Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 15 of 196
Found at i:4265886 original size:84 final size:84
Alignment explanation
Indices: 4265756--4265950 Score: 259
Period size: 84 Copynumber: 2.3 Consensus size: 84
4265746 TTACTGATTA
* * * * * *
4265756 GGCAC-TTATGTGCCGACTACTGTTACTGTTACTGATTTGGCACTTTGTGTGTCGAATACTGTTA
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTA
*
4265820 CTGTTACTGTTACCA-ACTC
66 CCGTTACTGTTA-CAGACTC
* *
4265839 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGGCGCTTTGTGTGTTGAATACTGTTA
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTA
*
4265904 CCGTTACTGTTACAGATTC
66 CCGTTACTGTTACAGACTC
* *
4265923 AGCACTTTGTGTGTTGAATACTGTTACT
1 GGCACTTTGTGTGTCGAATACTGTTACT
4265951 ACTACCGTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
83 7 0.07
84 91 0.93
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (84 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTA
CCGTTACTGTTACAGACTC
Found at i:4265949 original size:39 final size:39
Alignment explanation
Indices: 4265746--4265950 Score: 155
Period size: 45 Copynumber: 5.0 Consensus size: 39
4265736 ATTTGCCGGC
* * *
4265746 TTACTGATT-AGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTCA-GCACTTTGTGTGTCGAATACTGTTACTG
**
4265784 TTACTGATTTGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
4265823 TTACTG-TTACCAACTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATT--C-A----GCACTTTGTGTGTCGAATACTGTTACTG
* * * * *
4265868 TTACCGACTCGGCGCTTTGTGTGTTGAATACTGTTACCGTTACTG
1 TTACTGATTCAGCACTTTGTGTGTCGAATAC---T---GTTACTG
* *
4265913 TTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACT
4265951 ACTACCGTTA
Statistics
Matches: 136, Mismatches: 15, Indels: 31
0.75 0.08 0.17
Matches are distributed among these distances:
38 15 0.11
39 50 0.37
42 2 0.01
44 1 0.01
45 67 0.49
46 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (39 bp):
TTACTGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:4268576 original size:42 final size:42
Alignment explanation
Indices: 4268517--4268618 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
4268507 TGAGTTTCTG
* ** *
4268517 TTTAACCTTTATGGGTTTTCGTTCAGCTCTTTTGAGCTTTAA
1 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCAA
**
4268559 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCG
1 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCAA
*
4268601 TTCAACCCTTATGGGTTT
1 TTTAACCCTTATGGGTTT
4268619 CTGTTTAGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCAA
Found at i:4271134 original size:4 final size:4
Alignment explanation
Indices: 4271127--4271163 Score: 58
Period size: 4 Copynumber: 9.2 Consensus size: 4
4271117 TTGCTTGCAC
4271127 ATAA ATAA ATAA ATAAA ATAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A
4271164 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.10
4 24 0.77
5 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:4276822 original size:42 final size:42
Alignment explanation
Indices: 4276763--4276846 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
4276753 ATGTATATAA
*
4276763 CCCCCCCCCTCCACACACACACACACACATAACAGGAACTTT
1 CCCCCCCCCCCCACACACACACACACACATAACAGGAACTTT
*
4276805 CCCCCCCCCCCCCCACACACACACACACATAACAGGAACTTT
1 CCCCCCCCCCCCACACACACACACACACATAACAGGAACTTT
4276847 TCTTATCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.52, G:0.05, T:0.11
Consensus pattern (42 bp):
CCCCCCCCCCCCACACACACACACACACATAACAGGAACTTT
Found at i:4288704 original size:17 final size:16
Alignment explanation
Indices: 4288672--4288715 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
4288662 AAATAAGATG
4288672 AATATTTTTATATTTTTAA
1 AATA-TTTT-TATTTTT-A
4288691 AATATTTTTATTTTTA
1 AATATTTTTATTTTTA
4288707 AATATTTTT
1 AATATTTTT
4288716 TAATTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.40
17 7 0.28
18 4 0.16
19 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AATATTTTTATTTTTA
Found at i:4288705 original size:18 final size:17
Alignment explanation
Indices: 4288672--4288742 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 17
4288662 AAATAAGATG
4288672 AATATTTTTATATTTTTAA
1 AATATTTTTAT-TTTTT-A
4288691 AATATTTTTA-TTTTTA
1 AATATTTTTATTTTTTA
4288707 AATATTTTTTAATTTTTTCA
1 AATA-TTTTT-ATTTTTT-A
* *
4288727 TATATTTTAATTTTTT
1 AATATTTTTATTTTTT
4288743 TATAAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 10 0.22
18 8 0.17
19 19 0.41
20 4 0.09
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (17 bp):
AATATTTTTATTTTTTA
Found at i:4288716 original size:17 final size:17
Alignment explanation
Indices: 4288672--4288723 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
4288662 AAATAAGATG
4288672 AATATTTTTATATTTTTA
1 AATATTTTT-TATTTTTA
4288690 AA-ATATTTTTATTTTTA
1 AATAT-TTTTTATTTTTA
4288707 AATATTTTTTAATTTTT
1 AATATTTTTT-ATTTTT
4288724 TCATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
AATATTTTTTATTTTTA
Found at i:4288724 original size:36 final size:35
Alignment explanation
Indices: 4288672--4288741 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 35
4288662 AAATAAGATG
*
4288672 AATATTTTTATATTTTTAAAATATTTTTATTTTTA
1 AATATTTTTATATTTTTAAAATATTTTAATTTTTA
* *
4288707 AATATTTTT-TAATTTTTTCATATATTTTAATTTTT
1 AATATTTTTAT-A-TTTTTAAAATATTTTAATTTTT
4288742 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 1 0.03
35 10 0.33
36 19 0.63
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (35 bp):
AATATTTTTATATTTTTAAAATATTTTAATTTTTA
Found at i:4288734 original size:11 final size:9
Alignment explanation
Indices: 4288672--4288744 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 9
4288662 AAATAAGATG
4288672 AATATTTTT
1 AATATTTTT
4288681 -ATATTTTT
1 AATATTTTT
4288689 AAAATATTTTT
1 --AATATTTTT
*
4288700 -AT-TTTTA
1 AATATTTTT
4288707 AATATTTTTT
1 AATA-TTTTT
4288717 AAT-TTTTT
1 AATATTTTT
*
4288725 CATATATTTT
1 AATAT-TTTT
*
4288735 AATTTTTTT
1 AATATTTTT
4288744 A
1 A
4288745 TAAAAATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
7 4 0.08
8 19 0.37
9 6 0.12
10 14 0.27
11 8 0.16
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (9 bp):
AATATTTTT
Found at i:4288740 original size:17 final size:17
Alignment explanation
Indices: 4288672--4288741 Score: 70
Period size: 18 Copynumber: 4.0 Consensus size: 17
4288662 AAATAAGATG
4288672 AATAT-TTTTATATTTTT
1 AATATATTTTA-ATTTTT
* *
4288689 AAAATATTTTTATTTTT
1 AATATATTTTAATTTTT
*
4288706 AAATATTTTTTAATTTTTT
1 -AATATATTTTAA-TTTTT
*
4288725 CATATATTTTAATTTTT
1 AATATATTTTAATTTTT
4288742 TTATAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
17 15 0.35
18 23 0.53
19 5 0.12
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (17 bp):
AATATATTTTAATTTTT
Found at i:4290043 original size:36 final size:36
Alignment explanation
Indices: 4289996--4290069 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
4289986 CACCGATTTT
4289996 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
1 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
4290032 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
1 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
4290068 TC
1 TC
4290070 TTTGATTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (36 bp):
TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
Found at i:4291653 original size:25 final size:26
Alignment explanation
Indices: 4291620--4291670 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
4291610 ATTATAGATA
4291620 TATATATTGCCGAATTTG-ATTGTTT
1 TATATATTGCCGAATTTGAATTGTTT
*
4291645 TATATATTGCCTAATTTGAATTGTTT
1 TATATATTGCCGAATTTGAATTGTTT
4291671 ATAGTTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (26 bp):
TATATATTGCCGAATTTGAATTGTTT
Found at i:4291764 original size:31 final size:30
Alignment explanation
Indices: 4291665--4292250 Score: 349
Period size: 31 Copynumber: 19.1 Consensus size: 30
4291655 CTAATTTGAA
* * * *
4291665 TTGTTTATAGTTATACATTGTTGAAATTGAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
*** * * *
4291696 TTGTATATGAAGATA-AGGTGCCGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4291726 TCGTATATGGTTGTCCATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4291757 TTGTATATGATTATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * *
4291788 TTGTCA-ATGGATATA-AGTTGCCGAATTAAT
1 TTGT-ATATGGTTATACA-TTGCTGAATTTAT
* *
4291818 TCGTATATGGTTGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4291849 TTGTATATGATTATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * *
4291880 TTGTAAATGGATATA-AGTTGCCGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* *
4291910 TCGTATATGGTTGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4291941 TTGTATATGGTCATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * *
4291972 TTGTAAATGGATATA-AGTTGCCGAATTGAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4292002 TCGTATATGGATGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* ** *
4292033 TTGTATATGATTATACATTATTGAAATTGAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* *
4292064 TTGTATATGGATATA-AGTTGCTGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4292094 TCGTATATGGTTATACAATG-TCAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * *
4292124 TTGTATATGATTATACATTTCTGAACTTGAT
1 TTGTATATGGTTATACATTGCTGAA-TTTAT
** * ** *
4292155 TCATATACGGTTATACATTGCCAAATTGAT
1 TTGTATATGGTTATACATTGCTGAATTTAT
* * *
4292185 TTGTATATGATTATACATTACCGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * * *
4292216 TCGTGTATGAATATATACATTGTTGAATTGAT
1 TTGTATATG-GT-TATACATTGCTGAATTTAT
4292248 TTG
1 TTG
4292251 AGCATTGGAT
Statistics
Matches: 417, Mismatches: 113, Indels: 49
0.72 0.20 0.08
Matches are distributed among these distances:
29 6 0.01
30 158 0.38
31 231 0.55
32 9 0.02
33 13 0.03
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.45
Consensus pattern (30 bp):
TTGTATATGGTTATACATTGCTGAATTTAT
Found at i:4291776 original size:92 final size:92
Alignment explanation
Indices: 4291675--4292250 Score: 732
Period size: 92 Copynumber: 6.3 Consensus size: 92
4291665 TTGTTTATAG
* * * * *
4291675 TTATACATTGTTGAAATTGATTTGTATATGAAGATAAGGTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4291740 CCATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
* *
4291767 TTATTCATTGTTGAATTTGATTTGTCAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
4291832 ACATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
*
4291859 TTATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4291924 ACATTGCTGAAATTTATTTGTATATGG
66 ACATTGCTGAAATTTATTTGTATATGA
* * * *
4291951 TCATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTGATTCGTATATGGATGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
4292016 ACATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
* * * * *
4292043 TTATACATTATTGAAATTGATTTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTAT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
* *
4292108 ACAATG-T-CAATTTGATTTGTATATGA
66 ACATTGCTGAAATTT-ATTTGTATATGA
* ** * * * * * * *
4292134 TTATACATT-TCTGAACTTGATTCATATACGGTTATACA-TTGCCAAATTGATTTGTATATGATT
1 TTATACATTGT-TGAATTTGATTTGTAAATGGATATA-AGTTGCCGAATTAATTCGTATATGGTT
* * * * *
4292197 ATACATTACCG-AATTTGATTCGTGTATGAA
64 GTACATTGCTGAAATTT-ATTTGTATATG-A
4292227 TATATACATTGTTGAA-TTGATTTG
1 T-TATACATTGTTGAATTTGATTTG
4292251 AGCATTGGAT
Statistics
Matches: 434, Mismatches: 42, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
90 6 0.01
91 68 0.16
92 339 0.78
93 8 0.02
94 12 0.03
95 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (92 bp):
TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
ACATTGCTGAAATTTATTTGTATATGA
Found at i:4291783 original size:61 final size:61
Alignment explanation
Indices: 4291674--4292203 Score: 300
Period size: 61 Copynumber: 8.7 Consensus size: 61
4291664 ATTGTTTATA
* * ** * * *
4291674 GTTATACATTGTTGAAATTGATTTGTATATGAAGA-TAAGGTGCCGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * *
4291735 GTTGTCCATTGCTGAAATTTATTTGTATATGATTATTCATTGTTGAATTTGATTTGTCA-ATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAA-TTAATTCGT-ATATG
* * * * * * * * *
4291797 GATATA-AGTTGCCG-AATTAATTCGTATATGGTTGTACATTGCTGAAATTTATTTGTATATG
1 GTTATACA-TTGCTGAAATTTATTTGTATATGATTATTCATTGCTG-AATTAATTCGTATATG
* * * * * *
4291858 ATTATTCATTGTTG-AATTTGATTTGTAAATGGA-TA-TAAGTTGCCGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTT-ATTTGTATAT-GATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * * * *
4291919 GTTGTACATTGCTGAAATTTATTTGTATATGGTCATTCATTGTTGAATTTGATTTGTAAATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAA-TTAATTCGTATATG
* * * * * *
4291981 GATATA-AGTTGCCG-AATTGATTCGTATATGGATGTA--CATTGCTGAAATTTATTTGTATATG
1 GTTATACA-TTGCTGAAATTTATTTGTATAT-GAT-TATTCATTGCTG-AATTAATTCGTATATG
* ** * *
4292042 ATTATACATTATTGAAATTGATTTGTATATGGA-TA-TAAGTTGCTGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTTATTTGTATAT-GATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * * * *
4292103 GTTATACAATG-T-CAATTTGATTTGTATATGATTATACATTTCTGAACTTGATTCATATACG
1 GTTATACATTGCTGAAATTT-ATTTGTATATGATTATTCATTGCTGAA-TTAATTCGTATATG
* * *
4292164 GTTATACATTGC-CAAATTGATTTGTATATGATTATACATT
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATT
4292204 ACCGAATTTG
Statistics
Matches: 357, Mismatches: 84, Indels: 56
0.72 0.17 0.11
Matches are distributed among these distances:
59 6 0.02
60 24 0.07
61 228 0.64
62 96 0.27
63 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (61 bp):
GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAATTAATTCGTATATG
Found at i:4296297 original size:16 final size:16
Alignment explanation
Indices: 4296276--4296307 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4296266 GTTTTGTTGC
*
4296276 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
4296292 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
4296308 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:4296592 original size:51 final size:51
Alignment explanation
Indices: 4296534--4296724 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 51
4296524 CCGGTTCACA
4296534 TAGTAGCCTACACATAGTACTAAACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTACACATAGTACTAAACATGTGACCATCACTATCCGATACACG
* * ** * * *
4296585 TAGTAGCCTGCACATAGTACTACACACATGATCGA--AGCTATCC-AGTACGCA
1 TAGTAGCCTACACATAGTACTAAACATGTGA-CCATCA-CTATCCGA-TACACG
* * *
4296636 TAGTAGCCTACACATAGTACTACAA-ATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTACACATAGTACTA-AACATGTGACC-ATCACTATCCGATACACG
* *
4296686 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
1 TAGTAGCCTACACATAGTACTAAACATGTGACCATCACT
4296725 TTCACTTTCA
Statistics
Matches: 110, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
49 5 0.05
50 38 0.35
51 63 0.57
52 3 0.03
53 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTAAACATGTGACCATCACTATCCGATACACG
Found at i:4296739 original size:101 final size:102
Alignment explanation
Indices: 4296527--4296711 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
4296517 AATGATACCG
*
4296527 GTTCACATAGTAGCCTACACATAGTACTAAACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTAAACATGCGACCATCACTATCCGATACACGTAGTAGC
*
4296592 CTGCACATAGTACTACACACATGATCGAAGCTATCCA
66 CTGCACATAGTACTACACACATGATCCAAGCTATCCA
* * * *
4296629 GTACGCATAGTAGCCTACACATAGTACTACAA-ATGCGACCTATCA-T-TCTGGTACACGTAGTA
1 GTTCACATAGTAGCCTACACATAGTACTA-AACATGCGACC-ATCACTATCCGATACACGTAGTA
4296691 GCCTGCACATAGTACTACACA
64 GCCTGCACATAGTACTACACA
4296712 TGTGACCATC
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 35 0.46
102 35 0.46
103 6 0.08
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTAAACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACATGATCCAAGCTATCCA
Found at i:4303540 original size:45 final size:47
Alignment explanation
Indices: 4303486--4303584 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
4303476 AAAAATTATA
*
4303486 TTTATAATTTTTAAAAAT-TTTA-ATATTTTATATAATATTTTTAC-TT
1 TTTA-AATTTTTAAAAATATTTATATATTATATATAAT-TTTTTACATT
** * *
4303532 TTTAAATTTTTTTAATTATTTATATATTATATATGATTTTTTACATT
1 TTTAAATTTTTAAAAATATTTATATATTATATATAATTTTTTACATT
4303579 TTTAAA
1 TTTAAA
4303585 CAAAATATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 10 0.22
46 15 0.33
47 20 0.44
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (47 bp):
TTTAAATTTTTAAAAATATTTATATATTATATATAATTTTTTACATT
Found at i:4305356 original size:18 final size:18
Alignment explanation
Indices: 4305329--4305403 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
4305319 TACGACCGTT
*
4305329 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
4305347 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * * *
4305365 TATGACACTATTTATGTA
1 TACGGCACTATTCACGTA
* *
4305383 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
4305401 TAC
1 TAC
4305404 AGTAGTTGGG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:4315777 original size:17 final size:17
Alignment explanation
Indices: 4315752--4315789 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4315742 TAAGGGAGTA
* *
4315752 AAAATAAATAAATAACG
1 AAAAGAAATAAATAAAG
4315769 AAAAGAAATAAATAAAG
1 AAAAGAAATAAATAAAG
4315786 AAAA
1 AAAA
4315790 CTAAACAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAATAAAG
Found at i:4317315 original size:13 final size:13
Alignment explanation
Indices: 4317299--4317324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4317289 GGAATGATTT
4317299 TTTGAAAATTTTG
1 TTTGAAAATTTTG
4317312 TTTGAAAATTTTG
1 TTTGAAAATTTTG
4317325 ACATTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:4318556 original size:50 final size:49
Alignment explanation
Indices: 4318470--4318631 Score: 148
Period size: 50 Copynumber: 3.3 Consensus size: 49
4318460 CATGTAAGAC
* * ** ** *
4318470 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGAGA
1 CATGGCATTGGCACC-AAATGAGAACTCCCATGTAAGACCATGTCTGGGA
* *
4318520 CATGGCATTGGCACCAATATGAGAACTCCCATGTAAGACTATATCTGGGA
1 CATGGCATTGGCACCAA-ATGAGAACTCCCATGTAAGACCATGTCTGGGA
* * **
4318570 TATGACATTGGCAGTACAA-GA-AACATCCCATGTAAGACCATGTCTGGGA
1 CATGGCATTGGCACCA-AATGAGAAC-TCCCATGTAAGACCATGTCTGGGA
*
4318619 CATGGCTTTGGCA
1 CATGGCATTGGCA
4318632 TGTTATTATC
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.03
49 35 0.38
50 52 0.57
51 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
CATGGCATTGGCACCAAATGAGAACTCCCATGTAAGACCATGTCTGGGA
Found at i:4318616 original size:49 final size:50
Alignment explanation
Indices: 4318502--4318631 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 50
4318492 GAGGTCCCCC
* *
4318502 GTAAGACCATGTCTGAGACATGGCATTGGCACCAATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGACATTGGCACCAATATGAGAACTCCCAT
* * * **
4318552 GTAAGACTATATCTGGGATATGACATTGGCAGTACA-A-GA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGACATTGGCACCA-ATATGAGAAC-TCCCAT
* *
4318601 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGACATTGGCA
4318632 TGTTATTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.05
49 34 0.52
50 28 0.42
51 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGACATTGGCACCAATATGAGAACTCCCAT
Found at i:4330472 original size:35 final size:34
Alignment explanation
Indices: 4330389--4330475 Score: 147
Period size: 34 Copynumber: 2.5 Consensus size: 34
4330379 GTTAACAAAG
4330389 TTATTGGAATGTAAGATTATTTAATACGTTTCTT
1 TTATTGGAATGTAAGATTATTTAATACGTTTCTT
4330423 TTATTGGAATGTAAGATTATTTAATACGTTTCTT
1 TTATTGGAATGTAAGATTATTTAATACGTTTCTT
* *
4330457 TTGTTTGGAACGTAAGATT
1 TT-ATTGGAATGTAAGATT
4330476 TTGTTGTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 36 0.72
35 14 0.28
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (34 bp):
TTATTGGAATGTAAGATTATTTAATACGTTTCTT
Found at i:4331871 original size:34 final size:34
Alignment explanation
Indices: 4331809--4331880 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
4331799 GGGATATAAT
* * * *
4331809 ATTATATTTTATAATAGGATTACAAGAATGTAAG
1 ATTACATTTCATAATAGGACTACAAGAATGCAAG
*
4331843 ATTACATTTCATAATAGGACTACGAGAATGCAAG
1 ATTACATTTCATAATAGGACTACAAGAATGCAAG
4331877 ATTA
1 ATTA
4331881 TGGGAGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (34 bp):
ATTACATTTCATAATAGGACTACAAGAATGCAAG
Found at i:4332324 original size:93 final size:94
Alignment explanation
Indices: 4332212--4332398 Score: 358
Period size: 94 Copynumber: 2.0 Consensus size: 94
4332202 GGCAGAAACA
*
4332212 AGCCTAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAA-AAAGAGATAAAAACAAAGGTGG
1 AGCCCAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAGAAAGAGATAAAAACAAAGGTGG
4332276 ACACAAAAAACTTGATTAAATAGTTCAAC
66 ACACAAAAAACTTGATTAAATAGTTCAAC
4332305 AGCCCAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAGAAAGAGATAAAAACAAAGGTGG
1 AGCCCAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAGAAAGAGATAAAAACAAAGGTGG
4332370 ACACAAAAAACTTGATTAAATAGTTCAAC
66 ACACAAAAAACTTGATTAAATAGTTCAAC
4332399 TTCATCCTAG
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 41 0.45
94 51 0.55
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (94 bp):
AGCCCAAATATAAAGTAAGTTGTTATTAGACCAAATGAAAAAGAAAGAGATAAAAACAAAGGTGG
ACACAAAAAACTTGATTAAATAGTTCAAC
Found at i:4332669 original size:30 final size:31
Alignment explanation
Indices: 4332613--4332675 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
4332603 CATATGTACA
4332613 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
4332644 ATGATAAGTGTTCTTTTAG-TTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
4332674 AT
1 AT
4332676 AGTACAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (31 bp):
ATGATAAGTGTTCTTTTAGTTTTTTTTTTAC
Found at i:4340704 original size:15 final size:15
Alignment explanation
Indices: 4340659--4340704 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
4340649 GTTGGTCGAA
4340659 AAATTTTAATTTTTATG
1 AAATTTT-A-TTTTATG
4340676 AAA-TTTATTATTATG
1 AAATTTTATT-TTATG
4340691 AAATTTTATTTTAT
1 AAATTTTATTTTAT
4340705 TTTTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.07
15 13 0.48
16 9 0.33
17 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
AAATTTTATTTTATG
Found at i:4351627 original size:22 final size:23
Alignment explanation
Indices: 4351591--4351634 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4351581 ATAAATCTGA
4351591 TCAAATTTGTAATAAAAAAAAAG
1 TCAAATTTGTAATAAAAAAAAAG
* *
4351614 TCAAA-TTGTCATAAAATAAAA
1 TCAAATTTGTAATAAAAAAAAA
4351635 TATTACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (23 bp):
TCAAATTTGTAATAAAAAAAAAG
Found at i:4351868 original size:16 final size:15
Alignment explanation
Indices: 4351849--4351900 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
4351839 AATAGAACTA
4351849 TAATGTAATAGAGTTG
1 TAATG-AATAGAGTTG
*
4351865 TAATGAAATAGAGCTG
1 TAATG-AATAGAGTTG
4351881 TAATAGAATAGAGTTG
1 TAAT-GAATAGAGTTG
4351897 TAAT
1 TAAT
4351901 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (15 bp):
TAATGAATAGAGTTG
Found at i:4357047 original size:18 final size:17
Alignment explanation
Indices: 4357026--4357060 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4357016 TTATTATTAA
*
4357026 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4357044 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4357061 TCTTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4357072 original size:15 final size:16
Alignment explanation
Indices: 4357052--4357081 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357042 ATATATAATT
4357052 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357067 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357082 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357192 original size:15 final size:16
Alignment explanation
Indices: 4357172--4357201 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357162 ATATATAATT
4357172 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357187 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357202 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357219 original size:120 final size:120
Alignment explanation
Indices: 4357006--4357874 Score: 1564
Period size: 120 Copynumber: 7.2 Consensus size: 120
4356996 TTAATCATAT
*
4357006 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4357071 AAATATTCTTATATGAATTTACTAAAATC-TAATATATAATACTATTAAAATAAAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA-TAAAATATAA
* *
4357126 TTTAAAAAAATTATTATTAAATATATTTTAATTAAGATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
4357191 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4357246 TTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
4357311 AAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAAAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
4357366 TTTTAAAA-AATTATTATTAAATATA-TTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 -TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
4357429 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTGTAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
4357485 TTTGAAATAATTATTATTAAATATGTTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4357550 AAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
4357605 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4357670 AAATATTCTTATATGAATTTACTAAAACCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4357725 TTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
4357790 AAATATTCTTATATGAATTTACTAAAATCATAACATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
4357845 TTTAAAATAATTATTATTAAATATATTTTA
1 TTTAAAATAATTATTATTAAATATATTTTA
4357875 TAATCTACTT
Statistics
Matches: 719, Mismatches: 26, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
118 6 0.01
119 107 0.15
120 584 0.81
121 22 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4357288 original size:18 final size:17
Alignment explanation
Indices: 4357248--4357300 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
4357238 AAATATAATT
4357248 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
4357262 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
4357277 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
4357295 TAAAAT
1 TAAAAT
4357301 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:4357312 original size:15 final size:16
Alignment explanation
Indices: 4357292--4357321 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357282 ATATATAATT
4357292 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357307 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357322 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357406 original size:17 final size:17
Alignment explanation
Indices: 4357386--4357419 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4357376 TTATTATTAA
4357386 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4357403 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4357420 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4357431 original size:15 final size:16
Alignment explanation
Indices: 4357411--4357440 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357401 ATATATAATT
4357411 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357426 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357441 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357551 original size:15 final size:16
Alignment explanation
Indices: 4357531--4357560 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357521 ATATATAATT
4357531 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357546 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357561 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357644 original size:16 final size:16
Alignment explanation
Indices: 4357606--4357659 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4357596 AAAATATAAT
4357606 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
4357621 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
4357636 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
4357654 -TAAAAT
1 TTAAAAT
4357660 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:4357646 original size:18 final size:17
Alignment explanation
Indices: 4357625--4357659 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4357615 TTATTATTAA
*
4357625 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4357643 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4357660 TCTTAATAAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4357671 original size:15 final size:16
Alignment explanation
Indices: 4357651--4357680 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357641 ATATATAATT
4357651 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357666 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357681 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4357767 original size:18 final size:17
Alignment explanation
Indices: 4357727--4357779 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
4357717 AAATATAATT
4357727 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
4357741 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
4357756 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
4357774 TAAAAT
1 TAAAAT
4357780 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:4357791 original size:15 final size:16
Alignment explanation
Indices: 4357771--4357800 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4357761 ATATATAATT
4357771 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4357786 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4357801 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4358550 original size:24 final size:26
Alignment explanation
Indices: 4358498--4358547 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4358488 TATATGTAAT
4358498 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
4358525 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
4358548 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:4365759 original size:22 final size:21
Alignment explanation
Indices: 4365734--4365774 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4365724 TGTATGGTGT
*
4365734 GATTTGGTTTTGGTATTATATA
1 GATTTGGTTATGGT-TTATATA
4365756 GATTTGGTTATGGTTTATA
1 GATTTGGTTATGGTTTATA
4365775 AGTATAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
GATTTGGTTATGGTTTATATA
Found at i:4367425 original size:28 final size:28
Alignment explanation
Indices: 4367393--4367446 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
4367383 GGAAGTCAGC
*
4367393 TTGAGCATTTTCAACATGGGAGATCCGT
1 TTGAGCATTCTCAACATGGGAGATCCGT
*
4367421 TTGAGCATTCTCGACATGGGAGATCC
1 TTGAGCATTCTCAACATGGGAGATCC
4367447 TATCAACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (28 bp):
TTGAGCATTCTCAACATGGGAGATCCGT
Found at i:4371200 original size:8 final size:8
Alignment explanation
Indices: 4371189--4371228 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
4371179 ATAGGAAAAA
4371189 ATCATGGG
1 ATCATGGG
*
4371197 ATCATGAG
1 ATCATGGG
*
4371205 ATCATGAG
1 ATCATGGG
4371213 ATCATGGG
1 ATCATGGG
4371221 ATCATGGG
1 ATCATGGG
4371229 CCTACTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (8 bp):
ATCATGGG
Found at i:4379950 original size:21 final size:19
Alignment explanation
Indices: 4379913--4379951 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4379903 AATTTAATAA
*
4379913 ATAAATAAATTTTATTATC
1 ATAAATAAATTTAATTATC
4379932 ATAAATATAACTTTAATTAT
1 ATAAATA-AA-TTTAATTAT
4379952 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATAAATTTAATTATC
Found at i:4380631 original size:17 final size:16
Alignment explanation
Indices: 4380591--4380660 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 16
4380581 AGTGTTATAA
4380591 AATTAAATTATATTTTT
1 AATTAAATT-TATTTTT
*
4380608 -TTATAAATTTATTTTT
1 AAT-TAAATTTATTTTT
* *
4380624 CAATTAAAATTAATATTT
1 -AATT-AAATTTATTTTT
*
4380642 AATTAAATTATATATTT
1 AATTAAATT-TATTTTT
4380659 AA
1 AA
4380661 CTCTAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
16 13 0.30
17 19 0.44
18 11 0.26
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTAAATTTATTTTT
Found at i:4380633 original size:18 final size:17
Alignment explanation
Indices: 4380625--4380660 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4380615 TTTATTTTTC
4380625 AATTAAAATTAATATTT
1 AATTAAAATTAATATTT
4380642 AATT-AAATTATATATTT
1 AATTAAAATTA-ATATTT
4380659 AA
1 AA
4380661 CTCTAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAAATTAATATTT
Found at i:4385140 original size:29 final size:30
Alignment explanation
Indices: 4385087--4385143 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
4385077 ATCTTTATTC
4385087 TTAAAAGATAAAAAATAAAATTTAAAAACT
1 TTAAAAGATAAAAAATAAAATTTAAAAACT
*
4385117 TTAAAA-ATATAAAAA-AATATTTAAAAA
1 TTAAAAGATA-AAAAATAAAATTTAAAAA
4385144 TTAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (30 bp):
TTAAAAGATAAAAAATAAAATTTAAAAACT
Found at i:4385181 original size:20 final size:21
Alignment explanation
Indices: 4385158--4385205 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
4385148 TTTTTTTGAT
* *
4385158 AAAAATACATA-AGATTTATA
1 AAAAATACACATAGAATTATA
*
4385178 AAAAAAACACATAGAATTATA
1 AAAAATACACATAGAATTATA
4385199 AATAAAT
1 AA-AAAT
4385206 GAATACCCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.41
21 10 0.45
22 3 0.14
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAATACACATAGAATTATA
Found at i:4385197 original size:21 final size:22
Alignment explanation
Indices: 4385158--4385200 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4385148 TTTTTTTGAT
* *
4385158 AAAAATACATAAGATTTATAAA
1 AAAAACACATAAGAATTATAAA
4385180 AAAAACACAT-AGAATTATAAA
1 AAAAACACATAAGAATTATAAA
4385201 TAAATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
AAAAACACATAAGAATTATAAA
Found at i:4395330 original size:51 final size:53
Alignment explanation
Indices: 4395240--4395345 Score: 144
Period size: 51 Copynumber: 2.0 Consensus size: 53
4395230 TATAGTGGTT
* * * *
4395240 CAAGCGTGTTTCTACGGGAGGATGTGTAGCTTACGGGCTTGGCACTTAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
* *
4395293 CAAGCGTGTTTTTA-GAG-GGATGTTTAGCCTACAGGCTTGGCACTCAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
4395344 CA
1 CA
4395346 GGCATGTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 32 0.68
52 2 0.04
53 13 0.28
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (53 bp):
CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
Found at i:4399291 original size:23 final size:21
Alignment explanation
Indices: 4399253--4399299 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
4399243 TCAAGGGATT
4399253 TAAACATCATTCAAAAACA-CC
1 TAAACATCATTC-AAAACATCC
*
4399274 TAAACATGCCATTTAAAACATCC
1 TAAACAT--CATTCAAAACATCC
4399297 TAA
1 TAA
4399300 CTCATCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 6 0.27
23 9 0.41
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACATCATTCAAAACATCC
Found at i:4401666 original size:45 final size:45
Alignment explanation
Indices: 4401597--4401773 Score: 234
Period size: 45 Copynumber: 4.0 Consensus size: 45
4401587 TACATGTATT
* *
4401597 GGGTACCATTGATTATAAAAGTGGTTGCTATGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
4401642 GGGTATCATTAATTATAAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
4401687 GGGTA-CTATTGATTATGAAGGTGGTTGCTATATGCTGATTCCACC
1 GGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
** * *
4401732 AAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
4401774 TGTGTATCTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
43 5 0.04
44 13 0.11
45 97 0.84
46 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:4404480 original size:30 final size:30
Alignment explanation
Indices: 4404446--4404519 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
4404436 GTTGATCCAT
*
4404446 CCCTTTTCATAATTCGATAACTGAAG-TTAC
1 CCCTTTTCATAATTCGACAACTGAAGCTT-C
* * *
4404476 CCCTTTTCATAGTTCGACAGCTGAAGCTTT
1 CCCTTTTCATAATTCGACAACTGAAGCTTC
4404506 CCCTTTTCATAATT
1 CCCTTTTCATAATT
4404520 TGATGGTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (30 bp):
CCCTTTTCATAATTCGACAACTGAAGCTTC
Found at i:4404539 original size:30 final size:30
Alignment explanation
Indices: 4404505--4404706 Score: 142
Period size: 30 Copynumber: 6.8 Consensus size: 30
4404495 GCTGAAGCTT
* *
4404505 TCCCTTTTCATAATTTGATGGTTGTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
** *
4404535 TCCCTTTTCATTGTTCGATGGCCGTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
** * *
4404565 TCCCTTTTCATAATTTTATAGTCG-AAGCCA
1 TCCCTTTTCATAATTCGATGGTCGTCA-CCA
* * * * * *
4404595 TCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTCGATGGTCGTCA-CCA
* * * *
4404625 TCTCTTTTCATAGTTCGATGGTTGTCAACA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
* **
4404655 TCCTTTTTCATTGTT-GATGGTCGTCACCA
1 TCCCTTTTCATAATTCGATGGTCGTCACCA
* *
4404684 TCCCTTTTTATAA-TCGATAGTCG
1 TCCCTTTTCATAATTCGATGGTCG
4404707 AAGATATTCT
Statistics
Matches: 134, Mismatches: 35, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
28 1 0.01
29 29 0.22
30 103 0.77
31 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAATTCGATGGTCGTCACCA
Found at i:4404540 original size:60 final size:60
Alignment explanation
Indices: 4404476--4404665 Score: 186
Period size: 60 Copynumber: 3.2 Consensus size: 60
4404466 CTGAAGTTAC
* * **
4404476 CCCTTTTCATAGTTCGACAGCTGAAGCTTTCCCTTTTCATAATTTGATGGTTGTCACCAT
1 CCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTTGTCACCAT
* * * * * * *
4404536 CCCTTTTCATTGTTCGATGGCCGTCA-CCATCCCTTTTCATAATTTTATAGTCG-AAGCCAT
1 CCCTTTTCATAGTTCGATAGCCG-AAGCCATCCCTTTTCATAATTTGATGGTTGTCA-CCAT
* * * * * *
4404596 CCTTTTTCATAGTTCAATAGCCGAAGCCATCTCTTTTCATAGTTCGATGGTTGTCAACAT
1 CCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTTGTCACCAT
*
4404656 CCTTTTTCAT
1 CCCTTTTCAT
4404666 TGTTGATGGT
Statistics
Matches: 102, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
59 2 0.02
60 98 0.96
61 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.40
Consensus pattern (60 bp):
CCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGTTGTCACCAT
Found at i:4413858 original size:16 final size:16
Alignment explanation
Indices: 4413834--4413864 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4413824 TGATTCTGAC
*
4413834 CATGGCATACTGCATA
1 CATGACATACTGCATA
4413850 CATGACATACTGCAT
1 CATGACATACTGCAT
4413865 GGGGTTGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:4435249 original size:20 final size:20
Alignment explanation
Indices: 4435212--4435250 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4435202 TAAAAAAACA
* **
4435212 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
4435232 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
4435251 CTGTGTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:4440481 original size:16 final size:17
Alignment explanation
Indices: 4440441--4440483 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
4440431 TTCTTGATAT
4440441 AGTTGTTCTCAATGAAG
1 AGTTGTTCTCAATGAAG
4440458 ATGTTGTTC-CAACT-AAG
1 A-GTTGTTCTCAA-TGAAG
4440475 AGTTGTTCT
1 AGTTGTTCT
4440484 GTGGTGCCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (17 bp):
AGTTGTTCTCAATGAAG
Found at i:4440569 original size:16 final size:16
Alignment explanation
Indices: 4440548--4440589 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4440538 AAAAACAAAA
4440548 TTGTTCTAAATATA-AG
1 TTGTTCTAAATA-ACAG
* *
4440564 TTGTTCCAAATAACGG
1 TTGTTCTAAATAACAG
4440580 TTGTTCTAAA
1 TTGTTCTAAA
4440590 CATAGCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (16 bp):
TTGTTCTAAATAACAG
Found at i:4442558 original size:21 final size:21
Alignment explanation
Indices: 4442533--4442588 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4442523 AACAGCGATG
*
4442533 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
4442554 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
4442575 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
4442589 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:4443856 original size:58 final size:59
Alignment explanation
Indices: 4443761--4443932 Score: 170
Period size: 58 Copynumber: 2.9 Consensus size: 59
4443751 TTGTTGCAAT
* * * * *
4443761 GTTTCCTAAAAAATAATGGAAACAA-CAAGTTATAGTGTTTTTGGAATAACCTTTGGTAAT
1 GTTTCCTTACAAA-AATGGGAACAACCAAG-TATAGTGTTTTTGGAATAACCTTTGATAAC
* * * * *
4443821 TTTTCC-T-CAAACAATGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAAC
1 GTTTCCTTACAAA-AATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
* *
4443879 GTTTCCTTACAAAAATTTGGGAACACCCAAGTATAGTGTTTTAGGAATAACCTT
1 GTTTCCTTACAAAAA--TGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTT
4443933 CCATAGTGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
58 42 0.47
59 7 0.08
60 9 0.10
61 31 0.35
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (59 bp):
GTTTCCTTACAAAAATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
Found at i:4443944 original size:61 final size:60
Alignment explanation
Indices: 4443835--4443953 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 60
4443825 CCTCAAACAA
* *
4443835 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAACGTTTCCTTACAAAAATT
1 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTA-AAAAATT
* * * **
4443896 TGGGAACACCCAAGTATAGTGTTT-TAGGAATAACCT-TCCATAGTGTTTCCCTAAAAAA
1 TGGGAACAACCAAGTAAAGTGTTTCT-GGAATAACATGT-CATAACGTTTCCCTAAAAAA
4443954 GTGGCAGCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
60 7 0.14
61 42 0.86
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (60 bp):
TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTAAAAAATT
Found at i:4444592 original size:97 final size:97
Alignment explanation
Indices: 4444482--4444671 Score: 326
Period size: 97 Copynumber: 2.0 Consensus size: 97
4444472 AGTTATAAAG
*
4444482 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTAAATTTTCATGTATTGATAAAATATCATACTC
*
4444547 GTACAAAAGGGATTAGAAGTATGAATTCGTAA
66 GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
* *
4444579 TGTAGCTAAAATATGAACGATAAAGTTGTAGTTAAATTTTCATGTATTGATAAAATATCTTACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTAAATTTTCATGTATTGATAAAATATCATACTC
* *
4444644 GTACGAAATGGAGTAGAAGTATGAATTC
66 GTACAAAAGGGAGTAGAAGTATGAATTC
4444672 CTTTTATATT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 87 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (97 bp):
TGTAGCTAAAATATGAACAATAAAGTTGTAGTTAAATTTTCATGTATTGATAAAATATCATACTC
GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
Found at i:4446374 original size:26 final size:26
Alignment explanation
Indices: 4446315--4446374 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
4446305 TTTTCTTTTC
* *
4446315 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGATTAGAT
*
4446341 TTTCTCTTTTC-TTTTTAGATTAGAT
1 TTTTTCTTTTCATTTTTAGATTAGAT
4446366 TTTATTCTT
1 TTT-TTCTT
4446375 GTAGTGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.68
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGATTAGAT
Found at i:4461646 original size:15 final size:15
Alignment explanation
Indices: 4461622--4461677 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
4461612 TAAAGTCCTG
*
4461622 TTCTGAACATGGTTA
1 TTCTGAACATAGTTA
*
4461637 TTCTGGACATAGTTA
1 TTCTGAACATAGTTA
*
4461652 TTCTCGAACAACAGTTA
1 TTCT-GAAC-ATAGTTA
*
4461669 TTCTAAACA
1 TTCTGAACA
4461678 AGAATTGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 18 0.53
16 6 0.18
17 10 0.29
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (15 bp):
TTCTGAACATAGTTA
Found at i:4464592 original size:30 final size:31
Alignment explanation
Indices: 4464558--4464617 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
4464548 AAACCTTTTA
*
4464558 TTTTCCTCC-AAAATTTTTA-CCCCTTCCCAC
1 TTTT-CTCCTAAAACTTTTATCCCCTTCCCAC
*
4464588 TTTTCTCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCTCCTAAAACTTTTATCCCCTTCCCA
4464618 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 13 0.50
31 9 0.35
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCTCCTAAAACTTTTATCCCCTTCCCAC
Found at i:4466013 original size:33 final size:32
Alignment explanation
Indices: 4465976--4466039 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
4465966 TAATTAAAAC
* *
4465976 TTTTAATTGATTT-GTTTTTTGCTTCAATCAAG
1 TTTTTATTGATTTAG-TTTTGGCTTCAATCAAG
*
4466008 TTTTTATTTATTTAGTTTTGGCTTCAATCAAG
1 TTTTTATTGATTTAGTTTTGGCTTCAATCAAG
4466040 CACGAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.56
Consensus pattern (32 bp):
TTTTTATTGATTTAGTTTTGGCTTCAATCAAG
Found at i:4477638 original size:18 final size:19
Alignment explanation
Indices: 4477612--4477668 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
4477602 TACTTTTTTA
*
4477612 TTAACTTTTATCTTTTTCT
1 TTAACTTTTATATTTTTCT
* *
4477631 TTAA-TTTT-TTTTGTTTTT
1 TTAACTTTTATATT-TTTCT
*
4477649 TTAAGTTTTATATTTTTCT
1 TTAACTTTTATATTTTTCT
4477668 T
1 T
4477669 ATTTGATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 3 0.10
18 12 0.39
19 13 0.42
20 3 0.10
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.74
Consensus pattern (19 bp):
TTAACTTTTATATTTTTCT
Found at i:4477690 original size:13 final size:14
Alignment explanation
Indices: 4477667--4477699 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4477657 TATATTTTTC
*
4477667 TTATTTGATTTTGT
1 TTATTTGATTTTAT
4477681 TTATTT-ATTTTAT
1 TTATTTGATTTTAT
4477694 TTATTT
1 TTATTT
4477700 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (14 bp):
TTATTTGATTTTAT
Found at i:4477690 original size:18 final size:19
Alignment explanation
Indices: 4477667--4477709 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4477657 TATATTTTTC
4477667 TTATTTGATTT-TGTTTAT
1 TTATTTGATTTATGTTTAT
* *
4477685 TTATTTTATTTATTTTTAT
1 TTATTTGATTTATGTTTAT
*
4477704 TAATTT
1 TTATTT
4477710 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTATTTGATTTATGTTTAT
Found at i:4477777 original size:21 final size:23
Alignment explanation
Indices: 4477739--4477781 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
4477729 ATTTGAAATG
4477739 TTTTATAATATATATTTTTAAAA
1 TTTTATAATATATATTTTTAAAA
4477762 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATATATTTTTAAA
4477782 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTATAATATATATTTTTAAAA
Found at i:4477780 original size:13 final size:13
Alignment explanation
Indices: 4477762--4477905 Score: 64
Period size: 14 Copynumber: 11.5 Consensus size: 13
4477752 ATTTTTAAAA
4477762 TTTTAAATATTAT
1 TTTTAAATATTAT
4477775 TTTT-AA-ATTAT
1 TTTTAAATATTAT
4477786 TTTT-AA-A--A-
1 TTTTAAATATTAT
4477794 TTTTAAATATTATT
1 TTTTAAATATTA-T
4477808 TTTTAAA-ATTAT
1 TTTTAAATATTAT
* *
4477820 GTCTT--ATA--AA
1 -TTTTAAATATTAT
4477830 TTTTAAATATATAT
1 TTTTAAATAT-TAT
4477844 TTTTGAAATTAATT-T
1 TTTT-AAA-T-ATTAT
* * *
4477859 TTCTAAATTTTAAA
1 TTTTAAATATT-AT
4477873 TTTTAAATA-TAT
1 TTTTAAATATTAT
*
4477885 TTTTAAAAATATAT
1 TTTTAAATAT-TAT
4477899 TTTTAAA
1 TTTTAAA
4477906 CAAAATAAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 39
0.67 0.07 0.26
Matches are distributed among these distances:
8 4 0.04
9 6 0.06
10 2 0.02
11 16 0.16
12 16 0.16
13 13 0.13
14 32 0.32
15 7 0.07
16 2 0.02
17 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:4477807 original size:21 final size:21
Alignment explanation
Indices: 4477773--4477817 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
4477763 TTTAAATATT
*
4477773 ATTTTTAAATTA-TTTTTAAA
1 ATTTTAAAATTATTTTTTAAA
4477793 ATTTTAAATATTATTTTTTAAA
1 ATTTTAAA-ATTATTTTTTAAA
4477815 ATT
1 ATT
4477818 ATGTCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAAAATTATTTTTTAAA
Found at i:4478021 original size:13 final size:13
Alignment explanation
Indices: 4478005--4478034 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4477995 GAAATTATTT
4478005 TTAATTTTAAATA
1 TTAATTTTAAATA
4478018 TTAATTTTAAATA
1 TTAATTTTAAATA
4478031 TTAA
1 TTAA
4478035 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:4478034 original size:20 final size:20
Alignment explanation
Indices: 4478001--4478038 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4477991 TTTTGAAATT
* *
4478001 ATTTTTAATTTTAAATATTA
1 ATTTTAAATATTAAATATTA
4478021 ATTTTAAATATTAAATAT
1 ATTTTAAATATTAAATAT
4478039 ATTTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAATATTAAATATTA
Found at i:4478054 original size:147 final size:146
Alignment explanation
Indices: 4477779--4478046 Score: 329
Period size: 147 Copynumber: 1.9 Consensus size: 146
4477769 TATTATTTTT
* * ** * *
4477779 AAATTATTTTTAAAATTTTAAATATTATTTTTTAAAATTATGTCTTATAAATTTTAAATATATAT
1 AAATTATTTTTAAAATTTTAAACATAATTTTAAAAAATAATATCTTATAAATTTTAAATATATAT
* * *
4477844 TTTTGAAATTAATTTTTCTAAATTTTAAATTTTAAATATATTTTTAAAAATATATTTTTAAACAA
66 TTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATATAATATTAAAAATATATTTTTAAACAA
4477909 AATAAAATAATTTCAA
131 AATAAAATAATTTCAA
4477925 AAATATATTTTTAAAATTTATAAGACATAATTTTAAAAAATAATAT-TTA-AAATTTTAAA-AGT
1 AAAT-TATTTTTAAAATTT-TAA-ACATAATTTTAAAAAATAATATCTTATAAATTTTAAATA-T
* *
4477987 ATATTTTTGAAATT-A-TTTT-T-AATTTTAAATATTAATTTTAAATATT--AAATATATTTTTA
62 ATATTTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATAT-AATATTAAAAATATATTTTTA
4478046 A
126 A
4478047 TTTAAACATT
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
142 14 0.13
143 16 0.15
144 5 0.05
145 4 0.04
146 6 0.06
147 39 0.37
148 6 0.06
149 16 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (146 bp):
AAATTATTTTTAAAATTTTAAACATAATTTTAAAAAATAATATCTTATAAATTTTAAATATATAT
TTTTGAAATTAATTTTTCTAAATTTTAAATATTAAATATAATATTAAAAATATATTTTTAAACAA
AATAAAATAATTTCAA
Found at i:4478137 original size:14 final size:14
Alignment explanation
Indices: 4478118--4478144 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4478108 ATATTTAAAA
4478118 ATAATTTAAAAATC
1 ATAATTTAAAAATC
4478132 ATAATTTAAAAAT
1 ATAATTTAAAAAT
4478145 TCTGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:4478177 original size:23 final size:24
Alignment explanation
Indices: 4478110--4478170 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
4478100 GTTTAAATAT
* *
4478110 ATTTAAAAATAATTTAAAAATCATA
1 ATTTAAAAATTA-TGAAAAATCATA
*
4478135 ATTTAAAAATTCTGAAAAATCATA
1 ATTTAAAAATTATGAAAAATCATA
4478159 ATTT-AAAATTAT
1 ATTTAAAAATTAT
4478171 ATTAAATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 7 0.22
24 15 0.47
25 10 0.31
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTAAAAATTATGAAAAATCATA
Found at i:4478369 original size:19 final size:19
Alignment explanation
Indices: 4478303--4478369 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
4478293 TATATATTAA
* *
4478303 GTACATAAATTTATGAATGT
1 GTAC-TAAATTTATAAATAT
* *
4478323 GTACTAAAATTAAAAAATAAT
1 GTACT-AAATTTATAAAT-AT
*
4478344 ATA-TAAATTTATAAATAT
1 GTACTAAATTTATAAATAT
4478362 GTACTAAA
1 GTACTAAA
4478370 ATAAAAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 14 0.39
21 3 0.08
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.36
Consensus pattern (19 bp):
GTACTAAATTTATAAATAT
Found at i:4478836 original size:20 final size:20
Alignment explanation
Indices: 4478813--4478867 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
4478803 TGTGATCTTA
4478813 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
4478833 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
4478853 TAATATATATATTTT
1 TAATATATAT-TTTT
4478868 TAAATAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:4478904 original size:19 final size:20
Alignment explanation
Indices: 4478869--4478912 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
4478859 ATATATTTTT
*
4478869 AAATAAATTTATTTTTTAAC
1 AAATAAATCTATTTTTTAAC
4478889 AAATAAATCT-TTTTTTAAC
1 AAATAAATCTATTTTTTAAC
4478908 AAATA
1 AAATA
4478913 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAATCTATTTTTTAAC
Found at i:4478917 original size:16 final size:16
Alignment explanation
Indices: 4478849--4478918 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
4478839 AAATTTTTAC
* * *
4478849 TTTTTAATATATATAT
1 TTTTTAACAAATATTT
* *
4478865 TTTTAAATAAAT-TTAT
1 TTTTTAACAAATATT-T
4478881 TTTTTAACAAATAAATCTT
1 TTTTTAACAAAT--AT-TT
4478900 TTTTTAACAAATATTT
1 TTTTTAACAAATATTT
4478916 TTT
1 TTT
4478919 ATTTTTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
15 1 0.02
16 26 0.59
17 2 0.05
19 14 0.32
20 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTAACAAATATTT
Found at i:4479325 original size:22 final size:22
Alignment explanation
Indices: 4479298--4479371 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 22
4479288 AAAATATTTA
* *
4479298 AATATTTTATATTATTAAAATAT
1 AATATTTAATATT-TTAAAAAAT
4479321 -ATATTTAATATTTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
* *
4479342 AATATTCAA-AATTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
*
4479363 AATAGTTAA
1 AATATTTAA
4479372 AATAATAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:4479375 original size:12 final size:12
Alignment explanation
Indices: 4479358--4479386 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4479348 CAAAATTTAA
4479358 AAAATAATAGTT
1 AAAATAATAGTT
4479370 AAAATAATAGTT
1 AAAATAATAGTT
4479382 AAAAT
1 AAAAT
4479387 TTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
AAAATAATAGTT
Found at i:4479465 original size:9 final size:9
Alignment explanation
Indices: 4479438--4479482 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
4479428 TCAATTTTTT
*
4479438 TAAAATTAA
1 TAAAATAAA
4479447 TAACAATAAA
1 TAA-AATAAA
4479457 TAAAATAAA
1 TAAAATAAA
4479466 T-AAATAAA
1 TAAAATAAA
*
4479474 CAAAATAAA
1 TAAAATAAA
4479483 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:4479528 original size:19 final size:19
Alignment explanation
Indices: 4479505--4479556 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
4479495 ATAAAACTTA
*
4479505 AAAAAAGAAAAAATTTAA-
1 AAAAAAGAAAAAAGTTAAT
*
4479523 AGAAAAAGACAAAAGTTAAT
1 A-AAAAAGAAAAAAGTTAAT
4479543 AAAAAAGTAAAAAA
1 AAAAAAG-AAAAAA
4479557 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.04
19 21 0.75
20 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (19 bp):
AAAAAAGAAAAAAGTTAAT
Found at i:4479561 original size:16 final size:15
Alignment explanation
Indices: 4479540--4479569 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4479530 GACAAAAGTT
4479540 AATAAAAAAGTAAAAA
1 AATAAAAAA-TAAAAA
4479556 AATAAAAAATAAAA
1 AATAAAAAATAAAA
4479570 TAAGGGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:4480593 original size:7 final size:7
Alignment explanation
Indices: 4480583--4480637 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
4480573 AAAAAAGGAA
4480583 AAAGAAC
1 AAAGAAC
4480590 AAAGAAC
1 AAAGAAC
*
4480597 AAAGAAG
1 AAAGAAC
4480604 ATAACGGGAA-
1 A-AA---GAAC
4480614 AAAGAAC
1 AAAGAAC
4480621 AAAGAAC
1 AAAGAAC
4480628 AAAGAAC
1 AAAGAAC
4480635 AAA
1 AAA
4480638 AAAGAGGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
6 3 0.07
7 31 0.74
8 2 0.05
9 2 0.05
10 1 0.02
11 3 0.07
ACGTcount: A:0.69, C:0.11, G:0.18, T:0.02
Consensus pattern (7 bp):
AAAGAAC
Found at i:4481285 original size:18 final size:17
Alignment explanation
Indices: 4481253--4481286 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4481243 CGACCGCGAC
4481253 AAACGCGACGCGACCGA
1 AAACGCGACGCGACCGA
*
4481270 AAACGTGACTGCGACCG
1 AAACGCGAC-GCGACCG
4481287 CAATTTAAAT
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:0.32, C:0.32, G:0.29, T:0.06
Consensus pattern (17 bp):
AAACGCGACGCGACCGA
Found at i:4481746 original size:25 final size:26
Alignment explanation
Indices: 4481691--4481746 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
4481681 AACGTCCACT
*
4481691 ACCTATCGACCACTTAATGCCCGCAAT
1 ACCTATCGACCACTT-ATGCCCGCAAA
*
4481718 ACCTATCGACCACTT-TGCCCGTAAA
1 ACCTATCGACCACTTATGCCCGCAAA
4481743 ACCT
1 ACCT
4481747 GAACCCACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.29, C:0.38, G:0.11, T:0.23
Consensus pattern (26 bp):
ACCTATCGACCACTTATGCCCGCAAA
Found at i:4483871 original size:2 final size:2
Alignment explanation
Indices: 4483864--4483893 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4483854 AACCATTTTC
4483864 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4483894 ATCACTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4484960 original size:41 final size:41
Alignment explanation
Indices: 4484915--4485033 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
4484905 CCTGATTCAA
* *
4484915 TTCACCAGCAATT-AGCCTGCTAGACTTAAAGTCTGAATTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * *
4484956 TTCACCGGCATTAAGCCTGCTCGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * * *
4484997 ATCACCGGCCTTAAGCCTGCTAGACTTTAAGCCTGAA
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAA
4485034 AATGTCCATT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 3 0.05
41 62 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
Found at i:4486691 original size:13 final size:13
Alignment explanation
Indices: 4486673--4486698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4486663 TCAAACGATC
4486673 AAATTTTCACACA
1 AAATTTTCACACA
4486686 AAATTTTCACACA
1 AAATTTTCACACA
4486699 TATAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:4491964 original size:18 final size:17
Alignment explanation
Indices: 4491931--4491969 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4491921 TTGTATAAAT
4491931 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4491949 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4491966 TGTG
1 TGTG
4491970 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4492222 original size:23 final size:23
Alignment explanation
Indices: 4492195--4492292 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4492185 AGTGTTATTG
4492195 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
4492218 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4492241 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4492263 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4492286 ATCAGTG
1 ATCAGTG
4492293 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4492261 original size:45 final size:45
Alignment explanation
Indices: 4492197--4492285 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4492187 TGTTATTGAT
* *
4492197 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
4492242 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
4492286 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:4496712 original size:26 final size:26
Alignment explanation
Indices: 4496662--4496715 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
4496652 TTTGAATTTT
* *
4496662 TTCGAATCGAGTCGAGTGAAATGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
* *
4496688 TTCGAGTCGAGTCGAATCAAGTGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
4496714 TT
1 TT
4496716 GTTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (26 bp):
TTCGAATCGAGTCGAATCAAATGAAA
Found at i:4496956 original size:20 final size:20
Alignment explanation
Indices: 4496917--4496977 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
4496907 TTCTAGAACA
*
4496917 TTTTT-AATTTTT-TAACTT
1 TTTTTAAATTTTTATAATTT
*
4496935 TTTTTAAATTTTTATATTTT
1 TTTTTAAATTTTTATAATTT
4496955 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
4496975 TTT
1 TTT
4496978 AAAAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 5 0.13
19 7 0.18
20 26 0.68
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTAAATTTTTATAATTT
Found at i:4496978 original size:10 final size:10
Alignment explanation
Indices: 4496917--4496978 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 10
4496907 TTCTAGAACA
4496917 TTTT-TAATT
1 TTTTATAATT
*
4496926 TTTTA-ACTT
1 TTTTATAATT
*
4496935 TTTT-TAAAT
1 TTTTATAATT
*
4496944 TTTTATATTT
1 TTTTATAATT
* *
4496954 TTTTTTAAAT
1 TTTTATAATT
4496964 TTTTATAATT
1 TTTTATAATT
4496974 TTTTA
1 TTTTA
4496979 AAAAATATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
9 17 0.43
10 23 0.57
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:4503888 original size:54 final size:54
Alignment explanation
Indices: 4503770--4503891 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 54
4503760 GTGTTTCAAG
* ** * * *
4503770 TCAGTGAGTTACACGGCCTATCACATGGCTCGGCACACGGGCGTCTGTGGCAAT
1 TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
* *
4503824 TGAG-AGAGTTACACAACCTAGCACACGGC-CTGGCACACGGGCGTGT-TGGGCAAC
1 TCAGTA-AGTTACACAACCTAGCACACGGCTC-GGCACACGGGCGTCTGT-GGCAAC
4503878 TCAGTAAGTTACAC
1 TCAGTAAGTTACAC
4503892 GGGTGAGGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
53 2 0.04
54 52 0.95
55 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (54 bp):
TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
Found at i:4510286 original size:100 final size:100
Alignment explanation
Indices: 4510159--4510363 Score: 392
Period size: 100 Copynumber: 2.0 Consensus size: 100
4510149 TTCGTACTTG
*
4510159 AGTTTGAATGGACGCTATACTCTGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
1 AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
4510224 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
66 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
*
4510259 AGTTTGAATGGACGCTCTACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
1 AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
4510324 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
66 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
4510359 AGTTT
1 AGTTT
4510364 ACGCCACGAT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (100 bp):
AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
Found at i:4530034 original size:24 final size:24
Alignment explanation
Indices: 4530004--4530057 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4529994 CTGTGGAGAT
* *
4530004 TGATGATGCTT-TGGTGATTGAAGA
1 TGATGATACTTCTGATGA-TGAAGA
*
4530028 TGATGATATTTCTGATGATGAAGA
1 TGATGATACTTCTGATGATGAAGA
4530052 TGATGA
1 TGATGA
4530058 ACATGAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (24 bp):
TGATGATACTTCTGATGATGAAGA
Found at i:4535208 original size:16 final size:17
Alignment explanation
Indices: 4535183--4535216 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4535173 TTAGAAATTG
*
4535183 TAAAAGATTATA-AAAA
1 TAAAAAATTATATAAAA
4535199 TAAAAAATTATATAAAA
1 TAAAAAATTATATAAAA
4535216 T
1 T
4535217 GATTAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAAATTATATAAAA
Found at i:4535242 original size:18 final size:18
Alignment explanation
Indices: 4535192--4535242 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
4535182 GTAAAAGATT
*
4535192 ATAAAAATAA-AAAA-TT
1 ATAAAAATAATAAAAGTG
* *
4535208 ATATAAAATGATTAAAGTG
1 ATA-AAAATAATAAAAGTG
4535227 ATAAAAATAATAAAAG
1 ATAAAAATAATAAAAG
4535243 ATGTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
18 14 0.52
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
ATAAAAATAATAAAAGTG
Found at i:4536737 original size:14 final size:14
Alignment explanation
Indices: 4536720--4536764 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4536710 AAATATGTAT
*
4536720 ATACATATATTTAA
1 ATACATATATATAA
*
4536734 ATACGTATATATAA
1 ATACATATATATAA
4536748 GCATACATATATATAA
1 --ATACATATATATAA
4536764 A
1 A
4536765 AAAATGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (14 bp):
ATACATATATATAA
Found at i:4536874 original size:14 final size:14
Alignment explanation
Indices: 4536851--4536893 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4536841 ATGTATATGC
4536851 ATGGATTATAAAAT
1 ATGGATTATAAAAT
* *
4536865 ATGGAATAT-ATAT
1 ATGGATTATAAAAT
*
4536878 ATGTATTATAAAAT
1 ATGGATTATAAAAT
4536892 AT
1 AT
4536894 AAATGTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (14 bp):
ATGGATTATAAAAT
Found at i:4537081 original size:3 final size:3
Alignment explanation
Indices: 4537068--4537102 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
4537058 GAATAAAAAC
*
4537068 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4537103 GCAATATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4538910 original size:25 final size:25
Alignment explanation
Indices: 4538804--4538910 Score: 67
Period size: 28 Copynumber: 4.0 Consensus size: 25
4538794 TTCTATGACC
4538804 TTTTTATAGTTAATTTTTCTATAATTTATTA
1 TTTTTATA-TT-ATTTTT-TATAA--TA-TA
*
4538835 TTTTTATATT-TTTTTCATAATA-A
1 TTTTTATATTATTTTTTATAATATA
* * * *
4538858 -ATTAATAATATTTTATAATATATAATA
1 TTTTTATATTATTTT-TTATA-AT-ATA
4538885 TTTTTATATTATTTTTTATAATATA
1 TTTTTATATTATTTTTTATAATATA
4538910 T
1 T
4538911 CTAAATTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
22 6 0.10
23 5 0.08
24 4 0.07
25 8 0.13
26 3 0.05
27 9 0.15
28 16 0.26
30 2 0.03
31 8 0.13
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.62
Consensus pattern (25 bp):
TTTTTATATTATTTTTTATAATATA
Found at i:4538922 original size:50 final size:49
Alignment explanation
Indices: 4538814--4538941 Score: 136
Period size: 51 Copynumber: 2.6 Consensus size: 49
4538804 TTTTTATAGT
*
4538814 TAATTTTTCTATAAT-TTATTATTTTTATATTTTTTTCATAATAAATTAA
1 TAATTTTT-TATAATATTAATATTTTTATATTTTTTTCATAATAAATTAA
* * *
4538863 TAATATTTTATAATATATAATATTTTTATATTATTTTTTATAATATATCT-A
1 TAATTTTTTATAATAT-TAATATTTTTATATT-TTTTTCATAATAAAT-TAA
*
4538914 -AATTTTTTATACAATTTTAATATTTTTA
1 TAATTTTTTAT--AATATTAATATTTTTA
4538942 AAATTAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
48 6 0.09
49 8 0.12
50 23 0.34
51 25 0.37
52 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (49 bp):
TAATTTTTTATAATATTAATATTTTTATATTTTTTTCATAATAAATTAA
Found at i:4538931 original size:32 final size:30
Alignment explanation
Indices: 4538868--4538931 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
4538858 ATTAATAATA
**
4538868 TTTTATAATATATAATATTTTTATATTATT
1 TTTTATAATATATAATATTTTTATACAATT
4538898 TTTTATAATATATCTAA-ATTTTTTATACAATT
1 TTTTATAATATA--TAATA-TTTTTATACAATT
4538930 TT
1 TT
4538932 AATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.41
31 1 0.03
32 16 0.55
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTATAATATATAATATTTTTATACAATT
Found at i:4538935 original size:51 final size:50
Alignment explanation
Indices: 4538827--4538941 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
4538817 TTTTTCTATA
*
4538827 ATTTATTATTTTTATATTTTTTTCATAATAAATTAATAATATTTTATAAT
1 ATTTAATATTTTTATATTTTTTTCATAATAAATTAATAATATTTTATAAT
* * * *
4538877 ATATAATATTTTTATATTATTTTTTATAATATATCT-A-AATTTTTTATACA-
1 ATTTAATATTTTTATATT-TTTTTCATAATAAAT-TAATAATATTTTATA-AT
4538927 ATTTTAATATTTTTA
1 A-TTTAATATTTTTA
4538942 AAATTAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
50 27 0.49
51 27 0.49
52 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (50 bp):
ATTTAATATTTTTATATTTTTTTCATAATAAATTAATAATATTTTATAAT
Found at i:4538938 original size:20 final size:21
Alignment explanation
Indices: 4538894--4538940 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
4538884 ATTTTTATAT
4538894 TATTTTTTATAATATATCTAA
1 TATTTTTTATAATATATCTAA
*
4538915 -ATTTTTTATACA-AT-TTTAA
1 TATTTTTTATA-ATATATCTAA
4538934 TATTTTT
1 TATTTTT
4538941 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 18 0.78
21 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTATAATATATCTAA
Found at i:4540254 original size:6 final size:6
Alignment explanation
Indices: 4540245--4540271 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4540235 CATTGACAAG
4540245 ATGATA ATGATA ATGATA ATGATA ATG
1 ATGATA ATGATA ATGATA ATGATA ATG
4540272 CGCACTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
ATGATA
Done.