Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 62 of 170
Found at i:18074421 original size:111 final size:111
Alignment explanation
Indices: 18074222--18074451 Score: 370
Period size: 111 Copynumber: 2.1 Consensus size: 111
18074212 CTTCTTTTCC
* *
18074222 TAAACATACAGAACTCAGACTAATAACTTTGGACAGACAATCATTATTCACACACACATACACTG
1 TAAAGATACAGAACTCAGACTAATAACTTTGGACAAACAATCATTATTCACACACACATACACTG
*
18074287 ATCATTATTTAAAGAGTAAGAATACTTACCTTATAATATTATAAAG
66 ATCATCATTTAAAGAGTAAGAATACTTACCTTATAATATTATAAAG
* * * *
18074333 TAAAGATACATAACTCAGACTAATAACTTTGGATAAACAATCATTATTCACACATAGATACACTG
1 TAAAGATACAGAACTCAGACTAATAACTTTGGACAAACAATCATTATTCACACACACATACACTG
* *
18074398 ATCATCCTTTAAAGAGTAAGAATACTTACCTTCTAATATTATAAAG
66 ATCATCATTTAAAGAGTAAGAATACTTACCTTATAATATTATAAAG
*
18074444 TGAAGATA
1 TAAAGATA
18074452 ATCACAACAC
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 109 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (111 bp):
TAAAGATACAGAACTCAGACTAATAACTTTGGACAAACAATCATTATTCACACACACATACACTG
ATCATCATTTAAAGAGTAAGAATACTTACCTTATAATATTATAAAG
Found at i:18085341 original size:46 final size:46
Alignment explanation
Indices: 18085288--18085376 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
18085278 AAGGAGCATC
18085288 ACCTTTACTGCACTGCAACAGTCGCTCCCCTCCTAAGAGTCCTTTA
1 ACCTTTACTGCACTGCAACAGTCGCTCCCCTCCTAAGAGTCCTTTA
*
18085334 ACCTTTACTGCACTGCAATAGTCGCTCCCCTCCTAAGAGTCCT
1 ACCTTTACTGCACTGCAACAGTCGCTCCCCTCCTAAGAGTCCT
18085377 GTTGCATCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.28
Consensus pattern (46 bp):
ACCTTTACTGCACTGCAACAGTCGCTCCCCTCCTAAGAGTCCTTTA
Found at i:18087588 original size:32 final size:32
Alignment explanation
Indices: 18087552--18087632 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
18087542 AGTGTACATG
18087552 AATTAAATGGAAGTTTCTAGTGATATGATTTC
1 AATTAAATGGAAGTTTCTAGTGATATGATTTC
*
18087584 AATTAAATGGAAGTTTCTAGTGATATGATTTG
1 AATTAAATGGAAGTTTCTAGTGATATGATTTC
*
18087616 AATTAAATGGAAATTTC
1 AATTAAATGGAAGTTTC
18087633 ATATTTATGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (32 bp):
AATTAAATGGAAGTTTCTAGTGATATGATTTC
Found at i:18090983 original size:41 final size:40
Alignment explanation
Indices: 18090892--18091166 Score: 273
Period size: 41 Copynumber: 6.6 Consensus size: 40
18090882 TCTTTGAATG
* * * *
18090892 TAAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTGATCAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TA
* * * *
18090933 AAAGGGGTTGCTATGTGCGGATTCCCCGTATCATTGAGTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
18090973 TAAGGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGGTTGGGA
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATT---A
*
18091018 -AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
18091057 TAAGGTGGTCGCTAAGTGCTGATTTCACCGTATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGA-TTCCCCGTATCATTGATTA
* *
18091099 TGAAAGAGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
*
18091141 TAAGGTGGTTGCTAAGTGCTAATTCC
1 TAAGG-GGTTGCTAAGTGCTGATTCC
18091167 ACCAGGATCC
Statistics
Matches: 191, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 12 0.06
41 81 0.42
42 57 0.30
43 32 0.17
44 7 0.04
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:18091033 original size:84 final size:84
Alignment explanation
Indices: 18090933--18091178 Score: 393
Period size: 84 Copynumber: 2.9 Consensus size: 84
18090923 CATTGATCAA
* * *
18090933 AAAGGGGTTGCTATGTGCGGATTCCCCGTATCATTGAGTATAAGGTGGTTGCTAAGTACTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
*
18090998 CACCGTATCCTTGGTTGGG
66 CACCGTATCCTTGATTGGG
* *
18091017 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTCGCTAAGTGCTGATTT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
*
18091082 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGGG
* *
18091101 AAAGAGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTAATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
*
18091166 CACCAGGATCCTT
66 CACC-GTATCCTT
18091179 TGAACATGAG
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 142 0.95
85 7 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTGGG
Found at i:18093847 original size:22 final size:19
Alignment explanation
Indices: 18093808--18093849 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
18093798 TGCAAAGTTG
18093808 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
18093827 ATAATATATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
18093849 A
1 A
18093850 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:18101688 original size:50 final size:50
Alignment explanation
Indices: 18101608--18101702 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
18101598 GTGAAGTTGC
* * *
18101608 TAGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAATGA
*
18101658 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGA
18101703 GTATCATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAATGA
Found at i:18109282 original size:27 final size:27
Alignment explanation
Indices: 18109252--18109429 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
18109242 ATATTGAGCC
* *
18109252 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
18109279 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
18109306 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
18109334 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
18109361 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
18109388 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
18109415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18109430 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:18109364 original size:55 final size:54
Alignment explanation
Indices: 18109252--18109429 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
18109242 ATATTGAGCC
* * *
18109252 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
18109306 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
18109361 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
18109415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18109430 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:18114515 original size:48 final size:48
Alignment explanation
Indices: 18114440--18114535 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
18114430 TGAGGAAATT
18114440 CTGTTGAATCCTTTATCATTACAAGTTAGGCCGACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCATTACAAGTTAGGCCGACTTAGGTGTTTTTA
* * *
18114488 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCATTACAAGTTAGGCCGACTTAGGTGTTTTTA
18114536 AGCAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTACAAGTTAGGCCGACTTAGGTGTTTTTA
Found at i:18119353 original size:36 final size:36
Alignment explanation
Indices: 18119302--18119372 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
18119292 GATTATGTAA
* * *
18119302 TCTTAGAGTTCTAATTGTATATAGCTTCTAATTGTG
1 TCTTAGAGTTATAATTGTATACAGATTCTAATTGTG
*
18119338 TCTTAGAGTTATAATTGTATACAGATTTTAATTGT
1 TCTTAGAGTTATAATTGTATACAGATTCTAATTGT
18119373 AGCCTTTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.48
Consensus pattern (36 bp):
TCTTAGAGTTATAATTGTATACAGATTCTAATTGTG
Found at i:18119650 original size:48 final size:48
Alignment explanation
Indices: 18119575--18119669 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
18119565 TGAGGGAATT
18119575 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGGCATTTTTG
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGGCATTTTTG
* **
18119623 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGGCATTTTT
1 CTGTTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGGCATTTTT
18119670 AAGCAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAGGCCAACTTAGGCATTTTTG
Found at i:18137323 original size:85 final size:85
Alignment explanation
Indices: 18137180--18137351 Score: 344
Period size: 85 Copynumber: 2.0 Consensus size: 85
18137170 AAATTCTGTC
18137180 AAAACCCTTTTCACCTTCAATTTCTTCATATTGATTTACCTCAAATACTTTAATTTTGCTATTTG
1 AAAACCCTTTTCACCTTCAATTTCTTCATATTGATTTACCTCAAATACTTTAATTTTGCTATTTG
18137245 AATCAATTTCATATTAATAG
66 AATCAATTTCATATTAATAG
18137265 AAAACCCTTTTCACCTTCAATTTCTTCATATTGATTTACCTCAAATACTTTAATTTTGCTATTTG
1 AAAACCCTTTTCACCTTCAATTTCTTCATATTGATTTACCTCAAATACTTTAATTTTGCTATTTG
18137330 AATCAATTTCATATTAATAG
66 AATCAATTTCATATTAATAG
18137350 AA
1 AA
18137352 GGGCAAATGG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (85 bp):
AAAACCCTTTTCACCTTCAATTTCTTCATATTGATTTACCTCAAATACTTTAATTTTGCTATTTG
AATCAATTTCATATTAATAG
Found at i:18157959 original size:12 final size:13
Alignment explanation
Indices: 18157942--18157971 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
18157932 CTCACACATG
18157942 AATAAATAAA-GC
1 AATAAATAAATGC
18157954 AATAAATAAATGC
1 AATAAATAAATGC
18157967 AATAA
1 AATAA
18157972 TTATATCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:18167904 original size:14 final size:14
Alignment explanation
Indices: 18167867--18167916 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
18167857 TCGTCATTAT
*
18167867 TTTTTTTCTTTTTC
1 TTTTTCTCTTTTTC
* *
18167881 TTTTCACTCTTTTTG
1 TTTT-TCTCTTTTTC
18167896 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
18167910 TTTTTCT
1 TTTTTCT
18167917 TGCTTAATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:18177110 original size:49 final size:49
Alignment explanation
Indices: 18176984--18177111 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
18176974 TCAGTAAATT
* * *
18176984 TGCATTATCTGGTGGCTTGTCCATAATATTTTGTATCTGATAGTGAATC
1 TGCAATATCTGGTGGCTTGTCCATATTATTCTGTATCTGATAGTGAATC
* * * * *
18177033 TGCAATATCTGGTGGTTTGACCACATTATTCTGTTTCTGGTAGCTCG-A-C
1 TGCAATATCTGGTGGCTTGTCCATATTATTCTGTATCTGATAG-T-GAATC
* *
18177082 TGCACTATCTGGTGGCTAGTCCATATTATT
1 TGCAATATCTGGTGGCTTGTCCATATTATT
18177112 GGTGTGTTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 61 0.95
50 2 0.03
51 1 0.02
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (49 bp):
TGCAATATCTGGTGGCTTGTCCATATTATTCTGTATCTGATAGTGAATC
Found at i:18181469 original size:33 final size:34
Alignment explanation
Indices: 18181403--18181484 Score: 121
Period size: 33 Copynumber: 2.4 Consensus size: 34
18181393 TCCTGCCCCA
*
18181403 CATGCAATTCAATCAAAGACATTTCAAACAATTC
1 CATGCAATTCAATCAAAGACATTTCAAAAAATTC
* *
18181437 CATGCAATTCAGTCAAA-TCATTTCAAAAAATTC
1 CATGCAATTCAATCAAAGACATTTCAAAAAATTC
*
18181470 CACGCAATTCAATCA
1 CATGCAATTCAATCA
18181485 GAATTATATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 27 0.63
34 16 0.37
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.27
Consensus pattern (34 bp):
CATGCAATTCAATCAAAGACATTTCAAAAAATTC
Found at i:18189017 original size:13 final size:13
Alignment explanation
Indices: 18188984--18189022 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18188974 ACATACATAT
*
18188984 AATTTAATTAAAC
1 AATTTAATTACAC
* *
18188997 CATATAATTACAC
1 AATTTAATTACAC
18189010 AATTTAATTACAC
1 AATTTAATTACAC
18189023 GAACTTACCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTTAATTACAC
Found at i:18192089 original size:39 final size:39
Alignment explanation
Indices: 18192016--18192116 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
18192006 TAACACTCCA
* * * *
18192016 CGTTGTGGCTAAGCCACTGTATATTACAGTCAAGCTGAAT
1 CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCT-AAT
* *
18192056 -GTTGTGGTTAAGCCACTGAATACTGCAGACAAGCTACT
1 CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCTAAT
* * *
18192094 CGTTGTGGTAAAACCATTGAATA
1 CGTTGTGGTTAAGCCACTGAATA
18192117 ACGTTGTGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.04
39 49 0.96
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (39 bp):
CGTTGTGGTTAAGCCACTGAATACTACAGACAAGCTAAT
Found at i:18192155 original size:63 final size:63
Alignment explanation
Indices: 18192056--18192259 Score: 223
Period size: 63 Copynumber: 3.2 Consensus size: 63
18192046 CAAGCTGAAT
** * * * * *
18192056 GTTGTGGTTAAGCCACTGAATA-CTGCAGACAAGCTACTCGTTGTGGTAAAACCATTGAATAAC
1 GTTGTGGCCAAGCCACTCAATATC-GCAAACAAGCTACACATTGTGGTCAAACCATTGAATAAC
* * * *
18192119 GTTGTGGCCAAGCCACTCAATATCGCATACAAGCTACACATTGTGGTCAAGCCACTGAATAAT
1 GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTACACATTGTGGTCAAACCATTGAATAAC
* * * * *
18192182 GTTGTGACCAAGCCATTCAATATTGTAAACAAGCTACACACTGTGGTCAAACCACTT-AATAAC
1 GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTACACATTGTGGTCAAACCA-TTGAATAAC
*
18192245 ATTGTGGCCAAGCCA
1 GTTGTGGCCAAGCCA
18192260 TATAGTATTG
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
63 116 0.98
64 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (63 bp):
GTTGTGGCCAAGCCACTCAATATCGCAAACAAGCTACACATTGTGGTCAAACCATTGAATAAC
Found at i:18202912 original size:20 final size:21
Alignment explanation
Indices: 18202887--18202933 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
18202877 TTTAGATTAT
18202887 AATAAAAT-AATAA-TAAATGA
1 AATAAAATGAA-AATTAAATGA
18202907 AAT-AAATGAAAATTAAATGA
1 AATAAAATGAAAATTAAATGA
*
18202927 AAGAAAA
1 AATAAAA
18202934 ACAAGAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AATAAAATGAAAATTAAATGA
Found at i:18210562 original size:18 final size:19
Alignment explanation
Indices: 18210534--18210569 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18210524 CTATTCTTGA
*
18210534 TTTACTATTCATGTTTATC
1 TTTACTATTCAAGTTTATC
18210553 TTTA-TATTCAAGTTTAT
1 TTTACTATTCAAGTTTAT
18210570 TGTGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTACTATTCAAGTTTATC
Found at i:18220407 original size:51 final size:51
Alignment explanation
Indices: 18220349--18220525 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
18220339 CTGGTTCGCA
* *
18220349 TAGTAGCCTGCACATAGTACTACACATGTGACCGTTACTATTC-GATACATG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCG-TACTATTCTGGTACACG
* * * * * * *
18220400 TAGTAGCCTGAACATAGTACAACACACGTGATCGAAGCTA-TCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCGTA-CTATTCTGGTACACG
* *
18220451 TAGTAGCCTGCACATAGTACTACACATGCGACCAT-C-ATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCGTACTATTCTGGTACACG
* *
18220500 TAGTAGCTTGCACACAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
18220526 ATTGACCATC
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.33
50 3 0.03
51 65 0.63
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCGTACTATTCTGGTACACG
Found at i:18223399 original size:42 final size:42
Alignment explanation
Indices: 18223319--18223400 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
18223309 CGTTTTCTCT
* * **
18223319 ATGCCATAGTCCAACTATGATCTTACACATATTTACATATTG
1 ATGCCACAGCCCAACTATGATCTTACACATATCCACATATTG
*
18223361 ATGCCACAGCCCAGCTATGATCTTACACAGTA-CCACATAT
1 ATGCCACAGCCCAACTATGATCTTACACA-TATCCACATAT
18223401 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (42 bp):
ATGCCACAGCCCAACTATGATCTTACACATATCCACATATTG
Found at i:18226500 original size:51 final size:51
Alignment explanation
Indices: 18226442--18226632 Score: 246
Period size: 51 Copynumber: 3.8 Consensus size: 51
18226432 CCGGCTCACA
* *
18226442 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACGCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACGCG
* * *
18226493 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTAAGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACGCG
* * * *
18226544 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACGCG
18226594 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
18226633 TTCACTTTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 72 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACGCG
Found at i:18226621 original size:101 final size:102
Alignment explanation
Indices: 18226440--18226624 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
18226430 AACCGGCTCA
* *
18226440 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACGCGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
18226505 CATAGTACTACACACGTGATCGAAGCTATCCGGTAAG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTAAG
* *
18226542 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
18226605 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
18226625 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 39 0.50
102 35 0.45
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTAAG
Found at i:18229333 original size:12 final size:12
Alignment explanation
Indices: 18229318--18229368 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
18229308 ATTAGTTTAA
*
18229318 TATTTTAATTAT
1 TATTTTCATTAT
*
18229330 TATTATCATTAT
1 TATTTTCATTAT
* * *
18229342 TATTTTTACTAC
1 TATTTTCATTAT
18229354 TATTTTCATTAT
1 TATTTTCATTAT
18229366 TAT
1 TAT
18229369 CAATATTTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTCATTAT
Found at i:18229345 original size:24 final size:24
Alignment explanation
Indices: 18229318--18229368 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18229308 ATTAGTTTAA
* *
18229318 TATTTTAATTATTATTATCATTAT
1 TATTTTAACTACTATTATCATTAT
* *
18229342 TATTTTTACTACTATTTTCATTAT
1 TATTTTAACTACTATTATCATTAT
18229366 TAT
1 TAT
18229369 CAATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTAACTACTATTATCATTAT
Found at i:18229388 original size:33 final size:32
Alignment explanation
Indices: 18229327--18229398 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
18229317 ATATTTTAAT
* * *
18229327 TATTATTATCATTATTATTTTTACTACTATTT
1 TATTATTATCAATATTATTTCTACTACTATTA
*
18229359 TCATTATTATCAATATT-TTTACTATTACTATTA
1 T-ATTATTATCAATATTATTT-CTACTACTATTA
18229392 TATTATT
1 TATTATT
18229399 CGTTTGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 10 0.29
33 24 0.71
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATTATCAATATTATTTCTACTACTATTA
Found at i:18238373 original size:28 final size:27
Alignment explanation
Indices: 18238301--18238389 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
18238291 CTATTCAGTG
* *
18238301 ACAGTACAGTGAGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTTAGCCTAAT
* * * * *
18238328 TCAATAGCAATGTCGGCCCTAGCCTAAT
1 ACAGTA-CAGTGTGGGCCTTAGCCTAAT
18238356 ACAGTATCAGTGTGGGCCTTAG-CTCAAT
1 ACAGTA-CAGTGTGGGCCTTAGCCT-AAT
18238384 ACAGTA
1 ACAGTA
18238390 ACATTATAGT
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
27 6 0.13
28 41 0.87
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTTAGCCTAAT
Found at i:18238789 original size:27 final size:27
Alignment explanation
Indices: 18238759--18238823 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
18238749 AGGGATATAA
18238759 CAGTCATTTTACCCTAT-AGAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
*
18238786 CAGTTATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
18238813 CGGTCATTTTA
1 CAGTCATTTTA
18238824 GTATAAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:18250373 original size:50 final size:50
Alignment explanation
Indices: 18250188--18250380 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 50
18250178 GGGAATGAGA
** **
18250188 TCCCATGTAAGACCATGTCTGGGACATGAAATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA---TATGAGAGG
* * *
18250244 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
** * * * **
18250294 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* *
18250344 TCCCATGTAAGACCATATCTGGGAAATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18250381 GTACAAAAAA
Statistics
Matches: 114, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 79 0.69
53 3 0.03
56 32 0.28
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
Found at i:18250656 original size:20 final size:20
Alignment explanation
Indices: 18250631--18250668 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18250621 ATGAGTTATT
18250631 CAAGTAAGCA-AGTAAGTATA
1 CAAGTAAG-AGAGTAAGTATA
18250651 CAAGTAAGAGAGTAAGTA
1 CAAGTAAGAGAGTAAGTA
18250669 AAGAAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.50, C:0.08, G:0.24, T:0.18
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTATA
Found at i:18269191 original size:17 final size:16
Alignment explanation
Indices: 18269169--18269200 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18269159 TATCTTTGAA
18269169 TGTAATGTGATTATATG
1 TGTAATGTGA-TATATG
18269186 TGTAATGTGATATAT
1 TGTAATGTGATATAT
18269201 ACTTAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
TGTAATGTGATATATG
Found at i:18279631 original size:13 final size:13
Alignment explanation
Indices: 18279613--18279638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18279603 TCAAACTATC
18279613 AAATTTTCACACA
1 AAATTTTCACACA
18279626 AAATTTTCACACA
1 AAATTTTCACACA
18279639 TATAACTTAA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:18287581 original size:13 final size:13
Alignment explanation
Indices: 18287563--18287587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18287553 TCAAACTATC
18287563 AAATTTTCACACG
1 AAATTTTCACACG
18287576 AAATTTTCACAC
1 AAATTTTCACAC
18287588 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:18291875 original size:11 final size:11
Alignment explanation
Indices: 18291859--18291908 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
18291849 TTTCAATCTT
18291859 TAACTTGAATC
1 TAACTTGAATC
18291870 TAACTTGACAT-
1 TAACTTGA-ATC
18291881 T--CTTGAATC
1 TAACTTGAATC
18291890 TAACTTGAATC
1 TAACTTGAATC
18291901 TAACTTGA
1 TAACTTGA
18291909 CATTATAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.06
9 6 0.17
11 25 0.71
12 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (11 bp):
TAACTTGAATC
Found at i:18291961 original size:13 final size:13
Alignment explanation
Indices: 18291943--18291972 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18291933 TATTATTGAA
18291943 TCTAACTTGACAT
1 TCTAACTTGACAT
18291956 TCTAACTTGACAT
1 TCTAACTTGACAT
18291969 TCTA
1 TCTA
18291973 GCTCCCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (13 bp):
TCTAACTTGACAT
Found at i:18291975 original size:57 final size:59
Alignment explanation
Indices: 18291883--18292018 Score: 192
Period size: 57 Copynumber: 2.4 Consensus size: 59
18291873 CTTGACATTC
* *
18291883 TTGAATCTAACTTGA-A-TCTAACTTGACATTATAGCTCCCCATTGTC-TCTT-TA-TTA
1 TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATT-CCAGCTTCTATTTA
* *
18291938 TTGAATCTAACTTGACATTCTAACTTGACATTCTAGCTCCCCATTCCAGCTTCTATTTC
1 TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATTCCAGCTTCTATTTA
18291997 TTGAATCTAACTTGACATTCTA
1 TTGAATCTAACTTGACATTCTA
18292019 GCTCCCCATT
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 15 0.21
56 2 0.03
57 29 0.40
58 2 0.03
59 24 0.33
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.40
Consensus pattern (59 bp):
TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATTCCAGCTTCTATTTA
Found at i:18292552 original size:30 final size:31
Alignment explanation
Indices: 18292500--18292557 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
18292490 CACCCTTAAA
** *
18292500 TATTTACACTATTAGTCCTTCAACTTTTTCG
1 TATTTACACTATTAACCCTTCAAATTTTTCG
18292531 TATTTACACT-TTAACCCTTCAAATTTT
1 TATTTACACTATTAACCCTTCAAATTTT
18292558 GAGTATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.26, C:0.22, G:0.03, T:0.48
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAAATTTTTCG
Found at i:18292564 original size:30 final size:31
Alignment explanation
Indices: 18292500--18292564 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
18292490 CACCCTTAAA
** * **
18292500 TATTTACACTATTAGTCCTTCAACTTTTTCG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
18292531 TATTTACACT-TTAACCCTTCAAATTTTGAG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
18292561 TATT
1 TATT
18292565 GGGCAACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAAATTTTGAG
Found at i:18293771 original size:12 final size:13
Alignment explanation
Indices: 18293754--18293782 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18293744 CTCATACATG
18293754 AATAAATAAA-GC
1 AATAAATAAATGC
18293766 AATAAATAAATGC
1 AATAAATAAATGC
18293779 AATA
1 AATA
18293783 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:18300032 original size:98 final size:98
Alignment explanation
Indices: 18299858--18300054 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
18299848 GTACAATAAA
*
18299858 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
18299923 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
* * *
18299956 ACTTTAAAAGAACATCTACTTATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
18300021 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
18300054 A
1 A
18300055 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:18300744 original size:23 final size:24
Alignment explanation
Indices: 18300716--18300761 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
18300706 ATATACATAT
18300716 AAATAT-GAAAATATTCATTAAAA
1 AAATATAGAAAATATTCATTAAAA
*
18300739 AAATATAGGAAAATATTCGTTAA
1 AAATATA-GAAAATATTCATTAA
18300762 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATATAGAAAATATTCATTAAAA
Found at i:18301554 original size:19 final size:20
Alignment explanation
Indices: 18301496--18301609 Score: 124
Period size: 21 Copynumber: 5.5 Consensus size: 20
18301486 AAATTAAATC
* *
18301496 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
18301516 TCTTCTAAGATTGTATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
18301540 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
18301561 TCT-AGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
18301581 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
*
18301600 TCCAAGATTG
1 TCTAAGATTG
18301610 TATATCCTCG
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 17 0.20
20 20 0.24
21 30 0.36
23 10 0.12
24 7 0.08
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:18301569 original size:20 final size:21
Alignment explanation
Indices: 18301519--18301614 Score: 144
Period size: 21 Copynumber: 4.7 Consensus size: 21
18301509 AATCATATCT
*
18301519 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
18301540 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
18301561 TCT-AGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
18301581 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
* *
18301600 TCCAAGATTGTATAT
1 TCTAAGATTGCATAT
18301615 CCTCGAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.25
20 20 0.29
21 32 0.46
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:18302001 original size:44 final size:44
Alignment explanation
Indices: 18301925--18302257 Score: 183
Period size: 44 Copynumber: 7.7 Consensus size: 44
18301915 CTCTAATCCA
* * * * *
18301925 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTTACTTAGTCTG
18301968 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGTTTACTTAGTCTG
* **
18302012 CTCCACTGCAACTTCAGGGAGATAAGACTAG---AC-GCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTTACTTAG-TCTG
* * ** * *
18302053 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TT-GATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGTTTACTTAG-TCTG
* * * *** *
18302096 CTCCACTGCAACTTCAGGAAGATAGGA-TTATCGGCTCTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTTACT-TAGTCTG
* * * ** *
18302140 CTCCATTGCAACTTTAGGGAGATAAGATTTG-CCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTTA-CTT-AGTCTG
* * * *
18302185 C-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTGAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGTTTACTTAGTCTG
18302229 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
18302258 AGATGCGATC
Statistics
Matches: 221, Mismatches: 44, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
40 23 0.10
41 8 0.04
42 4 0.02
43 22 0.10
44 125 0.57
45 39 0.18
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTTTACTTAGTCTG
Found at i:18302281 original size:40 final size:44
Alignment explanation
Indices: 18301962--18302295 Score: 189
Period size: 44 Copynumber: 7.8 Consensus size: 44
18301952 TTGTTTATTT
* ** * *
18301962 AGTCTGC-CTCACTGCAACTTCAG-GAGGATAAGACTTGTTTACTT
1 AGTCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTAGCATGCTG
* *
18302006 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ACGC-G
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGCATGCTG
* * * **
18302048 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAG-GTTTTG
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGA--CTAGCATGCTG
* * * * * *
18302091 A-TCCGCTCCACTGCAACTTCAG-GAAGATAGGATTATC-GGCTCT
1 AGTCTGCTCCACTGCAACTTCAGAG-AGATAAGACTAGCATGCT-G
* * * * * * *
18302134 AATCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGCCAT-CTTC
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAG-CATGC-TG
* * *
18302179 AGTCTAC-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTG
1 AGTCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTAGCATGCTG
*
18302223 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-G
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGCATGCTG
*
18302265 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
18302296 TCCAAGGTTT
Statistics
Matches: 227, Mismatches: 44, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
40 44 0.19
41 12 0.05
42 8 0.04
43 13 0.06
44 113 0.50
45 36 0.16
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGCATGCTG
Found at i:18302326 original size:44 final size:43
Alignment explanation
Indices: 18302008--18302384 Score: 159
Period size: 44 Copynumber: 8.7 Consensus size: 43
18301998 GTTTACTTAG
* * *****
18302008 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GACGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCAAGGTTTTAA
* *
18302049 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-CAAGGTTTTAA
* * * * * *
18302092 TCCGCTCCACTGCAACTTCAG-GAAGATAGGATTATCGGCTCTAA
1 TCTGCTCCACTGCAACTTCAGAG-AGATAAGATCA-AGGTTTTAA
* * * * * *
18302136 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTTGCCA--TCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA--T-CAAGGT-TTTAA
* ** * * *
18302181 TCTAC-CTCACTGCAACTTCA-AGAGGATAAGA-CTTGCTTGCTGAG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGATCAAGGTT--TTAA
* * * ***
18302225 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCAAGGTTTTAA
*
18302266 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT-CAAGGTTTTAA
* * * * * *
18302309 TCCGCTCCACTGCAACTTTA-AGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGA-GAGATAAGATCA-AGGTTTTAA
* *
18302353 TCTGTTCCACTGCAACTTCCGAGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
18302385 TTGCCATCTT
Statistics
Matches: 249, Mismatches: 61, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
40 44 0.18
41 13 0.05
42 5 0.02
43 22 0.09
44 135 0.54
45 29 0.12
46 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCAAGGTTTTAA
Found at i:18302343 original size:217 final size:217
Alignment explanation
Indices: 18301962--18302434 Score: 770
Period size: 217 Copynumber: 2.2 Consensus size: 217
18301952 TTGTTTATTT
* *
18301962 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
*
18302027 AGGGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTGA
66 AGGGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* * *
18302092 TCCGCTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTCTAATCTGCTCCATTGCAACTTTAG
131 TCCGCTCCACTGCAACTTAAGGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
*
18302157 GGAGATAAGATTTGCCATCTTC
196 AGAGATAAGATTTGCCATCTTC
* * *
18302179 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
*
18302244 AGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
66 AGGGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* * *
18302309 TCCGCTCCACTGCAACTTTAAGG-AGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCC
131 TCCGCTCCACTGCAAC-TTAAGGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCA
18302373 GAGAGATAAGATTTGCCATCTTC
195 GAGAGATAAGATTTGCCATCTTC
* *
18302396 AATCTGCC-CTACTGCAACTTCAGGAGGATAATACTTGCT
1 AGTCTGCCTC-ACTGCAACTTCAGGAGGATAAGACTTGCT
18302435 GGCTTAAATC
Statistics
Matches: 236, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
216 1 0.00
217 230 0.97
218 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
TCCGCTCCACTGCAACTTAAGGAAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
AGAGATAAGATTTGCCATCTTC
Found at i:18302635 original size:123 final size:123
Alignment explanation
Indices: 18302429--18303021 Score: 808
Period size: 132 Copynumber: 4.7 Consensus size: 123
18302419 GAGGATAATA
* * * *
18302429 CTTGCTGGCTTAAATCTACTTCCCACTATCTTGGAAATATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
18302494 CACTACTGCTTAGGGAGACAATCTTCAACCTACTCCGTTGCTGCTCAGGGAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGG
18302552 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* * *
18302617 CACTACTGCTTAGAGAGACAATCTTTAACCTACTCCGCTGCTGTTCAGGAAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGG
* * *
18302675 TTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTAATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
18302740 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTACTCAGGGAGACAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
18302805 GG
122 GG
* * * *
18302807 CTTGGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGTTT
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
18302872 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGTTGCTCAGGGAGACAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
18302937 GG
122 GG
* * *
18302939 CTTGGTGGCTTAAATCTACTTCCTACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
*
18303004 CACTACTGCTTAGGGAGA
66 CACTACTGCTTAGAGAGA
18303022 TGAGATCTAC
Statistics
Matches: 427, Mismatches: 34, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
123 189 0.44
125 3 0.01
127 2 0.00
128 2 0.00
130 2 0.00
132 229 0.54
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (123 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGG
Found at i:18303082 original size:44 final size:44
Alignment explanation
Indices: 18303024--18303560 Score: 569
Period size: 44 Copynumber: 12.2 Consensus size: 44
18303014 TAGGGAGATG
* * *
18303024 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * *
18303069 GGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * *
18303112 GGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* *
18303156 AGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * * *
18303201 ATATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
18303244 GGATTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
18303288 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
** * *
18303333 AGATCTGC-ATCTTCGATCCCCTTCCTACTAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
18303376 GGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* *
18303420 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * *
18303465 AGATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * ** * * * *
18303508 GGATCTACTATCTTTAATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
18303552 AGATCTGCT
1 AGATCTGCT
18303561 TTTTCACTGA
Statistics
Matches: 400, Mismatches: 85, Indels: 15
0.80 0.17 0.03
Matches are distributed among these distances:
43 90 0.22
44 240 0.60
45 70 0.17
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
Found at i:18303092 original size:132 final size:131
Alignment explanation
Indices: 18303024--18303562 Score: 925
Period size: 132 Copynumber: 4.1 Consensus size: 131
18303014 TAGGGAGATG
* *
18303024 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAGGATCTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
18303089 CTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
18303154 CA
130 CA
* *
18303156 AGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAATATCTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* *
18303221 CTTCCTACCAATATAGGAAGATAGGATTTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
18303286 CA
130 CA
* *
18303288 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCC
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
*
18303353 CTTCCTACTAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTAC-AATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
18303418 CA
130 CA
*
18303420 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATTTGCATCTTCGATCCA
1 AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* **
18303485 CTTCCTACCAATATAGGAAGACAGGATCTACTATCTTTAATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
18303550 CA
130 CA
18303552 AGATCTGCTTT
1 AGATCTGCTTT
18303563 TTCACTGATC
Statistics
Matches: 385, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 383 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (131 bp):
AGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
CTTCCTACAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
A
Found at i:18304792 original size:7 final size:8
Alignment explanation
Indices: 18304776--18304815 Score: 52
Period size: 7 Copynumber: 5.5 Consensus size: 8
18304766 AGCCTCTCCA
18304776 TTTT-ACT
1 TTTTCACT
18304783 TTTTCA-T
1 TTTTCACT
18304790 TTTTCACT
1 TTTTCACT
18304798 TTTT-ACT
1 TTTTCACT
18304805 TTTTCA-T
1 TTTTCACT
18304812 TTTT
1 TTTT
18304816 TTCATTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTCACT
Found at i:18304800 original size:15 final size:15
Alignment explanation
Indices: 18304776--18304822 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
18304766 AGCCTCTCCA
18304776 TTTT-ACTTTTTCAT
1 TTTTCACTTTTTCAT
18304790 TTTTCACTTTTT-ACT
1 TTTTCACTTTTTCA-T
*
18304805 TTTTCATTTTTTTCAT
1 TTTTCA-CTTTTTCAT
18304821 TT
1 TT
18304823 CGTCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 8 0.29
17 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCACTTTTTCAT
Found at i:18308852 original size:98 final size:98
Alignment explanation
Indices: 18308673--18308869 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
18308663 GTACAATAAA
*
18308673 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
18308738 CCTCTAGAATCTCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
* **
18308771 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGTTACAATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
18308836 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
18308869 A
1 A
18308870 TTGTTTTTAG
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:18309558 original size:23 final size:24
Alignment explanation
Indices: 18309530--18309575 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
18309520 ATATACATAT
18309530 AAATAT-GAAAATATTCATTAAAA
1 AAATATAGAAAATATTCATTAAAA
*
18309553 AAATATAGGAAAATATTCGTTAA
1 AAATATA-GAAAATATTCATTAA
18309576 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATATAGAAAATATTCATTAAAA
Found at i:18310358 original size:21 final size:21
Alignment explanation
Indices: 18310332--18310405 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
18310322 TCATATCTTA
18310332 TAAGATTGTATATATCATATC
1 TAAGATTGTATATATCATATC
*
18310353 TAAGATTGCATATATCATATC
1 TAAGATTGTATATATCATATC
*
18310374 TAAGATTG--CATATCATATC
1 TAAGATTGTATATATCATATC
*
18310393 CAAGATTGTATAT
1 TAAGATTGTATAT
18310406 CCTCGAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
21 30 0.64
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (21 bp):
TAAGATTGTATATATCATATC
Found at i:18310365 original size:19 final size:19
Alignment explanation
Indices: 18310343--18310406 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
18310333 AAGATTGTAT
18310343 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
18310362 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
18310383 ATATCATATCCAAGATTGT
1 ATATCATATCTAAGATTGC
18310402 ATATC
1 ATATC
18310407 CTCGAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:18318384 original size:17 final size:18
Alignment explanation
Indices: 18318359--18318393 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18318349 CTCTATGGTC
*
18318359 AATGGTTAA-TGTGTTTA
1 AATGATTAAGTGTGTTTA
18318376 AATGATTAAGTGTGTTTA
1 AATGATTAAGTGTGTTTA
18318394 TGTGTATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (18 bp):
AATGATTAAGTGTGTTTA
Found at i:18318801 original size:29 final size:29
Alignment explanation
Indices: 18318740--18318801 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
18318730 GATGCCTTTG
* **
18318740 TGGCTATCTTTGTTAAAAGAAAGTCTTTG
1 TGGCGATCTTTGTTAAAAGAAAGTCTTAC
*
18318769 TGGCGATCTTTGTTAAAAGGAAG-CATTAC
1 TGGCGATCTTTGTTAAAAGAAAGTC-TTAC
18318798 TGGC
1 TGGC
18318802 TATATCGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (29 bp):
TGGCGATCTTTGTTAAAAGAAAGTCTTAC
Found at i:18318871 original size:58 final size:58
Alignment explanation
Indices: 18318740--18318873 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
18318730 GATGCCTTTG
* * * * * *
18318740 TGGCTATCTTTGTTAAAAGAAAGTCTTTGTGGCGATCTTTGTTAAAAGGAAGCATTAC
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGACGATCTCTATTAAAAAGAAGCATTAC
* * * * *
18318798 TGGCTATATCGGTTAAAAGCAAGCCTTTGTGATGATCTCTATTAAAAAGAAGCCTCTA-
1 TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGACGATCTCTATTAAAAAGAAGCAT-TAC
*
18318856 TGGCGATCTCTGTTAAAA
1 TGGCTATCTCTGTTAAAA
18318874 AGATGTCTTG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
58 59 0.97
59 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (58 bp):
TGGCTATCTCTGTTAAAAGAAAGCCTTTGTGACGATCTCTATTAAAAAGAAGCATTAC
Found at i:18322952 original size:29 final size:29
Alignment explanation
Indices: 18322797--18322952 Score: 143
Period size: 29 Copynumber: 5.4 Consensus size: 29
18322787 ACCAGAATCT
* * *
18322797 ATCTCTGTTAAAAGGAAGCTTTTCTGGCG
1 ATCTATGTTAAAAGGAAGCCTTTGTGGCG
* * *
18322826 ATCTTTGTTTAAAA-AAAGCCTTTGTGGTG
1 ATCTATG-TTAAAAGGAAGCCTTTGTGGCG
* *
18322855 ATGTATGTTAAAAGGAAGCCTTTGTGGCT
1 ATCTATGTTAAAAGGAAGCCTTTGTGGCG
* * * **
18322884 ATCTATATTAAAAGGAAGCTTTTATGGAA
1 ATCTATGTTAAAAGGAAGCCTTTGTGGCG
***
18322913 ATCTCCATTAAAAGGAAGCCTTTGTGGCG
1 ATCTATGTTAAAAGGAAGCCTTTGTGGCG
*
18322942 ATCTTTGTTAA
1 ATCTATGTTAA
18322953 CAAAATGCCT
Statistics
Matches: 100, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 6 0.06
29 88 0.88
30 6 0.06
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (29 bp):
ATCTATGTTAAAAGGAAGCCTTTGTGGCG
Found at i:18336943 original size:27 final size:27
Alignment explanation
Indices: 18336912--18336965 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
18336902 TTTGTTAAGA
18336912 AGAAATTTTCTAATTAAGACTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
*
18336939 AGAAATTTTCTAATTAAGAGTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
18336966 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (27 bp):
AGAAATTTTCTAATTAAGACTTAATTT
Found at i:18338248 original size:17 final size:16
Alignment explanation
Indices: 18338226--18338257 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18338216 TATCTTTGAA
18338226 TGTAATGTGATTATATG
1 TGTAATGTGA-TATATG
18338243 TGTAATGTGATATAT
1 TGTAATGTGATATAT
18338258 ACTTAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
TGTAATGTGATATATG
Found at i:18349763 original size:13 final size:13
Alignment explanation
Indices: 18349745--18349770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18349735 TCAAACTATC
18349745 AAATTTTCACACA
1 AAATTTTCACACA
18349758 AAATTTTCACACA
1 AAATTTTCACACA
18349771 TATAACTTAA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:18471331 original size:27 final size:27
Alignment explanation
Indices: 18471247--18471423 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
18471237 TAAATTGTAC
18471247 AGCACTAAGTGTGC-ATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
18471273 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18471298 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
* *
18471327 GGCACTAAGTGTGAGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18471355 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18471382 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18471409 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18471424 GACTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.03
26 13 0.10
27 84 0.67
28 22 0.17
29 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18471387 original size:82 final size:80
Alignment explanation
Indices: 18471248--18471402 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 80
18471238 AAATTGTACA
* *
18471248 GCACTAAGTGTGCATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGTG
1 GCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGTG
18471313 CGAATTGACCATGCG
66 CGAATTGACCATGCG
* **
18471328 GCACTAAGTGTGAGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTG-CA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
18471391 TGTGCGAGTTGA
62 TGTGCGAATTGA
18471403 TTATATAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 12 0.18
81 1 0.02
82 48 0.74
83 1 0.02
84 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (80 bp):
GCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:18471414 original size:82 final size:80
Alignment explanation
Indices: 18471244--18471422 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 80
18471234 GATTAAATTG
* *
18471244 TACAGCACTAAGTGTGCATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAG
1 TACAGCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAG
18471309 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * * **
18471324 TGCGGCACTAAGTGTGAGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTG-CA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
18471387 TAAGTGTGCGAGTTGATTA
62 TAAGTGTGCGAATTGACCA
* *
18471406 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
18471423 GGACTCAATA
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
80 14 0.17
81 1 0.01
82 61 0.76
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAG
TGTGCGAATTGACCA
Found at i:18476750 original size:13 final size:13
Alignment explanation
Indices: 18476732--18476756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18476722 CTTTGGGTAC
18476732 CAAGCATAGTGAA
1 CAAGCATAGTGAA
18476745 CAAGCATAGTGA
1 CAAGCATAGTGA
18476757 GCAATCGGAC
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:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (13 bp):
CAAGCATAGTGAA
Found at i:18478604 original size:50 final size:50
Alignment explanation
Indices: 18478540--18478870 Score: 491
Period size: 50 Copynumber: 6.6 Consensus size: 50
18478530 CCAAAGCCGA
* ****
18478540 GTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGTGCCAAAAAAAT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
* ***
18478590 CTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGCCAT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
* * *
18478640 GTCCAAGACATGGTCTTACATGTGACCTCTCATCTCGGTGCCAACACCAT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
* **
18478690 GTCCCAGACATGGTCTTACATGAGACCTCTCATCTTAGTGCCAACGCCAT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
*
18478740 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCGT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
* *
18478790 GTCCTAGACATGGTCTTACGTGGGACCTCTCATCTCGGTGCCAACGCCAT
1 GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
*
18478840 GTCCCAGACATGTTCTTACATGGGACCTCTC
1 GTCCCAGACATGGTCTTACATGGGACCTCTC
18478871 TACTCAAATG
Statistics
Matches: 250, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 250 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCAT
Found at i:18479242 original size:30 final size:30
Alignment explanation
Indices: 18479207--18479264 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
18479197 CCTCGAATCT
18479207 AACTTTGT-CAAAATTACGATT-TTGCCCCTA
1 AACTTT-TACAAAATTAC-ATTATTGCCCCTA
*
18479237 AACTTTTACATAATTACATTATTGCCCC
1 AACTTTTACAAAATTACATTATTGCCCC
18479265 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTATTGCCCCTA
Found at i:18502242 original size:11 final size:11
Alignment explanation
Indices: 18502228--18502254 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
18502218 CCTCAAATTA
18502228 AGCCATTTCAC
1 AGCCATTTCAC
18502239 AGCCATTTCAC
1 AGCCATTTCAC
18502250 AGCCA
1 AGCCA
18502255 ATCCACACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.37, G:0.11, T:0.22
Consensus pattern (11 bp):
AGCCATTTCAC
Found at i:18506920 original size:47 final size:47
Alignment explanation
Indices: 18506861--18506953 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
18506851 GTGGAAATCT
* *
18506861 AAGTACAGAACAAGGGGAAATAGAGAGATCCAGTTGATTAGCCTAGA
1 AAGTACAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
*
18506908 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
1 AAGTACAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
18506954 GAATAGTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.42, C:0.13, G:0.29, T:0.16
Consensus pattern (47 bp):
AAGTACAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
Found at i:18525467 original size:104 final size:98
Alignment explanation
Indices: 18525322--18525608 Score: 299
Period size: 104 Copynumber: 2.8 Consensus size: 98
18525312 GTATTTCGGT
* * *
18525322 AATTTTACACAAAAGGGTATTTCGGTAATTTTACCTTTCGAGGGTATTTCTGTAATTCCACCCTT
1 AATTTTACCCAAAAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTC-GTAATT-TACCCTT
*
18525387 CAAGGGTATTTTGGTCTACCCTTCTAA-GGTATTTCAAA
64 CGAGGGTATTTTGGTCTACCCTTC-AAGGGTA-TTC--A
***
18525425 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAACTTTACCCT
1 AATTTTACCC-AAAAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCG-TAA-TTTACCCT
* * *
18525490 TCGAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTCT
63 TCGAGGGTATTTTGG----TCTACCCTTCAAGGGTATTCA
***
18525530 AATTTTACCCAAAAGGGTATTTCGGTAATTTTACCC-AAAAGGGTATTTCAGTAATTTTACCCTT
1 AATTTTACCCAAAAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTC-GTAA-TTTACCCTT
*
18525594 CGAGCGTATTTTGGT
64 CGAGGGTATTTTGGT
18525609 AATTTTACCC
Statistics
Matches: 156, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
99 1 0.01
103 44 0.28
104 81 0.52
105 12 0.08
107 5 0.03
108 13 0.08
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (98 bp):
AATTTTACCCAAAAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGTAATTTACCCTTCG
AGGGTATTTTGGTCTACCCTTCAAGGGTATTCA
Found at i:18525524 original size:131 final size:130
Alignment explanation
Indices: 18525273--18525527 Score: 357
Period size: 131 Copynumber: 2.0 Consensus size: 130
18525263 TTAGTAATTT
* * * *
18525273 TACCCTTCGAGGGTATTTGAATAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACACAAAAGG
1 TACCCTTCGAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACACAAAAGG
* * * **
18525338 GTATTTCGGTAATTTTACCTTTCGAGGGTATTTCTGTAATTCCACCCTTCAAGGGTATTTTGGTC
66 GTATTTCGATAACTTTACCCTTCGAGGGTATTTAGGTAATTCCACCCTTCAAGGGTATTTTGGTC
* * ***
18525403 TACCCTTCTAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAG
1 TACCCTTCGAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACAC-AAAAG
**
18525468 GGTATTTCGATAACTTTACCCTTCGAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATT
65 GGTATTTCGATAACTTTACCCTTCGAGGGTATTTAGGTAATTCCACCCTTCAAGGGTATT
18525528 CTAATTTTAC
Statistics
Matches: 108, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
130 53 0.49
131 55 0.51
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (130 bp):
TACCCTTCGAAGGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACACAAAAGG
GTATTTCGATAACTTTACCCTTCGAGGGTATTTAGGTAATTCCACCCTTCAAGGGTATTTTGGTC
Found at i:18525563 original size:26 final size:27
Alignment explanation
Indices: 18525266--18525643 Score: 334
Period size: 27 Copynumber: 14.4 Consensus size: 27
18525256 GGGTATATTA
*
18525266 GTAATTTTACCCTTCGAGGGTATTT-G
1 GTAATTTTACCCTTCAAGGGTATTTCG
* **
18525292 AATAATTTTACCCTTTGAGGGTATTTCG
1 -GTAATTTTACCCTTCAAGGGTATTTCG
* **
18525320 GTAATTTTACAC-AAAAGGGTATTTCG
1 GTAATTTTACCCTTCAAGGGTATTTCG
* * *
18525346 GTAATTTTACCTTTCGAGGGTATTTCT
1 GTAATTTTACCCTTCAAGGGTATTTCG
** *
18525373 GTAATTCCACCCTTCAAGGGTATTTTG
1 GTAATTTTACCCTTCAAGGGTATTTCG
* *
18525400 G----TCTACCCTTCTAA-GGTATTTCA
1 GTAATTTTACCCTTC-AAGGGTATTTCG
** *
18525423 AAAATTTTACCCTTCGAGGGTATTTCG
1 GTAATTTTACCCTTCAAGGGTATTTCG
*
18525450 GTAATTTTACCCTTCGAGGGTATTTCG
1 GTAATTTTACCCTTCAAGGGTATTTCG
* * * *
18525477 ATAACTTTACCCTTCGAGGGTATTTAG
1 GTAATTTTACCCTTCAAGGGTATTTCG
18525504 GTAATTTTACCCTTCAAGGGTA-TTC-
1 GTAATTTTACCCTTCAAGGGTATTTCG
**
18525529 -TAATTTTACCC-AAAAGGGTATTTCG
1 GTAATTTTACCCTTCAAGGGTATTTCG
** *
18525554 GTAATTTTACCC-AAAAGGGTATTTCA
1 GTAATTTTACCCTTCAAGGGTATTTCG
* * *
18525580 GTAATTTTACCCTTCGAGCGTATTTTG
1 GTAATTTTACCCTTCAAGGGTATTTCG
**
18525607 GTAATTTTACCC-AAAAGGGTATTTCG
1 GTAATTTTACCCTTCAAGGGTATTTCG
*
18525633 ATAA-TTTACCC
1 GTAATTTTACCC
18525644 ACGAATCATA
Statistics
Matches: 289, Mismatches: 50, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
23 23 0.08
24 16 0.06
25 7 0.02
26 72 0.25
27 170 0.59
28 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACCCTTCAAGGGTATTTCG
Found at i:18525575 original size:157 final size:153
Alignment explanation
Indices: 18525268--18525644 Score: 386
Period size: 157 Copynumber: 2.4 Consensus size: 153
18525258 GTATATTAGT
* * * *
18525268 AATTTTACCCTTCGAGGGTATTTGAATAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACACA
1 AATTTTACCCTTCGAGGGTATTTG-GTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCCA
* * * **
18525333 AAAGGGTATTTCGGTAATTTTACCTTTCGAGGGTATTTCTGTAATTCCACCCTTCAAGGGTATTT
64 AAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTC-GTAATTCCACCCTAAAAGGGTATTT
* **
18525398 TGGTCTACCCTTCTAAGGTATTTCAAA
128 CGGTCTACCC-TAAAAGGTATTTCAAA
*
18525425 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAACTTTACCCT
1 AATTTTACCCTTCGAGGGTATTT-GGTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCC-
*** **
18525490 TCGAGGGTATTTAGGTAATTTTACCCTTCAAGGGTA-TTC-TAATTTTACCC-AAAAGGGTATTT
63 AAAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTT
* **
18525552 CGGTAATTTTACCC-AAAAGGGTATTTCAGT
128 CGG----TCTACCCTAAAA-GGTATTTCAAA
* * *
18525582 AATTTTACCCTTCGAGCGTATTTTGGTAATTTTACCC-AAAAGGGTATTTCGATAATTTACCCA
1 AATTTTACCCTTCGAGGGTA-TTTGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCA
18525645 CGAATCATAG
Statistics
Matches: 186, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
154 12 0.06
155 16 0.09
156 17 0.09
157 101 0.54
158 40 0.22
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (153 bp):
AATTTTACCCTTCGAGGGTATTTGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCAAA
AGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTTCGG
TCTACCCTAAAAGGTATTTCAAA
Found at i:18527057 original size:56 final size:56
Alignment explanation
Indices: 18526971--18527146 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
18526961 ACAAGGGATG
*
18526971 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18527027 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
18527083 ATGGGCAAAACATGTCATGAAACATGTTTTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18527139 ATGGGCAA
1 ATGGGCAA
18527147 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:18528491 original size:119 final size:119
Alignment explanation
Indices: 18528277--18528498 Score: 290
Period size: 119 Copynumber: 1.9 Consensus size: 119
18528267 TCGAATGATG
*
18528277 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
18528342 GTGCGAGATACTAATTCCGGGATAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * **
18528396 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
18528459 TTGTGCGAGTTACT-ATAACC-GGCTATGTCCCGAAGGCATT
64 TTGTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATT
18528499 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
118 8 0.09
119 74 0.83
120 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:18528507 original size:119 final size:119
Alignment explanation
Indices: 18528277--18528533 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
18528267 TCGAATGATG
* *
18528277 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
18528342 GTGCGAGATACTAATTCCGGGATAAGCCCGAAGGCATTGGTGCGAGTTA-CTAAA
66 GTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTGGAACGAG-TAGCTAAA
* * **
18528396 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
18528459 TTGTGCGAGTTACT-ATAACC-GGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGATAAG-CCCGAAGGCATTGGAACGAGTAGCTAAA
* *
18528515 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
18528534 TACGTGATTT
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
118 24 0.21
119 86 0.74
120 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGATAAGCCCGAAGGCATTGGAACGAGTAGCTAAA
Found at i:18528519 original size:79 final size:78
Alignment explanation
Indices: 18528277--18528500 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
18528267 TCGAATGATG
* * * * *
18528277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGG-CTAAG-TCCCGAAGGCAT
18528340 TTGTGCGAGATACTAA
63 TTGTGCGAGATACTAA
* * *
18528356 TTCCGGGATAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCAT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGCTAAGTCCCGAAGGCAT
* *
18528419 TTGTGCAAGTTACTAAA
63 TTGTGCGAGATACT-AA
*
18528436 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCATTTG
18528501 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
78 2 0.02
79 73 0.59
80 47 0.38
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAA
Found at i:18528533 original size:39 final size:40
Alignment explanation
Indices: 18528277--18528500 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
18528267 TCGAATGATG
* * * * *
18528277 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
18528317 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18528357 TCCGGGATAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18528396 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
18528436 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18528477 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
18528501 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 54 0.34
40 97 0.60
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18535074 original size:55 final size:56
Alignment explanation
Indices: 18534940--18535110 Score: 319
Period size: 56 Copynumber: 3.1 Consensus size: 56
18534930 ACAAGGGATG
*
18534940 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18534996 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAAT-AGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18535051 ATGGGCAAAACATGTCATGAAACATGTT-TGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18535106 ATGGG
1 ATGGG
18535111 GCAATAAACT
Statistics
Matches: 113, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
54 20 0.18
55 45 0.40
56 48 0.42
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:18536477 original size:40 final size:40
Alignment explanation
Indices: 18536241--18536463 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
18536231 TCGAATGATG
* * * *
18536241 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
18536281 TCCGGACTAAGAT-CCGAAGGCA-TT-TGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18536319 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18536358 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18536398 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18536439 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18536464 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
37 9 0.06
38 16 0.10
39 25 0.16
40 106 0.67
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18538192 original size:4 final size:4
Alignment explanation
Indices: 18538183--18538214 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
18538173 TTAAACTAAG
18538183 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
18538215 ACTTTACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:18546777 original size:30 final size:30
Alignment explanation
Indices: 18546717--18546778 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
18546707 GCTTTTTGAA
** * * *
18546717 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
18546747 AATATTTACAAAAAGAGAAACCAAAATTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
18546777 AA
1 AA
18546779 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAATTTT
Found at i:18552419 original size:32 final size:32
Alignment explanation
Indices: 18552382--18552444 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
18552372 TCCTTCTCTA
18552382 ACTTGCTTCTCTTCTTCACTGTCAACAAGTTG
1 ACTTGCTTCTCTTCTTCACTGTCAACAAGTTG
* *
18552414 ACTTGCTTCTCTTCTTCGCTGTCGACAAGTT
1 ACTTGCTTCTCTTCTTCACTGTCAACAAGTT
18552445 TGTTCAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.16, C:0.29, G:0.14, T:0.41
Consensus pattern (32 bp):
ACTTGCTTCTCTTCTTCACTGTCAACAAGTTG
Found at i:18562864 original size:15 final size:15
Alignment explanation
Indices: 18562844--18562900 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
18562834 TCTTTAGATA
18562844 TGAAACTATAGACTT-
1 TGAAACTATAGA-TTG
*
18562859 TGAAACTATAAAATTG
1 TGAAACTAT-AGATTG
18562875 TGAAAACTATAGATTG
1 TG-AAACTATAGATTG
*
18562891 TGAGACTATA
1 TGAAACTATA
18562901 AGAAACTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 18 0.50
16 11 0.31
17 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:18562890 original size:16 final size:16
Alignment explanation
Indices: 18562846--18562893 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
18562836 TTTAGATATG
18562846 AAACTATAGACTT-TG-
1 AAACTATAGA-TTGTGA
*
18562861 AAACTATAAAATTGTGA
1 AAACTAT-AGATTGTGA
18562878 AAACTATAGATTGTGA
1 AAACTATAGATTGTGA
18562894 GACTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (16 bp):
AAACTATAGATTGTGA
Found at i:18563600 original size:19 final size:19
Alignment explanation
Indices: 18563576--18563612 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18563566 AGTTAGATAT
18563576 GTGGAGGCCAGGAGCCTTA
1 GTGGAGGCCAGGAGCCTTA
18563595 GTGGAGGCCAGGAGCCTT
1 GTGGAGGCCAGGAGCCTT
18563613 GAGTTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (19 bp):
GTGGAGGCCAGGAGCCTTA
Found at i:18567798 original size:20 final size:22
Alignment explanation
Indices: 18567754--18567800 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
18567744 ACTGATTTAT
18567754 TAAA-ATTGTAAAATTCAAGGA
1 TAAATATTGTAAAATTCAAGGA
*
18567775 -AAATATTGT-AAATT-ATGGA
1 TAAATATTGTAAAATTCAAGGA
18567794 TAAATAT
1 TAAATAT
18567801 GGGCTCTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (22 bp):
TAAATATTGTAAAATTCAAGGA
Found at i:18570558 original size:82 final size:81
Alignment explanation
Indices: 18570442--18570597 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
18570432 AAATTGTACA
* * * *
18570442 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
18570506 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18570523 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
18570588 TGCGAGTTGA
65 TGCGAATTGA
18570598 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18570565 original size:55 final size:52
Alignment explanation
Indices: 18570441--18570594 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
18570431 TAAATTGTAC
* *
18570441 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
18570494 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
18570549 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
18570595 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:18570599 original size:27 final size:27
Alignment explanation
Indices: 18570442--18570597 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
18570432 AAATTGTACA
*
18570442 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
18570469 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
18570496 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
18570523 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
18570551 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
18570578 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
18570598 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:18570608 original size:27 final size:27
Alignment explanation
Indices: 18570434--18570618 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
18570424 GCGGGATTAA
*
18570434 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
18570461 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
18570488 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
18570515 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
18570543 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
18570570 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
18570597 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
18570619 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:18570609 original size:82 final size:81
Alignment explanation
Indices: 18570434--18570618 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
18570424 GCGGGATTAA
* * * *
18570434 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
18570499 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
18570515 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
18570579 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
18570597 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
18570619 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:18579845 original size:82 final size:81
Alignment explanation
Indices: 18579729--18579884 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
18579719 AAATTGTACA
* * * *
18579729 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
18579793 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
18579810 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
18579875 TGCGAGTTGA
65 TGCGAATTGA
18579885 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18579852 original size:55 final size:52
Alignment explanation
Indices: 18579728--18579881 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
18579718 TAAATTGTAC
* *
18579728 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
18579781 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
18579836 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
18579882 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:18579886 original size:27 final size:27
Alignment explanation
Indices: 18579729--18579884 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
18579719 AAATTGTACA
*
18579729 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
18579756 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
18579783 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
18579810 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
18579838 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
18579865 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
18579885 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:18579895 original size:27 final size:27
Alignment explanation
Indices: 18579721--18579905 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
18579711 GCGGGATTAA
*
18579721 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
18579748 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
18579775 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
18579802 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
18579830 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
18579857 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
18579884 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
18579906 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:18579896 original size:82 final size:81
Alignment explanation
Indices: 18579721--18579905 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
18579711 GCGGGATTAA
* * * *
18579721 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
18579786 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
18579802 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
18579866 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
18579884 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
18579906 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:18587397 original size:51 final size:50
Alignment explanation
Indices: 18587136--18587623 Score: 470
Period size: 51 Copynumber: 9.7 Consensus size: 50
18587126 TCATTCGATA
* *
18587136 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTT-TACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTAT-CGGTT
* * *
18587186 CACGTAGTAGCCTTCATATAGTACTACACACGTGATCAAGTTT-TACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTAT-CGGTT
* * *
18587236 CACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTT-TACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTAT-CGGTT
*
18587286 CACGTAGTAGCCTTCACATAGTACT--ACACGTGACCAAAGCTTT-TCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA--TTTATCGGTT
* * * * *
18587335 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTTATCGGTT
* * * * *
18587386 CACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA-TTTATCGGTT
* * * * * *
18587437 CACATTGT-GACCATT-ACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAG-CC-TTCACATAGTACTACACACGTGACCA-AATTTATCGGTT
** * * * *
18587488 CACGTAGTAGCCTTCACACGGTACTACATACGTGACCAAAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA-TTTATCGGTT
* * * * * *
18587539 CACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTTATCGGTT
*
18587590 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
18587624 TTCATCGATA
Statistics
Matches: 361, Mismatches: 63, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
48 11 0.03
49 27 0.07
50 133 0.37
51 184 0.51
52 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTATCGGTT
Found at i:18587456 original size:102 final size:102
Alignment explanation
Indices: 18587134--18587623 Score: 654
Period size: 102 Copynumber: 4.9 Consensus size: 102
18587124 TATCATTCGA
* * * * *** *
18587134 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* * * *
18587198 TTCATATAGTACTACACACGTGATC-AAG-TTTTACGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCT-CGG
* * * * *** *
18587234 TTCACATAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* *
18587298 TTCACATAGTACT--ACACGTGACCAAAGCTTTTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
18587333 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
*
18587398 TTCACACAGTACTACACACGTGACGAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
*
18587435 TACACATTGT-GACCATT-ACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAG
1 TACACATAGTAG-CC-TTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAG
* *
18587498 CCTTCACACGGTACTACATACGTGACCAAAGCTTCTCGG
64 CCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
*
18587537 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
18587602 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
18587624 TTCATCGATA
Statistics
Matches: 360, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
98 9 0.03
99 46 0.13
100 106 0.29
101 3 0.01
102 193 0.54
103 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
Found at i:18600709 original size:22 final size:22
Alignment explanation
Indices: 18600675--18600717 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
18600665 GAATGGCAAT
18600675 TTGTCACATTTTTACTGACAAC
1 TTGTCACATTTTTACTGACAAC
18600697 TTGTCTACATTTTTACTGACA
1 TTGTC-ACATTTTTACTGACA
18600718 GAATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (22 bp):
TTGTCACATTTTTACTGACAAC
Found at i:18613899 original size:32 final size:31
Alignment explanation
Indices: 18613856--18613925 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 31
18613846 CTTTTTTTAA
18613856 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
18613887 TTTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTT-AATTTTAAAATATTTTTAAAATAC
18613919 TTTTTTT
1 TTTTTTT
18613926 TAAAAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 7 0.18
32 31 0.82
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:18613947 original size:75 final size:72
Alignment explanation
Indices: 18613817--18613991 Score: 257
Period size: 75 Copynumber: 2.4 Consensus size: 72
18613807 AATATATTTA
* *
18613817 TTTTTTT-AATTTTAAAATATTTTT-ACATACTTTTTTTAATTTTTTTAATTTTAAAATATTTTT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTAATTTTAAAATATTTTT
18613880 AAAATAC
66 AAAATAC
18613887 TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAAAATTTTTTAATTTTAAAATATT
1 TTTTTTTAAATTTTAAAATATTTTTAAAATAC-TTTTTTT--AAATTTTTTAATTTTAAAATATT
18613952 TTTAAAATAC
63 TTTAAAATAC
* **
18613962 TTTTTTTAATTTTTTCAA-ATTTTTAAAATA
1 TTTTTTTAAATTTTAAAATATTTTTAAAATA
18613992 AAAATGGGCC
Statistics
Matches: 95, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
70 7 0.07
71 17 0.18
72 5 0.05
73 7 0.07
74 12 0.13
75 47 0.49
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (72 bp):
TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAAATTTTTTAATTTTAAAATATTTTT
AAAATAC
Found at i:18613967 original size:31 final size:31
Alignment explanation
Indices: 18613932--18613991 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
18613922 TTTTTAAAAA
18613932 TTTTTTAA-TTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTAAAA-ATTTTTAAAATACT
**
18613963 TTTTTTAATTTTTTCAAATTTTTAAAATA
1 TTTTTTAATTTTTAAAAATTTTTAAAATA
18613992 AAAATGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTAATTTTTAAAAATTTTTAAAATACT
Found at i:18619759 original size:16 final size:16
Alignment explanation
Indices: 18619720--18619759 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
18619710 AATTTCAGTA
*
18619720 ATATTTTAAAAAATAT
1 ATATTTTTAAAAATAT
* *
18619736 AAAATTTTAAAAATAT
1 ATATTTTTAAAAATAT
18619752 ATATTTTT
1 ATATTTTT
18619760 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTTAAAAATAT
Found at i:18622490 original size:14 final size:14
Alignment explanation
Indices: 18622473--18622504 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
18622463 TAACCATTTT
18622473 TTAACTTTTTGGAG
1 TTAACTTTTTGGAG
18622487 TTAACTTTTTGGAG
1 TTAACTTTTTGGAG
18622501 TTAA
1 TTAA
18622505 GTGAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (14 bp):
TTAACTTTTTGGAG
Found at i:18623717 original size:12 final size:11
Alignment explanation
Indices: 18623700--18623729 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
18623690 TCTTTTTCTT
18623700 AAGAAAAAGAAA
1 AAGAAAAAG-AA
18623712 AAGAAAAAGAA
1 AAGAAAAAGAA
18623723 AAGAAAA
1 AAGAAAA
18623730 CTTCTCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:18623718 original size:5 final size:6
Alignment explanation
Indices: 18623700--18623729 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
18623690 TCTTTTTCTT
18623700 AAGAAA AAGAAA AAGAAA AAG-AA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
18623730 CTTCTCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:18625947 original size:29 final size:29
Alignment explanation
Indices: 18625885--18625950 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
18625875 CGTAAAATTG
*
18625885 AAATTTAGTTATTATATTTTTATTTTTAT
1 AAATTTAGTTATTATATTTTTAATTTTAT
* *
18625914 GAATTTAGTT-TTTTATCTTTTAAATTTTA-
1 AAATTTAGTTATTATAT-TTTT-AATTTTAT
18625943 AAATTTAG
1 AAATTTAG
18625951 GTCTTAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 5 0.16
29 20 0.65
30 6 0.19
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.61
Consensus pattern (29 bp):
AAATTTAGTTATTATATTTTTAATTTTAT
Found at i:18626140 original size:28 final size:27
Alignment explanation
Indices: 18626109--18626187 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
18626099 ACGATTAGAT
*
18626109 TTAAATTTTAAAATATTAAAATAAAGAA
1 TTAAATTTTAAAATATAAAAATAAA-AA
* *
18626137 TTAAATTTTTGAAAATAAAAAAATAGAAA
1 TTAAA-TTTT-AAAATATAAAAATAAAAA
*
18626166 TTAAATTTCAAAACTATAAAAA
1 TTAAATTTTAAAA-TATAAAAA
18626188 AAACACAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.09
28 15 0.35
29 11 0.26
30 13 0.30
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (27 bp):
TTAAATTTTAAAATATAAAAATAAAAA
Found at i:18626167 original size:29 final size:29
Alignment explanation
Indices: 18626109--18626173 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
18626099 ACGATTAGAT
**
18626109 TTAAA-TTTTAAAATATTAAAATAAAGAA
1 TTAAATTTTTAAAATAAAAAAATAAAGAA
*
18626137 TTAAATTTTTGAAAATAAAAAAATAGA-AA
1 TTAAATTTTT-AAAATAAAAAAATAAAGAA
18626166 TTAAATTT
1 TTAAATTT
18626174 CAAAACTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.16
29 14 0.44
30 13 0.41
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (29 bp):
TTAAATTTTTAAAATAAAAAAATAAAGAA
Found at i:18626791 original size:17 final size:19
Alignment explanation
Indices: 18626762--18626797 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18626752 CATAACTTTT
18626762 TAAAGTAAAAATT-AAAAA
1 TAAAGTAAAAATTGAAAAA
18626780 TAAAGT-AAAATTGAAAAA
1 TAAAGTAAAAATTGAAAAA
18626798 GAGAGAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAGTAAAAATTGAAAAA
Found at i:18627696 original size:42 final size:42
Alignment explanation
Indices: 18627591--18627846 Score: 239
Period size: 42 Copynumber: 6.0 Consensus size: 42
18627581 TTTTGAAGCA
* * * *
18627591 CCGCTAAAGAACATGATCTTCAGCGGCGCTTGTGA-AAAAGACG
1 CCGCTAAAGAACATGTTCTTTAGCGACGCTT-T-ATAAAAAACG
* * * *
18627634 CCGCTGAAGATCATGTTCTTTAACGACACTTTATAAAAAACG
1 CCGCTAAAGAACATGTTCTTTAGCGACGCTTTATAAAAAACG
* * *
18627676 CCGCTAAAGAACATGATCTTTAGCGGCGCTTCA-AAAAAACG
1 CCGCTAAAGAACATGTTCTTTAGCGACGCTTTATAAAAAACG
* * * * *
18627717 CCACTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACG
1 CCGCTAAAGAACATGTTCTTTAGCGACGCTTTATAAAAAACG
* * * * * *
18627759 CCACTAAAGATCATGTTCTTTAGCAACGTTTTATTCACAAACG
1 CCGCTAAAGAACATGTTCTTTAGCGACGCTTTA-TAAAAAACG
*
18627802 TCGCTAAAAGAA-ATGTTCTTTAGCGACGCTTTTATAAAAAACG
1 CCGCT-AAAGAACATGTTCTTTAGCGACGC-TTTATAAAAAACG
18627845 CC
1 CC
18627847 AGTATTTTTG
Statistics
Matches: 175, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
41 39 0.22
42 71 0.41
43 56 0.32
44 9 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (42 bp):
CCGCTAAAGAACATGTTCTTTAGCGACGCTTTATAAAAAACG
Found at i:18627724 original size:41 final size:41
Alignment explanation
Indices: 18627540--18627782 Score: 216
Period size: 42 Copynumber: 5.8 Consensus size: 41
18627530 AGCGTTTACA
* * *
18627540 AAAATAAACGCCACTAAAGATCATGATCTTTAGTGGCGTTTT
1 AAAA-AAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTC
**** * * * * * *
18627582 TTTGAAGCACCGCTAAAGAACATGATCTTCAGCGGCGCTTGTG
1 AAAAAAACGCCACTAAAGATCATGATCTTTAGCGGCGC-T-TC
* * * * * * * *
18627625 AAAAAGACGCCGCTGAAGATCATGTTCTTTAACGACACTTT
1 AAAAAAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTC
* *
18627666 ATAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTC
1 A-AAAAAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTC
*
18627708 AAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTC
1 AAAAAAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTC
*
18627749 AAAAAAAACGCCACTAAAGATCATGTTCTTTAGC
1 -AAAAAAACGCCACTAAAGATCATGATCTTTAGC
18627783 AACGTTTTAT
Statistics
Matches: 159, Mismatches: 38, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
41 66 0.42
42 68 0.43
43 25 0.16
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCACTAAAGATCATGATCTTTAGCGGCGCTTC
Found at i:18627759 original size:83 final size:85
Alignment explanation
Indices: 18627591--18627782 Score: 253
Period size: 83 Copynumber: 2.3 Consensus size: 85
18627581 TTTTGAAGCA
* * * * *
18627591 CCGCTAAAGAACATGATCTTCAGCGGCGCTTGTGAAAAAGACGCCGCTGAAGATCATGTTCTTTA
1 CCGCTAAAGAACATGATCTTTAGCGGCGCTTGTCAAAAAAACGCCACTAAAGATCATGTTCTTTA
* *
18627656 ACGACACTTTATAAAAAACG
66 ACGACACTTCAAAAAAAACG
18627676 CCGCTAAAGAACATGATCTTTAGCGGCGC-T-TCAAAAAAACGCCACTAAAGATCATGTTCTTTA
1 CCGCTAAAGAACATGATCTTTAGCGGCGCTTGTCAAAAAAACGCCACTAAAGATCATGTTCTTTA
* * *
18627739 GCGGCGCTTCAAAAAAAACG
66 ACGACACTTCAAAAAAAACG
* * *
18627759 CCACTAAAGATCATGTTCTTTAGC
1 CCGCTAAAGAACATGATCTTTAGC
18627783 AACGTTTTAT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 65 0.69
84 1 0.01
85 28 0.30
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (85 bp):
CCGCTAAAGAACATGATCTTTAGCGGCGCTTGTCAAAAAAACGCCACTAAAGATCATGTTCTTTA
ACGACACTTCAAAAAAAACG
Found at i:18627801 original size:126 final size:128
Alignment explanation
Indices: 18627594--18627847 Score: 300
Period size: 126 Copynumber: 2.0 Consensus size: 128
18627584 TGAAGCACCG
** * * * *
18627594 CTAAAGAACATGATCTTCAGCGGCGCTTGTGAAAAAGACGCCGCTGAAGATCATGTTCTTTAACG
1 CTAAAGAACATGATCTTCAGCGGCGCTTGCAAAAAAAACGCCACTAAAGATCATGTTCTTTAACA
*
18627659 ACACTTTATAAAAAACGCCGCT-AAAGAACATGATCTTTAGCGGCGC-TTCA-AAAAAACGCCA
66 ACACTTTATAAAAAACGCCGCTAAAAGAA-ATGATCTTTAGCGACGCTTTCATAAAAAACGCCA
* * * *
18627720 CTAAAGATCATGTTCTTTAGCGGCGCTT-CAAAAAAAACGCCACTAAAGATCATGTTCTTTAGCA
1 CTAAAGAACATGATCTTCAGCGGCGCTTGCAAAAAAAACGCCACTAAAGATCATGTTCTTTAACA
** * * * * *
18627784 ACGTTTTATTCACAAACGTCGCTAAAAGAAATGTTCTTTAGCGACGCTTTTATAAAAAACGCCA
66 ACACTTTA-TAAAAAACGCCGCTAAAAGAAATGATCTTTAGCGACGCTTTCATAAAAAACGCCA
18627848 GTATTTTTGG
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
125 35 0.33
126 51 0.48
127 9 0.08
128 11 0.10
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (128 bp):
CTAAAGAACATGATCTTCAGCGGCGCTTGCAAAAAAAACGCCACTAAAGATCATGTTCTTTAACA
ACACTTTATAAAAAACGCCGCTAAAAGAAATGATCTTTAGCGACGCTTTCATAAAAAACGCCA
Done.