Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 97 of 167
Found at i:32214130 original size:100 final size:100
Alignment explanation
Indices: 32213888--32214113 Score: 276
Period size: 100 Copynumber: 2.3 Consensus size: 100
32213878 GTGAGGTCAC
* * * * *
32213888 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACTAAGT
1 GTGTGTAGAAATAAGTGCAAGCAACTACGTATATAGGATTATTGGTCGCATGCGTAGTACTAAGT
* *
32213953 GCAGGCTACTATGCGTACCCGATAACTTTGATCAC
66 GCAGGCTACTATGCGTACCAGATAACTTTGATCAA
* * * * *
32213988 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCGGATTATTGGTCGCATGCGTAGTACTAAGT
1 GTGTGTAGAAATAAGTGCAAGCAACTACGTATATAGGATTATTGGTCGCATGCGTAGTACTAAGT
* *
32214053 GCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAA
66 GCAGGCTACTATGCGTACCAGATAACTTT-GAT-CAA
* *
32214090 GTGTG-A-AAATATGTGCAGGCAACT
1 GTGTGTAGAAATAAGTGCAAGCAACT
32214114 GAGTATTAGT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
100 105 0.91
101 3 0.03
102 7 0.06
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
GTGTGTAGAAATAAGTGCAAGCAACTACGTATATAGGATTATTGGTCGCATGCGTAGTACTAAGT
GCAGGCTACTATGCGTACCAGATAACTTTGATCAA
Found at i:32217022 original size:40 final size:38
Alignment explanation
Indices: 32216962--32217045 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 38
32216952 GTATATTTGT
* * **
32216962 TACTGATACTGTGATGGGCTAAGGCCCTAGTGCATACTGA
1 TACTAATACTGAGATGGGCTAAGGCCC-AACGC-TACTGA
*
32217002 TACTAATACTGAGTTGGGCTAAGGCCCAACGCTACTGA
1 TACTAATACTGAGATGGGCTAAGGCCCAACGCTACTGA
32217040 TACTAA
1 TACTAA
32217046 GCCCAAGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 12 0.31
39 3 0.08
40 24 0.62
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (38 bp):
TACTAATACTGAGATGGGCTAAGGCCCAACGCTACTGA
Found at i:32217663 original size:39 final size:39
Alignment explanation
Indices: 32217609--32217687 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
32217599 AATGTGCTGG
*
32217609 GCTCATCTATGTTTACTTGATATTCATATGAGATTATGT
1 GCTCATCTATGTTTACTTGATATTCATATAAGATTATGT
*
32217648 GCTCATCTATGTTTACTTGATATTCATATAAGATTCTGT
1 GCTCATCTATGTTTACTTGATATTCATATAAGATTATGT
32217687 G
1 G
32217688 ACTAACTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (39 bp):
GCTCATCTATGTTTACTTGATATTCATATAAGATTATGT
Found at i:32217674 original size:21 final size:21
Alignment explanation
Indices: 32217611--32217674 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
32217601 TGTGCTGGGC
32217611 TCATCTATGTTTACTTGATAT
1 TCATCTATGTTTACTTGATAT
* * **
32217632 TCATATGA-GATTA--TG-TGC
1 TCATCT-ATGTTTACTTGATAT
32217650 TCATCTATGTTTACTTGATAT
1 TCATCTATGTTTACTTGATAT
32217671 TCAT
1 TCAT
32217675 ATAAGATTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 2 0.07
20 2 0.07
21 14 0.47
22 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (21 bp):
TCATCTATGTTTACTTGATAT
Found at i:32219225 original size:22 final size:21
Alignment explanation
Indices: 32219200--32219250 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
32219190 TTTGTACTTA
*
32219200 AATTATTAACATAATGAATTTT
1 AATTATTAA-ATAATAAATTTT
*
32219222 AATTAATTTAATAATAAATTTT
1 AATT-ATTAAATAATAAATTTT
*
32219244 GATTATT
1 AATTATT
32219251 TTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (21 bp):
AATTATTAAATAATAAATTTT
Found at i:32221693 original size:93 final size:93
Alignment explanation
Indices: 32221581--32221751 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
32221571 GCCCATAAGT
* *
32221581 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32221646 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
32221674 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
32221739 CGAGTTCGGATGC
66 CGAGTTCGGATGC
32221752 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:32221748 original size:46 final size:46
Alignment explanation
Indices: 32221573--32221748 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
32221563 TGTAACCCGC
* * *
32221573 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
32221619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
32221669 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
32221712 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
32221749 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:32225775 original size:39 final size:40
Alignment explanation
Indices: 32225691--32225775 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
32225681 ACTTAATTCA
* * *
32225691 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
32225731 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
32225770 TCAGCA
1 CCAGCA
32225776 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:32225900 original size:45 final size:46
Alignment explanation
Indices: 32225846--32225954 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
32225836 TGCACACTTT
* *
32225846 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
32225892 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
32225939 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
32225955 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:32228319 original size:4 final size:4
Alignment explanation
Indices: 32228310--32228342 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
32228300 ACTTTTTCCC
32228310 TTAT TTAT TTAT TTAT TTAT TTAT TTAT GTTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT
32228343 ATAATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:32228565 original size:22 final size:20
Alignment explanation
Indices: 32228525--32228565 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
32228515 AGTCCTATTA
*
32228525 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
32228545 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
32228566 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:32239999 original size:16 final size:17
Alignment explanation
Indices: 32239968--32240000 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32239958 TTAATTAATT
32239968 AAATGATTTGTCAAATA
1 AAATGATTTGTCAAATA
*
32239985 AAATGTTTTGT-AAATA
1 AAATGATTTGTCAAATA
32240001 TGGAGAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATGATTTGTCAAATA
Found at i:32247197 original size:20 final size:20
Alignment explanation
Indices: 32247168--32247212 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32247158 AGCACATGTA
* *
32247168 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
32247188 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
32247208 TTCAT
1 TTCAT
32247213 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:32250034 original size:25 final size:26
Alignment explanation
Indices: 32249989--32250043 Score: 78
Period size: 25 Copynumber: 2.1 Consensus size: 26
32249979 CGTCACTTCC
32249989 AAAAATAAAATAAAAACAATC-AAAT
1 AAAAATAAAATAAAAACAATCAAAAT
32250014 AAAAATAAAATAAAATA-AATCTAAAAT
1 AAAAATAAAATAAAA-ACAATC-AAAAT
32250041 AAA
1 AAA
32250044 TAAGTTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 19 0.70
26 1 0.04
27 7 0.26
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (26 bp):
AAAAATAAAATAAAAACAATCAAAAT
Found at i:32250061 original size:5 final size:5
Alignment explanation
Indices: 32249990--32250043 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
32249980 GTCACTTCCA
* * *
32249990 AAAAT AAAAT AAAA- ACAAT CAAAT AAAAAT AAAAT AAAAT AAATCT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAA-AT AAAAT
32250041 AAA
1 AAA
32250044 TAAGTTACCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 29 0.73
6 8 0.20
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:32254120 original size:34 final size:34
Alignment explanation
Indices: 32254077--32254144 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32254067 GGTTTGTACA
32254077 TATGTATGAATGTGTGGAATCATGATTAATCTAT
1 TATGTATGAATGTGTGGAATCATGATTAATCTAT
32254111 TATGTATGAATGTGTGGAATCATGATTAATCTAT
1 TATGTATGAATGTGTGGAATCATGATTAATCTAT
32254145 ACAGTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (34 bp):
TATGTATGAATGTGTGGAATCATGATTAATCTAT
Found at i:32255880 original size:22 final size:22
Alignment explanation
Indices: 32255852--32255904 Score: 83
Period size: 20 Copynumber: 2.5 Consensus size: 22
32255842 CAGGGTTTAC
32255852 ACGCCCGTGTGGTCCAAGAGAA
1 ACGCCCGTGTGGTCCAAGAGAA
*
32255874 ACGCCC--GTGGTCCAAGGGAA
1 ACGCCCGTGTGGTCCAAGAGAA
32255894 ACGCCCGTGTG
1 ACGCCCGTGTG
32255905 ACCCTAGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 19 0.68
22 9 0.32
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.13
Consensus pattern (22 bp):
ACGCCCGTGTGGTCCAAGAGAA
Found at i:32256872 original size:17 final size:17
Alignment explanation
Indices: 32256850--32256886 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
32256840 AACATGTTAG
32256850 TCACCAAAATCTTCATA
1 TCACCAAAATCTTCATA
32256867 TCACCAAAATCTTCATA
1 TCACCAAAATCTTCATA
32256884 TCA
1 TCA
32256887 ATCAAGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (17 bp):
TCACCAAAATCTTCATA
Found at i:32256956 original size:19 final size:19
Alignment explanation
Indices: 32256932--32256968 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32256922 CTTTCAAGTC
*
32256932 ATTTTCATTTCATCTCAAG
1 ATTTTCATGTCATCTCAAG
*
32256951 ATTTTCATGTCATGTCAA
1 ATTTTCATGTCATCTCAA
32256969 AGGTTTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTTTCATGTCATCTCAAG
Found at i:32257855 original size:20 final size:20
Alignment explanation
Indices: 32257813--32257857 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32257803 AGAAAATATA
**
32257813 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAACAT
* *
32257833 TTCATCAAATTTTATAACAT
1 TTCATAAAATTTTAGAACAT
32257853 TTCAT
1 TTCAT
32257858 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAGAACAT
Found at i:32260717 original size:5 final size:5
Alignment explanation
Indices: 32260709--32260752 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
32260699 AAGAATTAAG
*
32260709 TATAT TATAT TATAT TATAC TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
32260753 ATAAAAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:32260831 original size:21 final size:22
Alignment explanation
Indices: 32260769--32260832 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 22
32260759 ACAAATAAAT
*
32260769 AAAAAAAGATAAAGAACAAAGAAC
1 AAAAAAAGA-AAGGAA-AAAGAAC
*
32260793 AAACGAAACAGAAGGGAAAAAGAA-
1 AAA--AAA-AGAAAGGAAAAAGAAC
32260817 AAAAAAAGAAAGGAAA
1 AAAAAAAGAAAGGAAA
32260833 GGAGAAAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
21 9 0.26
22 3 0.09
24 6 0.18
25 6 0.18
26 7 0.21
27 3 0.09
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (22 bp):
AAAAAAAGAAAGGAAAAAGAAC
Found at i:32261527 original size:24 final size:24
Alignment explanation
Indices: 32261500--32261546 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
32261490 ATGGAAATGG
32261500 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
32261524 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
32261547 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:32261757 original size:40 final size:37
Alignment explanation
Indices: 32261705--32261835 Score: 113
Period size: 40 Copynumber: 3.4 Consensus size: 37
32261695 GACTTCGAGT
*
32261705 CGAT-AGGACACTGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGG-CACTGGTGTCAA-TTA-TACTTCGGATT-ATC
* * *
32261745 CGATGAGGCACTGGGTGCCAATT-TACTTCGGTTTAGC
1 CGATGAGGCACT-GGTGTCAATTATACTTCGGATTATC
* **
32261782 CGATGAGACACTGAGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGGCACTG-GTGTC-AATTA-TACTTCGGATTATC
32261822 CGATGAGGCACTGG
1 CGATGAGGCACTGG
32261836 GTGCCAAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
36 1 0.01
37 16 0.22
38 14 0.19
39 1 0.01
40 32 0.43
41 10 0.14
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (37 bp):
CGATGAGGCACTGGTGTCAATTATACTTCGGATTATC
Found at i:32261844 original size:40 final size:39
Alignment explanation
Indices: 32261745--32261844 Score: 114
Period size: 40 Copynumber: 2.6 Consensus size: 39
32261735 CGGATTAATT
***
32261745 CGATGAGGCACTGGGTGCC-AA-TTTACTTCGGTTTAGC
1 CGATGAGGCACTGGGTGCCAAATTTTACTTCAAATTAGC
* * * *
32261782 CGATGAGACACTGAGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGGCACTGGGTGCCAAATT-TTACTTCAAATTAGC
32261822 CGATGAGGCACTGGGTGCCAAAT
1 CGATGAGGCACTGGGTGCCAAAT
32261845 AGGTGTGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 16 0.32
38 2 0.04
39 1 0.02
40 31 0.62
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAAATTTTACTTCAAATTAGC
Found at i:32265767 original size:17 final size:17
Alignment explanation
Indices: 32265745--32265777 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32265735 ATCCTAACCT
*
32265745 TTTCTCTTTTCTTTCTC
1 TTTCTCTTTTATTTCTC
32265762 TTTCTCTTTTATTTCT
1 TTTCTCTTTTATTTCT
32265778 TTCCTTCTCT
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:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTCTTTTATTTCTC
Found at i:32265836 original size:25 final size:24
Alignment explanation
Indices: 32265808--32265854 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
32265798 TGCTTTGGCT
32265808 TTCTTT-TTCTATTTCTATTTATTTA
1 TTCTTTCTT-TATTTCT-TTTATTTA
*
32265833 TTCTTTCTTTATTTGTTTTATT
1 TTCTTTCTTTATTTCTTTTATT
32265855 ATATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (24 bp):
TTCTTTCTTTATTTCTTTTATTTA
Found at i:32268302 original size:26 final size:26
Alignment explanation
Indices: 32268273--32268339 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 26
32268263 AATATTTAAG
32268273 TATTTATATTTAGTCA-TATAATAAAT
1 TATTTATATTTA-TCATTATAATAAAT
* *
32268299 TATTAATATGATTTATTATTTTAATAAAT
1 TATT--TAT-ATTTATCATTATAATAAAT
32268328 TATTTAATATTT
1 TATTT-ATATTT
32268340 CAATTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 4 0.12
27 5 0.15
28 7 0.21
29 18 0.53
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (26 bp):
TATTTATATTTATCATTATAATAAAT
Found at i:32268312 original size:29 final size:30
Alignment explanation
Indices: 32268280--32268337 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
32268270 AAGTATTTAT
32268280 ATTTAGTCA-TATAATAAATTA-TTAATATG
1 ATTTA-TCATTATAATAAATTATTTAATATG
* *
32268309 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
32268338 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATG
Found at i:32268379 original size:15 final size:17
Alignment explanation
Indices: 32268351--32268387 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
32268341 AATTTTATTT
32268351 TAATAATGAATTTTAAA
1 TAATAATGAATTTTAAA
32268368 -AATAAT-AATTTTAAA
1 TAATAATGAATTTTAAA
32268383 TAATA
1 TAATA
32268388 TTCTTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TAATAATGAATTTTAAA
Found at i:32268449 original size:19 final size:20
Alignment explanation
Indices: 32268407--32268458 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
32268397 TATGATTGAA
* *
32268407 AATATTAAATATTAATATTTT
1 AATAATAAATATT-ATATTAT
32268428 AATAATAAATATT-TATTAT
1 AATAATAAATATTATATTAT
*
32268447 AATTATAAATAT
1 AATAATAAATAT
32268459 AATAACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
21 12 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATAATAAATATTATATTAT
Found at i:32271800 original size:9 final size:9
Alignment explanation
Indices: 32271784--32271835 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
32271774 GGTATTTTTC
32271784 GGTAATTCG
1 GGTAATTCG
*
32271793 GTTAATTCG
1 GGTAATTCG
*
32271802 GTTAATTCG
1 GGTAATTCG
32271811 GGTAATTCG
1 GGTAATTCG
32271820 GGTAATTCG
1 GGTAATTCG
32271829 GGTAATT
1 GGTAATT
32271836 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:32271985 original size:12 final size:12
Alignment explanation
Indices: 32271968--32271992 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32271958 AGTAATTTCG
32271968 GGTCGGTTAACC
1 GGTCGGTTAACC
32271980 GGTCGGTTAACC
1 GGTCGGTTAACC
32271992 G
1 G
32271993 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:32272030 original size:13 final size:13
Alignment explanation
Indices: 32272014--32272038 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32272004 TTAATCTCAA
32272014 CCCCAACCCCAAC
1 CCCCAACCCCAAC
32272027 CCCCAACCCCAA
1 CCCCAACCCCAA
32272039 TCATTTTCCA
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:0.68, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCAACCCCAAC
Found at i:32278290 original size:11 final size:12
Alignment explanation
Indices: 32278260--32278292 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
32278250 AACTATCTAA
32278260 ATAATAAAATTT
1 ATAATAAAATTT
32278272 CATAATAAAATTT
1 -ATAATAAAATTT
32278285 -TAATAAAA
1 ATAATAAAA
32278293 CATTAATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
13 12 0.60
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATAAAATTT
Found at i:32280591 original size:15 final size:15
Alignment explanation
Indices: 32280568--32280602 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
32280558 TATTCCTAAG
32280568 GAAAGGAAAGGAAAT
1 GAAAGGAAAGGAAAT
*
32280583 GAAATGAAAGGAAAT
1 GAAAGGAAAGGAAAT
32280598 GAAAG
1 GAAAG
32280603 TAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (15 bp):
GAAAGGAAAGGAAAT
Found at i:32286019 original size:186 final size:186
Alignment explanation
Indices: 32285728--32286099 Score: 744
Period size: 186 Copynumber: 2.0 Consensus size: 186
32285718 ATTAGAGCTA
32285728 AAGAGCTCCAAATTAAGATCCGTAAATTTCTTTTGAAACTAGACTCACATATATTTCCACCATAA
1 AAGAGCTCCAAATTAAGATCCGTAAATTTCTTTTGAAACTAGACTCACATATATTTCCACCATAA
32285793 AATTTTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAACTTACCCTGTTTCAT
66 AATTTTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAACTTACCCTGTTTCAT
32285858 ATTCTGATAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAAAAC
131 ATTCTGATAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAAAAC
32285914 AAGAGCTCCAAATTAAGATCCGTAAATTTCTTTTGAAACTAGACTCACATATATTTCCACCATAA
1 AAGAGCTCCAAATTAAGATCCGTAAATTTCTTTTGAAACTAGACTCACATATATTTCCACCATAA
32285979 AATTTTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAACTTACCCTGTTTCAT
66 AATTTTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAACTTACCCTGTTTCAT
32286044 ATTCTGATAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAAAAC
131 ATTCTGATAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAAAAC
32286100 TCAGATAATG
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (186 bp):
AAGAGCTCCAAATTAAGATCCGTAAATTTCTTTTGAAACTAGACTCACATATATTTCCACCATAA
AATTTTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAACTTACCCTGTTTCAT
ATTCTGATAGTTCTGACCTCTCTTCACTAAAAATTAATTATCTCACAGTACAAAAC
Found at i:32286410 original size:168 final size:168
Alignment explanation
Indices: 32286132--32286467 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
32286122 TATCTTGAAA
32286132 CTATACTCATTAGGAATTTTAAAAATATAAGTTTAATCCTCTAATTATTTTTATCCAAATTTTTG
1 CTATACTCATTAGGAATTTTAAAAATATAAGTTTAATCCTCTAATTATTTTTATCCAAATTTTTG
32286197 TGATTTTCCAAAGTCAGAACAGGGGTCACGTAATCATTTTGAACCATTCTCACAAAAACATAAAT
66 TGATTTTCCAAAGTCAGAACAGGGGTCACGTAATCATTTTGAACCATTCTCACAAAAACATAAAT
32286262 ATCTCAAAATATAGAACTCCTTTTCTTGCTATGTTTCT
131 ATCTCAAAATATAGAACTCCTTTTCTTGCTATGTTTCT
32286300 CTATACTCATTAGGAATTTTAAAAATATAAGTTTAATCCTCTAATTATTTTTATCCAAATTTTTG
1 CTATACTCATTAGGAATTTTAAAAATATAAGTTTAATCCTCTAATTATTTTTATCCAAATTTTTG
32286365 TGATTTTCCAAAGTCAGAACAGGGGTCACGTAATCATTTTGAACCATTCTCACAAAAACATAAAT
66 TGATTTTCCAAAGTCAGAACAGGGGTCACGTAATCATTTTGAACCATTCTCACAAAAACATAAAT
32286430 ATCTCAAAATATAGAACTCCTTTTCTTGCTATGTTTCT
131 ATCTCAAAATATAGAACTCCTTTTCTTGCTATGTTTCT
32286468 TTTATATGAA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (168 bp):
CTATACTCATTAGGAATTTTAAAAATATAAGTTTAATCCTCTAATTATTTTTATCCAAATTTTTG
TGATTTTCCAAAGTCAGAACAGGGGTCACGTAATCATTTTGAACCATTCTCACAAAAACATAAAT
ATCTCAAAATATAGAACTCCTTTTCTTGCTATGTTTCT
Found at i:32287584 original size:30 final size:30
Alignment explanation
Indices: 32287550--32287610 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32287540 TCCTTAACTC
32287550 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
32287580 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
32287610 A
1 A
32287611 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:32306010 original size:18 final size:19
Alignment explanation
Indices: 32305987--32306024 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32305977 GTGGATGCAC
32305987 AAACCAAGAAC-AC-CCAAA
1 AAACCAA-AACTACGCCAAA
32306005 AAACCAAAACTACGCCAAA
1 AAACCAAAACTACGCCAAA
32306024 A
1 A
32306025 TGAGCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 9 0.50
19 6 0.33
ACGTcount: A:0.61, C:0.32, G:0.05, T:0.03
Consensus pattern (19 bp):
AAACCAAAACTACGCCAAA
Found at i:32312569 original size:47 final size:46
Alignment explanation
Indices: 32312513--32312779 Score: 217
Period size: 47 Copynumber: 5.7 Consensus size: 46
32312503 TGGGCAAGGT
*
32312513 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATATCAA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTCATATCTCAA
* * *
32312560 GTCGATGCCATGTCCCAGACATGGTCTTACATTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTCAT-ATCTC-AA
* * * * * * ** *
32312608 GCTGAT-TCATGTCCCACACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGACTCATATCTC-AA
32312654 GCCGATG-CATGTCCCAGACATGTCTTACACT-AGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGA-CTCAT-ATCTCAA
* * * *
32312699 TGCCGATGCCATGTCTCAGACATGGTCTTACACTGGTTCTCATAATGT--G
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACT-G-ACTCAT-ATCTCAA
32312748 GCCGATG-CATGTCCCAGACATGTCTTACACTG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTG
32312780 GTTCTCATAA
Statistics
Matches: 180, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.01
46 70 0.39
47 79 0.44
48 22 0.12
50 3 0.02
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTCATATCTCAA
Found at i:32312773 original size:140 final size:141
Alignment explanation
Indices: 32312513--32312776 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 141
32312503 TGGGCAAGGT
*
32312513 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATATCAAGTCGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATATCAAGCCGATGCCATGTCCCAG
* * * *
32312578 ACATGGTCTTACATTGACTATCATCTCGTAGCTGATTCATGTCCCACACATGTCTTACATTGGCT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCACACATGTCTTACATTGGCT
32312643 TACGTCTCGAG
131 TACGTCTCGAG
* *
32312654 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTC-TCATCTCAATGCCGATGCCATGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCAT-ATATCAA-GCCGATGCCATGTCC
** * * *
32312715 CAGACATGGTCTTACACTGGTTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACA
63 CAGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCACACATGTCTTACA
32312777 CTGGTTCTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 78 0.73
141 8 0.07
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATATCAAGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCACACATGTCTTACATTGGCT
TACGTCTCGAG
Found at i:32313188 original size:9 final size:9
Alignment explanation
Indices: 32313174--32313198 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32313164 TGGGTTGAAT
32313174 TGAATTTTG
1 TGAATTTTG
32313183 TGAATTTTG
1 TGAATTTTG
32313192 TGAATTT
1 TGAATTT
32313199 ATGAAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TGAATTTTG
Found at i:32317191 original size:27 final size:26
Alignment explanation
Indices: 32317152--32317211 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
32317142 CCACATATAT
* * *
32317152 ATATCCGTTCTGGTGGCGTAGCCACA
1 ATATCTGTTCTGGTGACATAGCCACA
* *
32317178 ATATCTGTATCTGGTGACATCGTCACA
1 ATATCTGT-TCTGGTGACATAGCCACA
32317205 ATATCTG
1 ATATCTG
32317212 GCAGCCTCGC
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:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACATAGCCACA
Found at i:32320739 original size:68 final size:68
Alignment explanation
Indices: 32320592--32320747 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
32320582 AGCCGATTTG
* * * * *
32320592 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
32320657 TATC
65 TATA
* *
32320661 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
32320723 ATATAGTA
62 ATATA-TA
32320731 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
32320748 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:32337688 original size:83 final size:83
Alignment explanation
Indices: 32337549--32337896 Score: 687
Period size: 83 Copynumber: 4.2 Consensus size: 83
32337539 TAAGAAGGAT
*
32337549 ACCCAGCATTGTTTCTTCCTTTCTCTGTACAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
32337614 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
32337632 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
32337697 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
32337715 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
32337780 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
32337798 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
1 ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
32337863 TGTTGCTTCTCTGTACAA
66 TGTTGCTTCTCTGTACAA
32337881 ACCCAGCATTGTTTCT
1 ACCCAGCATTGTTTCT
32337897 CCCTCTTTCC
Statistics
Matches: 264, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 264 1.00
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.42
Consensus pattern (83 bp):
ACCCAGCATTGTTTCTTCCTTTCTCTGTATAAAGCCCAGGGTTGAATGCTTCTCATTCTTCTTTG
TGTTGCTTCTCTGTACAA
Found at i:32340281 original size:19 final size:20
Alignment explanation
Indices: 32340238--32340281 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
32340228 TCCGAGTTCA
32340238 ATTTTTATTTTATTTAAGCT
1 ATTTTTATTTTATTTAAGCT
* * *
32340258 CTTTTTATTTTTTTTCA-CT
1 ATTTTTATTTTATTTAAGCT
32340277 ATTTT
1 ATTTT
32340282 CACTCACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTTATTTAAGCT
Found at i:32352070 original size:79 final size:81
Alignment explanation
Indices: 32351968--32352152 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
32351958 GCTCCTCGTT
* *
32351968 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
32352031 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
32352048 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
32352112 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
32352128 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32352153 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:32352152 original size:40 final size:40
Alignment explanation
Indices: 32351968--32352152 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
32351958 GCTCCTCGTT
* *
32351968 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
32352008 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
32352048 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
32352087 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
32352128 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32352153 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:32353815 original size:31 final size:31
Alignment explanation
Indices: 32353780--32353841 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
32353770 AGAAAACCTA
32353780 AACTAAAAATGAAAAGAAGAAGAAAAAAAAT
1 AACTAAAAATGAAAAGAAGAAGAAAAAAAAT
32353811 AACTAAAAATGAAAAGAAGAAGAAAAAAAAT
1 AACTAAAAATGAAAAGAAGAAGAAAAAAAAT
32353842 CTAACCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (31 bp):
AACTAAAAATGAAAAGAAGAAGAAAAAAAAT
Found at i:32357596 original size:19 final size:20
Alignment explanation
Indices: 32357572--32357613 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32357562 CATAAATTTA
32357572 TTTTTCAGGT-CATTTTCAT
1 TTTTTCAGGTCCATTTTCAT
**
32357591 TTTTTCATTTCCATTTTCAT
1 TTTTTCAGGTCCATTTTCAT
32357611 TTT
1 TTT
32357614 GGAGAAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTTCAGGTCCATTTTCAT
Found at i:32357646 original size:57 final size:56
Alignment explanation
Indices: 32357585--32357715 Score: 163
Period size: 57 Copynumber: 2.3 Consensus size: 56
32357575 TTCAGGTCAT
* * * * *
32357585 TTTCATTTTTTCATTTCCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATG
1 TTTCATTTCTCCATTTCCAATTCCATTTTGGAGAAAACCACAATCATTTCCAAATG
* **
32357641 ATTTCATTTCTCCATTTTCAATTCCATTTTGGAGAAAACCTTAATCATTTCCAAATG
1 -TTTCATTTCTCCATTTCCAATTCCATTTTGGAGAAAACCACAATCATTTCCAAATG
32357698 TTTCCTATTTCTCCATTT
1 TTT-C-ATTTCTCCATTT
32357716 AACCATTTCT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 3 0.05
57 49 0.77
58 12 0.19
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (56 bp):
TTTCATTTCTCCATTTCCAATTCCATTTTGGAGAAAACCACAATCATTTCCAAATG
Found at i:32360196 original size:16 final size:16
Alignment explanation
Indices: 32360151--32360197 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
32360141 ATCGGCAAAA
* *
32360151 GCCGAAATGCCAAAAT
1 GCCGAAAAGCCGAAAT
**
32360167 GCCGAAAAATCGAAAT
1 GCCGAAAAGCCGAAAT
32360183 GCCGAAAAGCCGAAA
1 GCCGAAAAGCCGAAA
32360198 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:32360463 original size:29 final size:29
Alignment explanation
Indices: 32360421--32360492 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
32360411 TGAATATGAC
* * *
32360421 TGGGCTTAACGGGCCATACAAATGTGATT
1 TGGGCCTAATGGGCCATACAAAGGTGATT
* *
32360450 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATACAAAGGTGATT
32360479 TGGGCCTAATGGGC
1 TGGGCCTAATGGGC
32360493 TTGGGCTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATACAAAGGTGATT
Found at i:32360498 original size:15 final size:15
Alignment explanation
Indices: 32360478--32360507 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32360468 TACAGGTGAT
32360478 TTGGGCCTAATGGGC
1 TTGGGCCTAATGGGC
*
32360493 TTGGGCTTAATGGGC
1 TTGGGCCTAATGGGC
32360508 CAGATACAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.30
Consensus pattern (15 bp):
TTGGGCCTAATGGGC
Found at i:32361611 original size:17 final size:18
Alignment explanation
Indices: 32361578--32361611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32361568 TTTTAAGAAG
*
32361578 GGTTTTCAATGAAAACAA
1 GGTTTTAAATGAAAACAA
32361596 GGTTTTAAAT-AAAACA
1 GGTTTTAAATGAAAACA
32361612 CTTCAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (18 bp):
GGTTTTAAATGAAAACAA
Found at i:32369135 original size:43 final size:43
Alignment explanation
Indices: 32369060--32369230 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
32369050 TCTAAACTCA
* **
32369060 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
32369102 TTCACCGGCATTATAGCCTACTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
32369145 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T
* * * *
32369189 ATTCACCAGC-TTAAAGCTTGCTAGG-CCGAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
32369231 CATTTCGATA
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
42 12 0.11
43 73 0.66
44 19 0.17
45 7 0.06
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:32383605 original size:40 final size:40
Alignment explanation
Indices: 32383556--32383642 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
32383546 GTGTTGTACA
* * *
32383556 TAGCTGAAGCTAT-CTCAAATCGCACACTAAGTGCCAAATT
1 TAGCCGAAGCTATAC-CAAACCGCACACTAAGTACCAAATT
* * *
32383596 TAGCCGAAGCTATACCGAACCGCACACTCAGTACCATATT
1 TAGCCGAAGCTATACCAAACCGCACACTAAGTACCAAATT
32383636 TAGCCGA
1 TAGCCGA
32383643 TATGTCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
TAGCCGAAGCTATACCAAACCGCACACTAAGTACCAAATT
Found at i:32403311 original size:21 final size:22
Alignment explanation
Indices: 32403278--32403320 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
32403268 AATTGAAAGC
*
32403278 AAAAGGAATTTTGAGGATAAAA
1 AAAAGGAATTTTGAGGACAAAA
*
32403300 AAAATGAA-TTTGAGGACAAAA
1 AAAAGGAATTTTGAGGACAAAA
32403321 TGGGCCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAAGGAATTTTGAGGACAAAA
Found at i:32411146 original size:8 final size:8
Alignment explanation
Indices: 32411135--32411185 Score: 75
Period size: 8 Copynumber: 6.4 Consensus size: 8
32411125 ATTTTTATTA
32411135 TATTATAT
1 TATTATAT
32411143 TATTATAT
1 TATTATAT
*
32411151 TAATATAT
1 TATTATAT
32411159 TATTATAT
1 TATTATAT
*
32411167 TAATATAT
1 TATTATAT
*
32411175 TATTACAT
1 TATTATAT
32411183 TAT
1 TAT
32411186 ATACTTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATAT
Found at i:32411147 original size:13 final size:13
Alignment explanation
Indices: 32411129--32411177 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
32411119 ATTTTAATTT
32411129 TTATTATATTATA
1 TTATTATATTATA
32411142 TTATTATATTA-A
1 TTATTATATTATA
32411154 -TA-TATTATTATA
1 TTATTA-TATTATA
*
32411166 TTAATATATTAT
1 TTATTATATTAT
32411178 TACATTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.06
11 7 0.22
12 2 0.06
13 19 0.59
14 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:32411157 original size:16 final size:16
Alignment explanation
Indices: 32411138--32411188 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
32411128 TTTATTATAT
32411138 TATATTATTATATTAA
1 TATATTATTATATTAA
32411154 TATATTATTATATTAA
1 TATATTATTATATTAA
*
32411170 TATATTATTACATT-A
1 TATATTATTATATTAA
32411185 TATA
1 TATA
32411189 CTTAAATACT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 5 0.15
16 29 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTATTATATTAA
Found at i:32411166 original size:24 final size:24
Alignment explanation
Indices: 32411135--32411193 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
32411125 ATTTTTATTA
* *
32411135 TATTATATTATTATATTAATATAT
1 TATTATATTAATATATTAATACAT
*
32411159 TATTATATTAATATATTATTACAT
1 TATTATATTAATATATTAATACAT
32411183 TA-TATACTTAA
1 TATTATA-TTAA
32411194 ATACTAAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTATATTAATATATTAATACAT
Found at i:32415603 original size:27 final size:27
Alignment explanation
Indices: 32415573--32415750 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32415563 ATATTGAGTC
* * * *
32415573 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
32415600 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32415627 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
32415655 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
32415682 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
32415709 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
32415736 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32415751 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:32415712 original size:82 final size:81
Alignment explanation
Indices: 32415594--32415749 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32415584 TGCTATATAA
* *
32415594 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
32415659 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
32415676 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
32415740 CACTTAGTGC
65 CACTTAGTGC
32415750 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:32418052 original size:44 final size:44
Alignment explanation
Indices: 32417906--32418066 Score: 143
Period size: 43 Copynumber: 3.7 Consensus size: 44
32417896 TAAGCTCGTA
* * ** *
32417906 CGATGCCAACATCCCACATGTGGTCTTACATGT-AATCAAATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATAT
* * * *
32417949 TGATGCC-ACTGTCCCAGACAAGGTCTTACAC-AAAAT--TATAT
1 CGATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATAT
* * *
32417990 GCGATGCCAATGTTCCAGACATGGTCTTACACGTAAATCAAAAAT
1 -CGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATAT
* *
32418035 CAATGCCAACGTCCCAGACGTGGTCTTACACG
1 CGATGCCAACGTCCCAGACATGGTCTTACACG
32418067 ATAACACATA
Statistics
Matches: 91, Mismatches: 20, Indels: 13
0.73 0.16 0.10
Matches are distributed among these distances:
41 4 0.04
42 27 0.30
43 29 0.32
44 28 0.31
45 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATAT
Found at i:32428378 original size:47 final size:46
Alignment explanation
Indices: 32428302--32428474 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 46
32428292 GGTATAATGC
* * * *
32428302 CGATGCAATGTCCTAGACATGGTATTACACTGGCTCTCACGTTAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTT-AGT
* *
32428349 CAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGT-T-AGT
* * * *
32428397 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCATG-TAGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACGTTAGT
32428445 CGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
32428475 GCTTACATCT
Statistics
Matches: 108, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.09
45 14 0.13
46 5 0.05
47 37 0.34
48 4 0.04
49 1 0.01
50 33 0.31
51 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTTAGT
Found at i:32428418 original size:50 final size:50
Alignment explanation
Indices: 32428299--32428527 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 50
32428289 TAGGGTATAA
* * * * **
32428299 TGCCGATGCAATGTCCTAGACATGGTATTACACTGGCTCTCACGT-TAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCG
*
32428348 T--CAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCG
* * *
32428396 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATCATGTA----
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACGTATCCG
*
32428443 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-AC--ATCTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATC-CG
* *
32428487 AGGCCGATG-CATGTCCCAGACGT-GTCTTACACT-AGCTCTCA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCA
32428528 TCTCTTACAT
Statistics
Matches: 149, Mismatches: 17, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
39 1 0.01
41 1 0.01
42 1 0.01
44 11 0.07
45 14 0.09
46 39 0.26
47 38 0.26
48 4 0.03
49 1 0.01
50 33 0.22
51 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGTATCCG
Found at i:32428483 original size:46 final size:48
Alignment explanation
Indices: 32428355--32428671 Score: 187
Period size: 46 Copynumber: 6.6 Consensus size: 48
32428345 AAGTCAATGC
*
32428355 CATGTCCCAGACATGGTCTTACACT-GACTCTCACGTATC-CGT--GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCT-AC--ATCATGTAGGCCGATG
*
32428404 CCATGTCCCAGACATGGTCTTACACTA--AC-ACATCATGTA-GCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCATGTAGGCCGATG
*
32428450 CATGTCCCAGACATGTCTTACACTGGCT-TACATC-TCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCAT-GTAGGCCGATG
* * *
32428496 CATGTCCCAGACGTGTCTTACACTAGCTCTCATCTCTTACATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-A---CAT-CAT-GT-AGGCCGATG
* * * * * ** * * *
32428551 CTTGTCCCAAACATGACTTACACTAGCACT-CGTC-TCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCATGTAGGCCGATG
* * * * *
32428597 CCATATCCCAGACATGGTCTTACACTGGCTCT-CATAATCTA-GCCGGTG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTACATCATGTAGGCCGATG
32428645 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
32428672 ATACAAATAT
Statistics
Matches: 214, Mismatches: 33, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
44 13 0.06
45 18 0.08
46 66 0.31
47 25 0.12
48 22 0.10
49 4 0.02
50 27 0.13
51 2 0.01
52 1 0.00
53 2 0.01
55 34 0.16
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCATGTAGGCCGATG
Found at i:32428545 original size:55 final size:55
Alignment explanation
Indices: 32428476--32428586 Score: 159
Period size: 55 Copynumber: 2.0 Consensus size: 55
32428466 CTTACACTGG
* * * *
32428476 CTTACATCTCGAGGCCGATGCATGTCCCAGACGTGTCTTACACTAGCTCTCATCT
1 CTTACATCTCGAGGCCGATGCATGTCCCAAACATGACTTACACTAGCACTCATCT
* * *
32428531 CTTACATCTTGAGGCCGATGCTTGTCCCAAACATGACTTACACTAGCACTCGTCT
1 CTTACATCTCGAGGCCGATGCATGTCCCAAACATGACTTACACTAGCACTCATCT
32428586 C
1 C
32428587 AATGTCAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (55 bp):
CTTACATCTCGAGGCCGATGCATGTCCCAAACATGACTTACACTAGCACTCATCT
Found at i:32430304 original size:31 final size:31
Alignment explanation
Indices: 32430266--32430344 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
32430256 TTTAACGGTT
32430266 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
32430297 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
32430328 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
32430345 ACTATAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:32430445 original size:42 final size:42
Alignment explanation
Indices: 32430368--32430459 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
32430358 TGGCCCTTAG
* * **
32430368 GCCCCTTTCAATATCACATGTAATGTCAATAAATGTAAGCAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTAAGCAA
* *
32430410 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATAAATGTAAGCAA
32430452 GCCCATTT
1 GCCCATTT
32430460 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATAAATGTAAGCAA
Found at i:32431127 original size:45 final size:45
Alignment explanation
Indices: 32431063--32431153 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
32431053 TATTTAATTC
*
32431063 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTACATCACTGCTG
1 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTACATAACTGCTG
*
32431108 CATTCCTGCTATTTTTAGTGATTTTCCAAATCTACATAACTGCTG
1 CATTCCTGCCATTTTTAGTGATTTTCCAAATCTACATAACTGCTG
32431153 C
1 C
32431154 TGTCAGCATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (45 bp):
CATTCCTGCCATTTTTAGTGATTTTCCAAATCTACATAACTGCTG
Found at i:32431926 original size:40 final size:40
Alignment explanation
Indices: 32431882--32432105 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 40
32431872 GCTCCTCGTT
*
32431882 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
32431922 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
32431962 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* *
32432001 CAAATGCCTTC-GAATCTTAGTCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * *
32432041 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
*
32432082 CAAA-GCCTTCGGGACTTATCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
32432106 AATCATTCAA
Statistics
Matches: 155, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 109 0.70
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:32431984 original size:79 final size:78
Alignment explanation
Indices: 32431882--32432106 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 78
32431872 GCTCCTCGTT
*
32431882 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
32431947 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * **
32431962 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATATCGCACAAATGCCTTC-GAATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
*
32432025 GATTTAGTATCTCGCA
63 GATTTAGTAACTCGCA
* * * * * *
32432041 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTATCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCCG
32432105 GA
63 GA
32432107 ATCATTCAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
78 5 0.04
79 64 0.52
80 41 0.34
81 11 0.09
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:32432279 original size:119 final size:118
Alignment explanation
Indices: 32432069--32432301 Score: 439
Period size: 119 Copynumber: 2.0 Consensus size: 118
32432059 AGTCCGGATA
* *
32432069 TGGTCACTTAGCACAAAGCCTTCGGGACTTATCCCGGAATCATTCAAATAACCATGCACATTTAA
1 TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATCATTCAAATAACCATGCACATTTAA
32432134 CAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAATTTG
66 CAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAATTTG
32432187 TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGAACATCATTCAAATAACCATGCACATTTA
1 TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGAA-ATCATTCAAATAACCATGCACATTTA
32432252 ACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAA
65 ACAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAA
32432302 CACAAGACAT
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
118 36 0.32
119 76 0.68
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (118 bp):
TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATCATTCAAATAACCATGCACATTTAA
CAATAAATCATGGCACATTCGTATTTCGTTTTCGTTAGCAAAACTCAAATTTG
Found at i:32439539 original size:79 final size:81
Alignment explanation
Indices: 32439437--32439620 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
32439427 GCTCCTCGTT
* *
32439437 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
32439499 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
32439517 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
32439581 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
32439597 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32439621 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:32439554 original size:39 final size:41
Alignment explanation
Indices: 32439437--32439620 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
32439427 GCTCCTCGTT
* *
32439437 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
32439477 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
32439517 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
32439556 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
32439597 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32439621 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:32443776 original size:321 final size:321
Alignment explanation
Indices: 32443194--32443834 Score: 1273
Period size: 321 Copynumber: 2.0 Consensus size: 321
32443184 AATAGGCAGA
32443194 TTAAACATGCAATCTATAAAATTTCTTATCAATACTCTAACACATGCATCTAATCACTCGATAAA
1 TTAAACATGCAATCTATAAAATTTCTTATCAATACTCTAACACATGCATCTAATCACTCGATAAA
32443259 TCATAAAAATTAATCGAAATAAACTTTTCTATCTCGAATTTGTGGTTTCGCAACCACTATTCCAT
66 TCATAAAAATTAATCGAAATAAACTTTTCTATCTCGAATTTGTGGTTTCGCAACCACTATTCCAT
32443324 TCAGGCCCTATTTTGAGATGTTACATTTCTCCCCCTCTTTAGGGATTTTCGTCCCTGAAAATCTT
131 TCAGGCCCTATTTTGAGATGTTACATTTCTCCCCCTCTTTAGGGATTTTCGTCCCTGAAAATCTT
32443389 ATCGGTAAAAAGATTCAATATCTTTTCTCAAAATTTCTTAAACATCTCCAAACAAATTCTCTTCA
196 ATCGGTAAAAAGATTCAATATCTTTTCTCAAAATTTCTTAAACATCTCCAAACAAATTCTCTTCA
*
32443454 AAGCAGTACTTTCAAAATCACCCCACTATCAAATTGGAATCCAATATATCTAAGTTTCAAT
261 AAGCAGTACTTTCAAAATCACCCCACTATCAAATTGAAATCCAATATATCTAAGTTTCAAT
32443515 TTAAACATGCAATCTATAAAATTTCTTATCAATACTCTAACACATGCATCTAATCACTCGATAAA
1 TTAAACATGCAATCTATAAAATTTCTTATCAATACTCTAACACATGCATCTAATCACTCGATAAA
32443580 TCATAAAAATTAATCGAAATAAACTTTTCTATCTCGAATTTGTGGTTTCGCAACCACTATTCCAT
66 TCATAAAAATTAATCGAAATAAACTTTTCTATCTCGAATTTGTGGTTTCGCAACCACTATTCCAT
32443645 TCAGGCCCTATTTTGAGATGTTACATTTCTCCCCCTCTTTAGGGATTTTCGTCCCTGAAAATCTT
131 TCAGGCCCTATTTTGAGATGTTACATTTCTCCCCCTCTTTAGGGATTTTCGTCCCTGAAAATCTT
32443710 ATCGGTAAAAAGATTCAATATCTTTTCTCAAAATTTCTTAAACATCTCCAAACAAATTCTCTTCA
196 ATCGGTAAAAAGATTCAATATCTTTTCTCAAAATTTCTTAAACATCTCCAAACAAATTCTCTTCA
32443775 AAGCAGTACTTTCAAAATCACCCCACTATCAAATTGAAATCCAATATATCTAAGTTTCAA
261 AAGCAGTACTTTCAAAATCACCCCACTATCAAATTGAAATCCAATATATCTAAGTTTCAA
32443835 CTCGGTATGA
Statistics
Matches: 319, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 319 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (321 bp):
TTAAACATGCAATCTATAAAATTTCTTATCAATACTCTAACACATGCATCTAATCACTCGATAAA
TCATAAAAATTAATCGAAATAAACTTTTCTATCTCGAATTTGTGGTTTCGCAACCACTATTCCAT
TCAGGCCCTATTTTGAGATGTTACATTTCTCCCCCTCTTTAGGGATTTTCGTCCCTGAAAATCTT
ATCGGTAAAAAGATTCAATATCTTTTCTCAAAATTTCTTAAACATCTCCAAACAAATTCTCTTCA
AAGCAGTACTTTCAAAATCACCCCACTATCAAATTGAAATCCAATATATCTAAGTTTCAAT
Found at i:32445836 original size:35 final size:35
Alignment explanation
Indices: 32445797--32445867 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
32445787 GGCTTCACGA
*
32445797 ATTTGATGAATCAATAATGGTTTGGCTTTTAATTC
1 ATTTGATGAATCAATAATGGTTTGGCCTTTAATTC
*
32445832 ATTTGATGAGTCAATAATGGTTTGGCCTTTAATTC
1 ATTTGATGAATCAATAATGGTTTGGCCTTTAATTC
32445867 A
1 A
32445868 GCTATTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (35 bp):
ATTTGATGAATCAATAATGGTTTGGCCTTTAATTC
Found at i:32446564 original size:51 final size:51
Alignment explanation
Indices: 32446488--32446587 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
32446478 CTTCGGTAAT
*
32446488 ATTTCTTGGAGGCTTCCAGTTAAGTATGGCTTAAATTTTGCTCGGGTCAGC
1 ATTTCTTGGAGGCTTCCAGTTAAGTATGGCTAAAATTTTGCTCGGGTCAGC
32446539 ATTTCTTGGAGGCTTCCAGTTAAGTATGGCTAAAATTTTGCTCGGGTCA
1 ATTTCTTGGAGGCTTCCAGTTAAGTATGGCTAAAATTTTGCTCGGGTCA
32446588 ACTCGAATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (51 bp):
ATTTCTTGGAGGCTTCCAGTTAAGTATGGCTAAAATTTTGCTCGGGTCAGC
Found at i:32450654 original size:40 final size:40
Alignment explanation
Indices: 32450617--32450841 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
32450607 GCTACTCGTT
* *
32450617 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
32450657 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
32450697 CAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
32450737 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
32450776 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
32450817 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
32450842 CATCATTCAA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32450801 original size:119 final size:120
Alignment explanation
Indices: 32450617--32450841 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
32450607 GCTACTCGTT
*
32450617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
32450682 ATTTAGTAAC-TCGCACAAATGCCTTCGGGCCTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
32450737 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
32450799 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
32450842 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:32452819 original size:37 final size:37
Alignment explanation
Indices: 32452769--32452841 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
32452759 TACATAGTGA
32452769 TAAAACCATATTCATTTATGAATGTTTCTCATTTCTT
1 TAAAACCATATTCATTTATGAATGTTTCTCATTTCTT
*
32452806 TAAAACCGTATTCATTTATGAATGTTTCTCATTTCT
1 TAAAACCATATTCATTTATGAATGTTTCTCATTTCT
32452842 CTAACTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (37 bp):
TAAAACCATATTCATTTATGAATGTTTCTCATTTCTT
Found at i:32453405 original size:21 final size:21
Alignment explanation
Indices: 32453381--32453425 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32453371 CTACTAGTAG
32453381 AACTAGGAGTTCTACCGATAC
1 AACTAGGAGTTCTACCGATAC
** **
32453402 AACTCTGAGTTCTATTGATAC
1 AACTAGGAGTTCTACCGATAC
32453423 AAC
1 AAC
32453426 CCGGACTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (21 bp):
AACTAGGAGTTCTACCGATAC
Found at i:32453435 original size:21 final size:21
Alignment explanation
Indices: 32453397--32453437 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32453387 GAGTTCTACC
* * *
32453397 GATACAACTCTGAGTTCTATT
1 GATACAACCCGGACTTCTATT
32453418 GATACAACCCGGACTTCTAT
1 GATACAACCCGGACTTCTAT
32453438 CGGTAGAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (21 bp):
GATACAACCCGGACTTCTATT
Found at i:32455310 original size:13 final size:13
Alignment explanation
Indices: 32455292--32455319 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32455282 GACAACTTTG
32455292 AGGCTATTTTCCA
1 AGGCTATTTTCCA
32455305 AGGCTATTTTCCA
1 AGGCTATTTTCCA
32455318 AG
1 AG
32455320 CCCTTTTGTC
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:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (13 bp):
AGGCTATTTTCCA
Found at i:32456492 original size:48 final size:48
Alignment explanation
Indices: 32456379--32456499 Score: 125
Period size: 48 Copynumber: 2.5 Consensus size: 48
32456369 CATATCGATA
* * * * *
32456379 CCATCTCCCAGACATGGTCTTATACGAAATCACTTATCGATGTCGAAG
1 CCATATCCCAGACATGGTCTTACACGAAATCACGTATCAATGCCGAAG
* * ** * *
32456427 CCATATCCCTGATATGGTCTTACACGGGATCGCGTATCAATGCCGATG
1 CCATATCCCAGACATGGTCTTACACGAAATCACGTATCAATGCCGAAG
* *
32456475 TCATGTCCCAGACATGGTCTTACAC
1 CCATATCCCAGACATGGTCTTACAC
32456500 ATGATCTCGT
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
CCATATCCCAGACATGGTCTTACACGAAATCACGTATCAATGCCGAAG
Found at i:32462282 original size:50 final size:48
Alignment explanation
Indices: 32462161--32462287 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 48
32462151 CATAGGGTAA
*
32462161 GGTGCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCACATATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
*** * * * * *
32462209 AAAGTCGATGCCATGTCCTAGACATGGTTTTACACTGGCTCTCATCTATC
1 GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA--TATC
32462259 GGTGCCGATGCCATGTCCCAGACATGGTC
1 GGTGCCGATGCCATGTCCCAGACATGGTC
32462288 GTGCCGATGC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 35 0.56
50 27 0.44
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (48 bp):
GGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
Found at i:32462300 original size:28 final size:28
Alignment explanation
Indices: 32462260--32462315 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
32462250 TCATCTATCG
32462260 GTGCCGATGCCATGTCCCAGACATGGTC
1 GTGCCGATGCCATGTCCCAGACATGGTC
32462288 GTGCCGATGCCATGTCCCAGACATGGTC
1 GTGCCGATGCCATGTCCCAGACATGGTC
32462316 TTACACTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.21
Consensus pattern (28 bp):
GTGCCGATGCCATGTCCCAGACATGGTC
Found at i:32462347 original size:78 final size:78
Alignment explanation
Indices: 32462214--32462365 Score: 277
Period size: 78 Copynumber: 1.9 Consensus size: 78
32462204 ATATCAAAGT
* *
32462214 CGATGCCATGTCCTAGACATGGTTTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCA
32462279 GACATGGTCGTGC
66 GACATGGTCGTGC
*
32462292 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCTGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCA
32462357 GACATGGTC
66 GACATGGTC
32462366 TTACACTGAC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.28
Consensus pattern (78 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCCGATGCCATGTCCCA
GACATGGTCGTGC
Found at i:32462368 original size:50 final size:50
Alignment explanation
Indices: 32462290--32462630 Score: 435
Period size: 50 Copynumber: 6.9 Consensus size: 50
32462280 ACATGGTCGT
* * *
32462290 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
32462339 TGCTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATA--TC-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
32462385 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
32462435 GCTGATGTCATGTCTCAGACATGGTCTTACACTAGCTCTCGTATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
32462485 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCTCGA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
32462534 GACGATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCGTATCTCAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
32462584 GCCAATGCCATGTCCTAGACATGGTCTTGCACTAGCTCTTATATCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
32462631 CCTAGCATCA
Statistics
Matches: 256, Mismatches: 28, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
45 31 0.12
46 3 0.01
47 5 0.02
48 4 0.02
49 49 0.19
50 164 0.64
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:32462593 original size:99 final size:100
Alignment explanation
Indices: 32462290--32462630 Score: 471
Period size: 99 Copynumber: 3.5 Consensus size: 100
32462280 ACATGGTCGT
* * *
32462290 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGCTGATGCCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG-GCTGATGCCATGTC
* * *
32462354 CCAGACATGGTCTTACACT-G-ACAC--ATATCAA-
65 CCAGACATGGTCTTACACTAGCTCTCGTATCTCAAG
* * *
32462385 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATGTCATGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATGCCATGTCC
*
32462450 CAGACATGGTCTTACACTAGCTCTCGTATCTCGAG
66 CAGACATGGTCTTACACTAGCTCTCGTATCTCAAG
* *
32462485 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCTCGAGAC-GATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATGCCATGTCC
*
32462549 CAGACATGGTCTTACATTAGCTCTCGTATCTCAAG
66 CAGACATGGTCTTACACTAGCTCTCGTATCTCAAG
* * * *
32462584 GCCAATGCCATGTCCTAGACATGGTCTTGCACTAGCTCTTATATCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
32462631 CCTAGCATCA
Statistics
Matches: 218, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
95 75 0.34
96 2 0.01
97 2 0.01
99 90 0.41
100 49 0.22
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (100 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCTGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCGTATCTCAAG
Found at i:32462629 original size:149 final size:145
Alignment explanation
Indices: 32462294--32462630 Score: 426
Period size: 149 Copynumber: 2.3 Consensus size: 145
32462284 GGTCGTGCCG
* * * * *
32462294 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGGTGCTGATGCCATGTCCCAGA
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGGTGCCGATGCCATGTCCCAGA
* *
32462359 CATGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCT
66 CATGGTCTTACACTGACACATATCAAGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
* **
32462424 CATATCTCGAGGCTG
131 CATATCTCAAGGCCA
* *
32462439 ATGTCATGT-CTCAGACATGGTCTTACACTAGCTCTCGTATCTCGAG-GCCGATGCCATGTCCCA
1 ATGCCATGTCCT-AGACATGGTCTTACACTAGCTCTCATATCTCG-GTGCCGATGCCATGTCCCA
* * * * *
32462502 GACATGGTCTTACACTAGCTCTCGTATCTCGAGACGATGCCATGTCCCAGACATGGTCTTACATT
64 GACATGGTCTTACACT-G-ACAC--ATATCAAGACGATGCCATGTCCCAGACATGGTCTTACACT
*
32462567 AGCTCTCGTATCTCAAGGCCA
125 AGCTCTCATATCTCAAGGCCA
* *
32462588 ATGCCATGTCCTAGACATGGTCTTGCACTAGCTCTTATATCTC
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTC
32462631 CCTAGCATCA
Statistics
Matches: 163, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
144 1 0.01
145 68 0.42
146 2 0.01
147 2 0.01
149 88 0.54
150 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (145 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGGTGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGACACATATCAAGACGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
CATATCTCAAGGCCA
Found at i:32468128 original size:21 final size:21
Alignment explanation
Indices: 32468104--32468148 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
32468094 CTACTAGTAG
*
32468104 AACT-GGGAGTTCTACTGATAC
1 AACTCGGG-GTTCTACCGATAC
*
32468125 AACTCTGGGTTCTACCGATAC
1 AACTCGGGGTTCTACCGATAC
32468146 AAC
1 AAC
32468149 CCGGACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (21 bp):
AACTCGGGGTTCTACCGATAC
Found at i:32470547 original size:9 final size:9
Alignment explanation
Indices: 32470530--32470582 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
32470520 ACACATAAAA
*
32470530 TAAACTAAC
1 TAAATTAAC
*
32470539 TGAATTAAC
1 TAAATTAAC
32470548 TAAATTAAC
1 TAAATTAAC
*
32470557 CAAATTAAC
1 TAAATTAAC
*
32470566 CAAATTAAC
1 TAAATTAAC
*
32470575 CAAATTAA
1 TAAATTAA
32470583 AGTATTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.26
Consensus pattern (9 bp):
TAAATTAAC
Found at i:32470556 original size:18 final size:18
Alignment explanation
Indices: 32470541--32470582 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
32470531 AAACTAACTG
32470541 AATTAACTAAATTAACCA
1 AATTAACTAAATTAACCA
*
32470559 AATTAACCAAATTAACCA
1 AATTAACTAAATTAACCA
32470577 AATTAA
1 AATTAA
32470583 AGTATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAACTAAATTAACCA
Found at i:32474747 original size:9 final size:9
Alignment explanation
Indices: 32474730--32474763 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
32474720 AACCATTTTC
32474730 AATTCAGTT
1 AATTCAGTT
*
32474739 AATTTAGTT
1 AATTCAGTT
32474748 AATTCAGTT
1 AATTCAGTT
32474757 AATTCAG
1 AATTCAG
32474764 GGAAACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (9 bp):
AATTCAGTT
Found at i:32476859 original size:55 final size:53
Alignment explanation
Indices: 32476745--32476983 Score: 195
Period size: 55 Copynumber: 4.5 Consensus size: 53
32476735 TTAAGAATAA
* * * * * * *
32476745 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAATGAAAT
1 CATGTAAGACCATGTCAAGACATGGC-ATTGATAA-G-TTCATAACGCAAGGATAC
*
32476800 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAACGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ATAACGC-AAGGATAC
* * * * * *
32476855 CATGTAAGACTATGCCAAGGCATGGCATTGTTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAACGCAAGGATAC
* *
32476908 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCAT-AACGCAAGGATAC
* * *
32476957 CACGTAAGACCATGACAAGTCATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
32476984 ATGGTAAGGT
Statistics
Matches: 154, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
49 32 0.21
51 1 0.01
52 8 0.05
53 41 0.27
54 8 0.05
55 61 0.40
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCATAACGCAAGGATAC
Found at i:32476943 original size:108 final size:110
Alignment explanation
Indices: 32476745--32476944 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 110
32476735 TTAAGAATAA
* *
32476745 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAATGAAATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
*
32476810 CATGTCAAGACATGGCATTGATAAGTTACTATAACGCAAAGGTCC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAACGCAAAGGTCC
* * * *
32476855 CATGTAAGACTATGCCAAGGCATGGC-ATTGTTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGA
*
32476917 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
32476945 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 6 0.07
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAACGCAAAGGTCC
Found at i:32477204 original size:16 final size:16
Alignment explanation
Indices: 32477183--32477213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32477173 ATAAATTTGA
32477183 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
32477199 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
32477214 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:32479983 original size:14 final size:14
Alignment explanation
Indices: 32479964--32479990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32479954 TTAAATTATG
32479964 TTAAAATTTATTTT
1 TTAAAATTTATTTT
32479978 TTAAAATTTATTT
1 TTAAAATTTATTT
32479991 AAGAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAAAATTTATTTT
Found at i:32481673 original size:23 final size:23
Alignment explanation
Indices: 32481637--32481708 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
32481627 CTCTCTCCTA
32481637 AGGTTAAGGTTTTTAATATTTTT
1 AGGTTAAGGTTTTTAATATTTTT
*
32481660 AGGTCTAAGG-TTTTAATATTATT
1 AGGT-TAAGGTTTTTAATATTTTT
*
32481683 AGGGTTTAGGGTTTTTAAATATTTTT
1 A-GG-TTAAGGTTTTT-AATATTTTT
32481709 TTATAGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 17 0.41
24 11 0.27
25 5 0.12
26 8 0.20
ACGTcount: A:0.26, C:0.01, G:0.19, T:0.53
Consensus pattern (23 bp):
AGGTTAAGGTTTTTAATATTTTT
Found at i:32493678 original size:11 final size:11
Alignment explanation
Indices: 32493664--32493697 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
32493654 TAAATAATTT
32493664 AAAAATTATAA
1 AAAAATTATAA
* *
32493675 AAAAATAATTA
1 AAAAATTATAA
32493686 AAAAATTATAA
1 AAAAATTATAA
32493697 A
1 A
32493698 TAATTCTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:32493680 original size:22 final size:22
Alignment explanation
Indices: 32493655--32493697 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
32493645 CCATATCAAT
*
32493655 AAATAATTTAAAAATTATAAAA
1 AAATAATTAAAAAATTATAAAA
32493677 AAATAATTAAAAAATTATAAA
1 AAATAATTAAAAAATTATAAA
32493698 TAATTCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAATTAAAAAATTATAAAA
Found at i:32494400 original size:35 final size:35
Alignment explanation
Indices: 32494355--32494426 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
32494345 GTTTTTAAGG
* *
32494355 TTAGGGTTTTGCCAAAATAAGTTAGGATTTAGTGT
1 TTAGGGTTTTGCCAAAACAAGTTAGGATTTAGAGT
* ** *
32494390 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAGAGT
1 TTAGGGTTTTGCCAAAACAAGTTAGGATTTAGAGT
32494425 TT
1 TT
32494427 TAGTAGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCCAAAACAAGTTAGGATTTAGAGT
Found at i:32494530 original size:35 final size:34
Alignment explanation
Indices: 32494476--32494640 Score: 198
Period size: 34 Copynumber: 4.9 Consensus size: 34
32494466 AATATTATTC
*
32494476 AAATTAGAG-TTTAGGGTTTTTAAATAAATTAAGT
1 AAATTAGGGTTTTAGGG-TTTTAAATAAATTAAGT
* *
32494510 AAATTAAGGTTTTAGGGTTTTAAATAAATTAAAT
1 AAATTAGGGTTTTAGGGTTTTAAATAAATTAAGT
*
32494544 AAATTAGGGTTTTTAGGATTTTAAATAAA-T---T
1 AAATTAGGG-TTTTAGGGTTTTAAATAAATTAAGT
* *
32494575 AAATTATGG-TTTAGGTTTTTTAAATAAATTAAGT
1 AAATTAGGGTTTTAGG-GTTTTAAATAAATTAAGT
*
32494609 AGATTAGGGTTTTAGGGTTTTAAATAAATTAA
1 AAATTAGGGTTTTAGGGTTTTAAATAAATTAA
32494641 ATTAGGGTTT
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
29 6 0.05
30 11 0.10
31 10 0.09
34 55 0.49
35 31 0.27
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (34 bp):
AAATTAGGGTTTTAGGGTTTTAAATAAATTAAGT
Found at i:32494596 original size:65 final size:64
Alignment explanation
Indices: 32494500--32494657 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 64
32494490 GGTTTTTAAA
* * *
32494500 TAAATTAAGTAAATTAAGGTTTTAGG-GTTTTAAATAAATTAAATAAATTAGGGTTTTTAGGATT
1 TAAATAAATTAAATTAAGG-TTTAGGTTTTTTAAATAAATTAAATAAATTAGGG-TTTTAGGATT
32494564 T
64 T
* * * *
32494565 TAAATAAATTAAATTATGGTTTAGGTTTTTTAAATAAATTAAGTAGATTAGGGTTTTAGGGTTT
1 TAAATAAATTAAATTAAGGTTTAGGTTTTTTAAATAAATTAAATAAATTAGGGTTTTAGGATTT
*
32494629 TAAATAAATTAAATTAGGGTTTAAGGTTT
1 TAAATAAATTAAATTAAGGTTT-AGGTTT
32494658 AAAGTTTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
64 37 0.45
65 46 0.55
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.44
Consensus pattern (64 bp):
TAAATAAATTAAATTAAGGTTTAGGTTTTTTAAATAAATTAAATAAATTAGGGTTTTAGGATTT
Found at i:32494696 original size:64 final size:62
Alignment explanation
Indices: 32494476--32494685 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 62
32494466 AATATTATTC
* *
32494476 AAATTAGAG-TTTAGGGTTTTTAAATAAATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATT
1 AAATTAGGGTTTTAGGG-TTTTAAATAAA-T---TAAATT-AGGGTTTA-GGTTTTAAATAAATT
*
32494540 AAAT
59 AAGT
* *
32494544 AAATTAGGGTTTTTAGGATTTTAAATAAATTAAATTATGGTTTAGGTTTTTTAAATAAATTAAGT
1 AAATTAGGG-TTTTAGGGTTTTAAATAAATTAAATTAGGGTTTAGG--TTTTAAATAAATTAAGT
* * *
32494609 AGATTAGGGTTTTAGGGTTTTAAATAAATTAAATTAGGGTTTAAGG-TTTAAAGTTTAATTTAAT
1 AAATTAGGGTTTTAGGGTTTTAAATAAATTAAATTAGGGTTT-AGGTTTTAAA---TAAATTAAG
32494673 T
62 T
32494674 AAATTAGGGTTT
1 AAATTAGGGTTT
32494686 ATTTTTTTAA
Statistics
Matches: 123, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
62 6 0.05
63 2 0.02
64 37 0.30
65 52 0.42
68 9 0.07
69 11 0.09
70 6 0.05
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.44
Consensus pattern (62 bp):
AAATTAGGGTTTTAGGGTTTTAAATAAATTAAATTAGGGTTTAGGTTTTAAATAAATTAAGT
Found at i:32494700 original size:99 final size:98
Alignment explanation
Indices: 32494476--32494696 Score: 268
Period size: 99 Copynumber: 2.2 Consensus size: 98
32494466 AATATTATTC
* *
32494476 AAATTAGAGTTTAGGGTTTTTAAATAAATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTA
1 AAATTAGGGTTTAGGTTTTTTAAATAAATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTA
* * *
32494541 AATAAATTAGGGTTTTTAGGATTTTAAATAAATT
66 AATAAATTAAGG-TTTTAGAAGTTTAAATAAATT
* * *
32494575 AAATTATGGTTTAGGTTTTTTAAATAAATTAAGTAGATTAGGGTTTTAGGGTTTTAAATAAATTA
1 AAATTAGGGTTTAGGTTTTTTAAATAAATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTA
** * *
32494640 AATTAGGGTTTAAGG-TTTA-AAGTTTAATTTAATT
66 AA-TA--AATTAAGGTTTTAGAAGTTTAAATAAATT
*
32494674 AAATTAGGGTTTA-TTTTTTTAAA
1 AAATTAGGGTTTAGGTTTTTTAAA
32494697 ATAACATTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
98 9 0.09
99 85 0.81
100 6 0.06
102 5 0.05
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (98 bp):
AAATTAGGGTTTAGGTTTTTTAAATAAATTAAGTAAATTAAGGTTTTAGGGTTTTAAATAAATTA
AATAAATTAAGGTTTTAGAAGTTTAAATAAATT
Found at i:32499424 original size:18 final size:18
Alignment explanation
Indices: 32499398--32499463 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
32499388 ATTAATTAAA
*
32499398 ATTACATAAATGAAAAAT
1 ATTAAATAAATGAAAAAT
**
32499416 ATTAAATAATATTCAAAAT
1 ATTAAATAA-ATGAAAAAT
32499435 -TTAAAATAAATGAAAAAAAT
1 ATT-AAATAAATG--AAAAAT
32499455 ATTAAATAA
1 ATTAAATAA
32499464 TATTCAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 12 0.32
19 13 0.34
20 11 0.29
21 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
ATTAAATAAATGAAAAAT
Found at i:32499441 original size:19 final size:19
Alignment explanation
Indices: 32499419--32499482 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
32499409 GAAAAATATT
32499419 AAATAATATTCAAAATTTA
1 AAATAATATTCAAAATTTA
**
32499438 AAATAA-ATGAAAAAAATATT-
1 AAATAATAT--TCAAAAT-TTA
32499458 AAATAATATTCAAAATTTA
1 AAATAATATTCAAAATTTA
32499477 AAATAA
1 AAATAA
32499483 ACCGTTACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 4 0.11
19 17 0.47
20 11 0.31
21 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATAATATTCAAAATTTA
Found at i:32499453 original size:39 final size:37
Alignment explanation
Indices: 32499403--32499483 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 37
32499393 TTAAAATTAC
32499403 ATAAATGAAAAATATTAAATAATATTCAAAATTTAAA
1 ATAAATGAAAAATATTAAATAATATTCAAAATTTAAA
32499440 ATAAATGAAAAAAATATTAAATAATATTCAAAATTTAAA
1 ATAAATG--AAAAATATTAAATAATATTCAAAATTTAAA
32499479 ATAAA
1 ATAAA
32499484 CCGTTACCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 7 0.17
39 35 0.83
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (37 bp):
ATAAATGAAAAATATTAAATAATATTCAAAATTTAAA
Found at i:32499472 original size:20 final size:20
Alignment explanation
Indices: 32499410--32499472 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
32499400 TACATAAATG
32499410 AAAAATATTAAATAATATTC
1 AAAAATATTAAATAATATTC
**
32499430 -AAAAT-TTAAAATAA-ATGAA
1 AAAAATATT-AAATAATAT-TC
32499449 AAAAATATTAAATAATATTC
1 AAAAATATTAAATAATATTC
32499469 AAAA
1 AAAA
32499473 TTTAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.12
19 11 0.32
20 15 0.44
21 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATATTAAATAATATTC
Found at i:32502820 original size:21 final size:21
Alignment explanation
Indices: 32502787--32502840 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
32502777 TATGAAGAGC
*
32502787 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
** *
32502808 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAAATTTAAGGAGAAA
* *
32502829 TTTTAGATATTT
1 TTTGAGAAATTT
32502841 TTTGCTAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (21 bp):
TTTGAGAAATTTAAGGAGAAA
Found at i:32510216 original size:5 final size:5
Alignment explanation
Indices: 32510206--32510253 Score: 53
Period size: 5 Copynumber: 9.0 Consensus size: 5
32510196 AGCTTAGTAC
32510206 ATTTT ATTTT ATTTTTT ATTTT A-TTT ATTTT ATTTT ACTTTAT ATTTT
1 ATTTT ATTTT A--TTTT ATTTT ATTTT ATTTT ATTTT A-TTT-T ATTTT
32510254 TTAAGTCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.11
5 21 0.55
6 6 0.16
7 7 0.18
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:32512020 original size:26 final size:26
Alignment explanation
Indices: 32511984--32512037 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
32511974 TTATATGTCA
32511984 TAATTGATTTGGCCAAAAGTATTGGC
1 TAATTGATTTGGCCAAAAGTATTGGC
*
32512010 TAATTGATTTGGCCAAAAGTGTTGGC
1 TAATTGATTTGGCCAAAAGTATTGGC
32512036 TA
1 TA
32512038 TTAATGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (26 bp):
TAATTGATTTGGCCAAAAGTATTGGC
Found at i:32527423 original size:30 final size:31
Alignment explanation
Indices: 32527347--32527429 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
32527337 TCAGTCTCGA
* *
32527347 CATAT-ACTGGGCCGAAGCCTTTTTATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
32527377 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
32527408 CATATCACT-GGCCGAAGTCTTT
1 CATATCACTAGGCCGAAGCCTTT
32527430 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:32527677 original size:25 final size:25
Alignment explanation
Indices: 32527649--32527718 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
32527639 CTCTTTTAAT
*
32527649 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
32527674 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
32527699 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
32527719 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:32527901 original size:27 final size:27
Alignment explanation
Indices: 32527863--32527942 Score: 135
Period size: 27 Copynumber: 3.0 Consensus size: 27
32527853 CCACACAGTN
32527863 TAAAATGGTAATTCTATAAATCGAGGG
1 TAAAATGGTAATTCTATAAATCGAGGG
*
32527890 TAAAATGGTAATTCTGTAAATCGAGGG
1 TAAAATGGTAATTCTATAAATCGAGGG
32527917 T-AAATCGGTAATTCTATAAATCGAGG
1 TAAAAT-GGTAATTCTATAAATCGAGG
32527943 ATATTTGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 4 0.08
27 46 0.92
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (27 bp):
TAAAATGGTAATTCTATAAATCGAGGG
Done.