Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 56 of 182
Found at i:18524688 original size:52 final size:52
Alignment explanation
Indices: 18524606--18524714 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 52
18524596 AATCCTCGCA
* * *
18524606 ATGACACATAGCCACCGGACCTTATAATCCGC-AAGAGATTCGTATACTCACG
1 ATGACACAAAGCCACCGGACCTTATAATCCGCAAAG-GATCCATATACTCACG
* * * *
18524658 ATGACACAAAGTCATCGGACCTCT-TGATCCGTAAAGGATCCATATACTCACG
1 ATGACACAAAGCCACCGGACCT-TATAATCCGCAAAGGATCCATATACTCACG
18524710 ATGAC
1 ATGAC
18524715 TCTTAATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
52 44 0.92
53 4 0.08
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (52 bp):
ATGACACAAAGCCACCGGACCTTATAATCCGCAAAGGATCCATATACTCACG
Found at i:18524731 original size:52 final size:51
Alignment explanation
Indices: 18524623--18524887 Score: 268
Period size: 52 Copynumber: 5.1 Consensus size: 51
18524613 ATAGCCACCG
* * * * *
18524623 GACCTTATAATCCG-CAAGAGATTCGTATACTCACGATGACAC-AAAGTCATCG
1 GACCTT-TAATCCGTAAAG-GATTCATTTACTCACGATGACACTTAA-TCATCA
* * * * *
18524675 GACCTCTTGATCCGTAAAGGATCCATATACTCACGATGACTCTTAATAATCA
1 GACCT-TTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAATCATCA
* *
18524727 GACCTATTAATCCGTAAAGGATTCATTTACTCACGATAACACTTAGTCATCA
1 GACCT-TTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAATCATCA
* * * *
18524779 AATCTTTAATCCGT-AAGGAATTCATTTACTCACAATGACACTTAGTCATCA
1 GACCTTTAATCCGTAAAGG-ATTCATTTACTCACGATGACACTTAATCATCA
* * *
18524830 -AGCCTTTAATCCATAAGGGATTCATTTACTCACGATGACACTTAATTATCA
1 GA-CCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAATCATCA
18524881 GACCTTT
1 GACCTTT
18524888 TTGTTTACGG
Statistics
Matches: 180, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
50 5 0.03
51 83 0.46
52 86 0.48
53 6 0.03
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (51 bp):
GACCTTTAATCCGTAAAGGATTCATTTACTCACGATGACACTTAATCATCA
Found at i:18524854 original size:102 final size:103
Alignment explanation
Indices: 18524684--18524873 Score: 260
Period size: 102 Copynumber: 1.9 Consensus size: 103
18524674 GGACCTCTTG
* * *
18524684 ATCCGTAAAGGATCCATATACTCACGATGACTCTTAATAATCAGACCTATTAATCCGTAAAGGAT
1 ATCCGTAAAGGATCCATATACTCACAATGACACTTAATAATCAGACCTATTAATCCATAAAGGAT
18524749 TCATTTACTCACGATAACACTTAGTCATCAAATCTTTA
66 TCATTTACTCACGATAACACTTAGTCATCAAATCTTTA
* * * * *
18524787 ATCCGT-AAGGAATTCATTTACTCACAATGACACTTAGTCATCA-AGCCT-TTAATCCATAAGGG
1 ATCCGTAAAGG-ATCCATATACTCACAATGACACTTAATAATCAGA-CCTATTAATCCATAAAGG
*
18524849 ATTCATTTACTCACGATGACACTTA
64 ATTCATTTACTCACGATAACACTTA
18524874 ATTATCAGAC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
102 41 0.54
103 35 0.46
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (103 bp):
ATCCGTAAAGGATCCATATACTCACAATGACACTTAATAATCAGACCTATTAATCCATAAAGGAT
TCATTTACTCACGATAACACTTAGTCATCAAATCTTTA
Found at i:18527396 original size:17 final size:18
Alignment explanation
Indices: 18527374--18527408 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18527364 TTCTTTCGAA
18527374 TAAATT-ATTTATATGTT
1 TAAATTGATTTATATGTT
*
18527391 TAAATTGATTTTTATGTT
1 TAAATTGATTTATATGTT
18527409 GGAATACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (18 bp):
TAAATTGATTTATATGTT
Found at i:18527406 original size:55 final size:55
Alignment explanation
Indices: 18527268--18527532 Score: 295
Period size: 55 Copynumber: 4.9 Consensus size: 55
18527258 GTTTGGATCG
* * * * *
18527268 ATTGTTTTTATATTTAAATCGATTGTCATGTTGGAATACTGCTT-TTTTTAATCG
1 ATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTAAATCA
* * * ** *
18527322 ATTGTTTATGTATTTAAATCGATTGTTATGGTGGAATACTGCTTCTTTCGAATAA
1 ATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTAAATCA
* * * *
18527377 ATTATTTATATGTTTAAATTGATTTTTATGTTGGAATACTACTTCTTTTAAATCA
1 ATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTAAATCA
* * *
18527432 ATTGTTTATATGTTTAAATCGATT-TTCATGTTGGAATTCTGTTTCTTTTAAATCG
1 ATTGTTTATATGTTTAAATCGATTGTT-ATGTTGGAATACTGCTTCTTTTAAATCA
* * *
18527487 ATTGTTTCTATGCTT-AATCGATTGTTATAG-TGGAATATTGCTTCTT
1 ATTGTTTATATGTTTAAATCGATTGTTAT-GTTGGAATACTGCTTCTT
18527533 CTTTTGAATA
Statistics
Matches: 178, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
54 65 0.37
55 113 0.63
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (55 bp):
ATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTAAATCA
Found at i:18527638 original size:55 final size:55
Alignment explanation
Indices: 18527543--18527661 Score: 204
Period size: 55 Copynumber: 2.2 Consensus size: 55
18527533 CTTTTGAATA
*
18527543 GATTGATATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGTTTAAATC
1 GATTGTTATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGTTTAAATC
*
18527598 GATTGTTATGTTGGAATACTACTTCTTTTGAATC-ATTTGTTTATATGTTTAAATC
1 GATTGTTATGTTGGAATACTACTTCTTTTAAATCGA-TTGTTTATATGTTTAAATC
18527653 GATTGTTAT
1 GATTGTTAT
18527662 ATAACACAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 1 0.02
55 60 0.98
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (55 bp):
GATTGTTATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGTTTAAATC
Found at i:18527646 original size:92 final size:89
Alignment explanation
Indices: 18527459--18527630 Score: 240
Period size: 91 Copynumber: 1.9 Consensus size: 89
18527449 ATCGATTTTC
* ** *
18527459 ATGTTGGAATTCTGTTTCTTTTAAATCGATTGTTTCTATGCTTAATCGATTGTTATAGTGGAATA
1 ATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGCTTAATCGATTGTTATAGTGGAATA
*
18527524 TTGCTTCTTCTTTTGAATAGATTGAT
66 -T-CTACTTCTTTTGAATAGATTGAT
*
18527550 ATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGTTTAAATCGATTGTTAT-GTTGGAA
1 ATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGCTT-AATCGATTGTTATAG-TGGAA
18527614 TA-CTACTTCTTTTGAAT
64 TATCTACTTCTTTTGAAT
18527631 CATTTGTTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
89 14 0.19
91 39 0.53
92 20 0.27
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (89 bp):
ATGTTGGAATACTACTTCTTTTAAATCGATTGTTTATATGCTTAATCGATTGTTATAGTGGAATA
TCTACTTCTTTTGAATAGATTGAT
Found at i:18529236 original size:23 final size:22
Alignment explanation
Indices: 18529187--18529236 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
18529177 TAAATAGTCA
*
18529187 AAATTGTCAATGTAATAAAAGT
1 AAATTGTCAATGTAATAAAAGC
* * *
18529209 TAATTGTCAGTGTAATTGAAAGC
1 AAATTGTCAATGTAA-TAAAAGC
18529232 AAATT
1 AAATT
18529237 AAATTATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (22 bp):
AAATTGTCAATGTAATAAAAGC
Found at i:18534386 original size:31 final size:30
Alignment explanation
Indices: 18534351--18534456 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 30
18534341 TCGGTACCCG
18534351 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTG-CACTTTTTCCTAATTTGGTACCTA
**
18534382 AACTT--TTTTTTGGTCC-AATTTGGTA-CTCA
1 AACTTGCACTTTT--TCCTAATTTGGTACCT-A
*
18534411 AACTTGCAACTTTTTCCTAATTTGGTACTTA
1 AACTTGC-ACTTTTTCCTAATTTGGTACCTA
*
18534442 AACTTAACACTTTTT
1 AACTT-GCACTTTTT
18534457 TAGTTGGTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
28 6 0.10
29 15 0.25
30 6 0.10
31 27 0.45
32 6 0.10
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.45
Consensus pattern (30 bp):
AACTTGCACTTTTTCCTAATTTGGTACCTA
Found at i:18534745 original size:31 final size:30
Alignment explanation
Indices: 18534708--18534806 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 30
18534698 AATGTTTAGA
*
18534708 TACCAAATTAGGAAAAAATGCCAAGTTCAAG
1 TACCAAATTAGGAAAAAATG-CAAGTTCAGG
* *** *
18534739 TACCAAAATGAGTCCAAAA---AAGTTTAGG
1 TACC-AAATTAGGAAAAAATGCAAGTTCAGG
*
18534767 TACCAAATTAGGAAAAAGTGTCAAGTTCAGG
1 TACCAAATTAGGAAAAAATG-CAAGTTCAGG
18534798 TACCAAATT
1 TACCAAATT
18534807 GAGTTTAGGT
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
27 9 0.18
28 11 0.22
31 21 0.41
32 10 0.20
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.22
Consensus pattern (30 bp):
TACCAAATTAGGAAAAAATGCAAGTTCAGG
Found at i:18534771 original size:59 final size:60
Alignment explanation
Indices: 18534678--18534810 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
18534668 ATAAATTTAG
* *
18534678 GTACCAAATTGAATCTAAAAAATGTTTAGATACCAAATTAGGAAAAAATGCCAAGTTCAA
1 GTACCAAATTGAGTCCAAAAAATGTTTAGATACCAAATTAGGAAAAAATGCCAAGTTCAA
* * * * *
18534738 GTACCAAAATGAGTCCAAAAAA-GTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAG
1 GTACCAAATTGAGTCCAAAAAATGTTTAGATACCAAATTAGGAAAAAATGCCAAGTTCAA
18534797 GTACCAAATTGAGT
1 GTACCAAATTGAGT
18534811 TTAGGTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.71
60 19 0.29
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (60 bp):
GTACCAAATTGAGTCCAAAAAATGTTTAGATACCAAATTAGGAAAAAATGCCAAGTTCAA
Found at i:18534813 original size:49 final size:51
Alignment explanation
Indices: 18534758--18534912 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 51
18534748 GAGTCCAAAA
*
18534758 AAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATT-G
1 AAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGG
* * *
18534808 -AGTTTAGGTATTAAATTAAGAAAAAGTGTCAAGTTCACGTACCAAATTGGG
1 AAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATT-GG
*
18534859 TAAAAAATGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTAACAAAT
1 -----AA-GTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAAT
18534913 GTTATATTAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
49 44 0.50
51 1 0.01
57 1 0.01
58 42 0.48
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (51 bp):
AAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGG
Found at i:18534891 original size:107 final size:107
Alignment explanation
Indices: 18534712--18534912 Score: 305
Period size: 107 Copynumber: 1.9 Consensus size: 107
18534702 TTTAGATACC
*
18534712 AAATTAGGAAAAAATGCCAAGTTCAAGTACCAAAATGAGTCCAAAAAAGTTTAGGTACCAAATTA
1 AAATTAAGAAAAAATGCCAAGTTCAAGTACCAAAATGAGT-CAAAAAAGTTTAGGTACCAAATTA
*
18534777 GGAAAAAGTGTCAAGTTCAGGTACCAAATTGAGTTTAGGTATT
65 GGAAAAAGTGTCAAGTTCAGGTAACAAATTGAGTTTAGGTATT
* * * * * *
18534820 AAATTAAGAAAAAGTGTCAAGTTCACGTACCAAATTGGGT-AAAAAATGTTTAGGTATCAAATTA
1 AAATTAAGAAAAAATGCCAAGTTCAAGTACCAAAATGAGTCAAAAAA-GTTTAGGTACCAAATTA
18534884 GGAAAAAGTGTCAAGTTCAGGTAACAAAT
65 GGAAAAAGTGTCAAGTTCAGGTAACAAAT
18534913 GTTATATTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
106 6 0.07
107 44 0.52
108 34 0.40
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (107 bp):
AAATTAAGAAAAAATGCCAAGTTCAAGTACCAAAATGAGTCAAAAAAGTTTAGGTACCAAATTAG
GAAAAAGTGTCAAGTTCAGGTAACAAATTGAGTTTAGGTATT
Found at i:18534912 original size:31 final size:31
Alignment explanation
Indices: 18534820--18534912 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 31
18534810 TTTAGGTATT
* * *
18534820 AAATTAAGAAAAAGTGTCAAGTTCACGTACC
1 AAATTAGGAAAAAGTGTCAAGTTCAGGTAAC
* * *
18534851 AAATTGGGTAAAAAATGT----TT-AGGTATC
1 AAATTAGG-AAAAAGTGTCAAGTTCAGGTAAC
18534878 AAATTAGGAAAAAGTGTCAAGTTCAGGTAAC
1 AAATTAGGAAAAAGTGTCAAGTTCAGGTAAC
18534909 AAAT
1 AAAT
18534913 GTTATATTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
26 8 0.17
27 12 0.25
28 2 0.04
30 2 0.04
31 16 0.33
32 8 0.17
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (31 bp):
AAATTAGGAAAAAGTGTCAAGTTCAGGTAAC
Found at i:18541447 original size:15 final size:16
Alignment explanation
Indices: 18541423--18541452 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18541413 AATAAATTGT
18541423 ACATACTAAAATAAAA
1 ACATACTAAAATAAAA
18541439 ACATA-TAAAATAAA
1 ACATACTAAAATAAA
18541453 TCAAAATAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (16 bp):
ACATACTAAAATAAAA
Found at i:18543123 original size:27 final size:26
Alignment explanation
Indices: 18543085--18543135 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
18543075 AAATAAGATA
*
18543085 AAAAGAAAGAAAAAAGAAAGAAAGGG
1 AAAAGAAAGAAAAAAAAAAGAAAGGG
*
18543111 AAAAGAGAGGAAAAAAAAAAGAAAG
1 AAAAGA-AAGAAAAAAAAAAGAAAG
18543136 AAAAAGATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (26 bp):
AAAAGAAAGAAAAAAAAAAGAAAGGG
Found at i:18543139 original size:15 final size:15
Alignment explanation
Indices: 18543086--18543140 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
18543076 AATAAGATAA
*
18543086 AAAGAAAGAAAAAAG
1 AAAGAAAAAAAAAAG
***
18543101 AAAGAAAGGGAAAAG
1 AAAGAAAAAAAAAAG
*
18543116 AGAGGAAAAAAAAAAG
1 A-AAGAAAAAAAAAAG
18543132 AAAGAAAAA
1 AAAGAAAAA
18543141 GATAGATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 21 0.66
16 11 0.34
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:18545760 original size:6 final size:6
Alignment explanation
Indices: 18545740--18545798 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
18545730 TTTAATTGAT
* * *
18545740 TTTAAA TTT-AT TTTAAA TTTAAA TTTACCTA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA
18545788 TTTAAA TTTAA
1 TTTAAA TTTAA
18545799 TCAAATTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
8 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:18545762 original size:17 final size:16
Alignment explanation
Indices: 18545740--18545811 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
18545730 TTTAATTGAT
18545740 TTTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
**
18545757 TTTAAATTTACCT--A
1 TTTAAATTTATTTAAA
18545771 TTTAAATTTACTTTAAA
1 TTTAAATTTA-TTTAAA
* *
18545788 TTTAAATTTAATCAAA
1 TTTAAATTTATTTAAA
18545804 TTTCAAAT
1 TTT-AAAT
18545812 AATATTAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 8 0.18
17 25 0.56
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:18546222 original size:28 final size:28
Alignment explanation
Indices: 18546190--18546244 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18546180 ATTGTAAAAG
*
18546190 GGTTACGAACCC-AGCTTTGAAAATCAAC
1 GGTTACAAACCCTA-CTTTGAAAATCAAC
*
18546218 GGTTACAAACCCTATTTTGAAAATCAA
1 GGTTACAAACCCTACTTTGAAAATCAA
18546245 TACAACCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (28 bp):
GGTTACAAACCCTACTTTGAAAATCAAC
Found at i:18546991 original size:9 final size:9
Alignment explanation
Indices: 18546974--18547028 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
18546964 GGTTTTTTTT
18546974 AAAAAGAAG
1 AAAAAGAAG
*
18546983 AAAATGAAG
1 AAAAAGAAG
18546992 AAAAAGAA-
1 AAAAAGAAG
*
18547000 ATAAAGAA-
1 AAAAAGAAG
* *
18547008 TAAAAGATG
1 AAAAAGAAG
18547017 AAAAAGAGAG
1 AAAAAGA-AG
18547027 AA
1 AA
18547029 GAGACTTACC
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
8 12 0.33
9 21 0.58
10 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:18547795 original size:73 final size:74
Alignment explanation
Indices: 18547706--18547843 Score: 217
Period size: 73 Copynumber: 1.9 Consensus size: 74
18547696 CAAAAATTAC
* *
18547706 CATTTTACCCCCAAACTTTCCAAAA-TCCCATTTTTAACCTCGATTTTACC-AAAATTACCATTT
1 CATTTTACCCCCAAACTTTCAAAAAGT-CCATTTTTAACCTCGATTTCACCAAAAATTACCATTT
18547769 TTATCCCTGA
65 TTATCCCTGA
* *
18547779 CATTTTACCCCTAAACTTTCAAAAAGTCCATTTTTAATCTCGATTTCACCAAAAATTACCATTTT
1 CATTTTACCCCCAAACTTTCAAAAAGTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTT
18547844 ACCCTCAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
73 44 0.75
74 15 0.25
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (74 bp):
CATTTTACCCCCAAACTTTCAAAAAGTCCATTTTTAACCTCGATTTCACCAAAAATTACCATTTT
TATCCCTGA
Found at i:18547950 original size:58 final size:57
Alignment explanation
Indices: 18547779--18548054 Score: 351
Period size: 59 Copynumber: 4.7 Consensus size: 57
18547769 TTATCCCTGA
* *
18547779 CATTTTACCCCTAAACTTTCAAAAAGTCCATTTTTAATCTCGATTTCACCAAAAATTAC
1 CATTTTACCCCTAAACTTTC-AAAA-TCCATTTTTAACCCCGATTTCACCAAAAATTAC
* *
18547838 CATTTTA-CCCTCAAACTTTCTAAAATCCCATTTTTAACCTCGATTTTACC-AAAATTAC
1 CATTTTACCCCT-AAACTTTC-AAAAT-CCATTTTTAACCCCGATTTCACCAAAAATTAC
* *
18547896 CATTTTACCCCTAAACTTTCAAAACTCTATTTTTAACCCCAATTTCACCAAAAATTAC
1 CATTTTACCCCTAAACTTTCAAAA-TCCATTTTTAACCCCGATTTCACCAAAAATTAC
*
18547954 CATTTTA-CCCTCGAACTTTTCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTAC
1 CATTTTACCCCT-AAAC-TTTCAAAAT-CCATTTTTAACCCCGATTTCACCAAAAATTAC
* *
18548013 CATTTTACCCCTGAACTTTCCAAAATTCTATTTTTAACCCCG
1 CATTTTACCCCTAAACTTT-CAAAA-TCCATTTTTAACCCCG
18548055 GTTTTTGAAA
Statistics
Matches: 195, Mismatches: 11, Indels: 22
0.86 0.05 0.10
Matches are distributed among these distances:
57 27 0.14
58 51 0.26
59 112 0.57
60 5 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.36
Consensus pattern (57 bp):
CATTTTACCCCTAAACTTTCAAAATCCATTTTTAACCCCGATTTCACCAAAAATTAC
Found at i:18547984 original size:116 final size:117
Alignment explanation
Indices: 18547779--18548053 Score: 419
Period size: 116 Copynumber: 2.3 Consensus size: 117
18547769 TTATCCCTGA
* * * * *
18547779 CATTTTACCCCTAAACTTTCAAAAAGTCCATTTTTAATCTCGATTTCACCAAAAATTACCATTTT
1 CATTTTACCCCTAAACTTTC-AAAACTCTATTTTTAACCCCAATTTCACCAAAAATTACCATTTT
* *
18547844 ACCCTCAAACTTTCTAAAATCCCATTTTTAACCTCGATTTTACC-AAAATTAC
65 ACCCTCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTAC
18547896 CATTTTACCCCTAAACTTTCAAAACTCTATTTTTAACCCCAATTTCACCAAAAATTACCATTTTA
1 CATTTTACCCCTAAACTTTCAAAACTCTATTTTTAACCCCAATTTCACCAAAAATTACCATTTTA
*
18547961 CCCTCGAACTTT-TCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTAC
66 CCCTCAAACTTTCT-AAAATCCCATTTTTAACCCCGATTTCACCAAAAATTAC
* *
18548013 CATTTTACCCCTGAACTTTCCAAAATTCTATTTTTAACCCC
1 CATTTTACCCCTAAACTTT-CAAAACTCTATTTTTAACCCC
18548054 GGTTTTTGAA
Statistics
Matches: 145, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 78 0.54
117 46 0.32
118 20 0.14
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (117 bp):
CATTTTACCCCTAAACTTTCAAAACTCTATTTTTAACCCCAATTTCACCAAAAATTACCATTTTA
CCCTCAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTAC
Found at i:18548047 original size:29 final size:30
Alignment explanation
Indices: 18547851--18548053 Score: 105
Period size: 29 Copynumber: 6.9 Consensus size: 30
18547841 TTTACCCTCA
* * *
18547851 AACTTTCTAAAATCCCATTTTTAACCTC-G
1 AACTTTCCAAAATTCCATTTTTAACCCCTG
* *
18547880 -ATTTTACCAAAATTACCA-TTTT-ACCCCTA
1 AACTTT-CCAAAATT-CCATTTTTAACCCCTG
* *
18547909 AACTTT-CAAAACTCTATTTTTAACCCC--
1 AACTTTCCAAAATTCCATTTTTAACCCCTG
18547936 AA-TTTCACCAAAAATTACCA-TTTT-A-CCCTCG
1 AACTTT--CC-AAAATT-CCATTTTTAACCCCT-G
* *
18547967 AACTTTTCAAAATCCCATTTTTAACCCC-G
1 AACTTTCCAAAATTCCATTTTTAACCCCTG
18547996 -A-TTTCACCAAAAATTACCA-TTTT-ACCCCTG
1 AACTTT--CC-AAAATT-CCATTTTTAACCCCTG
*
18548026 AACTTTCCAAAATTCTATTTTTAACCCC
1 AACTTTCCAAAATTCCATTTTTAACCCC
18548054 GGTTTTTGAA
Statistics
Matches: 132, Mismatches: 15, Indels: 53
0.66 0.08 0.26
Matches are distributed among these distances:
26 3 0.02
27 7 0.05
28 27 0.20
29 43 0.33
30 35 0.27
31 11 0.08
32 6 0.05
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (30 bp):
AACTTTCCAAAATTCCATTTTTAACCCCTG
Found at i:18565831 original size:21 final size:23
Alignment explanation
Indices: 18565807--18565860 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
18565797 AAATTTTATT
18565807 TATAT-TTTAAAGTTTAAA-TGA
1 TATATATTTAAAGTTTAAAGTGA
* * *
18565828 TATATATTTGAATTTTAAAGTTA
1 TATATATTTAAAGTTTAAAGTGA
*
18565851 TATATGTTTA
1 TATATATTTA
18565861 TTTTCAGATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.19
22 11 0.42
23 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (23 bp):
TATATATTTAAAGTTTAAAGTGA
Found at i:18573188 original size:16 final size:16
Alignment explanation
Indices: 18573167--18573203 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18573157 ATAGCTATAC
*
18573167 TTAGAACAACTACTGT
1 TTAGAACAACTACTAT
*
18573183 TTAGAACAACTTCTAT
1 TTAGAACAACTACTAT
18573199 TTAGA
1 TTAGA
18573204 GCAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (16 bp):
TTAGAACAACTACTAT
Found at i:18573945 original size:17 final size:17
Alignment explanation
Indices: 18573918--18573959 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
18573908 GAAAATAGTA
18573918 GTTACAAGAAGATGGAAG
1 GTTA-AAGAAGATGGAAG
18573936 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
*
18573953 ATTAAAG
1 GTTAAAG
18573960 GTCAAGGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.48, C:0.02, G:0.31, T:0.19
Consensus pattern (17 bp):
GTTAAAGAAGATGGAAG
Found at i:18576086 original size:51 final size:51
Alignment explanation
Indices: 18576017--18576118 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
18576007 TAAAATCAAG
18576017 ACTAAATTGACATAATGTATAAATATTGAGGGTTAAAGTTACTATTATGCC
1 ACTAAATTGACATAATGTATAAATATTGAGGGTTAAAGTTACTATTATGCC
18576068 ACTAAATTGACATAATGTATAAATATTGAGGGTTAAAGTTACTATTATGCC
1 ACTAAATTGACATAATGTATAAATATTGAGGGTTAAAGTTACTATTATGCC
18576119 TATCTTAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (51 bp):
ACTAAATTGACATAATGTATAAATATTGAGGGTTAAAGTTACTATTATGCC
Found at i:18594013 original size:30 final size:29
Alignment explanation
Indices: 18593874--18594048 Score: 123
Period size: 30 Copynumber: 6.0 Consensus size: 29
18593864 TAACGATAAG
*
18593874 TTTAGGGGTAAAATGGTAA-TTTTCAAAAA
1 TTTAGGGGTAAAATGGTAATTTTTC-AGAA
* *
18593903 TTTTGGGGTCAAAAATAG-AA-TTTTCAGACA
1 TTTAGGGGT--AAAATGGTAATTTTTCAGA-A
**
18593933 TCCAGGGGTAAAATGGTAA-TTTTCAAGAA
1 TTTAGGGGTAAAATGGTAATTTTTC-AGAA
* * *
18593962 TTTCGGGGTCAAAAAT--AAATTTTTTAGATA
1 TTTAGGGGT--AAAATGGTAATTTTTCAGA-A
*
18593992 TTTAGGGGTAAAATGGTAATTTTTGAGAA
1 TTTAGGGGTAAAATGGTAATTTTTCAGAA
*
18594021 TTTTA-GGGTAAAAT-GTAATTTTTGAGAA
1 -TTTAGGGGTAAAATGGTAATTTTTCAGAA
18594049 GTTCGAGGTC
Statistics
Matches: 119, Mismatches: 15, Indels: 25
0.75 0.09 0.16
Matches are distributed among these distances:
28 25 0.21
29 39 0.33
30 44 0.37
31 11 0.09
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTAAAATGGTAATTTTTCAGAA
Found at i:18594021 original size:59 final size:59
Alignment explanation
Indices: 18593874--18594023 Score: 212
Period size: 59 Copynumber: 2.5 Consensus size: 59
18593864 TAACGATAAG
* *
18593874 TTTAGGGGTAAAATGGTAATTTTCAAAAATTTTGGGGTCAAAAATAGAATTTTCAGACA
1 TTTAGGGGTAAAATGGTAATTTTCAAGAATTTCGGGGTCAAAAATAGAATTTTCAGACA
** * *
18593933 TCCAGGGGTAAAATGGTAATTTTCAAGAATTTCGGGGTCAAAAATA-AATTTTTTAGATA
1 TTTAGGGGTAAAATGGTAATTTTCAAGAATTTCGGGGTCAAAAATAGAA-TTTTCAGACA
**
18593992 TTTAGGGGTAAAATGGTAATTTTTGAGAATTT
1 TTTAGGGGTAAAATGGTAATTTTCAAGAATTT
18594024 TAGGGTAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 2 0.03
59 78 0.98
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (59 bp):
TTTAGGGGTAAAATGGTAATTTTCAAGAATTTCGGGGTCAAAAATAGAATTTTCAGACA
Found at i:18594043 original size:29 final size:31
Alignment explanation
Indices: 18593936--18594048 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 31
18593926 TCAGACATCC
**
18593936 AGGGGTAAAATGGTAATTTTCAAG-A-ATTT
1 AGGGGTAAAATGGTAATTTTTGAGAATATTT
* * *
18593965 CGGGGTCAAAAAT--AAATTTTTTAG-ATATTT
1 AGGGGT--AAAATGGTAATTTTTGAGAATATTT
18593995 AGGGGTAAAATGGTAATTTTTGAGAAT-TTT
1 AGGGGTAAAATGGTAATTTTTGAGAATATTT
18594025 A-GGGTAAAAT-GTAATTTTTGAGAA
1 AGGGGTAAAATGGTAATTTTTGAGAA
18594049 GTTCGAGGTC
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
28 19 0.27
29 23 0.32
30 22 0.31
31 7 0.10
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (31 bp):
AGGGGTAAAATGGTAATTTTTGAGAATATTT
Found at i:18594935 original size:3 final size:3
Alignment explanation
Indices: 18594927--18594992 Score: 96
Period size: 3 Copynumber: 21.0 Consensus size: 3
18594917 TTTTCAACTT
*
18594927 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
18594976 TGTA CTTA TTA TTA TTA
1 T-TA -TTA TTA TTA TTA
18594993 ATAATCATTT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
3 51 0.88
4 5 0.09
5 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18595673 original size:11 final size:10
Alignment explanation
Indices: 18595637--18595678 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
18595627 GGACAGTATT
18595637 AATTTAAATA
1 AATTTAAATA
18595647 AATTTAAACTTA
1 AATTTAAA--TA
18595659 AATTTATAATA
1 AATTTA-AATA
18595670 AATTTAAAT
1 AATTTAAAT
18595679 TTCAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 11 0.38
11 8 0.28
12 8 0.28
13 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
AATTTAAATA
Found at i:18595676 original size:17 final size:16
Alignment explanation
Indices: 18595651--18595713 Score: 81
Period size: 17 Copynumber: 3.8 Consensus size: 16
18595641 TAAATAAATT
*
18595651 TAAACTTAAATTTATAA
1 TAAATTTAAATTTA-AA
18595668 TAAATTTAAATTTCAAA
1 TAAATTTAAATTT-AAA
*
18595685 TAAATTTAAGTTTAAAA
1 TAAATTTAAATTT-AAA
18595702 TAAATTTAAATT
1 TAAATTTAAATT
18595714 CTGTCGGGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 40 0.98
18 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:18595677 original size:6 final size:6
Alignment explanation
Indices: 18595637--18595713 Score: 60
Period size: 6 Copynumber: 13.7 Consensus size: 6
18595627 GGACAGTATT
*
18595637 AATTTA AA--TA AATTTA AACTTA AATTTA TAA--TA AATTTA AATTTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A
* *
18595683 AA--TA AATTTA AGTTTA AA-ATA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
18595714 CTGTCGGGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
4 9 0.16
5 7 0.12
6 35 0.62
7 5 0.09
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:18597679 original size:139 final size:139
Alignment explanation
Indices: 18597429--18597708 Score: 542
Period size: 139 Copynumber: 2.0 Consensus size: 139
18597419 AAGTCACTTA
18597429 GTAATTTAAGCGATTTAAGTCCCCTGTTCGAGGACTGATTACAATCGAATGCACTAACACAATCT
1 GTAATTTAAGCGATTTAAGTCCCCTGTTCGAGGACTGATTACAATCGAATGCACTAACACAATCT
*
18597494 CTTCTCCAATAATAAATATGAGATTGATTGCACAAAATTTTCAAAAAGATGTAAATAATCTTTAA
66 CTTCTCCAATAATAAATATGAGATTGATTGCACAAAATTTTCAAAAAGATATAAATAATCTTTAA
*
18597559 AATATATTG
131 AACATATTG
18597568 GTAATTTAAGCGATTTAAGTCCCCTGTTCGAGGACTGATTACAATCGAATGCACTAACACAATCT
1 GTAATTTAAGCGATTTAAGTCCCCTGTTCGAGGACTGATTACAATCGAATGCACTAACACAATCT
18597633 CTTCTCCAATAATAAATATGAGATTGATTGCACAAAATTTTCAAAAAGATATAAATAATCTTTAA
66 CTTCTCCAATAATAAATATGAGATTGATTGCACAAAATTTTCAAAAAGATATAAATAATCTTTAA
18597698 AACATATTG
131 AACATATTG
18597707 GT
1 GT
18597709 TAAAGATGTC
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (139 bp):
GTAATTTAAGCGATTTAAGTCCCCTGTTCGAGGACTGATTACAATCGAATGCACTAACACAATCT
CTTCTCCAATAATAAATATGAGATTGATTGCACAAAATTTTCAAAAAGATATAAATAATCTTTAA
AACATATTG
Found at i:18597964 original size:13 final size:13
Alignment explanation
Indices: 18597946--18597970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18597936 TGAAACACTA
18597946 TTAACTACAAATT
1 TTAACTACAAATT
18597959 TTAACTACAAAT
1 TTAACTACAAAT
18597971 AAGAAAATAA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTAACTACAAATT
Found at i:18599105 original size:25 final size:25
Alignment explanation
Indices: 18599062--18599109 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
18599052 TCATTAAATA
* *
18599062 TTAAAATAATATAATATAAATATTTT
1 TTAAAATAATAAAAAAT-AATATTTT
18599088 TTAAAA-AATAAAAAATAATATT
1 TTAAAATAATAAAAAATAATATT
18599110 GACAGGCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 8 0.40
26 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAAAATAATAAAAAATAATATTTT
Found at i:18599640 original size:17 final size:18
Alignment explanation
Indices: 18599610--18599643 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18599600 AGAATTTGTG
*
18599610 ATAATTATACATTTAAAA
1 ATAATTATAAATTTAAAA
18599628 ATAATTA-AAATTTAAA
1 ATAATTATAAATTTAAA
18599644 GAGCAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTATAAATTTAAAA
Found at i:18604256 original size:27 final size:27
Alignment explanation
Indices: 18604216--18604319 Score: 163
Period size: 27 Copynumber: 3.8 Consensus size: 27
18604206 TGAGGAGTAA
*
18604216 TCTGATTCTAGCTCGAAAGAGCGTTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
18604243 TCTGATTCTGGCTCGAAAGAGCGTTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
* *
18604270 TCTGATTCTGGCTTGAAAGAGCATTAT
1 TCTGATTCTGGCTCGAAAGAGCGTTAT
*
18604297 TCTGATTCTGGGCTCGTAAGAGC
1 TCTGATTCT-GGCTCGAAAGAGC
18604320 TAACCATTCT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
27 60 0.85
28 11 0.15
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (27 bp):
TCTGATTCTGGCTCGAAAGAGCGTTAT
Found at i:18608290 original size:36 final size:36
Alignment explanation
Indices: 18608250--18608330 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
18608240 TCAATTTCTC
*
18608250 TTTTTCTATACGGGTGCCTCTTTAATTTCTCCTTAA
1 TTTTTCTATACGGGTGCCTCTTTAATTTCCCCTTAA
* **
18608286 TTTTT-TGTACGGGTGTTTCTTTAATTTCCCCTTAA
1 TTTTTCTATACGGGTGCCTCTTTAATTTCCCCTTAA
*
18608321 ATTTTC-ATAC
1 TTTTTCTATAC
18608331 TTATCAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.17, C:0.20, G:0.11, T:0.52
Consensus pattern (36 bp):
TTTTTCTATACGGGTGCCTCTTTAATTTCCCCTTAA
Found at i:18608980 original size:12 final size:12
Alignment explanation
Indices: 18608965--18609003 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
18608955 TGTTAATTAT
18608965 TATAATTAAAAA
1 TATAATTAAAAA
*
18608977 TATAATATTAAAA
1 TATAAT-TAAAAA
18608990 TAATAATTAAAAA
1 T-ATAATTAAAAA
18609003 T
1 T
18609004 TAAACATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 12 0.52
14 5 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAATTAAAAA
Found at i:18610432 original size:13 final size:13
Alignment explanation
Indices: 18610412--18610446 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18610402 ATTTGTGTGC
*
18610412 AAAAATATTTTTG
1 AAAAATATTTTTA
*
18610425 AGAAATATTTTTA
1 AAAAATATTTTTA
18610438 AAAAATATT
1 AAAAATATT
18610447 GTGGAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:18615594 original size:26 final size:26
Alignment explanation
Indices: 18615557--18615607 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
18615547 TATAAATTTT
*
18615557 AAAAAATATGAGTTAAATAATTATGA
1 AAAAAATATGAGTTAAATAAATATGA
*
18615583 AAAAAATTTGAGTTAAATAAATATG
1 AAAAAATATGAGTTAAATAAATATG
18615608 TATTGCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.31
Consensus pattern (26 bp):
AAAAAATATGAGTTAAATAAATATGA
Found at i:18618589 original size:16 final size:15
Alignment explanation
Indices: 18618558--18618597 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
18618548 ATGATAAAAA
*
18618558 TATAATTTTATTATTT
1 TATAA-TTTATGATTT
18618574 TAATAATTTATGATTT
1 T-ATAATTTATGATTT
18618590 TATAATTT
1 TATAATTT
18618598 TTAAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATAATTTATGATTT
Found at i:18618949 original size:19 final size:19
Alignment explanation
Indices: 18618925--18618965 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
18618915 AAATGAGTCT
*
18618925 TAAAATTATTTATAGAATA
1 TAAAATTAATTATAGAATA
18618944 TAAAATTAATTATAGAATA
1 TAAAATTAATTATAGAATA
18618963 TAA
1 TAA
18618966 TATATGAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAATTAATTATAGAATA
Found at i:18621441 original size:21 final size:20
Alignment explanation
Indices: 18621412--18621450 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18621402 TGGGGACTAG
18621412 ATTGAATAAAATATAAAATTC
1 ATTGAAT-AAATATAAAATTC
* *
18621433 ATTGCATAAATATGAAAT
1 ATTGAATAAATATAAAAT
18621451 ATGAGGTCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
ATTGAATAAATATAAAATTC
Found at i:18626665 original size:17 final size:16
Alignment explanation
Indices: 18626634--18626673 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
18626624 TAGGCATTAG
18626634 AAAATTAAAAGTATAT
1 AAAATTAAAAGTATAT
* *
18626650 ATAATTCAAAATTATAT
1 AAAATT-AAAAGTATAT
18626667 AAAATTA
1 AAAATTA
18626674 TTAAAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
AAAATTAAAAGTATAT
Found at i:18627685 original size:27 final size:28
Alignment explanation
Indices: 18627640--18627696 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
18627630 TAATTGTTTT
*
18627640 TTTATAGTATAATAGCTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
18627668 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
18627695 TT
1 TT
18627697 CCATTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:18627814 original size:15 final size:17
Alignment explanation
Indices: 18627794--18627825 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18627784 TCATTTCATT
18627794 TATAT-AATG-ATAAAA
1 TATATAAATGCATAAAA
18627809 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
18627826 AGATTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:18628696 original size:14 final size:15
Alignment explanation
Indices: 18628666--18628707 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
18628656 GGATTAAATT
18628666 ATTAAATAAATTAAA
1 ATTAAATAAATTAAA
*
18628681 ATTAAA-AAATTGAA
1 ATTAAATAAATTAAA
18628695 ATT--ATAAATTAAA
1 ATTAAATAAATTAAA
18628708 GGGGTCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.04
13 7 0.29
14 10 0.42
15 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
ATTAAATAAATTAAA
Found at i:18628746 original size:23 final size:23
Alignment explanation
Indices: 18628716--18628763 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
18628706 AAGGGGTCAG
18628716 TCCAAAAAAGGTATGTTAATTAA
1 TCCAAAAAAGGTATGTTAATTAA
18628739 TCCAAAAAAGGTATGTTAATTAA
1 TCCAAAAAAGGTATGTTAATTAA
18628762 TC
1 TC
18628764 AAAGGTCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (23 bp):
TCCAAAAAAGGTATGTTAATTAA
Found at i:18634109 original size:21 final size:20
Alignment explanation
Indices: 18634066--18634110 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
18634056 TGAAAGAAAT
* **
18634066 AAAAGAATTTTAAAAATTGA
1 AAAAGAATTATAAAAATAAA
18634086 AAAAGAATTAATAAAAATAAA
1 AAAAGAATT-ATAAAAATAAA
18634107 AAAA
1 AAAA
18634111 ATTAGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAGAATTATAAAAATAAA
Found at i:18634285 original size:10 final size:10
Alignment explanation
Indices: 18634270--18634311 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
18634260 ACAACTGCAT
18634270 TAATTGCAAC
1 TAATTGCAAC
*
18634280 TAATTGCATC
1 TAATTGCAAC
* *
18634290 TAATAGC-AT
1 TAATTGCAAC
18634299 TAATTGCAAC
1 TAATTGCAAC
18634309 TAA
1 TAA
18634312 CAGTATTAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (10 bp):
TAATTGCAAC
Found at i:18634319 original size:19 final size:19
Alignment explanation
Indices: 18634280--18634320 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18634270 TAATTGCAAC
* *
18634280 TAATTGCATCTAATAGCAT
1 TAATTGCAACTAACAGCAT
*
18634299 TAATTGCAACTAACAGTAT
1 TAATTGCAACTAACAGCAT
18634318 TAA
1 TAA
18634321 CATAAAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (19 bp):
TAATTGCAACTAACAGCAT
Found at i:18638960 original size:29 final size:28
Alignment explanation
Indices: 18638910--18638965 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
18638900 GCCACAACTG
* * *
18638910 CATTAACTGCAACTATCTGTATCTAACAA
1 CATTAACTACAACTAACAGTAT-TAACAA
18638939 CATTAACTACAACTAACAGTATTAACA
1 CATTAACTACAACTAACAGTATTAACA
18638966 GAAAATACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (28 bp):
CATTAACTACAACTAACAGTATTAACAA
Found at i:18640051 original size:43 final size:43
Alignment explanation
Indices: 18639990--18640078 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
18639980 ATAAAAATAC
18639990 AAGCTATTTTCATGGTCTCACTTTAGCTAGACGAAGAAGGAAT
1 AAGCTATTTTCATGGTCTCACTTTAGCTAGACGAAGAAGGAAT
* *
18640033 AAGCTATTTTCGTGGTCTCACTTTAGCTAGATGAAGAAGGAAT
1 AAGCTATTTTCATGGTCTCACTTTAGCTAGACGAAGAAGGAAT
18640076 AAG
1 AAG
18640079 ATCCGAGGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (43 bp):
AAGCTATTTTCATGGTCTCACTTTAGCTAGACGAAGAAGGAAT
Found at i:18652924 original size:23 final size:23
Alignment explanation
Indices: 18652881--18653001 Score: 111
Period size: 23 Copynumber: 5.2 Consensus size: 23
18652871 GAACACTAGC
* * *
18652881 GTGCTTTCTGTTTAGCTCTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
* *
18652904 GTGATCTCTAATTAGCACTGTGT
1 GTGCTCTCTGATTAGCACTGTGT
* * *
18652927 GTGCTCTTTGTTTAGCAC-GTCT
1 GTGCTCTCTGATTAGCACTGTGT
18652949 CGTGCTCTCTGTTATTAGCACT-TCGT
1 -GTGCTCTCTG--ATTAGCACTGT-GT
*
18652975 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTGTGT
18652998 GTGC
1 GTGC
18653002 CCAGTACTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
22 3 0.04
23 56 0.71
24 1 0.01
25 18 0.23
26 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTGTGT
Found at i:18662645 original size:24 final size:23
Alignment explanation
Indices: 18662599--18662661 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
18662589 TATTTATAAT
* *
18662599 TTTGGGTTACTTAGGCTTGGTTTAGG
1 TTTGGGTT--TTAGGGTTAGTTT-GG
18662625 -TTGGGCTTTTAGGGTTAGTTTGG
1 TTTGGG-TTTTAGGGTTAGTTTGG
18662648 TTTGGGTTTT-GGGT
1 TTTGGGTTTTAGGGT
18662662 AGATGAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 4 0.12
23 6 0.18
24 16 0.48
25 5 0.15
26 2 0.06
ACGTcount: A:0.08, C:0.05, G:0.38, T:0.49
Consensus pattern (23 bp):
TTTGGGTTTTAGGGTTAGTTTGG
Found at i:18664585 original size:27 final size:27
Alignment explanation
Indices: 18664526--18664585 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
18664516 TTATCAAATC
**
18664526 AGAAT-TTTCATATTTTCGGAACATAT
1 AGAATATTTCATATTTTCAAAACATAT
***
18664552 TTCATATTTCATATTTTCAAAACATAT
1 AGAATATTTCATATTTTCAAAACATAT
18664579 AGAATAT
1 AGAATAT
18664586 CAAAGTAAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (27 bp):
AGAATATTTCATATTTTCAAAACATAT
Found at i:18666414 original size:28 final size:26
Alignment explanation
Indices: 18666383--18666444 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
18666373 TAAAAAATTC
*
18666383 ATTAAAAAACTTTTAAATATTATAAGAA
1 ATTAAAAAACTTGTAAA-ATTATAA-AA
* *
18666411 ATTATAAAACTTGTAAAATTCTAAAA
1 ATTAAAAAACTTGTAAAATTATAAAA
18666437 ATATAAAA
1 AT-TAAAA
18666445 TTGCAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.14
27 10 0.34
28 15 0.52
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
ATTAAAAAACTTGTAAAATTATAAAA
Found at i:18666457 original size:2 final size:2
Alignment explanation
Indices: 18666450--18666487 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18666440 TAAAATTGCA
18666450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18666488 TCTAGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18666865 original size:10 final size:9
Alignment explanation
Indices: 18666823--18666910 Score: 59
Period size: 10 Copynumber: 9.2 Consensus size: 9
18666813 TAAATGCCTT
18666823 TTTTTAATAA
1 TTTTT-ATAA
* * *
18666833 TCTGTATAC
1 TTTTTATAA
*
18666842 TTTTTTTACA
1 TTTTTATA-A
18666852 TTTTTATAA
1 TTTTTATAA
18666861 TTTTTTATAA
1 -TTTTTATAA
* *
18666871 TATTTATAG
1 TTTTTATAA
*
18666880 GTTTTATGAA
1 TTTTTAT-AA
*
18666890 TATTTATAA
1 TTTTTATAA
18666899 GTTTTTATAA
1 -TTTTTATAA
18666909 TT
1 TT
18666911 CTTAAAGGTT
Statistics
Matches: 58, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
9 25 0.43
10 33 0.57
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18666876 original size:19 final size:19
Alignment explanation
Indices: 18666822--18666909 Score: 72
Period size: 19 Copynumber: 4.6 Consensus size: 19
18666812 ATAAATGCCT
* * *
18666822 TTTTTTAATAATCTGTATAC
1 TTTTTT-ATAATATTTATAA
*
18666842 TTTTTT-TACATTTTTATAA
1 TTTTTTATA-ATATTTATAA
18666861 TTTTTTATAATATTTAT-A
1 TTTTTTATAATATTTATAA
**
18666879 GGTTTTATGAATATTTATAA
1 TTTTTTAT-AATATTTATAA
*
18666899 GTTTTTATAAT
1 TTTTTTATAAT
18666910 TCTTAAAGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.16
19 32 0.56
20 16 0.28
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTTTTATAATATTTATAA
Found at i:18666945 original size:10 final size:10
Alignment explanation
Indices: 18666930--18666963 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
18666920 TGATATAATT
18666930 TTTAATATTA
1 TTTAATATTA
18666940 TTTAATATTA
1 TTTAATATTA
*
18666950 TTTATTATTA
1 TTTAATATTA
18666960 TTTA
1 TTTA
18666964 CGAGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAATATTA
Found at i:18667954 original size:31 final size:30
Alignment explanation
Indices: 18667897--18667955 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
18667887 ATATTTTATC
18667897 TTTTTTATTTAAAAAAAATGAATAAATTAG
1 TTTTTTATTTAAAAAAAATGAATAAATTAG
*
18667927 TTTTTATATATTAAAATAAA-GAATAAATT
1 TTTTT-TAT-TTAAAAAAAATGAATAAATT
18667956 GATATTTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.46
32 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTTTATTTAAAAAAAATGAATAAATTAG
Found at i:18681076 original size:27 final size:27
Alignment explanation
Indices: 18681045--18681098 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18681035 TTATGTTGAC
*
18681045 CAATCTTCCCAAAGTCCTCAATCCCCT
1 CAATCTCCCCAAAGTCCTCAATCCCCT
* *
18681072 CAATCTCCCCAGATTCCTCAATCCCCT
1 CAATCTCCCCAAAGTCCTCAATCCCCT
18681099 TCATATCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.46, G:0.04, T:0.26
Consensus pattern (27 bp):
CAATCTCCCCAAAGTCCTCAATCCCCT
Found at i:18683809 original size:6 final size:6
Alignment explanation
Indices: 18683800--18683865 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
18683790 AAAGGGTAAG
* *
18683800 AGAAAA AGAAAA A-AGAA AGAAAAA AGAAAA AGAAAA AGGAAA AG--AA
1 AGAAAA AGAAAA AGAAAA AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA
18683846 AGAAAA AGAAGAA A-AAAA AG
1 AGAAAA AGAA-AA AGAAAA AG
18683866 GAGAGGTCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.08
5 7 0.14
6 32 0.63
7 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:18683816 original size:13 final size:13
Alignment explanation
Indices: 18683800--18683862 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
18683790 AAAGGGTAAG
18683800 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
18683813 AG--AAAGAAAAA
1 AGAAAAAGAAAAA
18683824 AGAAAAAG-AAAA
1 AGAAAAAGAAAAA
*
18683836 AGGAAAAGAAAGAA
1 AGAAAAAGAAA-AA
*
18683850 A-AAGAAGAAAAA
1 AGAAAAAGAAAAA
18683862 A
1 A
18683863 AAGGAGAGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
11 11 0.26
12 14 0.33
13 15 0.35
14 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:18683865 original size:18 final size:18
Alignment explanation
Indices: 18683800--18683865 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 18
18683790 AAAGGGTAAG
*
18683800 AGAAAAAGAAAAAAGAAAGA
1 AGAAAAA-AAAGAA-AAAGA
*
18683820 AAAAAGAAAAAGAAAAAG-
1 AGAAA-AAAAAGAAAAAGA
*
18683838 -GAAAAGAAAGAAAAAGA
1 AGAAAAAAAAGAAAAAGA
18683855 AGAAAAAAAAG
1 AGAAAAAAAAG
18683866 GAGAGGTCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 11 0.29
17 3 0.08
18 9 0.24
19 4 0.11
20 9 0.24
21 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAGAAAAAGA
Found at i:18685127 original size:50 final size:49
Alignment explanation
Indices: 18685065--18685186 Score: 165
Period size: 50 Copynumber: 2.5 Consensus size: 49
18685055 GAGATTTGAA
* * * *
18685065 GGGAAAGGTTGAGGTCGCAACAGTGAACTCGGTACCTTAAAAGACGTGAT
1 GGGAAAGGTTGAGGTCGCAACAATGAACCCGGTACCAT-AAAGACATGAT
* *
18685115 GGG-AAGGATTGAGGTCGCAACAATGAACCCGGTACCATGAAGATATGAT
1 GGGAAAGG-TTGAGGTCGCAACAATGAACCCGGTACCATAAAGACATGAT
18685164 GGGAAAGGTTGAGGTCGCAACAA
1 GGGAAAGGTTGAGGTCGCAACAA
18685187 CAAACCTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
49 30 0.47
50 34 0.53
ACGTcount: A:0.34, C:0.16, G:0.33, T:0.18
Consensus pattern (49 bp):
GGGAAAGGTTGAGGTCGCAACAATGAACCCGGTACCATAAAGACATGAT
Found at i:18685151 original size:147 final size:148
Alignment explanation
Indices: 18684908--18685177 Score: 362
Period size: 147 Copynumber: 1.8 Consensus size: 148
18684898 CGGTACCATA
* * * * *
18684908 GAGATTTGAAGGGGAAGGTTAAGGTCGTAACGGTGAACCCGATACCTTAGAAGATGTGATGGGAA
1 GAGATTTGAAGGGAAAGGTTAAGGTCGCAACAGTGAACCCGATACCTTAAAAGACGTGATGGGAA
*** ** *
18684973 GGATTGAGGCCGCAATGGCGAATTCGATACCATGAA-ATGTAATGGAAAAGGTTGAGGCTGCAAT
66 GGATTGAGGCCGCAACAACGAACCCGATACCATGAAGATATAATGGAAAAGGTTGAGGCTGCAAT
18685037 GGCGAACTCTATACGATG
131 GGCGAACTCTATACGATG
* * *
18685055 GAGATTTGAAGGGAAAGGTTGAGGTCGCAACAGTGAACTCGGTACCTTAAAAGACGTGATGGGAA
1 GAGATTTGAAGGGAAAGGTTAAGGTCGCAACAGTGAACCCGATACCTTAAAAGACGTGATGGGAA
* * * * *
18685120 GGATTGAGGTCGCAACAATGAACCCGGTACCATGAAGATATGATGGGAAAGGTTGAGG
66 GGATTGAGGCCGCAACAACGAACCCGATACCATGAAGATATAATGGAAAAGGTTGAGG
18685178 TCGCAACAAC
Statistics
Matches: 103, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
147 85 0.83
148 18 0.17
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (148 bp):
GAGATTTGAAGGGAAAGGTTAAGGTCGCAACAGTGAACCCGATACCTTAAAAGACGTGATGGGAA
GGATTGAGGCCGCAACAACGAACCCGATACCATGAAGATATAATGGAAAAGGTTGAGGCTGCAAT
GGCGAACTCTATACGATG
Found at i:18685225 original size:49 final size:50
Alignment explanation
Indices: 18685097--18685225 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
18685087 GTGAACTCGG
* ** **
18685097 TACCTTAAAAGACGTGATGGGAAGGATTGAGGTCGCAACAATGAACCCGG
1 TACCTTAAAAGATGTGATGGGAAGGATTGAGGTCGCAACAACAAACCCAA
* * * *
18685147 TACCAT-GAAGATATGATGGGAAAGG-TTGAGGTCGCAACAACAAACCTAA
1 TACCTTAAAAGATGTGATGGG-AAGGATTGAGGTCGCAACAACAAACCCAA
*
18685196 TATCTTAAAAGATGTGATGGG-AGGATTGAG
1 TACCTTAAAAGATGTGATGGGAAGGATTGAG
18685226 ATTGCAACGG
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
48 3 0.05
49 39 0.62
50 21 0.33
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (50 bp):
TACCTTAAAAGATGTGATGGGAAGGATTGAGGTCGCAACAACAAACCCAA
Found at i:18685650 original size:78 final size:77
Alignment explanation
Indices: 18685537--18686514 Score: 698
Period size: 79 Copynumber: 12.5 Consensus size: 77
18685527 GTTACATCAC
* * * *
18685537 CATCCGATCTCTTACCCCGATCATGGGGTAGATTGAAACATCCAATCTTTTACCTTAATCA-GAA
1 CATCCAATCTCTTA-CCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAATCATG-A
*
18685601 GGCAAATTGAAGAGA
64 GGCAGATTGAA-AGA
* * * **
18685616 CATCCAATCTCTTACCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGG
1 CATCCAATCTCTTACCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAATCATGAGG
*
18685681 TAGATTG-AAGA
66 CAGATTGAAAGA
* * * *
18685692 CACCTCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCA-GA
1 CATC-CAATCTCTTA-CCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAATCATG-
18685756 AGGCAGATTG-AAGA
63 AGGCAGATTGAAAGA
* * * * * **
18685770 CA-CCGATCTCTTACCCTGATCATAGGGCAGATTGAAGCACCCAATC-TTTACCTTAATCAAAAG
1 CATCCAATCTCTTACCC-GATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAATCATGAG
18685833 GCAGATTG-AAGA
65 GCAGATTGAAAGA
* * * * * * *
18685845 CACACCGATCTTTTGCCCCGATCATGAGGG-AGATTGAAGCATCCAATCTTTTACCTTAATTA-G
1 CA-TCCAATCTCTT-ACCCGATCATG-GGGCAGATTGAACCATCCAATCTTTTACCTCAATCATG
18685908 AAGGCAGATTG-AAGA
63 -AGGCAGATTGAAAGA
* * * * * * *
18685923 CA-CAAATCTCTTACCTCGATCATGGGGTAGAGTGAAGACATCACCAATCTCTTACCCCGATCAT
1 CATCCAATCTCTTACC-CGATCATGGGGCAGATTGAA-CCAT--CCAATCTTTTACCTCAATCAT
* *
18685987 GGGGCAAATT-AAAGA
62 GAGGCAGATTGAAAGA
* * * *
18686002 CATCGCCAATCTCTTACCCTGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCAT
1 CAT--CCAATCTCTTACCC-GATCATGGGGCAGATTG-AACCATCCAATCTTTTACCTCAATCAT
*
18686067 GGGGCAGATTGAAA-A
62 GAGGCAGATTGAAAGA
* * * * *
18686082 CCATCCAATCTTTTACCTCGATCATGGGGCAAATCGCAACCATCCAATCTCTTATCC-CGATCAT
1 -CATCCAATCTCTTACC-CGATCATGGGGCAGATTG-AACCATCCAATCTTTTA-CCTCAATCAT
*
18686146 GAGGTAGATTGAAA-A
62 GAGGCAGATTGAAAGA
* * * *
18686161 CCATCCGATCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCAATCATG
1 -CATCCAATCTCTTA-CCCGATCATGGGGCAGATTG-AACCATCCAATCTTTTACCTCAATCATG
* *
18686226 AGGTAAATTG-AAGA
63 AGGCAGATTGAAAGA
* * * * * *
18686240 CATCGCCAATCTCATACCCTGCTCATGGGGCAGATTGTAACCATCCTATCTCTTACCCCGATCAT
1 CAT--CCAATCTCTTACCC-GATCATGGGGCAGATTG-AACCATCCAATCTTTTACCTCAATCAT
* * * *
18686305 GGGGTAGATTGTAA-C
62 GAGGCAGATTGAAAGA
* * * * **
18686320 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCGATCTTTTACCCCGATCACA
1 CATCCAATCTCTTA-CCCGATCATGGGGCAGATTG--AACCATCCAATCTTTTACCTCAATCATG
* * * *
18686385 AGGTAGATCGTAA-C
63 AGGCAGATTGAAAGA
* * * * * * * *
18686399 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAATCATTCGATCTCTTACCCCGATCATG
1 CATCCAATCTCTTA-CCCGATCATGGGGCAGATT--GAACCATCCAATCTTTTACCTCAATCATG
* * * *
18686464 GGGCAGATCGTAA-C
63 AGGCAGATTGAAAGA
*
18686478 CATCCAATCTCTTACCTCGATCATGAGGCAGATTGAA
1 CATCCAATCTCTTACC-CGATCATGGGGCAGATTGAA
18686515 ACCACAACCC
Statistics
Matches: 777, Mismatches: 82, Indels: 82
0.83 0.09 0.09
Matches are distributed among these distances:
75 37 0.05
76 65 0.08
77 48 0.06
78 179 0.23
79 310 0.40
80 98 0.13
81 9 0.01
82 29 0.04
83 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (77 bp):
CATCCAATCTCTTACCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAATCATGAGG
CAGATTGAAAGA
Found at i:18685879 original size:153 final size:152
Alignment explanation
Indices: 18685540--18686432 Score: 706
Period size: 159 Copynumber: 5.7 Consensus size: 152
18685530 ACATCACCAT
* *
18685540 CCGATCTCTTACCCCGATCATGGGGTAGATTGAAACATCCAATCTTTTACCTTAATCAGAAGGCA
1 CCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
* * *
18685605 AATTGAAGAGACATCCAATCTCTTACCC-AATCATGGGGCAGATTGAAGCATCCAATCTTTTACC
66 GATTG-A-AGACA-CCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCACCCAATC-TTTACC
*
18685669 TTAATCAAAAGGTAGATTGAAGACAC
127 TTAATCAAAAGGCAGATTGAAGACAC
18685695 CTCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGC
1 C-CGATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGC
* *
18685760 AGATTGAAGACACCGATCTCTTACCCTGATCATAGGGCAGATTGAAGCACCCAATCTTTACCTTA
65 AGATTGAAGACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCACCCAATCTTTACCTTA
18685825 ATCAAAAGGCAGATTGAAGACAC
130 ATCAAAAGGCAGATTGAAGACAC
* * *
18685848 ACCGATCTTTTGCCCCGATCATGAGGG-AGATTGAAGCATCCAATCTTTTACCTTAATTAGAAGG
1 -CCGATCTCTTACCCCGATCATG-GGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGG
* * *
18685912 CAGATTGAAGACACAAATCTCTTA-CCTCGATCATGGGGTAGAGTGAAGACATCACCAATCTCTT
64 CAGATTGAAGACACCAATCTCTTACCCT-GATCATGGGGCAGATTGAAG-CA-C-CCAATCT-TT
*** *** * *
18685976 ACCCCGATCATGGGGCAAATTAAAGACATC
124 ACCTTAATCAAAAGGCAGATTGAAGACA-C
* * * * * *** *
18686006 GCCAATCTCTTACCCTGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATG-GG
1 -CCGATCTCTTACCCCGATCATGGGGCAGATTG-AAGCATCCAATCTTTTACCTTAATCA-GAAG
* * * * * *
18686070 GCAGATTGAAAACCATCCAATCTTTTA-CCTCGATCATGGGGCAAATCGCAACCATCCAATCTCT
63 GCAGATTGAAGA-CA-CCAATCTCTTACCCT-GATCATGGGGCAGATTG-AAGCACCCAATCT-T
** ** * * *
18686134 TATCC-CGATCATGAGGTAGATTGAAAACCAT
123 TA-CCTTAATCAAAAGGCAGATTGAAGA-CAC
* * * **
18686165 CCGATCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCAATCATG-AGG
1 CCGATCTCTTACCCCGATCATGGGGCAGATTG-AAGCATCCAATCTTTTACCTTAATCA-GAAGG
* * * * * * *
18686229 TAAATTGAAGACATCGCCAATCTCATACCCTGCTCATGGGGCAGATTGTAACCATCCTATCTCTT
64 CAGATTGAAGACA---CCAATCTCTTACCCTGATCATGGGGCAGATTG-AAGCACCCAATCT-TT
*** *** * * *
18686294 ACCCCGATCATGGGGTAGATTGTAA-CCAT
124 ACCTTAATCAAAAGGCAGATTG-AAGACAC
* * * * *** *
18686323 CCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCGATCTTTTACCCCGATCACAAGG
1 CCGATCTCTTACCCCGATCATGGGGCAGATTG--AAGCATCCAATCTTTTACCTTAATCAGAAGG
* * * * *
18686388 TAGATCGTAA-CCATCCAATCTCTTACCCCGATCATGGGACAGATT
64 CAGATTG-AAGACA-CCAATCTCTTACCCTGATCATGGGGCAGATT
18686433 AAAAATCATT
Statistics
Matches: 627, Mismatches: 85, Indels: 50
0.82 0.11 0.07
Matches are distributed among these distances:
152 3 0.00
153 138 0.22
154 37 0.06
155 3 0.00
156 73 0.12
157 54 0.09
158 126 0.20
159 149 0.24
160 14 0.02
161 28 0.04
162 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (152 bp):
CCGATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
GATTGAAGACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAGCACCCAATCTTTACCTTAA
TCAAAAGGCAGATTGAAGACAC
Found at i:18686065 original size:39 final size:39
Alignment explanation
Indices: 18685535--18686518 Score: 730
Period size: 39 Copynumber: 25.1 Consensus size: 39
18685525 AAGTTACATC
* *
18685535 ACCATCCGATCTCTTACCCCGATCATGGGGTAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* *** * *
18685574 A-CATCCAATCTTTTACCTTAATCA-GAAGGCAAATTGAA
1 ACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAA
* *
18685612 GAGACATCCAATCTCTTA-CCCAATCATGGGGCAGATTG-A
1 -A-CCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *** *** *
18685651 AGCATCCAATCTTTTACCTTAATCAAAAGGTAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* *
18685690 GA-CACCTCGATCTCTTACCCCGATCATGGGGCAGATTG-A
1 -ACCATC-CAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *** *
18685729 AGCATCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAA
* * *
18685768 GA-CA-CCGATCTCTTACCCTGATCATAGGGCAGATTG-A
1 -ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *** ***
18685805 AGCACCCAATCT-TTACCTTAATCAAAAGGCAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *
18685843 GACACA-CCGATCTTTTGCCCCGATCATGAGGG-AGATTG-A
1 -AC-CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAA
* * *** * *
18685882 AGCATCCAATCTTTTACCTTAATTA-GAAGGCAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAA
* * * *
18685921 GA-CA-CAAATCTCTTACCTCGATCATGGGGTAGAGTGAA
1 -ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
*
18685959 GA-CATCACCAATCTCTTACCCCGATCATGGGGCAAATT-AA
1 -ACCAT--CCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
18685999 AGACATCGCCAATCTCTTACCCTGATCATGGGGCAGATCGCA
1 A-CCAT--CCAATCTCTTACCCCGATCATGGGGCAGATTGAA
18686041 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AA
* * * * *
18686081 ACCATCCAATCTTTTACCTCGATCATGGGGCAAATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *
18686120 ACCATCCAATCTCTTATCCCGATCATGAGGTAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AA
* * *
18686160 ACCATCCGATCTCTTACCCCGATCATGGGGCAGATCGCA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
18686199 ACCATCCAATCTCTTACCCCAATCATGAGGTAAATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * * *
18686238 GA-CATCGCCAATCTCATACCCTGCTCATGGGGCAGATTGTA
1 -ACCAT--CCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* * *
18686279 ACCATCCTATCTCTTACCCCGATCATGGGGTAGATTGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
*
18686318 ACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AA
* * *** * * *
18686358 ACCATCCGATCTTTTACCCCGATCACAAGGTAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* *
18686397 ACCATCCAATCTCTTACCCCGATCATGGGACAGATTAAAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATT-GAA
* * * * *
18686437 ATCATTCGATCTCTTACCCCGATCATGGGGCAGATCGTA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
* *
18686476 ACCATCCAATCTCTTACCTCGATCATGAGGCAGATTGAA
1 ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
18686515 ACCA
1 ACCA
18686519 CAACCCAATC
Statistics
Matches: 743, Mismatches: 162, Indels: 80
0.75 0.16 0.08
Matches are distributed among these distances:
36 1 0.00
37 44 0.06
38 147 0.20
39 253 0.34
40 190 0.26
41 106 0.14
42 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (39 bp):
ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAA
Found at i:18686211 original size:238 final size:234
Alignment explanation
Indices: 18685543--18686514 Score: 854
Period size: 238 Copynumber: 4.1 Consensus size: 234
18685533 TCACCATCCG
* * * * ** *
18685543 ATCTCTTACCCCGATCATGGGGTAGATTGAAACATCCAATCTTTTACCTTAATCA-GAAGGCAAA
1 ATCTCTTACCCTGATCATGGGGCAGATTGAACCATCCAATCTCTTACCCCAATCATG-AGGCAGA
* *
18685607 TTGAAGAGA-CATCCAATCTCTTA-CCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCT
65 TTGAA-A-ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCT
* * * *
18685670 TAATCAAAAGGTAGATTGAAGACACC-T-CGATCTCTTACCCCGATCATGGGGCAGATTGAAGCA
128 CAATC-AAAGGTAGATTGAA-A-ACCATCCAATCTCTTACCCCGATCATGGGGCAGAGTGAAACA
* ** * *
18685733 TCCAATCTTTTACCTTAATCA-GAAGGCAGATTGAAGACA---CCG
190 TCCAATCTCTTACCCCAATCATG-AGGCAAATTGAAGACATCGCCA
* * * ** **
18685775 ATCTCTTACCCTGATCATAGGGCAGATTGAAGCACCCAATCT-TTACCTTAATCAAAAGGCAGAT
1 ATCTCTTACCCTGATCATGGGGCAGATTGAACCATCCAATCTCTTACCCCAATCATGAGGCAGAT
* * * * * *
18685839 TGAAGACACA-CCGATCTTTTGCCCCGATCATGAGGG-AGATTGAAGCATCCAATCTTTTACCTT
66 TGAAAAC-CATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAACCATCCAATCTTTTACCTC
* * * * * *
18685902 AATTAGAAGGCAGATTGAAGA-CA-CAAATCTCTTACCTCGATCATGGGGTAGAGTGAAGACATC
129 AATCA-AAGGTAGATTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGAGTGAA-ACAT-
* * *
18685965 ACCAATCTCTTACCCCGATCATGGGGCAAATTAAAGACATCGCCA
191 -CCAATCTCTTACCCCAATCATGAGGCAAATTGAAGACATCGCCA
* * *
18686010 ATCTCTTACCCTGATCATGGGGCAGATCGCAACCATCCAATCTCTTACCCCGATCATGGGGCAGA
1 ATCTCTTACCCTGATCATGGGGCAGATTG-AACCATCCAATCTCTTACCCCAATCATGAGGCAGA
* * * * *
18686075 TTGAAAACCATCCAATCTTTTACCTCGATCATGGGGCAAATCGCAACCATCCAATCTCTTATCC-
65 TTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG-AACCATCCAATCTTTTA-CCT
* * * *
18686139 CGATCATGAGGTAGATTGAAAACCATCCGATCTCTTACCCCGATCATGGGGCAGA-TCGCAACCA
128 CAATCA-AAGGTAGATTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGAGT-G-AAACA
*
18686203 TCCAATCTCTTACCCCAATCATGAGGTAAATTGAAGACATCGCCA
190 TCCAATCTCTTACCCCAATCATGAGGCAAATTGAAGACATCGCCA
* * * * * *
18686248 ATCTCATACCCTGCTCATGGGGCAGATTGTAACCATCCTATCTCTTACCCCGATCATGGGGTAGA
1 ATCTCTTACCCTGATCATGGGGCAGATTG-AACCATCCAATCTCTTACCCCAATCATGAGGCAGA
* * * *
18686313 TTG-TAACCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAAACCATCCGATCTTTTACCC
65 TTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTG--AACCATCCAATCTTTTACCT
* * * * * *
18686377 CGATCACAAGGTAGATCG-TAACCATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAATCA
128 CAATCA-AAGGTAGATTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGAGT-GAAA-CA
* * * * * * *
18686441 TTCGATCTCTTACCCCGATCATGGGGCAGATCGTAA-CCAT--CCA
190 TCCAATCTCTTACCCCAATCATGAGGCAAATTG-AAGACATCGCCA
*
18686484 ATCTCTTA-CCTCGATCATGAGGCAGATTGAA
1 ATCTCTTACCCT-GATCATGGGGCAGATTGAA
18686515 ACCACAACCC
Statistics
Matches: 611, Mismatches: 98, Indels: 59
0.80 0.13 0.08
Matches are distributed among these distances:
228 1 0.00
229 30 0.05
230 12 0.02
231 76 0.12
232 69 0.11
233 1 0.00
235 34 0.06
236 41 0.07
237 115 0.19
238 194 0.32
239 7 0.01
240 29 0.05
241 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (234 bp):
ATCTCTTACCCTGATCATGGGGCAGATTGAACCATCCAATCTCTTACCCCAATCATGAGGCAGAT
TGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAACCATCCAATCTTTTACCTCAA
TCAAAGGTAGATTGAAAACCATCCAATCTCTTACCCCGATCATGGGGCAGAGTGAAACATCCAAT
CTCTTACCCCAATCATGAGGCAAATTGAAGACATCGCCA
Found at i:18686327 original size:277 final size:278
Alignment explanation
Indices: 18685927--18686514 Score: 831
Period size: 277 Copynumber: 2.1 Consensus size: 278
18685917 TGAAGACACA
* * *
18685927 AATCTCTTACCTCGATCATGGGGTAGAGTGAAGACATCACCAATCTCTTACCCCGATCATGGGGC
1 AATCTCTTACCTCGATCATGAGGTAGATTGAAGACATCACCAATCTCATACCCCGATCATGGGGC
*
18685992 AAATTAAAGACATCGCCAATCTCTTACCCTGATCATGGGGCAGATCGCAACCATCCAATCTCTTA
66 AAATTAAAGACATC-CCAATCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTA
* * ***
18686057 CCCCGATCATGGGGCAGATTGAAAACCATCCAATCTTTTACCTCGATCATGGGGCAAATCGCAAC
130 CCCCGATCATGAGGCAGATTGAAAACCATCCAATCTTTTACCCCGATCACAAGGCAAATCGCAAC
* * *
18686122 CATCCAATCTCTTATCCCGATCATGAGG-TAGATTGAAAACCATCCGATCTCTTACCCCGATCAT
195 CATCCAATCTCTTACCCCGATCATG-GGACAGATTAAAAACCATCCGATCTCTTACCCCGATCAT
18686186 GGGGCAGATCGCAACCATCC
259 GGGGCAGATCGCAACCATCC
* * * * * *
18686206 AATCTCTTACCCCAATCATGAGGTAAATTGAAGACATCGCCAATCTCATACCCTGCTCATGGGGC
1 AATCTCTTACCTCGATCATGAGGTAGATTGAAGACATCACCAATCTCATACCCCGATCATGGGGC
* * * * * * *
18686271 AGATTGTAA-CCAT-CCTATCTCTTACCCCGATCATGGGGTAGATTGTAACCATCCAATCTCTTA
66 AAATT-AAAGACATCCCAATCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTA
* * * *
18686334 CCCCGATCATGAGGCAGATTGAAAACCATCCGATCTTTTACCCCGATCACAAGGTAGATCGTAAC
130 CCCCGATCATGAGGCAGATTGAAAACCATCCAATCTTTTACCCCGATCACAAGGCAAATCGCAAC
* *
18686399 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAATCATTCGATCTCTTACCCCGATCATG
195 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCGATCTCTTACCCCGATCATG
*
18686464 GGGCAGATCGTAACCATCC
260 GGGCAGATCGCAACCATCC
*
18686483 AATCTCTTACCTCGATCATGAGGCAGATTGAA
1 AATCTCTTACCTCGATCATGAGGTAGATTGAA
18686515 ACCACAACCC
Statistics
Matches: 271, Mismatches: 36, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
276 2 0.01
277 204 0.75
279 63 0.23
280 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (278 bp):
AATCTCTTACCTCGATCATGAGGTAGATTGAAGACATCACCAATCTCATACCCCGATCATGGGGC
AAATTAAAGACATCCCAATCTCTTACCCCGATCATGGGGCAGATCGCAACCATCCAATCTCTTAC
CCCGATCATGAGGCAGATTGAAAACCATCCAATCTTTTACCCCGATCACAAGGCAAATCGCAACC
ATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAACCATCCGATCTCTTACCCCGATCATGG
GGCAGATCGCAACCATCC
Found at i:18689981 original size:41 final size:42
Alignment explanation
Indices: 18689870--18690058 Score: 204
Period size: 41 Copynumber: 4.5 Consensus size: 42
18689860 TGGTGTATAA
* * * * *
18689870 AAAGGAAGACTCATGTCTCGGGTTGAGCATGAGA-AATTGTAT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTA-TGAAT
18689912 AAATGGAAGACTCTATGTCTCGAGATGAGAATGAGATTATGAAT
1 AAA-GGAAGACTC-ATGTCTCGAGATGAGAATGAGATTATGAAT
* *
18689956 -AAGGAAGACTCATGTCTCGAAATGAGAATGAGATTTTG-AT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* * * **
18689996 TAAGGAAGACTTATGTCTCGAGATGAGAATGAGAATATGGTT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
* *
18690038 AAAGGAAGACTTATGACTCGA
1 AAAGGAAGACTCATGTCTCGA
18690059 AAGAGCATAA
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
40 2 0.02
41 59 0.46
42 32 0.25
43 11 0.09
44 23 0.18
45 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
Found at i:18690094 original size:83 final size:81
Alignment explanation
Indices: 18689916--18690086 Score: 184
Period size: 82 Copynumber: 2.1 Consensus size: 81
18689906 TTGTATAAAT
* * *
18689916 GGAAGACTCTATGTCTCGAGATGAGAATGAGATTATGAATAAGGAAGACTCATGTCTCGAAATGA
1 GGAAAACT-TATGTCTCGAGATGAGAATGAGAATATGAATAAGGAAGACTCATGACTCGAAATGA
* *
18689981 GAATGAGATTTTGATTAA
65 GAATAAGATTTT-ATGAA
* ** *
18689999 GGAAGACTTATGTCTCGAGATGAGAATGAGAATATGGTTAAAGGAAGACTTATGACTCGAAA-GA
1 GGAAAACTTATGTCTCGAGATGAGAATGAGAATATGAAT-AAGGAAGACTCATGACTCGAAATGA
* *
18690063 GCATAAGGTTGTT-TGAA
65 GAATAAGATT-TTATGAA
18690080 GAGAAAA
1 G-GAAAA
18690087 TTTTATGTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
81 4 0.05
82 41 0.55
83 30 0.40
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.26
Consensus pattern (81 bp):
GGAAAACTTATGTCTCGAGATGAGAATGAGAATATGAATAAGGAAGACTCATGACTCGAAATGAG
AATAAGATTTTATGAA
Found at i:18699613 original size:18 final size:18
Alignment explanation
Indices: 18699590--18699625 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18699580 TCAAACTTTT
18699590 AAATTGATATTAAATTTA
1 AAATTGATATTAAATTTA
*
18699608 AAATTGATTTTAAATTTA
1 AAATTGATATTAAATTTA
18699626 GTTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
AAATTGATATTAAATTTA
Found at i:18699635 original size:28 final size:26
Alignment explanation
Indices: 18699586--18699652 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 26
18699576 TGGATCAAAC
*
18699586 TTTTAAATTGATATTAAATTTAAAATTG
1 TTTTAAATT--TATTAAATTTAAAATAG
18699614 ATTTTAAATTTAGTTAAATTTAAAATAG
1 -TTTTAAATTTA-TTAAATTTAAAATAG
18699642 TTTTAAATTTA
1 TTTTAAATTTA
18699653 ATTTGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 13 0.36
28 14 0.39
29 9 0.25
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTTAAATTTATTAAATTTAAAATAG
Found at i:18701607 original size:88 final size:85
Alignment explanation
Indices: 18701490--18701712 Score: 200
Period size: 88 Copynumber: 2.5 Consensus size: 85
18701480 TTTATTTTCG
* *
18701490 ACCCCGAACTTTTTAAAAATTACAATTTTACCCTCAAACTTTCCAAAGT-TCCAATTTTAACCCC
1 ACCCCGAA-TTTTTAAAAATTACATTTTTACCCTCAAACTTTCCAAACTAT-C-A-TTTAACCCC
18701554 GATTTTTCCAAAATTTACCATTTA
62 GATTTTTCCAAAATTTACCATTTA
* * ** * **
18701578 ACCCACGAATTTTTTAAAATTTCATTTTTAACCCT-AATTTTTTCAAAAACTATCATTTAACCTT
1 ACCC-CGAATTTTTAAAAATTACATTTTT-ACCCTCAA-ACTTTC-CAAACTATCATTTAACCCC
*
18701642 GATTTTTCCAAAATTTACCATTTT
62 GATTTTTCCAAAATTTACCATTTA
** ** *
18701666 ACCCTTAAATTTTCCAAAATTACATTTTTAACCTC-AACTTTACCAAA
1 ACCC-CGAATTTTTAAAAATTACATTTTTACCCTCAAACTTT-CCAAA
18701713 AATTACCATT
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
86 6 0.06
87 6 0.06
88 76 0.70
89 14 0.13
90 5 0.05
91 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (85 bp):
ACCCCGAATTTTTAAAAATTACATTTTTACCCTCAAACTTTCCAAACTATCATTTAACCCCGATT
TTTCCAAAATTTACCATTTA
Found at i:18701666 original size:59 final size:58
Alignment explanation
Indices: 18701603--18701733 Score: 131
Period size: 59 Copynumber: 2.2 Consensus size: 58
18701593 AAAATTTCAT
* * ** * * *
18701603 TTTTAACCCTAATTTTTTCAAAA-ACTATCATTTAACCTTGATTTTTCCAAAATTTACCA
1 TTTTAACCCTAAATTTTCCAAAATAC-AT-ATTTAACCTCAACTTTACCAAAAATTACCA
*
18701662 TTTT-ACCCTTAAATTTTCCAAAATTACATTTTTAACCTCAACTTTACCAAAAATTACCA
1 TTTTAACCC-TAAATTTTCCAAAA-TACATATTTAACCTCAACTTTACCAAAAATTACCA
*
18701721 TTTTACCCCTAAA
1 TTTTAACCCTAAA
18701734 CTTCTAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
58 4 0.07
59 48 0.81
60 5 0.08
61 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.41
Consensus pattern (58 bp):
TTTTAACCCTAAATTTTCCAAAATACATATTTAACCTCAACTTTACCAAAAATTACCA
Found at i:18701681 original size:30 final size:30
Alignment explanation
Indices: 18701557--18701733 Score: 105
Period size: 29 Copynumber: 6.0 Consensus size: 30
18701547 TAACCCCGAT
* ***
18701557 TTTTCCAAAATTTACCATTTAACCCACGAA
1 TTTTCCAAAATTTACCATTTTACCCTTAAA
** *
18701587 TTTTTTAAAATTT--CATTTTTAACCC-TAAT
1 TTTTCCAAAATTTACCA-TTTT-ACCCTTAAA
* ** * * * *
18701616 TTTTTCAAAAACTATCA-TTTAACCTTGAT
1 TTTTCCAAAATTTACCATTTTACCCTTAAA
18701645 TTTTCCAAAATTTACCATTTTACCCTTAAA
1 TTTTCCAAAATTTACCATTTTACCCTTAAA
* * *
18701675 TTTTCCAAAA-TTA-CATTTTTAACCTCAAC
1 TTTTCCAAAATTTACCA-TTTTACCCTTAAA
* * *
18701704 TTTACCAAAAATTACCATTTTACCCCTAAA
1 TTTTCCAAAATTTACCATTTTACCCTTAAA
18701734 CTTCTAAAAT
Statistics
Matches: 112, Mismatches: 26, Indels: 18
0.72 0.17 0.12
Matches are distributed among these distances:
28 7 0.06
29 55 0.49
30 46 0.41
31 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.42
Consensus pattern (30 bp):
TTTTCCAAAATTTACCATTTTACCCTTAAA
Found at i:18701688 original size:29 final size:29
Alignment explanation
Indices: 18701505--18701728 Score: 118
Period size: 30 Copynumber: 7.6 Consensus size: 29
18701495 GAACTTTTTA
* *
18701505 AAAATTACAATTTTACCCTCAAACTTTCC
1 AAAATTACCATTTTACCCTCAAATTTTCC
* * *
18701534 AAAGTT-CCAATTTTAACCC-CGATTTTTCC
1 AAAATTACC-ATTTT-ACCCTCAAATTTTCC
* * * **
18701563 AAAATTTACCATTTAACCCACGAATTTTTT
1 AAAA-TTACCATTTTACCCTCAAATTTTCC
* * *
18701593 AAAATT-TCATTTTTAACCCT-AATTTTTTCA
1 AAAATTACCA-TTTT-ACCCTCAA-ATTTTCC
* * * ** *
18701623 AAAACTATCA-TTTAACCTTGATTTTTCC
1 AAAATTACCATTTTACCCTCAAATTTTCC
*
18701651 AAAATTTACCATTTTACCCTTAAATTTTCC
1 AAAA-TTACCATTTTACCCTCAAATTTTCC
* * *
18701681 AAAATTA-CATTTTTAACCTCAACTTTACC
1 AAAATTACCA-TTTTACCCTCAAATTTTCC
18701710 AAAAATTACCATTTTACCC
1 -AAAATTACCATTTTACCC
18701729 CTAAACTTCT
Statistics
Matches: 149, Mismatches: 31, Indels: 29
0.71 0.15 0.14
Matches are distributed among these distances:
28 19 0.13
29 56 0.38
30 67 0.45
31 7 0.05
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAAATTTTCC
Found at i:18701713 original size:88 final size:88
Alignment explanation
Indices: 18701545--18701729 Score: 219
Period size: 88 Copynumber: 2.1 Consensus size: 88
18701535 AAGTTCCAAT
* ** *
18701545 TTTAACCCCGATTTTTCCAAAATTTACCATTTAACCCACGAATTTTTTAAAATTTCATTTTTAAC
1 TTTAACCCCGATTTTTCCAAAATTTACCATTTAACCCACAAATTTTCCAAAATTACATTTTTAAC
* ** *
18701610 CCTAATTTTTTCAAAAACTATCA
66 CCTAACTTTACCAAAAACTACCA
** * **
18701633 TTTAACCTTGATTTTTCCAAAATTTACCATTTTACCCTTAAATTTTCCAAAATTACATTTTTAA-
1 TTTAACCCCGATTTTTCCAAAATTTACCATTTAACCCACAAATTTTCCAAAATTACATTTTTAAC
*
18701697 CCTCAACTTTACCAAAAATTACCA
66 CCT-AACTTTACCAAAAACTACCA
*
18701721 TTTTACCCC
1 TTTAACCCC
18701730 TAAACTTCTA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 3 0.04
88 76 0.96
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.42
Consensus pattern (88 bp):
TTTAACCCCGATTTTTCCAAAATTTACCATTTAACCCACAAATTTTCCAAAATTACATTTTTAAC
CCTAACTTTACCAAAAACTACCA
Found at i:18707118 original size:5 final size:5
Alignment explanation
Indices: 18707108--18707204 Score: 76
Period size: 5 Copynumber: 18.8 Consensus size: 5
18707098 TTCAATGAAT
*
18707108 AAAAG AAAAG AAAAAG AAGAAG AGAAAG AAAAAG AAAAG AAAAC AAAAG
1 AAAAG AAAAG -AAAAG AA-AAG A-AAAG -AAAAG AAAAG AAAAG AAAAG
* *
18707157 AAAAG AAAA- ATAAA- AACAAA AAAAG AAAA- AGAA- AAAAG AAGAAG
1 AAAAG AAAAG A-AAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AA-AAG
18707201 AAAA
1 AAAA
18707205 TGAGAGGTTG
Statistics
Matches: 78, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
4 8 0.10
5 45 0.58
6 23 0.29
7 2 0.03
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:18707124 original size:6 final size:6
Alignment explanation
Indices: 18707108--18707204 Score: 78
Period size: 6 Copynumber: 16.5 Consensus size: 6
18707098 TTCAATGAAT
* * *
18707108 AAAAG- AAAAGA AAAAGA AGAAGA GAAAGA AAAAG- AAAAG- AAAA-C
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * *
18707152 AAAAG- AAAAGA AAAATAA AAACAAA AAAAGA AAAAGAA AAAAGA AGAAGA
1 AAAAGA AAAAGA AAAA-GA AAA-AGA AAAAGA AAAAG-A AAAAGA AAAAGA
18707202 AAA
1 AAA
18707205 TGAGAGGTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
5 23 0.30
6 38 0.49
7 15 0.19
8 1 0.01
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:18708374 original size:97 final size:97
Alignment explanation
Indices: 18708125--18708424 Score: 440
Period size: 97 Copynumber: 3.1 Consensus size: 97
18708115 TGAAGATTTG
* * * *
18708125 AAGGGAAAGG-TTAAGGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAA
1 AAGGGAAAGGTTTAA-GTCGCAACGGCGAACCTAGTACCTCAGAGGCATGAAGGGAAAGATCTAA
* *
18708189 GCCGCAACGGCGAATCCTGTACCACGAAGACAC
65 GCCGCAACGGCGGATCCAGTACCACGAAGACAC
* * *
18708222 AGAGGGAAAGGTTTAAGTCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAA
1 A-AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGGCATGAAGGGAAAGATCTAA
* *
18708287 GCCGCAATGGCGGATCCAGTACCAGGAAGACAC
65 GCCGCAACGGCGGATCCAGTACCACGAAGACAC
* * *
18708320 AAGGGAAAGGTTTAAGTCGCAATGGCGAACGTAGTACCTTAGAGGCATGAAGGGAAAGATCTAAG
1 AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGGCATGAAGGGAAAGATCTAAG
*
18708385 CCGCAACGGTGGATCCAGTACCACGAAGACAC
66 CCGCAACGGCGGATCCAGTACCACGAAGACAC
18708417 AAGGGAAA
1 AAGGGAAA
18708425 AATCTAAGCC
Statistics
Matches: 181, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
97 96 0.53
98 81 0.45
99 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.29, T:0.14
Consensus pattern (97 bp):
AAGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAGGCATGAAGGGAAAGATCTAAG
CCGCAACGGCGGATCCAGTACCACGAAGACAC
Found at i:18708474 original size:145 final size:145
Alignment explanation
Indices: 18708272--18708879 Score: 632
Period size: 145 Copynumber: 4.2 Consensus size: 145
18708262 CAGAGACATG
* * *
18708272 AAGGGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCAGGAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCACAATGGCGGATCCAGTACCACGAAGACACAAGAGAAAGGTTTAAGT
* * * *
18708337 CGCAATGGCGAACGTAGTACCTTAGAGGCATGAAGGGAAAGATCTAAGCCGCAACGGTGGATCCA
66 CGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCA
*
18708402 GTACCACGAAGACAC
131 GTACCACAAAGACAC
* *
18708417 AAGGGAAAAATCTAAGCCACAATGGCGGATCCAGTATCACGAAGACACAAGAGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCACAATGGCGGATCCAGTACCACGAAGACACAAGAGAAAGGTTTAAGT
* * ** *
18708482 CACAATGGCGAACCTAGTACCTCAGAGACATTAAGGGAAAGATCTAAGCCGTGACGGCAGATCCA
66 CGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCA
18708547 GTACCACAAAGACAC
131 GTACCACAAAGACAC
* ** * * * * *
18708562 AAGGGAAAGATTTAAATCACAATGGC-GAACCTAGTACCTC-AGAGACATGAAGAGAAAGATCTA
1 AAGGGAAAGATCTAAGCCACAATGGCGGATCC-AGTACCACGA-AGACA-CAAGAGAAAGGTTTA
* * * * * * * * * * ** * *
18708625 AGCCGCGACGGCGGATCTAGTACCACAAAGACA-CAAGGGAAAGGTTTAAGTAGCAATGGC-GAA
63 AGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGAT
* * *
18708688 CCTAGTACCTCAGAGACATG
128 CC-AGTACCACAAAGACA-C
* * * * *
18708708 AAGGGAAAGATCTAAGCCGCGATGGCGGAAT-TAGTACCACAAAGACACAAGGGAAAGGTTTAAG
1 AAGGGAAAGATCTAAGCCACAATGGCGG-ATCCAGTACCACGAAGACACAAGAGAAAGGTTTAAG
* * * * *
18708772 TAGCAATGGCGAACCTAGTACCTCAGAAACATGAAGGGAAAGATCGAAGCCGCGACGACGGATCC
65 TCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCC
*
18708837 AGTACCATAAAGACAC
130 AGTACCACAAAGACAC
* * * *
18708853 AAGGGAAAGGTTTAAGTCGCAATGGCG
1 AAGGGAAAGATCTAAGCCACAATGGCG
18708880 AACCTAGTAC
Statistics
Matches: 369, Mismatches: 84, Indels: 20
0.78 0.18 0.04
Matches are distributed among these distances:
144 9 0.02
145 253 0.69
146 100 0.27
147 6 0.02
148 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.14
Consensus pattern (145 bp):
AAGGGAAAGATCTAAGCCACAATGGCGGATCCAGTACCACGAAGACACAAGAGAAAGGTTTAAGT
CGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCA
GTACCACAAAGACAC
Found at i:18708684 original size:242 final size:243
Alignment explanation
Indices: 18708174--18708696 Score: 737
Period size: 242 Copynumber: 2.2 Consensus size: 243
18708164 CAGAAGCATG
* * * *
18708174 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCTGTACCACGAAGACACAGAGGGAAAGGTTTAAG
1 AAGGGAAAGATTTAAGCAGCAATGGCGAATCCAGTACCACGAAGACACAGAGAGAAAGGTTTAAG
* *
18708239 TCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAATGGCGGATCC
66 TCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCAGATCC
** * * * * * *
18708304 AGTACCAGGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACGTAGTACCTTAGAGGCATG
131 AGTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACATG
* * *
18708369 AAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCACGAAGACAC
196 AAGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
* * * *
18708417 AAGGGAAAAATCTAAGCCA-CAATGGCGGATCCAGTATCACGAAGACACA-AGAGAAAGGTTTAA
1 AAGGGAAAGATTTAAG-CAGCAATGGCGAATCCAGTACCACGAAGACACAGAGAGAAAGGTTTAA
* * * **
18708480 GTCACAATGGCGAACCTAGTACCTCAGAGACATTAAGGGAAAGATCTAAGCCGTGACGGCAGATC
65 GTCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCAGATC
18708545 CAGTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACAT
130 CAGTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACAT
* *
18708610 GAAGAGAAAGATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACAC
195 GAAGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
* *
18708659 AAGGGAAAGGTTTAAGTAGCAATGGCGAA-CCTAGTACC
1 AAGGGAAAGATTTAAGCAGCAATGGCGAATCC-AGTACC
18708697 TCAGAGACAT
Statistics
Matches: 243, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
241 3 0.01
242 199 0.82
243 40 0.16
244 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (243 bp):
AAGGGAAAGATTTAAGCAGCAATGGCGAATCCAGTACCACGAAGACACAGAGAGAAAGGTTTAAG
TCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAACGGCAGATCC
AGTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACATG
AAGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
Found at i:18708762 original size:242 final size:242
Alignment explanation
Indices: 18708174--18709022 Score: 653
Period size: 242 Copynumber: 3.5 Consensus size: 242
18708164 CAGAAGCATG
* * * * * * * * *
18708174 AAGGGAAAGATTTAAGCCGCAACGGC-GAATCCTGTACCACGAAGACACAGAGGGAAAGGTTTAA
1 AAGGGAAAAATCTAAGCCACAATGGCGGAA-CCAGTATCACGAAGACACA-AGAGAAAGATCTAA
* * * * * *
18708238 GTCACAACGACGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAGCCGCAATGGCGGATC
64 GCCACAATGGCGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGGCAGATC
** * * * * * *
18708303 CAGTACCAGGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACGTAGTACCTTAGAGGCAT
129 CAGTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACAT
* * *
18708368 GAAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCACGAAGACAC
194 GAAGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
* * * *
18708417 AAGGGAAAAATCTAAGCCACAATGGCGGATCCAGTATCACGAAGACACAAGAGAAAGGTTTAAGT
1 AAGGGAAAAATCTAAGCCACAATGGCGGAACCAGTATCACGAAGACACAAGAGAAAGATCTAAGC
* **
18708482 CACAATGGCGAACCTAGTACCTCAGAGACATTAAGGGAAAGATCTAAGCCGTGACGGCAGATCCA
66 CACAATGGCGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGGCAGATCCA
18708547 GTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACATGA
131 GTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACATGA
* *
18708612 AGAGAAAGATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACAC
196 AGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
** * * * *
18708659 AAGGGAAAGGTTTAAG-TAGCAATGGC-GAACCTAGTACCTCA-G-AGACATGAAGGGAAAGATC
1 AAGGGAAAAATCTAAGCCA-CAATGGCGGAACC-AGTA--TCACGAAGACA-CAAGAGAAAGATC
* * * * * * * ** *
18708720 TAAGCCGCGATGGCGGAA-TTAGTACCACAAAGACA-CAAGGGAAAGGTTTAAGTAGCAATGGC-
61 TAAGCCACAATGGC-GAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGGCA
* * * ** ** * * * * *
18708782 GAACCTAGTACCTCAGAA-ACATGAAGGGAAAGATCGAAGCCGCGACGACGGATCC-AGTACCAT
125 GATCC-AGTACCACA-AAGACA-CAAGGGAAAGATTTAAATCACAATGGC-GAACCTAGTACC-T
* * * * * * * * ** * * *
18708845 -AAAGACA-CAAGGGAAAGGTTTAAGTCGCAATGGC-GAACCTAGTACCTTAGAGATATG
185 CAGAGACATGAAGAGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCACAAAGACA-C
* * * * * * * *
18708902 AAGGGAAAGATCTAAGCCACAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAAATCTAAGCCACAATGGCGGAACCAGTATCACGAAGACACAAGAGAAAGATCTAAGC
* * * * * * *
18708967 CACAATGGTGAACCTATTACCTCAGAAACATGAAGGGAAATATTTAAGCCACAACG
66 CACAATGGCGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACG
18709023 ACGAATCTAG
Statistics
Matches: 483, Mismatches: 103, Indels: 40
0.77 0.16 0.06
Matches are distributed among these distances:
241 17 0.04
242 295 0.61
243 153 0.32
244 18 0.04
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (242 bp):
AAGGGAAAAATCTAAGCCACAATGGCGGAACCAGTATCACGAAGACACAAGAGAAAGATCTAAGC
CACAATGGCGAACCTAGTACCTCAGAGACATCAAGGGAAAGATCTAAGCCGCAACGGCAGATCCA
GTACCACAAAGACACAAGGGAAAGATTTAAATCACAATGGCGAACCTAGTACCTCAGAGACATGA
AGAGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACAAAGACAC
Found at i:18709036 original size:97 final size:97
Alignment explanation
Indices: 18708417--18709016 Score: 873
Period size: 97 Copynumber: 6.2 Consensus size: 97
18708407 ACGAAGACAC
* * * * * * *
18708417 AAGGGAAAAATCTAAGCCACAATGGCGGATCCAGTATCACGAAGACACAAGAGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
*
18708482 CACAATGGCGAACCTAGTACCTCAGAGACATT
66 CACAATGGCGAACCTAGTACCTCAGAGACATG
* * * *
18708514 AAGGGAAAGATCTAAGCCGTGACGGCAGATCCAGTACCACAAAGACACAAGGGAAAGATTTAAAT
1 AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
18708579 CACAATGGCGAACCTAGTACCTCAGAGACATG
66 CACAATGGCGAACCTAGTACCTCAGAGACATG
* *
18708611 AAGAGAAAGATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
18708676 -AGCAATGGCGAACCTAGTACCTCAGAGACATG
66 CA-CAATGGCGAACCTAGTACCTCAGAGACATG
* *
18708708 AAGGGAAAGATCTAAGCCGCGATGGCGGAAT-TAGTACCACAAAGACACAAGGGAAAGGTTTAAG
1 AAGGGAAAGATCTAAGCCGCGACGGCGG-ATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAG
*
18708772 T-AGCAATGGCGAACCTAGTACCTCAGAAACATG
65 TCA-CAATGGCGAACCTAGTACCTCAGAGACATG
* * *
18708805 AAGGGAAAGATCGAAGCCGCGACGACGGATCCAGTACCATAAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
* * *
18708870 CGCAATGGCGAACCTAGTACCTTAGAGATATG
66 CACAATGGCGAACCTAGTACCTCAGAGACATG
* * *
18708902 AAGGGAAAGATCTAAGCCACAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGT
1 AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
* * *
18708967 CACAATGGTGAACCTATTACCTCAGAAACATG
66 CACAATGGCGAACCTAGTACCTCAGAGACATG
* *
18708999 AAGGGAAATATTTAAGCC
1 AAGGGAAAGATCTAAGCC
18709017 ACAACGACGA
Statistics
Matches: 455, Mismatches: 44, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
96 3 0.01
97 450 0.99
98 2 0.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (97 bp):
AAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACAAAGACACAAGGGAAAGGTTTAAGT
CACAATGGCGAACCTAGTACCTCAGAGACATG
Found at i:18718129 original size:14 final size:14
Alignment explanation
Indices: 18718112--18718159 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
18718102 AAAATCAATA
18718112 GTCAACGATCAAAG
1 GTCAACGATCAAAG
* *
18718126 GTCAACGGTCAACG
1 GTCAACGATCAAAG
*
18718140 ATCAAC-AGTCAAAG
1 GTCAACGA-TCAAAG
18718154 GTCAAC
1 GTCAAC
18718160 TTTAAAAGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (14 bp):
GTCAACGATCAAAG
Found at i:18718136 original size:21 final size:21
Alignment explanation
Indices: 18718112--18718159 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
18718102 AAAATCAATA
*
18718112 GTCAACGATCAA-AGGTCAACG
1 GTCAACGATCAACA-GTCAAAG
18718133 GTCAACGATCAACAGTCAAAG
1 GTCAACGATCAACAGTCAAAG
18718154 GTCAAC
1 GTCAAC
18718160 TTTAAAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (21 bp):
GTCAACGATCAACAGTCAAAG
Found at i:18723989 original size:16 final size:16
Alignment explanation
Indices: 18723964--18723997 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18723954 AAACCCAATT
*
18723964 TTTTATTTTAAATCTA
1 TTTTAGTTTAAATCTA
*
18723980 TTTTAGTTTAAATTTA
1 TTTTAGTTTAAATCTA
18723996 TT
1 TT
18723998 ATAAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTAGTTTAAATCTA
Found at i:18725812 original size:30 final size:30
Alignment explanation
Indices: 18725768--18725983 Score: 167
Period size: 30 Copynumber: 7.2 Consensus size: 30
18725758 GAAGGTCCTT
*
18725768 AAAC-TTTCCAAAAATCATATTTTGACCCTC
1 AAACTTTTCC-AAAATCATATTTTAACCCTC
* * * *
18725798 AAACTCTTCCAAAAT-TTCATTTTAACCATT
1 AAACTTTTCCAAAATCAT-ATTTTAACCCTC
*
18725828 AAACTTTTCCAAAATTATATTTTAACCCTC
1 AAACTTTTCCAAAATCATATTTTAACCCTC
* * *
18725858 AAAC-TTTCCAAAAATTACATTTTGACACC-C
1 AAACTTTTCC-AAAATCATATTTTAAC-CCTC
* * *
18725888 AAACTTCTT-CAAAATTACATTTTAACCCTT
1 AAACTT-TTCCAAAATCATATTTTAACCCTC
* * ** *
18725918 ATATTTTTCCAAAATCGCATTTTCA-CCTC
1 AAACTTTTCCAAAATCATATTTTAACCCTC
18725947 AAACTTTTCCAAAATTACAT-TTTTAACCCTC
1 AAACTTTTCCAAAA-T-CATATTTTAACCCTC
18725978 AAACTT
1 AAACTT
18725984 CATAAAAATC
Statistics
Matches: 150, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
29 25 0.17
30 103 0.69
31 20 0.13
32 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (30 bp):
AAACTTTTCCAAAATCATATTTTAACCCTC
Found at i:18725859 original size:60 final size:58
Alignment explanation
Indices: 18725768--18725983 Score: 222
Period size: 60 Copynumber: 3.6 Consensus size: 58
18725758 GAAGGTCCTT
* * * * *
18725768 AAAC-TTTCCAAAAATCATATTTTGACCCTCAAACTCTTCCAAAATTTCATTTTAACCATT
1 AAACTTTTCC-AAAATTACATTTTAACCCTCAAACT-TTCCAAAATTACATTTTAACC-TC
*
18725828 AAACTTTTCCAAAATTATATTTTAACCCTCAAACTTTCCAAAAATTACATTTTGACACC-C
1 AAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTCC-AAAATTACATTTT-A-ACCTC
* ** ** *
18725888 AAACTTCTT-CAAAATTACATTTTAACCCTTATATTTTTCCAAAATCGCATTTTCACCTC
1 AAACTT-TTCCAAAATTACATTTTAACCCTCA-AACTTTCCAAAATTACATTTTAACCTC
18725947 AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTT
1 AAACTTTTCCAAAATTACA-TTTTAACCCTCAAACTT
18725984 CATAAAAATC
Statistics
Matches: 133, Mismatches: 14, Indels: 19
0.80 0.08 0.11
Matches are distributed among these distances:
58 5 0.04
59 24 0.18
60 87 0.65
61 14 0.11
62 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (58 bp):
AAACTTTTCCAAAATTACATTTTAACCCTCAAACTTTCCAAAATTACATTTTAACCTC
Found at i:18725926 original size:90 final size:90
Alignment explanation
Indices: 18725768--18726000 Score: 269
Period size: 90 Copynumber: 2.6 Consensus size: 90
18725758 GAAGGTCCTT
* * *
18725768 AAACTTTCCAAAAATCATATTTTGAC-CCTCAAAC-TCTTCCAAAATTTCATTTTAACCATTAAA
1 AAACTTTCCAAAAATTACATTTTGACACCTCAAACTTCTT-CAAAATTACATTTTAACCATTAAA
* *
18725831 CTTTTCCAAAATTATATTTTAACCCTC
65 CTTTTCCAAAATCACATTTTAA-CCTC
* * *
18725858 AAACTTTCCAAAAATTACATTTTGACACC-CAAACTTCTTCAAAATTACATTTTAACCCTTATAT
1 AAACTTTCCAAAAATTACATTTTGACACCTCAAACTTCTTCAAAATTACATTTTAACCATTAAAC
* *
18725922 TTTTCCAAAATCGCATTTTCACCTC
66 TTTTCCAAAATCACATTTTAACCTC
* * * *
18725947 AAACTTTTCC-AAAATTACATTTTTA-ACCCTCAAACTTCATAAAAATCACATTTT
1 AAAC-TTTCCAAAAATTACATTTTGACA-CCTCAAACTTCTTCAAAATTACATTTT
18726001 GACACCTGAA
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
88 1 0.01
89 24 0.19
90 93 0.75
91 6 0.05
ACGTcount: A:0.37, C:0.24, G:0.01, T:0.37
Consensus pattern (90 bp):
AAACTTTCCAAAAATTACATTTTGACACCTCAAACTTCTTCAAAATTACATTTTAACCATTAAAC
TTTTCCAAAATCACATTTTAACCTC
Found at i:18725992 original size:60 final size:60
Alignment explanation
Indices: 18725768--18726091 Score: 204
Period size: 60 Copynumber: 5.4 Consensus size: 60
18725758 GAAGGTCCTT
* * * ** * *
18725768 AAAC-TTTCCAAAAAT-CATATTTTGACCCTCAAAC-TCTTCCAAAATTTCATTTTAACCATT
1 AAACTTTTCCAAAATTACAT-TTTTAACCCTCAAACTTCTT-AAAAATCACATTTTCACC-TC
* * *
18725828 AAACTTTTCCAAAATTATA-TTTTAACCCTCAAACTT-TCCAAAAATTACATTTTGACACC-C
1 AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTCT-TAAAAATCACATTTT--CACCTC
* * * * *
18725888 AAACTTCTT-CAAAATTACA-TTTTAACCCTTATA-TTTTTCCAAAATCGCATTTTCACCTC
1 AAACTT-TTCCAAAATTACATTTTTAACCCTCAAACTTCTT-AAAAATCACATTTTCACCTC
* *
18725947 AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTCATAAAAATCACATTTTGACACCTG
1 AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTCTTAAAAATCACATTTT--CACCTC
** * * * * * * * *
18726009 AAA-TTCACAAAAATTACATTTTGACCCCT-GAACTTCGTAAATATTACCATTTTGACCT-
1 AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTCTTAAAAATCA-CATTTTCACCTC
*
18726067 GAACTTTTCCAAAATTACTATTTTT
1 AAACTTTTCCAAAATTAC-ATTTTT
18726092 CCCCCAAACA
Statistics
Matches: 209, Mismatches: 37, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
58 8 0.04
59 34 0.16
60 112 0.54
61 43 0.21
62 12 0.06
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (60 bp):
AAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTCTTAAAAATCACATTTTCACCTC
Found at i:18726028 original size:30 final size:30
Alignment explanation
Indices: 18725957--18726064 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 30
18725947 AAACTTTTCC
* *
18725957 AAAATTACATTTTTA-ACCCTCAAACTTCATA
1 AAAATTACATTTTGACA-CCTGAAA-TTCATA
* *
18725988 AAAATCACATTTTGACACCTGAAATTCACA
1 AAAATTACATTTTGACACCTGAAATTCATA
* * *
18726018 AAAATTACATTTTGACCCCTGAACTTCGTA
1 AAAATTACATTTTGACACCTGAAATTCATA
*
18726048 AATATTACCATTTTGAC
1 AAAATTA-CATTTTGAC
18726065 CTGAACTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
30 36 0.55
31 28 0.43
32 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (30 bp):
AAAATTACATTTTGACACCTGAAATTCATA
Found at i:18726063 original size:31 final size:29
Alignment explanation
Indices: 18725957--18726090 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 29
18725947 AAACTTTTCC
* * *
18725957 AAAATTACATTTTTAACCCTCAAACTTCATA
1 AAAATTACA-TTTTGACCCT-GAACTTCACA
* *
18725988 AAAATCACATTTTGACACCTGAAATTCACA
1 AAAATTACATTTTGAC-CCTGAACTTCACA
**
18726018 AAAATTACATTTTGACCCCTGAACTTCGTA
1 AAAATTACATTTTGA-CCCTGAACTTCACA
* ** *
18726048 AATATTACCATTTTGA-CCTGAACTTTTCC
1 AAAATTA-CATTTTGACCCTGAACTTCACA
18726077 AAAATTACTATTTT
1 AAAATTAC-ATTTT
18726091 TCCCCCAAAC
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.01
29 20 0.24
30 43 0.51
31 20 0.24
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTGAACTTCACA
Found at i:18726072 original size:120 final size:119
Alignment explanation
Indices: 18725802--18726091 Score: 290
Period size: 120 Copynumber: 2.4 Consensus size: 119
18725792 ACCCTCAAAC
** * * *
18725802 TCTTCCAAAATTTCATTTTAACCATTAAACTTTTCCAAAATTATA-TTTTAACCCTCAAACTTTC
1 TCTTCCAAAATCGCATTTTCACC-TCAAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTTC
* * *
18725866 CAAAAATTACATTTTGACACCCAAACTTCTTCAAAATTACATTTTAACCCTTATA
65 CAAAAATCACATTTTGACACCCAAACTTCTACAAAATTACATTTTAACCCTGATA
*
18725921 TTTTTCCAAAATCGCATTTTCACCTCAAACTTTTCCAAAATTACATTTTTAACCCTCAAAC-TTC
1 -TCTTCCAAAATCGCATTTTCACCTCAAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTTC
* * *
18725985 ATAAAAATCACATTTTGACACCTGAAA-TTC-ACAAAAATTACATTTTGACCCCTGA-A
65 -CAAAAATCACATTTTGACACC-CAAACTTCTAC-AAAATTACATTTT-AACCCTGATA
* * *
18726041 -CTTCGTAAATATTAC-CATTTTGACCT-GAACTTTTCCAAAATTACTATTTTT
1 TCTTC-CAAA-A-T-CGCATTTTCACCTCAAACTTTTCCAAAATTAC-ATTTTT
18726092 CCCCCAAACA
Statistics
Matches: 144, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
118 3 0.02
119 26 0.18
120 88 0.61
121 26 0.18
122 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (119 bp):
TCTTCCAAAATCGCATTTTCACCTCAAACTTTTCCAAAATTACATTTTTAACCCTCAAACTTTCC
AAAAATCACATTTTGACACCCAAACTTCTACAAAATTACATTTTAACCCTGATA
Found at i:18726117 original size:28 final size:29
Alignment explanation
Indices: 18726077--18726137 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
18726067 GAACTTTTCC
* *
18726077 AAAATTACTATTTTTCCCCCAAACAT-CA
1 AAAATTACAATTTTACCCCCAAACATCCA
18726105 AAAATTACAATTTTACCCCCAAACATCCA
1 AAAATTACAATTTTACCCCCAAACATCCA
18726134 AAAA
1 AAAA
18726138 CCACATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (29 bp):
AAAATTACAATTTTACCCCCAAACATCCA
Found at i:18726145 original size:28 final size:28
Alignment explanation
Indices: 18726086--18726148 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18726076 CAAAATTACT
* **
18726086 ATTTTTCCCCCAAACATCAAAAATTACA
1 ATTTTACCCCCAAACATCAAAAACCACA
18726114 ATTTTACCCCCAAACATCCAAAAACCACA
1 ATTTTACCCCCAAACAT-CAAAAACCACA
*
18726143 TTTTTA
1 ATTTTA
18726149 ATCCCAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.29
Consensus pattern (28 bp):
ATTTTACCCCCAAACATCAAAAACCACA
Found at i:18726147 original size:29 final size:28
Alignment explanation
Indices: 18726086--18726148 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
18726076 CAAAATTACT
**
18726086 ATTTTT-CCCCCAAACATCAAAAATTAC
1 ATTTTTACCCCCAAACATCAAAAACCAC
*
18726113 AATTTTACCCCCAAACATCCAAAAACCAC
1 ATTTTTACCCCCAAACAT-CAAAAACCAC
18726142 ATTTTTA
1 ATTTTTA
18726149 ATCCCAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.17
28 11 0.37
29 14 0.47
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.29
Consensus pattern (28 bp):
ATTTTTACCCCCAAACATCAAAAACCAC
Found at i:18726154 original size:29 final size:28
Alignment explanation
Indices: 18726093--18726156 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
18726083 ACTATTTTTC
** *
18726093 CCCCAAACATCAAAAATTACAATTTTAC
1 CCCCAAACATCAAAAACCACAATTTTAA
*
18726121 CCCCAAACATCCAAAAACCACATTTTTAA
1 CCCCAAACAT-CAAAAACCACAATTTTAA
*
18726150 TCCCAAA
1 CCCCAAA
18726157 TTTTCCAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (28 bp):
CCCCAAACATCAAAAACCACAATTTTAA
Found at i:18732010 original size:14 final size:13
Alignment explanation
Indices: 18731991--18732059 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 13
18731981 CGGATTCAAT
18731991 GAAGAAAGAAAAAA
1 GAAGAAA-AAAAAA
18732005 GAAGAAAAATAAAA
1 GAAGAAAAA-AAAA
*
18732019 -AAAAAAAAACAAA
1 GAAGAAAAAA-AAA
*
18732032 AAAGAGAAAAAAAA
1 GAAGA-AAAAAAAA
*
18732046 -AGGAAAAACAAAA
1 GAAGAAAAA-AAAA
18732059 G
1 G
18732060 GAGAGGTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 5 0.11
13 19 0.41
14 17 0.37
15 5 0.11
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.01
Consensus pattern (13 bp):
GAAGAAAAAAAAA
Found at i:18732011 original size:10 final size:10
Alignment explanation
Indices: 18731995--18732059 Score: 62
Period size: 10 Copynumber: 6.4 Consensus size: 10
18731985 TTCAATGAAG
18731995 AAAGAAAAAA
1 AAAGAAAAAA
*
18732005 GAAGAAAAATA
1 AAAGAAAAA-A
18732016 AAA-AAAAAA
1 AAAGAAAAAA
*
18732025 AAA-CAAAAA
1 AAAGAAAAAA
*
18732034 AGAGAAAAAA
1 AAAGAAAAAA
18732044 AAAGGAAAAACA
1 AAA-GAAAAA-A
18732056 AAAG
1 AAAG
18732060 GAGAGGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
9 11 0.24
10 20 0.44
11 10 0.22
12 4 0.09
ACGTcount: A:0.83, C:0.03, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:18732024 original size:20 final size:22
Alignment explanation
Indices: 18731993--18732047 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
18731983 GATTCAATGA
*
18731993 AGAAAGAAAAAAGAAGAAAAATA-
1 AGAAA-AAAAAAGAACAAAAA-AG
18732016 A-AAAAAAAAA-AACAAAAAAG
1 AGAAAAAAAAAGAACAAAAAAG
18732036 AGAAAAAAAAAG
1 AGAAAAAAAAAG
18732048 GAAAAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 15 0.54
22 3 0.11
23 1 0.04
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (22 bp):
AGAAAAAAAAAGAACAAAAAAG
Found at i:18732052 original size:20 final size:19
Alignment explanation
Indices: 18731996--18732053 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
18731986 TCAATGAAGA
*
18731996 AAGAAAAAAGAAGAAAAAT
1 AAGAAAAAAAAAGAAAAAT
* *
18732015 AA-AAAAAAAAAAACAAAAA
1 AAGAAAAAAAAAGA-AAAAT
18732034 AGAGAAAAAAAAAGGAAAAA
1 A-AGAAAAAAAAA-GAAAAA
18732054 CAAAAGGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 9 0.29
19 7 0.23
20 1 0.03
21 13 0.42
22 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAAAGAAAAAT
Found at i:18732059 original size:12 final size:11
Alignment explanation
Indices: 18732015--18732061 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
18732005 GAAGAAAAAT
*
18732015 AAAAAAAAA-A
1 AAAAAAAAAGG
18732025 AAACAAAAAAGAG
1 AAA-AAAAAAG-G
18732038 AAAAAAAAAGG
1 AAAAAAAAAGG
18732049 AAAAACAAAAGG
1 AAAAA-AAAAGG
18732061 A
1 A
18732062 GAGGTTTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.09
11 12 0.38
12 14 0.44
13 3 0.09
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGG
Found at i:18733270 original size:97 final size:96
Alignment explanation
Indices: 18733150--18733482 Score: 351
Period size: 97 Copynumber: 3.4 Consensus size: 96
18733140 CGATACCTTA
* * *
18733150 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTACCATAAAATGTGATGGAAAA
1 GAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATGTGATGGGAAA
* *
18733215 GGTTGAGGCCGCAACGGCAAACCCAGTACCAT
66 GGTTGAGGCCGCAATGGCGAACCC-GTACCAT
* * * * * * * *
18733247 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAACAGCGAACCCAATACCTTAAAAGATGTTGAAGGG
1 GAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCAT-AAA-ATG-TGATGGG
* * * ** * *
18733312 AAAGGTTAAGGTCGTAATGATGAACTCGATACCTT
63 AAAGGTTGAGGCCGCAATGGCGAACCCG-TACCAT
* * *
18733347 AGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAATGTGATGGGAA
1 -GAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATGTGATGGGAA
* *
18733412 AGGTTGAGGCCGCAATGGCGGACCCGGTACTAT
65 AGGTTGAGGCCGCAATGGCGAACCC-GTACCAT
* * *
18733445 GAAGATTTTAAGGGAAAGGTTGAGGCCGCAACGGCGAA
1 GAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAA
18733483 CCTTGTACCT
Statistics
Matches: 186, Mismatches: 44, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
97 74 0.40
98 33 0.18
99 8 0.04
100 31 0.17
101 40 0.22
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (96 bp):
GAAGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATGTGATGGGAAA
GGTTGAGGCCGCAATGGCGAACCCGTACCAT
Found at i:18733352 original size:198 final size:197
Alignment explanation
Indices: 18733140--18733584 Score: 588
Period size: 198 Copynumber: 2.3 Consensus size: 197
18733130 ACGACGAATC
*
18733140 CGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAGTACCATAAAATG
1 CGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATG
18733205 TGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCATGAAGATTTGAAGGGAAAGGTTGA
66 TGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCATGAAGATTTGAAGGGAAAGGTTGA
* ** * *
18733270 GGCTGCAACAGCGAACCCAATACCTTAAAAGATGTTGAAGGGAAAGGTTAAGG-TCGTAATGATG
131 GGCCGCAACAGCGAACCCAATACCTTAAAAGA-AATGAAGGGAAAGGTTAAGGCT-GCAACGATG
18733334 AACT
194 AACT
* *
18733338 CGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAATG
1 CGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATG
* * ** * * *
18733403 TGATGGGAAAGGTTGAGGCCGCAATGGCGGACCCGGTACTATGAAGATTTTAAGGGAAAGGTTGA
66 TGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCATGAAGATTTGAAGGGAAAGGTTGA
* *** * *
18733468 GGCCGCAACGGCGAACCTTGTACCTTAGAAGAAATGAAGGGAAAGGTTGAGGCTGCAACGATGAA
131 GGCCGCAACAGCGAACCCAATACCTTAAAAGAAATGAAGGGAAAGGTTAAGGCTGCAACGATGAA
18733533 CT
196 CT
* * * * * * * *
18733535 CGGTAGCTTAGAAAACAG-GATGGAAAATATTGAAGCCGCAATGGCGAATC
1 CGATACCTTAGAAGA-TGTGATGGGAAAGATTGAGGCCGCAACGGCGAATC
18733585 TTATACCATA
Statistics
Matches: 216, Mismatches: 29, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
197 68 0.31
198 148 0.69
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (197 bp):
CGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATAAAATG
TGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCATGAAGATTTGAAGGGAAAGGTTGA
GGCCGCAACAGCGAACCCAATACCTTAAAAGAAATGAAGGGAAAGGTTAAGGCTGCAACGATGAA
CT
Found at i:18733545 original size:50 final size:50
Alignment explanation
Indices: 18733004--18733547 Score: 350
Period size: 50 Copynumber: 11.1 Consensus size: 50
18732994 AGAAAAACAT
* *** * *
18733004 GAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
* * * *
18733054 AAAGATGT-AATGGGAAAGGTTGAGG-CG--GCGGCGAACTCGGTACCAT-
1 GAAGATGTGAA-GGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
* * * * * *
18733100 GGAGATTTGAAGGG-AGGGATTGAGGTCGCGACGACGAA-TCCGATACCTTA
1 GAAGATGTGAAGGGAAAGG-TTGAGGCCGCAACGACGAACT-CGGTACCTTA
* * ** * *
18733150 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTGAA-TCCAGTACCATA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACT-CGGTACCTTA
* * * * * * *
18733200 -AA-ATGTGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
* * * **
18733247 GAAGATTTGAAGGGAAAGGTTGAGGCTGCAAC-AGCGAACCCAATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACTCGGTACCTTA
* * * * * * *
18733297 AAAGATGTTGAAGGGAAAGGTTAAGGTCGTAATGATGAACTCGATACCTTA
1 GAAGATG-TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
* * * *
18733348 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGAA-TCCGGTACCAT-
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACT-CGGTACCTTA
* * * * *
18733397 GAA-ATGTGATGGGAAAGGTTGAGGCCGCAATGGCGGACCCGGTA-C-TA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
* * * *
18733444 TGAAGATTTTAAGGGAAAGGTTGAGGCCGCAACGGCGAAC-CTTGTACCTTA
1 -GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTC-GGTACCTTA
** * * *
18733495 GAAGAAATGAAGGGAAAGGTTGAGGCTGCAACGATGAACTCGGTAGCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
18733545 GAA
1 GAA
18733548 AACAGGATGG
Statistics
Matches: 389, Mismatches: 80, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
45 3 0.01
46 15 0.04
47 18 0.05
48 82 0.21
49 92 0.24
50 134 0.34
51 44 0.11
52 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGGTACCTTA
Found at i:18733627 original size:198 final size:197
Alignment explanation
Indices: 18733122--18733627 Score: 477
Period size: 198 Copynumber: 2.6 Consensus size: 197
18733112 GGAGGGATTG
* * * * * * *
18733122 AGGTCGCGACGACGAA-TCCGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTG
1 AGGTCGCAACGATGAACT-CGATACCTTAGAAAAAGTGATGGAAAAGATTGAAGCCGCAACGGCG
* * * * * **
18733186 AATCC-AGTACCATAAAATGTGATGGAAAAGGTTGAGGCCGCAACGGCAAACCCAGTACCATGAA
65 AATCCGA-TACCATGAAATGAGATGGCAAA-GTTGAAGCCGCAATGGCGGACCCAGTACCATGAA
* **
18733250 GATTTGAAGGGAAAGGTTGAGGCTGCAACAGCGAACCCAATACCTTAAAAGATGTTGAAGGGAAA
128 GATTTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCAATACCTTAAAAGATAATGAAGGGAAA
18733315 GGTTA
193 GGTTA
* * * * * *
18733320 AGGTCGTAATGATGAACTCGATACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACGGCGA
1 AGGTCGCAACGATGAACTCGATACCTTAGAAAAAGTGATGGAAAAGATTGAAGCCGCAACGGCGA
* * * * * *
18733385 ATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAATGGCGGACCCGGTACTATGAAGA
66 ATCCGATACCATGAAATGAGATGGCAAA-GTTGAAGCCGCAATGGCGGACCCAGTACCATGAAGA
* * *** *
18733450 TTTTAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTTGTACCTTAGAAGA-AATGAAGGGAAAGG
130 TTTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCAATACCTTAAAAGATAATGAAGGGAAAGG
*
18733514 TTG
195 TTA
* * * *
18733517 AGG-CTGCAACGATGAACTCGGTAGCTTAGAAAACAG-GATGGAAAATATTGAAGCCGCAATGGC
1 AGGTC-GCAACGATGAACTCGATACCTTAGAAAA-AGTGATGGAAAAGATTGAAGCCGCAACGGC
** **
18733580 GAATCTTATACCAT-AAAGTCGAAGATGAGCAAA-TTGAAGTTGCAATGG
64 GAATCCGATACCATGAAA-T-G-AGATG-GCAAAGTTGAAGCCGCAATGG
18733628 TGAATCTTCT
Statistics
Matches: 259, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
196 4 0.02
197 75 0.29
198 171 0.66
199 5 0.02
200 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.19
Consensus pattern (197 bp):
AGGTCGCAACGATGAACTCGATACCTTAGAAAAAGTGATGGAAAAGATTGAAGCCGCAACGGCGA
ATCCGATACCATGAAATGAGATGGCAAAGTTGAAGCCGCAATGGCGGACCCAGTACCATGAAGAT
TTGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCCAATACCTTAAAAGATAATGAAGGGAAAGGT
TA
Found at i:18734028 original size:39 final size:38
Alignment explanation
Indices: 18733921--18734344 Score: 198
Period size: 39 Copynumber: 10.9 Consensus size: 38
18733911 CTTTTACCCC
* * * *
18733921 GGGCAGATCACAACCAATCAATCTCTTACCCCGAGCCTG
1 GGGCAGATCACCATC-ACCAATCTCTTACCCCAAGCCTG
* * * * *
18733960 GGGCAGATTA-TAACTATCCGATCTTTTACCCCAAGCCTG
1 GGGCAGATCACCATC-A-CCAATCTCTTACCCCAAGCCTG
*
18733999 GGGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTT
1 GGGCAGATCACCATC-ACCAATCTCTTACCCCAAGCCTG
* * * *
18734038 GGGTAGATTGCAGCCAT--CCGATCTTTTACCCCAAGCTTG
1 GGGCAGA-T-CA-CCATCACCAATCTCTTACCCCAAGCCTG
* * * *
18734077 AGTCAGATCAGCATCAACCAATCTCTTA-CCCAGAGCCTA
1 GGGCAGATCACCATC-ACCAATCTCTTACCCCA-AGCCTG
* * * * *
18734116 GGGCAGATTGTAGCCAT--TCGATCTTTTACCCCAAGTCTG
1 GGGCAGA-T-CA-CCATCACCAATCTCTTACCCCAAGCCTG
* * *
18734155 AGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTA
1 GGGCAGATCACCATCA-CCAATCTCTTACCCCAAGCCTG
* * * * *
18734194 AGGCAGATTGCAGCCAT--TCGATCTCTTACCCCGAGCTTG
1 GGGCAGA-T-CA-CCATCACCAATCTCTTACCCCAAGCCTG
* * * * *
18734233 AGGAAGATCACCATCAGTCAATCTCTTACCCCAATCATG
1 GGGCAGATCACCATCA-CCAATCTCTTACCCCAAGCCTG
* * ** ** * * * *
18734272 GGGTAAATGGCGGTCATTCGATCTCTTACCCCGAGCTTG
1 GGGCAGATCACCATCA-CCAATCTCTTACCCCAAGCCTG
*
18734311 GGGTAGATCACCATCAGCCAATCTCTTACCCCAA
1 GGGCAGATCACCATCA-CCAATCTCTTACCCCAA
18734345 TCAGGGAGCA
Statistics
Matches: 288, Mismatches: 75, Indels: 44
0.71 0.18 0.11
Matches are distributed among these distances:
36 11 0.04
37 5 0.02
38 10 0.03
39 236 0.82
40 10 0.03
41 5 0.02
42 11 0.04
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (38 bp):
GGGCAGATCACCATCACCAATCTCTTACCCCAAGCCTG
Found at i:18734057 original size:78 final size:78
Alignment explanation
Indices: 18733922--18734344 Score: 463
Period size: 78 Copynumber: 5.4 Consensus size: 78
18733912 TTTTACCCCG
* * * * * ** * * *
18733922 GGCAGATCACAACCAATCAATCTCTTACCCCGAGCCTGGGGCAGATTATAACTATCCGATCTTTT
1 GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTT
* *
18733987 ACCCCAAGCCTGG
66 ACCCCAAGCTTGA
* * *
18734000 GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTTGGGTAGATTGCAGCCATCCGATCTTTT
1 GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTT
18734065 ACCCCAAGCTTGA
66 ACCCCAAGCTTGA
* * *
18734078 GTCAGATCAGCATCAACCAATCTCTTA-CCCAGAGCCTAGGGCAGATTGTAGCCATTCGATCTTT
1 GGCAGATCACCATCAACCAATCTCTTACCCCA-AGCCTAGGGCAGATTGCAGCCATTCGATCTTT
18734142 TACCCCAAG-TCTGA
65 TACCCCAAGCT-TGA
* * * *
18734156 GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAGCCATTCGATCTCTT
1 GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTT
*
18734221 ACCCCGAGCTTGA
66 ACCCCAAGCTTGA
* ** * * * * * * * * *
18734234 GGAAGATCACCATCAGTCAATCTCTTACCCCAATCATGGGGTAAATGGCGGTCATTCGATCTCTT
1 GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTT
* *
18734299 ACCCCGAGCTTGG
66 ACCCCAAGCTTGA
* *
18734312 GGTAGATCACCATCAGCCAATCTCTTACCCCAA
1 GGCAGATCACCATCAACCAATCTCTTACCCCAA
18734345 TCAGGGAGCA
Statistics
Matches: 300, Mismatches: 41, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
77 5 0.02
78 291 0.97
79 4 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (78 bp):
GGCAGATCACCATCAACCAATCTCTTACCCCAAGCCTAGGGCAGATTGCAGCCATTCGATCTTTT
ACCCCAAGCTTGA
Done.