0.29
43 31 0.25
44 36 0.29
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTATGAGGT
Found at i:24234073 original size:26 final size:26
Alignment explanation
Indices: 24234034--24234088 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
24234024 AAGCTCTCTT
*
24234034 GAAAATTGGAAGAATGGA-AATGAGA
1 GAAAATAGGAAGAATGGAGAATGAGA
24234059 GAAAATAGAGAAGAATGGATGAATGAGA
1 GAAAATAG-GAAGAATGGA-GAATGAGA
24234087 GA
1 GA
24234089 TGATGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.15
Consensus pattern (26 bp):
GAAAATAGGAAGAATGGAGAATGAGA
Found at i:24234524 original size:21 final size:21
Alignment explanation
Indices: 24234500--24234541 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24234490 CAAAACATGA
24234500 GTTGAAATAAACAGATATAAT
1 GTTGAAATAAACAGATATAAT
* *
24234521 GTTGAAATAAATAGATTTAAT
1 GTTGAAATAAACAGATATAAT
24234542 TTTAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.33
Consensus pattern (21 bp):
GTTGAAATAAACAGATATAAT
Found at i:24234549 original size:21 final size:21
Alignment explanation
Indices: 24234504--24234549 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24234494 ACATGAGTTG
*
24234504 AAATAAACAGATATAATGTTG
1 AAATAAACAGATATAATGTTA
* * *
24234525 AAATAAATAGATTTAATTTTA
1 AAATAAACAGATATAATGTTA
24234546 AAAT
1 AAAT
24234550 CATGTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (21 bp):
AAATAAACAGATATAATGTTA
Found at i:24235238 original size:22 final size:22
Alignment explanation
Indices: 24235211--24235262 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
24235201 GGACATGCCA
24235211 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
24235233 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
24235255 CCACTGAT
1 CCACTGAT
24235263 AACACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:24236480 original size:12 final size:12
Alignment explanation
Indices: 24236438--24236480 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
24236428 TAAGGGGAGG
24236438 AGAAGAAAGAAGT
1 AGAAGAAA-AAGT
* *
24236451 AGGAGAAAAAAT
1 AGAAGAAAAAGT
*
24236463 ATAAGAAAAAGT
1 AGAAGAAAAAGT
24236475 AGAAGA
1 AGAAGA
24236481 GGAAGTGGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (12 bp):
AGAAGAAAAAGT
Found at i:24243607 original size:40 final size:40
Alignment explanation
Indices: 24243557--24243741 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
24243547 TACTGGAGAT
* *
24243557 AAACAGGGGCACGGAAGTGCATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGGATGTGCATTCAGGGGTACCGAAGTAC
* * * * *
24243597 AAATAGGGGCACGTATGTGCATTTAGGGGTACTGCAGTAC
1 AAACAGGGGCACGGATGTGCATTCAGGGGTACCGAAGTAC
* ** *
24243637 AAACAAGGGCACATATGTGCATTAAGGGGTACCGAAGTAC
1 AAACAGGGGCACGGATGTGCATTCAGGGGTACCGAAGTAC
*
24243677 AAACAGGGGCACGCATGTGCATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGGATGTGCATTCAGGGGTACCGAAGTAC
* *
24243717 AAATAGGGGCACGAATGTGCATTCA
1 AAACAGGGGCACGGATGTGCATTCA
24243742 TTCTATAATT
Statistics
Matches: 126, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGGATGTGCATTCAGGGGTACCGAAGTAC
Found at i:24243724 original size:20 final size:20
Alignment explanation
Indices: 24243661--24243725 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
24243651 ATGTGCATTA
*
24243661 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAT
* * * *
24243681 AGGGGCA-CGCATGTGC-ATT
1 AGGGGTACCG-AAGTACAAAT
24243700 CAGGGGTACCGAAGTACAAAT
1 -AGGGGTACCGAAGTACAAAT
24243721 AGGGG
1 AGGGG
24243726 CACGAATGTG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
19 3 0.09
20 25 0.78
21 4 0.12
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:24250357 original size:104 final size:104
Alignment explanation
Indices: 24250175--24250384 Score: 402
Period size: 104 Copynumber: 2.0 Consensus size: 104
24250165 GAGCTATTAA
24250175 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
*
24250240 GGTACTGATAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
*
24250279 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
24250344 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
24250383 CG
1 CG
24250385 TATGCTTCAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (104 bp):
CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTCTGATAG
GGTACTGAGAATCATTATTTGCTATCCTTTCCAGAATTT
Found at i:24253700 original size:20 final size:20
Alignment explanation
Indices: 24253677--24253762 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 20
24253667 ACAAGCCACC
*
24253677 AGTAATGCAGACAAGCTGCT
1 AGTAATGCAGACAAGCTGCA
** * ** *
24253697 AGTAATGTGGTCAAGCCACT
1 AGTAATGCAGACAAGCTGCA
* * * *
24253717 AGTAATGTATATAAACTGCA
1 AGTAATGCAGACAAGCTGCA
* *
24253737 AGTAGTGCAAACAAGCTGCA
1 AGTAATGCAGACAAGCTGCA
24253757 AGTAAT
1 AGTAAT
24253763 ATGGAGAAGC
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (20 bp):
AGTAATGCAGACAAGCTGCA
Found at i:24253791 original size:60 final size:60
Alignment explanation
Indices: 24253677--24253795 Score: 148
Period size: 60 Copynumber: 2.0 Consensus size: 60
24253667 ACAAGCCACC
* * * * * * *
24253677 AGTAATGCAGACAAGCTGCTAGTAATGTGGTCAAGCCACTAGTAATGTATATAAACTGCA
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGCA
* * *
24253737 AGTAGTGCAAACAAGCTGCAAGTAATATGGAGAAGCCACCAGTGATGCAAATAAACTGC
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGC
24253796 CAATACTTCC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (60 bp):
AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACCAGTAATGCAAATAAACTGCA
Found at i:24255825 original size:51 final size:49
Alignment explanation
Indices: 24255648--24255987 Score: 311
Period size: 51 Copynumber: 6.7 Consensus size: 49
24255638 TATCATTTGT
** *
24255648 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CGA
* * * * * * *
24255698 TTCATGTAGTAGCCTTCACATAGTACTATACACATGATCAAATTTTATGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CGA
* * *
24255748 TTCACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA--TTTTCGA
* * * ** * *
24255799 TACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTCATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATT-TTCGA
* * * ** *
24255850 TACACATAGTAGCCTTCACACAGTACTACACACGTTACCAAAACTTCTA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCGA
* * * *
24255899 TGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGA
1 --TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTT-TCGA
*
24255952 TACACGTAGTAGCCTTCACAGAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
24255988 TTCATCAATA
Statistics
Matches: 237, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.01
50 82 0.35
51 142 0.60
52 7 0.03
53 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCGA
Found at i:24255831 original size:26 final size:26
Alignment explanation
Indices: 24255799--24255933 Score: 72
Period size: 26 Copynumber: 5.3 Consensus size: 26
24255789 AGCTTTTCGG
24255799 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
24255825 TACACAT-GT-G--TTCATCATTCA-T-C
1 TACACATAGTAGCCTTCA-C-TT-AGTAC
**
24255848 GATACACATAGTAGCCTTCACACAGTAC
1 --TACACATAGTAGCCTTCACTTAGTAC
* *** * *
24255876 TACACA-CGTTA-CCAAAACTT-CTATG
1 TACACATAG-TAGCCTTCACTTAGTA-C
24255901 TACACATAGTAGCCTTCACTTAGTAC
1 TACACATAGTAGCCTTCACTTAGTAC
24255927 TACACAT
1 TACACAT
24255934 GTGACCATTA
Statistics
Matches: 77, Mismatches: 16, Indels: 32
0.62 0.13 0.26
Matches are distributed among these distances:
22 4 0.05
23 2 0.03
24 6 0.08
25 23 0.30
26 32 0.42
27 4 0.05
28 2 0.03
29 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (26 bp):
TACACATAGTAGCCTTCACTTAGTAC
Found at i:24255879 original size:102 final size:102
Alignment explanation
Indices: 24255754--24255987 Score: 351
Period size: 102 Copynumber: 2.3 Consensus size: 102
24255744 ATGGTTCACG
* * * * *
24255754 TAGTAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACT
1 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTAGGTACACATAGTAGCCTTCACT
**
24255819 TAGTACTACACATGTGTTCATCATTCATCGATACACA
66 TAGTACTACACATGTGACCATCATTCATCGATACACA
* *
24255856 TAGTAGCCTTCACACAGTACTACACACGTTACCAAAACTTCTATGTACACATAGTAGCCTTCACT
1 TAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTAGGTACACATAGTAGCCTTCACT
* * *
24255921 TAGTACTACACATGTGACCATTATTTATCGATACACG
66 TAGTACTACACATGTGACCATCATTCATCGATACACA
*
24255958 TAGTAGCCTTCACAGAGTACTACACACGTG
1 TAGTAGCCTTCACACAGTACTACACACGTG
24255988 TTCATCAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 118 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (102 bp):
TAGTAGCCTTCACACAGTACTACACACGTGACCAAAACTTCTAGGTACACATAGTAGCCTTCACT
TAGTACTACACATGTGACCATCATTCATCGATACACA
Found at i:24255937 original size:153 final size:152
Alignment explanation
Indices: 24255648--24255994 Score: 396
Period size: 153 Copynumber: 2.3 Consensus size: 152
24255638 TATCATTTGT
* * * * *** * * **
24255648 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTA-CGATTCATGTAGTAGCC
1 TACACATAGTAGCCTTCACAGAGTACTACACACGTGTTCATCATTCATCGATACACATAGTAGCC
* * * * * *
24255712 TTCACATAGTACTATACACATGATCAAATTTTATGGTTCACGTAGTAGCCTTCACATAGTACTAC
66 TTCACACAGTACTACACACATGACCAAATTCTATGGTACACATAGTAGCCTTCACATAGTACTAC
*
24255777 ACATGTGACCA-AAGCTTT-TCGG
131 ACATGTGACCATAA--TTTATCGA
** *
24255799 TACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTCATCGATACACATAGTAGCC
1 TACACATAGTAGCCTTCACAGAGTACTACACACGTGTTCATCATTCATCGATACACATAGTAGCC
* * *
24255864 TTCACACAGTACTACACACGTTACCAAAACTTCTAT-GTACACATAGTAGCCTTCACTTAGTACT
66 TTCACACAGTACTACACACATGACC-AAA-TTCTATGGTACACATAGTAGCCTTCACATAGTACT
*
24255928 ACACATGTGACCATTATTTATCGA
129 ACACATGTGACCATAATTTATCGA
*
24255952 TACACGTAGTAGCCTTCACAGAGTACTACACACGTGTTCATCA
1 TACACATAGTAGCCTTCACAGAGTACTACACACGTGTTCATCA
24255995 ATACCTTATT
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
151 38 0.23
152 37 0.23
153 83 0.51
154 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (152 bp):
TACACATAGTAGCCTTCACAGAGTACTACACACGTGTTCATCATTCATCGATACACATAGTAGCC
TTCACACAGTACTACACACATGACCAAATTCTATGGTACACATAGTAGCCTTCACATAGTACTAC
ACATGTGACCATAATTTATCGA
Found at i:24256494 original size:30 final size:30
Alignment explanation
Indices: 24256460--24256521 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
24256450 TCGACTCAAC
24256460 CTTTTACAAAATTACGA-TTTTGTCCCCAAA
1 CTTTTACAAAATTAC-ATTTTTGTCCCCAAA
* * *
24256490 CTTTTGCATATTTACATTTTTGTCCCCAAA
1 CTTTTACAAAATTACATTTTTGTCCCCAAA
24256520 CT
1 CT
24256522 CAAAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (30 bp):
CTTTTACAAAATTACATTTTTGTCCCCAAA
Found at i:24258110 original size:20 final size:20
Alignment explanation
Indices: 24258082--24258135 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
24258072 AAGACGATGA
24258082 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
24258102 ACGATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
24258122 TCCATTCCAATTAC
1 ACCATTCCATTTAC
24258136 CTAGGATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.43
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:24263014 original size:27 final size:27
Alignment explanation
Indices: 24262970--24263265 Score: 275
Period size: 27 Copynumber: 11.0 Consensus size: 27
24262960 TATAGGCTAC
*
24262970 TGACTGAAA-ACCCTCGAAAGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
24262996 TGACTGAAATACCCTCGAAGGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
* * *
24263023 TGACCGAACTACCCTC-AAAGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
** *
24263049 TGACCAAAATACCCCCGAAGGGTAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
* ** *
24263076 TGAGTGAAATACGGTCGAAGGGTAATA
1 TGACTGAAATACCCTCGAAGGGTAAAA
24263103 TGA-TCGAAATACCCTCGAAGGGTAAAA
1 TGACT-GAAATACCCTCGAAGGGTAAAA
* * **
24263130 TGACTAAAATACCCTCAAAGCATAAAA
1 TGACTGAAATACCCTCGAAGGGTAAAA
*
24263157 TGACTAAAATACCC-CTGAAGGGTAAAA
1 TGACTGAAATACCCTC-GAAGGGTAAAA
** *
24263184 TGACCAAAATACCC-CTAAAGGGTAAAA
1 TGACTGAAATACCCTC-GAAGGGTAAAA
* * *
24263211 T-AATCGAAATACCCTCGATGGATAAAA
1 TGACT-GAAATACCCTCGAAGGGTAAAA
*
24263238 TGA-TCGAAATACCC-CCATAGGGTAAAA
1 TGACT-GAAATACCCTCGA-AGGGTAAAA
24263265 T
1 T
24263266 ATCTGTTATA
Statistics
Matches: 225, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
26 36 0.16
27 186 0.83
28 3 0.01
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
TGACTGAAATACCCTCGAAGGGTAAAA
Found at i:24267903 original size:27 final size:27
Alignment explanation
Indices: 24267856--24268303 Score: 485
Period size: 27 Copynumber: 16.6 Consensus size: 27
24267846 GTTGAGGAAA
* * *
24267856 TCGAAGGCT-AAATGATCGAAATATCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* * * *
24267882 ACGAAGGATAAAATAACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
24267909 TTGAAGGGTAAAATGATCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
24267936 CCGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* * * **
24267963 CCAAAAGGTAAAATGACTAAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
24267990 TCGAAGGGTAAAATGACCAAAATACCT
1 TCGAAGGGTAAAATGACCGAAATACCC
* **
24268017 TCGATGGGTAAAATGACCGAAATACAT
1 TCGAAGGGTAAAATGACCGAAATACCC
*
24268044 TTGAAGGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
24268071 TCGAATGGTAAAATGACCGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
24268098 TCGAATGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
*
24268125 CCGAAGGGTAAAATGACC-ACAATACCC
1 TCGAAGGGTAAAATGACCGA-AATACCC
* *
24268152 CCGAAGGGTAAAATGACTGAAATACCC
1 TCGAAGGGTAAAATGACCGAAATACCC
* *
24268179 TCGAAGGGTAAAAT-AACTAGAATACCC
1 TCGAAGGGTAAAATGACCGA-AATACCC
* * * *
24268206 TTGAATGGTATAATAACCGAAATA-CC
1 TCGAAGGGTAAAATGACCGAAATACCC
**
24268232 TCCGAAGGGTAAAATGATTGAAATACCC
1 T-CGAAGGGTAAAATGACCGAAATACCC
*
24268260 CCGAAGGGTAAAATGACCGAAATACCGC
1 TCGAAGGGTAAAATGACCGAAATACC-C
24268288 -C-ATAGGGTAAAATGAC
1 TCGA-AGGGTAAAATGAC
24268304 TGTTATACCC
Statistics
Matches: 357, Mismatches: 56, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
26 14 0.04
27 336 0.94
28 7 0.02
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
TCGAAGGGTAAAATGACCGAAATACCC
Found at i:24268520 original size:26 final size:26
Alignment explanation
Indices: 24268489--24268559 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
24268479 ACATATACTG
* ** *
24268489 TTACTGGCAACTTTGCTGTGTTATTA
1 TTACTGGCAGCTTTGCTGCATCATTA
*
24268515 TTACTGGCAGCTTTGCCGCATCATTA
1 TTACTGGCAGCTTTGCTGCATCATTA
*
24268541 TCACTGGCAGCTTTGCTGC
1 TTACTGGCAGCTTTGCTGC
24268560 GATATTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCATTA
Found at i:24269835 original size:19 final size:19
Alignment explanation
Indices: 24269808--24269855 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
24269798 GATTTTGATT
24269808 TTTTTAAAAAAAAATAGAA
1 TTTTTAAAAAAAAATAGAA
* **
24269827 -TTTTCAAAAATTATAGAA
1 TTTTTAAAAAAAAATAGAA
24269845 TTTTTAAAAAA
1 TTTTTAAAAAA
24269856 CTTGCAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTTTAAAAAAAAATAGAA
Found at i:24270287 original size:27 final size:27
Alignment explanation
Indices: 24270225--24270311 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
24270215 AATTTTTAAA
*
24270225 ATTTAAAAGATTAAAAAAATTATATATT
1 ATTTAAAA-ATTAAAAAAATTATAAATT
*
24270253 -TTTAAAAAATTAAAAATCATTA-AAATT
1 ATTT-AAAAATTAAAAA-AATTATAAATT
* * * *
24270280 ATTTAAAAACTATAAAAAGTAAAAATAT
1 ATTTAAAAATTAAAAAAATTATAAAT-T
24270308 ATTT
1 ATTT
24270312 TTTAATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.06
27 29 0.60
28 16 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTTAAAAATTAAAAAAATTATAAATT
Found at i:24272346 original size:42 final size:42
Alignment explanation
Indices: 24272280--24272375 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
24272270 AAATGGTTTT
** *
24272280 ACAA-CTGTGTATCGGTGAAGCTCCCCACATGAGCTTAAGTG
1 ACAAGCTGTGTATCAATGAAACTCCCCACATGAGCTTAAGTG
** *
24272321 ACAAGCTGTGTATCAATGAAACTCCCTGCGTGAGCTTAAGTG
1 ACAAGCTGTGTATCAATGAAACTCCCCACATGAGCTTAAGTG
*
24272363 ACAAGTTGTGTAT
1 ACAAGCTGTGTAT
24272376 TAGCAATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
ACAAGCTGTGTATCAATGAAACTCCCCACATGAGCTTAAGTG
Found at i:24272396 original size:42 final size:39
Alignment explanation
Indices: 24272299--24272402 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 39
24272289 TATCGGTGAA
*
24272299 GCTCCCCACATGAGCTTAAGTGACAAGCTGTGTATCAAT
1 GCTCCCCACGTGAGCTTAAGTGACAAGCTGTGTATCAAT
** *
24272338 GAAACTCCCTGCGTGAGCTTAAGTGACAAGTTGTGTATTAGCAAT
1 G---CTCCCCACGTGAGCTTAAGTGACAAGCTGTGTA-T--CAAT
* *
24272383 GCTCCCCATGTGAGTTTAAG
1 GCTCCCCACGTGAGCTTAAG
24272403 GGTCTGTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.02
42 44 0.86
43 1 0.02
45 5 0.10
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (39 bp):
GCTCCCCACGTGAGCTTAAGTGACAAGCTGTGTATCAAT
Found at i:24293092 original size:32 final size:32
Alignment explanation
Indices: 24292998--24293174 Score: 121
Period size: 32 Copynumber: 5.5 Consensus size: 32
24292988 ATGTGATTGG
* ** * *
24292998 CACAAATCCATCAGTAGTAGTGATATGATTGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
*
24293030 CACACAA-CCATCAGTAACAGTAACT-TGATCGA
1 CACA-AAGCCATCAGTAACAGTGA-TATGATCGA
* * *
24293062 CACAAAGCCATCAGTAAAAGTGATAAGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGA
* * *
24293094 CATACAA-CCATCAATAACAGTGAAATGATC-A
1 CACA-AAGCCATCAGTAACAGTGATATGATCGA
* * * *
24293125 GCAGACAGCCATC-GTTAACGGTAATATGATCGA
1 -CACAAAGCCATCAG-TAACAGTGATATGATCGA
*
24293158 CATAAAGCCATCAGTAA
1 CACAAAGCCATCAGTAA
24293175 TGGTACTATG
Statistics
Matches: 112, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
31 4 0.04
32 101 0.90
33 7 0.06
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (32 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGA
Found at i:24293137 original size:64 final size:64
Alignment explanation
Indices: 24292998--24293123 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
24292988 ATGTGATTGG
* ** * * * *
24292998 CACAAATCCATCAGTAGTAGTGATATGATTGGCACACAACCATCAGTAACAGTAACTTGATCGA
1 CACAAAGCCATCAGTAAAAGTGATAAGATCGGCACACAACCATCAATAACAGTAACATGATCGA
*
24293062 CACAAAGCCATCAGTAAAAGTGATAAGATCGGCATACAACCATCAATAACAGTGAA-ATGATC
1 CACAAAGCCATCAGTAAAAGTGATAAGATCGGCACACAACCATCAATAACAGT-AACATGATC
24293124 AGCAGACAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 51 0.96
65 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (64 bp):
CACAAAGCCATCAGTAAAAGTGATAAGATCGGCACACAACCATCAATAACAGTAACATGATCGA
Found at i:24300333 original size:40 final size:40
Alignment explanation
Indices: 24300257--24300552 Score: 382
Period size: 40 Copynumber: 7.4 Consensus size: 40
24300247 CTGTCCGAGC
* * * * * *
24300257 TAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGAT
1 TAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGT
* * * *
24300297 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
24300337 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
24300377 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCAGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
24300417 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
24300457 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
* * * * * *
24300497 TATGTTCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
*
24300536 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
24300553 TGAACGAGGA
Statistics
Matches: 232, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 34 0.15
40 190 0.82
41 8 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
Found at i:24308305 original size:40 final size:39
Alignment explanation
Indices: 24308274--24308523 Score: 366
Period size: 40 Copynumber: 6.4 Consensus size: 39
24308264 GGACTAAGAT
24308274 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
24308314 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
24308353 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
24308392 CCGAAGGCA-TTGTGCGAGATACAAATT-CGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
24308429 CCGAAGGC-TTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAG-C
* * ** *
24308468 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAG-C
24308508 CCGAAGGCATTGTGTG
1 CCGAAGGCATT-TGTG
24308524 AGTTACTAAA
Statistics
Matches: 197, Mismatches: 6, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
37 32 0.16
38 30 0.15
39 58 0.29
40 74 0.38
41 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
Found at i:24308367 original size:39 final size:40
Alignment explanation
Indices: 24308274--24308555 Score: 368
Period size: 39 Copynumber: 7.2 Consensus size: 40
24308264 GGACTAAGAT
*
24308274 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
24308314 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
24308353 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
24308392 CCGAAGGCA-TTGTGCGAGATACAAATT-CGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
24308429 CCGAAGGC-TTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTC
* * ** *
24308468 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGTC
* * * * *
24308508 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTC
24308547 CCGAAGGCA
1 CCGAAGGCA
24308556 ATTGAACGAG
Statistics
Matches: 224, Mismatches: 11, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
37 32 0.14
38 30 0.13
39 90 0.40
40 72 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
Found at i:24308531 original size:79 final size:77
Alignment explanation
Indices: 24308274--24308555 Score: 367
Period size: 79 Copynumber: 3.6 Consensus size: 77
24308264 GGACTAAGAT
*
24308274 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAA
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACAA
24308339 ATTCCGGGTTAAGC
65 A-TCCGGGTTAAGC
24308353 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-CCCGAAGGCATTGTGCGAGATACAAA
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACAAA
*
24308417 TTCGGGTTAAGC
66 TCCGGGTTAAGC
* **
24308429 CCGAAGGC-TTTGTGCGAGATACTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGAT-AC
*
24308492 AAATCCGGGTTATGTC
63 AAATCCGGGTTAAG-C
* * * * *
24308508 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTCCCGAAGGCA
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTCCCGAAGGCA
24308556 ATTGAACGAG
Statistics
Matches: 186, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
75 25 0.13
76 34 0.18
77 24 0.13
78 22 0.12
79 81 0.44
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACAAA
TCCGGGTTAAGC
Found at i:24308577 original size:79 final size:79
Alignment explanation
Indices: 24308274--24308592 Score: 239
Period size: 79 Copynumber: 4.1 Consensus size: 79
24308264 GGACTAAGAT
* * * * ** *
24308274 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATAC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
24308337 -AAATTCCGGGTTAAG-C
63 TAAA-TCCGGGTTAAGTC
* * ** *
24308353 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAG-CCCGAAGGCATT-GTGCGA-GATAC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
*
24308414 -AAATTCGGGTTAAG-C
63 TAAATCCGGGTTAAGTC
* * * ** ** *
24308429 CCGAAGGCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 CCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
*
24308494 ATCCGGGTTATGTC
66 ATCCGGGTTAAGTC
* * *
24308508 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAATT-GAACGAGGAGCTA
1 CCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC-ATTCGAACGAGGAGCTA
* *
24308572 TATCC-GGTTAAATC
65 AATCCGGGTTAAGTC
24308586 CCGAAGG
1 CCGAAGG
24308593 TACGTGATTT
Statistics
Matches: 211, Mismatches: 22, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
75 24 0.11
76 34 0.16
77 20 0.09
78 38 0.18
79 92 0.44
80 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAA
ATCCGGGTTAAGTC
Found at i:24314478 original size:47 final size:46
Alignment explanation
Indices: 24314422--24314547 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
24314412 ATCAAGAGGC
*
24314422 CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT-T-CT
1 CGATGCATGTCCCAAACATGTCTTACACTAGCTCTC--AT-AATGTGCT
* * *
24314469 -GATGCCATGTCCCAGACATTGTCTTACACTGGCTCTCATAATGTGGT
1 CGATG-CATGTCCCAAACA-TGTCTTACACTAGCTCTCATAATGTGCT
24314516 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGC
24314548 ACACAAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
45 3 0.04
46 19 0.28
47 25 0.37
48 21 0.31
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATGTGCT
Found at i:24314478 original size:94 final size:92
Alignment explanation
Indices: 24314326--24314547 Score: 243
Period size: 94 Copynumber: 2.4 Consensus size: 92
24314316 AGGTTTAATA
* * * *
24314326 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCACGTTAAGTCGATGTCATGTCCCAGA
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCT-ACGTTAAGTCGATGCCATGTCCCAGA
*
24314391 CATGGTCTTACATTAACAT-ACATCAA-GAGG
63 CATGGTCTTACACTAAC-TCACAT-AATGAGG
*
24314421 CCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATTCTGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCTCTACGT-T-AAGTC-GATGCCATGTCCCAGA
* ** * *
24314485 CATTGTCTTACACTGGCTCTCATAATGTGG
63 CATGGTCTTACACTAACTCACATAATGAGG
*
24314515 TCGATGCATGTCCCAAACATGTCTTACACTAGC
1 CCGATGCATGTCCCAAACATGTCTTACACTAGC
24314548 ACACAAATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
91 3 0.03
92 1 0.01
93 21 0.19
94 79 0.72
95 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCTCTACGTTAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTAACTCACATAATGAGG
Found at i:24326691 original size:200 final size:200
Alignment explanation
Indices: 24326328--24326721 Score: 601
Period size: 200 Copynumber: 2.0 Consensus size: 200
24326318 ATGCTCGGCA
24326328 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
** **
24326393 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
66 AAAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
* *
24326458 GCATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAACTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
24326523 AGCAT
196 AGCAT
* * * * *
24326528 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
24326592 AAAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 AAAAAGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTGGAGGTGCATTAGTTAAACCAAAC
* ** * **
24326657 AGGATCACAAGAATTTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCGGCACATCCAAATC
130 AGCATCACAAGAAACTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
24326722 TTTCACTCGT
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
199 49 0.28
200 125 0.72
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
AAAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAACTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:24327979 original size:200 final size:199
Alignment explanation
Indices: 24327614--24328006 Score: 628
Period size: 198 Copynumber: 2.0 Consensus size: 199
24327604 ATGCTCGGCA
*
24327614 TGTTCAGTTTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
24327679 ATACGGTCTGAAGATTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 ATACGGTCTGAAGATTTGTTAATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
* *
24327744 CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTCAATGTAGTTTTAAGCA-ATCCAAATCGA
131 CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAACGTAGTTTTAAGCACATCCAAATCGA
24327808 GCAT
196 GCAT
* * * *
24327812 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
24327877 ATACGGTCTGAAGATTCTGTTAATCAAATCCATAAAATACTTGAGGTGC-TTCAGTTAAACCAAA
66 ATACGGTCTGAAGATT-TGTTAATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAA
* * **
24327941 CAGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAACGTAGTTTTCGGCACATCCAAAT
128 CAGCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAACGTAGTTTTAAGCACATCCAAAT
24328006 C
193 C
24328007 TTTCACTCGT
Statistics
Matches: 178, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
198 76 0.43
199 17 0.10
200 76 0.43
201 9 0.05
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTGAAGATTTGTTAATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
CATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAACGTAGTTTTAAGCACATCCAAATCGA
GCAT
Found at i:24330542 original size:200 final size:200
Alignment explanation
Indices: 24330188--24330581 Score: 628
Period size: 200 Copynumber: 2.0 Consensus size: 200
24330178 ATGCTCGGCA
24330188 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* **
24330253 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
*
24330318 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
24330383 AGCAT
196 AGCAT
* * * * *
24330388 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* * *
24330452 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTAGAGGTGCATTAGTTAAACCAAAC
* * * *
24330517 AGGATCACAAGAATTTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCAGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
24330582 TTTCACTCGT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 50 0.28
200 127 0.72
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
AGCAT
Found at i:24331821 original size:200 final size:199
Alignment explanation
Indices: 24331473--24331864 Score: 653
Period size: 200 Copynumber: 2.0 Consensus size: 199
24331463 ATGCTCGGCA
24331473 TGTTCAGTCTCATCTCAAGAATATACAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATACAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
24331538 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATATTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
24331603 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTTGTTTTAAGCACATCCAAATTG
131 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTT-TAAATGTTGTTTTAAGCACATCCAAATTG
24331668 AGCAT
195 AGCAT
* * * *
24331673 TGTTTAGTCTCATCTCAAGAATATATC-AAAATATCATCAATAAATACCACAACAAATCTGTCTC
1 TGTTCAGTCTCATCTCAAGAATATA-CAAAAATATCATCAATAAATACCACAAAAAATCTATCTA
24331737 AATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGC-TTCAGTTAAACCAAA
65 AATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATT-AGTTAAACCAAA
* * * **
24331801 TAGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTTAAATGTTGTTTTCGGCACATCCAAAT
129 CAGCATCACAAGAAATTCATAGTGTCCGGACCTGGTTTAAATGTTGTTTTAAGCACATCCAAAT
24331865 CTTTCACTCG
Statistics
Matches: 180, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
199 27 0.15
200 152 0.84
201 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (199 bp):
TGTTCAGTCTCATCTCAAGAATATACAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTTAAATGTTGTTTTAAGCACATCCAAATTGA
GCAT
Found at i:24333098 original size:200 final size:200
Alignment explanation
Indices: 24332755--24333148 Score: 671
Period size: 200 Copynumber: 2.0 Consensus size: 200
24332745 ATGCTCGGCA
24332755 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
*
24332820 ATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCGAAACA
66 ATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAACA
*
24332885 GCATCACAAGAAATTCATAGTGTCCGTATCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
131 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
24332950 AGCAT
196 AGCAT
* * *
24332955 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* *
24333020 ATACGGTTTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAACA
66 ATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAACA
* * * * **
24333085 GGATCACAAGAAATTCATAGTGTCCGTGCCTGTTTCTTAATGTAGTTTTCGGCACATCCAAATC
131 GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
24333149 TTTCACTCGT
Statistics
Matches: 181, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 181 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAACA
GCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
AGCAT
Found at i:24340352 original size:20 final size:20
Alignment explanation
Indices: 24340316--24340355 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24340306 AATGTGCGAT
* *
24340316 CAGAGGCACCGAGGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
24340336 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
24340356 TCCTGTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.30, T:0.05
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:24348800 original size:26 final size:26
Alignment explanation
Indices: 24348764--24348813 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24348754 AGGATATGGT
*
24348764 GGAATCAGCACTTAGCAACTCCTTGG
1 GGAATCAGCACTTAGCAACCCCTTGG
24348790 GGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
24348814 TCACATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (26 bp):
GGAATCAGCACTTAGCAACCCCTTGG
Found at i:24348830 original size:69 final size:69
Alignment explanation
Indices: 24348719--24348851 Score: 266
Period size: 69 Copynumber: 1.9 Consensus size: 69
24348709 CCAGTGATTC
24348719 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
24348784 CCTT
66 CCTT
24348788 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAAC
24348852 CACCAAAGAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (69 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAGGATATGGTGGAATCAGCACTTAGCAACT
CCTT
Found at i:24367363 original size:23 final size:23
Alignment explanation
Indices: 24367337--24367387 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
24367327 AGGTTATAAT
*
24367337 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
24367360 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
24367383 AGTAA
1 TGTAA
24367388 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:24376113 original size:40 final size:40
Alignment explanation
Indices: 24376083--24376292 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
24376073 GGACTAAGAT
* * * **
24376083 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
24376123 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
24376163 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
24376203 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
24376243 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
24376282 CCGAAGGCATT
1 CCGAAGGCATT
24376293 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:24378695 original size:12 final size:13
Alignment explanation
Indices: 24378669--24378711 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
24378659 TTCTCCGAAG
24378669 AAGAAAAAATGAA
1 AAGAAAAAATGAA
*
24378682 AAGAAAAACT-AA
1 AAGAAAAAATGAA
* *
24378694 AAGCAAAATTGAA
1 AAGAAAAAATGAA
24378707 AAGAA
1 AAGAA
24378712 TTCCCTTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (13 bp):
AAGAAAAAATGAA
Found at i:24381230 original size:132 final size:133
Alignment explanation
Indices: 24380983--24381235 Score: 393
Period size: 132 Copynumber: 1.9 Consensus size: 133
24380973 AGTCCTTATA
* ** *
24380983 TTTTCTAATTTTTCCAATTTAGTTTCAAATTTGATTTCCATCATACTAATGCATATTTCAACTAA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
* *
24381048 TTCTTATGTCATTAAATCAATAATAACTCATATTTTCACATTTTGGTCAAATTGTATTGTCCATG
66 TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
24381113 TAC
131 TAC
* * *
24381116 TTTT-TAAATTTTCCATTTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCATCTTA
1 TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
*
24381180 TTCTTATATCAATT-AATCAATAATAACTTATATTTTCACATTTTGATCAAATTGTA
66 TTCTTATATC-ATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTA
24381236 CTTTACTCCT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
132 102 0.94
133 7 0.06
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.46
Consensus pattern (133 bp):
TTTTCTAAATTTTCCAATTTAGTCCCAAATTTGATTTCCATCATACCAATGCATATTTCAACTAA
TTCTTATATCATTAAATCAATAATAACTCATATTTTCACATTTTGATCAAATTGTATTGTCCATG
TAC
Found at i:24386379 original size:19 final size:19
Alignment explanation
Indices: 24386355--24386393 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24386345 CTACTAAGAT
24386355 ACTTTTTACTCCCAATATC
1 ACTTTTTACTCCCAATATC
* *
24386374 ACTTTTTATTTCCAATATC
1 ACTTTTTACTCCCAATATC
24386393 A
1 A
24386394 TGTTTTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (19 bp):
ACTTTTTACTCCCAATATC
Found at i:24388939 original size:33 final size:34
Alignment explanation
Indices: 24388874--24388940 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
24388864 TCATTAGTGC
* * * *
24388874 ATTTGTTTCTGATATCCATAAATTTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
24388908 ATTTGTTTCCGAAATACACAAA-TTTTTTAGCAT
1 ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
24388941 TGTTTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTTGTTTCCGAAATACACAAATTTTTTTAGCAT
Found at i:24389433 original size:25 final size:25
Alignment explanation
Indices: 24389378--24389433 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
24389368 ATATGAATGA
*
24389378 ATAA-AAA-TATATTTTTTATAAAT
1 ATAATAAATTATATTTATTATAAAT
*
24389401 ATAGTAAATTATATTTATT-TAAAT
1 ATAATAAATTATATTTATTATAAAT
24389425 ATTAATAAA
1 A-TAATAAA
24389434 GTCAGTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 9 0.33
25 15 0.56
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATAATAAATTATATTTATTATAAAT
Found at i:24390505 original size:30 final size:28
Alignment explanation
Indices: 24390450--24390516 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
24390440 TTTAAATAGT
24390450 ATTTCTAAAAATGTTTAATAGTATTATAATA
1 ATTT-TAAAAATGTTTAATAGTATTA-AA-A
*
24390481 ATTTTAAAAATGCTTTAA-ATTATTAAAA
1 ATTTTAAAAATG-TTTAATAGTATTAAAA
24390509 A-TTTAAAA
1 ATTTTAAAA
24390517 GAAAATGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 2 0.06
30 14 0.41
31 9 0.26
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (28 bp):
ATTTTAAAAATGTTTAATAGTATTAAAA
Found at i:24406218 original size:256 final size:259
Alignment explanation
Indices: 24405751--24406260 Score: 762
Period size: 256 Copynumber: 2.0 Consensus size: 259
24405741 CTACAGTTGT
* * * * *
24405751 AACAACCCGTTTTTCAGTGGTGTAAAAATAGTGGTTTCGAAACCACAAATTCGATGAGTGAGCTT
1 AACAACCCGCTTTTCAATGGTGTAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCTC
* *
24405816 GTAAATATTATTAATTAATATTTACGGGTCAAGTATAATATTATTGAAGTTTCAATTTAATAAAA
66 GTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAAA
* *
24405881 GTTGCTAATTCGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTGGAAAA
131 GTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAAA
* * *
24405946 TGAGGAATCAAGACCTCGTTTCTATAAACCGAG-CCTGTAAATATTTAACAAAATATTTAGTAGG
196 CGAGCAATCAAGACCTCATTTCTATAAACCGAGCCCT-TAAATATTTAACAAAATATTTAGTAGG
*
24406010 AACAACCC-CTTTTCAATGGTGTCAAAAATAGTGGTTTCGAAACCAAAAATTGGACGAGTGAGCT
1 AACAACCCGCTTTTCAATGGTGT-AAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCT
* *
24406074 CGT-AA-A-TATTAATTAATATTTATGAGTCAAGTATAATATTATTGAAATTTCGATTTAATAAA
65 CGTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAA
* *
24406136 ATTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCTTAAAGTCAAGTGGTTTTAGAAA
130 AGTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAA
* * * *
24406201 ACGA-CATATCGAGACCTCATTTTTATAAATCGAGCCCTTAAATATTTAATAAAATATTTA
195 ACGAGCA-ATCAAGACCTCATTTCTATAAACCGAGCCCTTAAATATTTAACAAAATATTTA
24406261 TGGAGTGTTA
Statistics
Matches: 227, Mismatches: 21, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
255 1 0.00
256 160 0.70
257 4 0.02
258 14 0.06
259 48 0.21
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (259 bp):
AACAACCCGCTTTTCAATGGTGTAAAAATAGTGGTTTCGAAACCAAAAATTCGACGAGTGAGCTC
GTAAATATTATTAATTAATATTTACGAGTCAAGTATAATATTATTGAAATTTCAATTTAATAAAA
GTTGCTAATTAGTCGTATAGTCAAGTTCAAGTGGTTAATTCCTAAAGTCAAGTGGTTTTAGAAAA
CGAGCAATCAAGACCTCATTTCTATAAACCGAGCCCTTAAATATTTAACAAAATATTTAGTAGG
Found at i:24407742 original size:46 final size:46
Alignment explanation
Indices: 24407619--24408195 Score: 651
Period size: 46 Copynumber: 12.6 Consensus size: 46
24407609 CATGATTCAG
* * * * * *
24407619 ATGAGTAAAACCATAGTTGAAAGACACTATGACATCCTATCA-AAT
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
24407664 ATGAATAAGACCATAGTTTAAAGACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
24407710 ATGAATAAGACCATGGTTGAAAAACACAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * * * *
24407756 TTAAATAAGACCGTGGTTGAAAGACACTTTGACAACATATC-GAGAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGA-AA
* * * * *
24407802 ATCAATAAGACCATAGTTGAAAGTCACGATGACATCATATC-GAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAG-AAA
* *
24407848 ATTAATAAGACCATGGTTGAAATACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * *
24407894 ATGAATAAGACTATAGTTGGAAGACACTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * **
24407940 ATGAATAAGACCATGGTTGAAAAAGAAAATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * * * *
24407986 TTAAATAAGACCATGGTTGAAAGACACTTTGACATCATATCGGGAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* *
24408032 ATGAATAAGACCATAGTTGAAAGACACGATGGCATCATATC-GAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAG-AAA
* * ** *
24408078 ATTAATAAGACCATGGTTGAAATACACTATGGTGTCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
* * * *
24408124 ATGAATAAGACCATGGTTGAAAAACACTAAGACAACATATCA-AAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
24408169 AGTGAATAAGACCATGGTTGAAAGACA
1 A-TGAATAAGACCATGGTTGAAAGACA
24408196 TCAGGGCATC
Statistics
Matches: 447, Mismatches: 78, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
45 44 0.10
46 400 0.89
47 3 0.01
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCAGAAA
Found at i:24408145 original size:22 final size:22
Alignment explanation
Indices: 24408120--24408191 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
24408110 TGTCATATCG
24408120 GAAAATGAATAAGACCATGGTT
1 GAAAATGAATAAGACCATGGTT
** * * *
24408142 GAAAAACACTAAGACAACAT-ATC
1 GAAAATGAATAAGAC--CATGGTT
*
24408165 AAAAAGTGAATAAGACCATGGTT
1 GAAAA-TGAATAAGACCATGGTT
24408188 GAAA
1 GAAA
24408192 GACATCAGGG
Statistics
Matches: 34, Mismatches: 12, Indels: 7
0.64 0.23 0.13
Matches are distributed among these distances:
22 15 0.44
23 9 0.26
24 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (22 bp):
GAAAATGAATAAGACCATGGTT
Found at i:24429634 original size:25 final size:25
Alignment explanation
Indices: 24429606--24429660 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
24429596 AGAATTTAAG
24429606 GTTACGACTTTCGTATT-AAATTGAT
1 GTTACG-CTTTCGTATTGAAATTGAT
* **
24429631 GTTAATGCTTTTTTATTGAAATTGAT
1 GTT-ACGCTTTCGTATTGAAATTGAT
24429657 GTTA
1 GTTA
24429661 TTTTGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (25 bp):
GTTACGCTTTCGTATTGAAATTGAT
Found at i:24432602 original size:49 final size:49
Alignment explanation
Indices: 24432534--24432918 Score: 321
Period size: 51 Copynumber: 7.7 Consensus size: 49
24432524 TCATTTGATA
* *
24432534 CACGAAGTAGCC-TCACATAGTACTACACACGGGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
*
24432582 CACGTAGTAGCCTTCACATAGTACTGCACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* *
24432631 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
* * * *
24432681 CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * * *
24432732 CCCATTGTAGCCTTCACTTAGTACTACACATGT-AACCGTAGTTTACCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTACAG-TT
* * * * *
24432783 CACGTAGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * *
24432834 CACATAGTAGCCTTCTCTTAGTACTACGCATGTGACCATTATTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG-TT
* *
24432885 CACGTAGTAGCCTCCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
24432919 TTCATCGACA
Statistics
Matches: 274, Mismatches: 47, Indels: 29
0.78 0.13 0.08
Matches are distributed among these distances:
47 1 0.00
48 13 0.05
49 77 0.28
50 50 0.18
51 121 0.44
52 7 0.03
53 3 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
Found at i:24432816 original size:102 final size:101
Alignment explanation
Indices: 24432539--24432918 Score: 382
Period size: 102 Copynumber: 3.8 Consensus size: 101
24432529 TGATACACGA
* * * * * * *
24432539 AGTAGCC-TCACATAGTACTACACACGGGATC-AGTTTTACAG-TTCACGTAGTAGCCTTCACAT
1 AGTAGCCTTCACTTAGTACTACACATGTGACCTAG-TTTACCGATACACGTAGTAGCCTTCACAC
* * * * *
24432601 AGTACTGCACACGTGATC--AG-TTTTACAGTTCACGT
65 AGTACTACACACGTGCTCAAAGCTTTT-CGGTACACAT
* * * * * * *
24432636 AGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT-CACGTAGTAGCCTTCACAT
1 AGTAGCCTTCACTTAGTACTACACATGTGACCTAG-TTTACCGATACACGTAGTAGCCTTCACAC
* *
24432700 AGTACTACATACGTGAC-CAAAGCTTTTCGGTACCCAT
65 AGTACTACACACGTG-CTCAAAGCTTTTCGGTACACAT
* * *
24432737 TGTAGCCTTCACTTAGTACTACACATGTAACCGTAGTTTACCGATACACGTAGTAGCATTCACAC
1 AGTAGCCTTCACTTAGTACTACACATGTGACC-TAGTTTACCGATACACGTAGTAGCCTTCACAC
24432802 AGTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
65 AGTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
* * * *
24432839 AGTAGCCTTCTCTTAGTACTACGCATGTGACCATTA-TTTATCGATACACGTAGTAGCCTCCACA
1 AGTAGCCTTCACTTAGTACTACACATGTGACC--TAGTTTACCGATACACGTAGTAGCCTTCACA
24432903 CAGTACTACACACGTG
64 CAGTACTACACACGTG
24432919 TTCATCGACA
Statistics
Matches: 243, Mismatches: 29, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
97 7 0.03
98 23 0.09
99 42 0.17
100 1 0.00
101 43 0.18
102 125 0.51
103 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (101 bp):
AGTAGCCTTCACTTAGTACTACACATGTGACCTAGTTTACCGATACACGTAGTAGCCTTCACACA
GTACTACACACGTGCTCAAAGCTTTTCGGTACACAT
Found at i:24433616 original size:30 final size:30
Alignment explanation
Indices: 24433580--24433673 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
24433570 AAATGCGAAG
*
24433580 AACATTAAAAACGGAGAAGATGATGTCAAA
1 AACATTAAAAACGGAGAAGATGATATCAAA
* * * * * *
24433610 AACATTAAAAACGGAGAACATTAAAACGGAG
1 AACATTAAAAACGGAGAAGATGATATC-AAA
*
24433641 AACATTAAAAACGGAGAAGATGATTTCAAA
1 AACATTAAAAACGGAGAAGATGATATCAAA
24433671 AAC
1 AAC
24433674 CCTAACATGA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 26 0.53
31 23 0.47
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.16
Consensus pattern (30 bp):
AACATTAAAAACGGAGAAGATGATATCAAA
Found at i:24433637 original size:15 final size:16
Alignment explanation
Indices: 24433610--24433658 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
24433600 TGATGTCAAA
24433610 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
24433626 AACATT-AAAACGGAG
1 AACATTAAAAACGGAG
24433641 AACATTAAAAACGGAG
1 AACATTAAAAACGGAG
24433657 AA
1 AA
24433659 GATGATTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.57, C:0.12, G:0.18, T:0.12
Consensus pattern (16 bp):
AACATTAAAAACGGAG
Found at i:24440335 original size:49 final size:49
Alignment explanation
Indices: 24440275--24440659 Score: 305
Period size: 49 Copynumber: 7.7 Consensus size: 49
24440265 TCATTCGATA
*
24440275 CACGTAGTAGCCTTCTCATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* *
24440324 CACATAGTAGCCTTTACATAGTACTACACACGTGATCAGTTTTACAGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
* *
24440373 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AGTTTTACAGTT
* * * *
24440423 CACGTAGTAGCCTTCACAT-GTACTACATACGTGACCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * *
24440473 CCCATTGTAGCCTTCACTTAGTACTACACATGT-AACCGTAGTTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT--TTTA-CAG-TT
* * * * * *
24440524 CACGTAGTAGCATTCACACAGTACTACACACCTGCTCAAAGCTTTT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTT
* * * * * * * *
24440575 CACATAGTAGTCTTCACTTAGTACTACGCATGTGACCATTATTTATC-GATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGT-TTTA-CAG-TT
* *
24440626 CACGTAGTAGCCTCCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
24440660 TTCATCGACA
Statistics
Matches: 270, Mismatches: 48, Indels: 34
0.77 0.14 0.10
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 103 0.38
50 54 0.20
51 103 0.38
52 2 0.01
53 3 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (49 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAGTTTTACAGTT
Done.