Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 105 of 132
Found at i:32066241 original size:23 final size:21
Alignment explanation
Indices: 32066182--32066244 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
32066172 AAAATCATTT
*
32066182 TTTAAATACTATTATTTTTTAA
1 TTTAAA-AATATTATTTTTTAA
* *
32066204 TATAAAAATACTATTATTTTAAA
1 TTTAAAAATATTATT-TTTT-AA
*
32066227 TTTAAAAGTATTATTTTT
1 TTTAAAAATATTATTTTT
32066245 ATTTATTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 7 0.21
22 12 0.36
23 14 0.42
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTAAAAATATTATTTTTTAA
Found at i:32070899 original size:9 final size:9
Alignment explanation
Indices: 32070887--32070934 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
32070877 TTTTTACAAA
*
32070887 TTTTAATAG
1 TTTTAATAT
*
32070896 TTTTAATAA
1 TTTTAATAT
*
32070905 TTTAAATAT
1 TTTTAATAT
32070914 TTTTATATAAT
1 TTTTA-AT-AT
32070925 TTTTAATAT
1 TTTTAATAT
32070934 T
1 T
32070935 GTTTTGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 22 0.67
10 4 0.12
11 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTAATAT
Found at i:32070899 original size:18 final size:18
Alignment explanation
Indices: 32070885--32070932 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32070875 TTTTTTTACA
32070885 AATTTTAATAGTTTTAAT
1 AATTTTAATAGTTTTAAT
* *
32070903 AATTTAAATATTTTTATAT
1 AATTTTAATAGTTTTA-AT
32070922 AATTTTTAATA
1 AA-TTTTAATA
32070933 TTGTTTTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
20 7 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTTAATAGTTTTAAT
Found at i:32072178 original size:2 final size:2
Alignment explanation
Indices: 32072173--32072216 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
32072163 GGTTTTTTTT
32072173 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
32072215 TG
1 TG
32072217 AAAGATGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:32074182 original size:17 final size:18
Alignment explanation
Indices: 32074160--32074194 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32074150 TTGTAATTCA
32074160 AAAAAAATCTT-AAAAAT
1 AAAAAAATCTTCAAAAAT
*
32074177 AAAAAAATTTTCAAAAAT
1 AAAAAAATCTTCAAAAAT
32074195 CTAAAAGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAATCTTCAAAAAT
Found at i:32076063 original size:17 final size:18
Alignment explanation
Indices: 32076035--32076112 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 18
32076025 CTTAAATAAG
32076035 TTTTATTAATTTTATATT
1 TTTTATTAATTTTATATT
* *
32076053 TTTTATTATTTATTACA-T
1 TTTTATTAATT-TTATATT
*
32076071 TTTTA-TAATATTTATAAGT
1 TTTTATTAAT-TTTAT-ATT
*
32076090 TTATATTAATTTTAATATT
1 TTTTATTAATTTT-ATATT
32076109 TTTT
1 TTTT
32076113 TATGTTTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.13
18 18 0.38
19 17 0.36
20 6 0.13
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTTTATTAATTTTATATT
Found at i:32081450 original size:28 final size:29
Alignment explanation
Indices: 32081418--32081480 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
32081408 AAAATGGTCG
* * *
32081418 AAAATGAAGTTTCAGAGAGTTT-GGGGTT
1 AAAATGAACTTTCAGAAAGTTTAGGGGTA
* *
32081446 AAAATGTACTTTTAGAAAGTTTAGGGGTA
1 AAAATGAACTTTCAGAAAGTTTAGGGGTA
32081475 AAAATG
1 AAAATG
32081481 TAATTTTGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (29 bp):
AAAATGAACTTTCAGAAAGTTTAGGGGTA
Found at i:32081479 original size:29 final size:29
Alignment explanation
Indices: 32081418--32081848 Score: 222
Period size: 29 Copynumber: 14.8 Consensus size: 29
32081408 AAAATGGTCG
* * *
32081418 AAAATG-AAGTTTCAGAGAGTTT-GGGGTT
1 AAAATGTAA-TTTTAGAAAGTTTAGGGGTA
*
32081446 AAAATGTACTTTTAGAAAGTTTAGGGGTA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* * *
32081475 AAAATGTAATTTTGGAAA-TGCTCGGGGTTA
1 AAAATGTAATTTTAGAAAGT-TTAGGGG-TA
* * * *
32081505 AAAATGTGATTTTA-AAAGTTCAAGGGAA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* * * *
32081533 AAAATGTAATTTTTGGAAG-TTCGAGGGTG
1 AAAATGTAATTTTAGAAAGTTTAG-GGGTA
* * *
32081562 AAAATATCATTTTTGAGAAA--TTCGGGGTA
1 AAAATGT-AATTTT-AGAAAGTTTAGGGGTA
* * *
32081591 AAAATGTGATTTTTGGAAGTTT-GGGGATA
1 AAAATGTAATTTTAGAAAGTTTAGGGG-TA
* *
32081620 AAAATGTAATTTTTAG-AAGTTAAAGGGTA
1 AAAATGTAA-TTTTAGAAAGTTTAGGGGTA
* * *
32081649 AAAATATAATTTTTGAGAAGTTGAGGGGGT-
1 AAAATGTAATTTTAGA-AAGTTTA-GGGGTA
* * * **
32081679 AAAATGTGATTTTTGGAAGTTCGGGGGTA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* **
32081708 AAAATGTGATTTTTTAAAGTTT-GGGGTA
1 AAAATGTAATTTTAGAAAGTTTAGGGGTA
* * * *
32081736 AAAGTTGTAATTTTAGAAAATTTTA-GAGTT
1 AAA-ATGTAATTTTAG-AAAGTTTAGGGGTA
* * *
32081766 AAAATGTAATTTTGAAAAAGTTTACGGGTT
1 AAAATGTAATTTT-AGAAAGTTTAGGGGTA
* *
32081796 AAAATGTAATTTTGGAAAAGTTT-GGGGTT
1 AAAATGTAATTTTAG-AAAGTTTAGGGGTA
* * *
32081825 AAAATATAGTTTTTGGAAAGTTTA
1 AAAATGTA-ATTTTAGAAAGTTTA
32081849 AGGACCTTTT
Statistics
Matches: 312, Mismatches: 65, Indels: 50
0.73 0.15 0.12
Matches are distributed among these distances:
27 3 0.01
28 59 0.19
29 149 0.48
30 94 0.30
31 7 0.02
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAGTTTAGGGGTA
Found at i:32081749 original size:88 final size:89
Alignment explanation
Indices: 32081446--32081721 Score: 280
Period size: 87 Copynumber: 3.2 Consensus size: 89
32081436 GTTTGGGGTT
* * * * * * * *
32081446 AAAATGT-ACTTTTAGAAAGTTTAGGGGTAAAAATGTAATTTTGGA-AATGCT-CGGGGTTAAAA
1 AAAATGTAATTTTTAG-AAGTTAAAGGGTAAAAATATAATTTTTGAGAA-GTTGAGGGGGTAAAA
** *
32081508 ATGTGA-TTTTAAAAGTTCAAGGGA-A
64 ATGTGATTTTTGGAAGTTC-GGGGATA
* ** * * * *
32081533 AAAATGTAATTTTTGGAAGTTCGAGGGTGAAAATATCATTTTTGAGAAATT--CGGGGTAAAAAT
1 AAAATGTAATTTTTAGAAGTTAAAGGGTAAAAATATAATTTTTGAGAAGTTGAGGGGGTAAAAAT
*
32081596 GTGATTTTTGGAAGTTTGGGGATA
66 GTGATTTTTGGAAGTTCGGGGATA
32081620 AAAATGTAATTTTTAGAAGTTAAAGGGTAAAAATATAATTTTTGAGAAGTTGAGGGGGT-AAAAT
1 AAAATGTAATTTTTAGAAGTTAAAGGGTAAAAATATAATTTTTGAGAAGTTGAGGGGGTAAAAAT
*
32081684 GTGATTTTTGGAAGTTCGGGGGTA
66 GTGATTTTTGGAAGTTCGGGGATA
*
32081708 AAAATGTGATTTTT
1 AAAATGTAATTTTT
32081722 TAAAGTTTGG
Statistics
Matches: 156, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
86 18 0.12
87 85 0.54
88 48 0.31
89 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.35
Consensus pattern (89 bp):
AAAATGTAATTTTTAGAAGTTAAAGGGTAAAAATATAATTTTTGAGAAGTTGAGGGGGTAAAAAT
GTGATTTTTGGAAGTTCGGGGATA
Found at i:32081770 original size:117 final size:115
Alignment explanation
Indices: 32081440--32081813 Score: 321
Period size: 117 Copynumber: 3.2 Consensus size: 115
32081430 CAGAGAGTTT
* * * * * * * * *
32081440 GGGGTTAAAATGTACTTTTAGAAAGTTTAGGGGTAAAAATGTAATTTTGGAAATGCTCGGGGTTA
1 GGGGGTAAAATGTATTTTTGGAAA--TTCGGGGTAAAAATGTGATTTTTGAAA-GTTTGGGGATA
* * * *
32081505 AAAATGTGA-TTTTA-AAAGTTCAAGGGAAAAAATGTAATTTTTG-GAAGTTCGA
63 AAAATGTAATTTTTAGAAA-TTAAAGAGTAAAAATGTAATTTTTGAGAAGTT-GA
* * *
32081557 GGGTG-AAAATATCATTTTTGAGAAATTCGGGGTAAAAATGTGATTTTTGGAAGTTTGGGGATAA
1 GGGGGTAAAATGT-ATTTTTG-GAAATTCGGGGTAAAAATGTGATTTTTGAAAGTTTGGGGATAA
* * *
32081621 AAATGTAATTTTTAGAAGTTAAAGGGTAAAAATATAATTTTTGAGAAGTTGA
64 AAATGTAATTTTTAGAAATTAAAGAGTAAAAATGTAATTTTTGAGAAGTTGA
* *
32081673 GGGGGTAAAATGTGATTTTTGGAAGTTCGGGGGTAAAAATGTGATTTTTTAAAGTTTGGGG-TAA
1 GGGGGTAAAATGT-ATTTTTGGAAATTC-GGGGTAAAAATGTGATTTTTGAAAGTTTGGGGATAA
* ** * * *
32081737 AAGTTGTAA-TTTTAGAAAATTTTAGAGTTAAAATGTAA-TTTTGAAAAAGTTTA
64 AA-ATGTAATTTTTAG-AAATTAAAGAGTAAAAATGTAATTTTTG-AGAAGTTGA
* * *
32081790 CGGGTTAAAATGTAATTTTGGAAA
1 GGGGGTAAAATGTATTTTTGGAAA
32081814 AGTTTGGGGT
Statistics
Matches: 211, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
115 16 0.08
116 93 0.44
117 98 0.46
118 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (115 bp):
GGGGGTAAAATGTATTTTTGGAAATTCGGGGTAAAAATGTGATTTTTGAAAGTTTGGGGATAAAA
ATGTAATTTTTAGAAATTAAAGAGTAAAAATGTAATTTTTGAGAAGTTGA
Found at i:32081797 original size:30 final size:29
Alignment explanation
Indices: 32081723--32081829 Score: 119
Period size: 30 Copynumber: 3.6 Consensus size: 29
32081713 GTGATTTTTT
*
32081723 AAAGTTT-GGGGTAAAAGTTGTAATTTT-AGA
1 AAAGTTTAGGGTTAAAA--TGTAATTTTGA-A
* *
32081753 AAATTTTAGAGTTAAAATGTAATTTTGAA
1 AAAGTTTAGGGTTAAAATGTAATTTTGAA
*
32081782 AAAGTTTACGGGTTAAAATGTAATTTTGGA
1 AAAGTTTA-GGGTTAAAATGTAATTTTGAA
*
32081812 AAAGTTTGGGGTTAAAAT
1 AAAGTTTAGGGTTAAAAT
32081830 ATAGTTTTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
29 27 0.40
30 33 0.49
31 7 0.10
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.37
Consensus pattern (29 bp):
AAAGTTTAGGGTTAAAATGTAATTTTGAA
Found at i:32084049 original size:50 final size:50
Alignment explanation
Indices: 32083988--32084554 Score: 341
Period size: 50 Copynumber: 11.4 Consensus size: 50
32083978 CTAGGTCCGT
* **
32083988 CGTTGCGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACTGGATTTGC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
* * * * ** * * *
32084038 CGTCGCTGCCTCAACCATTCCCTTCATTTCTTC-ACGGTATTGGGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
* * * * *
32084087 CGTTACGGCCGT-AACATTTCCCATCACATTTTCTAAGGTACCGGGTTCAC
1 CGTTGCGGCC-TCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
* * * * *
32084137 CGTTGCTGCCTCAACCTTTCCCTTTACATCTTTTAAGGTA-TCGGGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACT-GGATTCAC
* * * *
32084187 CGTTGCGGCCTCAACCTTTCCCATCATATCTTTTAAGGTACCGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
* * * * * * * *
32084237 CATCGAGACCTCAATCATTT-CCTTCAAATCTTC-ATGGTACTAGG-TTCAC
1 CGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACT-GGATTCAC
* * *
32084286 CGTTACGGCCTCAACTTTTCCCATCACATCTTCTAAGGTA-TCGGATTTAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACT-GGATTCAC
* ** * * * * * *
32084336 TGTCACGGCCTCAATCC-TTCCCTTCAAATCTT-GATGGTACTGGGTTCGC
1 CGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
* * * * ** * ** * *
32084385 CATTGTGGACTTAATTTTTCCCTTCGTATCTTTTATGGTA-TCGGATTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACT-GGATTCAC
* * * * * * **
32084435 TGTTGCGGACTCAATCC-TTCCCTTCAAATCTTC-ATGGTA-TCGAATTTGC
1 CGTTGCGGCCTCAA-CCTTTCCCATCACATCTTCTAAGGTACT-GGATTCAC
* * **
32084484 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGT
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
32084534 CGTTGCGGCCTCAACCTTTCC
1 CGTTGCGGCCTCAACCTTTCC
32084555 TTTCATATCT
Statistics
Matches: 393, Mismatches: 105, Indels: 38
0.73 0.20 0.07
Matches are distributed among these distances:
48 6 0.02
49 137 0.35
50 245 0.62
51 5 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (50 bp):
CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACTGGATTCAC
Found at i:32084145 original size:99 final size:98
Alignment explanation
Indices: 32083988--32084596 Score: 509
Period size: 99 Copynumber: 6.1 Consensus size: 98
32083978 CTAGGTCCGT
* * ** *
32083988 CGTTGCGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACTGGATTTGCCGTCGCTGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAAC
** *
32084053 CATTCCCTTCATTTCTTCACGGTATTGGGTTCAC
66 C-TTCCCTTCAAATCTTCATGGTATTGGGTTCAC
* * * * * *
32084087 CGTTACGGCCGT-AACATTTCCCATCACATTTTCTAAGGTACCGGGTTCACCGTTGCTGCCTCAA
1 CGTTGCGGCC-TCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAA
* * * * *
32084151 CCTTTCCCTTTACATCTTTTAAGGTATCGGGTTCAC
65 CC-TTCCCTTCAAATC-TTCATGGTATTGGGTTCAC
* * * * * *
32084187 CGTTGCGGCCTCAACCTTTCCCATCATATCTTTTAAGGTACCGGATTCGCCATCGAGACCTCAAT
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAA-
* * * *
32084252 CATTTCCTTCAAATCTTCATGGTACTAGGTTCAC
65 CCTTCCCTTCAAATCTTCATGGTATTGGGTTCAC
* * * * * *
32084286 CGTTACGGCCTCAACTTTTCCCATCACATCTTCTAAGGTATCGGATTTACTGTCACGGCCTCAAT
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAA-
* * *
32084351 CCTTCCCTTCAAATCTTGATGGTACTGGGTTCGC
65 CCTTCCCTTCAAATCTTCATGGTATTGGGTTCAC
* * * * ** * ** * * * * * *
32084385 CATTGTGGACTTAATTTTTCCCTTCGTATCTTTTATGGTATCGGATTCACTGTTGCGGACTCAAT
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAA-
* ** **
32084450 CCTTCCCTTCAAATCTTCATGGTATCGAATTTGC
65 CCTTCCCTTCAAATCTTCATGGTATTGGGTTCAC
* ** *
32084484 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGTCGTTGCGGCCTCAAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAAC
* * * * * * *
32084549 CTTTCCTTTCATATCTCCAGGGTATTAGATTTAC
66 C-TTCCCTTCAAATCTTCATGGTATTGGGTTCAC
*
32084583 TGTTGCGGCCTCAA
1 CGTTGCGGCCTCAA
32084597 TCTTCCATGT
Statistics
Matches: 404, Mismatches: 101, Indels: 10
0.78 0.20 0.02
Matches are distributed among these distances:
98 2 0.00
99 324 0.80
100 77 0.19
101 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.35
Consensus pattern (98 bp):
CGTTGCGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGATTCACCGTCGCGGCCTCAAC
CTTCCCTTCAAATCTTCATGGTATTGGGTTCAC
Found at i:32085712 original size:23 final size:23
Alignment explanation
Indices: 32085686--32085750 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
32085676 TTTGTTTATT
* *
32085686 AGCTCATTTATTATCTCGTATAA
1 AGCTCATTTATAAGCTCGTATAA
*
32085709 AGCTCATTTATAAGCTCGTTTAA
1 AGCTCATTTATAAGCTCGTATAA
* *
32085732 AGCCCGTTTATAAGCTCGT
1 AGCTCATTTATAAGCTCGT
32085751 TTATTAGACC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (23 bp):
AGCTCATTTATAAGCTCGTATAA
Found at i:32085739 original size:11 final size:12
Alignment explanation
Indices: 32085662--32085754 Score: 84
Period size: 12 Copynumber: 8.0 Consensus size: 12
32085652 GTTCACGAAC
32085662 AAGCTCGTTTAT
1 AAGCTCGTTTAT
* *
32085674 -AGTTTGTTTAT
1 AAGCTCGTTTAT
* *
32085685 TAGCTCATTTAT
1 AAGCTCGTTTAT
* * *
32085697 TATCTCGTATA-
1 AAGCTCGTTTAT
*
32085708 AAGCTCATTTAT
1 AAGCTCGTTTAT
32085720 AAGCTCGTTTA-
1 AAGCTCGTTTAT
*
32085731 AAGCCCGTTTAT
1 AAGCTCGTTTAT
32085743 AAGCTCGTTTAT
1 AAGCTCGTTTAT
32085755 TAGACCCATC
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
11 26 0.41
12 37 0.59
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:32088827 original size:20 final size:17
Alignment explanation
Indices: 32088791--32088829 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
32088781 TCTAGTTTTA
32088791 TTTCATTATTTTTTAAT
1 TTTCATTATTTTTTAAT
32088808 TTTCATTTATGTTATTTAAT
1 TTTCA-TTAT-TT-TTTAAT
32088828 TT
1 TT
32088830 CATACATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 2 0.11
20 8 0.42
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCATTATTTTTTAAT
Found at i:32090002 original size:23 final size:24
Alignment explanation
Indices: 32089945--32090004 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
32089935 AGATAGTTAA
*
32089945 CATAAACGAACATGTTCGCGAACG
1 CATAAATGAACATGTTCGCGAACG
*
32089969 CAAAAATGAACATGTTCGCGAACG
1 CATAAATGAACATGTTCGCGAACG
*
32089993 -TTAAATGAACAT
1 CATAAATGAACAT
32090005 TAAACGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (24 bp):
CATAAATGAACATGTTCGCGAACG
Found at i:32090036 original size:24 final size:23
Alignment explanation
Indices: 32089997--32090060 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 23
32089987 CGAACGTTAA
32089997 ATGAACATTAAACGAACATGTTC
1 ATGAACATTAAACGAACATGTTC
32090020 ATGAACATATAAACGAACATGTTC
1 ATGAACAT-TAAACGAACATGTTC
* *
32090044 ACGAACGTTAAACGAAC
1 ATGAACATTAAACGAAC
32090061 GAGCACGAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 17 0.45
24 21 0.55
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (23 bp):
ATGAACATTAAACGAACATGTTC
Found at i:32090038 original size:58 final size:57
Alignment explanation
Indices: 32089943--32090060 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 57
32089933 TTAGATAGTT
* * * * *
32089943 AACATAAACGAACATGTTCGCGAACGCAAAAATGAACATGTTCGCGAACGTTAAATG
1 AACATAAACGAACATGTTCACGAACACAAAAACGAACATGTTCACGAACGTTAAACG
* * *
32090000 AACATTAAACGAACATGTTCATGAACATATAAACGAACATGTTCACGAACGTTAAACG
1 AACA-TAAACGAACATGTTCACGAACACAAAAACGAACATGTTCACGAACGTTAAACG
32090058 AAC
1 AAC
32090061 GAGCACGAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 4 0.08
58 48 0.92
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.20
Consensus pattern (57 bp):
AACATAAACGAACATGTTCACGAACACAAAAACGAACATGTTCACGAACGTTAAACG
Found at i:32097279 original size:29 final size:29
Alignment explanation
Indices: 32097246--32097343 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 29
32097236 TAAAACATAC
32097246 TTTTAGAAAGTTT-AGGGTAAAAAATGTAA
1 TTTTAGAAAGTTTAAGGGT-AAAAATGTAA
* **
32097275 TTTTAGGAAGGTTTGGGGGTAAAAATGTAA
1 TTTTA-GAAAGTTTAAGGGTAAAAATGTAA
*
32097305 TTTTTGAAAGTTTAAGGGT-AAAATGTCAA
1 TTTTAGAAAGTTTAAGGGTAAAAATGT-AA
32097334 TTTTAAGAAA
1 TTTT-AGAAA
32097344 TTCGAGATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
28 7 0.12
29 22 0.38
30 25 0.43
31 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTTAGAAAGTTTAAGGGTAAAAATGTAA
Found at i:32097412 original size:30 final size:30
Alignment explanation
Indices: 32097369--32097535 Score: 107
Period size: 29 Copynumber: 5.7 Consensus size: 30
32097359 TGACTTTTTG
32097369 ATTTTT-AAAAGTTTGGGGGTAAAAATTAA
1 ATTTTTGAAAAGTTTGGGGGTAAAAATTAA
* * *
32097398 ATTTTTGAGAAGTTTGGGGGT-AATA-TATG
1 ATTTTTGAAAAGTTTGGGGGTAAAAATTA-A
* * * *
32097427 ATTTTTG-GAAGTTCGAGGGTAAAAATGT-G
1 ATTTTTGAAAAGTTTGGGGGTAAAAAT-TAA
* * *
32097456 ATTTTTG-GAA-TTTAGGGATAAAAATTATA
1 ATTTTTGAAAAGTTTGGGGGTAAAAATTA-A
* * *
32097485 ATTTTGGAAAAGTTTGAGGGTCAAAATGT-A
1 ATTTTTGAAAAGTTTGGGGGTAAAAAT-TAA
* *
32097515 ATTTTAGAAAAGTTTAGGGGT
1 ATTTTTGAAAAGTTTGGGGGT
32097536 CAAATATGAT
Statistics
Matches: 108, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
27 1 0.01
28 24 0.22
29 36 0.33
30 34 0.31
31 12 0.11
32 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
ATTTTTGAAAAGTTTGGGGGTAAAAATTAA
Found at i:32097432 original size:58 final size:58
Alignment explanation
Indices: 32097367--32097553 Score: 182
Period size: 58 Copynumber: 3.2 Consensus size: 58
32097357 TGTGACTTTT
* * *
32097367 TGATTTTTAAAAGTTTGGGGGTAAAAAT-TAAATTTTTGAGAAGTTTGGGGGTAATATA
1 TGATTTTTAAAAGTTTGAGGGTAAAAATGT-AATTTTTGAGAAGTTTAGGGGTAAAATA
** * * *
32097425 TGATTTTTGGAAGTTCGAGGGTAAAAATGTGATTTTTG-GAA-TTTAGGGATAAAAATTA
1 TGATTTTTAAAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTAGGGGT-AAAA-TA
* * * * * *
32097483 TAATTTTGGAAAAGTTTGAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGTCAAATA
1 TGATTTT-TAAAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTAGGGGTAAAATA
*
32097542 TGATTTCTAAAA
1 TGATTTTTAAAA
32097554 AGTTCAGAGA
Statistics
Matches: 101, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
56 7 0.07
57 6 0.06
58 43 0.43
59 32 0.32
60 5 0.05
61 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (58 bp):
TGATTTTTAAAAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTTAGGGGTAAAATA
Found at i:32097442 original size:94 final size:94
Alignment explanation
Indices: 32097285--32097462 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 94
32097275 TTTTAGGAAG
*
32097285 GTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAATGTCAATTTTAAGAAATTCGA-
1 GTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAATATCAATTTTAAGAAATTCGAG
32097349 GATAAAAATGTGACTTTTTGATTTTTAAAA
66 GATAAAAATGTGA-TTTTTGATTTTTAAAA
** * * ** *
32097379 GTTTGGGGGTAAAAAT-TAAATTTTTGAGAAGTTTGGGGGTAATATAT-GATTTTTGGAAGTTCG
1 GTTTGGGGGTAAAAATGT-AATTTTTGA-AAGTTTAAGGGTAAAATATCAATTTTAAGAAATTCG
*
32097442 AGGGTAAAAATGTGATTTTTG
64 AGGATAAAAATGTGATTTTTG
32097463 GAATTTAGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
93 1 0.01
94 44 0.61
95 27 0.38
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (94 bp):
GTTTGGGGGTAAAAATGTAATTTTTGAAAGTTTAAGGGTAAAATATCAATTTTAAGAAATTCGAG
GATAAAAATGTGATTTTTGATTTTTAAAA
Found at i:32097536 original size:30 final size:30
Alignment explanation
Indices: 32097483--32097539 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32097473 ATAAAAATTA
*
32097483 TAATTTTGGAAAAGTTTGAGGGTCAAAATG
1 TAATTTTAGAAAAGTTTGAGGGTCAAAATG
32097513 TAATTTTAGAAAAGTTT-AGGGGTCAAA
1 TAATTTTAGAAAAGTTTGA-GGGTCAAA
32097540 TATGATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (30 bp):
TAATTTTAGAAAAGTTTGAGGGTCAAAATG
Found at i:32097547 original size:29 final size:29
Alignment explanation
Indices: 32097484--32097557 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
32097474 TAAAAATTAT
*
32097484 AATTTTGGAAAAGTTTGAGGGTCAAAATG
1 AATTTTAGAAAAGTTTGAGGGTCAAAATG
32097513 TAATTTTAGAAAAGTTT-AGGGGTCAAATATG
1 -AATTTTAGAAAAGTTTGA-GGGTCAAA-ATG
32097544 -ATTTCTA-AAAAGTT
1 AATTT-TAGAAAAGTT
32097558 CAGAGACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
29 12 0.30
30 25 0.62
31 3 0.08
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (29 bp):
AATTTTAGAAAAGTTTGAGGGTCAAAATG
Found at i:32097834 original size:19 final size:19
Alignment explanation
Indices: 32097810--32097857 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
32097800 GAAAATGAGA
32097810 TAAAATTAATGGGTAATTT
1 TAAAATTAATGGGTAATTT
32097829 TAAAATTAATGGGTAATTT
1 TAAAATTAATGGGTAATTT
32097848 TAAAATTAAT
1 TAAAATTAAT
32097858 CAAAAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
TAAAATTAATGGGTAATTT
Found at i:32100998 original size:21 final size:21
Alignment explanation
Indices: 32100965--32101018 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
32100955 GGAGTTTTTA
* *
32100965 GTATCGATAGAAG-CATGACTT
1 GTATCGGTAGAAGTCA-CACTT
*
32100986 GTTTCGGTAGAAGTCACACTT
1 GTATCGGTAGAAGTCACACTT
32101007 GTATCGGTAGAA
1 GTATCGGTAGAA
32101019 CTATCACAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATCGGTAGAAGTCACACTT
Found at i:32101049 original size:20 final size:20
Alignment explanation
Indices: 32101008--32101049 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
32100998 GTCACACTTG
32101008 TATCGGTAGAACTATCACAAC
1 TATCGGTAGAAC-ATCACAAC
32101029 TATCGGTAGAA-ATCTACAAC
1 TATCGGTAGAACATC-ACAAC
32101049 T
1 T
32101050 GTTTCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 6 0.30
21 11 0.55
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (20 bp):
TATCGGTAGAACATCACAAC
Found at i:32103445 original size:14 final size:14
Alignment explanation
Indices: 32103422--32103456 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
32103412 TACAATATTC
*
32103422 AAATAATAACAACA
1 AAATAGTAACAACA
32103436 AAATAGTAACAACA
1 AAATAGTAACAACA
*
32103450 TAATAGT
1 AAATAGT
32103457 GAAATGTCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:32103493 original size:22 final size:22
Alignment explanation
Indices: 32103468--32103517 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
32103458 AAATGTCAGC
*
32103468 AAAACAATGAGAAAATAACAAG
1 AAAACAATGAGAAAACAACAAG
*
32103490 AAAACAATGGGAAAACAACAAG
1 AAAACAATGAGAAAACAACAAG
32103512 AAAACA
1 AAAACA
32103518 TCATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.68, C:0.12, G:0.14, T:0.06
Consensus pattern (22 bp):
AAAACAATGAGAAAACAACAAG
Found at i:32104362 original size:5 final size:5
Alignment explanation
Indices: 32104352--32104377 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
32104342 CGAAATCAGT
32104352 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
32104378 ACAAATTTAT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:32104666 original size:18 final size:17
Alignment explanation
Indices: 32104643--32104677 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
32104633 GAATAGATTT
32104643 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
32104661 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
32104678 ACCTAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:32106641 original size:29 final size:28
Alignment explanation
Indices: 32106598--32106652 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
32106588 TTTAATTATT
32106598 TTTTAAAATTAAAAAAATTATAAAAAATA
1 TTTTAAAATT-AAAAAATTATAAAAAATA
*
32106627 TTTTAAAACTT-AAAAATTATCAAAAA
1 TTTTAAAA-TTAAAAAATTATAAAAAA
32106653 GTTGTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 14 0.58
29 8 0.33
30 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTTAAAATTAAAAAATTATAAAAAATA
Found at i:32106691 original size:10 final size:10
Alignment explanation
Indices: 32106664--32106696 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
32106654 TTGTAAACAA
32106664 AAATATTTTT
1 AAATATTTTT
32106674 AAA-ATTTTT
1 AAATATTTTT
*
32106683 AAATTTTTTT
1 AAATATTTTT
32106693 AAAT
1 AAAT
32106697 GTTAACAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATATTTTT
Found at i:32113481 original size:30 final size:30
Alignment explanation
Indices: 32113447--32113541 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 30
32113437 GCAAAATAGT
32113447 AATTTTTGGTGAAATCGAGGTTAAAAATGG
1 AATTTTTGGTGAAATCGAGGTTAAAAATGG
* ** *
32113477 AA-TTTT--AGAAAGTTTAGGGGT-AAAATGG
1 AATTTTTGGTGAAA-TCGA-GGTTAAAAATGG
*
32113505 TAATTTTTGGTGAAATCG-GGTTCAAAGATGG
1 -AATTTTTGGTGAAATCGAGGTT-AAAAATGG
32113536 AATTTT
1 AATTTT
32113542 GGAAAGTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
27 4 0.08
28 9 0.19
29 12 0.25
30 12 0.25
31 7 0.15
32 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
AATTTTTGGTGAAATCGAGGTTAAAAATGG
Found at i:32113510 original size:59 final size:60
Alignment explanation
Indices: 32113435--32113574 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 60
32113425 GGATATTCGA
*
32113435 GGGCAAAATAGTAATTTTTGGTGAAATCGAGGTT-AAAAATGGAATTTTAGAAAGTTTA-G
1 GGGCAAAATGGTAATTTTTGGTGAAATCG-GGTTCAAAAATGGAATTTTAGAAAGTTTAGG
* * *
32113494 GGGTAAAATGGTAATTTTTGGTGAAATCGGGTTCAAAGATGGAATTTTGGAAAGTTTAGG
1 GGGCAAAATGGTAATTTTTGGTGAAATCGGGTTCAAAAATGGAATTTTAGAAAGTTTAGG
32113554 GGGCAAAATGGTAATTTTTGG
1 GGGCAAAATGGTAATTTTTGG
32113575 ATAGTTTAGG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 4 0.05
59 49 0.66
60 21 0.28
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (60 bp):
GGGCAAAATGGTAATTTTTGGTGAAATCGGGTTCAAAAATGGAATTTTAGAAAGTTTAGG
Found at i:32113574 original size:31 final size:29
Alignment explanation
Indices: 32113470--32113585 Score: 87
Period size: 30 Copynumber: 3.9 Consensus size: 29
32113460 ATCGAGGTTA
* *
32113470 AAAATGGAATTTTAGAAAGTTTA-GGGGT
1 AAAATGGAATTTTGGAAAGTTTAGGGGGC
* **
32113498 AAAATGGTAATTTTTGGTGAAA---TCGGGTTC
1 AAAATGG-AA-TTTT-G-GAAAGTTTAGGGGGC
32113528 AAAGATGGAATTTTGGAAAGTTTAGGGGGC
1 AAA-ATGGAATTTTGGAAAGTTTAGGGGGC
*
32113558 AAAATGGTAATTTTTGGATAGTTTAGGG
1 AAAATGG-AA-TTTTGGAAAGTTTAGGG
32113586 ACTTATAGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
27 4 0.06
28 8 0.12
29 11 0.16
30 21 0.31
31 20 0.29
32 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGGC
Found at i:32115540 original size:17 final size:17
Alignment explanation
Indices: 32115515--32115557 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
32115505 GGACATTTAG
* *
32115515 TTTATATTTATTTTAAA
1 TTTAAATTTATATTAAA
*
32115532 TTTAAATTTATATTAAG
1 TTTAAATTTATATTAAA
32115549 TTTAAATTT
1 TTTAAATTT
32115558 TTTAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTAAATTTATATTAAA
Found at i:32116299 original size:200 final size:200
Alignment explanation
Indices: 32115956--32116971 Score: 1553
Period size: 200 Copynumber: 5.1 Consensus size: 200
32115946 CCTCTCAGTG
* * * *
32115956 TCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCTCTTCTCTGGATCTCCGCAGGAAGACG
1 TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
*
32116021 AATTTGGTCCACTTCTCTGTGTCCCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
66 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
* * *
32116086 AGTGTCTCATCAGGAAGCTTGGTTTGAAGATTTGCTCGCGTTGAGCGTTAAGTTGGTATTCTTCT
131 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
32116151 CTGTA
196 CTGTA
* * * * *
32116156 TCTCATCAGAAAGATGACCGCCTCGCTTATTTTAATTTGCTTCTTTGGATCTCCTCAAGAAGACG
1 TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
*
32116221 AATTTGGTCCACTTCTCTGTGTCTCATCGGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
66 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
* *
32116286 AGTGTCTCATCAGGAAGTTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATCCTTCT
131 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
32116351 CTGTA
196 CTGTA
* * * * *
32116356 TCTCATCAGGAAGATGACTGCTTCACTTG-TTTAATTCGCTTCTCTAGATCTCCTTAGGAAGACG
1 TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
* * *
32116420 AATTTGGTCCACTTCTCTGTGTTTCATCAAGAAGCTAACCATTTTGTTGCTTCGACCTGCTTCTC
66 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
32116485 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
131 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
32116550 C---A
196 CTGTA
* *
32116552 ----ATCAGGAAGATGACTGCCTCGATTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
1 TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
32116613 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
66 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
* *
32116678 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACGTTGAGCGTTGAGTTGTTATTCTTCT
131 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
*
32116743 CAGTA
196 CTGTA
* * *
32116748 TCTTATCAGGAAGATGACCGCCTCGATTGTTTTAATTCGCTTCTCTAGATCTCCTCAGGAAGACG
1 TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
* * * *
32116813 AATTTGGTCCACTTCTTTGTGTCTTATCAGTAAGCTAACCATTTTATTGCTTCGAGCTGCTTCTC
66 AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
* * * * * * * *
32116878 AGTGTCTCATCAGGGAGCTAGGTTCGAAAATTTACTTGCATTGAGCGTTGAGTTGGTATACCTCT
131 AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
*
32116943 TTGTA
196 CTGTA
* *
32116948 TCTAATTAGGAAGATGACCGCCTC
1 TCTCATCAGGAAGATGACCGCCTC
32116972 AATGTTTTGT
Statistics
Matches: 746, Mismatches: 62, Indels: 16
0.91 0.08 0.02
Matches are distributed among these distances:
192 22 0.03
193 159 0.21
196 2 0.00
199 155 0.21
200 408 0.55
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (200 bp):
TCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTGGATCTCCTCAGGAAGACG
AATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTC
AGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGTATTCTTCT
CTGTA
Found at i:32116726 original size:392 final size:395
Alignment explanation
Indices: 32115948--32116936 Score: 1531
Period size: 392 Copynumber: 2.5 Consensus size: 395
32115938 TCACCCTTCC
* * * *
32115948 TCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCTCTTCTCTGGATCTCCGCA
1 TCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTAGATCTCCTCA
** *
32116013 GGAAGACGAATTTGGTCCACTTCTCTGTGTCCCATCAGGAAGCTAACCATTTTATTGCTTCGACC
66 GGAAGACGAATTTGGTCCACTTCTCTGTGTTTCATCAAGAAGCTAACCATTTTATTGCTTCGACC
* * *
32116078 TGCTTCTCAGTGTCTCATCAGGAAGCTTGGTTTGAAGATTTGCTCGCGTTGAGCGTTAAGTTGGT
131 TGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGT
* * *
32116143 ATTCTTCTCTGTATCTCATCAGAAAGATGACCGCCTCGCTTATTTTAATTTGCTTCTTTGGATCT
196 ATTCTTCTC--TA---CATCAGAAAGATGACCGCCTCGATTATTTTAATTCGCTTCTCTGGATCT
*
32116208 CCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCGGGAAGCTAACCATTTTATTGCTT
256 CCTCAAGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTT
* *
32116273 CGACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAG
321 CGACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACGTTGAGCGTTGAG
32116338 TTGGTATCCT
386 TTGGTATCCT
* * * *
32116348 TCTCTGTATCTCATCAGGAAGATGACTGCTTCACTTG-TTTAATTCGCTTCTCTAGATCTCCTTA
1 TCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTAGATCTCCTCA
*
32116412 GGAAGACGAATTTGGTCCACTTCTCTGTGTTTCATCAAGAAGCTAACCATTTTGTTGCTTCGACC
66 GGAAGACGAATTTGGTCCACTTCTCTGTGTTTCATCAAGAAGCTAACCATTTTATTGCTTCGACC
*
32116477 TGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGT
131 TGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGT
* * *
32116542 ATTCTTCTC-A-ATCAGGAAGATGACTGCCTCGATTGTTTTAATTCGCTTCTCTGGATCTCCTCA
196 ATTCTTCTCTACATCAGAAAGATGACCGCCTCGATTATTTTAATTCGCTTCTCTGGATCTCCTCA
*
32116605 GGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC
261 AGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC
*
32116670 TGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACGTTGAGCGTTGAGTTGTT
326 TGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACGTTGAGCGTTGAGTTGGT
*
32116735 ATTCT
391 ATCCT
* *
32116740 TCTCAGTATCTTATCAGGAAGATGACCGCCTCGA-TTGTTTTAATTCGCTTCTCTAGATCTCCTC
1 TCTCAGTATCTCATCAGGAAGATGACCGCATC-ACTTGTTTTAATTCGCTTCTCTAGATCTCCTC
*
32116804 AGGAAGACGAATTTGGTCCACTTCTTTGTGTCTT-ATC-AGTAAGCTAACCATTTTATTGCTTCG
65 AGGAAGACGAATTTGGTCCACTTCTCTGTGT-TTCATCAAG-AAGCTAACCATTTTATTGCTTCG
* * * * * *
32116867 AGCTGCTTCTCAGTGTCTCATCAGGGAGCTAGGTTCGAAAATTTACTTGCATTGAGCGTTGAGTT
128 ACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTT
32116932 GGTAT
193 GGTAT
32116937 ACCTCTTTGT
Statistics
Matches: 544, Mismatches: 41, Indels: 15
0.91 0.07 0.03
Matches are distributed among these distances:
392 209 0.38
393 144 0.26
394 2 0.00
396 1 0.00
399 155 0.28
400 33 0.06
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (395 bp):
TCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATTCGCTTCTCTAGATCTCCTCA
GGAAGACGAATTTGGTCCACTTCTCTGTGTTTCATCAAGAAGCTAACCATTTTATTGCTTCGACC
TGCTTCTCAGTGTCTCATCAGGAAGCTAGGTTCGAAGATTTGCTCGCGTTGAGCGTTGAGTTGGT
ATTCTTCTCTACATCAGAAAGATGACCGCCTCGATTATTTTAATTCGCTTCTCTGGATCTCCTCA
AGAAGACGAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAGCTAACCATTTTATTGCTTCGACC
TGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCACGTTGAGCGTTGAGTTGGT
ATCCT
Found at i:32119409 original size:15 final size:15
Alignment explanation
Indices: 32119389--32119420 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32119379 CTTCTCGCAA
32119389 GAGAAAATGAAAGGT
1 GAGAAAATGAAAGGT
32119404 GAGAAAATGAAAGGT
1 GAGAAAATGAAAGGT
32119419 GA
1 GA
32119421 CGTCATCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.34, T:0.12
Consensus pattern (15 bp):
GAGAAAATGAAAGGT
Found at i:32128686 original size:96 final size:96
Alignment explanation
Indices: 32128505--32128696 Score: 226
Period size: 96 Copynumber: 2.0 Consensus size: 96
32128495 AATTTTGAAG
* ** * * * ***
32128505 AAGGATATTTGATTACTTCGATTTGAAGAAATGTTGCACCTAGTGAGTTAAGGTGCACTTTTTCA
1 AAGGATATTCGATTACTTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCGCAAAATTTCA
* *
32128570 TAACCGAAAATAAGGAAATATTACCTCGATT
66 AAACCGAAAATAAAGAAATATTACCTCGATT
* * *
32128601 AAGGGTATTCGATTATTTCGGTTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCGCAAAATTTCA
1 AAGGATATTCGATTACTTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCGCAAAATTTCA
32128666 AAACTCG-AAATAAA-AGAATATTACCTCGATT
66 AAAC-CGAAAATAAAGA-AATATTACCTCGATT
32128697 TTAAAATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
95 1 0.01
96 77 0.96
97 2 0.03
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (96 bp):
AAGGATATTCGATTACTTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCGCAAAATTTCA
AAACCGAAAATAAAGAAATATTACCTCGATT
Found at i:32128969 original size:29 final size:29
Alignment explanation
Indices: 32128936--32129087 Score: 70
Period size: 29 Copynumber: 5.2 Consensus size: 29
32128926 AAATAGTAAT
32128936 TTTTGGTGAAATTAGGGTTAAAAATGGAA
1 TTTTGGTGAAATTAGGGTTAAAAATGGAA
32128965 TTTT-G-GAAAGTTCAGAGG-T--AAATGGTAA
1 TTTTGGTGAAA-TT-AG-GGTTAAAAATGG-AA
** * *
32128993 TTTTTGGTGAAATCGGGGTCAAAGATGGAA
1 -TTTTGGTGAAATTAGGGTTAAAAATGGAA
* * *
32129023 TTTT--AGAAAGTTTGGGGGT-AAAATGGTAA
1 TTTTGGTGAAA--TTAGGGTTAAAAATGG-AA
* *
32129052 TTTTTGGTGAAATT-GAGGTCAAAAATGAAA
1 -TTTTGGTGAAATTAG-GGTTAAAAATGGAA
32129082 TTTTGG
1 TTTTGG
32129088 AAAGTTTGGG
Statistics
Matches: 92, Mismatches: 13, Indels: 36
0.65 0.09 0.26
Matches are distributed among these distances:
27 14 0.15
28 13 0.14
29 30 0.33
30 16 0.17
31 15 0.16
32 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
TTTTGGTGAAATTAGGGTTAAAAATGGAA
Found at i:32129072 original size:59 final size:59
Alignment explanation
Indices: 32128924--32129115 Score: 271
Period size: 59 Copynumber: 3.3 Consensus size: 59
32128914 TACCCGAGGA
* * ** *
32128924 TAAAATAGTAATTTTTGGTGAAATT-AGGGTTAAAAATGGAATTTTGGAAAGTTCAGAGG
1 TAAAATGGTAATTTTTGGTGAAATTGA-GGTCAAAAATGGAATTTTGGAAAGTTTGGGGG
* * * *
32128983 T-AAATGGTAATTTTTGGTGAAATCGGGGTCAAAGATGGAATTTTAGAAAGTTTGGGGG
1 TAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGG
*
32129041 TAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGAAATTTTGGAAAGTTTGGGGG
1 TAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGG
32129100 TAAAATGGTAATTTTT
1 TAAAATGGTAATTTTT
32129116 AGATAGTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
58 48 0.41
59 69 0.59
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (59 bp):
TAAAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTGGGGG
Found at i:32129112 original size:29 final size:29
Alignment explanation
Indices: 32128956--32129114 Score: 95
Period size: 29 Copynumber: 5.5 Consensus size: 29
32128946 ATTAGGGTTA
** *
32128956 AAAATGG-AATTTTGGAAAGTTCAGAGGT
1 AAAATGGTAATTTTGGAAAGTTTGGGGGT
*
32128984 -AAATGGTAATTTTTGGTGAAA---TCGGGGT
1 AAAATGGTAA-TTTT-G-GAAAGTTTGGGGGT
*
32129012 CAAAGATGG-AATTTTAGAAAGTTTGGGGGT
1 -AAA-ATGGTAATTTTGGAAAGTTTGGGGGT
*
32129042 AAAATGGTAATTTTTGGTGAAA--TT-GAGGT
1 AAAATGGTAA-TTTT-G-GAAAGTTTGGGGGT
*
32129071 CAAAAAT-GAAATTTTGGAAAGTTTGGGGGT
1 --AAAATGGTAATTTTGGAAAGTTTGGGGGT
32129101 AAAATGGTAATTTT
1 AAAATGGTAATTTT
32129115 TAGATAGTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 39
0.67 0.07 0.26
Matches are distributed among these distances:
27 14 0.14
28 16 0.16
29 30 0.30
30 24 0.24
31 13 0.13
32 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTTGGGGGT
Found at i:32130269 original size:19 final size:20
Alignment explanation
Indices: 32130213--32130269 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 20
32130203 TATTATTAAA
* **
32130213 TATTAATATTAAAAAATTAC
1 TATTAATAATAATTAATTAC
*
32130233 TATTAATAATAATT-ATTAT
1 TATTAATAATAATTAATTAC
*
32130252 TATTAATGA-AATTAATTA
1 TATTAATAATAATTAATTA
32130270 ATACTTAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 16 0.52
20 11 0.35
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TATTAATAATAATTAATTAC
Found at i:32131535 original size:37 final size:37
Alignment explanation
Indices: 32131479--32131620 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
32131469 CTTCTTGATT
* *
32131479 CACCGGTACAAAGCCTACTAGGCACAAAGCCCGAAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCCGAATA
* *
32131516 TACCGGCACAAAGCTTACTAGGCACATAA-CCCGAATA
1 CACCGGCACAAAGCCTACTAGGCACA-AAGCCCGAATA
** ** * *
32131553 CACCAACACAAAATCTACTAGACACATAGCCCGAATA
1 CACCGGCACAAAGCCTACTAGGCACAAAGCCCGAATA
* *
32131590 CACCGGCACAAAACCTACTAGGCATAAAGCC
1 CACCGGCACAAAGCCTACTAGGCACAAAGCC
32131621 TGATTATTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
36 1 0.01
37 82 0.96
38 2 0.02
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (37 bp):
CACCGGCACAAAGCCTACTAGGCACAAAGCCCGAATA
Found at i:32132876 original size:17 final size:19
Alignment explanation
Indices: 32132851--32132892 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
32132841 TATTTCTATG
*
32132851 TTAACAAAA-TTGACTTT-
1 TTAAAAAAATTTGACTTTC
*
32132868 TTAAAAAAATTTGAGTTTC
1 TTAAAAAAATTTGACTTTC
32132887 TTAAAA
1 TTAAAA
32132893 GTTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (19 bp):
TTAAAAAAATTTGACTTTC
Found at i:32132997 original size:24 final size:24
Alignment explanation
Indices: 32132970--32133134 Score: 197
Period size: 24 Copynumber: 6.8 Consensus size: 24
32132960 ATTACGGTTA
32132970 CGCTCGTCAGCATGAATACGTTTT
1 CGCTCGTCAGCATGAATACGTTTT
* *
32132994 CGCTCGTCAACATGAATACGTTTA
1 CGCTCGTCAGCATGAATACGTTTT
* *
32133018 CGCTCGTCTGCATGAATACGTTTG
1 CGCTCGTCAGCATGAATACGTTTT
* *
32133042 CACTCGCCAGCATGAATACGTTTTT
1 CGCTCGTCAGCATGAATACG-TTTT
* * *
32133067 CGCTCGCCAGCATGAACACGTTTA
1 CGCTCGTCAGCATGAATACGTTTT
*
32133091 CGCTCGTCAACATGAATACGTTTAT
1 CGCTCGTCAGCATGAATACGTTT-T
* *
32133116 -GCTCATCATCATGAATACG
1 CGCTCGTCAGCATGAATACG
32133135 AGAAACATTG
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
24 100 0.83
25 21 0.17
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (24 bp):
CGCTCGTCAGCATGAATACGTTTT
Found at i:32133038 original size:48 final size:48
Alignment explanation
Indices: 32132962--32133134 Score: 220
Period size: 48 Copynumber: 3.6 Consensus size: 48
32132952 GCAAGTTCAT
* *
32132962 TACGGTTACGCTCGTCAGCATGAATACGTTTTCGCTCGTCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCGTCAACATGAA
* * * * *
32133010 TACGTTTACGCTCGTCTGCATGAATACGTTTGCACTCGCCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCGTCAACATGAA
* * *
32133058 TACGTTTTTCGCTCGCCAGCATGAACACGTTTACGCTCGTCAACATGAA
1 TACG-TTTACGCTCGTCAGCATGAATACGTTTACGCTCGTCAACATGAA
* * *
32133107 TACGTTTATGCTCATCATCATGAATACG
1 TACGTTTACGCTCGTCAGCATGAATACG
32133135 AGAAACATTG
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
48 64 0.62
49 40 0.38
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
TACGTTTACGCTCGTCAGCATGAATACGTTTACGCTCGTCAACATGAA
Found at i:32133095 original size:73 final size:72
Alignment explanation
Indices: 32132972--32133113 Score: 221
Period size: 73 Copynumber: 2.0 Consensus size: 72
32132962 TACGGTTACG
* * * **
32132972 CTCGTCAGCATGAATACGTTTTCGCTCGTCAACATGAATACGTTTACGCTCGTCTGCATGAATAC
1 CTCGCCAGCATGAATACGTTTTCGCTCGCCAACATGAACACGTTTACGCTCGTCAACATGAATAC
32133037 GTTTGCA
66 GTTTGCA
*
32133044 CTCGCCAGCATGAATACGTTTTTCGCTCGCCAGCATGAACACGTTTACGCTCGTCAACATGAATA
1 CTCGCCAGCATGAATACG-TTTTCGCTCGCCAACATGAACACGTTTACGCTCGTCAACATGAATA
32133109 CGTTT
65 CGTTT
32133114 ATGCTCATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 17 0.27
73 46 0.73
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (72 bp):
CTCGCCAGCATGAATACGTTTTCGCTCGCCAACATGAACACGTTTACGCTCGTCAACATGAATAC
GTTTGCA
Found at i:32135927 original size:59 final size:58
Alignment explanation
Indices: 32135848--32136045 Score: 272
Period size: 59 Copynumber: 3.4 Consensus size: 58
32135838 TGACTTTCGA
* *
32135848 GGGTAAAAAT-GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTCAAAAAGTTTAG
1 GGGT-AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTT-AGAAAGTTTGG
* * * *
32135907 GGATAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAA-TTTAGAAAGTTTGG
* * *
32135966 GGGTAAAATGGTAATTTTTAGTGAAATCGAGGTTAAAATTGGAATTTAGGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTA-GAAAGTTTGG
32136025 GGGTAAAATGGTAATTTTTGG
1 GGGTAAAATGGTAATTTTTGG
32136046 ATAGTTTAGG
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
58 8 0.07
59 111 0.91
60 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTAGAAAGTTTGG
Found at i:32135965 original size:29 final size:30
Alignment explanation
Indices: 32135898--32136052 Score: 119
Period size: 30 Copynumber: 5.2 Consensus size: 30
32135888 GGAATTTCAA
* *
32135898 AAAGTTTAGGGATAAAATGGTAATTTTTGGTG
1 AAAGTTTGGGGTTAAAATGGTAATTTTT-G-G
32135930 AAA--TTGGGGTTAAAAATGG-AA-TTTTGG
1 AAAGTTTGGGGTT-AAAATGGTAATTTTTGG
*
32135957 AAAGTTTGGGGGTAAAATGGTAATTTTTAGTG
1 AAAGTTTGGGGTTAAAATGGTAATTTTT-G-G
* * *
32135989 AAA--TCGAGGTTAAAATTGG-AA-TTTAGG
1 AAAGTTTGGGGTTAAAA-TGGTAATTTTTGG
* *
32136016 GAAGTTTGGGGGTAAAATGGTAATTTTTGG
1 AAAGTTTGGGGTTAAAATGGTAATTTTTGG
*
32136046 ATAGTTT
1 AAAGTTT
32136053 AGGGACCTAT
Statistics
Matches: 97, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
27 7 0.07
28 12 0.12
29 27 0.28
30 33 0.34
31 11 0.11
32 7 0.07
ACGTcount: A:0.34, C:0.01, G:0.30, T:0.36
Consensus pattern (30 bp):
AAAGTTTGGGGTTAAAATGGTAATTTTTGG
Found at i:32136364 original size:32 final size:30
Alignment explanation
Indices: 32136316--32136387 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 30
32136306 CAAAATTACT
* *
32136316 GGACCAAATTAAAAATAATTAAAAGTATGAAAA
1 GGACCAAATT-TAAATAATTAAAA-AATG-AAA
*
32136349 GGACTAAATTTAAATAATTAAAAAATGAAA
1 GGACCAAATTTAAATAATTAAAAAATGAAA
32136379 GGACCAAAT
1 GGACCAAAT
32136388 GCGCAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.31
31 3 0.09
32 12 0.34
33 9 0.26
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.22
Consensus pattern (30 bp):
GGACCAAATTTAAATAATTAAAAAATGAAA
Found at i:32137127 original size:9 final size:9
Alignment explanation
Indices: 32137115--32137146 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
32137105 ATACTTATTA
*
32137115 TTATTATTG
1 TTATTAATG
32137124 TTATTAATG
1 TTATTAATG
32137133 TTATTAATG
1 TTATTAATG
32137142 TTATT
1 TTATT
32137147 TGAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (9 bp):
TTATTAATG
Found at i:32138807 original size:196 final size:196
Alignment explanation
Indices: 32138256--32138919 Score: 832
Period size: 201 Copynumber: 3.3 Consensus size: 196
32138246 ATCTGTTTTA
*
32138256 ATTCACTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAG
1 ATTCGCTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAG
* * *
32138321 CTAACCTTTTTATTGCTT-TATCCTGCTCCTCAGTGTCTCATC-AGGAAGCTGGGTTCGAAGATT
66 CTAACCTTTTTATTGCTTCGA-CTTGCTTCTCAGTGTCTCATCTA-GAAGCTGGGTTCGAAGATT
* *
32138384 TGCTCGTGTTGGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAAGAAGATGACTGCCTCGC
129 TGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATG---G--TCGC
*
32138449 TCG-TTTT
189 TCGCTTGT
* * * * * * *
32138456 AATTCGCTTTTTTGGATCTTCTCAAGAAGACGAATTCGGTCCACTTCTCTGTTTCTCATCAGGAA
1 -ATTCGCTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAA
* * * *
32138521 GCTAACCTTTTTTATTGCTTCGACTTGCTTCTTAGTGTCTCATCTGGAAGCTAGGTTCAAAGATT
65 GCTAACC-TTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCTAGAAGCTGGGTTCGAAGATT
* * *
32138586 TGCTCATGTTTGAGCGCTAAGTTGGTGTTCTTCTCTGTATCTCATTAGGAAGATGGTCGTCTCGC
129 TGCTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGGTCG-CTCGC
32138651 TTGT
193 TTGT
* * * *
32138655 -TTCGCTTCTTTGGATCTCCTCAGGAAGACAAATCTGGTCCACTTCTCTGTGTCCCATTAGGAAG
1 ATTCGCTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAG
* *
32138719 CTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTTTCATCTAGAAGCTGGGTTTGAAGATTTG
66 CTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCTAGAAGCTGGGTTCGAAGATTTG
** * * **
32138784 CTCGCATTTGAGCGTTGAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTT
131 CTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGGTCG-CTCGCTT
32138849 GTTTT
195 G---T
* * * *
32138854 AATTCGCTTCTCTAGATCTCATCAGGAAGACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAA
1 -ATTCGCTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAA
32138919 G
65 G
32138920 ATGACCGCCT
Statistics
Matches: 399, Mismatches: 54, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
196 109 0.27
197 64 0.16
198 4 0.01
199 5 0.01
201 119 0.30
202 97 0.24
203 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (196 bp):
ATTCGCTTCTCTGGATCTCCTCAGGAAGACAAATTTGGTCCACTTCTCTGTGTCTCATCAGGAAG
CTAACCTTTTTATTGCTTCGACTTGCTTCTCAGTGTCTCATCTAGAAGCTGGGTTCGAAGATTTG
CTCGTGTTTGAGCGCTAAGTTGGTATTCTTCTCTGTATCTCATCAGGAAGATGGTCGCTCGCTTG
T
Found at i:32138949 original size:86 final size:85
Alignment explanation
Indices: 32138811--32138999 Score: 299
Period size: 86 Copynumber: 2.2 Consensus size: 85
32138801 AGTTGGTATT
* *
32138811 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTCTCTAGATCTCAT
1 CTTCT-TGTGTCTCATCAGGAAGATGACCGCCTCGCTCGTTTTAATTCGCTTCTCTAGATCTCAT
*
32138876 CAGGAAGACGAATTTGGTCCA
65 CAAGAAGACGAATTTGGTCCA
* * *
32138897 CTTCTTTGTGTCTCATCAGGAAGATGACCGCCTCGCTCGTTTTAATTTGCTTCTCTGGATCTCCT
1 CTTC-TTGTGTCTCATCAGGAAGATGACCGCCTCGCTCGTTTTAATTCGCTTCTCTAGATCTCAT
32138962 CAAGAAGACGAATTTGGTCCA
65 CAAGAAGACGAATTTGGTCCA
32138983 CTTC-TGTGTCTCATCAG
1 CTTCTTGTGTCTCATCAG
32139000 AAAGCTAACC
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
84 13 0.14
86 82 0.85
87 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (85 bp):
CTTCTTGTGTCTCATCAGGAAGATGACCGCCTCGCTCGTTTTAATTCGCTTCTCTAGATCTCATC
AAGAAGACGAATTTGGTCCA
Found at i:32139262 original size:201 final size:198
Alignment explanation
Indices: 32138897--32139336 Score: 666
Period size: 199 Copynumber: 2.2 Consensus size: 198
32138887 ATTTGGTCCA
* * * * *
32138897 CTTCTTTGTGTCTCATCAGGAAGATGACCGCCTCGCTCGTTTTAATTTGCTTCTCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTATCTGGATCTCCT
* *
32138962 CAAGAAGACGAATTTGGTCCACTTCTGTGTCTCATCAGAAAGCTAACCATTTTATTGCTTCGACC
66 CAAGAAAACGAATTTGGTCCACTTCTGTGTCTCATCAGAAAGCTAACCATTTTATTGCTTCAACC
* *
32139027 TGCTTCTCAGCGTCTCATCAGGAAGCCGGGTTCGAAGTTTTACTCGTAT-TTGAGCGTTGAGTTG
131 TGCTTCTCAACGTCTCATCAGGAAGCCGGGTTCGAAGATTTACTC--ATGTTGAGCGTTGAGTTG
*
32139091 ATATT
194 ACATT
32139096 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTATCTGGATCTCCT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTATCTGGATCTCCT
* * * *
32139161 TAGGAAAACGAATTTGGTCCACTTCTTTGTGTCTCATCAGGAAGCTAACCTTTTTATTGCTTCAA
66 CAAGAAAACGAATTTGGTCCACTTC--TGTGTCTCATCAGAAAGCTAACCATTTTATTGCTTCAA
* * *
32139226 CTTGCTTCTCAATGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCATGTTGAGCGTTGAGTTG
129 CCTGCTTCTCAACGTCTCATCAGGAAGCCGGGTTCGAAGATTTACTCATGTTGAGCGTTGAGTTG
*
32139291 GCATT
194 ACATT
*
32139296 CTTCTCTGTATCTCATCAGAAAGATGACCGCCTCGCTTGTT
1 CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTT
32139337 GGACTACTCT
Statistics
Matches: 219, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
199 84 0.38
200 58 0.26
201 77 0.35
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (198 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTTAATTCGCTTATCTGGATCTCCT
CAAGAAAACGAATTTGGTCCACTTCTGTGTCTCATCAGAAAGCTAACCATTTTATTGCTTCAACC
TGCTTCTCAACGTCTCATCAGGAAGCCGGGTTCGAAGATTTACTCATGTTGAGCGTTGAGTTGAC
ATT
Found at i:32146394 original size:28 final size:29
Alignment explanation
Indices: 32146362--32146484 Score: 76
Period size: 29 Copynumber: 4.2 Consensus size: 29
32146352 AAAATACGAG
32146362 TTTTGGATG-CCTA-AGGTAAAATGGTAAT
1 TTTTGGA-GACCTAGAGGTAAAATGGTAAT
** *
32146390 TTTTGGAGATTTAGGGGTAAAATGGTAAT
1 TTTTGGAGACCTAGAGGTAAAATGGTAAT
* * * *
32146419 TTTTAGATA-CTCAGGGGTATAAAT-GTGAT
1 TTTTGGAGACCT-AGAGGTA-AAATGGTAAT
** *
32146448 TTTTAGGA-AGTTCAGGGGTAAAATGGTAAT
1 TTTT-GGAGACCT-AGAGGTAAAATGGTAAT
32146478 TTTTGGA
1 TTTTGGA
32146485 AAGTTCGGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.01
28 10 0.13
29 44 0.56
30 23 0.29
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (29 bp):
TTTTGGAGACCTAGAGGTAAAATGGTAAT
Found at i:32146408 original size:29 final size:28
Alignment explanation
Indices: 32146376--32146646 Score: 178
Period size: 29 Copynumber: 9.2 Consensus size: 28
32146366 GGATGCCTAA
32146376 GGTAAAATGGTAATTTTTGGAGATTTAGG
1 GGTAAAATGGTAATTTTTGGA-ATTTAGG
* * *
32146405 GGTAAAATGGTAATTTTTAGATACTCAGG
1 GGTAAAATGGTAATTTTTGGA-ATTTAGG
* *
32146434 GGTATAAAT-GTGATTTTTAGGAAGTTCAGG
1 GGTA-AAATGGTAATTTTT-GGAA-TTTAGG
* *
32146464 GGTAAAATGGTAATTTTTGGAAAGTTCGG
1 GGTAAAATGGTAATTTTTGG-AATTTAGG
*
32146493 GGTAAAAATTG-AATTTTTGGAAGTTTA-G
1 GGT-AAAATGGTAATTTTTGGAA-TTTAGG
* *
32146521 GGTCAAAAATGG-AATTTTTGGAAGTTCGAG
1 GGT--AAAATGGTAATTTTTGGAATTTAG-G
*
32146551 GGTAAAATGGTAACTTTTGGAAAGTTTA-G
1 GGTAAAATGGTAATTTTTGG-AA-TTTAGG
* *
32146580 GGTCAAAAATGG-AACTTTTAGAAGTTTAAGG
1 GGT--AAAATGGTAATTTTTGGAA-TTT-AGG
** *
32146611 GCAAAAAT-GCAATTTTTGAGAAGTTTAGG
1 GGTAAAATGGTAATTTTTG-GAA-TTTAGG
32146640 GGTAAAA
1 GGTAAAA
32146647 ATGTGATTTC
Statistics
Matches: 196, Mismatches: 27, Indels: 38
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.08
29 116 0.59
30 53 0.27
31 11 0.06
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
GGTAAAATGGTAATTTTTGGAATTTAGG
Found at i:32146466 original size:59 final size:58
Alignment explanation
Indices: 32146387--32146557 Score: 165
Period size: 59 Copynumber: 2.9 Consensus size: 58
32146377 GTAAAATGGT
* * *
32146387 AATTTTTGG-AGATTTAGGGGTAAAATGGTAATTTTTAGATA-CTCAGGGGTATAAATGTG
1 AATTTTTGGAAG-TTCAGGGGTAAAATGGTAATTTTTAGAAAGCTC-GGGGTAAAAAT-TG
* *
32146446 -ATTTTTAGGAAGTTCAGGGGTAAAATGGTAATTTTTGGAAAGTTCGGGGTAAAAATTG
1 AATTTTT-GGAAGTTCAGGGGTAAAATGGTAATTTTTAGAAAGCTCGGGGTAAAAATTG
* * *
32146504 AATTTTTGGAAGTTTA-GGGTCAAAAATGG-AATTTTT-GGAAGTTCGAGGGTAAAA
1 AATTTTTGGAAGTTCAGGGGT--AAAATGGTAATTTTTAGAAAGCTCG-GGGTAAAA
32146558 TGGTAACTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
57 12 0.12
58 31 0.32
59 51 0.52
60 4 0.04
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (58 bp):
AATTTTTGGAAGTTCAGGGGTAAAATGGTAATTTTTAGAAAGCTCGGGGTAAAAATTG
Found at i:32146531 original size:88 final size:86
Alignment explanation
Indices: 32146376--32146646 Score: 284
Period size: 88 Copynumber: 3.1 Consensus size: 86
32146366 GGATGCCTAA
* * * *
32146376 GGTAAAATGGTAATTTTTGGAGATTTAGGGGT-AAAATGGTAATTTTTAGATA-CTCAGGGGT-A
1 GGTAAAATGGTAATTTTTGGAAAGTTAGGGGTAAAAATGG-AATTTTTAGA-AGTTTA-GGGTCA
*
32146438 TAAATGTGATTTTTAGGAAGTTCAGG
63 AAAATG-GATTTTT-GGAAGTTCAGG
* * *
32146464 GGTAAAATGGTAATTTTTGGAAAGTTCGGGGTAAAAATTGAATTTTTGGAAGTTTAGGGTCAAAA
1 GGTAAAATGGTAATTTTTGGAAAGTTAGGGGTAAAAATGGAATTTTTAGAAGTTTAGGGTCAAAA
32146529 ATGGAATTTTTGGAAGTTC-GAG
66 ATGG-ATTTTTGGAAGTTCAG-G
* *
32146551 GGTAAAATGGTAACTTTTGGAAAGTTTA-GGGTCAAAAATGGAACTTTTAGAAGTTTAAGGG-CA
1 GGTAAAATGGTAATTTTTGGAAAG-TTAGGGGT-AAAAATGGAATTTTTAGAAGTTT-AGGGTCA
* *
32146614 AAAATGCAATTTTTGAGAAGTTTAGG
63 AAAATG-GATTTTTG-GAAGTTCAGG
32146640 GGTAAAA
1 GGTAAAA
32146647 ATGTGATTTC
Statistics
Matches: 157, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
86 1 0.01
87 42 0.27
88 89 0.57
89 24 0.15
90 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (86 bp):
GGTAAAATGGTAATTTTTGGAAAGTTAGGGGTAAAAATGGAATTTTTAGAAGTTTAGGGTCAAAA
ATGGATTTTTGGAAGTTCAGG
Found at i:32146583 original size:59 final size:57
Alignment explanation
Indices: 32146467--32146666 Score: 199
Period size: 59 Copynumber: 3.4 Consensus size: 57
32146457 GTTCAGGGGT
* *
32146467 AAAATGGTAATTTTTGGAAAGTTCGGGGTAAAAATTGAATTTTTGGAAGTTTAGGGTCA
1 AAAATGG-AATTTTTGG-AAGTTCGGGGTAAAAATGGAACTTTTGGAAGTTTAGGGTCA
32146526 AAAATGGAATTTTTGGAAGTTCGAGGGT-AAAATGGTAACTTTTGGAAAGTTTAGGGTCA
1 AAAATGGAATTTTTGGAAGTTCG-GGGTAAAAATGG-AACTTTTGG-AAGTTTAGGGTCA
* * ** * * *
32146585 AAAATGGAACTTTTAGAAGTTTAAGGGCAAAAATGCAATTTTTGAGAAGTTTAGGGGT-A
1 AAAATGGAATTTTTGGAAG-TTCGGGGTAAAAATGGAACTTTTG-GAAGTTTA-GGGTCA
*
32146644 AAAATGTG-ATTTCTGGATAGTTC
1 AAAATG-GAATTTTTGGA-AGTTC
32146667 AAGGACCTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
57 13 0.11
58 21 0.18
59 69 0.58
60 16 0.13
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.34
Consensus pattern (57 bp):
AAAATGGAATTTTTGGAAGTTCGGGGTAAAAATGGAACTTTTGGAAGTTTAGGGTCA
Found at i:32148488 original size:11 final size:11
Alignment explanation
Indices: 32148472--32148537 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
32148462 TTTTATTCTT
32148472 TTAAATTTAAA
1 TTAAATTTAAA
32148483 TTAAATTTAAA
1 TTAAATTTAAA
**
32148494 TTAAA-ACAAA
1 TTAAATTTAAA
* * *
32148504 TTTAAAATGAAC
1 -TTAAATTTAAA
*
32148516 TTAATTTTAAA
1 TTAAATTTAAA
32148527 TTAAATTTAAA
1 TTAAATTTAAA
32148538 AAATGAGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 3 0.07
11 38 0.88
12 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:32148536 original size:17 final size:16
Alignment explanation
Indices: 32148471--32148533 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
32148461 CTTTTATTCT
32148471 TTTAAATTTAAATTAAA
1 TTTAAA-TTAAATTAAA
**
32148488 TTTAAATTAAAACAAA
1 TTTAAATTAAATTAAA
* * *
32148504 TTTAAAATGAACTTAAT
1 TTT-AAATTAAATTAAA
32148521 TTTAAATTAAATT
1 TTTAAATTAAATT
32148534 TAAAAAATGA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 19 0.53
17 17 0.47
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAATTAAATTAAA
Found at i:32148900 original size:137 final size:137
Alignment explanation
Indices: 32148646--32148956 Score: 446
Period size: 137 Copynumber: 2.3 Consensus size: 137
32148636 TTGATAATTG
* * * *
32148646 AATAGTCAAATATATGTTACAACAT-AA-AAACACACTATATTCAATGGGACATGATGTAAATGA
1 AATAATCAAACATATGTTACAACATAAACAAACACACTACATTCAATGGGACATGATGAAAATGA
* * * * *
32148709 CATCATCATCATTGGAAACTTGCCTCCGAAGATGGTTTTTTACAAAATTGAAATTTCAAATTAAC
66 CATCATCATCATTGGAAACTTGCCTCCGAAGATGGATTTTCACAAAACTAAAATTCCAAATTAAC
32148774 AAGGGAA
131 AAGGGAA
32148781 AATAATCAAACATATGTTACAACATAAACAAACACACTACATTCAATGGGACATGATGAAAATGA
1 AATAATCAAACATATGTTACAACATAAACAAACACACTACATTCAATGGGACATGATGAAAATGA
* ** ** *
32148846 CATCATCATCATTGGAAAGTTGCCTCTTATTATGGATTTTCACAAAGCTAAAATTCCAAATTAAC
66 CATCATCATCATTGGAAACTTGCCTCCGAAGATGGATTTTCACAAAACTAAAATTCCAAATTAAC
32148911 AAGGGAA
131 AAGGGAA
* * *
32148918 AATAATCAAACATATGTTATAACATAATCGAACACACTA
1 AATAATCAAACATATGTTACAACATAAACAAACACACTA
32148957 TATTTATGTT
Statistics
Matches: 156, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
135 23 0.15
136 2 0.01
137 131 0.84
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (137 bp):
AATAATCAAACATATGTTACAACATAAACAAACACACTACATTCAATGGGACATGATGAAAATGA
CATCATCATCATTGGAAACTTGCCTCCGAAGATGGATTTTCACAAAACTAAAATTCCAAATTAAC
AAGGGAA
Found at i:32148965 original size:31 final size:31
Alignment explanation
Indices: 32148930--32148991 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
32148920 TAATCAAACA
* *
32148930 TATGTTATAACATAATCGAACACACTATATT
1 TATGTTACAACATAATCAAACACACTATATT
32148961 TATGTTACAACATAATCAAACACACTATATT
1 TATGTTACAACATAATCAAACACACTATATT
32148992 CAATGGGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.34
Consensus pattern (31 bp):
TATGTTACAACATAATCAAACACACTATATT
Found at i:32149191 original size:127 final size:127
Alignment explanation
Indices: 32148965--32149203 Score: 361
Period size: 127 Copynumber: 1.9 Consensus size: 127
32148955 TATATTTATG
* * * * * *
32148965 TTACAACATAATCAAACACACTATATTCAATGGGACATGACAAAAATGCCATCATCATTATTGGA
1 TTACAACATAATCAAACACAATACATTCAATGGAACATGACAAAAATGACATCATCATCATTCGA
* **
32149030 AAGTTGCCTCCGAAGATGGATTTTCACAAAGCTGAAATTCCAAATTAACAAGTGAACATATC
66 AAGTTACCTCCGAAGATAAATTTTCACAAAGCTGAAATTCCAAATTAACAAGTGAACATATC
* **
32149092 TTACAACATATTCAAACACAATACATTCAATGGAACATGACGTAAATGACATCATCATCATTCGA
1 TTACAACATAATCAAACACAATACATTCAATGGAACATGACAAAAATGACATCATCATCATTCGA
*
32149157 AAGTTACCTCCGAAGATAAATTTTCACATAGCTGAAATTCCAAATTA
66 AAGTTACCTCCGAAGATAAATTTTCACAAAGCTGAAATTCCAAATTA
32149204 GAAAAAAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
127 99 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (127 bp):
TTACAACATAATCAAACACAATACATTCAATGGAACATGACAAAAATGACATCATCATCATTCGA
AAGTTACCTCCGAAGATAAATTTTCACAAAGCTGAAATTCCAAATTAACAAGTGAACATATC
Found at i:32150583 original size:11 final size:11
Alignment explanation
Indices: 32150552--32150594 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
32150542 CGCAACTTAG
32150552 ATTTTAAATTA
1 ATTTTAAATTA
* *
32150563 AGTTTGAATTA
1 ATTTTAAATTA
*
32150574 ATTTTAAATTT
1 ATTTTAAATTA
*
32150585 GTTTTAAATT
1 ATTTTAAATT
32150595 TAAATACATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:32151467 original size:14 final size:16
Alignment explanation
Indices: 32151433--32151469 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32151423 TAATTAATAG
32151433 TAATAAATATTTTCTA
1 TAATAAATATTTTCTA
*
32151449 TAATAAAT-TTTTTTA
1 TAATAAATATTTTCTA
32151464 -AATAAA
1 TAATAAA
32151470 AAAGAAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 6 0.30
15 6 0.30
16 8 0.40
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATAAATATTTTCTA
Found at i:32158461 original size:16 final size:18
Alignment explanation
Indices: 32158440--32158472 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32158430 ATGCGAAGTA
32158440 GAAAAG-GA-AAGAGATT
1 GAAAAGAGACAAGAGATT
32158456 GAAAAGAGACAAGAGAT
1 GAAAAGAGACAAGAGAT
32158473 GAGGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.58, C:0.03, G:0.30, T:0.09
Consensus pattern (18 bp):
GAAAAGAGACAAGAGATT
Found at i:32163546 original size:200 final size:200
Alignment explanation
Indices: 32163203--32163987 Score: 1200
Period size: 200 Copynumber: 3.9 Consensus size: 200
32163193 ACCTTGAAGC
*
32163203 AACACGAGCAAATCTTCGAACCCAGCTTT-CTGATGAGACACTAAGAAGC-GAGTCGAAGCAATA
1 AACACGAGCAAATCTTCGAACCCAG-TTTCCTGATGAGACACTGAGAAGCAG-GTCGAAGCAATA
* *
32163266 AAAAGGTTAGCTTCCTGATAAGACATAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAG
64 AAAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAG
* * * *
32163331 AGAAGCGAATTAAAACAACCAAGGCGGTCATCTTCTTGATGAGATACAAAGAAGAATACCAACTC
129 AGAAGCGAATTAAAACAACCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC
32163396 AATGCTT
194 AATGCTT
*
32163403 AACACGAGCAAATCTTCGAACCCAGTTTCCTGATGAGACATTGAGAAGCAGGTCGAAGCAATAAA
1 AACACGAGCAAATCTTCGAACCCAGTTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAA
* * * * *
32163468 AAGTTTAGCTTCTTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAAAA
66 AAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAG
32163533 AAGCGAATTAAAACAACCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAA
131 AAGCGAATTAAAACAACCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAA
32163598 TGCTT
196 TGCTT
* *
32163603 AACACGAGCACATCTTCAAACCCAGTTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAA
1 AACACGAGCAAATCTTCGAACCCAGTTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAA
*
32163668 AAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAG
66 AAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAG
* * * *
32163733 AAGCGAATTAAAGCAAGCGAGATGGTCATCTTCCTGATGAGATATAGAGAAGAATACCAACTCAA
131 AAGCGAATTAAAACAACCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAA
*
32163798 TGCTC
196 TGCTT
* * ** *
32163803 AACGCGAGCAAATCTTCGAACACA-TCTTCCTGATGAGGTATTGAGAAGCAGGTCGAAGCAATAA
1 AACACGAGCAAATCTTCGAACCCAGT-TTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAA
* *
32163867 AAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGGCTAAATTCGTCTTCCTGAGGAGATCCAGA
65 AAAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGA
* * * * *
32163932 GAAGCGAATTAAAACAGA-TGATTGCGGTCATCCTCCTGATGAGACACAGAGAAGAA
130 GAAGCGAATTAAAACA-ACCGA-GGTGGTCATCTTCCTGATGAGATACAGAGAAGAA
32163988 GGCCAAGTCA
Statistics
Matches: 537, Mismatches: 43, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
199 4 0.01
200 503 0.94
201 30 0.06
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (200 bp):
AACACGAGCAAATCTTCGAACCCAGTTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAA
AAGGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAG
AAGCGAATTAAAACAACCGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAA
TGCTT
Found at i:32164361 original size:11 final size:11
Alignment explanation
Indices: 32164330--32164371 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
32164320 CGCAACTTGG
32164330 ATTTTAAATTA
1 ATTTTAAATTA
* *
32164341 AGTTTGAATTA
1 ATTTTAAATTA
*
32164352 ATTTTAAATTT
1 ATTTTAAATTA
32164363 A-TTTAAATT
1 ATTTTAAATT
32164372 TAAATTTGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:32164371 original size:17 final size:17
Alignment explanation
Indices: 32164332--32164393 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
32164322 CAACTTGGAT
*
32164332 TTTAAA-TTAAGTTTGA
1 TTTAAATTTAAATTTGA
* *
32164348 ATTAATTTTAAATTT-A
1 TTTAAATTTAAATTTGA
*
32164364 TTTAAATTTAAATTTGT
1 TTTAAATTTAAATTTGA
32164381 TTTAAATTTAAAT
1 TTTAAATTTAAAT
32164394 ACATTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 18 0.47
17 20 0.53
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTTAAATTTGA
Found at i:32164374 original size:22 final size:22
Alignment explanation
Indices: 32164330--32164371 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32164320 CGCAACTTGG
*
32164330 ATTTTAAATTAAGTTTGAATTA
1 ATTTTAAATTAAGTTTAAATTA
*
32164352 ATTTTAAATTTA-TTTAAATT
1 ATTTTAAATTAAGTTTAAATT
32164372 TAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTTAAATTAAGTTTAAATTA
Found at i:32164377 original size:27 final size:27
Alignment explanation
Indices: 32164336--32164408 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
32164326 TTGGATTTTA
* *
32164336 AATTAAGTTTGAATTAATTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* **
32164363 ATTTAAATTTAAATTTGTTTTAAATTT
1 AATTAAATTTAAATTAATTTTAAATTT
* * *
32164390 AAATACATTTAAAATAATT
1 AATTAAATTTAAATTAATT
32164409 CGAAACTTAA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (27 bp):
AATTAAATTTAAATTAATTTTAAATTT
Found at i:32164402 original size:16 final size:16
Alignment explanation
Indices: 32164349--32164402 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
32164339 TAAGTTTGAA
* *
32164349 TTAATTTTAAATTTAT
1 TTAAATTTAAATTCAT
**
32164365 TTAAATTTAAATTTGTT
1 TTAAATTTAAA-TTCAT
*
32164382 TTAAATTTAAATACAT
1 TTAAATTTAAATTCAT
32164398 TTAAA
1 TTAAA
32164403 ATAATTCGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTAAATTTAAATTCAT
Found at i:32165240 original size:29 final size:29
Alignment explanation
Indices: 32165204--32165268 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
32165194 TAAATAGTAT
* *
32165204 TAAT-ATTATTAAT-ATTAATAATTTTTA
1 TAATAATTAATAATAATAAATAATTTTTA
* *
32165231 GTAGTAATTAATAGTAATAAATAATTTTTA
1 -TAATAATTAATAATAATAAATAATTTTTA
32165261 TAATAATT
1 TAATAATT
32165269 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.10
29 14 0.47
30 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (29 bp):
TAATAATTAATAATAATAAATAATTTTTA
Found at i:32165619 original size:18 final size:17
Alignment explanation
Indices: 32165577--32165620 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
32165567 TGTTGTAAAC
*
32165577 AAAGAACAAAAGAAAAA
1 AAAGAAAAAAAGAAAAA
*
32165594 AGATGAAAAAAAGAAAAGA
1 A-AAGAAAAAAAGAAAA-A
32165613 AAAGAAAA
1 AAAGAAAA
32165621 GAAGGGACGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAAGAAAAA
Found at i:32166318 original size:30 final size:30
Alignment explanation
Indices: 32166282--32166420 Score: 103
Period size: 29 Copynumber: 4.7 Consensus size: 30
32166272 CTAGACTGTT
* *
32166282 CAAAAATTATA-TTTTGACCCCAAAACTTTC
1 CAAAAATTACATTTTTAACCCCAAAA-TTTC
*
32166312 TAAAAATTACATTTTTAACCCCAAAATTTC
1 CAAAAATTACATTTTTAACCCCAAAATTTC
* * *
32166342 C-AAAATTCCATTTTTAACCTC--TATTTCAC
1 CAAAAATTACATTTTTAACCCCAAAATTT--C
*
32166371 CAAAAATTACCA-TTTT-ACCCCTAAACTTT-
1 CAAAAATTA-CATTTTTAACCCC-AAAATTTC
* *
32166400 CTAAAATTCCATTTTTAACCC
1 CAAAAATTACATTTTTAACCC
32166421 TAATTTCACC
Statistics
Matches: 86, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
27 4 0.05
28 2 0.02
29 35 0.41
30 27 0.31
31 15 0.17
32 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (30 bp):
CAAAAATTACATTTTTAACCCCAAAATTTC
Found at i:32166376 original size:59 final size:59
Alignment explanation
Indices: 32166313--32166566 Score: 270
Period size: 59 Copynumber: 4.3 Consensus size: 59
32166303 AAAACTTTCT
*
32166313 AAAAATTA-CATTTTTAACCC-CAAAATTTCCAAAATTCCATTTTTAACCTCT-ATTTCACC
1 AAAAATTACCA-TTTT-ACCCTCAAACTTTCCAAAATTCCATTTTTAACC-CTAATTTCACC
*
32166372 AAAAATTACCATTTTACCC-CTAAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACC
1 AAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACC
* * ** * * *
32166431 CAAAATTACCATTTCACCCTTGAGCTTTCCAAAA-TCTCA-TTTTAACCCTGATTTTACC
1 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTC-CATTTTTAACCCTAATTTCACC
* ** * **
32166489 AAAAATTACCATTTTACCCTCTAACTTTCCAAAAACCCCATTTTTAGCCCCGATTTCACC
1 AAAAATTACCATTTTACCCTCAAACTTTCC-AAAATTCCATTTTTAACCCTAATTTCACC
32166549 -AAAATTACCATTTTACCC
1 AAAAATTACCATTTTACCC
32166567 CTGGAAGTCA
Statistics
Matches: 168, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
58 51 0.30
59 98 0.58
60 19 0.11
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAATTTCACC
Found at i:32166421 original size:29 final size:29
Alignment explanation
Indices: 32166304--32166423 Score: 104
Period size: 29 Copynumber: 4.1 Consensus size: 29
32166294 TTTGACCCCA
* *
32166304 AAACTTTCTAAAAATTACATTTTTAACCCC
1 AAACTTTCT-AAAATTCCATTTTTAACCCT
* *
32166334 AAAATTTCCAAAATTCCATTTTTAACCTCT
1 AAACTTTCTAAAATTCCATTTTTAACC-CT
* *
32166364 --A-TTTCACCAAAAATTACCA-TTTTACCCCT
1 AAACTTT---CTAAAATT-CCATTTTTAACCCT
32166393 AAACTTTCTAAAATTCCATTTTTAACCCT
1 AAACTTTCTAAAATTCCATTTTTAACCCT
32166422 AA
1 AA
32166424 TTTCACCCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.04
28 4 0.05
29 37 0.51
30 22 0.30
31 4 0.05
32 3 0.04
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (29 bp):
AAACTTTCTAAAATTCCATTTTTAACCCT
Found at i:32166507 original size:29 final size:29
Alignment explanation
Indices: 32166343--32166566 Score: 94
Period size: 30 Copynumber: 7.6 Consensus size: 29
32166333 CAAAATTTCC
*
32166343 AAAATT-CCATTTTTAACCTCT-ATTTCACCA
1 AAAATTACCA-TTTT-ACC-CTAATTTTACCA
* *
32166373 AAAATTACCATTTTACCCCTAAACTTT--CT
1 AAAATTACCATTTTA-CCCT-AATTTTACCA
* *
32166402 AAAATT-CCATTTTTAACCCTAATTTCACCC
1 AAAATTACCA-TTTT-ACCCTAATTTTACCA
* **
32166432 AAAATTACCATTTCACCCTTGAGCTTT-CC-
1 AAAATTACCATTTTACCC-T-AATTTTACCA
*
32166461 AAAA-T-CTCATTTTAACCCTGATTTTACCA
1 AAAATTAC-CATTTT-ACCCTAATTTTACCA
*
32166490 AAAATTACCATTTTACCCTCTAACTTT-CCA
1 AAAATTACCATTTTA-CC-CTAATTTTACCA
** ** *
32166520 AAAA-CCCCATTTTTAGCCCCGATTTCACC-
1 AAAATTACCA-TTTTA-CCCTAATTTTACCA
32166549 AAAATTACCATTTTACCC
1 AAAATTACCATTTTACCC
32166567 CTGGAAGTCA
Statistics
Matches: 147, Mismatches: 25, Indels: 46
0.67 0.11 0.21
Matches are distributed among these distances:
27 4 0.03
28 19 0.13
29 51 0.35
30 54 0.37
31 19 0.13
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTAATTTTACCA
Found at i:32166515 original size:117 final size:118
Alignment explanation
Indices: 32166338--32166566 Score: 315
Period size: 117 Copynumber: 1.9 Consensus size: 118
32166328 AACCCCAAAA
*
32166338 TTTCCAAAATTCCATTTTTAACCTCTATTTCACCAAAAATTACCATTTTACCCCTAAACTTT-CT
1 TTTCCAAAATTCCATTTTTAACCTCTATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCA
** *
32166402 AAAATTCCATTTTTAACCCTAATTTCACCCAAAATTACCATTTCACCCTTGAGC
66 AAAACCCCATTTTTAACCCCAATTTCA-CCAAAATTACCATTTCACCCTTGAGC
*
32166456 TTTCCAAAA-TCTCA-TTTTAACC-CTGATTTTACCAAAAATTACCATTTTACCCTCT-AACTTT
1 TTTCCAAAATTC-CATTTTTAACCTCT-ATTTCACCAAAAATTACCATTTTACCC-CTAAACTTT
* * *
32166517 CCAAAAACCCCATTTTTAGCCCCGATTTCACCAAAATTACCATTTTACCC
63 CCAAAAACCCCATTTTTAACCCCAATTTCACCAAAATTACCATTTCACCC
32166567 CTGGAAGTCA
Statistics
Matches: 99, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
116 2 0.02
117 61 0.62
118 36 0.36
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (118 bp):
TTTCCAAAATTCCATTTTTAACCTCTATTTCACCAAAAATTACCATTTTACCCCTAAACTTTCCA
AAAACCCCATTTTTAACCCCAATTTCACCAAAATTACCATTTCACCCTTGAGC
Found at i:32168914 original size:3 final size:3
Alignment explanation
Indices: 32168908--32168985 Score: 147
Period size: 3 Copynumber: 26.0 Consensus size: 3
32168898 GCAGTAGTAC
*
32168908 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
32168956 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
32168986 ATTAAAACAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:32171000 original size:58 final size:59
Alignment explanation
Indices: 32170933--32171451 Score: 690
Period size: 59 Copynumber: 8.9 Consensus size: 59
32170923 TTGAGAAAAT
* *
32170933 TTGGGGTTAAAAATGGGATTTTGGAAGGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* * * * * *
32170992 -TAGAGTTAAAAAT-GAGA-TTTGGAAAGCTCGGGGGTAAAACGGTGATTTTTAGTGAAA
1 TTGGGGTTAAAAATGGA-ATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* * *
32171049 TCGGGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* ** *
32171108 CTGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* *
32171167 TTGGGGTTAAAAATAGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* * * *
32171226 CTAGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTAAAACGGTAATTTTTGGTAAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
** * * ** * * *
32171284 TTAAGGTTAAAAATGAAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTAGGTAAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
32171343 TTGGGGTT-AAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAA-TTTTGGTGAAA
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
* * *
32171400 TCGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT
1 TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTT
32171452 AGAATGTTTA
Statistics
Matches: 398, Mismatches: 55, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
57 52 0.13
58 143 0.36
59 203 0.51
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (59 bp):
TTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA
Found at i:32171070 original size:29 final size:28
Alignment explanation
Indices: 32171038--32171193 Score: 74
Period size: 29 Copynumber: 5.4 Consensus size: 28
32171028 AAACGGTGAT
32171038 TTTTAGTGAAATCGGGGTTAAAAATAGAA
1 TTTT-GTGAAATCGGGGTTAAAAATAGAA
* * *
32171067 TTTTG-GAAAGTTTGGGGGT-AAAATGGTAA
1 TTTTGTGAAA--TCGGGGTTAAAAATAG-AA
*
32171096 TTTTTGGTGAAA-CTGGGGTTAAAAATGGAA
1 -TTTT-GTGAAATC-GGGGTTAAAAATAGAA
* *
32171126 TTTTG-GAAAGTTCAGGGG-TAAAACGGTA-AT
1 TTTTGTGAAA--TC-GGGGTTAAAA--ATAGAA
* *
32171156 TTTTGGTAAAATTGGGGTTAAAAATAGAA
1 TTTT-GTGAAATCGGGGTTAAAAATAGAA
32171185 TTTTG-GAAA
1 TTTTGTGAAA
32171194 GTTTGGGGGT
Statistics
Matches: 96, Mismatches: 14, Indels: 36
0.66 0.10 0.25
Matches are distributed among these distances:
27 11 0.11
28 11 0.11
29 30 0.31
30 27 0.28
31 10 0.10
32 7 0.07
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (28 bp):
TTTTGTGAAATCGGGGTTAAAAATAGAA
Found at i:32171350 original size:117 final size:118
Alignment explanation
Indices: 32170935--32171451 Score: 708
Period size: 116 Copynumber: 4.4 Consensus size: 118
32170925 GAGAAAATTT
** * * *
32170935 GGGGTTAAAAATGGGATTTTGGAAGGTTTGGGGGTAAAACGGTAATTTTTGGTGAAA-TAGAGTT
1 GGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGTT
* * * * *
32170999 AAAAAT-GAGA-TTTGGAAAGCTCGGGGGTAAAACGGTGATTTTTAGTGAAATC
66 AAAAATGGA-ATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATC
*
32171051 GGGGTTAAAAAT-AGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTGGGGT
1 GGGGTTAAAAATGA-AATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGT
*
32171115 TAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATT
65 TAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATC
32171169 GGGGTTAAAAAT-AGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGT
1 GGGGTTAAAAATGA-AATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGT
*
32171233 TAAAAATGGAATTTTGGAAAGTTC-GGGGTAAAACGGTAATTTTTGGTAAAATT
65 TAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATC
** * ** * * * *
32171286 AAGGTTAAAAATGAAATTTTAGAAAGTTTAAGGGTAAAATGGTAATTTTAGGTAAAATTGGGGTT
1 GGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGTT
** *
32171351 -AAAATGGAATTTTGGAAAGTTTGGGGGTAAAACGGTAA-TTTTGGTGAAATC
66 AAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATC
* *
32171402 GGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTT
1 GGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTT
32171452 AGAATGTTTA
Statistics
Matches: 364, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
116 128 0.35
117 110 0.30
118 126 0.35
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (118 bp):
GGGGTTAAAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAACTAGGGTT
AAAAATGGAATTTTGGAAAGTTCAGGGGTAAAACGGTAATTTTTGGTAAAATC
Found at i:32171461 original size:30 final size:28
Alignment explanation
Indices: 32171117--32171464 Score: 142
Period size: 29 Copynumber: 11.9 Consensus size: 28
32171107 ACTGGGGTTA
* *
32171117 AAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGAATTTTAGAAAGTTTAGGGGT
* * *
32171145 AAAACGGTAATTTTTGGTAAA-ATT-GGGGTT
1 AAAATGG-AA-TTTTAG-AAAGTTTAGGGG-T
* * *
32171175 AAAAATAGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTAGAAAGTTTAGGGGT
* * *
32171204 AAAATGGTAATTTTTGGTGAAA--CTAGGGTT
1 AAAATGG-AA-TTTT--AGAAAGTTTAGGGGT
* *
32171234 AAAAATGGAATTTTGGAAAG-TTCGGGGT
1 -AAAATGGAATTTTAGAAAGTTTAGGGGT
* * * * *
32171262 AAAACGGTAATTTTTGGTAAA-ATTAAGGTT
1 AAAATGG-AA-TTTTAG-AAAGTTTAGGGGT
* *
32171292 AAAAATGAAATTTTAGAAAGTTTAAGGGT
1 -AAAATGGAATTTTAGAAAGTTTAGGGGT
*
32171321 AAAATGGTAATTTTAGGTAAA-ATT-GGGGTT
1 AAAATGG-AATTTTA-G-AAAGTTTAGGGG-T
* *
32171351 AAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGAATTTTAGAAAGTTTAGGGGT
* * *
32171379 AAAACGGTAATTTTGGTGAAA---TCGGGGTT
1 AAAATGG-AATTTT--AGAAAGTTTAGGGG-T
*
32171408 AAAAATGGAATTTTGGAAAGTTTAGGGGT
1 -AAAATGGAATTTTAGAAAGTTTAGGGGT
*
32171437 AAAATGGTAATTTTTAGAATGTTTAGGG
1 AAAATGG-AA-TTTTAGAAAGTTTAGGG
32171465 ACCTATAAGC
Statistics
Matches: 248, Mismatches: 37, Indels: 68
0.70 0.10 0.19
Matches are distributed among these distances:
27 17 0.07
28 53 0.21
29 75 0.30
30 72 0.29
31 27 0.11
32 4 0.02
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAAGTTTAGGGGT
Found at i:32173401 original size:17 final size:17
Alignment explanation
Indices: 32173381--32173456 Score: 82
Period size: 17 Copynumber: 4.5 Consensus size: 17
32173371 AATTTATTTT
*
32173381 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
* * **
32173398 TAAATTCAAATTTTATG
1 TAAATTTAAATTTAAAA
*
32173415 TAAATTTAAATTCAAAA
1 TAAATTTAAATTTAAAA
32173432 TAAATTT-AATTTAAAA
1 TAAATTTAAATTTAAAA
32173448 CTAAATTTA
1 -TAAATTTA
32173457 TGTCTTTATT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
16 8 0.17
17 38 0.83
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32175142 original size:25 final size:25
Alignment explanation
Indices: 32175076--32175143 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
32175066 TCTCAAAATT
* *
32175076 TTACCAAGGATAAAATCGTCATAATA
1 TTACC-AGGGTAAAATTGTCATAATA
32175102 TTACCAGGGTAAAATTGTCATAATA
1 TTACCAGGGTAAAATTGTCATAATA
32175127 TTACCAGGGTAAAATTG
1 TTACCAGGGTAAAATTG
32175144 GGATGAGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (25 bp):
TTACCAGGGTAAAATTGTCATAATA
Found at i:32179049 original size:17 final size:17
Alignment explanation
Indices: 32179021--32179064 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
32179011 ATTGCTTTTC
*
32179021 AAAAGCATTTTTGAGAT
1 AAAAGTATTTTTGAGAT
32179038 AAAAAGTATTTTTGAGAT
1 -AAAAGTATTTTTGAGAT
32179056 AAAAGTATT
1 AAAAGTATT
32179065 ACCAAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.36
Consensus pattern (17 bp):
AAAAGTATTTTTGAGAT
Found at i:32179116 original size:12 final size:13
Alignment explanation
Indices: 32179085--32179115 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
32179075 TTGCTTTTGA
32179085 GTTTTTCAAAAGT
1 GTTTTTCAAAAGT
32179098 GTTTTTCAAAAGT
1 GTTTTTCAAAAGT
32179111 GTTTT
1 GTTTT
32179116 CGACACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (13 bp):
GTTTTTCAAAAGT
Found at i:32180140 original size:20 final size:20
Alignment explanation
Indices: 32180093--32180149 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
32180083 AAAAATTATA
* *
32180093 AAAAATTCAAATTAATTTTC
1 AAAAATTTAAATTATTTTTC
*
32180113 AAAAATTTAAATTATTTTTT
1 AAAAATTTAAATTATTTTTC
*
32180133 AAAAATTTAAAATATTT
1 AAAAATTTAAATTATTT
32180150 ATAAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTTAAATTATTTTTC
Found at i:32180215 original size:21 final size:21
Alignment explanation
Indices: 32180191--32180230 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32180181 TTATACAATT
32180191 TTTAAA-AAAATCTAAAAAACA
1 TTTAAAGAAAAT-TAAAAAACA
*
32180212 TTTAAAGAAAGTTAAAAAA
1 TTTAAAGAAAATTAAAAAA
32180231 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (21 bp):
TTTAAAGAAAATTAAAAAACA
Found at i:32180419 original size:31 final size:30
Alignment explanation
Indices: 32180384--32180474 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 30
32180374 TTGGTTCTTG
*
32180384 AACTTGACATTTTTTCCTAATTTAGTACCTA
1 AACTTG-CATTTTTTCCTAATTTGGTACCTA
** * * *
32180415 AACTT---TTTTGGACCCAATTTGGTACTTG
1 AACTTGCATTTT-TTCCTAATTTGGTACCTA
32180443 AACTTGGCATTTTTTCCTAATTTGGTACCTA
1 AACTT-GCATTTTTTCCTAATTTGGTACCTA
32180474 A
1 A
32180475 GCTTTTTTTA
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
27 4 0.09
28 17 0.39
31 19 0.43
32 4 0.09
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (30 bp):
AACTTGCATTTTTTCCTAATTTGGTACCTA
Found at i:32180454 original size:59 final size:58
Alignment explanation
Indices: 32180256--32180501 Score: 314
Period size: 58 Copynumber: 4.2 Consensus size: 58
32180246 TTAATATAAT
* * * *
32180256 ATTTGGTACATGAACTTGACACTTCTTT-CTAATTTGGTACTTAAATTTTTTTGACCCA
1 ATTTGGTACTTGAACTTGACA-TTTTTTCCTAATTTAGTACCTAAATTTTTTTGACCCA
* * *
32180314 ATTTGGTACTTGAACTTGACACTTTTTCCTACTTCAGTACCTAAATTTTTTTGACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTAGTACCTAAATTTTTTTGACCCA
* *
32180372 ATTTGGTTCTTGAACTTGACATTTTTTCCTAATTTAGTACCTAAACTTTTTTGGACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTAGTACCTAAA-TTTTTTTGACCCA
* * * **
32180431 ATTTGGTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAGCTTTTTTTAGATTCA
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTAGTACCTAA-ATTTTTTT-GACCCA
*
32180491 ATTTGGCACTT
1 ATTTGGTACTT
32180502 AAATTTATTA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
57 4 0.02
58 87 0.53
59 59 0.36
60 14 0.09
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.46
Consensus pattern (58 bp):
ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTAGTACCTAAATTTTTTTGACCCA
Found at i:32180471 original size:117 final size:117
Alignment explanation
Indices: 32180256--32180483 Score: 316
Period size: 117 Copynumber: 1.9 Consensus size: 117
32180246 TTAATATAAT
* * *
32180256 ATTTGGTACATGAACTTGACACTTCTTTCTAATTTGGTACTTAAATTTTTTTGACCCAATTTGGT
1 ATTTGGTACATGAACTTGACACTTCTTTCTAATTTAGTACCTAAATTTTTTGGACCCAATTTGGT
*
32180321 ACTTGAACTTGACACTTTTTCCTACTTCAGTACCTAA-ATTTTTTTGACCCA
66 ACTTGAACTTGACACTTTTTCCTAATTCAGTACCTAAGATTTTTTTGACCCA
* * *
32180372 ATTTGGTTCTTGAACTTGACA-TTTTTTCCTAATTTAGTACCTAAACTTTTTTGGACCCAATTTG
1 ATTTGGTACATGAACTTGACACTTCTTT-CTAATTTAGTACCTAAA-TTTTTTGGACCCAATTTG
* * ** *
32180436 GTACTTGAACTTGGCATTTTTTCCTAATTTGGTACCTAAGCTTTTTTT
64 GTACTTGAACTTGACACTTTTTCCTAATTCAGTACCTAAGATTTTTTT
32180484 AGATTCAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
115 5 0.05
116 34 0.35
117 51 0.53
118 7 0.07
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.46
Consensus pattern (117 bp):
ATTTGGTACATGAACTTGACACTTCTTTCTAATTTAGTACCTAAATTTTTTGGACCCAATTTGGT
ACTTGAACTTGACACTTTTTCCTAATTCAGTACCTAAGATTTTTTTGACCCA
Found at i:32184275 original size:25 final size:23
Alignment explanation
Indices: 32184247--32184298 Score: 54
Period size: 23 Copynumber: 2.2 Consensus size: 23
32184237 GTTTAGGTGT
32184247 ATATAAAATTTTAATAAT-ATATATA
1 ATATAAAA-TTTAA-AATAATATA-A
*
32184272 ATAT-TAATTTAAAATAATATAA
1 ATATAAAATTTAAAATAATATAA
32184294 ATATA
1 ATATA
32184299 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
22 8 0.33
23 10 0.42
24 2 0.08
25 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATAAAATTTAAAATAATATAA
Found at i:32184309 original size:23 final size:25
Alignment explanation
Indices: 32184253--32184309 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
32184243 GTGTATATAA
*
32184253 AATTTT-AATAATATATATAATATT
1 AATTTTAAATAATATAAATAATATT
*
32184277 AATTTAAAATAATATAAAT-ATATT
1 AATTTTAAATAATATAAATAATATT
*
32184301 -TTTTTAAAT
1 AATTTTAAAT
32184310 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.25
24 10 0.36
25 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTTAAATAATATAAATAATATT
Found at i:32193552 original size:79 final size:79
Alignment explanation
Indices: 32193435--32193594 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 79
32193425 TCGTGTCCGA
*
32193435 GTCTTTTATTTACTTCTTGTTGTCGTGAGAGTGTCTTGTTGCCCCCATTGGTTGCTGCAACTTTG
1 GTCTTTTATTTACTTCTTGTTGTCGTGAGAGTGTCTTGTTCCCCCCATTGGTTGCTGCAACTTTG
*
32193500 TATGTTGAATGCGT
66 TATATTGAATGCGT
*
32193514 GTCTTTTATTTATTTCTTGTTGTCGTGAGAGTGTCTTGTTCCCCCCATTGGTTGCTGCAACTTTG
1 GTCTTTTATTTACTTCTTGTTGTCGTGAGAGTGTCTTGTTCCCCCCATTGGTTGCTGCAACTTTG
32193579 TATATTGAATGCGT
66 TATATTGAATGCGT
32193593 GT
1 GT
32193595 TTTGATTATG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.46
Consensus pattern (79 bp):
GTCTTTTATTTACTTCTTGTTGTCGTGAGAGTGTCTTGTTCCCCCCATTGGTTGCTGCAACTTTG
TATATTGAATGCGT
Found at i:32194109 original size:16 final size:16
Alignment explanation
Indices: 32194088--32194118 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32194078 ATTTATATTA
*
32194088 AAAATTTATTAATAAC
1 AAAATTAATTAATAAC
32194104 AAAATTAATTAATAA
1 AAAATTAATTAATAA
32194119 TATTTTTGTG
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:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTAATTAATAAC
Found at i:32195126 original size:23 final size:23
Alignment explanation
Indices: 32195096--32195139 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
32195086 TGTTCGACAG
* *
32195096 TGGTATCGCGATACCTCAGGCTT
1 TGGTATCGCAATACCTAAGGCTT
32195119 TGGTATCGCAATACCTAAGGC
1 TGGTATCGCAATACCTAAGGC
32195140 AGTCCTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (23 bp):
TGGTATCGCAATACCTAAGGCTT
Found at i:32199109 original size:21 final size:22
Alignment explanation
Indices: 32199068--32199114 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
32199058 GGAAACCCAA
*
32199068 ATTTATTTTATTTATTTTC-TT
1 ATTTATTTTATTTATTATCTTT
*
32199089 ATTTGTTTTAGTTT-TTATCTTT
1 ATTTATTTTA-TTTATTATCTTT
32199111 ATTT
1 ATTT
32199115 CTATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (22 bp):
ATTTATTTTATTTATTATCTTT
Found at i:32202863 original size:17 final size:17
Alignment explanation
Indices: 32202841--32202874 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32202831 ATTCCAATTG
32202841 AACGCTCGCGCGATGGA
1 AACGCTCGCGCGATGGA
32202858 AACGCTCGCGCGATGGA
1 AACGCTCGCGCGATGGA
32202875 GATCTGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (17 bp):
AACGCTCGCGCGATGGA
Found at i:32205698 original size:107 final size:107
Alignment explanation
Indices: 32205570--32205783 Score: 349
Period size: 107 Copynumber: 2.0 Consensus size: 107
32205560 TAAGAAACTT
*
32205570 AACGGGAAGAAAATATTGGAACCAAAGATATTGAAT-TTTTTGGTTAATGGGTTTTAAAGATTCA
1 AACGGGAAGAAAATATTGGAACCAAAGATATTGAATCTTTTT-GTTAATGAGTTTTAAAGATTCA
* *
32205634 AGCTTTGAGACAGATTTATAACTAAAGATATTGGAATCAAAAG
65 AGCTTTAAGACAGATTTATAACTAAAAATATTGGAATCAAAAG
* *
32205677 AACGGGAATAAAATATTGGAACCAAAGATATTGAATCTTTTTGTTAATGAGTTTTAAATATTCAA
1 AACGGGAAGAAAATATTGGAACCAAAGATATTGAATCTTTTTGTTAATGAGTTTTAAAGATTCAA
* *
32205742 GCTTTAAGACAGATTTGTAACTAAAAATATTGGAATTAAAAG
66 GCTTTAAGACAGATTTATAACTAAAAATATTGGAATCAAAAG
32205784 GAAAGAAGAT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 94 0.95
108 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.32
Consensus pattern (107 bp):
AACGGGAAGAAAATATTGGAACCAAAGATATTGAATCTTTTTGTTAATGAGTTTTAAAGATTCAA
GCTTTAAGACAGATTTATAACTAAAAATATTGGAATCAAAAG
Found at i:32218093 original size:3 final size:3
Alignment explanation
Indices: 32218085--32218110 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32218075 ACACATCAAC
32218085 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
32218111 TATCATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32224216 original size:3 final size:3
Alignment explanation
Indices: 32224203--32224244 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
32224193 TTTTTATTAT
* *
32224203 ATG ATG GTG ATG ATG ATG GTG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
32224245 CAGAAACTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:32224220 original size:12 final size:12
Alignment explanation
Indices: 32224203--32224244 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
32224193 TTTTTATTAT
32224203 ATGATGGTGATG
1 ATGATGGTGATG
32224215 ATGATGGTGATG
1 ATGATGGTGATG
*
32224227 ATGATGATGATG
1 ATGATGGTGATG
32224239 ATGATG
1 ATGATG
32224245 CAGAAACTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (12 bp):
ATGATGGTGATG
Found at i:32234049 original size:25 final size:24
Alignment explanation
Indices: 32234021--32234070 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
32234011 TTTTTTCTGA
32234021 AATTTT-ATGAATTTTTTTATATTTT
1 AATTTTAATGAA-TTTTTTAT-TTTT
*
32234046 AATTTTAATGTATTTTTTATTTTT
1 AATTTTAATGAATTTTTTATTTTT
32234070 A
1 A
32234071 TATTGTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 14 0.61
26 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (24 bp):
AATTTTAATGAATTTTTTATTTTT
Found at i:32234739 original size:8 final size:8
Alignment explanation
Indices: 32234728--32234758 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
32234718 AAAATTTAAA
32234728 AAAATTTT
1 AAAATTTT
32234736 AAAATTTT
1 AAAATTTT
32234744 AAAATTTTT
1 AAAA-TTTT
32234753 AAAATT
1 AAAATT
32234759 ATGAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:32235630 original size:7 final size:7
Alignment explanation
Indices: 32235620--32235664 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
32235610 CAATTTTTTT
32235620 ATTCTCA
1 ATTCTCA
32235627 ATTCTCA
1 ATTCTCA
32235634 ATTCTCA
1 ATTCTCA
32235641 ATTCTCA
1 ATTCTCA
32235648 ATTCTCA
1 ATTCTCA
*
32235655 ATTCCCA
1 ATTCTCA
32235662 ATT
1 ATT
32235665 TATTTTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTCTCA
Found at i:32235646 original size:21 final size:21
Alignment explanation
Indices: 32235593--32235664 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
32235583 GATTTATTTG
* *
32235593 TCTCGATTGTCAATTCTCAATT
1 TCTCAATTCTCAATTCTCAA-T
* **
32235615 TTTTTATTCTCAATTCTCAAT
1 TCTCAATTCTCAATTCTCAAT
32235636 TCTCAATTCTCAATTCTCAAT
1 TCTCAATTCTCAATTCTCAAT
*
32235657 TCCCAATT
1 TCTCAATT
32235665 TATTTTTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 26 0.62
22 16 0.38
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (21 bp):
TCTCAATTCTCAATTCTCAAT
Found at i:32235873 original size:52 final size:52
Alignment explanation
Indices: 32235777--32235876 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
32235767 TTACAAATGG
* * *
32235777 TAAGAAAATATTATTTAATTATTTAATTTTATTCCGTTAATTATTATGATTT
1 TAAGAAAATATTATTAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
*
32235829 TAAGAAAATATTATTAAATTATTTAATTTTAAAT-AGTTAGTTATTATG
1 TAAGAAAATATTATTAAATTATTTAATTTT-AATCAGTTAATTATTATG
32235877 TTGTTCAGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (52 bp):
TAAGAAAATATTATTAAATTATTTAATTTTAATCAGTTAATTATTATGATTT
Found at i:32241172 original size:2 final size:2
Alignment explanation
Indices: 32241165--32241191 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32241155 CAGTTGCTTT
32241165 TA 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 TA T
32241192 TTGTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32246712 original size:11 final size:11
Alignment explanation
Indices: 32246696--32246722 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32246686 AAATGATGTT
32246696 TTTTGTTACTG
1 TTTTGTTACTG
32246707 TTTTGTTACTG
1 TTTTGTTACTG
32246718 TTTTG
1 TTTTG
32246723 ATGTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.19, T:0.67
Consensus pattern (11 bp):
TTTTGTTACTG
Found at i:32247261 original size:18 final size:18
Alignment explanation
Indices: 32247234--32247271 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32247224 TGAATTTTCA
32247234 AATTCAAAT-AACTCGAAT
1 AATTCAAATAAAC-CGAAT
*
32247252 AATTCGAATAAACCGAAT
1 AATTCAAATAAACCGAAT
32247270 AA
1 AA
32247272 AACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (18 bp):
AATTCAAATAAACCGAAT
Found at i:32248847 original size:27 final size:27
Alignment explanation
Indices: 32248808--32248868 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
32248798 AAAAGTTGAT
** *
32248808 AAAAAAATTTTGGGCCCTTAAAAATTA
1 AAAAAAAAATTGGGCCCTTAAAAACTA
32248835 AAAAAAAAATTGGGCCCTTAAAAACTA
1 AAAAAAAAATTGGGCCCTTAAAAACTA
32248862 AAAAAAA
1 AAAAAAA
32248869 TAAAATTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.21
Consensus pattern (27 bp):
AAAAAAAAATTGGGCCCTTAAAAACTA
Found at i:32257404 original size:6 final size:6
Alignment explanation
Indices: 32257382--32257415 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
32257372 GACACACAAC
32257382 AAAAGA AAAA-A AGAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAA
32257416 ATATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.08
6 22 0.85
7 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:32262743 original size:6 final size:6
Alignment explanation
Indices: 32262732--32262757 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32262722 TTTAATTTAC
32262732 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
32262758 TTAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Done.