Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold977
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: 58602
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1645 original size:22 final size:22
Alignment explanation
Indices: 1620--1663 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1610 ATAAAGAATT
1620 ATTACAAAAGAAAAATA-ATAAC
1 ATTA-AAAAGAAAAATATATAAC
* *
1642 ATTAAAAATACAAATATATAAC
1 ATTAAAAAGAAAAATATATAAC
1664 TTGCAGTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (22 bp):
ATTAAAAAGAAAAATATATAAC
Found at i:2771 original size:13 final size:13
Alignment explanation
Indices: 2753--2778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2743 CAATTTTTTG
2753 TGTATCGATACAT
1 TGTATCGATACAT
2766 TGTATCGATACAT
1 TGTATCGATACAT
2779 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2863 original size:20 final size:20
Alignment explanation
Indices: 2838--2910 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2828 CAACTTTTTT
2838 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2858 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2879 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2899 ATGTATCGATAC
1 ATGTATCGATAC
2911 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2876 original size:41 final size:41
Alignment explanation
Indices: 2817--2910 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2807 CTGCCAAGAA
*
2817 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2858 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2899 ATGTATCGATAC
1 ATGTATCGATAC
2911 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2892 original size:21 final size:21
Alignment explanation
Indices: 2817--2892 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2807 CTGCCAAGAA
* *
2817 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2838 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2858 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2879 ATGTATCGATACAT
1 ATGTATCGATACAT
2893 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3600 original size:16 final size:16
Alignment explanation
Indices: 3560--3592 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3550 GTAACATCAT
*
3560 TTCTTGATAGCAATGC
1 TTCTTGGTAGCAATGC
3576 TTCTTGGTAGCAATGC
1 TTCTTGGTAGCAATGC
3592 T
1 T
3593 CTTTGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (16 bp):
TTCTTGGTAGCAATGC
Found at i:3804 original size:110 final size:110
Alignment explanation
Indices: 3608--3836 Score: 395
Period size: 110 Copynumber: 2.1 Consensus size: 110
3598 GTAATAAGAC
* * *
3608 TCTCTGGTGATGACATTCCTTGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAGAGCT
1 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
* * *
3673 TTAGTGCTCCTATACTCTAAAAATTTAGTGCTCTAATGTACTATT
66 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
3718 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
1 TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
*
3783 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTGCTATT
66 TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
3828 TCTCTAGTG
1 TCTCTAGTG
3837 CTTAAGTGCT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (110 bp):
TCTCTAGTGATGACATTCCTCGGCAAAAAAGCTCATCCATACATGCACAATAGCACTCTAAAGCT
TTAGTGCTCCTATACTATAAAAATTTAGTACTCCAATGTACTATT
Found at i:4342 original size:21 final size:20
Alignment explanation
Indices: 4277--4349 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
4267 TTCTACAATT
* *
4277 TGTATCAATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
4298 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
***
4318 TGTATCGATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
4339 TGTATCGATAC
1 TGTATCGATAC
4350 TAGACCCTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 23 0.50
21 23 0.50
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:8027 original size:33 final size:33
Alignment explanation
Indices: 7971--8036 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
7961 AAATTCCCAG
*
7971 ATGTATCGATACAAAGATCAATGTATCTATACA
1 ATGTATCGATACAAAGATCAATGTATCGATACA
**
8004 ATGTATCGATACATTGAAT-AATGTATCGATACA
1 ATGTATCGATACAAAG-ATCAATGTATCGATACA
8037 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGATCAATGTATCGATACA
Found at i:8952 original size:49 final size:48
Alignment explanation
Indices: 8886--9317 Score: 317
Period size: 49 Copynumber: 9.3 Consensus size: 48
8876 ATGTTAAAGA
* *
8886 TGCCAATATGCTAATTCAAGGCCAACGATATCGGACTTAAAGATATAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATA-AGG
* ***
8935 TGCCAATGTGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-AAGG
* ** * * * * *
8984 TGCCAATGTGCTGATTCAAGGATAACGACATTAGTCTT-AGGAACAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG-ATAAGG
* * * *
9032 TGCCAATATGCTGATTCAAGGCTAGCGATATTGG-------GCT--CG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGG
* * * * * * *
9071 TGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGG
* * *
9119 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-AAGG
* * * *
9168 TGCCAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-AAGG
* * * *
9217 TGCCAATATGTTGATTCAAGGCTAGCGATATTGGGC-T-----T---G
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGG
* * * * *
9256 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGG
9304 TGCCAATATGCTGA
1 TGCCAATATGCTGA
9318 GAGACTTTGG
Statistics
Matches: 306, Mismatches: 56, Indels: 43
0.76 0.14 0.11
Matches are distributed among these distances:
39 61 0.20
40 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
48 88 0.29
49 151 0.49
50 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAGG
Found at i:9129 original size:87 final size:87
Alignment explanation
Indices: 8983--9317 Score: 377
Period size: 87 Copynumber: 3.7 Consensus size: 87
8973 AAAGATGAAG
* *
8983 GTGCCAATGTGCTGATTCAAGGA-TAACGACATTAGTCTT-AGGAACAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAA-GACCAACGACATTAGTCTTAAAG-ACAAGGTGCCAATATGCTGA
*
9046 TTCAAGGCTAGCGATATTGGGCTC
64 TTCAAGGCTAGCGATATTGGGCTA
*
9070 GTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * *
9135 CAAGGCCAGCGATATCGGACTTAAAGATGAA
66 CAAGGCTAGCGATATTGG-------GCT--A
* * * * *
9166 GATGCCAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGTTGA
1 G-TGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGA
*
9231 TTCAAGGCTAGCGATATTGGGCTT
64 TTCAAGGCTAGCGATATTGGGCTA
** * * *
9255 GTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGA
9318 GAGACTTTGG
Statistics
Matches: 213, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
86 2 0.01
87 89 0.42
88 42 0.20
89 1 0.00
91 2 0.01
94 2 0.01
96 1 0.00
97 39 0.18
98 35 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGACCAACGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCTAGCGATATTGGGCTA
Found at i:9180 original size:136 final size:136
Alignment explanation
Indices: 8934--9201 Score: 322
Period size: 136 Copynumber: 2.0 Consensus size: 136
8924 AAAGATATAG
* * * *
8934 GTGCCAATGTGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 GTGCCAATGTGCTGATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
* * * * * * *
8999 TCAAGGATAACGACATTAGTCTTAGGAACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATT
66 TCAAGGACAACGACATCAGACTTAAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACATT
9064 GGGCTC
131 GGGCTC
* * **
9070 GTGCCAATGTGCTGATTCAAGACCAGCGACATTAGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
* * * * ** *
9134 TCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAACGACAT
66 TCAAGGACAACGACATCAGACTT-AAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACAT
9199 TGG
130 TGG
9202 TCTTAAAGAT
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
135 34 0.31
136 75 0.69
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (136 bp):
GTGCCAATGTGCTGATTCAAGACCAACGACATCAAACTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGACAACGACATCAGACTTAAGAACAAGATGCCAATATGCTGATTCAAGGCTAACGACATT
GGGCTC
Found at i:9243 original size:185 final size:184
Alignment explanation
Indices: 8921--9317 Score: 634
Period size: 185 Copynumber: 2.1 Consensus size: 184
8911 CGATATCGGA
* *
8921 CTTAAAGATATAGGTGCCAATGTGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGGTG
1 CTTAAAGATA-AGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATG
*
8986 CCAATGTGCTGATTCAAGGATAACGACATTAGTCTTAGGAACAAGGTGCCAATATGCTGATTCAA
65 CCAATGTGCTGATTCAAGGATAACGACATTAGTCTTAAGAACAAGGTGCCAATATGCTGATTCAA
9051 GGCTAGCGATATTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGT
130 GGCTAGCGATATTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGT
* * **
9106 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGATGC
1 CTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGC
* * *
9171 CAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGATA-AAGGTGCCAATATGTTGATTCA
66 CAATGTGCTGATTCAAGGATAACGACATTAGTCTT-AAGA-ACAAGGTGCCAATATGCTGATTCA
* ** *
9235 AGGCTAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGTCAGCGACATTGGT
129 AGGCTAGCGATATTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGT
9291 CTTAAAGATAAGGTGCCAATATGCTGA
1 CTTAAAGATAAGGTGCCAATATGCTGA
9318 GAGACTTTGG
Statistics
Matches: 195, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 83 0.43
185 111 0.57
186 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (184 bp):
CTTAAAGATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGC
CAATGTGCTGATTCAAGGATAACGACATTAGTCTTAAGAACAAGGTGCCAATATGCTGATTCAAG
GCTAGCGATATTGGGCTCGTGCCAATGTGCTGATTCAAGACCAGCGACATTAGT
Found at i:9677 original size:14 final size:14
Alignment explanation
Indices: 9658--9714 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
9648 TAGGGTAAAA
9658 AGTTGACTTTTTAT
1 AGTTGACTTTTTAT
*
9672 AGTTGATTTTTCTAT
1 AGTTGACTTTT-TAT
* *
9687 AATTGACTTTTGAT
1 AGTTGACTTTTTAT
* *
9701 TGTTGATTTTTTAT
1 AGTTGACTTTTTAT
9715 TTTCAATTCC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (14 bp):
AGTTGACTTTTTAT
Found at i:11135 original size:13 final size:13
Alignment explanation
Indices: 11117--11149 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
11107 GCTTTGTATT
11117 GATACATTATATC
1 GATACATTATATC
11130 GATACATTATATC
1 GATACATTATATC
11143 GATACAT
1 GATACAT
11150 GTTCATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (13 bp):
GATACATTATATC
Found at i:14407 original size:34 final size:34
Alignment explanation
Indices: 14326--15128 Score: 1020
Period size: 34 Copynumber: 23.8 Consensus size: 34
14316 CCTTTTCTAC
* * *
14326 AAAGCCCACAACTACGTGGCA-CTCTGTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTT
* * *
14360 -AAGTCCATAACTCCGTGACACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
14393 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
14427 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
14461 AAAGCCCACCACTCTGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
14495 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
14529 AAAGCCCACAACTCTGTGGCAGCTTTTTCTTTCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
14563 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
14597 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
14631 AAAGCCCACCACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
14665 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
14699 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
14733 AAAGCCCACCACTCCGTGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
14766 -AAGTCCACAACTCCGTGGCACCCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCA-CCTTTTTCTTTTT
*
14800 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
14834 AAAGCCCACCACTCCGTGGCACC-TTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* ** * * * *
14867 AAA-TCCATGACCCCGTGGCACCTTGTTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
14900 AAAGTCCACAACTCCGTGGCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
14931 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * * *
14967 AAAGTCCACAACCCCGTGGCACCTTGTTCCTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
15001 AAAGTCCACAACTCCGTGGCACC---TTCTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
15032 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTT
* * * * *
15068 AAAGTCCATAACCCCGTGGCACCTTGTTCGTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * * *
15102 -AAGTCCACAACTTCATGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTT
15129 AAGTCCACAA
Statistics
Matches: 680, Mismatches: 72, Indels: 35
0.86 0.09 0.04
Matches are distributed among these distances:
31 56 0.08
32 35 0.05
33 78 0.11
34 431 0.63
35 33 0.05
36 47 0.07
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:15263 original size:31 final size:31
Alignment explanation
Indices: 15170--15414 Score: 366
Period size: 32 Copynumber: 7.8 Consensus size: 31
15160 CTCAAAAGCC
* *
15170 CACAAGTCAGTGGCAA-CCTTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTAAAGCCCA
*
15200 CACAAGTCAGTGGCAACCCTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCT-AAAGCCCA
*
15232 CACAAGTCGGTGGCAACCCTTCTGAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTAAAGCCCA
*
15263 CACAAGTCGGTGGAAACCCTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTAAAGCCCA
* *
15294 CACAAGTTGGTGGCTACCCTTCTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTCT-AAAGCCCA
15326 CACAAGTCGGTGGCAACCCTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCT-TCTAAAGCCCA
* *
15358 CACAAGTTGGTGGCAATCCCCTCTAAAGCCCA
1 CACAAGTCGGTGGCAA-CCCTTCTAAAGCCCA
15390 CACAAGTCGGTGGCAACCCTTCTAA
1 CACAAGTCGGTGGCAACCCTTCTAA
15415 GTCCAATATC
Statistics
Matches: 196, Mismatches: 14, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
30 16 0.08
31 69 0.35
32 105 0.54
33 6 0.03
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (31 bp):
CACAAGTCGGTGGCAACCCTTCTAAAGCCCA
Found at i:15297 original size:94 final size:95
Alignment explanation
Indices: 15170--15412 Score: 373
Period size: 94 Copynumber: 2.6 Consensus size: 95
15160 CTCAAAAGCC
* * * *
15170 CACAAGTCAGTGGCAA-CCTTCAAAAGCCCACACAAGTCAGTGGCAACCCTTCTCAAAGCCCACA
1 CACAAGTCGGTGGAAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACA
*
15234 CAAGTCGGTGGCAACCCT-TCTGAAGCCCA
66 CAAGTCGGTGGCAACCCTCTCTAAAGCCCA
* *
15263 CACAAGTCGGTGGAAACCCTTCTAAAGCCCACACAAGTTGGTGGCTACCCTTCTCAAAGCCCACA
1 CACAAGTCGGTGGAAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACA
15328 CAAGTCGGTGGCAACCCTCTCTAAAGCCCA
66 CAAGTCGGTGGCAACCCTCTCTAAAGCCCA
* * *
15358 CACAAGTTGGTGGCAATCCCCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CACAAGTCGGTGG-AAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
15413 AAGTCCAATA
Statistics
Matches: 135, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
93 14 0.10
94 62 0.46
95 22 0.16
96 37 0.27
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (95 bp):
CACAAGTCGGTGGAAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACA
CAAGTCGGTGGCAACCCTCTCTAAAGCCCA
Found at i:15521 original size:43 final size:43
Alignment explanation
Indices: 15460--15867 Score: 537
Period size: 43 Copynumber: 9.1 Consensus size: 43
15450 ACCCTTATCT
*
15460 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
*
15503 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
*
15552 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
*
15595 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--C
*
15644 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* *
15687 TTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-----C
*
15736 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
*
15779 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
* * * *
15822 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
15865 TTT
1 TTT
15868 GTCACTTTTA
Statistics
Matches: 327, Mismatches: 20, Indels: 36
0.85 0.05 0.09
Matches are distributed among these distances:
43 202 0.62
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 119 0.36
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC
Found at i:15597 original size:92 final size:92
Alignment explanation
Indices: 15407--15970 Score: 809
Period size: 92 Copynumber: 6.0 Consensus size: 92
15397 CGGTGGCAAC
*
15407 CCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTT-ATCTTTTAAGTCCAA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATC-TTTAAGTCCAA
15471 TGTAGCTGGCCTTGAATCAGCACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
15501 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
15566 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
15593 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
15658 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
15685 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
15750 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
15777 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * *
15836 CGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCA
66 AGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * *
15872 CTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * *
15937 TATCGCTGGCCTTGAATCAGCATATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
15967 CCTT
1 CCTT
15971 CATCATCTTT
Statistics
Matches: 434, Mismatches: 17, Indels: 37
0.89 0.03 0.08
Matches are distributed among these distances:
86 34 0.08
89 1 0.00
92 267 0.62
93 41 0.09
94 5 0.01
95 46 0.11
96 1 0.00
101 1 0.00
102 1 0.00
104 37 0.09
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:15780 original size:21 final size:21
Alignment explanation
Indices: 15756--15823 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
15746 ATGTAGCTGG
15756 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
15777 CCTTTAAGTC--CA-ATATTGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
15799 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
15820 CCTT
1 CCTT
15824 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:15900 original size:52 final size:52
Alignment explanation
Indices: 15821--16010 Score: 274
Period size: 52 Copynumber: 3.6 Consensus size: 52
15811 ACATTGGCAC
*
15821 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTGTCA-
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
15872 CTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* **
15925 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
** * * *
15977 CTTTAAAACCCAATGTTGTTGGCCTTGAATCAGC
1 CTTT-AAGTCCAATATCGCTGGCCTTGAATCAGC
16011 GCATTGGCAT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.01
52 101 0.80
53 25 0.20
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:15901 original size:95 final size:96
Alignment explanation
Indices: 15779--16019 Score: 277
Period size: 104 Copynumber: 2.4 Consensus size: 96
15769 CATTGGCACC
15779 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
1 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
* **
15844 TTGAATCAGCATATTGGCGCCTTTGTCA-CT
66 TTGAATCAGCATATTGGCACCTTCATCATCT
* * *
15874 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATA
1 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATT---G-----G-CACCTTTAAGTCCAATA
*
15939 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCT
57 TCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCATCT
* ** * * *
15979 TTAAAACCCAATGTTGTTGGCCTTGAATCAGCGCATTGGCA
1 TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA
16020 TTCTTCTTTA
Statistics
Matches: 121, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
95 35 0.29
96 2 0.02
97 1 0.01
98 1 0.01
102 1 0.01
103 1 0.01
104 49 0.40
105 31 0.26
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (96 bp):
TTTAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCC
TTGAATCAGCATATTGGCACCTTCATCATCT
Found at i:16770 original size:32 final size:32
Alignment explanation
Indices: 16715--16815 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
16705 AATTTCAATT
16715 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
16748 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
16780 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
16812 TGTA
1 TGTA
16816 AGCTATTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 53 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:16772 original size:19 final size:18
Alignment explanation
Indices: 16713--16808 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 18
16703 TGAATTTCAA
16713 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
16732 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
16748 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
16764 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
16780 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
16796 TTTTGTATCGATA
1 -TTTGTATCGATA
16809 TAATGTAAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 22 0.34
20 12 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:16871 original size:13 final size:13
Alignment explanation
Indices: 16853--16877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16843 ACTACCTAAA
16853 TGTATCGATACAT
1 TGTATCGATACAT
16866 TGTATCGATACA
1 TGTATCGATACA
16878 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16901 original size:86 final size:85
Alignment explanation
Indices: 16767--16950 Score: 216
Period size: 86 Copynumber: 2.2 Consensus size: 85
16757 ACATAAGTGT
* *
16767 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATATAATGTAAGC-TA-TTGCCAAAA
1 TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATATAATGTAAGCAAATTTGCC--AA
16830 AATGTATCGATACACTACCT-AAA
64 AATGTATCGATACACTA--TAAAA
* * * *
16853 TGTATCGATACATTGTATCGATACACTGA-TCTTTGTATCGATA-CATGTAGGCAAATTTGCCCA
1 TGTATCGATACATTGTATCGATACA-TAAGT-TTTGTATCGATATAATGTAAGCAAATTTGCCAA
*
16916 GATGTATCGATACACTATAAAA
64 AATGTATCGATACACTATAAAA
16938 TGTATCGATACAT
1 TGTATCGATACAT
16951 GCAGGCAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
84 1 0.01
85 16 0.19
86 49 0.57
87 15 0.17
88 5 0.06
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (85 bp):
TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATATAATGTAAGCAAATTTGCCAAAA
TGTATCGATACACTATAAAA
Found at i:16929 original size:52 final size:50
Alignment explanation
Indices: 16866--17014 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 50
16856 ATCGATACAT
* *
16866 TGTATCGATACACTGATCTTTGTATCGATACATGTAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
16918 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
16970 TGTATCGATACACTATTAAATGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
17015 TCATATTTCG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:24956 original size:13 final size:13
Alignment explanation
Indices: 24938--24962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24928 ATTACTCAAA
24938 TGTATCGATACAT
1 TGTATCGATACAT
24951 TGTATCGATACA
1 TGTATCGATACA
24963 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25097 original size:52 final size:52
Alignment explanation
Indices: 24971--25099 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
24961 CACTGATCTT
* *
24971 TGTATCGATACATGCAGGTAAAGTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* **
25023 TGTATCGATACATACAAACAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
25075 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
25100 TCATATTTCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:30377 original size:19 final size:19
Alignment explanation
Indices: 30353--30436 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 19
30343 AAGCTCAGAA
30353 GTATCGATACATGTTAATT
1 GTATCGATACATGTTAATT
30372 GTATCGATAC--G----TT
1 GTATCGATACATGTTAATT
*
30385 GTATCGATACATGTTCATT
1 GTATCGATACATGTTAATT
* **
30404 GTATTGATACATGAAGAATT
1 GTATCGATACATG-TTAATT
30424 GTATCGATACATG
1 GTATCGATACATG
30437 AAACTGGTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 12 0.23
15 1 0.02
17 1 0.02
19 24 0.45
20 15 0.28
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (19 bp):
GTATCGATACATGTTAATT
Found at i:30388 original size:13 final size:13
Alignment explanation
Indices: 30370--30394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30360 TACATGTTAA
30370 TTGTATCGATACG
1 TTGTATCGATACG
30383 TTGTATCGATAC
1 TTGTATCGATAC
30395 ATGTTCATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:30394 original size:32 final size:32
Alignment explanation
Indices: 30353--30413 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
30343 AAGCTCAGAA
30353 GTATCGATACATGTTAATTGTATCGATACGTT
1 GTATCGATACATGTTAATTGTATCGATACGTT
* *
30385 GTATCGATACATGTTCATTGTATTGATAC
1 GTATCGATACATGTTAATTGTATCGATAC
30414 ATGAAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (32 bp):
GTATCGATACATGTTAATTGTATCGATACGTT
Found at i:30426 original size:20 final size:20
Alignment explanation
Indices: 30383--30438 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
30373 TATCGATACG
***
30383 TTGTATCGATACATG-TTCA
1 TTGTATCGATACATGAAGAA
*
30402 TTGTATTGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
30422 TTGTATCGATACATGAA
1 TTGTATCGATACATGAA
30439 ACTGGTAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:31409 original size:9 final size:9
Alignment explanation
Indices: 31395--31434 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
31385 CACACTTTTC
*
31395 ATTTTAGTT
1 ATTTTAGAT
31404 ATTTTAGAT
1 ATTTTAGAT
31413 ATTTTAGAT
1 ATTTTAGAT
*
31422 ATTCTAGAAT
1 ATTTTAG-AT
31432 ATT
1 ATT
31435 CATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (9 bp):
ATTTTAGAT
Found at i:32463 original size:14 final size:14
Alignment explanation
Indices: 32444--32471 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32434 TATGATTGAT
32444 TAGTTGCTAGTGAA
1 TAGTTGCTAGTGAA
32458 TAGTTGCTAGTGAA
1 TAGTTGCTAGTGAA
32472 CATAATAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TAGTTGCTAGTGAA
Found at i:35730 original size:21 final size:21
Alignment explanation
Indices: 35692--35754 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
35682 TGATATTCTT
* *
35692 GAAAAGAAATTAATTGAATTA
1 GAAAAGAAAATAAGTGAATTA
*
35713 GAAAAGAAAATGAGTGAATT-
1 GAAAAGAAAATAAGTGAATTA
*
35733 GCAAGAAGAGAATAA-TGAATTA
1 G-AA-AAGAAAATAAGTGAATTA
35755 ACTAAGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.21, T:0.22
Consensus pattern (21 bp):
GAAAAGAAAATAAGTGAATTA
Found at i:43422 original size:13 final size:13
Alignment explanation
Indices: 43403--43433 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43393 ACAATTCATC
43403 ATGTATCGATACA
1 ATGTATCGATACA
*
43416 TTGTATCGATACA
1 ATGTATCGATACA
43429 ATGTA
1 ATGTA
43434 CCATGTATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:43427 original size:33 final size:33
Alignment explanation
Indices: 43384--43448 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
43374 TTAGAAGCAA
* * *
43384 TGTATTGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCAATACAT
43417 TGTATCGATACAATGTACCATGTATCAATACA
1 TGTATCGATACAATGTACCATGTATCAATACA
43449 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCAATACAT
Found at i:43521 original size:19 final size:19
Alignment explanation
Indices: 43477--43548 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
43467 CTGCCAGTTT
**
43477 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
43497 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
43516 CATGTATCGAT-CAAAGCATA
1 CATGTATCGATACAATG-A-A
43536 -ATGTATCGATACA
1 CATGTATCGATACA
43549 TCTGGGTGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.09
19 24 0.52
20 18 0.39
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:44673 original size:18 final size:18
Alignment explanation
Indices: 44650--44694 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
44640 TTATAAATGT
*
44650 GGGGGAGAACCTTTTTAA
1 GGGGGAGAACCTTTTCAA
44668 GGGGGAGAACCTTTTCAA
1 GGGGGAGAACCTTTTCAA
*
44686 GGTGGAGAA
1 GGGGGAGAA
44695 ATAGAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.22
Consensus pattern (18 bp):
GGGGGAGAACCTTTTCAA
Found at i:45292 original size:21 final size:22
Alignment explanation
Indices: 45251--45292 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
45241 GACAAGTTTA
45251 AATGTTTTTCAAGTAAGAAATT
1 AATGTTTTTCAAGTAAGAAATT
45273 AATGTTTTTCAAGTAA-AAAT
1 AATGTTTTTCAAGTAAGAAAT
45293 GATTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
AATGTTTTTCAAGTAAGAAATT
Found at i:45431 original size:33 final size:33
Alignment explanation
Indices: 45389--45499 Score: 186
Period size: 33 Copynumber: 3.4 Consensus size: 33
45379 CACACCCAGA
45389 TGTATCAATACAAATTTCTAAGTATCGATACAT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
*
45422 TGTATCAATACAAATGTCTAAGTATCGATACAT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
* *
45455 TGTATCGATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTTCTAAGTATCGATACAT
*
45488 TGTATCGATACA
1 TGTATCAATACA
45500 TCAAGAATTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (33 bp):
TGTATCAATACAAATTTCTAAGTATCGATACAT
Found at i:45452 original size:20 final size:19
Alignment explanation
Indices: 45390--45486 Score: 65
Period size: 20 Copynumber: 5.6 Consensus size: 19
45380 ACACCCAGAT
*
45390 GTATCAATACAAATTTCTAA
1 GTATCGATACAAA-TTCTAA
45410 GTATCGATAC--A-T-T--
1 GTATCGATACAAATTCTAA
*
45423 GTATCAATACAAATGTCTAA
1 GTATCGATACAAAT-TCTAA
45443 GTATCGATAC--A-T-T--
1 GTATCGATACAAATTCTAA
45456 GTATCGATACAAATTGCTAA
1 GTATCGATACAAATT-CTAA
45476 GTATCGATACA
1 GTATCGATACA
45487 TTGTATCGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 28
0.66 0.03 0.31
Matches are distributed among these distances:
13 19 0.32
15 4 0.07
16 3 0.05
17 1 0.02
18 4 0.07
20 29 0.48
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
GTATCGATACAAATTCTAA
Found at i:45461 original size:13 final size:13
Alignment explanation
Indices: 45443--45500 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
45433 AAATGTCTAA
45443 GTATCGATACATT
1 GTATCGATACATT
45456 GTATCGATACAAATTGCT
1 GTATCGATAC--A-T--T
45474 AAGTATCGATACATT
1 --GTATCGATACATT
45489 GTATCGATACAT
1 GTATCGATACAT
45501 CAAGAATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.58
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 10 0.26
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:47364 original size:189 final size:189
Alignment explanation
Indices: 47044--47408 Score: 579
Period size: 189 Copynumber: 1.9 Consensus size: 189
47034 AACAATACAT
* * *
47044 TTTCTTGTGGATTAGACTCTCTACTAAGTATTGTGCAAGGAAAGATATAGGTCATATTTTAGAAT
1 TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGGTCATACTTTAGAAT
* * *
47109 ATTTTGGGTTATTAACTGGTCATGTGATTAACAATCTAGTTGGTCGACTAAAGCCTTTGGGGTTT
66 ATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTTT
*
47174 ATTGCTCTTGTTTTAGTGATTCGTCCGCATAAACATGAGCAATTTATTATGGATTAGAC
131 ATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTATTATGGATTAGAC
* * * **
47233 TTTCTTGTGGATTAGACTTTCTATTGAGTACTGTGTGAGAAAAGATATAGGTTC-TACTTTAGAA
1 TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGG-TCATACTTTAGAA
* *
47297 TATTTTGGGTTATTAACTGATCATATGATTAACAATCTATTTGGTCGGCTAAAGCCTTTAGGGTT
65 TATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTT
*
47362 TATTGCTCTTGTTTTGGTGATTCGTCCACATAAACATGAGCAATTTA
130 TATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTA
47409 GTCATTTGGA
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
189 158 0.99
190 2 0.01
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (189 bp):
TTTCTTGTGGATTAGACTCTCTACTAAGTACTGTGCAAGAAAAGATATAGGTCATACTTTAGAAT
ATTTTGGGTTATTAACTGATCATATGATTAACAATCTAGTTGGTCGACTAAAGCCTTTAGGGTTT
ATTGCTCTTGTTTTAGTGATTCGTCCACATAAACATGAGCAATTTATTATGGATTAGAC
Found at i:49823 original size:13 final size:13
Alignment explanation
Indices: 49805--49832 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49795 ATTACTCAAA
49805 TGTATCGATACAT
1 TGTATCGATACAT
49818 TGTATCGATACAT
1 TGTATCGATACAT
49831 TG
1 TG
49833 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49882 original size:52 final size:50
Alignment explanation
Indices: 49818--49968 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 50
49808 ATCGATACAT
*
49818 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTTCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTTCCCAGA
* *
49870 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTTCCCAGA
* *
49922 TGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTTTC
1 TGTATCGATACATTATT--ATGTATCGATACATGCAGGCAAATTTTC
49969 ATATTTCAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTTCCCAGA
Found at i:52118 original size:27 final size:27
Alignment explanation
Indices: 52088--52157 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
52078 TTTATTCATC
*
52088 GGGGACACTCCAACCCCATTCCTCCGT
1 GGGGACACTCCAACCCCATTCCTCCGA
52115 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
52142 GGGGACAC-CCAACCCC
1 GGGGACACTCCAACCCC
52158 GTTTTCAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.19
27 34 0.81
ACGTcount: A:0.21, C:0.46, G:0.20, T:0.13
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:56877 original size:9 final size:9
Alignment explanation
Indices: 56856--56905 Score: 63
Period size: 9 Copynumber: 6.0 Consensus size: 9
56846 AAGTGATGAA
56856 AAAAAAAAC
1 AAAAAAAAC
*
56865 -AAAACAA-
1 AAAAAAAAC
56872 AAAAAAAAC
1 AAAAAAAAC
56881 AAAAAAAAC
1 AAAAAAAAC
56890 --AAAAAAC
1 AAAAAAAAC
56897 AAAAAAAAC
1 AAAAAAAAC
56906 TGGAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
7 7 0.20
8 12 0.34
9 16 0.46
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:56905 original size:16 final size:15
Alignment explanation
Indices: 56854--56904 Score: 84
Period size: 16 Copynumber: 3.3 Consensus size: 15
56844 AAAAGTGATG
56854 AAAAAAAAAACAAAA
1 AAAAAAAAAACAAAA
56869 CAAAAAAAAAACAAAA
1 -AAAAAAAAAACAAAA
56885 AAAACAAAAAACAAAA
1 AAAA-AAAAAACAAAA
56901 AAAA
1 AAAA
56905 CTGGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.12
16 30 0.88
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAACAAAA
Found at i:56915 original size:1 final size:1
Alignment explanation
Indices: 56854--56904 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
56844 AAAAGTGATG
* * * * *
56854 AAAAAAAAAACAAAACAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
56905 CTGGAAAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:56917 original size:27 final size:25
Alignment explanation
Indices: 56856--56905 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
56846 AAGTGATGAA
56856 AAAAAAAACAAAACAAAAAAAAAAC
1 AAAAAAAACAAAACAAAAAAAAAAC
56881 AAAAAAAACAAAA-AACAAAAAAAAC
1 AAAAAAAACAAAACAA-AAAAAAAAC
56906 TGGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAAAACAAAACAAAAAAAAAAC
Found at i:57262 original size:14 final size:13
Alignment explanation
Indices: 57246--57301 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
57236 CTTACCTAAC
57246 AAAAACACAACAA
1 AAAAACACAACAA
*
57259 CAAAAACAAAGACAA
1 -AAAAACACA-ACAA
*
57274 AAAAACCCAAACAA
1 AAAAACAC-AACAA
*
57288 AAAAA-AAAACAA
1 AAAAACACAACAA
57300 AA
1 AA
57302 GAGGAAAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 7 0.20
14 23 0.66
15 5 0.14
ACGTcount: A:0.79, C:0.20, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAACACAACAA
Found at i:58139 original size:16 final size:17
Alignment explanation
Indices: 58114--58151 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
58104 TTGTGCTATA
* *
58114 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
58130 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
58147 ATCAT
1 ATCAT
58152 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:58277 original size:31 final size:31
Alignment explanation
Indices: 58240--58453 Score: 174
Period size: 31 Copynumber: 7.0 Consensus size: 31
58230 AATTCTTCAA
58240 ATCTCTT-TTCAAAGCCCACGACTCAGTGGC
1 ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
*
58270 AATCTCTTC-TCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
* *
58301 ATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
1 AT-CTCTTCTTCAAAGCCCACGACTCAGTGGC
* * *
58333 AT-T-TTGTCTCAAAGTCCACGACTCAATGGC
1 ATCTCTTCT-TCAAAGCCCACGACTCAGTGGC
* * * *
58363 ATTTTTTCTTCAAAGCCCACAACTCCGTGGC
1 ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
* * * *
58394 A-CCCTT-TT-AAAGCCCACAATTCCGTGGC
1 ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
* * * *
58422 AACCTTTTCTTC-AAGCCCACAACTCCGTGGC
1 -ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
58453 A
1 A
58454 CCTTGTTCCT
Statistics
Matches: 157, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
28 19 0.12
29 6 0.04
30 32 0.20
31 73 0.46
32 27 0.17
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (31 bp):
ATCTCTTCTTCAAAGCCCACGACTCAGTGGC
Found at i:58347 original size:30 final size:31
Alignment explanation
Indices: 58247--58394 Score: 185
Period size: 31 Copynumber: 4.8 Consensus size: 31
58237 CAAATCTCTT
* *
58247 TTCAAAGCCCACGACTCAGTGGCAATCTCTTC
1 TTCAAAGTCCACGACTCAGTGGC-ATCTTTTC
58279 -TCAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTCAAAGTCCACGACTCAGTGGCAT-CTTTTC
58310 TTCAAAGTCCACGACTCAGTGGCAT-TTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATCTTT-TC
* *
58341 -TCAAAGTCCACGACTCAATGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATCTTTTC
* * *
58371 TTCAAAGCCCACAACTCCGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
58395 CCCTTTTAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
30 30 0.29
31 50 0.48
32 24 0.23
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATCTTTTC
Found at i:58476 original size:33 final size:32
Alignment explanation
Indices: 58375--58594 Score: 160
Period size: 28 Copynumber: 7.0 Consensus size: 32
58365 TTTTTCTTCA
58375 AAGCCCACAACTCCGTGGCA-C----CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
* *
58402 AAAGCCCACAATTCCGTGGCAACCTTTT-C-TTC
1 -AAGCCCACAACTCCGTGGC-ACCTTTTCCTTTT
58434 AAGCCCACAACTCCGTGGCACCTTGTTCCTTTT
1 AAGCCCACAACTCCGTGGCACCTT-TTCCTTTT
* *
58467 AAGTCCACAACTCCGTGGGCACC---T--TTTA
1 AAGCCCACAACTCCGT-GGCACCTTTTCCTTTT
* * * *
58495 AAGCCCACAATTCCGTGGTAACCTTTTTCTTCTCA
1 AAGCCCACAACTCCGTGG-CACCTTTTCCTT-T-T
* *
58530 AAGCCCACCACTCCGTGGCA-CTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
*
58561 AAAGCCCACAACTCCGTTGCACTCTTTTTCCTTT
1 -AAGCCCACAACTCCGTGGCAC-C-TTTTCCTTT
58595 GCAAAGCC
Statistics
Matches: 152, Mismatches: 18, Indels: 37
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.01
28 38 0.25
29 1 0.01
30 7 0.05
31 21 0.14
32 22 0.14
33 27 0.18
34 9 0.06
35 25 0.16
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.30
Consensus pattern (32 bp):
AAGCCCACAACTCCGTGGCACCTTTTCCTTTT
Found at i:58482 original size:92 final size:95
Alignment explanation
Indices: 58339--58588 Score: 307
Period size: 92 Copynumber: 2.7 Consensus size: 95
58329 TGGCATTTTG
* * ** * * *
58339 TCTCAAAGTCCACGACTCAATGGCATTTTTTC-TTCAAAGCCCACAACTCCGTGGCACCCTTTTA
1 TCTCAAAGCCCACAACTCCGTGGCACTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTA
58403 AAGCCCACAATTCCGTGGCAACC-TTTTC-
66 AAGCCCACAATTCCGTGGCAACCTTTTTCT
*
58431 T-TC-AAGCCCACAACTCCGTGGCACCTTGTTCCTTTT-AAGTCCACAACTCCGTGGGCA-CCTT
1 TCTCAAAGCCCACAACTCCGTGGCA-CTT-TTCCTTTTAAAGCCCACAACTCCGT-GGCACCCTT
*
58492 TTAAAGCCCACAATTCCGTGGTAACCTTTTTCT
63 TTAAAGCCCACAATTCCGTGGCAACCTTTTTCT
* * * *
58525 TCTCAAAGCCCACCACTCCGTGGCACTTTTCTTTTTAAAGCCCACAACTCCGTTGCACTCTTTT
1 TCTCAAAGCCCACAACTCCGTGGCACTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTT
58589 TCCTTTGCAA
Statistics
Matches: 134, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
90 16 0.12
91 4 0.03
92 48 0.36
93 11 0.08
94 11 0.08
95 25 0.19
96 19 0.14
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.30
Consensus pattern (95 bp):
TCTCAAAGCCCACAACTCCGTGGCACTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTA
AAGCCCACAATTCCGTGGCAACCTTTTTCT
Found at i:58545 original size:35 final size:32
Alignment explanation
Indices: 58243--58577 Score: 111
Period size: 31 Copynumber: 10.8 Consensus size: 32
58233 TCTTCAAATC
* * * *
58243 TCTTTTCAAAGCCCACGACTCAGTGGCAA--TC
1 TCTTCTCAAAGCCCACAACTCCGTGG-AACTTT
* * * *
58274 TCTTCTCAAAGTCCACGACTCAGTGGCATCCTTT
1 TCTTCTCAAAGCCCACAACTCCGTGG-A-ACTTT
* * * *
58308 TC-T-TCAAAGTCCACGACTCAGTGGCA-TTT
1 TCTTCTCAAAGCCCACAACTCCGTGGAACTTT
* * * ** *
58337 T-GTCTCAAAGTCCACGACTCAATGGCA-TTT
1 TCTTCTCAAAGCCCACAACTCCGTGGAACTTT
*
58367 T-TTCTTCAAAGCCCACAACTCCGTGGCAC---
1 TCTTC-TCAAAGCCCACAACTCCGTGGAACTTT
* * *
58396 CCTT-TTAAAGCCCACAATTCCGTGGCAACCTTT
1 TCTTCTCAAAGCCCACAACTCCGTGG-AA-CTTT
*
58429 TC-T-TC-AAGCCCACAACTCCGTGGCACCTTGT
1 TCTTCTCAAAGCCCACAACTCCGTGG-AACTT-T
* * *
58460 TCCTT-T-TAAGTCCACAACTCCGTGGGCAC---
1 T-CTTCTCAAAGCCCACAACTCCGT-GGAACTTT
* *
58489 -CTT-TTAAAGCCCACAATTCCGTGGTAACCTTTT
1 TCTTCTCAAAGCCCACAACTCCGTGG-AA-C-TTT
* *
58522 TCTTCTCAAAGCCCACCACTCCGTGGCACTTT
1 TCTTCTCAAAGCCCACAACTCCGTGGAACTTT
* *
58554 TCTTTTTAAAGCCCACAACTCCGT
1 TCTTCTCAAAGCCCACAACTCCGT
58578 TGCACTCTTT
Statistics
Matches: 243, Mismatches: 34, Indels: 53
0.74 0.10 0.16
Matches are distributed among these distances:
27 6 0.02
28 34 0.14
29 7 0.03
30 34 0.14
31 66 0.27
32 48 0.20
33 21 0.09
34 9 0.04
35 18 0.07
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (32 bp):
TCTTCTCAAAGCCCACAACTCCGTGGAACTTT
Done.