Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 167 of 204
Found at i:49968325 original size:128 final size:128
Alignment explanation
Indices: 49968128--49968372 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 128
49968118 AGAGTCTAGT
* * * * *
49968128 GAAATGTATCTGCCGAAGAAATGATTAAAGATTCTATCTCAAGTTATTCTACTATTTAAGAAAAG
1 GAAAGGTATCCGCCAAAGAAATGATTAAAGATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* *
49968193 GATATGATAAGTAAAGAGTAAGCCTGGTGAGGTTAACTACTAAAGGTATAGTGTGCCTCTGGC
66 GATATGATAAGTAAAGAGTAAGCCTGGTAAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
* * * * *
49968256 GAAAGGTATCCGCCAAAGAAATGATTAAAGATTCTGCCTCAGGTTGTTCTACTGTTTCAGAAAAA
1 GAAAGGTATCCGCCAAAGAAATGATTAAAGATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
* * * *
49968321 GATATGATAAGTAAATAGTATGTCTGGTAAGGTTAACCACTAAAGGTTTAGT
66 GATATGATAAGTAAAGAGTAAGCCTGGTAAGGTTAACCACTAAAGGTATAGT
49968373 ACACCCAGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
128 101 1.00
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.30
Consensus pattern (128 bp):
GAAAGGTATCCGCCAAAGAAATGATTAAAGATTCTACCTCAAGTTATTCTACTATTTAAGAAAAA
GATATGATAAGTAAAGAGTAAGCCTGGTAAGGTTAACCACTAAAGGTATAGTGTGCCTCTGGC
Found at i:49969890 original size:21 final size:21
Alignment explanation
Indices: 49969856--49969896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49969846 AGGGGAAAGT
*
49969856 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
49969877 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
49969897 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:49975735 original size:21 final size:21
Alignment explanation
Indices: 49975711--49975847 Score: 98
Period size: 21 Copynumber: 6.5 Consensus size: 21
49975701 CCAAAGGTTG
* *
49975711 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGTTA
* *
49975732 AACAGAA-ATCCATAAG-GATTG
1 AACAGAAGCT-CATAAGAG-TTA
** * *
49975753 AATGGAAGCTCATAAAAGTTT
1 AACAGAAGCTCATAAGAGTTA
* *
49975774 AACAGAAACTCATAAGGGTTA
1 AACAGAAGCTCATAAGAGTTA
* * *
49975795 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGCTCATAAGAGTTA
* * *
49975816 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGTTA
49975837 AACAGAAGCTC
1 AACAGAAGCTC
49975848 GTGAGAGCTA
Statistics
Matches: 84, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
20 2 0.02
21 80 0.95
22 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTA
Found at i:49975803 original size:42 final size:42
Alignment explanation
Indices: 49975706--49975864 Score: 135
Period size: 42 Copynumber: 3.8 Consensus size: 42
49975696 AAAGCCCAAA
* * *
49975706 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAA-TCCATAAG
1 GGTTAAACAGAAGCTCATAAAAGCTAAACAGAAACT-CATAAG
* * ** * *
49975748 GATTGAATGGAAGCTCATAAAAGTTTAACAGAAACTCATAAG
1 GGTTAAACAGAAGCTCATAAAAGCTAAACAGAAACTCATAAG
* * *
49975790 GGTTAAACAGAAGCTCA-AAAGAGCTGAACGGAAACTCATATG
1 GGTTAAACAGAAGCTCATAAA-AGCTAAACAGAAACTCATAAG
* * * *
49975832 AGTTAAACAGAAGCTCGTGAGAGCTAAAC-GAAA
1 GGTTAAACAGAAGCTCATAAAAGCTAAACAGAAA
49975865 AGTAAACACG
Statistics
Matches: 94, Mismatches: 20, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
41 7 0.07
42 85 0.90
43 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (42 bp):
GGTTAAACAGAAGCTCATAAAAGCTAAACAGAAACTCATAAG
Found at i:49975860 original size:63 final size:63
Alignment explanation
Indices: 49975711--49975864 Score: 152
Period size: 63 Copynumber: 2.5 Consensus size: 63
49975701 CCAAAGGTTG
* * * * *
49975711 AACAGAAGCTCATGAGAGCTAAACAGAAATCCATAAGGATTGAATGGAAGCTCATAAAAGTTT
1 AACAGAAGCTCATGAGAGCTAAACAGAAATCCAAAAGGACTGAACGGAAACTCATAAAAGTTA
* * * * * **
49975774 AACAGAAACTCATAAGGGTTAAACAG-AAGCTCAAAA-GAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATGAGAGCTAAACAGAAATC-CAAAAGGA-CTGAACGGAAACTCATAAAAGTTA
*
49975837 AACAGAAGCTCGTGAGAGCTAAAC-GAAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAA
49975865 AGTAAACACG
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
62 6 0.08
63 65 0.92
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (63 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAATCCAAAAGGACTGAACGGAAACTCATAAAAGTTA
Found at i:49977055 original size:32 final size:32
Alignment explanation
Indices: 49977014--49977078 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
49977004 TTATTTTAAA
* *
49977014 ATTCGTCATCTCTTAATCTAGCAGTTTAATAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
49977046 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
1 ATTCATCATCTCCTAATCTAGCAGTTTAATAT
49977078 A
1 A
49977079 CTTAAGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.42
Consensus pattern (32 bp):
ATTCATCATCTCCTAATCTAGCAGTTTAATAT
Found at i:49977404 original size:30 final size:30
Alignment explanation
Indices: 49977364--49977424 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
49977354 TAGCAGTATA
* *
49977364 GTGTGGGCCTTAGCCCATTATAGTAACAGT
1 GTGTGAGCCTTAGCCCAATATAGTAACAGT
49977394 GTGTGAGCCTTAGCCCAATATAGTAACAGT
1 GTGTGAGCCTTAGCCCAATATAGTAACAGT
49977424 G
1 G
49977425 CAATGCAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (30 bp):
GTGTGAGCCTTAGCCCAATATAGTAACAGT
Found at i:49977593 original size:26 final size:26
Alignment explanation
Indices: 49977530--49977605 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
49977520 TACCAATATC
* *
49977530 GCAGCAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
49977556 GCAACAATGCTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* *
49977582 GTAGCAAAGCTGTCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
49977606 TGTGTGGCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:49977625 original size:27 final size:26
Alignment explanation
Indices: 49977568--49977626 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
49977558 AACAATGCTG
**
49977568 CCAGTAACAGTAATGTAGCAAAGCTG
1 CCAGTAACAGTAATGTAGCAAAGCCA
* * *
49977594 TCAGTAACAGTATGTGTGGCAAAGCCA
1 CCAGTAACAGTA-ATGTAGCAAAGCCA
49977621 CCAGTA
1 CCAGTA
49977627 CAATATACTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
CCAGTAACAGTAATGTAGCAAAGCCA
Found at i:49977815 original size:27 final size:27
Alignment explanation
Indices: 49977780--49978033 Score: 316
Period size: 27 Copynumber: 9.4 Consensus size: 27
49977770 AGGGGTATAA
* *
49977780 CAGTTATTTTACCCTT-TAGGGGTATTT
1 CAGTCATTTTACCCTTCGA-GGGTATTT
* *
49977807 CAATCATTTTATCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * *
49977834 CGGTTATTTTTCCCTT-GAAGGGTATTT
1 CAGTCATTTTACCCTTCG-AGGGTATTT
*
49977861 TAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
49977888 CAGTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
49977915 -AGGTCATTTTACCTTTTGAGGGTATTT
1 CA-GTCATTTTACCCTTCGAGGGTATTT
* *
49977942 CAGTTATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
49977969 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
49977996 CAGTCATTTTACCCTTTGAGGGTATCT
1 CAGTCATTTTACCCTTCGAGGGTATTT
49978023 CAGTCATTTTA
1 CAGTCATTTTA
49978034 GGCCCATTAT
Statistics
Matches: 194, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 189 0.97
28 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:49981777 original size:23 final size:23
Alignment explanation
Indices: 49981708--49981777 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
49981698 ATATTCTGTG
*
49981708 TAGCCTTTGTGG-AGAATTCTGTA
1 TAGCCTTTGTGGCA-AATTTTGTA
*
49981731 TAGCCTTTGTGGCGAAA-TTAGTA
1 TAGCCTTTGTGGC-AAATTTTGTA
*
49981754 TGGCCTTTGTGGCAAATTTTGTA
1 TAGCCTTTGTGGCAAATTTTGTA
49981777 T
1 T
49981778 TGTCTCATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 3 0.08
23 34 0.85
24 2 0.05
25 1 0.03
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (23 bp):
TAGCCTTTGTGGCAAATTTTGTA
Found at i:49985325 original size:23 final size:23
Alignment explanation
Indices: 49985299--49985349 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
49985289 TATATATACG
49985299 CATACATTTTTATAATATACATA
1 CATACATTTTTATAATATACATA
* *
49985322 CAT--ATTTTTATAATTTATATA
1 CATACATTTTTATAATATACATA
*
49985343 TATACAT
1 CATACAT
49985350 ACATATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 18 0.78
23 5 0.22
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (23 bp):
CATACATTTTTATAATATACATA
Found at i:49985348 original size:29 final size:29
Alignment explanation
Indices: 49985307--49985375 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
49985297 CGCATACATT
49985307 TTTATA-ATATACATACATATTTTTATAA
1 TTTATATATATACATACATATTTTTATAA
49985335 TTTATATATATACATACATATTTTTATAA
1 TTTATATATATACATACATATTTTTATAA
49985364 TTTATATATATA
1 TTTATATATATA
49985376 TAATTTGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTATATATATACATACATATTTTTATAA
Found at i:49990923 original size:129 final size:126
Alignment explanation
Indices: 49990693--49991013 Score: 414
Period size: 129 Copynumber: 2.5 Consensus size: 126
49990683 CGCATCTAAG
* * * * *
49990693 GTTGCGGTGGAGTGGATAAAAATATTCAAATCTTATCTCTCTAAGGTTGCGGAGAGCGGATCGCA
1 GTTGCAGTGGAGTGGATTAAAATA-TCAAATCTTATCTCTATGAGGTTGCAGAGAGCGGATCGCA
* *
49990758 TCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAAAAACCAATCCCATCTCCCTGAA
65 TCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACA-AAAAAA-CAATCCCATCTCCCTGAA
* *
49990822 GTTGCAGTGGAGAGGATTAAAATATCCAAATCTTATCTCTTTGAGGTTGCAGAGAGCGGATCGCA
1 GTTGCAGTGGAGTGGATTAAAATAT-CAAATCTTATCTCTATGAGGTTGCAGAGAGCGGATCGCA
* * * *
49990887 TCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAATAATCCTATCTCCTTGAA
65 TCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAAAACAATCCCATCTCCCTGAA
* * * *
49990949 GTTACAGTGGAGTGGATATAAAA-AT-AGATCTTATCTCTATGA-ATTGCAGTAGAGCAGATCGC
1 GTTGCAGTGGAGTGGAT-TAAAATATCAAATCTTATCTCTATGAGGTTGCAG-AGAGCGGATCGC
49991011 ATC
64 ATC
49991014 ATACTTATTT
Statistics
Matches: 171, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
124 6 0.04
125 29 0.17
127 32 0.19
128 11 0.06
129 93 0.54
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (126 bp):
GTTGCAGTGGAGTGGATTAAAATATCAAATCTTATCTCTATGAGGTTGCAGAGAGCGGATCGCAT
CTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAAAACAATCCCATCTCCCTGAA
Found at i:49992564 original size:25 final size:23
Alignment explanation
Indices: 49992536--49992599 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
49992526 AAATTTTGTT
49992536 ATATATATACGCATACATTTTTATA
1 ATATATATA--CATACATTTTTATA
* *
49992561 ATATACATACATATATTTTTATA
1 ATATATATACATACATTTTTATA
* *
49992584 ATTTATATATATACAT
1 ATATATATACATACAT
49992600 ACTTATATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 25 0.76
25 8 0.24
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATATACATACATTTTTATA
Found at i:49992605 original size:23 final size:21
Alignment explanation
Indices: 49992579--49992635 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
49992569 ACATATATTT
49992579 TTATAATTTATATATATACATAC
1 TTATAATTT-TATATATACAT-C
* * *
49992602 TTAT-ATTTTTTTTATATATC
1 TTATAATTTTATATATACATC
49992622 TTATAATTTGTATA
1 TTATAATTT-TATA
49992636 CATATCTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.19
21 12 0.44
22 6 0.22
23 4 0.15
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATAATTTTATATATACATC
Found at i:49992640 original size:20 final size:20
Alignment explanation
Indices: 49992593--49992647 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
49992583 AATTTATATA
* *
49992593 TATACATA-CTTATATTTTT
1 TATACATATCTTATAATTTG
* *
49992612 TTTATATATCTTATAATTTG
1 TATACATATCTTATAATTTG
49992632 TATACATATCTATATA
1 TATACATATCT-TATA
49992648 TATATCTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 6 0.21
20 18 0.64
21 4 0.14
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.55
Consensus pattern (20 bp):
TATACATATCTTATAATTTG
Found at i:49992652 original size:12 final size:12
Alignment explanation
Indices: 49992632--49992664 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
49992622 TTATAATTTG
49992632 TATACATATCTA
1 TATACATATCTA
*
49992644 TATATATATCTA
1 TATACATATCTA
49992656 TATACATAT
1 TATACATAT
49992665 TTCTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (12 bp):
TATACATATCTA
Found at i:49992835 original size:16 final size:15
Alignment explanation
Indices: 49992811--49992858 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
49992801 CATTCATTTT
*
49992811 TTTTATATATGTATA
1 TTTTATATATGCATA
*
49992826 TTTATATATATACATA
1 TTT-TATATATGCATA
49992842 TTTTAATATATGCATA
1 TTTT-ATATATGCATA
49992858 T
1 T
49992859 ACATATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (15 bp):
TTTTATATATGCATA
Found at i:50002110 original size:3 final size:3
Alignment explanation
Indices: 50002102--50002126 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50002092 TTCACGCTTA
50002102 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
50002127 GCCTAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50018143 original size:21 final size:20
Alignment explanation
Indices: 50018117--50018191 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
50018107 CTTTTTTTAC
*
50018117 AATTTTTATAATTTTTAATA
1 AATTTTAATAATTTTTAATA
* *
50018137 AATTTTTAATATTTTTTATTA
1 AA-TTTTAATAATTTTTAATA
* *
50018158 AAATTTAATCATTTTT-ATA
1 AATTTTAATAATTTTTAATA
*
50018177 ACTTTT-ATAATTTTT
1 AATTTTAATAATTTTT
50018192 TTGCCACATG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
18 8 0.18
19 6 0.14
20 13 0.30
21 17 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTTTAATAATTTTTAATA
Found at i:50018150 original size:9 final size:10
Alignment explanation
Indices: 50018117--50018191 Score: 66
Period size: 9 Copynumber: 7.7 Consensus size: 10
50018107 CTTTTTTTAC
50018117 AATTTTT-AT
1 AATTTTTAAT
50018126 AATTTTTAAT
1 AATTTTTAAT
50018136 AAATTTTTAAT
1 -AATTTTTAAT
* *
50018147 ATTTTTTATT
1 AATTTTTAAT
**
50018157 AAAATTTAAT
1 AATTTTTAAT
*
50018167 CATTTTT-AT
1 AATTTTTAAT
*
50018176 AACTTTT-AT
1 AATTTTTAAT
50018185 AATTTTT
1 AATTTTT
50018192 TTGCCACATG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
9 22 0.42
10 20 0.38
11 10 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:50018192 original size:10 final size:10
Alignment explanation
Indices: 50018100--50018192 Score: 50
Period size: 10 Copynumber: 9.4 Consensus size: 10
50018090 TTCCTATATA
*
50018100 TTTTATACTT
1 TTTTATAATT
*
50018110 TTTT-TACAAT
1 TTTTATA-ATT
50018120 TTTTATAATT
1 TTTTATAATT
* *
50018130 TTTAATAAAT
1 TTTTATAATT
50018140 TTTTA-ATATT
1 TTTTATA-ATT
**
50018150 TTTTATTAAAA
1 TTTTA-TAATT
* *
50018161 TTTAATCA-T
1 TTTTATAATT
*
50018170 TTTTATAA-C
1 TTTTATAATT
50018179 TTTTATAATT
1 TTTTATAATT
50018189 TTTT
1 TTTT
50018193 TGCCACATGT
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
9 17 0.28
10 36 0.59
11 7 0.11
12 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:50019348 original size:22 final size:22
Alignment explanation
Indices: 50019323--50019367 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
50019313 TTCATCGACA
*
50019323 ATATATTAAAT-ATTATTTTAAT
1 ATATATAAAATAATTA-TTTAAT
50019345 ATATATAAAATAATTATTTAAT
1 ATATATAAAATAATTATTTAAT
50019367 A
1 A
50019368 CAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATAAAATAATTATTTAAT
Found at i:50020236 original size:21 final size:22
Alignment explanation
Indices: 50020196--50020237 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50020186 TGTCAATGTG
50020196 GGATAAAAATTAACTTTTTAAA
1 GGATAAAAATTAACTTTTTAAA
*
50020218 GGATTAAAATTAA-TTTTTAA
1 GGATAAAAATTAACTTTTTAA
50020238 TGCAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
GGATAAAAATTAACTTTTTAAA
Found at i:50020639 original size:93 final size:94
Alignment explanation
Indices: 50020538--50020724 Score: 261
Period size: 96 Copynumber: 2.0 Consensus size: 94
50020528 TTTAAGGGAC
* * *
50020538 TAAAATTAACTTTTAATGAAAATATTG-AAGTGAGTTATGGTAGTATTCCCTA-GTCAATGCGAT
1 TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATTCCC-AGGTCAATGCGAG
50020601 ATTAAAACTAACTTTTTAATGAAAATAGAT
65 ATTAAAACTAACTTTTTAATGAAAATAGAT
* * * * *
50020631 TAAAATTAATTTTTAATGAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCAGGTTAATGTGG
1 TAAAATTAACTTTTAATGAAAATAGTG-A-AAATGAGTTATGGTAGTATTCCCAGGTCAATGCGA
50020696 GATTAAAACTAACTTTTTAATGAAAATAG
64 GATTAAAACTAACTTTTTAATGAAAATAG
50020725 TGAATAATTG
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
93 25 0.30
95 1 0.01
96 56 0.68
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (94 bp):
TAAAATTAACTTTTAATGAAAATAGTGAAAATGAGTTATGGTAGTATTCCCAGGTCAATGCGAGA
TTAAAACTAACTTTTTAATGAAAATAGAT
Found at i:50020650 original size:27 final size:28
Alignment explanation
Indices: 50020601--50020655 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
50020591 TCAATGCGAT
50020601 ATTAAAACTAACTTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
*
50020629 ATTAAAATTAA-TTTTTAATGAAAATAG
1 ATTAAAACTAACTTTTTAATGAAAATAG
50020656 TGAATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
ATTAAAACTAACTTTTTAATGAAAATAG
Found at i:50020762 original size:14 final size:14
Alignment explanation
Indices: 50020743--50020769 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50020733 TGAGCTATGA
50020743 CAATATTCTCTAAT
1 CAATATTCTCTAAT
50020757 CAATATTCTCTAA
1 CAATATTCTCTAA
50020770 ACCCAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
CAATATTCTCTAAT
Found at i:50022179 original size:25 final size:26
Alignment explanation
Indices: 50022129--50022189 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
50022119 ATAAAAAATA
50022129 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
50022155 ACCAAAATATTATAA-TTTTTTATTT
1 ACCAAAATATTATAATTTTTTTATTT
*
50022180 ACTAAAATAT
1 ACCAAAATAT
50022190 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
ACCAAAATATTATAATTTTTTTATTT
Found at i:50022817 original size:19 final size:19
Alignment explanation
Indices: 50022795--50022860 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
50022785 TTTAATTTTT
50022795 TTAAATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
* * *
50022814 TTAAATGAGAATAG-TTTA
1 TTAAATTAAAATAGAGTTA
*
50022832 TTACATTAAAATAGAGTTA
1 TTAAATTAAAATAGAGTTA
50022851 TTAAATTAAA
1 TTAAATTAAA
50022861 CTATTTTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAAATTAAAATAGAGTTA
Found at i:50023323 original size:27 final size:28
Alignment explanation
Indices: 50023270--50023334 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
50023260 TTTTTTTGGT
50023270 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAATTTATA
50023298 ATATTTTGGTAAATAAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAATTTATA
50023325 ATATTTTGGT
1 ATATTTTGGT
50023335 TTTTTTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAATTTATA
Found at i:50023708 original size:15 final size:16
Alignment explanation
Indices: 50023682--50023725 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
50023672 TTTTAAATAT
*
50023682 GTAAAAAAATAAACAA
1 GTAAATAAATAAACAA
50023698 GT-AATAAATAAACAA
1 GTAAATAAATAAACAA
50023713 GTAAATAAATAAA
1 GTAAATAAATAAA
50023726 AAGGTTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (16 bp):
GTAAATAAATAAACAA
Found at i:50025529 original size:44 final size:44
Alignment explanation
Indices: 50025465--50025864 Score: 408
Period size: 44 Copynumber: 9.1 Consensus size: 44
50025455 GGTATAGGAA
* * * * * *
50025465 TTGTAGTTTTAATCTACTCCACTACAACTTTAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
50025509 TTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * *
50025553 TTGTAGCTTTAATTTGTTCCATTGCAACTTCAGAGAGGTAAGAG
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
50025597 TTGTAGCTTCAATATACTCCACTACAACTTGAGGGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * *
50025641 TTGTAGCTTCAATATGCTCTACTGCAACTTTAGCGAGATAAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * **
50025685 TCGTTATCTTCAATCTAATCCACTGCAACTTCAGGGAGATAAGAT
1 TTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* *
50025730 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATGAGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
* * * * * * * **
50025774 TTGTAACTTTAATTTGATCCACTGTAACTTTAGGGATATGTGAT
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
50025818 TTGTAGCTTC-ATCTTGCTCCATTGCATA-TTCAGGGAGATAAGAT
1 TTGTAGCTTCAATC-TGCTCCACTGCA-ACTTCAGGGAGATAAGAT
50025862 TTG
1 TTG
50025865 CTATATTCAA
Statistics
Matches: 293, Mismatches: 60, Indels: 6
0.82 0.17 0.02
Matches are distributed among these distances:
43 2 0.01
44 254 0.87
45 37 0.13
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
Found at i:50025821 original size:177 final size:176
Alignment explanation
Indices: 50025489--50025828 Score: 441
Period size: 177 Copynumber: 1.9 Consensus size: 176
50025479 TACTCCACTA
* ** *
50025489 CAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 CAACTTTAGCGAGATAAGACTTGTAGCTTCAATCTAATCCACTGCAACTTCAGGGAGATAAGACT
* * * * * *
50025554 TGTAGCTTTAATTTGTTCCATTGCAACTTCAGAGAGGTAAGAGTTGTAGCTTCAATATACTCCAC
66 TGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAATATACTCCAC
50025619 TACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATGCTCTACTG
131 TACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATGCTCTACTG
*
50025665 CAACTTTAGCGAGATAAGA-TTCGTTATCTTCAATCTAATCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTTAGCGAGATAAGACTT-G-TAGCTTCAATCTAATCCACTGCAACTTCAGGGAGATAAGA
* * * * *
50025729 TTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATGAGATTTGTAACTTTAATTTGA-TC
64 CTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAATAT-ACTC
** * * **
50025793 CACTGTAACTTTAGGGATATGTGATTTGTAGCTTCA
128 CACTACAACTTGAGGGAGATAAGATTTGTAGCTTCA
50025829 TCTTGCTCCA
Statistics
Matches: 139, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
175 2 0.01
176 19 0.14
177 117 0.84
178 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (176 bp):
CAACTTTAGCGAGATAAGACTTGTAGCTTCAATCTAATCCACTGCAACTTCAGGGAGATAAGACT
TGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAATATACTCCAC
TACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATGCTCTACTG
Found at i:50025858 original size:177 final size:175
Alignment explanation
Indices: 50025481--50025885 Score: 438
Period size: 177 Copynumber: 2.3 Consensus size: 175
50025471 TTTTAATCTA
* * * ** *
50025481 CTCCACTACAACTTTAGGGAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTCAATCTAATCCACTGCAACTTCAGGGAG
* * * * * *
50025546 ATAAGACTTGTAGCTTTAATTTGTTCCATTGCAACTTCAGAGAGGTAAGAGTTGTAGCTTCAATA
65 ATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAATA
50025611 TACTCCACTACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATG
130 TACTCCACTACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATG
* * *
50025657 CTCTACTGCAACTTTAGCGAGATAAGATTCGTTATCTTCAATCTAATCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTCAATCTAATCCACTGCAACTTCAGGGA
* * * *
50025722 GATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATGAGATTTGTAACTTTAAT
64 GATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAAT
* ** * * ** *
50025787 TTGA-TCCACTGTAACTTTAGGGATATGTGATTTGTAGCTTC-ATCTTG
129 AT-ACTCCACTACAACTTGAGGGAGATAAGATTTGTAGCTTCAAT-ATG
* * * *
50025834 CTCCATTGCATA-TTCAGGGAGATAAGATTTGCTATATTCAATCCAACCCACT
1 CTCCACTGCA-ACTTCAGGGAGATAAGA-TTG-TATCTTCAATCTAATCCACT
50025886 AAACTCCACA
Statistics
Matches: 190, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
175 2 0.01
176 27 0.14
177 157 0.83
178 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (175 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTCAATCTAATCCACTGCAACTTCAGGGAGA
TAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGAGTTGTAACTTCAATAT
ACTCCACTACAACTTGAGGGAGATAAGATTTGTAGCTTCAATATG
Found at i:50028376 original size:24 final size:24
Alignment explanation
Indices: 50028346--50028394 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50028336 AAAAGTATAA
50028346 GGGCAAAATGATAATTTTGCCTAG
1 GGGCAAAATGATAATTTTGCCTAG
50028370 GGGCAAAATGATAATTTTGCCTAG
1 GGGCAAAATGATAATTTTGCCTAG
50028394 G
1 G
50028395 ATGTGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (24 bp):
GGGCAAAATGATAATTTTGCCTAG
Found at i:50030870 original size:27 final size:27
Alignment explanation
Indices: 50030832--50030885 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
50030822 GGGACTAGAC
*
50030832 TCAGTTCTTTAGCATCGACCTTGCAAA
1 TCAGTTCCTTAGCATCGACCTTGCAAA
50030859 TCAGTTCCTTAGCATCGACCTTGCAAA
1 TCAGTTCCTTAGCATCGACCTTGCAAA
50030886 GGTAATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (27 bp):
TCAGTTCCTTAGCATCGACCTTGCAAA
Found at i:50037354 original size:31 final size:33
Alignment explanation
Indices: 50037232--50037358 Score: 100
Period size: 33 Copynumber: 3.9 Consensus size: 33
50037222 TGGCATCCAC
* * * * *
50037232 AGAACAGAGATAGTCTGTTGGGACAATAAACAC
1 AGAATAGAGAAAGTCTGCTGGGACAGTAAACAT
* * * *
50037265 ATAATATAGATAA-TCCGCTGGGATAGTAAACAT
1 AGAATAGAGA-AAGTCTGCTGGGACAGTAAACAT
* *
50037298 AGAATAGAGATAGTCTGCTGAGACAGTAAACAT
1 AGAATAGAGAAAGTCTGCTGGGACAGTAAACAT
*
50037331 A-AA-AGAGAAAGT-TCGTTGGGACAGTAAA
1 AGAATAGAGAAAGTCT-GCTGGGACAGTAAA
50037359 TATGGGGTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
30 1 0.01
31 20 0.27
32 3 0.04
33 48 0.66
34 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (33 bp):
AGAATAGAGAAAGTCTGCTGGGACAGTAAACAT
Found at i:50039379 original size:19 final size:19
Alignment explanation
Indices: 50039357--50039408 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
50039347 AAAATTACAA
50039357 CAAAATTCAAAATAATATC
1 CAAAATTCAAAATAATATC
* *
50039376 CAAAATTCAAAATAATTTT
1 CAAAATTCAAAATAATATC
*
50039395 TAAAATTCAAAATA
1 CAAAATTCAAAATA
50039409 TTTATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
CAAAATTCAAAATAATATC
Found at i:50039418 original size:19 final size:19
Alignment explanation
Indices: 50039358--50039425 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
50039348 AAATTACAAC
* *
50039358 AAAATTCAAAATA-ATATCC
1 AAAATTCAAAATATTTAT-A
*
50039377 AAAATTCAAAATAATTT-TT
1 AAAATTCAAAAT-ATTTATA
50039396 AAAATTCAAAATATTTATA
1 AAAATTCAAAATATTTATA
50039415 AAAATTTCAAA
1 AAAA-TTCAAA
50039426 TTTTATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.10
19 29 0.69
20 8 0.19
21 1 0.02
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATATTTATA
Found at i:50039462 original size:20 final size:20
Alignment explanation
Indices: 50039435--50039473 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50039425 ATTTTATATT
*
50039435 TTTTAAAAAA-GTATAAAAA
1 TTTTAAAAAATATATAAAAA
50039454 TTTTAAAAAATATATAAAAA
1 TTTTAAAAAATATATAAAAA
50039474 GAAGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TTTTAAAAAATATATAAAAA
Found at i:50039563 original size:3 final size:3
Alignment explanation
Indices: 50039555--50039607 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
50039545 CTCAAGTATC
50039555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50039603 TTA TT
1 TTA TT
50039608 TTGATTTGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50051987 original size:6 final size:6
Alignment explanation
Indices: 50051976--50052004 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50051966 CTCCCCTTCT
50051976 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
50052005 GCTAAATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:50055048 original size:19 final size:20
Alignment explanation
Indices: 50055024--50055061 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
50055014 ATATTAAAAA
50055024 ATATTTTTTT-ATAATTTTG
1 ATATTTTTTTCATAATTTTG
50055043 ATATTTTTTTCATAATTTT
1 ATATTTTTTTCATAATTTT
50055062 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATTTTTTTCATAATTTTG
Found at i:50055912 original size:26 final size:25
Alignment explanation
Indices: 50055870--50055925 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
50055860 ATATTTATAA
*
50055870 TATATTATTTTAATATTTAATAATTT
1 TATATTATTTTAATATTGAA-AATTT
* *
50055896 TATATT-TTTTATTTATTGAAATTTT
1 TATATTATTTTA-ATATTGAAAATTT
50055921 TATAT
1 TATAT
50055926 AGTCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATATTATTTTAATATTGAAAATTT
Found at i:50058290 original size:21 final size:21
Alignment explanation
Indices: 50058260--50058303 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50058250 TTTATCATTT
50058260 ATTTTCATAT-TGAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
50058281 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
50058302 AT
1 AT
50058304 GTAAAATGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:50059339 original size:40 final size:40
Alignment explanation
Indices: 50059290--50059369 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
50059280 TGAACTCATA
*
50059290 TGTATCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
*
50059330 TGTACCATGGATGAACTTACTAACTTGTGAGTTTTATGGT
1 TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
50059370 GCTTGTATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (40 bp):
TGTACCATGGATGAACTTACTAACTTGTGAGTTTGATGGT
Found at i:50067102 original size:12 final size:12
Alignment explanation
Indices: 50067058--50067110 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
50067048 AGAGAAATAA
*
50067058 AATTTGAGTGAG
1 AATTTGAGAGAG
* *
50067070 AATTTAAGAGTG
1 AATTTGAGAGAG
50067082 AA-TT-A-AGAG
1 AATTTGAGAGAG
50067091 AATTTGAGAGAG
1 AATTTGAGAGAG
50067103 -ATTTGAGA
1 AATTTGAGA
50067111 ATGTGAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 3 0.09
11 11 0.32
12 15 0.44
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (12 bp):
AATTTGAGAGAG
Found at i:50067112 original size:19 final size:19
Alignment explanation
Indices: 50067088--50067129 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50067078 AGTGAATTAA
* * *
50067088 GAGAATTTGAGAGAGATTT
1 GAGAATGTGAAAGAGAGTT
50067107 GAGAATGTGAAAGAGAGTT
1 GAGAATGTGAAAGAGAGTT
50067126 GAGA
1 GAGA
50067130 TTGAATTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (19 bp):
GAGAATGTGAAAGAGAGTT
Found at i:50075180 original size:43 final size:43
Alignment explanation
Indices: 50075119--50075318 Score: 296
Period size: 43 Copynumber: 4.7 Consensus size: 43
50075109 ATTGATTTGA
*
50075119 GATTTACGTATAAGACCATGTCTGGGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
*
50075162 GATTTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
50075205 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
** * *
50075248 GATTTACGCATAAGACCATGTCTGGGACAGTGGCATCGATATTT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATAT
* *
50075292 GA-TTACATGCAAGACC-TCGTCTGGGAC
1 GATTTACGTGTAAGACCAT-GTCTGGGAC
50075319 GTAGGCATTG
Statistics
Matches: 144, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 137 0.95
44 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
Found at i:50082945 original size:43 final size:43
Alignment explanation
Indices: 50082886--50083085 Score: 251
Period size: 43 Copynumber: 4.7 Consensus size: 43
50082876 ATTGATTTGA
* *
50082886 GATTTACGTATAAGACCATGTCTGGGACATTGGTATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
*
50082929 GATTTACGTGTAAGACCATGTCTGAGACATTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
* * *
50082972 GATTTACGTGTAAGATCATGTCTAGGACATTGGTATCGTATAT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
** * * *
50083015 GATTTACGCATAAGACCCTGTCTGGGACAGTGGCATCGATATTT
1 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATAT
* *
50083059 GA-TTACATGCAAGACC-TCGTCTGGGAC
1 GATTTACGTGTAAGACCAT-GTCTGGGAC
50083086 GTAGGCATTG
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 129 0.95
44 6 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAT
Found at i:50086901 original size:15 final size:17
Alignment explanation
Indices: 50086866--50086906 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
50086856 TCAACTATAT
*
50086866 TTAATATATTCTTTAAC
1 TTAATATATACTTTAAC
50086883 TTAATATA-ACTTTAA-
1 TTAATATATACTTTAAC
*
50086898 TTAAAATAT
1 TTAATATAT
50086907 TTAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 7 0.33
16 6 0.29
17 8 0.38
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATATACTTTAAC
Found at i:50088261 original size:279 final size:277
Alignment explanation
Indices: 50087737--50088296 Score: 721
Period size: 279 Copynumber: 2.0 Consensus size: 277
50087727 ATATTTATAA
* *
50087737 ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAAATTTAAAATTACAAACTCCACTAAATCG
1 ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAAATTTAAAACTACAAACTCCACTAAATCA
* * *
50087802 AATTAATATAATGAAACAATGTTACACCAGTGAGTAGCGTCCCCATAAAAACCTTGGGTGGTAGT
66 AATTAATATAAGGAAACAATGTTACACCAATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGT
* * * * * *
50087867 CCTTTAGTAAGCGAATCCGCAATTATGGAGTTTGTTTCAATATATTTTATAGACACTTGATCACT
131 CCTTTAGTAAGCGAATCCGCAATTATAGAATTTGTCTCAATATACTTTATAGACACCTGACCACT
* * * * *
50087932 TTAAACTCTTACTTTAACACTTAGAAATTTAAAGTCCATGTGCATTGACTTTGATGTCCTCTTGT
196 TTAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATAT
* *
50087997 TGTTATTGGAATAAAGG
261 TATTATTGGAATAAAAG
**
50088014 ACTGAAATAACT-AAAAATGTGTCTATAAC-AAAAAGTATTTAAAACTAC-AACTCCTACTAAAA
1 ACTGAAATAA-TAAAAAATGTGTCTATAACAAAAAAAAATTTAAAACTACAAACTCC-ACT-AAA
* ** ** * *
50088076 TCAAATTAGTATCCGGAAATGATGTTACATCCATATGAGCAGTGTTCCCATAAAAACCTTGGGTG
63 TCAAATTAATATAAGGAAACAATGTTACA-CCA-ATGAGCAGCGTCCCCATAAAAACCTTGGGTG
* * *
50088141 GTAGTCCTTTAGTAAGTGAATTCGCAATTATAGAATTTGTCTCAGTATACTTTATAGACACCTGA
126 GTAGTCCTTTAGTAAGCGAATCCGCAATTATAGAATTTGTCTCAATATACTTTATAGACACCTGA
* * * * * * *
50088206 CCGCTTTGAACTCCTATTTTAACAATTAGGAATTTAGAGTCTATGTGCCTTGACTTTCATGTCCT
191 CCACTTTAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCT
50088271 CATATTATTATTGGAATAAAAG
256 CATATTATTATTGGAATAAAAG
50088293 ACTG
1 ACTG
50088297 TCATTTATTG
Statistics
Matches: 241, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
275 6 0.02
276 19 0.08
277 52 0.22
278 4 0.02
279 160 0.66
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (277 bp):
ACTGAAATAATAAAAAATGTGTCTATAACAAAAAAAAATTTAAAACTACAAACTCCACTAAATCA
AATTAATATAAGGAAACAATGTTACACCAATGAGCAGCGTCCCCATAAAAACCTTGGGTGGTAGT
CCTTTAGTAAGCGAATCCGCAATTATAGAATTTGTCTCAATATACTTTATAGACACCTGACCACT
TTAAACTCCTACTTTAACAATTAGAAATTTAAAGTCCATGTGCATTGACTTTCATGTCCTCATAT
TATTATTGGAATAAAAG
Found at i:50091633 original size:62 final size:62
Alignment explanation
Indices: 50091552--50091676 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
50091542 TTATACTTTC
* * *
50091552 TTTTGTTTTTATATATTAAGGCTTTTAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
1 TTTTATTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
* *
50091614 TTTTATTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTGTTTTTGTTAAAGAG
1 TTTTATTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
50091676 T
1 T
50091677 ATTTGTCAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (62 bp):
TTTTATTTTTAGATATTAAGGCTTTCAGTTAAAATAATAATAAAATTATTTTCGTTAAAGAG
Found at i:50093352 original size:18 final size:18
Alignment explanation
Indices: 50093331--50093366 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
50093321 AAGAGAAGAG
50093331 AAAGAAAGAAA-AAATTTA
1 AAAGAAA-AAATAAATTTA
50093349 AAAGAAAAAATAAATTTA
1 AAAGAAAAAATAAATTTA
50093367 TTCAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAAGAAAAAATAAATTTA
Found at i:50097913 original size:15 final size:15
Alignment explanation
Indices: 50097885--50097927 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50097875 TATTATTTTT
*
50097885 AATTTAATAT-TTAA
1 AATTTTATATATTAA
* *
50097899 TATTTTATTTATTAA
1 AATTTTATATATTAA
50097914 AATTTTATATATTA
1 AATTTTATATATTA
50097928 TCATCTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTTATATATTAA
Found at i:50099584 original size:20 final size:20
Alignment explanation
Indices: 50099550--50099591 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50099540 AACTATTTAA
** *
50099550 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
50099570 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50099590 AT
1 AT
50099592 GTATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50109259 original size:43 final size:42
Alignment explanation
Indices: 50109143--50109270 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 42
50109133 ATAGGATTCT
* *
50109143 GTTATGTGTTATCATGTAAGACCACGTCTGGGACGTTGGCATT
1 GTTATGTGTTA-CATGTAAGACCACGTCTGGGACGTTAGCATC
* * *
50109186 GACT-TGTGTTTACA-GTTAAAACC-CTATCTGGGACAG-TAGCATC
1 G-TTATGTG-TTACATG-TAAGACCAC-GTCTGGGAC-GTTAGCATC
*
50109229 GTTATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTTATGTG-TTACATGTAAGACCACGTCTGGGACGTTAGCAT
50109271 TGTTTGATGT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
42 4 0.06
43 55 0.83
44 7 0.11
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
GTTATGTGTTACATGTAAGACCACGTCTGGGACGTTAGCATC
Found at i:50113645 original size:3 final size:3
Alignment explanation
Indices: 50113637--50113669 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
50113627 TTCAACCAGA
50113637 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50113670 GGGAAGGAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50117893 original size:156 final size:156
Alignment explanation
Indices: 50117599--50117905 Score: 526
Period size: 156 Copynumber: 2.0 Consensus size: 156
50117589 TATGGCTTCT
*
50117599 ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTGCTTTTGAGCTTAGATGTTCATCATTCTAAAGC
1 ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTGCTGTTGAGCTTAGATGTTCATCATTCTAAAGC
50117664 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCTGTATTTCACGAGC
66 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCTGTATTTCACGAGC
50117729 ATACTAAACATATTGAAGTGGCATCC
131 ATACTAAACATATTGAAGTGGCATCC
* *
50117755 ATCACTTGTGAGCTCAAGTGGCTGAAGGCCTTGCTGTTGAGCTTAGGTGTTCATCATTCTAAAGC
1 ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTGCTGTTGAGCTTAGATGTTCATCATTCTAAAGC
* * *
50117820 AATTCCTTTATTTTGTGATAGTCAATTTGCGCTGCATATTGCACAGAATCCCT-TATTTCATGAG
66 AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAAT-CCTGTATTTCACGAG
* *
50117884 TATATTAAACATATTGAAGTGG
130 CATACTAAACATATTGAAGTGG
50117906 ATTGTCACTT
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
156 139 0.98
157 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (156 bp):
ATCACTTGTGAGCTCAAATGGCTGAAGGCCTTGCTGTTGAGCTTAGATGTTCATCATTCTAAAGC
AATTCCTTTATTTTGTGATAGTCAATCTGCGCTGCATATTGCACACAATCCTGTATTTCACGAGC
ATACTAAACATATTGAAGTGGCATCC
Found at i:50118271 original size:17 final size:17
Alignment explanation
Indices: 50118249--50118283 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
50118239 TTGGCAATTA
*
50118249 ATAAAATTTTTAAATAT
1 ATAAAATTATTAAATAT
*
50118266 ATAAAATTATTGAATAT
1 ATAAAATTATTAAATAT
50118283 A
1 A
50118284 ATTGAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAAATAT
Found at i:50125455 original size:15 final size:15
Alignment explanation
Indices: 50125435--50125465 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50125425 CAATATACTA
*
50125435 ACATACAGGGTTCGC
1 ACATACAGGCTTCGC
50125450 ACATACAGGCTTCGC
1 ACATACAGGCTTCGC
50125465 A
1 A
50125466 TACTAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (15 bp):
ACATACAGGCTTCGC
Found at i:50125710 original size:22 final size:22
Alignment explanation
Indices: 50125636--50125700 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
50125626 CTGCAACAAC
*
50125636 GTTTGCATAACATTTACTAAGG
1 GTTTGCATAACATTCACTAAGG
*
50125658 GTTTGCATAACATACACTAAGG
1 GTTTGCATAACATTCACTAAGG
50125680 GTTTGCATAACATTCACTAAG
1 GTTTGCATAACATTCACTAAG
50125701 AGTTCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (22 bp):
GTTTGCATAACATTCACTAAGG
Found at i:50125729 original size:24 final size:24
Alignment explanation
Indices: 50125693--50125795 Score: 111
Period size: 24 Copynumber: 4.4 Consensus size: 24
50125683 TGCATAACAT
*
50125693 TCAC-TAAGAGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
*
50125716 TCACATAAAGGTTCACATACTAAA
1 TCACATAAGGGTTCACATACTAAA
* ** *
50125740 TCATATGGGGGTTCGCATACTAAA
1 TCACATAAGGGTTCACATACTAAA
** *
50125764 TCATGTAAGGGTTC-CATACTCAA
1 TCACATAAGGGTTCACATACTAAA
50125787 TCACATAAG
1 TCACATAAG
50125796 TCTTTGCATG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
23 19 0.29
24 47 0.71
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (24 bp):
TCACATAAGGGTTCACATACTAAA
Found at i:50129173 original size:18 final size:18
Alignment explanation
Indices: 50129123--50129165 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
50129113 TAAAAAATTC
*
50129123 AAAAATATATATAATCTATA
1 AAAAACATATA-AAT-TATA
50129143 AAAAACATATAAATTATA
1 AAAAACATATAAATTATA
50129161 AAAAA
1 AAAAA
50129166 ATGATAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAACATATAAATTATA
Found at i:50129314 original size:21 final size:23
Alignment explanation
Indices: 50129279--50129327 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
50129269 ACTAAAAATA
* *
50129279 TAAAAAAGTTGTAAATATAT-TT
1 TAAAAAAGTTATAAAAATATATT
50129301 TAAAAAA-TTATAAAAATATATT
1 TAAAAAAGTTATAAAAATATATT
50129323 TAAAA
1 TAAAA
50129328 TTTAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAAAAAGTTATAAAAATATATT
Found at i:50131185 original size:27 final size:26
Alignment explanation
Indices: 50131128--50131191 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
50131118 TATGTTTGAT
**
50131128 AAATAAAAATAGGAATTTATTTTCAA
1 AAATAAAAATAGGAAAATATTTTCAA
*
50131154 TAATAAAAATAGTGAAAATATTCTT-AA
1 AAATAAAAATAG-GAAAATATT-TTCAA
*
50131181 AAATACAAATA
1 AAATAAAAATA
50131192 AAAAATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 11 0.35
27 18 0.58
28 2 0.06
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (26 bp):
AAATAAAAATAGGAAAATATTTTCAA
Found at i:50132358 original size:12 final size:12
Alignment explanation
Indices: 50132341--50132366 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50132331 ATTTAAGTAA
50132341 TTTTATACTTTT
1 TTTTATACTTTT
50132353 TTTTATACTTTT
1 TTTTATACTTTT
50132365 TT
1 TT
50132367 ATGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATACTTTT
Found at i:50134632 original size:9 final size:9
Alignment explanation
Indices: 50134608--50134644 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50134598 TGAGTTTTCG
*
50134608 AATTCAAAT
1 AATTCGAAT
*
50134617 AACTCGAAT
1 AATTCGAAT
50134626 AATTCGAAT
1 AATTCGAAT
50134635 AATTCGAAT
1 AATTCGAAT
50134644 A
1 A
50134645 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50135679 original size:5 final size:5
Alignment explanation
Indices: 50135669--50135694 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50135659 CTCGAAAATT
50135669 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
50135695 CGAATTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:50136390 original size:186 final size:183
Alignment explanation
Indices: 50136069--50136433 Score: 570
Period size: 186 Copynumber: 2.0 Consensus size: 183
50136059 GGAATCACTG
* *
50136069 GAGAAACATGTCACCACAAAAAGGAACTCATCTTCTTGTTTCAATAAATGCTTTTGTCTCTTCAT
1 GAGAAACATGTCACCACAAAAAGAAACTCATCTTCTTGTTTCAATAAATGCTTTTGCCTCTTCAT
* * * *
50136134 ATTGTTGAGACTTACAAACCCACTCTATGTGCCTAATATTGCCACATTTTCTGCATTTGATATTA
66 ATTGTTGAGACTTA-AAACCCACTCTAAGTGCCCAATACTGCCACATTTTCTGCATTTGATATCA
*
50136199 GGCCTCCACTAACACTTCTTTGGCAAGTGATTTGTCTTCTTACAATATGGATACTA
130 GGCCTCCACCAACAC-T-TTTGGCAAGTGATTTGTCTTCTTACAATATGGATACTA
**
50136255 GAGAAACATGTTGCCACAAAAAGAAACTCATCTTCTTGTTGCTCAATAAATGCTTTTGCCTCTTC
1 GAGAAACATGTCACCACAAAAAGAAACTCATCTTCTTGTT--TCAATAAATGCTTTTGCCTCTTC
* *
50136320 ATGTTGTTGAGACTT-AGACCCACTCTAAGTGCCCAATACTGCCACATTTTCTGCATTTGATATC
64 ATATTGTTGAGACTTAAAACCCACTCTAAGTGCCCAATACTGCCACATTTTCTGCATTTGATATC
*
50136384 AGGCCTCCACCAACACTTTTGGCAAGTGATTTGTCTTCTTACAGTATGGA
129 AGGCCTCCACCAACACTTTTGGCAAGTGATTTGTCTTCTTACAATATGGA
50136434 CATGGTGGAT
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
184 32 0.19
185 1 0.01
186 96 0.58
188 36 0.22
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (183 bp):
GAGAAACATGTCACCACAAAAAGAAACTCATCTTCTTGTTTCAATAAATGCTTTTGCCTCTTCAT
ATTGTTGAGACTTAAAACCCACTCTAAGTGCCCAATACTGCCACATTTTCTGCATTTGATATCAG
GCCTCCACCAACACTTTTGGCAAGTGATTTGTCTTCTTACAATATGGATACTA
Found at i:50140941 original size:45 final size:45
Alignment explanation
Indices: 50140892--50140978 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
50140882 TAAATTATGC
50140892 TTTTAGTTATTAAATTTTAATTTCTTACAAAATAATTATTAAAAT
1 TTTTAGTTATTAAATTTTAATTTCTTACAAAATAATTATTAAAAT
* *
50140937 TTTTAGTTATTAAATTTTAATTTGTTACAAAATTATTATTAA
1 TTTTAGTTATTAAATTTTAATTTCTTACAAAATAATTATTAA
50140979 CATTGTTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (45 bp):
TTTTAGTTATTAAATTTTAATTTCTTACAAAATAATTATTAAAAT
Found at i:50141592 original size:20 final size:20
Alignment explanation
Indices: 50141558--50141599 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50141548 AACTATTTAA
** *
50141558 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
50141578 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50141598 AT
1 AT
50141600 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50142562 original size:12 final size:12
Alignment explanation
Indices: 50142545--50142569 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50142535 TTTTAAATTT
50142545 AAAAAAATTAAA
1 AAAAAAATTAAA
50142557 AAAAAAATTAAA
1 AAAAAAATTAAA
50142569 A
1 A
50142570 GTGTGTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:50142789 original size:25 final size:23
Alignment explanation
Indices: 50142761--50142811 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
50142751 TAATTTATTT
50142761 AAAATTATAAA-ATATAATTAAATAA
1 AAAATT-TAAAGATATAA--AAATAA
*
50142786 AAAATTTAAAGTTATAAAAATAA
1 AAAATTTAAAGATATAAAAATAA
50142809 AAA
1 AAA
50142812 GTTGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.38
24 4 0.17
25 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATTTAAAGATATAAAAATAA
Found at i:50145413 original size:31 final size:31
Alignment explanation
Indices: 50145375--50145437 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
50145365 TGATATAGGG
50145375 GAATGGAAAGAGGTTTTGTTGCGCTATCATT
1 GAATGGAAAGAGGTTTTGTTGCGCTATCATT
50145406 GAATGGAAAGAGGTTTTGTTGCGCTATCATT
1 GAATGGAAAGAGGTTTTGTTGCGCTATCATT
50145437 G
1 G
50145438 GACGATGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (31 bp):
GAATGGAAAGAGGTTTTGTTGCGCTATCATT
Found at i:50146894 original size:17 final size:17
Alignment explanation
Indices: 50146872--50146906 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50146862 CTGAGAAACC
50146872 TGAATCAACTTTAAGGT
1 TGAATCAACTTTAAGGT
50146889 TGAATCAACTTTAAGGT
1 TGAATCAACTTTAAGGT
50146906 T
1 T
50146907 TACCTTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (17 bp):
TGAATCAACTTTAAGGT
Found at i:50147446 original size:23 final size:23
Alignment explanation
Indices: 50147410--50147455 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50147400 GCAAAGGAAG
*
50147410 AAACTGACAAAAAAAATAGAGTT
1 AAACTAACAAAAAAAATAGAGTT
*
50147433 AAACTAACAGAAAAAATAGAGTT
1 AAACTAACAAAAAAAATAGAGTT
50147456 TCTCTTAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.13, T:0.17
Consensus pattern (23 bp):
AAACTAACAAAAAAAATAGAGTT
Found at i:50149368 original size:5 final size:5
Alignment explanation
Indices: 50149358--50149383 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50149348 GAGATGGAAT
50149358 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
50149384 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:50149785 original size:19 final size:19
Alignment explanation
Indices: 50149752--50149799 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
50149742 TAAACAATTC
50149752 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
50149769 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
50149788 AATAATATAAAT
1 AATAATATAAAT
50149800 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:50150065 original size:30 final size:31
Alignment explanation
Indices: 50150026--50150085 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
50150016 AGAGGTGAGA
*
50150026 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
50150057 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
50150086 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:50150308 original size:9 final size:9
Alignment explanation
Indices: 50150294--50150330 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50150284 TATAGTTTGA
50150294 TATTCGAAT
1 TATTCGAAT
50150303 TATTCGAAT
1 TATTCGAAT
*
50150312 TATTCGAGT
1 TATTCGAAT
50150321 TATTCGAAT
1 TATTCGAAT
50150330 T
1 T
50150331 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50150402 original size:9 final size:9
Alignment explanation
Indices: 50150385--50150415 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50150375 TCGAGTTGAT
50150385 TCGAATAAC
1 TCGAATAAC
*
50150394 TCGATTAAC
1 TCGAATAAC
50150403 TCGAATAAC
1 TCGAATAAC
50150412 TCGA
1 TCGA
50150416 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:50159771 original size:51 final size:51
Alignment explanation
Indices: 50159673--50159775 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
50159663 TTGATAGTTT
* * *
50159673 TAAAATTGACAAGTTATACCATAATTGTAATTTTGAAATGGTGTATATTTG
1 TAAAATTGACAAGTTATACCATAATTGTAATTATGAAATGATATATATTTG
* * * *
50159724 TAAATTTGATAAGTTATACCATATTTGTAATTATGAAATTATATATATTTG
1 TAAAATTGACAAGTTATACCATAATTGTAATTATGAAATGATATATATTTG
50159775 T
1 T
50159776 TGAAGAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.45
Consensus pattern (51 bp):
TAAAATTGACAAGTTATACCATAATTGTAATTATGAAATGATATATATTTG
Found at i:50182949 original size:16 final size:16
Alignment explanation
Indices: 50182928--50182958 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50182918 GATAATAAGT
50182928 AAACATAACATATATG
1 AAACATAACATATATG
*
50182944 AAACATATCATATAT
1 AAACATAACATATAT
50182959 TAAGAAATTA
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:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (16 bp):
AAACATAACATATATG
Found at i:50186901 original size:23 final size:23
Alignment explanation
Indices: 50186857--50186901 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50186847 AGGAACTAAA
* *
50186857 AAAAATAAAAGCAAAGCTAAAAT
1 AAAAATAAAAGCAAAACGAAAAT
50186880 AAAAATAAAA-CGAAAACGAAAA
1 AAAAATAAAAGC-AAAACGAAAA
50186902 AGAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (23 bp):
AAAAATAAAAGCAAAACGAAAAT
Found at i:50187053 original size:23 final size:22
Alignment explanation
Indices: 50187018--50187080 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
50187008 GCATAAGAAA
*
50187018 AATAAAACA-AATAATTAAATT
1 AATAAAAAATAATAATTAAATT
*
50187039 AGATAAAAAATAATAAATAAA-T
1 A-ATAAAAAATAATAATTAAATT
* *
50187061 AATAAATAATAA-AATAAAAT
1 AATAAAAAATAATAATTAAAT
50187081 AAAAAAGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.15
21 11 0.32
22 9 0.26
23 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
AATAAAAAATAATAATTAAATT
Found at i:50187067 original size:18 final size:18
Alignment explanation
Indices: 50187026--50187086 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 18
50187016 AAAATAAAAC
*
50187026 AAATAATTAAATTAGATAAA
1 AAATAA-TAAA-TAAATAAA
*
50187046 AAATAATAAATAAATAAT
1 AAATAATAAATAAATAAA
50187064 AAATAATAAAATAAAATAAA
1 AAATAAT-AAAT-AAATAAA
50187084 AAA
1 AAA
50187087 GGGTAAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 13 0.36
19 8 0.22
20 15 0.42
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
AAATAATAAATAAATAAA
Found at i:50202505 original size:36 final size:36
Alignment explanation
Indices: 50202465--50202535 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
50202455 ATAATTAAAC
50202465 ATGCATTAGGATCACTTAGCAAAATTTCTAAGACAT
1 ATGCATTAGGATCACTTAGCAAAATTTCTAAGACAT
50202501 ATGCATTAGGATCACTTAGCAAAATTTCTAAGACA
1 ATGCATTAGGATCACTTAGCAAAATTTCTAAGACA
50202536 ATCACGTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (36 bp):
ATGCATTAGGATCACTTAGCAAAATTTCTAAGACAT
Found at i:50203402 original size:39 final size:39
Alignment explanation
Indices: 50203352--50203455 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 39
50203342 CATATTCACT
* * *
50203352 TTTAAGCATATATCACATTACAT-ATATAATCACATAACA
1 TTTAAGAATATATCACAATAC-TCATATAATCACACAACA
50203391 TTTAAGAATATATCACAATACTCATATAATCACACAACA
1 TTTAAGAATATATCACAATACTCATATAATCACACAACA
* * * *
50203430 CTCAAGCATATATTACAATACTCATA
1 TTTAAGAATATATCACAATACTCATA
50203456 GCATGTTTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.02
39 56 0.98
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGAATATATCACAATACTCATATAATCACACAACA
Found at i:50213445 original size:29 final size:29
Alignment explanation
Indices: 50213400--50213455 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
50213390 ACAATCTAGA
* **
50213400 AACTGTAATCACCGGCACTTAGTGCCTGG
1 AACTGAAATCACCGGCACAAAGTGCCTGG
*
50213429 AACTGAAATCACTGGCACAAAGTGCCT
1 AACTGAAATCACCGGCACAAAGTGCCT
50213456 AGAATTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (29 bp):
AACTGAAATCACCGGCACAAAGTGCCTGG
Found at i:50215640 original size:30 final size:30
Alignment explanation
Indices: 50215604--50215664 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
50215594 TCAAAGTTAG
50215604 GACTTGAAGTATCATGTTCTGTTTAATGAA
1 GACTTGAAGTATCATGTTCTGTTTAATGAA
50215634 GACTTGAAGTATCATGTTCTGTTTAATGAA
1 GACTTGAAGTATCATGTTCTGTTTAATGAA
50215664 G
1 G
50215665 TTATTATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (30 bp):
GACTTGAAGTATCATGTTCTGTTTAATGAA
Found at i:50218450 original size:13 final size:12
Alignment explanation
Indices: 50218432--50218466 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
50218422 TAGAAGTTAA
50218432 TTGTTAGTTAGTT
1 TTGTTAGTTAG-T
50218445 TTGTTAAGTTAGT
1 TTGTT-AGTTAGT
50218458 TTGTTAGTT
1 TTGTTAGTT
50218467 TTGTAACCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 11 0.52
14 6 0.29
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (12 bp):
TTGTTAGTTAGT
Found at i:50219998 original size:4 final size:4
Alignment explanation
Indices: 50219989--50220022 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
50219979 ACAAAACATG
*
50219989 GATA GATA GATA GATA AATA GATA GATA GATA GA
1 GATA GATA GATA GATA GATA GATA GATA GATA GA
50220023 CTCCAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
GATA
Found at i:50231531 original size:27 final size:27
Alignment explanation
Indices: 50231501--50231566 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
50231491 TTTAACATTG
*
50231501 GACCCACGTGATGGATGTTGAATATGC
1 GACCCATGTGATGGATGTTGAATATGC
*
50231528 GACCCATGTGATTGATGTTGAATATGC
1 GACCCATGTGATGGATGTTGAATATGC
*
50231555 GGCCCATGTGAT
1 GACCCATGTGAT
50231567 ACACAATGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (27 bp):
GACCCATGTGATGGATGTTGAATATGC
Found at i:50243651 original size:17 final size:17
Alignment explanation
Indices: 50243631--50243663 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50243621 TTAATTTAAC
50243631 TAATTTAATTTCTCAAT
1 TAATTTAATTTCTCAAT
*
50243648 TAATTTATTTTCTCAA
1 TAATTTAATTTCTCAA
50243664 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTAATTTCTCAAT
Found at i:50244600 original size:19 final size:20
Alignment explanation
Indices: 50244578--50244616 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50244568 AATAGTAAAC
50244578 ATTT-ATTTTCTAAGTATAA
1 ATTTCATTTTCTAAGTATAA
*
50244597 ATTTCATTTTCTAGGTATAA
1 ATTTCATTTTCTAAGTATAA
50244617 CAATTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTTCATTTTCTAAGTATAA
Found at i:50245107 original size:31 final size:31
Alignment explanation
Indices: 50245072--50245130 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
50245062 GCCACTAAAT
* *
50245072 TTTTAGATAATTTTTATTTTGGTCACTCATG
1 TTTTAGATAATTTCTATTTGGGTCACTCATG
*
50245103 TTTTAGATCATTTCTATTTGGGTCACTC
1 TTTTAGATAATTTCTATTTGGGTCACTC
50245131 TCCATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (31 bp):
TTTTAGATAATTTCTATTTGGGTCACTCATG
Found at i:50246968 original size:21 final size:20
Alignment explanation
Indices: 50246939--50246977 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
50246929 ACATTTAGTG
*
50246939 AAAAAATATATGCAACAATT
1 AAAAAATATATACAACAATT
50246959 AAAAATATATATACAACAA
1 AAAAA-ATATATACAACAA
50246978 AGAAATCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAAATATATACAACAATT
Found at i:50247410 original size:15 final size:14
Alignment explanation
Indices: 50247390--50247445 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
50247380 TTTTTGAAAA
50247390 TTATTTATATTATTT
1 TTATTT-TATTATTT
*
50247405 TTATTTTAATATTT
1 TTATTTTATTATTT
*
50247419 AATAATTTTATATATTT
1 --TTATTTTAT-TATTT
50247436 TTA-TTTATTA
1 TTATTTTATTA
50247446 AAATATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.06
14 12 0.35
15 8 0.24
16 7 0.21
17 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTTATTATTT
Found at i:50248506 original size:39 final size:39
Alignment explanation
Indices: 50248416--50248525 Score: 96
Period size: 39 Copynumber: 2.8 Consensus size: 39
50248406 GTTTGGACAT
* *
50248416 AAAACGCCGCTAAAAATT-GAGCATTAGCGGCGCTCTTAGG
1 AAAACGCCGCT--AAATTAGAGCATTAGCGGCACTCTTAGA
** * **
50248456 AAAACATCGCTAAATTAGAGCATTAGCGGCACTTTTTTA
1 AAAACGCCGCTAAATTAGAGCATTAGCGGCACTCTTAGA
* * *
50248495 AAAACGCCGCTACAAATAGAGGATAAGCGGC
1 AAAACGCCGCTA-AATTAGAGCATTAGCGGC
50248526 GTTTTTCAGG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
38 5 0.09
39 27 0.48
40 24 0.43
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAATTAGAGCATTAGCGGCACTCTTAGA
Found at i:50249138 original size:22 final size:22
Alignment explanation
Indices: 50249068--50249166 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
50249058 TAGGGTTTTT
* *
50249068 AGTTTAAGGTATATGGTTTA-G
1 AGTTTAAGGTTTATGGATTATG
**
50249089 AGTTTAAGGTTTA-GGTATTACC
1 AGTTTAAGGTTTATGG-ATTATG
*
50249111 ATTTTAAGGTTTATGGATTATG
1 AGTTTAAGGTTTATGGATTATG
* * * *
50249133 GGTTTATGGGTTATGGTTTATG
1 AGTTTAAGGTTTATGGATTATG
*
50249155 -GTTTATGGTTTA
1 AGTTTAAGGTTTA
50249167 AAGGCTGCGG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.03
21 26 0.41
22 33 0.52
23 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.47
Consensus pattern (22 bp):
AGTTTAAGGTTTATGGATTATG
Found at i:50249152 original size:14 final size:14
Alignment explanation
Indices: 50249118--50249166 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
50249108 ACCATTTTAA
50249118 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
50249132 GGGTTTATGGGTTAT
1 -GGTTTATGGATTAT
*
50249147 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
50249161 GGTTTA
1 GGTTTA
50249167 AAGGCTGCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:50249239 original size:20 final size:21
Alignment explanation
Indices: 50249204--50249245 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
50249194 ATGTGTTAAG
*
50249204 GGTTTATGGTTTTAGGGTTTA
1 GGTTTATAGTTTTAGGGTTTA
50249225 GGTTTATAG-TTTAGGGTTTA
1 GGTTTATAGTTTTAGGGTTTA
50249245 G
1 G
50249246 ATTAACTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (21 bp):
GGTTTATAGTTTTAGGGTTTA
Found at i:50249311 original size:7 final size:7
Alignment explanation
Indices: 50249290--50249419 Score: 59
Period size: 7 Copynumber: 18.4 Consensus size: 7
50249280 TTAATTATCA
*
50249290 TTATAGT
1 TTATGGT
*
50249297 TTAGGGT
1 TTATGGT
50249304 TTATGGT
1 TTATGGT
*
50249311 TTAGGGT
1 TTATGGT
* *
50249318 ATATGAT
1 TTATGGT
*
50249325 TTAGGGT
1 TTATGGT
*
50249332 TTAAGGT
1 TTATGGT
*
50249339 TTA-GGAG
1 TTATGG-T
**
50249346 TTATTAT
1 TTATGGT
*
50249353 CTTAAGG-
1 -TTATGGT
*
50249360 TTATGGA
1 TTATGGT
*
50249367 TTATGGA
1 TTATGGT
50249374 TTATGGGT
1 TTAT-GGT
*
50249382 TTA-GAGA
1 TTATG-GT
50249389 TTATGGT
1 TTATGGT
50249396 TTATGGT
1 TTATGGT
*
50249403 TTAAGGT
1 TTATGGT
*
50249410 TTAAGGT
1 TTATGGT
50249417 TTA
1 TTA
50249420 GGGGTTAAGG
Statistics
Matches: 93, Mismatches: 23, Indels: 14
0.72 0.18 0.11
Matches are distributed among these distances:
6 8 0.09
7 76 0.82
8 9 0.10
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:50249312 original size:14 final size:14
Alignment explanation
Indices: 50249290--50249419 Score: 84
Period size: 14 Copynumber: 9.2 Consensus size: 14
50249280 TTAATTATCA
*
50249290 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
50249304 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
50249318 ATATGATTTAGGGT
1 TTATGGTTTAGGGT
*
50249332 TTAAGGTTTAGGAG-
1 TTATGGTTTAGG-GT
** *
50249346 TTATTATCTTAAGG-
1 TTATGGT-TTAGGGT
* * *
50249360 TTATGGATTATGGA
1 TTATGGTTTAGGGT
* *
50249374 TTATGGGTTTAGAGA
1 TTAT-GGTTTAGGGT
*
50249389 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
50249403 TTAAGGTTTAAGGT
1 TTATGGTTTAGGGT
50249417 TTA
1 TTA
50249420 GGGGTTAAGG
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
13 5 0.06
14 69 0.77
15 16 0.18
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:50249391 original size:22 final size:21
Alignment explanation
Indices: 50249365--50249405 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
50249355 TAAGGTTATG
50249365 GATTATGGATTATGGGTTTAGA
1 GATTATGGATTAT-GGTTTAGA
*
50249387 GATTATGGTTTATGGTTTA
1 GATTATGGATTATGGTTTA
50249406 AGGTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
GATTATGGATTATGGTTTAGA
Found at i:50249453 original size:7 final size:7
Alignment explanation
Indices: 50249378--50249498 Score: 59
Period size: 7 Copynumber: 17.1 Consensus size: 7
50249368 TATGGATTAT
50249378 GGGTTTA
1 GGGTTTA
* *
50249385 GAGATTA
1 GGGTTTA
*
50249392 TGGTTTA
1 GGGTTTA
*
50249399 TGGTTTA
1 GGGTTTA
*
50249406 AGGTTTA
1 GGGTTTA
*
50249413 AGGTTTA
1 GGGTTTA
*
50249420 GGGGTTAA
1 -GGGTTTA
*
50249428 GGG-CTA
1 GGGTTTA
*
50249434 GGG-CTA
1 GGGTTTA
50249440 GGGGTTTA
1 -GGGTTTA
50249448 GGGTTTA
1 GGGTTTA
* *
50249455 TGTTTTA
1 GGGTTTA
* *
50249462 TGATTTA
1 GGGTTTA
50249469 GGGTTTAA
1 GGGTTT-A
*
50249477 GGG-ATA
1 GGGTTTA
50249483 TGGGTTTA
1 -GGGTTTA
50249491 GGGTTTA
1 GGGTTTA
50249498 G
1 G
50249499 ATTAATTAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
6 8 0.09
7 69 0.77
8 13 0.14
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:50249633 original size:2 final size:2
Alignment explanation
Indices: 50249626--50249650 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50249616 AGATAAACTT
50249626 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50249651 TAAATGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50252857 original size:43 final size:42
Alignment explanation
Indices: 50252772--50252859 Score: 113
Period size: 43 Copynumber: 2.1 Consensus size: 42
50252762 CTTTGAGTTC
* * * *
50252772 ATTACAAGATTTCCTTGATTAAGTAGATGTATTATATCTTTT
1 ATTACAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
50252814 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTA-CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
50252857 ATT
1 ATT
50252860 TAGGGGTGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 4 0.10
43 35 0.90
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:50252886 original size:5 final size:5
Alignment explanation
Indices: 50252876--50252901 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50252866 TGAGCATTCG
50252876 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
50252902 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:50253390 original size:17 final size:17
Alignment explanation
Indices: 50253348--50253394 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
50253338 AATTCAATTT
50253348 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
50253364 T-ATGACTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
50253382 TAATATAAATAAT
1 TAATATAAATAAT
50253395 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:50253787 original size:9 final size:9
Alignment explanation
Indices: 50253773--50253804 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
50253763 NNNNNNNNNN
50253773 GAATTATTC
1 GAATTATTC
50253782 GAATTATTC
1 GAATTATTC
*
50253791 GAGTTATTC
1 GAATTATTC
50253800 GAATT
1 GAATT
50253805 CGAAAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (9 bp):
GAATTATTC
Found at i:50253874 original size:9 final size:9
Alignment explanation
Indices: 50253857--50253887 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50253847 TCGAGTTGAT
50253857 TCGAATAAC
1 TCGAATAAC
*
50253866 TCGATTAAC
1 TCGAATAAC
50253875 TCGAATAAC
1 TCGAATAAC
50253884 TCGA
1 TCGA
50253888 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:50254349 original size:43 final size:43
Alignment explanation
Indices: 50254243--50254403 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
50254233 TTTTTAGCAA
* * * * * *
50254243 CGTTTGTGTAAAAAGCGCCTCTAAAGGTTA-GTTCTATAGCAG
1 CGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATCTATAGCGG
* * *
50254285 CGTTTGTACGAAAAAGTGCCGCTAAAAGTGATGATCTATAGCGG
1 CGTTTGT-GGAAAAAGCGCCGCTAAAAGTCATGATCTATAGCGG
*
50254329 CGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATTA-CGG
1 CGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATCTA-TAGCGG
* * * *
50254372 CGTTTCT-GTAAAAGCACCGCTAAAGGTCATGA
1 CGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGA
50254404 CTTTTAGTGG
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.29
43 52 0.52
44 19 0.19
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
CGTTTGTGGAAAAAGCGCCGCTAAAAGTCATGATCTATAGCGG
Found at i:50254653 original size:18 final size:18
Alignment explanation
Indices: 50254613--50254653 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
50254603 TTAATCTTTG
50254613 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
50254630 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
50254649 -TTTAT
1 ATTTAT
50254654 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:50255095 original size:19 final size:17
Alignment explanation
Indices: 50255048--50255100 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
50255038 TCCGGGTAGT
50255048 AGAAGAACAAGAGAAAA
1 AGAAGAACAAGAGAAAA
*
50255065 AGAAGAATAAGAGAAGAA
1 AGAAGAACAAGAGAA-AA
* *
50255083 ATGGAGAAGAAGAGAAAA
1 A-GAAGAACAAGAGAAAA
50255101 TGGAAGGAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 14 0.45
18 5 0.16
19 12 0.39
ACGTcount: A:0.66, C:0.02, G:0.28, T:0.04
Consensus pattern (17 bp):
AGAAGAACAAGAGAAAA
Found at i:50256099 original size:14 final size:14
Alignment explanation
Indices: 50256080--50256128 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
50256070 CTCCTCCATT
50256080 TTCTTTTCTTCTTC
1 TTCTTTTCTTCTTC
50256094 TTCTTTTTCTCCTCTTC
1 TTC-TTTTCT--TCTTC
*
50256111 TTCTTTTATTCTTC
1 TTCTTTTCTTCTTC
50256125 TTCT
1 TTCT
50256129 CCTATTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 12 0.39
15 6 0.19
16 5 0.16
17 8 0.26
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTTCTTCTTC
Found at i:50256126 original size:17 final size:16
Alignment explanation
Indices: 50256083--50256128 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
50256073 CTCCATTTTC
50256083 TTTTCTTCTTCTTCTT
1 TTTTCTTCTTCTTCTT
*
50256099 TTTCTCCTCTTCTTCTT
1 TTT-TCTTCTTCTTCTT
50256116 TTATTCTTCTTCT
1 TT-TTCTTCTTCT
50256129 CCTATTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 3 0.12
17 22 0.85
18 1 0.04
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTTCTT
Found at i:50256134 original size:14 final size:14
Alignment explanation
Indices: 50256094--50256139 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
50256084 TTTCTTCTTC
* *
50256094 TTCTTTTTCTCCTC
1 TTCTTCTTCTCCTA
50256108 TTCTTCTT-T--TA
1 TTCTTCTTCTCCTA
50256119 TTCTTCTTCTCCTA
1 TTCTTCTTCTCCTA
50256133 TTCTTCT
1 TTCTTCT
50256140 ATTTACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 9 0.33
12 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTTCTTCTCCTA
Done.