Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 201 of 335
Found at i:59953758 original size:21 final size:20
Alignment explanation
Indices: 59953733--59953809 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
59953723 ATATTGTTAT
59953733 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
59953754 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
59953775 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
59953796 TCATTATATGCATG
1 ACATGATATGCATG
59953810 GGTTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:59955018 original size:24 final size:23
Alignment explanation
Indices: 59954974--59955020 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
59954964 ATTACATGAT
*
59954974 TATTCTGGCGTGTTTTAGTTGGA
1 TATTCTGGCGTGTTTGAGTTGGA
* *
59954997 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGCGTGTTTGAGTTGGA
59955021 ATCCGTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.13, C:0.06, G:0.34, T:0.47
Consensus pattern (23 bp):
TATTCTGGCGTGTTTGAGTTGGA
Found at i:59957747 original size:26 final size:26
Alignment explanation
Indices: 59957711--59957822 Score: 152
Period size: 26 Copynumber: 4.2 Consensus size: 26
59957701 CATGAAATTC
59957711 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
59957737 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
59957763 TTATCATGGAACATTTACCTATAACCTA
1 TTATCATGAAACATTTACC--TAACCCA
* * * *
59957791 TTATCATGGAATATTTACTTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
59957817 TTATCA
1 TTATCA
59957823 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
26 57 0.71
28 23 0.29
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:59957808 original size:54 final size:52
Alignment explanation
Indices: 59957711--59957822 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 52
59957701 CATGAAATTC
59957711 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * * * * *
59957763 TTATCATGGAACATTTACCTATAACCTATTATCATGGAATATTTACTTAACCTA
1 TTATCATGAAACATTTACC--TAACCCATTATCATGAAACATTTACCTAACCCA
59957817 TTATCA
1 TTATCA
59957823 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 18 0.35
54 34 0.65
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:59959938 original size:29 final size:30
Alignment explanation
Indices: 59959891--59959958 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
59959881 TGGCCTAAGA
* * *
59959891 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
59959921 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
59959951 GCAAATAT
1 GTAAATAT
59959959 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:59960218 original size:29 final size:31
Alignment explanation
Indices: 59960170--59960233 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
59960160 TTTATAGTTA
*
59960170 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
59960201 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
59960230 TTTA
1 TTTA
59960234 TTTAGTCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:59960222 original size:8 final size:8
Alignment explanation
Indices: 59960211--59960235 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59960201 TTTAATAAGA
59960211 TATTTTAT
1 TATTTTAT
59960219 TATTTTAT
1 TATTTTAT
59960227 TATTTTAT
1 TATTTTAT
59960235 T
1 T
59960236 TAGTCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:59965383 original size:30 final size:31
Alignment explanation
Indices: 59965349--59965445 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
59965339 AGCTCACTCC
*
59965349 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
59965379 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
59965409 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
59965439 TAGCTCA
1 TAGCTCA
59965446 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:59966669 original size:19 final size:19
Alignment explanation
Indices: 59966645--59966684 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
59966635 AGCTCCCATG
*
59966645 TAGCTCCACACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
*
59966664 TAGCTCGAAACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
59966683 TA
1 TA
59966685 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (19 bp):
TAGCTCCAAACCAGCTCAT
Found at i:59967947 original size:14 final size:14
Alignment explanation
Indices: 59967925--59967972 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
59967915 ACCTAAACCG
* *
59967925 ACCAATTTGTTCTT
1 ACCATTTTGTTCCT
59967939 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
59967953 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
59967967 ACCATT
1 ACCATT
59967973 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.06, T:0.46
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:59969771 original size:18 final size:18
Alignment explanation
Indices: 59969748--59969797 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
59969738 GAAAGAAAAA
*
59969748 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
59969766 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
59969784 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
59969798 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:59969774 original size:24 final size:24
Alignment explanation
Indices: 59969741--59969822 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
59969731 AAGAAATGAA
59969741 AGAAAAAGAAAAAGAGATTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
* * * *
59969765 TGAAAAAGAAAATGAGATTGAAAA
1 AGAAAAAGAAAAAGAGATTGAGAG
* * *
59969789 AGAGAATGAAAAAGAGTTTGAGAG
1 AGAAAAAGAAAAAGAGATTGAGAG
59969813 AGAAAAAGAA
1 AGAAAAAGAA
59969823 TGTGAACAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AGAAAAAGAAAAAGAGATTGAGAG
Found at i:59969836 original size:48 final size:48
Alignment explanation
Indices: 59969739--59969859 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
59969729 CAAAGAAATG
* * * **
59969739 AAAGAAAAAGAAAAAGAGATTGAGAGTGAAAAAGAAAATGAGATTGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
* **
59969787 AAAGAGAATGAAAAAGAGTTTGAGAGAGAAAAAGAATGTGA-ACAAGAA
1 AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGA-AAGAA
* *
59969835 AAA-AGAGTGGAAAAAGAAATTGAGA
1 AAAGAGAAT-GAAAAAGAGATTGAGA
59969860 TAAAAGAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 5 0.08
48 55 0.92
ACGTcount: A:0.60, C:0.01, G:0.26, T:0.12
Consensus pattern (48 bp):
AAAGAGAATGAAAAAGAGATTGAGAGAGAAAAAGAAAATGAGAAAGAA
Found at i:59969851 original size:18 final size:19
Alignment explanation
Indices: 59969815--59969853 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
59969805 TTTGAGAGAG
*
59969815 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
59969834 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
59969852 AA
1 AA
59969854 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:59971510 original size:31 final size:31
Alignment explanation
Indices: 59971472--59971542 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
59971462 TTTAAGCTCG
59971472 TTTCAGCTCGTTTGAGCACAACCGAGCTTAC
1 TTTCAGCTCGTTTGAGCACAACCGAGCTTAC
* *
59971503 TTTCAGCTCGTTTGATCTCAACCGAGCTTAC
1 TTTCAGCTCGTTTGAGCACAACCGAGCTTAC
59971534 TTTCAGCTC
1 TTTCAGCTC
59971543 CTTCTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.34
Consensus pattern (31 bp):
TTTCAGCTCGTTTGAGCACAACCGAGCTTAC
Found at i:59973027 original size:25 final size:25
Alignment explanation
Indices: 59972990--59973059 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
59972980 CTCTTTTAAT
*
59972990 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
59973015 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
59973040 AACTGGGGCATAGACCTTTT
1 AACTGGGGCAAAGCCCTTTT
59973060 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:59974125 original size:27 final size:27
Alignment explanation
Indices: 59973984--59974307 Score: 153
Period size: 27 Copynumber: 12.0 Consensus size: 27
59973974 TTGGTAAATC
*
59973984 TACAAA-CTAAGGGTATTTCAGTAATTT
1 TACAAATC-AAGGGTATTTCTGTAATTT
** * * *
59974011 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTGTAA-TTT
*
59974039 TAGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCTGTAATTT
**
59974067 TGTAAATCAAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
**
59974094 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
59974121 CACAAA-CCAGTGGTATTT-TGGTAATTT
1 TACAAATCAAG-GGTATTTCT-GTAATTT
* *
59974148 TACAAA-CTAGGGGTATTT-TGGTAATTC
1 TACAAATC-AAGGGTATTTCT-GTAATTT
** * *
59974175 TACCCTAT-AGGGGTATTTCAGTAATTT
1 TA-CAAATCAAGGGTATTTCTGTAATTT
* * *** *
59974202 CAC-AATCGAGGGTAAAACGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
** *** * *
59974228 TGTAAATCAAGGGTAAAACAGTAATTC
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
59974255 TATAAATCGAGGGTACTTT-GGTAATTT
1 TACAAATCAAGGGTA-TTTCTGTAATTT
* * *
59974282 TACAAGTCGAGGGCATTTCTGTAATT
1 TACAAATCAAGGGTATTTCTGTAATT
59974308 GGTAAACTAA
Statistics
Matches: 230, Mismatches: 52, Indels: 30
0.74 0.17 0.10
Matches are distributed among these distances:
25 2 0.01
26 21 0.09
27 173 0.75
28 19 0.08
29 15 0.07
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:59974136 original size:54 final size:54
Alignment explanation
Indices: 59973972--59974173 Score: 203
Period size: 54 Copynumber: 3.7 Consensus size: 54
59973962 TACAAAGGTG
* * * * *
59973972 TTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
* * * *
59974026 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAAG-GGTA
1 TTT-TGGTAA-TTTTACAAA-TTAAGGGTATTTCTGTAATTTTGTAAA-CCAGTGGTA
* ***
59974082 TTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
* *
59974136 TTTTGGTAATTTTACAAACTAGGGGTATTT-TGGTAATT
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCT-GTAATT
59974174 CTACCCTATA
Statistics
Matches: 121, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
53 4 0.03
54 65 0.54
55 16 0.13
56 34 0.28
57 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATTAAGGGTATTTCTGTAATTTTGTAAACCAGTGGTA
Found at i:59975941 original size:20 final size:20
Alignment explanation
Indices: 59975918--59975963 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
59975908 TAAGCTCGGT
59975918 TGAGCTCAAACAAGCTAAAA
1 TGAGCTCAAACAAGCTAAAA
** *
59975938 TGAGCTCAAATTAGCTAAAT
1 TGAGCTCAAACAAGCTAAAA
59975958 TGAGCT
1 TGAGCT
59975964 AGATGGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTAAAA
Found at i:59977736 original size:18 final size:18
Alignment explanation
Indices: 59977705--59977767 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
59977695 TTTTTCAATT
59977705 TTCTTTTTC-TTCTCACA
1 TTCTTTTTCATTCTCACA
* *
59977722 TTCTTTTTCACTCTC-GA
1 TTCTTTTTCATTCTCACA
* * *
59977739 TCTCTTTTTCTTTTTCACT
1 T-TCTTTTTCATTCTCACA
59977758 TTCTTTTTCA
1 TTCTTTTTCA
59977768 ATTTCATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 11 0.31
18 23 0.66
19 1 0.03
ACGTcount: A:0.10, C:0.27, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTTTTCATTCTCACA
Found at i:59977762 original size:12 final size:12
Alignment explanation
Indices: 59977745--59977779 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
59977735 TCGATCTCTT
*
59977745 TTTCTTTTTCAC
1 TTTCTTTTTCAA
59977757 TTTCTTTTTCAA
1 TTTCTTTTTCAA
59977769 TTTCATTTTTC
1 TTTC-TTTTTC
59977780 TTTTTCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:59977797 original size:20 final size:19
Alignment explanation
Indices: 59977757--59977822 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
59977747 TCTTTTTCAC
*
59977757 TTTCTTTTTC-AATTTCATT
1 TTTCTTTTTCTCATTTC-TT
59977776 TTTCTTTTTCTCATTCTCTT
1 TTTCTTTTTCTCATT-TCTT
59977796 TTTGCTTTCTT-TCATTTCTT
1 TTT-CTTT-TTCTCATTTCTT
59977816 TTTCTTT
1 TTTCTTT
59977823 CATTTCTTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 14 0.33
20 15 0.36
21 11 0.26
22 2 0.05
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTCTTTTTCTCATTTCTT
Found at i:59977804 original size:19 final size:18
Alignment explanation
Indices: 59977741--59977823 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
59977731 ACTCTCGATC
59977741 TCTTTTTCTTT-TTCACTT
1 TCTTTTTCTTTCTTCA-TT
**
59977759 TCTTTTTCAAT-TTCATT
1 TCTTTTTCTTTCTTCATT
*
59977776 T-TTCTT-TTTC-TCATT
1 TCTTTTTCTTTCTTCATT
59977791 CTCTTTTTGCTTTCTTTCATT
1 -TCTTTTT-CTTTC-TTCATT
59977812 TCTTTTTCTTTC
1 TCTTTTTCTTTC
59977824 ATTTCTTCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
15 6 0.12
16 5 0.10
17 7 0.13
18 13 0.25
19 9 0.17
20 7 0.13
21 5 0.10
ACGTcount: A:0.07, C:0.22, G:0.01, T:0.70
Consensus pattern (18 bp):
TCTTTTTCTTTCTTCATT
Found at i:59977821 original size:15 final size:15
Alignment explanation
Indices: 59977801--59977830 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59977791 CTCTTTTTGC
59977801 TTTCTTTCATTTCTT
1 TTTCTTTCATTTCTT
59977816 TTTCTTTCATTTCTT
1 TTTCTTTCATTTCTT
59977831 CATTACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTTCATTTCTT
Found at i:59978026 original size:14 final size:14
Alignment explanation
Indices: 59978007--59978036 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59977997 TTGAAAGACC
59978007 TTGGACTCAAAGTT
1 TTGGACTCAAAGTT
59978021 TTGGACTCAAAGTT
1 TTGGACTCAAAGTT
59978035 TT
1 TT
59978037 CTCACTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (14 bp):
TTGGACTCAAAGTT
Found at i:59980472 original size:30 final size:29
Alignment explanation
Indices: 59980417--59980473 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
59980407 AAGCTCAAAC
* *
59980417 GAGCTGAAATGAGCTGGATGGAGCTCGAG
1 GAGCTGAAACGAGCTGGATGCAGCTCGAG
59980446 GAGCTAGAAACGAGCTAGGAT-CAGCTCG
1 GAGCT-GAAACGAGCT-GGATGCAGCTCG
59980474 CCAACAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 15 0.62
31 4 0.17
ACGTcount: A:0.30, C:0.18, G:0.37, T:0.16
Consensus pattern (29 bp):
GAGCTGAAACGAGCTGGATGCAGCTCGAG
Found at i:59982568 original size:6 final size:6
Alignment explanation
Indices: 59982538--59982662 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
59982528 AAGAAACATT
* * *
59982538 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
59982587 ACCAGA ATCAAA ATCAGA ATTAGA ATTAGGTG AT-AGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
59982636 ACCAGGTA A-CAGA ATTAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
59982663 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 6 0.07
6 72 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:59982602 original size:37 final size:37
Alignment explanation
Indices: 59982561--59982633 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
59982551 TCAAAATGAG
59982561 AATCAGAATCAGAATCAGGTGACAGAACCAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAACCAGAATCAA
* * * *
59982598 AATCAGAATTAGAATTAGGTGATAGAATCAGAATCA
1 AATCAGAATCAGAATCAGGTGACAGAACCAGAATCA
59982634 GTACCAGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGGTGACAGAACCAGAATCAA
Found at i:59982820 original size:27 final size:26
Alignment explanation
Indices: 59982780--59982915 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 26
59982770 AGCATGGCTG
*
59982780 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
59982806 CCAGATACAGATATTGT-AGCAGAACCA
1 CCAGA-ACAGATATTGTGA-CAGAGCCA
* *
59982833 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* *
59982860 CCAGAAATAAAATATTGTGACAGAGCCA
1 CCAG-AA-CAGATATTGTGACAGAGCCA
* * * *
59982888 CCAAAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
59982915 C
1 C
59982916 TTAATAGAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
26 13 0.15
27 55 0.62
28 17 0.19
29 4 0.04
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:59983548 original size:107 final size:107
Alignment explanation
Indices: 59983376--59983703 Score: 428
Period size: 107 Copynumber: 3.1 Consensus size: 107
59983366 GGGCAAAATG
* * * * * *
59983376 GTAATTTTACCCCACGAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTAC-AGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* * *
59983441 CTACAAGGGTATTTCGATAATTCTACCTTACAAGGGTATTTTA
65 CTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCA
* *
59983484 GTAATTCTACCCTACAGGGGTATTTCGAT-ATTCTACCTTACAAGGGTATTTCAGTCATTCTACC
1 GTAATTCTACCCTACA-GGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* *
59983548 CTATAGGGGTATTTTGGTAATTCTACCTTAC-AGGAGTATTTCA
65 CTACAGGGGTATTTCGGTAATTCTACCTTACAAGG-GTATTTCA
* * * *
59983591 GTAATTCTACCCTATAGGGTATTTCGGTAATTCTACCGTAC-AGGAGTATTTCAGTAATTCCACC
1 GTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACC
*
59983655 CTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
65 CTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCA
*
59983698 ATAATT
1 GTAATT
59983704 TTACAAACCA
Statistics
Matches: 193, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
106 17 0.09
107 151 0.78
108 25 0.13
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (107 bp):
GTAATTCTACCCTACAGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCA
Found at i:59983558 original size:80 final size:81
Alignment explanation
Indices: 59983403--59983730 Score: 396
Period size: 80 Copynumber: 4.1 Consensus size: 81
59983393 GGGTATCTCG
*
59983403 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC-GATAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTAC
* *
59983467 CTTACAAGGGTATTTTA
65 CCTACAGGGGTATTTTA
* *
59983484 GTAATTCTACCCTACAGGGGTATTTC-G-ATATTCTACCTTACAAGGGTATTTCAGTCATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCAGTA-ATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
* *
59983547 CCTATAGGGGTATTTTG
65 CCTACAGGGGTATTTTA
* * * *
59983564 GTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCTA-TAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
* * *
59983628 GTACAGGAGTATTTCA
66 CTACAGGGGTATTTTA
* * * * * *
59983644 GTAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAATAATTTTA-C
1 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
**
59983708 AAACCAGGGGTATTTTA
66 CTA-CAGGGGTATTTTA
59983725 GTAATT
1 GTAATT
59983731 TTGCTAATTG
Statistics
Matches: 209, Mismatches: 32, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
80 137 0.66
81 70 0.33
82 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTTA
Found at i:59983702 original size:27 final size:27
Alignment explanation
Indices: 59983376--59983730 Score: 371
Period size: 27 Copynumber: 13.2 Consensus size: 27
59983366 GGGCAAAATG
* * * *
59983376 GTAATTTTACCCCAC-GAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCA
*
59983403 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
59983430 GTAATTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
59983456 GATAATTCTACCTTACAAGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
59983484 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59983510 G-ATATTCTACCTTACAAGGGTATTTCA
1 GTA-ATTCTACCCTACAGGGGTATTTCA
* * **
59983537 GTCATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59983564 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59983591 GTAATTCTACCCTATA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59983617 GTAATTCTACCGTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
59983644 GTAATTCCACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
59983671 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * ** *
59983698 ATAATTTTA-CAAACCAGGGGTATTTTA
1 GTAATTCTACCCTA-CAGGGGTATTTCA
59983725 GTAATT
1 GTAATT
59983731 TTGCTAATTG
Statistics
Matches: 273, Mismatches: 47, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 47 0.17
27 223 0.82
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:59983722 original size:54 final size:54
Alignment explanation
Indices: 59983376--59983703 Score: 446
Period size: 54 Copynumber: 6.1 Consensus size: 54
59983366 GGGCAAAATG
* * * * *
59983376 GTAATTTTACCCCAC-GAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * * *
59983430 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* *
59983484 GTAATTCTACCCTACAGGGGTATTTCGAT-ATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * * *
59983537 GTCATTCTACCCTATAGGGGTATTTTGGTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
* * *
59983591 GTAATTCTACCCTATA-GGGTATTTCGGTAATTCTACCGTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
*
59983644 GTAATTCCACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
*
59983698 ATAATT
1 GTAATT
59983704 TTACAAACCA
Statistics
Matches: 246, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
53 97 0.39
54 149 0.61
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
Found at i:59983745 original size:27 final size:27
Alignment explanation
Indices: 59983715--59983812 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
59983705 TACAAACCAG
* *
59983715 GGGTATTTTAGTAATTTTGCTAATTGA
1 GGGTATTTTGGTAATTTTGCTAATCGA
59983742 GGGTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTGCTAATCGA
*
59983769 GGGTATTTTGGTAATTTTTCTAATCGA
1 GGGTATTTTGGTAATTTTGCTAATCGA
59983796 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
59983813 GGTAAACTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.48
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCTAATCGA
Found at i:59983746 original size:54 final size:54
Alignment explanation
Indices: 59983688--59983803 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
59983678 TACCTTACAG
*
59983688 GGGTATTTCAATAATTTTACAAACC-AGGGGTATTTTAGTAATTTTGCTAATTGA
1 GGGTATTTCAATAATTTTACAAACCGA-GGGTATTTTAGTAATTTTGCTAATCGA
*** * * * * *
59983742 GGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTTCTAATCGA
1 GGGTATTTCAATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGCTAATCGA
59983796 GGGTATTT
1 GGGTATTT
59983804 TGGTAATTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (54 bp):
GGGTATTTCAATAATTTTACAAACCGAGGGTATTTTAGTAATTTTGCTAATCGA
Found at i:59984751 original size:30 final size:30
Alignment explanation
Indices: 59984715--59984774 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59984705 TCCCCAAACC
59984715 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
59984745 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
59984775 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:59985487 original size:49 final size:50
Alignment explanation
Indices: 59985407--59985651 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
59985397 AGCTATTGTG
*
59985407 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59985457 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
59985507 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59985556 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
59985606 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59985652 GCTTCGGCTA
Statistics
Matches: 167, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
49 124 0.74
50 8 0.05
51 35 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59985544 original size:28 final size:28
Alignment explanation
Indices: 59985512--59985594 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 28
59985502 AACTTCGATC
59985512 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
*
59985540 AC--GTGTA-T-C-AA-TGGTTAGG-T-C-
1 ACGTGTGTAGTACTAAGT-G-CAGGCTACT
59985561 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
59985589 ACGTGT
1 ACGTGT
59985595 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 22
0.64 0.03 0.33
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 9 0.21
24 5 0.12
25 5 0.12
26 9 0.21
27 2 0.05
28 8 0.19
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:59985583 original size:100 final size:98
Alignment explanation
Indices: 59985410--59985651 Score: 333
Period size: 100 Copynumber: 2.4 Consensus size: 98
59985400 TATTGTGAGG
*
59985410 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
59985475 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* ** *
59985510 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
59985574 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* * * *
59985608 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59985652 GCTTCGGCTA
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
98 36 0.29
99 8 0.06
100 81 0.65
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:59990484 original size:30 final size:30
Alignment explanation
Indices: 59990448--59990507 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59990438 ATTCCGAGCC
59990448 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
59990478 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
59990508 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:59991282 original size:50 final size:49
Alignment explanation
Indices: 59991152--59991395 Score: 328
Period size: 50 Copynumber: 4.9 Consensus size: 49
59991142 GCTATTGTGA
59991152 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
59991201 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * **
59991250 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
59991300 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59991350 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59991396 GCTTCGGCTA
Statistics
Matches: 168, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
48 6 0.04
49 78 0.46
50 80 0.48
51 4 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59991287 original size:28 final size:28
Alignment explanation
Indices: 59991255--59991338 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
59991245 AACTTCGATC
59991255 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
59991283 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
59991305 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
59991333 ACGTGT
1 ACGTGT
59991339 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:59991361 original size:99 final size:99
Alignment explanation
Indices: 59991154--59991395 Score: 326
Period size: 99 Copynumber: 2.4 Consensus size: 99
59991144 TATTGTGAGG
* *
59991154 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
59991219 AAGTGCAGGCTACTATGCGTACTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACGGATAACTTCGA
* * ** *
59991253 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
59991318 TAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GG
65 TAAGTGCAGGCTACTACGCGTA-CGGATAACTTCGA
* * *
59991352 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59991396 GCTTCGGCTA
Statistics
Matches: 126, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 83 0.66
100 37 0.29
101 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACGGATAACTTCGA
Found at i:59995040 original size:30 final size:29
Alignment explanation
Indices: 59995006--59995108 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 29
59994996 AGCTCACTCC
59995006 TAGCTCATATTTAGCTCACGAGCTAAACCT
1 TAGCTCATATTTAGCTCACGAGCTAAA-CT
** * * * * *
59995036 TAGCTCAGCTTTAGCTTAGGAGTTTAATT
1 TAGCTCATATTTAGCTCACGAGCTAAACT
59995065 TCAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 T-AGCTCATA-TTTAGCTCACGAGCTAAA-CT
59995096 TAGCTCAT-TTTAG
1 TAGCTCATATTTAG
59995109 TTTAACTCGA
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
29 7 0.12
30 47 0.84
31 2 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (29 bp):
TAGCTCATATTTAGCTCACGAGCTAAACT
Found at i:60001745 original size:24 final size:24
Alignment explanation
Indices: 60001718--60001765 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
60001708 AAAAGAATGC
60001718 AAAAATAACAAAAGAAAAAAAAGA
1 AAAAATAACAAAAGAAAAAAAAGA
* * * *
60001742 AAAAGTGAGAAAAGAAAAAGAAGA
1 AAAAATAACAAAAGAAAAAAAAGA
60001766 GCAAGAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (24 bp):
AAAAATAACAAAAGAAAAAAAAGA
Found at i:60003550 original size:14 final size:14
Alignment explanation
Indices: 60003533--60003572 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60003523 CGAATGGAAT
*
60003533 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
60003547 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
60003561 GATATGAACAAA
1 GGTAGGAACAAA
60003573 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:60009722 original size:30 final size:30
Alignment explanation
Indices: 60009688--60009784 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
60009678 TATACTAAAA
60009688 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
60009718 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
60009748 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
60009778 TGAGCTA
1 TGAGCTA
60009785 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:60010035 original size:21 final size:21
Alignment explanation
Indices: 60010010--60010059 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
60010000 TGAAAAGGAA
*
60010010 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
* *
60010031 TGAGCTCAAACTAGCTAAA-A
1 TGAGCTCAAACGAGCTAAATT
60010051 TGAGCTCAA
1 TGAGCTCAA
60010060 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:60012452 original size:17 final size:17
Alignment explanation
Indices: 60012423--60012462 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
60012413 ATGAGAAAAG
*
60012423 AAAA-AGATGAAAAGAA
1 AAAAGAGATCAAAAGAA
60012439 AAAAGAGATCAAAAGAA
1 AAAAGAGATCAAAAGAA
*
60012456 AAGAGAG
1 AAAAGAG
60012463 GCAAGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.05
Consensus pattern (17 bp):
AAAAGAGATCAAAAGAA
Found at i:60012457 original size:15 final size:15
Alignment explanation
Indices: 60012418--60012461 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
60012408 ATAAAATGAG
*
60012418 AAAAGAAAA-AGATG
1 AAAAGAAAAGAGATC
60012432 AAAAGAAAAAAGAGATC
1 AAAAG--AAAAGAGATC
60012449 AAAAGAAAAGAGA
1 AAAAGAAAAGAGA
60012462 GGCAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.19
15 8 0.31
16 4 0.15
17 9 0.35
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (15 bp):
AAAAGAAAAGAGATC
Found at i:60015381 original size:29 final size:29
Alignment explanation
Indices: 60015348--60015407 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
60015338 ATAACCAAAC
*
60015348 CTACAAAAACTTTACATCCATAAATCCAT
1 CTACAAAAACTTTACATCCATAAACCCAT
* *
60015377 CTACATAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTTACATCCATAAACCCAT
60015406 CT
1 CT
60015408 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTTACATCCATAAACCCAT
Found at i:60016545 original size:17 final size:18
Alignment explanation
Indices: 60016509--60016547 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
60016499 GAGCAGCCAA
60016509 AATTAATGTGTCTAAATT
1 AATTAATGTGTCTAAATT
*
60016527 AATTAATGTG-CTGAATT
1 AATTAATGTGTCTAAATT
60016544 AATT
1 AATT
60016548 TGTGTGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (18 bp):
AATTAATGTGTCTAAATT
Found at i:60019846 original size:14 final size:14
Alignment explanation
Indices: 60019829--60019868 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60019819 CGAATGGAAT
*
60019829 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
60019843 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
60019857 GGTAAGAACAAA
1 GGTAGGAACAAA
60019869 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:60019873 original size:14 final size:14
Alignment explanation
Indices: 60019826--60019873 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
60019816 GTACGAATGG
* *
60019826 AATGGTAGGAACGA
1 AATGGTAAGAACAA
* *
60019840 AAGGGTAGGAACAA
1 AATGGTAAGAACAA
60019854 AATGGTAAGAACAA
1 AATGGTAAGAACAA
*
60019868 ATTGGT
1 AATGGT
60019874 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (14 bp):
AATGGTAAGAACAA
Found at i:60025100 original size:20 final size:21
Alignment explanation
Indices: 60025077--60025126 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
60025067 AGCTCAATTC
* *
60025077 AGCTCATTTGAGCTT-GTTTG
1 AGCTCATTCGAGCTTACTTTG
* *
60025097 AGCTCAATCGAGCTTACTTTT
1 AGCTCATTCGAGCTTACTTTG
60025118 AGCTCATTC
1 AGCTCATTC
60025127 TTTATTTCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (21 bp):
AGCTCATTCGAGCTTACTTTG
Found at i:60027330 original size:20 final size:20
Alignment explanation
Indices: 60027307--60027345 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60027297 TCCAGCTCGA
*
60027307 TTCAACTTATTTGAGCTCAT
1 TTCAACTCATTTGAGCTCAT
* *
60027327 TTCAGCTCGTTTGAGCTCA
1 TTCAACTCATTTGAGCTCA
60027346 ACCGAGCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (20 bp):
TTCAACTCATTTGAGCTCAT
Found at i:60030991 original size:17 final size:17
Alignment explanation
Indices: 60030965--60030998 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60030955 AGGCCATGCA
60030965 TGAATCTTCCCATTCAT
1 TGAATCTTCCCATTCAT
*
60030982 TGAATTTTCCCATTCAT
1 TGAATCTTCCCATTCAT
60030999 GCATCTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGAATCTTCCCATTCAT
Found at i:60031316 original size:10 final size:10
Alignment explanation
Indices: 60031303--60031337 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
60031293 AAGCTCAGTT
60031303 GAGCTCAAAC
1 GAGCTCAAAC
*
60031313 GAGCTGAAAC
1 GAGCTCAAAC
*
60031323 GAGCTCAAAT
1 GAGCTCAAAC
60031333 GAGCT
1 GAGCT
60031338 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:60031346 original size:20 final size:20
Alignment explanation
Indices: 60031294--60031347 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
60031284 GTTGAAAGTA
*
60031294 AGCTCAGTTGAGCTCAAACG
1 AGCTGAGTTGAGCTCAAACG
*** *
60031314 AGCTGAAACGAGCTCAAATG
1 AGCTGAGTTGAGCTCAAACG
60031334 AGCTGAGTTGAGCT
1 AGCTGAGTTGAGCT
60031348 GGACGGAGCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (20 bp):
AGCTGAGTTGAGCTCAAACG
Found at i:60033571 original size:11 final size:11
Alignment explanation
Indices: 60033557--60033586 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
60033547 CAGCTCGGGT
60033557 CCAGCTCACTA
1 CCAGCTCACTA
60033568 CCAGCTCACTA
1 CCAGCTCACTA
60033579 CCAGCTCA
1 CCAGCTCA
60033587 TGGGTCCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.47, G:0.10, T:0.17
Consensus pattern (11 bp):
CCAGCTCACTA
Found at i:60035126 original size:9 final size:9
Alignment explanation
Indices: 60035112--60035149 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
60035102 AGGTAGGTTC
60035112 AGAAAAAAA
1 AGAAAAAAA
60035121 AGAAAAAAA
1 AGAAAAAAA
*
60035130 TCG-AAAAAA
1 -AGAAAAAAA
60035139 AGAAAAAAA
1 AGAAAAAAA
60035148 AG
1 AG
60035150 TGATTTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.04
9 23 0.92
10 1 0.04
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:60048456 original size:37 final size:37
Alignment explanation
Indices: 60048401--60048475 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
60048391 TGCTAAAAGA
* *
60048401 AAGGTTTCCGGCTTAGCGGAAGTCAAAGTTGTTACCG
1 AAGGTTTCCGACTCAGCGGAAGTCAAAGTTGTTACCG
* *
60048438 AAGGTTTCTGACTCAGCGGCAGTCAAAGTTGTTACCG
1 AAGGTTTCCGACTCAGCGGAAGTCAAAGTTGTTACCG
60048475 A
1 A
60048476 GAGAAGATGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (37 bp):
AAGGTTTCCGACTCAGCGGAAGTCAAAGTTGTTACCG
Found at i:60053190 original size:10 final size:10
Alignment explanation
Indices: 60053175--60053201 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
60053165 TAAGTTGAAG
60053175 TTGAGCTGAT
1 TTGAGCTGAT
60053185 TTGAGCTGAT
1 TTGAGCTGAT
60053195 TTGAGCT
1 TTGAGCT
60053202 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:60058376 original size:12 final size:14
Alignment explanation
Indices: 60058359--60058394 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
60058349 ATAAATCACT
60058359 TTTTTTTTTC-G-A
1 TTTTTTTTTCGGAA
60058371 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
60058385 TTTTTTTTTC
1 TTTTTTTTTC
60058395 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:60060028 original size:10 final size:10
Alignment explanation
Indices: 60060013--60060039 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
60060003 TAAGTTGAAG
60060013 TTGAGCTGAT
1 TTGAGCTGAT
60060023 TTGAGCTGAT
1 TTGAGCTGAT
60060033 TTGAGCT
1 TTGAGCT
60060040 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:60065476 original size:11 final size:11
Alignment explanation
Indices: 60065462--60065503 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
60065452 TTATTTTTTT
60065462 ATTTTTTTCGA
1 ATTTTTTTCGA
60065473 ATTTTTTTCGA
1 ATTTTTTTCGA
* *
60065484 TTTTTTTTTGAA
1 ATTTTTTTCG-A
60065496 ATTTTTTT
1 ATTTTTTT
60065504 AACTTGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (11 bp):
ATTTTTTTCGA
Found at i:60069799 original size:39 final size:39
Alignment explanation
Indices: 60069748--60069942 Score: 295
Period size: 39 Copynumber: 5.0 Consensus size: 39
60069738 TGAGGTCCGC
60069748 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
60069786 AGGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
60069825 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
60069864 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
60069904 AGGC-TTTATGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGGC-T-AAGTCCCG
60069943 CATGCTTTTG
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 4 0.03
39 121 0.82
40 22 0.15
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:60069855 original size:78 final size:78
Alignment explanation
Indices: 60069726--60069942 Score: 312
Period size: 78 Copynumber: 2.8 Consensus size: 78
60069716 AGACTAGAAA
* *
60069726 TATATCCGGACATGAGGT-CCGCAGGCTTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGC-TAAGGTCCCGCAGGCTTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGC
* *
60069790 ATTTGTGCTGGTGT
65 ATTTATGCTGGTAT
* * *
60069804 TATATCCGGGCT-AGGTCCCGAAGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGGTCCCGCAGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGC
60069868 ATTTATGCTGGTAT
65 ATTTATGCTGGTAT
*
60069882 TATATCCGGGCTAAAGTCCCGCAGGCTTTATGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TATATCCGGGCTAAGGTCCCGCAGGCTTTATGCTGGTATTATATCCGGGC-T-AAGTCCCG
60069943 CATGCTTTTG
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
76 4 0.03
77 8 0.06
78 92 0.74
79 12 0.10
80 8 0.06
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (78 bp):
TATATCCGGGCTAAGGTCCCGCAGGCTTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCA
TTTATGCTGGTAT
Found at i:60070098 original size:18 final size:18
Alignment explanation
Indices: 60070075--60070110 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60070065 AAGTTGGTCA
60070075 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
60070093 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
60070111 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:60075950 original size:77 final size:78
Alignment explanation
Indices: 60075833--60076014 Score: 282
Period size: 77 Copynumber: 2.4 Consensus size: 78
60075823 TGAGGTCCGC
* *
60075833 AGGCTTTATGCTGGTATTATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGTTATATCCGG
1 AGGCTTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTGGTATTATATCCGG
60075897 GCT-AAGTCCCGA
66 GCTAAAGTCCCGA
* *
60075909 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCC-AAGGCATTTATGCTGGTATTATATCCG
1 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTGGTATTATATCCG
*
60075973 GGCTAAAGTCCCGC
65 GGCTAAAGTCCCGA
60075987 AGGCTTTATGCTGGTATTAT-TCCGGGCT
1 AGGCTTTATGCTGGTATTATATCCGGGCT
60076015 TAAAGTCCGC
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
76 12 0.12
77 59 0.61
78 25 0.26
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (78 bp):
AGGCTTTATGCTGGTATTATATCCGGGCTAAGTCCCGAAGGCATTTATGCTGGTATTATATCCGG
GCTAAAGTCCCGA
Found at i:60076022 original size:39 final size:39
Alignment explanation
Indices: 60075833--60076014 Score: 275
Period size: 39 Copynumber: 4.8 Consensus size: 39
60075823 TGAGGTCCGC
60075833 AGGC-TTTATGCTGGTATTATAT-CGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
60075870 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
60075909 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCC-A
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
60075947 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
60075987 AGGC-TTTATGCTGGTATTAT-TCCGGGCT
1 AGGCATTTATGCTGGTATTATATCCGGGCT
60076015 TAAAGTCCGC
Statistics
Matches: 136, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
37 4 0.03
38 53 0.39
39 75 0.55
40 4 0.03
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:60076179 original size:18 final size:18
Alignment explanation
Indices: 60076156--60076191 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
60076146 AAGTTGGTCA
60076156 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
60076174 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
60076192 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:60079789 original size:26 final size:26
Alignment explanation
Indices: 60079753--60079828 Score: 143
Period size: 26 Copynumber: 2.9 Consensus size: 26
60079743 CATGAAATTC
60079753 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
60079779 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
60079805 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
60079829 TTTATCAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:60083848 original size:325 final size:322
Alignment explanation
Indices: 60082741--60084688 Score: 2519
Period size: 326 Copynumber: 6.0 Consensus size: 322
60082731 AAACCAAACT
* * * *
60082741 TCAATATACCTGTATAGTAAATCTGTAAATATTTTA-AAAAATATTTTTTACTTAGTTTATAGAA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTTAGTTTACAGAA
* * * * *
60082805 ACGAGGTCCCAGTATCTCATTGCCCGAAACCACTTAACATTCGAGATGAACCTCTTGTACTTAAC
66 ACGAGGTCCCA-AATCTCATT-TCCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAAC
* *
60082870 TATTTGTTCAATTAGCAAAAAATTATCAAAT-AAACATTTACT---AACTATATTTAACTTGTAT
129 TATTTGTTCAATTAGCAAAAAATTATCAAATCAAA-ATTTACTAGAAACTATATCTAACTCGTAT
** *
60082931 AAAATAAATAATAATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACTCC
193 AAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACTCC
* ** * *
60082996 ACTGAAACCGACCTGTTACATCACTCTCAATTCTTTAT-CAAAAAAATTCTCTTTCAATTCTCTC
258 ATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCTC
* * * * *
60083060 TCAATATACCTGTATAGTAAATCCATAAATATTTAATAAAAATATTTTTTACTCAATTTATAGAA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTTAGTTTACAGAA
** *
60083125 ACGAGGTCCCAATATCTCATTTCCCGAAATGACTTGACTTTCGGGACGAACCTCTTGTACTTAAC
66 ACGAGGTCCCAA-ATCTCATTT-CCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAAC
60083190 TATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATA
129 TATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATA
* * * *
60083255 AAATAAATAATAATAATTACAGAATCATTGCTAGAATTGTGATCCTGAAAGCACTGTTTTCAGCT
194 AAAT--A-AATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
* * *
60083320 GCGCA--G--AA--A------ACATCACTCTCAATTATTTATATAAAAAAAAAACCACTTTCAAT
256 -C-CATTGAAAATGACCTGTTACATCACTCTCAATT-CTT-TATAAAAAAAAAATCTCTTTCAAT
60083373 TCTCTC
317 TCTCTC
* *
60083379 TCAATATACTTGTATAGTAAATTCGTAAATATTTAATAAAAATATTTTTTTTGCTTAGTTTACAG
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATA--TTTTTTGCTTAGTTTACAG
* * *
60083444 AAACAAGGTTCCGATATCTCATTTCTCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTA
64 AAACGAGG-TCCCAAATCTCATTTC-CGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTA
* *
60083509 ACTATTTGTTCAATTAGCAAAAAATTATCAAAT-AAAAGATTACTAGAAACTATATTTAACTCGT
127 ACTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAA-TTTACTAGAAACTATATCTAACTCGT
* * * * *
60083573 ATAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGGTTCTGAAACCATTATTTTCAACT
191 ATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
* * * *
60083638 CTATTGAAAACGACCTGTTACATCACTCTCAATTCTTTATGAAAAAAATATCTCTTTCAATTCTC
256 CCATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTC
60083703 TC
321 TC
* *
60083705 TCAACATACCGGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATA-TTTTTTGCTTAGTTTACAGA
* * ** *
60083770 AATGATGTCCCGAAATCTCATTTGCCGAAACCACTTGACTTTCAAGATGAACCTCATGTACTTAA
65 AACGAGGTCCC-AAATCTCATTT-CCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAA
* * *
60083835 CTATTTGTTCAATTAGCAAAAAGTTATAAAAT-AAAAGTTTACTAGAAACTATATATAACTCGTA
128 CTATTTGTTCAATTAGCAAAAAATTATCAAATCAAAA-TTTACTAGAAACTATATCTAACTCGTA
* * * *
60083899 TAAATTAAATAATAATTATAGAATTATTGTCAGAATTGTGGTCCTGAAACCACTGTTTTCAACTC
192 TAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACTC
* *
60083964 CATT-AAAATGACATGTTAGATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCT
257 CATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCT
60084028 C
322 C
*
60084029 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATA-TTTTTTGCTTAGTTTACAGA
* * * * *
60084094 AACGAGGTCCCAATATCTCATTTCACGAAACGACATGAGTTTTGGGATGACCCTCTTGTACTTAA
65 AACGAGGTCCCAA-ATCTCATTTC-CGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAA
* * * *
60084159 CTATTTGTTCAATTAGCAAAAAAAATTATCAAATCAAAATTTACTAAAAACCATATCTAGCTCAT
128 CTATTTGTTCAATTAGC--AAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGT
* * * *
60084224 ATAAAATAACTAATAATTACGGAATCATTGTTAGAATTGTGGTCCTAAAACTACTGTTTTCAACT
191 ATAAAATAAATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
* * *
60084289 CCATTG-AAATGACCTGTTAGATCACTCTCAATT-TTTAT--AAAAAATATCTCTTTCAATTCTA
256 CCATTGAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTC
60084350 TC
321 TC
*
60084352 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAA
1 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTTAGTTTACAGAA
* * ** * * * *
60084417 ACGAGGTCCCGATATCTCATTTCCCAAAATGACTTAACTTCCCGGACGAACCTCTTGTACTTAAC
66 ACGAGGTCCC-AAATCTCATTT-CCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAAC
60084482 TATTTGTTCAATTAGCAAATAAA-TATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT
129 TATTTGTTCAATTAGCAAA-AAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT
* * *
60084546 AAAATAAATAATAATAACTATAGAATCATTGTTGGAATTGTGGTCCTAAAACCACTGTTTTCAAC
193 AAAATAAATAATAAT---TACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAAC
* *
60084611 TCCACT-AAAATGACCTGTTAGATCACTCTCAATTCTTTATCAACAAAAAAAAATCTCTTTCAAT
255 TCCATTGAAAATGACCTGTTACATCACTCTCAATTCTTTAT--A-AAAAAAAAATCTCTTTCAAT
60084675 TCTCTC
317 TCTCTC
60084681 TCAATATA
1 TCAATATA
60084689 TCCGTAATGT
Statistics
Matches: 1431, Mismatches: 145, Indels: 96
0.86 0.09 0.06
Matches are distributed among these distances:
316 16 0.01
317 3 0.00
318 52 0.04
319 97 0.07
320 180 0.13
321 137 0.10
322 92 0.06
323 168 0.12
324 194 0.14
325 197 0.14
326 240 0.17
327 7 0.00
328 17 0.01
329 31 0.02
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (322 bp):
TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTTAGTTTACAGAA
ACGAGGTCCCAAATCTCATTTCCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAACTA
TTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATAAA
ATAAATAATAATTACAGAATCATTGTTAGAATTGTGGTCCTGAAACCACTGTTTTCAACTCCATT
GAAAATGACCTGTTACATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCTC
Found at i:60084402 original size:646 final size:641
Alignment explanation
Indices: 60082741--60084688 Score: 2737
Period size: 646 Copynumber: 3.0 Consensus size: 641
60082731 AAACCAAACT
* * * * *
60082741 TCAATATACCTGTATAGTAAATCTGTAAATATTTTA-AAAAATA-TTTTTTACTTAGTTTATAGA
1 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
* * * * * *
60082804 AACGAGGTCCCAGTATCTCATTGCCCGAAACCACTTAACATTCGAGATGAACCTCTTGTACTTAA
66 AACGAGGTCCCAATATCTCATTTCACGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAA
*
60082869 CTATTTGTTCAATTAGCAAAAAATTATCAAATAAACATTTACT--AACTATATTTAACTTGTATA
131 CTATTTGTTCAATTAGCAAAAAATTATCAAATAAA-ATTTACTAAAACTATATTTAACTCGTATA
*
60082932 AAATAAATAATAATTATGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACTCCA
195 AAATAAATAATAATTACGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACTCCA
*
60082997 CTGAAACCGACCTGTTACATCACTCTCAATTCTTTATCAAAAAAAT-TCTCTTTCAATTCTCTCT
260 TTGAAA-CGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAATATCTCTTTCAATTCTCTCT
* * * *
60083061 CAATATACCTGTATAGTAAATCCATAAATATTTAATAAAAATATTTTTTACTCAATTTATAGAAA
323 CAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAAA
*
60083126 CGAGGTCCC-AATATCTCATTTCCCGAAATGACTTGACTTTCGGGACGAACCTCTTGTACTTAAC
388 CGAGGTCCCGAA-ATCTCATTTCCCGAAATGACTTGACTTTCAGGACGAACCTCTTGTACTTAAC
60083190 TATTTGTTCAATTAGCAAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATA
452 TATTTGTTCAATTAGC-AAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTAT-
* * * * *
60083255 AAATAAATAATAATAATTACAGAATCATTG-CTAGAATTGTGATCCTGAAAGCACTGTTTTCAGC
515 AAAT-TA-AATAATAATTATAGAATCATTGTC-AGAATTGTGGTCCTGAAACCACTGTTTTCAAC
* * * *
60083319 TGCGCA-GAAA--AC------ATCACTCTCAATTATTTATATAAAAAAAAAACCACTTTCAATTC
577 T-C-CATAAAATGACTGTTAGATCACTCTCAATT-CTT-TATAAAAAAAAAATCTCTTTCAATTC
60083375 TCTC
638 TCTC
*
60083379 TCAATATACTTGTATAGTAAATTCGTAAATATTTAATAAAAATATTTTTTTTGCTTAGTTTACAG
1 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATA-TTTTTTTGCTTAGTTTACAG
* * * *
60083444 AAACAAGGTTCCGATATCTCATTTCTCGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTA
65 AAACGAGGTCCCAATATCTCATTTCACGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTA
*
60083509 ACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAAGATTACTAGAAACTATATTTAACTCGTA
130 ACTATTTGTTCAATTAGCAAAAAATTATCAAATAAAA-TTTACTA-AAACTATATTTAACTCGTA
* * *
60083574 TAAAATAAATAATAATTACGGAATCATTATTAGAATTGTGGTTCTGAAACCATTATTTTCAACTC
193 TAAAATAAATAATAATTACGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACTC
*
60083639 TATTGAAAACGACCTGTTACATCACTCTCAATTCTTTATGAAAAAAATATCTCTTTCAATTCTCT
258 CATTG-AAACGACCTGTTACATCACTCTCAATTCTTTAT-AAAAAAATATCTCTTTCAATTCTCT
* * *
60083704 CTCAACATACCGGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAG
321 CTCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATA-TTTTTTGCTCAGTTTACAG
* * * ** * * *
60083769 AAATGATGTCCCGAAATCTCATTTGCCGAAACCACTTGACTTTCAAGATGAACCTCATGTACTTA
385 AAACGAGGTCCCGAAATCTCATTTCCCGAAATGACTTGACTTTCAGGACGAACCTCTTGTACTTA
* *
60083834 ACTATTTGTTCAATTAGCAAAAAGTTATAAAAT-AAAAGTTTACTAGAAACTATATATAACTCGT
450 ACTATTTGTTCAATTAGCAAAAA-TTATCAAATCAAAA-TTTACTAGAAACTATATCTAACTCGT
*
60083898 ATAAATTAAATAATAATTATAGAATTATTGTCAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
513 ATAAATTAAATAATAATTATAGAATCATTGTCAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
60083963 CCATTAAAATGACATGTTAGATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCT
578 CCA-TAAAATGAC-TGTTAGATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCT
60084028 C
641 C
60084029 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
1 TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
* * * * *
60084094 AACGAGGTCCCAATATCTCATTTCACGAAACGACATGAGTTTTGGGATGACCCTCTTGTACTTAA
66 AACGAGGTCCCAATATCTCATTTCACGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAA
* * * *
60084159 CTATTTGTTCAATTAGCAAAAAAAATTATCAAATCAAAATTTACTAAAAACCATATCTAGCTCAT
131 CTATTTGTTCAATTAGC--AAAAAATTATCAAAT-AAAATTTACT-AAAACTATATTTAACTCGT
* * * *
60084224 ATAAAATAACTAATAATTACGGAATCATTGTTAGAATTGTGGTCCTAAAACTACTGTTTTCAACT
192 ATAAAATAAATAATAATTACGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACT
* * *
60084289 CCATTGAAATGACCTGTTAGATCACTCTCAATT-TTTAT-AAAAAATATCTCTTTCAATTCTATC
257 CCATTGAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAATATCTCTTTCAATTCTCTC
60084352 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAA
322 TCAATATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAA
* * * * *
60084417 ACGAGGTCCCGATATCTCATTTCCCAAAATGACTTAACTTCCCGGACGAACCTCTTGTACTTAAC
387 ACGAGGTCCCGAAATCTCATTTCCCGAAATGACTTGACTTTCAGGACGAACCTCTTGTACTTAAC
*
60084482 TATTTGTTCAATTAGCAAATAAATATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATA
452 TATTTGTTCAATTAGCAAA-AATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATA
* ** *
60084547 AAATAAATAATAATAACTATAGAATCATTGTTGGAATTGTGGTCCTAAAACCACTGTTTTCAACT
516 AATTAAATAATAAT---TATAGAATCATTGTCAGAATTGTGGTCCTGAAACCACTGTTTTCAACT
60084612 CCACTAAAATGACCTGTTAGATCACTCTCAATTCTTTATCAACAAAAAAAAATCTCTTTCAATTC
578 CCA-TAAAATGA-CTGTTAGATCACTCTCAATTCTTTAT--A-AAAAAAAAATCTCTTTCAATTC
60084677 TCTC
638 TCTC
60084681 TCAATATA
1 TCAATATA
60084689 TCCGTAATGT
Statistics
Matches: 1169, Mismatches: 103, Indels: 62
0.88 0.08 0.05
Matches are distributed among these distances:
638 32 0.03
639 7 0.01
640 1 0.00
641 116 0.10
642 1 0.00
643 53 0.05
644 121 0.10
645 76 0.07
646 260 0.22
647 74 0.06
649 179 0.15
650 97 0.08
651 100 0.09
652 52 0.04
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (641 bp):
TCAATATACTTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTTGCTTAGTTTACAGA
AACGAGGTCCCAATATCTCATTTCACGAAACCACTTGACTTTCGGGATGAACCTCTTGTACTTAA
CTATTTGTTCAATTAGCAAAAAATTATCAAATAAAATTTACTAAAACTATATTTAACTCGTATAA
AATAAATAATAATTACGGAATCATTGTTAGAATTGTGGTCCTGAAACCACTATTTTCAACTCCAT
TGAAACGACCTGTTACATCACTCTCAATTCTTTATAAAAAAATATCTCTTTCAATTCTCTCTCAA
TATACCTGTATAGTAAATCCGTAAATATTTAATAAAAATATTTTTTGCTCAGTTTACAGAAACGA
GGTCCCGAAATCTCATTTCCCGAAATGACTTGACTTTCAGGACGAACCTCTTGTACTTAACTATT
TGTTCAATTAGCAAAAATTATCAAATCAAAATTTACTAGAAACTATATCTAACTCGTATAAATTA
AATAATAATTATAGAATCATTGTCAGAATTGTGGTCCTGAAACCACTGTTTTCAACTCCATAAAA
TGACTGTTAGATCACTCTCAATTCTTTATAAAAAAAAAATCTCTTTCAATTCTCTC
Found at i:60085646 original size:21 final size:21
Alignment explanation
Indices: 60085600--60085652 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
60085590 TTGAAGTGTT
* **
60085600 AAAAAAAAAGTTCAAAATTTG
1 AAAAAAAAAGTACAAAATTAA
*
60085621 CAAAAAAAAGTACAAAATTAA
1 AAAAAAAAAGTACAAAATTAA
60085642 AAAAAAAAAGT
1 AAAAAAAAAGT
60085653 GAATTAGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.17
Consensus pattern (21 bp):
AAAAAAAAAGTACAAAATTAA
Found at i:60086702 original size:17 final size:17
Alignment explanation
Indices: 60086682--60086714 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60086672 AAAAGAGTGT
60086682 GAAAGAAAAAAAGAAAA
1 GAAAGAAAAAAAGAAAA
*
60086699 GAAAGAAAAAGAGAAA
1 GAAAGAAAAAAAGAAA
60086715 GACTGTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAAAGAAAA
Found at i:60086746 original size:19 final size:19
Alignment explanation
Indices: 60086723--60086767 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
60086713 AAGACTGTGA
60086723 AAAAAGAAAAA-GAGAATGTG
1 AAAAAGAAAAATGA-AAT-TG
60086743 AAAAAGAAAAATGAAATTG
1 AAAAAGAAAAATGAAATTG
60086762 AAAAAG
1 AAAAAG
60086768 TATAAGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAAAGAAAAATGAAATTG
Found at i:60089416 original size:30 final size:30
Alignment explanation
Indices: 60089330--60089427 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
60089320 TTAAACTAAA
* *
60089330 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
60089360 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
60089390 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
60089420 ATGAGCTA
1 ATGAGCTA
60089428 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:60092211 original size:30 final size:30
Alignment explanation
Indices: 60092177--60092273 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
60092167 AGCTCACTCC
60092177 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
60092207 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
60092237 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
60092267 TAGCTCA
1 TAGCTCA
60092274 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:60093998 original size:11 final size:11
Alignment explanation
Indices: 60093980--60094022 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
60093970 GTTATACAAG
60093980 TCAAAAAAAA-
1 TCAAAAAAAAT
60093990 TCAAAAAAAAT
1 TCAAAAAAAAT
60094001 TCAAAAAAAAT
1 TCAAAAAAAAT
60094012 TCAAAAAAAAT
1 TCAAAAAAAAT
60094023 CTGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 10 0.31
11 22 0.69
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (11 bp):
TCAAAAAAAAT
Found at i:60096566 original size:6 final size:5
Alignment explanation
Indices: 60096542--60096604 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
60096532 AAGAGAAAAC
*
60096542 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
60096590 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
60096605 GAGGTAAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:60096572 original size:12 final size:10
Alignment explanation
Indices: 60096542--60096604 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
60096532 AAGAGAAAAC
60096542 AAAGAAAAGA
1 AAAGAAAAGA
60096552 AAAGAAAAAGCA
1 AAAG-AAAAG-A
60096564 AAAGCAAAAGA
1 AAAG-AAAAGA
*
60096575 AGA-AAAAGA
1 AAAGAAAAGA
60096584 AAATGAAATA-A
1 AAA-GAAA-AGA
60096595 AAAGAAAAGA
1 AAAGAAAAGA
60096605 GAGGTAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 15 0.34
12 11 0.25
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:60096684 original size:11 final size:12
Alignment explanation
Indices: 60096652--60096682 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
60096642 TTGAGAGAAC
60096652 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60096664 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60096676 TTGAAAA
1 TTGAAAA
60096683 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:60096693 original size:12 final size:12
Alignment explanation
Indices: 60096685--60096709 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60096675 TTTGAAAAGC
60096685 AAAAAGAAAATG
1 AAAAAGAAAATG
60096697 AAAAAGAAAATG
1 AAAAAGAAAATG
60096709 A
1 A
60096710 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:60096706 original size:18 final size:18
Alignment explanation
Indices: 60096679--60096721 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60096669 AAAGCCTTTG
60096679 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
60096698 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
60096716 AAAAGA
1 AAAAGA
60096722 GAGTGAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:60096719 original size:30 final size:30
Alignment explanation
Indices: 60096685--60096765 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
60096675 TTTGAAAAGC
**
60096685 AAAAAGAAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGAG
* * **
60096715 AAAAAGAGAGTG-AAAAGCAATTTGAGAGAG
1 AAAAAGAAAATGAAAAAG-AAAATGAGAGAG
**
60096745 AAAAAGAAGTTGAAAAAGAAA
1 AAAAAGAAAATGAAAAAGAAA
60096766 TTGAAAAAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
29 5 0.13
30 29 0.74
31 5 0.13
ACGTcount: A:0.63, C:0.01, G:0.23, T:0.12
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAAGAAAATGAGAGAG
Found at i:60096761 original size:12 final size:12
Alignment explanation
Indices: 60096744--60096788 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
60096734 ATTTGAGAGA
*
60096744 GAAAAAGAAGTT
1 GAAAAAGAAATT
60096756 GAAAAAGAAATT
1 GAAAAAGAAATT
*
60096768 GAAAAAGAGATT
1 GAAAAAGAAATT
*
60096780 -AAAGAGAAA
1 GAAAAAGAAA
60096789 GAAATTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 7 0.24
12 22 0.76
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:60098832 original size:30 final size:30
Alignment explanation
Indices: 60098798--60098894 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
60098788 AGCTCACTCC
60098798 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
60098828 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
60098858 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
60098888 TAGCTCA
1 TAGCTCA
60098895 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:60102386 original size:30 final size:31
Alignment explanation
Indices: 60102352--60102448 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
60102342 AGCTCACTCC
*
60102352 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
60102382 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
60102412 AAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
60102442 TAGCTCA
1 TAGCTCA
60102449 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:60105122 original size:6 final size:5
Alignment explanation
Indices: 60105098--60105157 Score: 59
Period size: 5 Copynumber: 11.0 Consensus size: 5
60105088 AAGAGAAAAC
60105098 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGAAGAA AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA A-AAG-A AAAGA AAA-GA AA-AGA
60105148 AAAGA AAAGA
1 AAAGA AAAGA
60105158 GAGGCAAGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
4 1 0.02
5 24 0.50
6 20 0.42
7 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:60105124 original size:12 final size:11
Alignment explanation
Indices: 60105098--60105157 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 11
60105088 AAGAGAAAAC
60105098 AAAG-AAAAGA
1 AAAGAAAAAGA
60105108 AAAGAAAAAGCA
1 AAAGAAAAAG-A
*
60105120 AAAGAAGAAGAA
1 AAAGAAAAAG-A
*
60105132 AAAGAAAATG-
1 AAAGAAAAAGA
*
60105142 AAATAAAAAGA
1 AAAGAAAAAGA
60105153 AAAGA
1 AAAGA
60105158 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
10 12 0.30
11 9 0.22
12 19 0.47
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:60105222 original size:12 final size:12
Alignment explanation
Indices: 60105205--60105234 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
60105195 TTGAGAGAAC
60105205 TTGAAAAAGCCT
1 TTGAAAAAGCCT
60105217 TTG-AAAAGCCT
1 TTGAAAAAGCCT
60105228 TTGAAAA
1 TTGAAAA
60105235 GCAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:60105225 original size:11 final size:11
Alignment explanation
Indices: 60105209--60105236 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
60105199 GAGAACTTGA
60105209 AAAAGCCTTTG
1 AAAAGCCTTTG
60105220 AAAAGCCTTTG
1 AAAAGCCTTTG
60105231 AAAAGC
1 AAAAGC
60105237 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.21
Consensus pattern (11 bp):
AAAAGCCTTTG
Found at i:60105311 original size:30 final size:31
Alignment explanation
Indices: 60105247--60105318 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
60105237 AAAAAAAAAT
* *
60105247 GAAAAAGAAA-ATGAGATTGAAAAAGAGAAC
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
*
60105277 G-AAAAGAAATTTGAGAGTGAAAAAGA-AGAT
1 GAAAAAGAAATTTGAGAGTGAAAAAGAGA-AC
60105307 GAAAAAGAAATT
1 GAAAAAGAAATT
60105319 GAAACAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 9 0.25
30 17 0.47
31 10 0.28
ACGTcount: A:0.61, C:0.01, G:0.24, T:0.14
Consensus pattern (31 bp):
GAAAAAGAAATTTGAGAGTGAAAAAGAGAAC
Found at i:60107463 original size:30 final size:31
Alignment explanation
Indices: 60107429--60107525 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
60107419 AGCTCACTCC
*
60107429 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
60107459 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
60107489 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
60107519 TAGCTCA
1 TAGCTCA
60107526 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:60109017 original size:27 final size:28
Alignment explanation
Indices: 60108987--60109055 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
60108977 ATAGTGAGTC
60108987 CGCACACTTAGTGCTATACAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
**
60109014 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
60109042 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60109056 CGTACAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:60113569 original size:21 final size:21
Alignment explanation
Indices: 60113543--60113584 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60113533 TGAAGGGCAT
60113543 GGGCGTGCCCTAAAGATACAC
1 GGGCGTGCCCTAAAGATACAC
60113564 GGGCGTGCCCTAAAGATACAC
1 GGGCGTGCCCTAAAGATACAC
60113585 AGGTGTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (21 bp):
GGGCGTGCCCTAAAGATACAC
Found at i:60120116 original size:40 final size:38
Alignment explanation
Indices: 60120027--60120217 Score: 177
Period size: 40 Copynumber: 4.8 Consensus size: 38
60120017 TGAATGATGT
* * * *
60120027 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTACTA-AA
* * *
60120067 CCAGACTAAGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTAAA
* *
60120106 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -CCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
*
60120145 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 -CCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTACTA-AA
** *
60120186 CCGGGCTTTGTCTCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTC-CGAAGGCATTCGTGCGAGT
60120218 CGTTATATCC
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 36 0.29
40 80 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (38 bp):
CCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:60120166 original size:79 final size:81
Alignment explanation
Indices: 60120026--60120192 Score: 209
Period size: 79 Copynumber: 2.1 Consensus size: 81
60120016 TTGAATGATG
* *
60120026 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCAGACTAAGATCCGAAGGCATTC
60120091 GTGCGAGTTAATA-AA
66 GTGCGAGTTAATATAA
* * * **
60120106 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCAGACTAAGAT-CCGAAGGCAT
*
60120168 TCGTGCGAGTTACTATAA
64 TCGTGCGAGTTAATATAA
60120186 -CCGGGCT
1 TCCGGGCT
60120193 TTGTCTCGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.72
80 20 0.26
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCAGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:60140147 original size:38 final size:38
Alignment explanation
Indices: 60140105--60140204 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 38
60140095 TTAAAGACCC
*
60140105 GCAGGCTATATGCTGGAATTATATCCG-GGTTAAATCCT
1 GCAGGCTATGTGCTGGAATTATAT-CGTGGTTAAATCCT
60140143 GCAGGCT-TCGTGCTGGTAA-TATATCGTGGTTAAATCCT
1 GCAGGCTAT-GTGCTGG-AATTATATCGTGGTTAAATCCT
*
60140181 GCAGGCCTA-GTGCTGGTATTATAT
1 GCAGG-CTATGTGCTGGAATTATAT
60140205 TTGGGCCTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
37 4 0.07
38 46 0.85
39 4 0.07
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (38 bp):
GCAGGCTATGTGCTGGAATTATATCGTGGTTAAATCCT
Found at i:60140399 original size:43 final size:43
Alignment explanation
Indices: 60140202--60140396 Score: 318
Period size: 43 Copynumber: 4.5 Consensus size: 43
60140192 GCTGGTATTA
*
60140202 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
60140245 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * * *
60140288 TATTTGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGATGATATG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
60140331 TATTCGGGCCTTCATGCCTAGCAAGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
60140374 TATTCGGGCCTTCGTGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
60140397 AGCGTAATGT
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 139 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.32
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:60143026 original size:41 final size:41
Alignment explanation
Indices: 60142981--60143148 Score: 130
Period size: 41 Copynumber: 4.1 Consensus size: 41
60142971 CCTTCGGAAT
* *
60142981 CAAGCCTGATTCTTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCTGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * *
60143022 CAAGCTCGGATTA-GACCACTGGCTCGAAGGCCCTTCG-GAAC
1 CAAGC-CTGATTATGAGCACTGGCTCAAAAGCCCTTCGAG-AC
* * * * *
60143063 TAAGTGC-GGTTATGA-CACTGGCTCTAAAGCCCTTCGAAAC
1 CAAG-CCTGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * *
60143103 TAAG-TTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCT-GATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
60143144 CAAGC
1 CAAGC
60143149 TCGGATTTAG
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
40 37 0.37
41 59 0.58
42 5 0.05
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (41 bp):
CAAGCCTGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
Found at i:60143095 original size:40 final size:40
Alignment explanation
Indices: 60142997--60143139 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 40
60142987 TGATTCTTAG
*
60142997 CACTGGCTCAAAAGCCCTTC-GAGACCAAGCTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGGA-ACTAAG-TCGG-TTATGAC
* *
60143038 CACTGGCTCGAAGGCCCTTCGGAACTAAGTGCGGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGGAACTAAGT-CGGTTATGAC
* * * *
60143078 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGGAACTAAG-TCGGTTATGAC
60143119 CACTGGCTCAAAAGCCCTTCG
1 CACTGGCTCAAAAGCCCTTCG
60143140 AGACCAAGCT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
40 38 0.43
41 49 0.55
42 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGGAACTAAGTCGGTTATGAC
Found at i:60148707 original size:46 final size:46
Alignment explanation
Indices: 60148585--60148713 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
60148575 TGTAACCCGC
* ** * *
60148585 CCATAAGCGAACTCGGACTCAACTCAACGACCTCGGGCGTGCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
*
60148631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
*
60148677 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60148714 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATGCGCAT
Found at i:60149177 original size:30 final size:31
Alignment explanation
Indices: 60149134--60149191 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
60149124 TTAACTCAAA
60149134 TTTTGGCAAAATTACAATTTTACCCCTAAAC
1 TTTTGGCAAAATTACAATTTTACCCCTAAAC
* * *
60149165 TTTT-GCATAATTACATTTTTTCCCCTA
1 TTTTGGCAAAATTACAATTTTACCCCTA
60149192 GGCTCAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (31 bp):
TTTTGGCAAAATTACAATTTTACCCCTAAAC
Found at i:60157345 original size:34 final size:33
Alignment explanation
Indices: 60157269--60157349 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 33
60157259 TTTGTTTGCA
* *
60157269 TACTGTT-CTGAAATGGGCTAAGGCCTAGACTG
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACTC
*
60157301 TCACTATTACTGAAATGGGCTAAGGCCCAGACTAC
1 T-ACTGTTACTGAAATGGGCTAAGGCCCAGACT-C
60157336 TACTGTTACTGAAA
1 TACTGTTACTGAAA
60157350 AAAGGGCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 5 0.12
34 35 0.83
35 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (33 bp):
TACTGTTACTGAAATGGGCTAAGGCCCAGACTC
Found at i:60158359 original size:12 final size:12
Alignment explanation
Indices: 60158342--60158371 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
60158332 CAGAGGTACT
60158342 CGTGGTAGAGGC
1 CGTGGTAGAGGC
60158354 CGTGGTAGAGGC
1 CGTGGTAGAGGC
60158366 CGTGGT
1 CGTGGT
60158372 GGTGCTCGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.17, G:0.50, T:0.20
Consensus pattern (12 bp):
CGTGGTAGAGGC
Found at i:60174073 original size:22 final size:23
Alignment explanation
Indices: 60174048--60174091 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
60174038 AACACATCAA
60174048 AATTTTTATGTGGA-AAATTTTT
1 AATTTTTATGTGGACAAATTTTT
60174070 AATTTTTATGTGGACAAATTTT
1 AATTTTTATGTGGACAAATTTT
60174092 ATCACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (23 bp):
AATTTTTATGTGGACAAATTTTT
Found at i:60174762 original size:15 final size:15
Alignment explanation
Indices: 60174742--60174798 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 15
60174732 TTTTCTTGCC
*
60174742 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
60174757 TCTCTTTTTTCTTTTCA
1 TCTC--TTTTCTTTTCA
60174774 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCA
*
60174787 TC-ATTTTCTTTT
1 TCTCTTTTCTTTT
60174799 TACAAGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.29
14 10 0.26
15 4 0.11
17 13 0.34
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:60174781 original size:14 final size:13
Alignment explanation
Indices: 60174757--60174798 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
60174747 TTTCTTTTGA
60174757 TCTCTTTTTTCTTT
1 TCTC-TTTTTCTTT
60174771 TCATCTTTTTCTTT
1 TC-TCTTTTTCTTT
*
60174785 TCTCATTTTCTTT
1 TCTCTTTTTCTTT
60174798 T
1 T
60174799 TACAAGAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 13 0.50
15 2 0.08
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (13 bp):
TCTCTTTTTCTTT
Found at i:60174790 original size:16 final size:14
Alignment explanation
Indices: 60174762--60174798 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
60174752 TTTGATCTCT
60174762 TTTTTCTTTTCATC
1 TTTTTCTTTTCATC
60174776 TTTTTCTTTTC-TC
1 TTTTTCTTTTCATC
*
60174789 ATTTTCTTTT
1 TTTTTCTTTT
60174799 TACAAGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTTCATC
Found at i:60179553 original size:17 final size:17
Alignment explanation
Indices: 60179527--60179561 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60179517 TTCTTTTCTC
60179527 GTTTTCTTTTTACAAGA
1 GTTTTCTTTTTACAAGA
*
60179544 GTTTTGTTTTTACAAGA
1 GTTTTCTTTTTACAAGA
60179561 G
1 G
60179562 GTTACAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (17 bp):
GTTTTCTTTTTACAAGA
Found at i:60186636 original size:27 final size:27
Alignment explanation
Indices: 60186570--60186785 Score: 251
Period size: 27 Copynumber: 8.0 Consensus size: 27
60186560 AAACATACAT
**
60186570 CACAT-AGAGGCAAAATAGTCA-TCAAC
1 CACATAAG-GGCAAAATAGTCATTTTAC
60186596 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
60186623 CTCATAAGGGCAAAATCGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
** *
60186650 CACATAAGGGCAAAACCGTCATTTTAA
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
60186677 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
60186704 CACATAAGGGCAAAACCA-TCATTTTAT
1 CACATAAGGGCAAAA-TAGTCATTTTAC
* *
60186731 CACATAAGGGCAAAATCGTCATTTTAA
1 CACATAAGGGCAAAATAGTCATTTTAC
*
60186758 CACATTAA-GGCAAAATAATCATTTTAC
1 CACA-TAAGGGCAAAATAGTCATTTTAC
60186785 C
1 C
60186786 TTATAGGGGT
Statistics
Matches: 167, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
26 18 0.11
27 144 0.86
28 5 0.03
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:60186689 original size:81 final size:81
Alignment explanation
Indices: 60186596--60186786 Score: 294
Period size: 81 Copynumber: 2.4 Consensus size: 81
60186586 AGTCATCAAC
* *
60186596 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATCGTCATTTTACCACATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCACATAAGGGC
60186661 AAAACCGTCATTTTAA
66 AAAACCGTCATTTTAA
* * * *
60186677 CACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGCAAAACCATCATTTTATCACATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCACATAAGGGC
*
60186742 AAAATCGTCATTTTAA
66 AAAACCGTCATTTTAA
*
60186758 CACATTAA-GGCAAAATAATCATTTTACCT
1 CACA-TAAGGGCAAAATAGTCATTTTACCT
60186787 TATAGGGGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 95 0.97
82 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (81 bp):
CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCACATAAGGGC
AAAACCGTCATTTTAA
Found at i:60186806 original size:27 final size:27
Alignment explanation
Indices: 60186776--60186972 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
60186766 GGCAAAATAA
* *
60186776 TCATTTTACCTTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
60186803 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
* *
60186830 TCATATTACCCTAT-GGGGTATTTTAG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
60186856 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
* * *
60186883 TCATTTTACTCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCAG
*
60186910 TCATTTTACCATATAGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCAG
60186937 TCATTTTACCCTATAGGGGTATTTC-G
1 TCATTTTACCCTATAGGGGTATTTCAG
60186963 ATCATTTTAC
1 -TCATTTTAC
60186973 AAGTAAATAA
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.16
27 129 0.84
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCAG
Found at i:60186807 original size:81 final size:80
Alignment explanation
Indices: 60186596--60186812 Score: 265
Period size: 81 Copynumber: 2.7 Consensus size: 80
60186586 AGTCATCAAC
*
60186596 CACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATCGTCATTTTACCACATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCTCAT-AGGGGAAAATCGTCATTTTACCACATAAGGGC
60186661 AAAACCGTCATTTTAA
65 AAAACCGTCATTTTAA
* * * * * * *
60186677 CACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGCAAAACCATCATTTTATCACATAAGGGC
1 CACATAAGGGCAAAATAGTCATTTTACCTCAT-AGGGGAAAATCGTCATTTTACCACATAAGGGC
*
60186742 AAAATCGTCATTTTAA
65 AAAACCGTCATTTTAA
* * * **
60186758 CACATTAA-GGCAAAATAATCATTTTACCTTATAGGGGTATTTCGGTCATTTTACC
1 CACA-TAAGGGCAAAATAGTCATTTTACCTCATAGGGGAAAATC-GTCATTTTACC
60186813 CTATGGGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 6 0.05
81 106 0.92
82 3 0.03
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (80 bp):
CACATAAGGGCAAAATAGTCATTTTACCTCATAGGGGAAAATCGTCATTTTACCACATAAGGGCA
AAACCGTCATTTTAA
Found at i:60186876 original size:80 final size:81
Alignment explanation
Indices: 60186776--60186972 Score: 306
Period size: 80 Copynumber: 2.4 Consensus size: 81
60186766 GGCAAAATAA
* *
60186776 TCATTTTACCTTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATATTACCC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATATTACCA
*
60186841 TAT-GGGGTATTTTAG
66 TATAGGGGTATTTCAG
* * * * *
60186856 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACTCTATGGGGGTATTTCGGTCATTTTACCA
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATATTACCA
60186921 TATAGGGGTATTTCAG
66 TATAGGGGTATTTCAG
*
60186937 TCATTTTACCCTATAGGGGTATTTCGATCATTTTAC
1 TCATTTTACCCTATAGGGGTATTTCGGTCATTTTAC
60186973 AAGTAAATAA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 61 0.58
81 44 0.42
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAGTCATATTACCA
TATAGGGGTATTTCAG
Found at i:60187988 original size:27 final size:26
Alignment explanation
Indices: 60187942--60188001 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60187932 GCGAGGCTGC
60187942 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGTCACCAGA-A
* * * *
60187969 TAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACAAAGTCACCAGAA
60187995 CAGATAT
1 CAGATAT
60188002 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACAAAGTCACCAGAA
Found at i:60188022 original size:31 final size:32
Alignment explanation
Indices: 60187963--60188024 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
60187953 ACAAAGTCAC
* * *
60187963 CAGATATAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
60187995 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
60188025 TTGCAGCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Done.