Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 47 of 210
Found at i:14537962 original size:27 final size:27
Alignment explanation
Indices: 14537859--14537975 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
14537849 GTGTATTTCG
* * **
14537859 GTCATTTTACCCTTCGGGGGTTATTTTG
1 GTCATTTTACCCTTCGGAGG-TAATTCA
** *
14537887 GTCATTTTACAATTC-AAGGGTAATTCA
1 GTCATTTTACCCTTCGGA-GGTAATTCA
* *
14537914 GTCATTTTACCCTTTGGTGGTAATTCA
1 GTCATTTTACCCTTCGGAGGTAATTCA
14537941 GTCATTTTACCCTTCGGAGGTAATTCA
1 GTCATTTTACCCTTCGGAGGTAATTCA
*
14537968 GTTATTTT
1 GTCATTTT
14537976 TTGGCCCAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
27 57 0.79
28 15 0.21
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGGAGGTAATTCA
Found at i:14539950 original size:21 final size:22
Alignment explanation
Indices: 14539921--14539966 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
14539911 TAGGCCCGAA
*
14539921 TTTGACGTGTCACGTTGAAGTG
1 TTTGACGTGTCACATTGAAGTG
14539943 TTTG-CGTGTCACATTGAAGTG
1 TTTGACGTGTCACATTGAAGTG
14539964 TTT
1 TTT
14539967 TTTGAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.41
Consensus pattern (22 bp):
TTTGACGTGTCACATTGAAGTG
Found at i:14540558 original size:28 final size:28
Alignment explanation
Indices: 14540514--14540579 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
14540504 CTATTCAGTG
*
14540514 ACAGT-ACAGTGCGGGCCTTAGCCCAAT
1 ACAGTAACAGTGCAGGCCTTAGCCCAAT
*
14540541 ACAGTAACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGCAGGCCTTAGCCCAAT
*
14540569 ACAGTAGCAGT
1 ACAGTAACAGT
14540580 ACAGTGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
ACAGTAACAGTGCAGGCCTTAGCCCAAT
Found at i:14540586 original size:33 final size:31
Alignment explanation
Indices: 14540515--14540588 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 31
14540505 TATTCAGTGA
**
14540515 CAGTACAGTGCGGGCCTTAGCCCAATACAGT
1 CAGTACAGTGTAGGCCTTAGCCCAATACAGT
14540546 -A--ACAGTGTAGGCCTTAGCCCAATACAGT
1 CAGTACAGTGTAGGCCTTAGCCCAATACAGT
14540574 AGCAGTACAGTGTAG
1 --CAGTACAGTGTAG
14540589 TGATGCAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
28 25 0.69
30 1 0.03
31 1 0.03
33 9 0.25
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (31 bp):
CAGTACAGTGTAGGCCTTAGCCCAATACAGT
Found at i:14541121 original size:81 final size:81
Alignment explanation
Indices: 14540996--14541239 Score: 234
Period size: 80 Copynumber: 3.0 Consensus size: 81
14540986 CGACTCCTAA
* *
14540996 GGGTATATTAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTC-GGTGATATTTTG
1 GGGTATATTAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTCAGGTG-TAATTCG
14541060 GTCATTTTTCTCTTTTG
65 GTCATTTTTCTCTTTTG
* * * *
14541077 GGGTAT-TTCAGTCATTTTATCCTTTAGGTGTAATTT-GGTCATTTTACCCTTCAGGTGTAATTC
1 GGGTATATT-AGTCATTTTACCCTATAGGGGT-ATTTCAGTCATTTTACCCTTCAGGTGTAATTC
* * *
14541140 GGTCATTTTAC-CCTTCG
64 GGTCATTTTTCTCTTTTG
* * * * * * *
14541157 GGGCTA-ATTCGATCA-TTTACCCT-TCGGGGGTAATTCGGTCATTTTACCCTTTAAGAGTAATT
1 GGG-TATATTAG-TCATTTTACCCTAT-AGGGGTATTTCAGTCATTTTACCCTTCAGGTGTAATT
14541219 CGGTCATTTTTC-CTTTTG
63 CGGTCATTTTTCTCTTTTG
14541237 GGG
1 GGG
14541240 GTAATACTAA
Statistics
Matches: 135, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
79 4 0.03
80 62 0.46
81 61 0.45
82 8 0.06
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGGTATATTAGTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTTCAGGTGTAATTCGG
TCATTTTTCTCTTTTG
Found at i:14541195 original size:53 final size:53
Alignment explanation
Indices: 14541007--14541316 Score: 210
Period size: 54 Copynumber: 5.6 Consensus size: 53
14540997 GGTATATTAG
* * * * * * *
14541007 TCATTTTACCCTAT-AGGGGTATTTCAGTCATTTTACCCTTCGGTGATATTTTGG
1 TCATTTTACCCT-TCGGGGGTAATTCGGTCATTTTACCCTTCGG-GGTAATTCGA
* * ** * * * * * * *
14541061 TCATTTTTCTCTTTTGGGGTATTTCAGTCATTTTATCCTTTAGGTGTAATTTGG
1 TCATTTTACCCTTCGGGGGTAATTCGGTCATTTTA-CCCTTCGGGGTAATTCGA
* *
14541115 TCATTTTACCCTTCAGGTGTAATTCGGTCATTTTACCCTTCGGGGCTAATTCGA
1 TCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGG-TAATTCGA
** * *
14541169 TCA-TTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTTAAGAGTAATTCGG
1 TCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCC-TTCGGGGTAATTCGA
* * * * * *
14541222 TCATTTTTCCTTTTGGGGGTAATACTAATTTCAGTCATTTTATCCTTCGAGGGTAATTCTA
1 TCATTTTACCCTTCGGGGG------TAA-TTCGGTCATTTTACCCTTCG-GGGTAATTCGA
*
14541283 TCATTTTATCCTTCGGGGGTAATTCGGTCATTTT
1 TCATTTTACCCTTCGGGGGTAATTCGGTCATTTT
14541317 TTGACCGAAG
Statistics
Matches: 202, Mismatches: 41, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
53 50 0.25
54 101 0.50
55 9 0.04
60 5 0.02
61 37 0.18
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (53 bp):
TCATTTTACCCTTCGGGGGTAATTCGGTCATTTTACCCTTCGGGGTAATTCGA
Found at i:14541216 original size:27 final size:27
Alignment explanation
Indices: 14541006--14541244 Score: 205
Period size: 27 Copynumber: 8.9 Consensus size: 27
14540996 GGGTATATTA
* * *
14541006 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTAATTCG
* * * *
14541033 GTCATTTTACCC-TTCGGTGATATTTTG
1 GTCATTTTACCCTTTAGG-GGTAATTCG
* * * * *
14541060 GTCATTTTTCTCTTTTGGGGTATTTCA
1 GTCATTTTACCCTTTAGGGGTAATTCG
* * *
14541087 GTCATTTTATCCTTTAGGTGTAATTTG
1 GTCATTTTACCCTTTAGGGGTAATTCG
* *
14541114 GTCATTTTACCCTTCAGGTGTAATTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
*
14541141 GTCATTTTACCC-TTCGGGGCTAATTCG
1 GTCATTTTACCCTTTAGGGG-TAATTCG
* **
14541168 ATCA-TTTACCCTTCGGGGGTAATTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
* *
14541194 GTCATTTTACCCTTTAAGAGTAATTCG
1 GTCATTTTACCCTTTAGGGGTAATTCG
* * *
14541221 GTCATTTTTCCTTTTGGGGGTAAT
1 GTCATTTTACCCTTTAGGGGTAAT
14541245 ACTAATTTCA
Statistics
Matches: 169, Mismatches: 38, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
26 24 0.14
27 141 0.83
28 4 0.02
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTAATTCG
Found at i:14541286 original size:27 final size:27
Alignment explanation
Indices: 14541256--14541316 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
14541246 CTAATTTCAG
*
14541256 TCATTTTATCCTTCGAGGGTAATTCTA
1 TCATTTTATCCTTCGAGGGTAATTCGA
* *
14541283 TCATTTTATCCTTCGGGGGTAATTCGG
1 TCATTTTATCCTTCGAGGGTAATTCGA
14541310 TCATTTT
1 TCATTTT
14541317 TTGACCGAAG
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:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (27 bp):
TCATTTTATCCTTCGAGGGTAATTCGA
Found at i:14547934 original size:19 final size:21
Alignment explanation
Indices: 14547910--14547952 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
14547900 TTTTAATATT
*
14547910 TTATTTAATT-TAT-TCCTAA
1 TTATTTAATTATATAACCTAA
14547929 TTATTTAATTATATAACCTAA
1 TTATTTAATTATATAACCTAA
14547950 TTA
1 TTA
14547953 CGGTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTAATTATATAACCTAA
Found at i:14551839 original size:79 final size:79
Alignment explanation
Indices: 14551700--14551883 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 79
14551690 CATGATTCAG
* *
14551700 GTGGATCAGCTCTTATGAGCTTCTGTTGGCATTTTTTGAGTGGACCAGCTCTTATAAGCTTCTG-
1 GTGGAACAGCTCTTATGAGCTTCTGTTGGCATATTTTGAGTGGACCAGCTCTTATAAGCTTCTGT
14551764 TTGGCATGTTTCTA
66 TTGGCATGTTTCTA
* * * ** *
14551778 GTGGAACAGCTCTTATGAGGTTCTATTTGGCGTATTTTG-GTTGGATTAGCTCTTATGAGCTTCT
1 GTGGAACAGCTCTTATGAGCTTCT-GTTGGCATATTTTGAG-TGGACCAGCTCTTATAAGCTTCT
* *
14551842 GTTTGGCGTGTTTCGA
64 GTTTGGCATGTTTCTA
* * **
14551858 TTAGATTAGCTCTTATGAGCTTCTGT
1 GTGGAACAGCTCTTATGAGCTTCTGT
14551884 CTGGTGTGTT
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
78 23 0.26
79 33 0.38
80 31 0.36
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (79 bp):
GTGGAACAGCTCTTATGAGCTTCTGTTGGCATATTTTGAGTGGACCAGCTCTTATAAGCTTCTGT
TTGGCATGTTTCTA
Found at i:14551882 original size:40 final size:40
Alignment explanation
Indices: 14551700--14551893 Score: 196
Period size: 40 Copynumber: 4.9 Consensus size: 40
14551690 CATGATTCAG
* * *
14551700 GTGGATCAGCTCTTATGAGCTTCTG-TTGGCATTTTTTGA
1 GTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
* * * *
14551739 GTGGACCAGCTCTTATAAGCTTCTG-TTGGCATGTTTCTA
1 GTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
* * * * *
14551778 GTGGAACAGCTCTTATGAGGTTCTATTTGGCGTATTTTG-
1 GTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
*
14551817 GTTGGATTAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
1 G-TGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
* * * * *
14551858 TTAGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTT
1 GTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTT
14551894 CGGTTGATCT
Statistics
Matches: 129, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 56 0.43
40 73 0.57
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (40 bp):
GTGGATCAGCTCTTATGAGCTTCTGTTTGGCGTGTTTCGA
Found at i:14553399 original size:31 final size:31
Alignment explanation
Indices: 14553364--14553464 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
14553354 GTATGAATGC
14553364 TTGGTTGTGATTGAGGTGCCTAAATGACATA
1 TTGGTTGTGATTGAGGTGCCTAAATGACATA
* * ***** *
14553395 TTGGTTG-AATGGATAAATCTAAGTATGA-ATGC
1 TTGGTTGTGATTGAGGTGCCTAA--ATGACAT-A
*
14553427 TTGGTTGTGATTGAGGTGCCTAAATGGCATA
1 TTGGTTGTGATTGAGGTGCCTAAATGACATA
14553458 TTGGTTG
1 TTGGTTG
14553465 AATGGACTTA
Statistics
Matches: 48, Mismatches: 17, Indels: 10
0.64 0.23 0.13
Matches are distributed among these distances:
30 8 0.17
31 19 0.40
32 13 0.27
33 8 0.17
ACGTcount: A:0.26, C:0.08, G:0.30, T:0.37
Consensus pattern (31 bp):
TTGGTTGTGATTGAGGTGCCTAAATGACATA
Found at i:14553450 original size:63 final size:63
Alignment explanation
Indices: 14553346--14553470 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
14553336 ATTTTGATGC
*
14553346 AAATGTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGACATATTGGTTGAATGGAT
1 AAATCTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGACATATTGGTTGAATGGAT
*
14553409 AAATCTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGGCATATTGGTTGAATGGA
1 AAATCTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGACATATTGGTTGAATGGA
14553471 CTTATAGTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.34
Consensus pattern (63 bp):
AAATCTAAGTATGAATGCTTGGTTGTGATTGAGGTGCCTAAATGACATATTGGTTGAATGGAT
Found at i:14563370 original size:10 final size:11
Alignment explanation
Indices: 14563343--14563376 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
14563333 TTTAATTAAT
14563343 AATTTTTTACA
1 AATTTTTTACA
14563354 AATTTTTTACA
1 AATTTTTTACA
14563365 AA-TTTTTACA
1 AATTTTTTACA
14563375 AA
1 AA
14563377 GTATTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTTTTACA
Found at i:14563777 original size:14 final size:15
Alignment explanation
Indices: 14563758--14563797 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
14563748 CCTATCTCGC
14563758 TTCTTTTTCTTTTG-
1 TTCTTTTTCTTTTGT
*
14563772 TTCTTTTTTTTTTGT
1 TTCTTTTTCTTTTGT
*
14563787 TTGTTTTTCTT
1 TTCTTTTTCTT
14563798 GACAGACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.82
Consensus pattern (15 bp):
TTCTTTTTCTTTTGT
Found at i:14565866 original size:21 final size:23
Alignment explanation
Indices: 14565842--14565884 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
14565832 AAACAAGTGA
14565842 TTTAATAG-CTAAA-AAC-TTAGT
1 TTTAA-AGACTAAATAACATTAGT
14565863 TTTAAAGACTAAATAACATTAG
1 TTTAAAGACTAAATAACATTAG
14565885 AAACTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.11
21 10 0.53
22 3 0.16
23 4 0.21
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (23 bp):
TTTAAAGACTAAATAACATTAGT
Found at i:14567653 original size:21 final size:21
Alignment explanation
Indices: 14567614--14567652 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14567604 TTTTCACCCC
*
14567614 AAATGAAAATGCTAAAAAACA
1 AAATGAAAAAGCTAAAAAACA
14567635 AAAT-AAAAAGCTAAAAAA
1 AAATGAAAAAGCTAAAAAA
14567653 AATCATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.13
Consensus pattern (21 bp):
AAATGAAAAAGCTAAAAAACA
Found at i:14570170 original size:39 final size:39
Alignment explanation
Indices: 14570127--14570330 Score: 146
Period size: 39 Copynumber: 5.2 Consensus size: 39
14570117 CAAATATTAA
* * *
14570127 TAAAATTCCTATTGGGAAATCAATTTTGTAACTAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* * * * * *
14570166 TAAAATTCTTAATAGGAAACCATAATCTCTCAACT-ACTAA
1 TAAAATTCTTATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
14570206 TAAAATTCTTATTGGAAAATCAATTTTTTAACCAAATAC
1 TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
* * *
14570245 TAAAATTCTTAATT-GGAAACCATAATCTCTCAACT-ATTAC
1 TAAAATTCTT-ATTGGGAAACCA-ATTTTCT-AACTAAATAC
* * * *
14570285 TATAATTAC-TATTGGAAAACCAATTTTGTAACAAAATAC
1 TAAAATT-CTTATTGGGAAACCAATTTTCTAACTAAATAC
14570324 TAAAATT
1 TAAAATT
14570331 ATTTTTGAAA
Statistics
Matches: 122, Mismatches: 34, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
38 6 0.05
39 58 0.48
40 50 0.41
41 8 0.07
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (39 bp):
TAAAATTCTTATTGGGAAACCAATTTTCTAACTAAATAC
Found at i:14570207 original size:79 final size:79
Alignment explanation
Indices: 14570077--14570330 Score: 339
Period size: 79 Copynumber: 3.2 Consensus size: 79
14570067 TTTATAAAAA
* * ** * *
14570077 AACTCAAATACTAAAATTCTTATTA-TAAAATATAATGTCTCAAATATTAATAAAATTCCTATTG
1 AACT-AAATACTAAAATTCTTAATAGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTG
*
14570141 GGAAATCAATTTTGT
65 GAAAATCAATTTTGT
* *
14570156 AACTAAATACTAAAATTCTTAATAGGAAACCATAATCTCTCAACTACTAATAAAATTCTTATTGG
1 AACTAAATACTAAAATTCTTAATAGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGG
*
14570221 AAAATCAATTTTTT
66 AAAATCAATTTTGT
* * * * *
14570235 AACCAAATACTAAAATTCTTAATTGGAAACCATAATCTCTCAACTATTACTATAATTACTATTGG
1 AACTAAATACTAAAATTCTTAATAGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGG
*
14570300 AAAACCAATTTTGT
66 AAAATCAATTTTGT
*
14570314 AACAAAATACTAAAATT
1 AACTAAATACTAAAATT
14570331 ATTTTTGAAA
Statistics
Matches: 154, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
78 19 0.12
79 135 0.88
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.35
Consensus pattern (79 bp):
AACTAAATACTAAAATTCTTAATAGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGG
AAAATCAATTTTGT
Found at i:14570286 original size:40 final size:40
Alignment explanation
Indices: 14570156--14570291 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
14570146 TCAATTTTGT
*
14570156 AACTAAATACTAAAATTCTTAATAGGAAACCATAATCTCTC
1 AACT-AATACTAAAATTCTTAATTGGAAACCATAATCTCTC
* * * * *
14570197 AACTACTAATAAAATTCTT-ATTGGAAA--ATCAATTTTTT
1 AACTAATACTAAAATTCTTAATTGGAAACCAT-AATCTCTC
*
14570235 AACCAAATACTAAAATTCTTAATTGGAAACCATAATCTCTC
1 AA-CTAATACTAAAATTCTTAATTGGAAACCATAATCTCTC
* *
14570276 AACTATTACTATAATT
1 AACTAATACTAAAATT
14570292 ACTATTGGAA
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 2 0.03
38 7 0.09
39 21 0.28
40 32 0.43
41 11 0.15
42 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (40 bp):
AACTAATACTAAAATTCTTAATTGGAAACCATAATCTCTC
Found at i:14570416 original size:23 final size:24
Alignment explanation
Indices: 14570372--14570417 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14570362 CTTTGTAAAA
*
14570372 AAAAATTAAAAAAATTTGTTAATT
1 AAAAATTAAAAAAATTTATTAATT
* *
14570396 AAAAATT-ATAAATTTTATTAAT
1 AAAAATTAAAAAAATTTATTAAT
14570418 GATATGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
AAAAATTAAAAAAATTTATTAATT
Found at i:14570439 original size:24 final size:26
Alignment explanation
Indices: 14570411--14570466 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
14570401 TTATAAATTT
*
14570411 TATTAA-TGATATG-ATTTTTAAAAA
1 TATTAATTAATATGCATTTTTAAAAA
*
14570435 TATTAATTAATGTGCATTTTTAAAAA
1 TATTAATTAATATGCATTTTTAAAAA
*
14570461 TTTTAA
1 TATTAA
14570467 CTTGTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 5 0.19
26 16 0.59
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (26 bp):
TATTAATTAATATGCATTTTTAAAAA
Found at i:14574117 original size:24 final size:24
Alignment explanation
Indices: 14574090--14574138 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14574080 ATATGAATGA
14574090 CTTGTGTATAAATTGGTCATATGC
1 CTTGTGTATAAATTGGTCATATGC
14574114 CTTGTGTATAAATTGGTCATATGC
1 CTTGTGTATAAATTGGTCATATGC
14574138 C
1 C
14574139 CGATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (24 bp):
CTTGTGTATAAATTGGTCATATGC
Found at i:14574480 original size:51 final size:51
Alignment explanation
Indices: 14574404--14574565 Score: 306
Period size: 51 Copynumber: 3.2 Consensus size: 51
14574394 CTGATCAATA
14574404 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
14574455 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* *
14574506 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAATGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
14574557 ACAAGTGAT
1 ACAAGTGAT
14574566 GTGATATGTG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:14579238 original size:40 final size:39
Alignment explanation
Indices: 14579036--14579294 Score: 163
Period size: 39 Copynumber: 6.6 Consensus size: 39
14579026 AAAAAACCCA
** * *
14579036 AATACTAAAATTCTTATTATAAACTATAATATCTCAACT
1 AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
* * * * * * * *
14579075 ATTAATAAAATTCCTATAGGGAAATCA-ATTTTGT-AACT
1 AATACTAAAATTCTTAT-TGGAAACCATAATCTCTCAACT
*
14579113 AAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACT
1 -AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
* * * * *
14579153 ACTAATAAAATTCTTATTGGAAA--ATCAAT-TTTGTAACCA
1 AATACTAAAATTCTTATTGGAAACCAT-AATCTCT-CAA-CT
*
14579192 AATACTAAAATTCTTAATTGGAAACCATAGTCTCTCAACT
1 AATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACT
* * * * * * *
14579232 ATTACTATAATTCCTATTGGAAAACCA-ATTTTGT-AACAA
1 AATACTAAAATTCTTATTGG-AAACCATAATCTCTCAAC-T
14579271 AATACTAAAATTCTTATTGGAAAC
1 AATACTAAAATTCTTATTGGAAAC
14579295 ACAACTTTGT
Statistics
Matches: 165, Mismatches: 42, Indels: 27
0.71 0.18 0.12
Matches are distributed among these distances:
37 4 0.02
38 23 0.14
39 95 0.58
40 35 0.21
41 4 0.02
42 4 0.02
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (39 bp):
AATACTAAAATTCTTATTGGAAACCATAATCTCTCAACT
Found at i:14579253 original size:79 final size:78
Alignment explanation
Indices: 14579033--14579294 Score: 380
Period size: 78 Copynumber: 3.3 Consensus size: 78
14579023 ATAAAAAAAC
** * * * *
14579033 CCAAATACTAAAATTCTTATTATAAACTATAATATCTCAACTATTAATAAAATTCCTATAGGGAA
1 CCAAATACTAAAATTCTTATTGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGAAA
14579098 ATCAATTTTGTAA
66 ATCAATTTTGTAA
* * * *
14579111 CTAAATACTAAAATTCTTAATGGAAACCATAATCTCTCAACTACTAATAAAATTCTTATTGGAAA
1 CCAAATACTAAAATTCTTATTGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGAAA
14579176 ATCAATTTTGTAA
66 ATCAATTTTGTAA
* * *
14579189 CCAAATACTAAAATTCTTAATTGGAAACCATAGTCTCTCAACTATTACTATAATTCCTATTGGAA
1 CCAAATACTAAAATTCTT-ATTGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGAA
*
14579254 AACCAATTTTGTAA
65 AATCAATTTTGTAA
*
14579268 CAAAATACTAAAATTCTTATTGGAAAC
1 CCAAATACTAAAATTCTTATTGGAAAC
14579295 ACAACTTTGT
Statistics
Matches: 164, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 94 0.57
79 70 0.43
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.34
Consensus pattern (78 bp):
CCAAATACTAAAATTCTTATTGGAAACCATAATCTCTCAACTATTAATAAAATTCCTATTGGAAA
ATCAATTTTGTAA
Found at i:14579890 original size:2 final size:2
Alignment explanation
Indices: 14579878--14579914 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
14579868 TTTATTAACC
14579878 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14579915 TCTAATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14581321 original size:2 final size:2
Alignment explanation
Indices: 14581316--14581340 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14581306 ATATATATAT
14581316 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
14581341 ACTCATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14588812 original size:41 final size:40
Alignment explanation
Indices: 14588762--14588936 Score: 147
Period size: 41 Copynumber: 4.3 Consensus size: 40
14588752 ATTTATAGAA
* **
14588762 CATAGAGCCTTGTATAAAACACCGGCATAAAGCCTGCTAGG
1 CATAAAGCC-TGTATAATTCACCGGCATAAAGCCTGCTAGG
* * * *
14588803 CACAAAGCCTG-ATACATTTCACCGGCACAAAGTCTGCTAGA
1 CATAAAGCCTGTATA-A-TTCACCGGCATAAAGCCTGCTAGG
* *
14588844 CATAAAGTCTGATATAATTCACCGGCACT-GAGCCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCA-TAAAGCCTGCTAGG
* * * * *
14588885 CATAAAGCCTGATGTAATCCACCGACATCAAGTCTGCTAGG
1 CATAAAGCCTG-TATAATTCACCGGCATAAAGCCTGCTAGG
*
14588926 CATTAAGCCTG
1 CATAAAGCCTG
14588937 AAAATCTCAA
Statistics
Matches: 108, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 4 0.04
41 97 0.90
42 1 0.01
43 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (40 bp):
CATAAAGCCTGTATAATTCACCGGCATAAAGCCTGCTAGG
Found at i:14589157 original size:61 final size:64
Alignment explanation
Indices: 14589122--14589244 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 64
14589112 TTTTGAACCA
* *
14589122 CATATGTATGTGAAATTCATACATTAAATTCAGCTC-AAGAACTTGAAATATATATATATTCGAA
1 CATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAGAACTTG--ATATACATATATTCGAA
14589186 C
64 C
*
14589187 CATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAGAACTT-ATAT-CATACATTC
1 CATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAGAACTTGATATACATATATTC
14589245 AAACTTTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 7 0.13
63 4 0.07
65 35 0.65
66 8 0.15
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.34
Consensus pattern (64 bp):
CATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAGAACTTGATATACATATATTCGAAC
Found at i:14596549 original size:59 final size:60
Alignment explanation
Indices: 14596451--14596587 Score: 204
Period size: 59 Copynumber: 2.3 Consensus size: 60
14596441 CAAAATTTTT
* * ** * **
14596451 GGGGCCAAAACGTAATTTAGAGAAAGTTTAGGGGTTGAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTTGAAATGTAATTTCAAAAAAGTACA
14596511 GGGGTCAAAATGTAATTTAGA-AAAGTTTAGGGGTTGAAATGTAATTTCAAAAAAGTACA
1 GGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTTGAAATGTAATTTCAAAAAAGTACA
14596570 GGGGTCAAAATGTAATTT
1 GGGGTCAAAATGTAATTT
14596588 TTTTAATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 51 0.73
60 19 0.27
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.30
Consensus pattern (60 bp):
GGGGTCAAAATGTAATTTAGAGAAAGTTTAGGGGTTGAAATGTAATTTCAAAAAAGTACA
Found at i:14596550 original size:29 final size:30
Alignment explanation
Indices: 14596451--14596587 Score: 161
Period size: 30 Copynumber: 4.6 Consensus size: 30
14596441 CAAAATTTTT
* *
14596451 GGGGCCAAAACGTAATTTAGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTAGAGAAAGTTTA
** *
14596481 GGGGTTGAAATGTAATTTTGAGAAAGTTTA
1 GGGGTCAAAATGTAATTTAGAGAAAGTTTA
14596511 GGGGTCAAAATGTAATTTAGA-AAAGTTTA
1 GGGGTCAAAATGTAATTTAGAGAAAGTTTA
** * **
14596540 GGGGTTGAAATGTAATTTCA-AAAAAGTACA
1 GGGGTCAAAATGTAATTT-AGAGAAAGTTTA
14596570 GGGGTCAAAATGTAATTT
1 GGGGTCAAAATGTAATTT
14596588 TTTTAATTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
29 25 0.27
30 66 0.73
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.30
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTAGAGAAAGTTTA
Found at i:14596600 original size:10 final size:10
Alignment explanation
Indices: 14596585--14596609 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14596575 CAAAATGTAA
14596585 TTTTTTTAAT
1 TTTTTTTAAT
14596595 TTTTTTTAAT
1 TTTTTTTAAT
14596605 TTTTT
1 TTTTT
14596610 AACACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTAAT
Found at i:14596759 original size:24 final size:25
Alignment explanation
Indices: 14596709--14596765 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 25
14596699 ATAACCCAAC
14596709 ATTATAAATTTTGTTATTATATAATA
1 ATTATAAATTTTGTTA-TATATAATA
14596735 ATTATATAATTTT-TTA-ATATAATA
1 ATTATA-AATTTTGTTATATATAATA
14596759 ATT-TAAA
1 ATTATAAA
14596766 AATATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.07
23 2 0.07
24 11 0.37
26 9 0.30
27 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATAAATTTTGTTATATATAATA
Found at i:14602226 original size:13 final size:13
Alignment explanation
Indices: 14602209--14602252 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
14602199 TATCATTTTG
*
14602209 ATAAAAATATTAG
1 ATAAAAATATTAA
14602222 ATAAAAA-A-TAA
1 ATAAAAATATTAA
*
14602233 ATATAAATATTAA
1 ATAAAAATATTAA
14602246 ATAAAAA
1 ATAAAAA
14602253 AACTGCAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAAATATTAA
Found at i:14605909 original size:3 final size:3
Alignment explanation
Indices: 14605879--14605933 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
14605869 TGAATATGAA
* * *
14605879 AAT AAA AAT AAA AAT AAA AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
14605925 AAT AAT AAT
1 AAT AAT AAT
14605934 GATACAAGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:14606411 original size:22 final size:21
Alignment explanation
Indices: 14606386--14606452 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 21
14606376 TACAAATTAA
*
14606386 ATCTTTAAGATTACAAAATCAT
1 ATCTTTAAGATTAC-ATATCAT
* *
14606408 ATCTTCTAAGATTGCTTATCAT
1 ATCTT-TAAGATTACATATCAT
14606430 ATC--TAAGATTACATATCAT
1 ATCTTTAAGATTACATATCAT
14606449 ATCT
1 ATCT
14606453 AAAATTGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 17 0.45
22 13 0.34
23 8 0.21
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTTTAAGATTACATATCAT
Found at i:14606436 original size:19 final size:19
Alignment explanation
Indices: 14606412--14606462 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
14606402 AATCATATCT
*
14606412 TCTAAGATTGCTTATCATA
1 TCTAAGATTGCATATCATA
*
14606431 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
14606450 TCTAAAATTGCAT
1 TCTAAGATTGCAT
14606463 CTCCTTGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14607061 original size:45 final size:44
Alignment explanation
Indices: 14606966--14607816 Score: 342
Period size: 44 Copynumber: 19.6 Consensus size: 44
14606956 TTCTAATCCA
* * ** * *
14606966 CTCCACTGTAACTTTAGGGAGATGGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTT-CTTAGTCTG
* * *
14607010 CCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
* * ** * *
14607055 CTCCACTGCAACTTCAGAGAGATAATACCCGA--TGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * **
14607096 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
14607139 CTCCACTGCAACTTCAAGGAGATAGGA-TT-ATTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
***
14607183 CTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GATTTCTT-AGTCTG
* * * *
14607228 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * * *
14607272 CTCCACTGTAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * * * *
14607313 CT-CTCTGTAACTTCAGAGAGATAAAATCTGTGA-TT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * *
14607356 CTCCACTGCGACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * * * *
14607400 CTCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCTTGGGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTT-AGTCTG
* * * * * * *
14607445 CTCCACTACATCTTCAGGTAGATAAGACCTGA-TGC-GA-TTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* ** * * **
14607486 CT-CTCTATAACTTCAGAGAGATAAGATCTGTGA-TT-TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
* * * * *
14607529 CTCCACTGCAACTTCAAGGAGATAGGA-TT-ATTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* * *
14607573 CTCCACTGTAACTTCAGGGAGATAAGA-TTCGCCATAT-TTAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTTCTTAGTCTG
** * * *
14607618 C-CTCACAACAACTTCA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTTCTTAGTCTG
* * *
14607662 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
* * * *
14607703 CT-CTCTGCAACTTTAGAGAGATAAGATCTGTGA-TT-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTTCTTAGTCTG
** * * * *
14607746 CTCCACTGTGACTTTAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-TC-TTAGTCTG
* *
14607790 CCCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
14607817 TTCGCCATCT
Statistics
Matches: 601, Mismatches: 147, Indels: 118
0.69 0.17 0.14
Matches are distributed among these distances:
40 87 0.14
41 36 0.06
42 24 0.04
43 26 0.04
44 295 0.49
45 125 0.21
46 6 0.01
48 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTTCTTAGTCTG
Found at i:14607327 original size:173 final size:171
Alignment explanation
Indices: 14607174--14607604 Score: 492
Period size: 173 Copynumber: 2.5 Consensus size: 171
14607164 GATTATTAGC
* * *
14607174 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGC-CTCACTACA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTCGCC-T-TT-AATCTGCTC-CACTACA
* * * **
14607238 ACTTCAG-GAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-C
62 ACTTCAGAGA-GATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACC
* *
14607300 TAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAAATCTGTGAT
126 T-GATGCGATCTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGAT
* * * *
14607347 TTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TCGCCTTTAATCTGCTCCACTACAAC
* * * *
14607412 TTCAGAGAGATAAGACTCGCTTTCTTGGGTCTACTCCACTACATCTTCAGGTAGATAAGACCTGA
64 TTCAGAGAGATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCTGA
*
14607477 TGCGATTTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGAT
129 TGCGATCTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGAT
* * * * * **
14607520 TTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGTAAC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-T-TCGCCTTTAATCTGCTCCACTACAAC
* *
14607585 TTCAGGGAGATAAGATTCGC
64 TTCAGAGAGATAAGACTCGC
14607605 CATATTTAGT
Statistics
Matches: 226, Mismatches: 26, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
172 34 0.15
173 185 0.82
174 4 0.02
175 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (171 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTCGCCTTTAATCTGCTCCACTACAACTT
CAGAGAGATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGACCTGATG
CGATCTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGAT
Found at i:14607344 original size:217 final size:218
Alignment explanation
Indices: 14607004--14607477 Score: 664
Period size: 217 Copynumber: 2.2 Consensus size: 218
14606994 TTGTTTATTT
* * * *
14607004 AGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTGCTCCACTGCAACTT
1 AGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTT
* * * *
14607069 CAGAGAGATAATACCCGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
66 CAGAGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTGTGATTTTA
14607134 ATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACTTCA
131 ATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACTTCA
* *
14607199 GGGAGATAAGATTCGCCATCTTC
196 GAGAGATAAGACTCGCCATCTTC
* * * *
14607222 AGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTGTAACTT
1 AGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTT
* * *
14607286 CAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAAATCTGTGATTTTA
66 CAGAGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTGTGATTTTA
* * * *
14607351 ATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA
131 ATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACTTCA
** *
14607416 GAGAGATAAGACTCGCTTTCTTG
196 GAGAGATAAGACTCGCCATCTTC
* * * * *
14607439 GGTCTACTCCACTACATCTTCAGGTA-GATAAGACCTGAT
1 AGTCTGCCCCACTACAACTTCAGG-AGGATAAGACTTGAT
14607478 GCGATTTGCT
Statistics
Matches: 223, Mismatches: 32, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
217 185 0.83
218 38 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
AGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCTCCACTGCAACTT
CAGAGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAAATCTGTGATTTTA
ATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACTTCA
GAGAGATAAGACTCGCCATCTTC
Found at i:14607370 original size:84 final size:84
Alignment explanation
Indices: 14607272--14607552 Score: 266
Period size: 84 Copynumber: 3.3 Consensus size: 84
14607262 ACTTAGTCTG
*
14607272 CTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
* *
14607337 AATCTGTGATTTTAATCCG
66 GATCTGTGATTTTAATCCA
* * * * * * *
14607356 CTCCACTGCGACTTCAGGGAGATAGGATTA-TTGGCTTTAATCTGCTCCACTGCAACTTCAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC---GATCTGCT-CTCTGTAACTTCAGAGA
** *
14607420 GATAAGA-CTCGCT--TTCTTGGGTCTA
61 GATAAGATCT-G-TGATT-TT-AATCCA
* * * * *
14607445 CTCCACTACATCTTCAGGTAGATAAGACCT-GATGCGATTTGCTCTCTATAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATA
14607509 AGATCTGTGATTTTAATCCA
65 AGATCTGTGATTTTAATCCA
*
14607529 CTCCACTGCAACTTCAAGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
14607553 GGATTATTGG
Statistics
Matches: 151, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
83 1 0.01
84 52 0.34
85 24 0.16
86 10 0.07
87 11 0.07
88 24 0.16
89 27 0.18
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (84 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAA
GATCTGTGATTTTAATCCA
Found at i:14607544 original size:217 final size:214
Alignment explanation
Indices: 14607091--14607753 Score: 630
Period size: 217 Copynumber: 3.1 Consensus size: 214
14607081 ACCCGATGTG
*
14607091 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
* * * **
14607155 AGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCT
66 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA-GGAGATAAGACTCGCTTTCT
* * * * * *
14607220 TCAGTCTGC-CTCACTACAACTTCAGGAGGATAAGGCTTGCTTACTTAGTCTGCTCCACTGTAAC
130 T-AGTCTGCTC-CACTACAACTTCAGGA-GATAAGACCTG-ATGC-GA-TCTGCT-CTCTGTAAC
* * ***
14607284 TTCAGGGAGATAAGA-CT-AGA-TGCG
188 TTCAGAGAGATAAGATCTGTGATTTTA
* * * * *
14607308 ATCTGCT-CTCTGTAACTTCAGAGAGATAAAATCTGTGATTTTAATCCGCTCCACTGCGACTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
14607372 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCT
66 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGACTCGCTTTCT
* * * * *
14607437 TGGGTCTACTCCACTACATCTTCAGGTAGATAAGACCTGATGCGATTTGCTCTCTATAACTTCAG
130 T-AGTCTGCTCCACTACAACTTCAGG-AGATAAGACCTGATGCGATCTGCTCTCTGTAACTTCAG
14607502 AGAGATAAGATCTGTGATTTTA
193 AGAGATAAGATCTGTGATTTTA
** * * ** * *
14607524 ATCCACTCCACTGCAACTTCA-AGGAGATAGGAT-TATTGGCTTTAATCTACTCCACTGTAACTT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-GTGATTTTAATCCACTCCACTGCAACTT
* * * * * ** * *
14607587 CAGGGAGATAAGA-T-TCGCCATATTTAGTTTGC-CTCACAACAACTTCAGGAGGATAAGGCTTG
64 CAGGGAGATAGGATTATTGGC---TTTAATCTGCTC-CACTGCAACTTCAGGA-GATAAGACTCG
* * *
14607649 CTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATCTGCTCTCTGCAA
124 CTTTCTTAGTCTGCTCCACTACAACTTCA-GGAGATAAGACCT-GATGCGATCTGCTCTCTGTAA
*
14607713 CTTTAGAGAGATAAGATCTGTGATTTTA
187 CTTCAGAGAGATAAGATCTGTGATTTTA
14607741 ATCTGCTCCACTG
1 ATCTGCTCCACTG
14607754 TGACTTTAGG
Statistics
Matches: 371, Mismatches: 59, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
213 21 0.06
214 7 0.02
215 6 0.02
216 14 0.04
217 284 0.77
218 39 0.11
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (214 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGCAACTTCA
GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGAGATAAGACTCGCTTTCTT
AGTCTGCTCCACTACAACTTCAGGAGATAAGACCTGATGCGATCTGCTCTCTGTAACTTCAGAGA
GATAAGATCTGTGATTTTA
Found at i:14607635 original size:173 final size:172
Alignment explanation
Indices: 14607281--14607643 Score: 496
Period size: 173 Copynumber: 2.1 Consensus size: 172
14607271 GCTCCACTGT
*
14607281 AACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAAATCTGTGA
1 AACTTCA-GGAGATAAGACTAGATGCGATCTGCTCTCTATAACTTCAGAGAGATAAAATCTGTGA
* * * *
14607346 TTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
65 TTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAA
** * * *
14607411 CTTCAGAGAGATAAGACTCGCTTTCTTGGGTCTACTCCACTAC
130 CTTCAGAGAGATAAGACTCGCCATATTGAGTCTACTCCACAAC
* * *
14607454 ATCTTCAGGTAGATAAGACCT-GATGCGATTTGCTCTCTATAACTTCAGAGAGATAAGATCTGTG
1 AACTTCAGG-AGATAAGA-CTAGATGCGATCTGCTCTCTATAACTTCAGAGAGATAAAATCTGTG
*
14607518 ATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGTA
64 ATTTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCA
* * * * *
14607583 ACTTCAGGGAGATAAGATTCGCCATATTTAGTTTGC-CTCACAAC
129 ACTTCAGAGAGATAAGACTCGCCATATTGAGTCTACTC-CACAAC
14607627 AACTTCAGGAGGATAAG
1 AACTTCAGGA-GATAAG
14607644 GCTTGCTTAC
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
172 4 0.02
173 160 0.96
174 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (172 bp):
AACTTCAGGAGATAAGACTAGATGCGATCTGCTCTCTATAACTTCAGAGAGATAAAATCTGTGAT
TTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAAC
TTCAGAGAGATAAGACTCGCCATATTGAGTCTACTCCACAAC
Found at i:14607685 original size:390 final size:390
Alignment explanation
Indices: 14607001--14607821 Score: 1322
Period size: 390 Copynumber: 2.1 Consensus size: 390
14606991 GATTTGTTTA
* * * * * * * *
14607001 TTTAGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTGATTTCTTGAGTCTGCTCCACTGCAA
1 TTTAATCTGCCCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCTTGAGTCTACTCCACTACAA
* * *
14607066 CTTCAGAGAGATAATACCCGATGTGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATT
66 CTTCAGAGAGATAAGACCCGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGATT
*
14607131 TTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTGCTCCACTGCAACT
131 TTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCCACTGCAACT
* *
14607196 TCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGGCTTGCT
196 TCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACAACAACTTCAGGAGGATAAGGCTTGCT
* *
14607261 TACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTT
261 TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTT
14607326 CAGAGAGATAAAATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGC
326 CAGAGAGATAAAATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGC
* * *
14607391 TTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCTTGGGTCTACTCCACTACAT
1 TTTAATCTGCCCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCTTGAGTCTACTCCACTACAA
* * *
14607456 CTTCAG-GTAGATAAGACCTGATGCGATTTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGAT
66 CTTCAGAG-AGATAAGACCCGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGAT
* *
14607520 TTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGTAAC
130 TTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCCACTGCAAC
* *
14607585 TTCAGGGAGATAAGATTCGCCATATTTAGTTTGCCTCACAACAACTTCAGGAGGATAAGGCTTGC
195 TTCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACAACAACTTCAGGAGGATAAGGCTTGC
14607650 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACT
260 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACT
* * * * *
14607715 TTAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACTGTGACTTTAGGGAGATAGGATTATTGG
325 TCAGAGAGATAAAATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGG
14607780 C
390 C
*
14607781 TTTAATCTGCCCCACTGCAACTTCA-AGGAGATAAGATTCGC
1 TTTAATCTGCCCCACTGCAACTTCAGA-GAGATAAGACTCGC
14607822 CATCTTCAGT
Statistics
Matches: 396, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
389 2 0.01
390 394 0.99
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (390 bp):
TTTAATCTGCCCCACTGCAACTTCAGAGAGATAAGACTCGCTTTCTTGAGTCTACTCCACTACAA
CTTCAGAGAGATAAGACCCGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGATT
TTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATTAGCTTTAATCTACTCCACTGCAACT
TCAGGGAGATAAGATTCGCCATATTCAGTCTGCCTCACAACAACTTCAGGAGGATAAGGCTTGCT
TACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTT
CAGAGAGATAAAATCTGTGATTTTAATCCGCTCCACTGCGACTTCAGGGAGATAGGATTATTGGC
Found at i:14607769 original size:217 final size:218
Alignment explanation
Indices: 14607408--14607824 Score: 597
Period size: 217 Copynumber: 1.9 Consensus size: 218
14607398 TGCTCCACTG
* * * *
14607408 CAACTTCAGAGAGATAAGACTCGCTTTCTTGGGTCTACTCCACTACATCTTCAGGTAGATAAGAC
1 CAACTTCAGAGAGATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGAC
* *
14607473 CTGATGCGATTTGCTCTCTATAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGC
66 CTGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGC
* * *
14607538 AACTTCAAGGAGATAGGATTATTGGCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTC
131 AACTTCAAGGAGATAGGATTATTGGCTTTAATCTACCCCACTGCAACTTCAAGGAGATAAGATTC
14607603 GCCATATTTAGTTTGCCTCACAA
196 GCCATATTTAGTTTGCCTCACAA
* * * *
14607626 CAACTTCAG-GAGGATAAGGCTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTCAGAGA-GATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGA
* * **
14607689 -CTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAATCTGCTCCACT
65 CCT-GATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACT
** * * *
14607753 GTGACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTGCAACTTCAAGGAGATAAGAT
129 GCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTACCCCACTGCAACTTCAAGGAGATAAGAT
14607818 TCGCCAT
194 TCGCCAT
14607825 CTTCAGTCTT
Statistics
Matches: 175, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
216 2 0.01
217 149 0.85
218 24 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (218 bp):
CAACTTCAGAGAGATAAGACTCGCTTACTTGAGTCTACTCCACTACAACTTCAGGGAGATAAGAC
CTGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGC
AACTTCAAGGAGATAGGATTATTGGCTTTAATCTACCCCACTGCAACTTCAAGGAGATAAGATTC
GCCATATTTAGTTTGCCTCACAA
Found at i:14608073 original size:50 final size:50
Alignment explanation
Indices: 14608011--14608150 Score: 208
Period size: 50 Copynumber: 2.8 Consensus size: 50
14608001 TCCAAGCCTT
* *
14608011 AACGCCAGGGAGATAAGATTCTCCATCGTGGCTTCAATCTGCTCTGCTAC
1 AACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTAC
* *
14608061 AATGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGTTAC
1 AACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTAC
* * * *
14608111 AACGCTAGGGAAATAAGATTCGCTGTTGTGGCTTCAATCT
1 AACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCT
14608151 TTTCCATTGC
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (50 bp):
AACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTAC
Found at i:14608290 original size:44 final size:44
Alignment explanation
Indices: 14608254--14608351 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
14608244 CACTGTTGCT
*
14608254 CAGGGAGATAAGA-TTCATAATCTTCAACATATTCCACTGCTGAC
1 CAGGGAGATAAGACTT-ACAATCTTCAACATATTCCACTGCTGAC
* * * *
14608298 CAGGGAGATATGACTTACAATCTTCAACCTATTCCACTACTGTC
1 CAGGGAGATAAGACTTACAATCTTCAACATATTCCACTGCTGAC
14608342 CAGGGAGATA
1 CAGGGAGATA
14608352 GGGCTGGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAAGACTTACAATCTTCAACATATTCCACTGCTGAC
Found at i:14608440 original size:44 final size:44
Alignment explanation
Indices: 14608386--14608784 Score: 146
Period size: 44 Copynumber: 9.1 Consensus size: 44
14608376 GCCATCGGTA
*
14608386 CAGGAAGGCAAGATCTGCTATTTTTAACCTACTTCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * * * ** * * ****
14608430 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTATCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCT-GCAACC
*
14608474 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * * * ** * * *****
14608518 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGTTTCGCTGTTGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTG-CAACC
* * *
14608562 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAA-C
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
* * * * * * * * ****
14608605 CTGGGAGGCAAG-GCTAG-TGTCTTCAATCTGCTTCGCTATCGGTG
1 CAGGAAGGCAAGATCT-GCTATTTTTAACCTGCTTCGCT-GCAACC
* *
14608649 CAGGAAGGCAAGATCTG-TAATTTTTAACCTGCTCCACTGCAACC
1 CAGGAAGGCAAGATCTGCT-ATTTTTAACCTGCTTCGCTGCAACC
* * * * * * * * ****
14608693 CAGGGAGGCAAG-GCTGGTGTCTTTGATCTGCTTCGTTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTG-CAACC
* * *
14608737 CAGGAAGGCAAGATCTGCTATTTTTAACATGCTCCGCTGCAACG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
14608781 CAGG
1 CAGG
14608785 GATGAAAGGC
Statistics
Matches: 231, Mismatches: 112, Indels: 24
0.63 0.31 0.07
Matches are distributed among these distances:
42 16 0.07
43 62 0.27
44 89 0.39
45 64 0.28
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
Found at i:14608466 original size:43 final size:43
Alignment explanation
Indices: 14608417--14608555 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
14608407 TTTTAACCTA
14608417 CTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
* **** * * * * * ** *
14608460 CTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 CTTCGCT-GCAACCCAGGGAGGCAAG-GCTGGTGTCTTCGATCTG
*
14608505 CTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
*
14608548 TTTCGCTG
1 CTTCGCTG
14608556 TTGGTGCAGG
Statistics
Matches: 65, Mismatches: 29, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 24 0.37
44 24 0.37
45 17 0.26
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (43 bp):
CTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
Found at i:14608472 original size:88 final size:88
Alignment explanation
Indices: 14608353--14608929 Score: 825
Period size: 88 Copynumber: 6.6 Consensus size: 88
14608343 AGGGAGATAG
* * ** * *
14608353 GGCTGGGGTCATCGATCTGCTTCGCCATCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
14608418 TTCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
*
14608441 GGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
14608506 TCCGCTGCAACCCAGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* *
14608529 GGCTGGTGTCTTCGATCTGTTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
14608594 TCCACTACAA-CCTGGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
14608616 GGCTAGTGTCTTCAATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG-TAATTTTTAACCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTG
*
14608680 CTCCACTGCAACCCAGGGAGGCAA
65 CTCCGCTGCAACCCAGGGAGGCAA
* * *
14608704 GGCTGGTGTCTTTGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACATGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
14608769 TCCGCTGCAACGCAGGGATGAAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * *
14608792 GGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGCAGTAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
14608857 TCTGCTACAACCCAAGGAGGCAA
66 TCCGCTGCAACCCAGGGAGGCAA
* * * * *
14608880 GGTTGGTGTCTTCAATCTGCTTCGTTGTCGGAGCAGGAAGACAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
14608930 TTATCTTCAC
Statistics
Matches: 437, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
86 1 0.00
87 78 0.18
88 357 0.82
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGGGAGGCAA
Found at i:14608691 original size:263 final size:263
Alignment explanation
Indices: 14608367--14608930 Score: 860
Period size: 263 Copynumber: 2.1 Consensus size: 263
14608357 GGGGTCATCG
* * * *
14608367 ATCTGCTTCGCCATCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTACTTCGCTGCAACCCA
1 ATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTG-TATTTTTAACCTACTCCACTGCAACCCA
14608432 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTT
65 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTT
* * * * * *
14608497 TTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGTTTCGCTGTTGGTG
130 TTAACATGCTCCGCTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTG
**
14608562 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAA-CCTGGGAGGCAAGGCTAGTGTC
195 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTAGTGTC
14608626 TTCA
260 TTCA
*
14608630 ATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGTAATTTTTAACCTGCTCCACTGCAACCCA
1 ATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGT-ATTTTTAACCTACTCCACTGCAACCCA
* * *
14608695 GGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
65 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTT
* *
14608760 TTAACATGCTCCGCTGCAACGCAGGGATGAAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTG
130 TTAACATGCTCCGCTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTG
* ** * *
14608825 CAGTAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTACAACCCAAGGAGGCAAGGTTGGTGTC
195 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTAGTGTC
14608890 TTCA
260 TTCA
* * * *
14608894 ATCTGCTTCGTTGTCGGAGCAGGAAGACAAGATCTGT
1 ATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGT
14608931 TATCTTCACT
Statistics
Matches: 272, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
262 1 0.00
263 216 0.79
264 55 0.20
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (263 bp):
ATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGTATTTTTAACCTACTCCACTGCAACCCAG
GGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTT
TAACATGCTCCGCTGCAACCCAGGGAGGAAAGGCTAGTGTCTTCGATCTGCTTCACTGTCGGTGC
AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAAGGAGGCAAGGCTAGTGTCT
TCA
Found at i:14611153 original size:25 final size:26
Alignment explanation
Indices: 14611102--14611162 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
14611092 AAGAAACTCC
* **
14611102 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
14611128 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
14611153 AAAATGAATG
1 AAAA-GAATG
14611163 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:14615934 original size:22 final size:21
Alignment explanation
Indices: 14615899--14615994 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
14615889 AAAAGGTATC
* *
14615899 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
14615920 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14615943 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14615962 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14615981 GACATATCATATCT
1 TACAAATCATATCT
14615995 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 36 0.55
21 4 0.06
22 15 0.23
23 10 0.15
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14615942 original size:23 final size:22
Alignment explanation
Indices: 14615899--14615956 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14615889 AAAAGGTATC
* *
14615899 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14615920 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14615943 TGCATATCATATCT
1 TACAAATCATATCT
14615957 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14615959 original size:19 final size:19
Alignment explanation
Indices: 14615935--14616007 Score: 130
Period size: 19 Copynumber: 3.8 Consensus size: 19
14615925 AATCATATCT
14615935 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14615954 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14615973 TCTAAGA-TGACATATCATA
1 TCTAAGATTG-CATATCATA
14615992 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14616008 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
18 2 0.04
19 48 0.92
20 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14616359 original size:23 final size:22
Alignment explanation
Indices: 14616328--14616372 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
14616318 AAAAGGAACT
14616328 GTTTCATTTTTAAAAATATTATTA
1 GTTTCA-TTTTAAAAA-ATTATTA
14616352 GTTT-ATTTTAAAAAATTATTA
1 GTTTCATTTTAAAAAATTATTA
14616373 CAAACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 1 0.05
24 4 0.19
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
GTTTCATTTTAAAAAATTATTA
Found at i:14619794 original size:27 final size:27
Alignment explanation
Indices: 14619761--14619815 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
14619751 TATTAGGATT
14619761 AAATAATTAATTCAGTTGCATCCCTAC
1 AAATAATTAATTCAGTTGCATCCCTAC
14619788 AAATAATTAATTCAGTTGCATCCCTAC
1 AAATAATTAATTCAGTTGCATCCCTAC
14619815 A
1 A
14619816 TTTAAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATAATTAATTCAGTTGCATCCCTAC
Found at i:14621781 original size:12 final size:12
Alignment explanation
Indices: 14621766--14621796 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14621756 GGGATTTTAT
*
14621766 TTTTTCTTTTCG
1 TTTTTCTTTTCA
14621778 TTTTTCTTTTCA
1 TTTTTCTTTTCA
14621790 TTTTTCT
1 TTTTTCT
14621797 GTAAAAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCA
Found at i:14625812 original size:25 final size:25
Alignment explanation
Indices: 14625768--14625829 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
14625758 CAGCTCTTAT
* * *
14625768 GAGCTTACCGATACTTAGCTTGTACA
1 GAGCTTACCGTTACTTAGCTCGGA-A
14625794 -AGCTTACCGTTA-TTCAGCTCGGAA
1 GAGCTTACCGTTACTT-AGCTCGGAA
14625818 GAGCTTACCGTT
1 GAGCTTACCGTT
14625830 TATAACTCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGTTACTTAGCTCGGAA
Found at i:14634373 original size:12 final size:12
Alignment explanation
Indices: 14634356--14634388 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14634346 AATTTTTATT
14634356 TATAAATATTAA
1 TATAAATATTAA
*
14634368 TATAAATATAAA
1 TATAAATATTAA
14634380 T-TAAATATT
1 TATAAATATT
14634389 TTATTATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATATTAA
Found at i:14640243 original size:24 final size:25
Alignment explanation
Indices: 14640215--14640264 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
14640205 TTTTTATATT
*
14640215 ATATAAGA-AAAAAGATTATAGATA
1 ATATAAGATAAAAAAATTATAGATA
*
14640239 ATATAAGATTAAAAAAATTGTAGATA
1 ATATAAGA-TAAAAAAATTATAGATA
14640265 TTTTGAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (25 bp):
ATATAAGATAAAAAAATTATAGATA
Found at i:14647433 original size:22 final size:24
Alignment explanation
Indices: 14647408--14647452 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
14647398 TATGTTTAAA
14647408 TATATTTTA-ATTT-TTAATTTAT
1 TATATTTTATATTTATTAATTTAT
14647430 TATATTTTATATTTAGTTAATTT
1 TATATTTTATATTTA-TTAATTT
14647453 TAGTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 4 0.20
25 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATATTTTATATTTATTAATTTAT
Found at i:14648979 original size:93 final size:87
Alignment explanation
Indices: 14648880--14649061 Score: 204
Period size: 87 Copynumber: 2.0 Consensus size: 87
14648870 AAAGCTAGCA
* *
14648880 TATATGTAGGACAGTGCATTGCGATAAACCGCTGTAC-AGACATGTTGTAGTTTAAACTGCCAGA
1 TATATGTAGGACAGTGCA----G-TAAACCGCTGTACTA-ACAAGTTGTAG-TTAAACTACCAGA
**
14648944 TCAGATAATAACACGTAGCAAAACTGACG
59 TCAGATAATAACACACAGCAAAACTGACG
* * **
14648973 TATATGTAGTACAGTGCAGTAAACCGCTGTACTAATAAGTTGTAGTTAAGTTACCAGATCAGATA
1 TATATGTAGGACAGTGCAGTAAACCGCTGTACTAACAAGTTGTAGTTAAACTACCAGATCAGATA
* *
14649038 ATAGCACACAGCAAAGCTGACG
66 ATAACACACAGCAAAACTGACG
14649060 TA
1 TA
14649062 CATGCGGTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
87 37 0.47
88 22 0.28
89 2 0.03
93 17 0.22
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (87 bp):
TATATGTAGGACAGTGCAGTAAACCGCTGTACTAACAAGTTGTAGTTAAACTACCAGATCAGATA
ATAACACACAGCAAAACTGACG
Found at i:14649082 original size:87 final size:88
Alignment explanation
Indices: 14648904--14649123 Score: 212
Period size: 87 Copynumber: 2.5 Consensus size: 88
14648894 TGCATTGCGA
* * **
14648904 TAAACCGCTGTACAGACATGTTGTAGTTTAAACTGCCAGATCAGATAATAACACGTAGCAAAACT
1 TAAACCGCTGTACAGACAAGTTGTAGTTTAAACTACCAGATCAGATAATAACACACAGCAAAACT
* *
14648969 GACGTATATGTAGTACAGTGCAG
66 GACGTACATGCAGTACAGTGCAG
* ** * *
14648992 TAAACCGCTGTACTA-ATAAGTTGTAG-TTAAGTTACCAGATCAGATAATAGCACACAGCAAAGC
1 TAAACCGCTGTAC-AGACAAGTTGTAGTTTAAACTACCAGATCAGATAATAACACACAGCAAAAC
* * **
14649055 TGACGTACATGCGGTATAGTGTGG
65 TGACGTACATGCAGTACAGTGCAG
* * * * ** *
14649079 TAAACTGTTGTACCGATAAGTTACAG-TTAAACTGCCAGATCAGAT
1 TAAACCGCTGTACAGACAAGTTGTAGTTTAAACTACCAGATCAGAT
14649124 CAAAATCAAT
Statistics
Matches: 107, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
87 84 0.79
88 22 0.21
89 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (88 bp):
TAAACCGCTGTACAGACAAGTTGTAGTTTAAACTACCAGATCAGATAATAACACACAGCAAAACT
GACGTACATGCAGTACAGTGCAG
Found at i:14655739 original size:20 final size:20
Alignment explanation
Indices: 14655703--14655741 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14655693 TTTAAATACT
*
14655703 ATTTGCATCTAATCAAATTG
1 ATTTGCATCTAAACAAATTG
14655723 ATTTG-ATCTAACACAAATT
1 ATTTGCATCTAA-ACAAATT
14655742 TTGACTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTTGCATCTAAACAAATTG
Found at i:14660855 original size:22 final size:21
Alignment explanation
Indices: 14660830--14660872 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
14660820 AAATAAGATT
*
14660830 TATTTTATTTTAACCACTTTTA
1 TATTTTACTTTAACCA-TTTTA
14660852 TATTTTACTTTAACCATTTTA
1 TATTTTACTTTAACCATTTTA
14660873 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTACTTTAACCATTTTA
Found at i:14661330 original size:17 final size:18
Alignment explanation
Indices: 14661297--14661337 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14661287 TGTTATTTAT
14661297 GGGTTTTTAGGGTTGTTA
1 GGGTTTTTAGGGTTGTTA
*
14661315 GGGTTTTTAGTG-TGTTA
1 GGGTTTTTAGGGTTGTTA
*
14661332 AGGTTT
1 GGGTTT
14661338 ATGGTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (18 bp):
GGGTTTTTAGGGTTGTTA
Found at i:14661417 original size:32 final size:32
Alignment explanation
Indices: 14661376--14661458 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
14661366 GGGTTTCCCA
*
14661376 TTGTTATCATTTCACAAAATTG-AAGTTG-TAAT
1 TTGTTATCATTTCACAAAA-TGAAAGCTGAT-AT
14661408 TTGTTATCATTTCACAAAATGAAAGCTGATAT
1 TTGTTATCATTTCACAAAATGAAAGCTGATAT
*
14661440 TTGTTATCATTTCATAAAA
1 TTGTTATCATTTCACAAAA
14661459 CCACATGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
31 2 0.04
32 44 0.94
33 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATGAAAGCTGATAT
Found at i:14663783 original size:47 final size:47
Alignment explanation
Indices: 14663730--14663822 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
14663720 TGTAAAAAAT
* *
14663730 AATTAACAAGAAAAATTAATGTTTTTGCTTACTTTTTATACAAATAA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
14663777 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
14663823 GTATCGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (47 bp):
AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
Found at i:14666614 original size:13 final size:13
Alignment explanation
Indices: 14666596--14666675 Score: 54
Period size: 13 Copynumber: 6.2 Consensus size: 13
14666586 TTCACACATT
14666596 GAGCTTGCATATC
1 GAGCTTGCATATC
* *
14666609 GAGCTTGCACATT
1 GAGCTTGCATATC
* * *
14666622 GGGCTCGCGTATC
1 GAGCTTGCATATC
*
14666635 GAGCTAGCATATC
1 GAGCTTGCATATC
* *
14666648 -ATGCTTGCACATT
1 GA-GCTTGCATATC
* *
14666661 GAGCTCGTATATC
1 GAGCTTGCATATC
14666674 GA
1 GA
14666676 ACTCGCATGG
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
12 1 0.02
13 46 0.96
14 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (13 bp):
GAGCTTGCATATC
Found at i:14666634 original size:26 final size:26
Alignment explanation
Indices: 14666590--14666639 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
14666580 ACATGGTTCA
*
14666590 CACATTGAGCTTGCATATCGAGCTTG
1 CACATTGAGCTCGCATATCGAGCTTG
* *
14666616 CACATTGGGCTCGCGTATCGAGCT
1 CACATTGAGCTCGCATATCGAGCT
14666640 AGCATATCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (26 bp):
CACATTGAGCTCGCATATCGAGCTTG
Found at i:14666674 original size:39 final size:39
Alignment explanation
Indices: 14666596--14666675 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
14666586 TTCACACATT
* * *
14666596 GAGCTTGCATATCGAGCTTGCACATTGGGCTCGCGTATC
1 GAGCTAGCATATCGAGCTTGCACATTGAGCTCGCATATC
*
14666635 GAGCTAGCATATC-ATGCTTGCACATTGAGCTCGTATATC
1 GAGCTAGCATATCGA-GCTTGCACATTGAGCTCGCATATC
14666674 GA
1 GA
14666676 ACTCGCATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.29
Consensus pattern (39 bp):
GAGCTAGCATATCGAGCTTGCACATTGAGCTCGCATATC
Found at i:14671586 original size:6 final size:6
Alignment explanation
Indices: 14671577--14671603 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14671567 AGAGAGAGAA
14671577 AAAATT AAAATT AAAATT AAAATT AAA
1 AAAATT AAAATT AAAATT AAAATT AAA
14671604 TAATGACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:14678320 original size:40 final size:39
Alignment explanation
Indices: 14678260--14678400 Score: 117
Period size: 40 Copynumber: 3.6 Consensus size: 39
14678250 AACACATTAG
* * * *
14678260 TTTGGCACCCATTGCCTCATCAGATAATTCGAGGTAATAA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAATAA
* * *
14678300 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATC-GATAATCCGAAGTAATAA
* *
14678338 TTCG-CACCCAATGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCG-ATA-ATCCGAAGTAATAA
* * *
14678378 ATTGACACTCAGTGTCTCATCGA
1 TTTGACACCCAGTGCCTCATCGA
14678401 CTCGAAGCCA
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
36 1 0.01
37 16 0.21
38 13 0.17
39 2 0.03
40 32 0.41
41 14 0.18
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (39 bp):
TTTGACACCCAGTGCCTCATCGATAATCCGAAGTAATAA
Found at i:14678397 original size:41 final size:40
Alignment explanation
Indices: 14678293--14678400 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 40
14678283 ATAATTCGAG
* **
14678293 GTAATAATTTGACACCCAGTGTCTCATCGGCTAAACCGAA
1 GTAATAAATTGACACCCAGTGTCTCATCGAATAAACCGAA
* * *
14678333 G---TAAATTCG-CACCCAATGCCTCATCGAATATATCCGAA
1 GTAATAAATT-GACACCCAGTGTCTCATCGAATA-AACCGAA
*
14678371 GTAATAAATTGACACTCAGTGTCTCATCGA
1 GTAATAAATTGACACCCAGTGTCTCATCGA
14678401 CTCGAAGCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
37 22 0.42
38 8 0.15
40 2 0.04
41 21 0.40
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
GTAATAAATTGACACCCAGTGTCTCATCGAATAAACCGAA
Found at i:14679275 original size:4 final size:4
Alignment explanation
Indices: 14679266--14679297 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
14679256 TAGTTTCTCA
14679266 TTTC TTTC TTTC TTTC TTTC TTTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTT
14679298 TCTCCCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:14685398 original size:40 final size:40
Alignment explanation
Indices: 14685339--14685464 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
14685329 AACACACAAG
* *
14685339 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * * * *
14685379 TTTGACACCTAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* **
14685417 TTCG-CACCCAGTGCCTCATCAAATATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCTGAAGTAATAA
*
14685457 ATTGACAC
1 TTTGACAC
14685465 TTAGTGTCTT
Statistics
Matches: 65, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
37 16 0.25
38 12 0.18
39 2 0.03
40 32 0.49
41 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:14686365 original size:13 final size:13
Alignment explanation
Indices: 14686360--14686399 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
14686350 CTTCCTTTCT
*
14686360 TTTCTTTCTTTCC-
1 TTTCTTT-TCTCCC
14686373 TTTCTTTTCTCCC
1 TTTCTTTTCTCCC
14686386 TTTCTTTTCTCCC
1 TTTCTTTTCTCCC
14686399 T
1 T
14686400 ATTTCGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTCTTTTCTCCC
Found at i:14686374 original size:18 final size:17
Alignment explanation
Indices: 14686347--14686382 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
14686337 TAGTTTCTCA
14686347 TTTCTTCCTTTCTTTTC
1 TTTCTTCCTTTCTTTTC
14686364 TTTCTTTCCTTTCTTTTC
1 TTTC-TTCCTTTCTTTTC
14686382 T
1 T
14686383 CCCTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTCTTCCTTTCTTTTC
Found at i:14686388 original size:18 final size:18
Alignment explanation
Indices: 14686351--14686395 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
14686341 TTCTCATTTC
**
14686351 TTCCTTTCTTTTCTTTCT
1 TTCCTTTCTTTTCTCCCT
14686369 TTCCTTTCTTTTCTCCCT
1 TTCCTTTCTTTTCTCCCT
*
14686387 TTCTTTTCT
1 TTCCTTTCT
14686396 CCCTATTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCCTTTCTTTTCTCCCT
Found at i:14686470 original size:22 final size:21
Alignment explanation
Indices: 14686441--14686498 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
14686431 TTTTATTTTC
14686441 TTTATTTATT-TCATTTACTTG
1 TTTATTTATTAT-ATTTACTTG
14686462 TTTATTTTATTATATTTACTT-
1 TTTA-TTTATTATATTTACTTG
14686483 TATTATTATATTATAT
1 T-TTATT-TATTATAT
14686499 ATATTTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 7 0.21
22 25 0.76
23 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTTATTATATTTACTTG
Found at i:14686515 original size:26 final size:25
Alignment explanation
Indices: 14686463--14686516 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
14686453 ATTTACTTGT
* * *
14686463 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
14686488 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
14686514 TTA
1 TTA
14686517 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:14686528 original size:26 final size:26
Alignment explanation
Indices: 14686473--14686530 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
14686463 TTATTTTATT
* * * *
14686473 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
14686499 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
14686525 ATATTT
1 ATATTT
14686531 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:14687063 original size:11 final size:12
Alignment explanation
Indices: 14687033--14687061 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14687023 ATTTTAATGG
14687033 AAAAAATTCAAA
1 AAAAAATTCAAA
14687045 AAAAAATTCAAA
1 AAAAAATTCAAA
14687057 AAAAA
1 AAAAA
14687062 TTATTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATTCAAA
Found at i:14687159 original size:10 final size:11
Alignment explanation
Indices: 14687131--14687157 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14687121 ATTTTAATGG
14687131 AAAAAATTCAA
1 AAAAAATTCAA
14687142 AAAAAATTCAA
1 AAAAAATTCAA
14687153 AAAAA
1 AAAAA
14687158 TTATTTGAAT
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:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:14687240 original size:96 final size:96
Alignment explanation
Indices: 14687010--14687302 Score: 507
Period size: 96 Copynumber: 3.0 Consensus size: 96
14687000 ATAATTATAA
*
14687010 AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAATTCAAAAAAAATTATTTAAATTTT
1 AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAATTC-AAAAAAATTATTTGAA-TTT
14687075 TTTATATGATAGTGGAAATAAAAGTAAGGATGG
64 TTTATATGATAGTGGAAATAAAAGTAAGGATGG
14687108 AAATTTATTAAAAATTTTAATGGAAAAAATTC-AAAAAAAATTCAAAAAAATTATTTGAATTTTT
1 AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAATTCAAAAAAATTATTTGAATTTTT
14687172 TATATGATAGTGGAAATAAAAGTAAGGATGG
66 TATATGATAGTGGAAATAAAAGTAAGGATGG
* * * *
14687203 AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAAATCAAATAATTTTTTTGAATTTTT
1 AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAATTCAAAAAAATTATTTGAATTTTT
*
14687268 TATATGATAGTGGAAGTAAAAGTAAGGATGG
66 TATATGATAGTGGAAATAAAAGTAAGGATGG
14687299 AAAT
1 AAAT
14687303 ACGAGATATT
Statistics
Matches: 188, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
95 68 0.36
96 77 0.41
97 11 0.06
98 32 0.17
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.34
Consensus pattern (96 bp):
AAATTTATTAAAAATTTTAATGGAAAAAATTCAAAAAAAAATTCAAAAAAATTATTTGAATTTTT
TATATGATAGTGGAAATAAAAGTAAGGATGG
Found at i:14687581 original size:14 final size:15
Alignment explanation
Indices: 14687562--14687599 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14687552 GTTTGCCAAT
14687562 AAAATGATTTTC-GA
1 AAAATGATTTTCTGA
*
14687576 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGA
14687590 AAAATGATTT
1 AAAATGATTT
14687600 ACTTTTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 15 0.71
15 2 0.10
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (15 bp):
AAAATGATTTTCTGA
Found at i:14687698 original size:32 final size:32
Alignment explanation
Indices: 14687613--14687699 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
14687603 TTTTTGGAAA
*
14687613 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
* * *
14687645 ATGA-ATCTGTGTAAAATATTTTCTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTCTGGTGTTTGG
14687678 -TAGATTTCCTGAAAATATTTTC
1 AT-GATTTCCTGAAAATATTTTC
14687700 CGAAAAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 1 0.02
32 18 0.40
33 24 0.53
34 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTCTGGTGTTTGG
Found at i:14689024 original size:32 final size:32
Alignment explanation
Indices: 14688988--14689048 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
14688978 TGTCAATCAT
*
14688988 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATACAACAAGCTTAAAACATAATAAA
*
14689020 TTCAATATATAACAAGCTTAAAACATAAT
1 TTCAATATACAACAAGCTTAAAACATAAT
14689049 CAATATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATACAACAAGCTTAAAACATAATAAA
Found at i:14689059 original size:27 final size:30
Alignment explanation
Indices: 14688988--14689061 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 30
14688978 TGTCAATCAT
**
14688988 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATATAACAAGCTTAAAAC--AATAAA
14689020 TTCAATATATAACAAGCTTAAAAC-AT-AA
1 TTCAATATATAACAAGCTTAAAACAATAAA
*
14689048 -TCAATATGTAACAA
1 TTCAATATATAACAA
14689062 ATTCAATACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
29 2 0.05
32 22 0.56
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATATAACAAGCTTAAAACAATAAA
Found at i:14691292 original size:3 final size:3
Alignment explanation
Indices: 14691284--14691319 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14691274 AACAAAAAGA
14691284 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
14691320 AAATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:14692682 original size:14 final size:14
Alignment explanation
Indices: 14692665--14692693 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14692655 ACACCTCACC
14692665 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
14692679 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
14692693 A
1 A
14692694 GAGAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (14 bp):
ACCATTTCCTCTTA
Found at i:14693181 original size:22 final size:22
Alignment explanation
Indices: 14693153--14693204 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14693143 AGAGAGGAAG
*
14693153 GGAGAACGAGAGTGTAGAGAAA
1 GGAGAACGAAAGTGTAGAGAAA
*
14693175 GGAGAACGAAAGTGTAGAGAAG
1 GGAGAACGAAAGTGTAGAGAAA
14693197 GGAGAACG
1 GGAGAACG
14693205 GGAAAATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.06, G:0.42, T:0.08
Consensus pattern (22 bp):
GGAGAACGAAAGTGTAGAGAAA
Found at i:14693544 original size:10 final size:10
Alignment explanation
Indices: 14693531--14693562 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
14693521 AAAATCTATA
14693531 AAAATTATTT
1 AAAATTATTT
14693541 AAAATT-TTT
1 AAAATTATTT
14693550 AAAATTA-TT
1 AAAATTATTT
14693559 AAAA
1 AAAA
14693563 AAGTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATTATTT
Found at i:14693563 original size:19 final size:20
Alignment explanation
Indices: 14693509--14693563 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
14693499 TTTTTTAAGA
*
14693509 TTTAAAATTA-AAAAAATCT
1 TTTAAAATTATTAAAAATCT
* * *
14693528 ATAAAAATTATTTAAAAT-T
1 TTTAAAATTATTAAAAATCT
14693547 TTTAAAATTATTAAAAA
1 TTTAAAATTATTAAAAA
14693564 AGTATAAAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 23 0.82
20 5 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAAAATTATTAAAAATCT
Found at i:14694913 original size:20 final size:21
Alignment explanation
Indices: 14694888--14694930 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
14694878 CACCTTAGCG
14694888 AACAAATATGAATAT-AAATA
1 AACAAATATGAATATAAAATA
**
14694908 AACAAATATTTATATAAAATA
1 AACAAATATGAATATAAAATA
14694929 AA
1 AA
14694931 ATAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (21 bp):
AACAAATATGAATATAAAATA
Found at i:14694939 original size:22 final size:20
Alignment explanation
Indices: 14694888--14694944 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
14694878 CACCTTAGCG
**
14694888 AACAAATATGAATATAAATA
1 AACAAATATTTATATAAATA
14694908 AACAAATATTTATATAAAATAA
1 AACAAATATTTATAT-AAAT-A
*
14694930 AATAAATATTTATAT
1 AACAAATATTTATAT
14694945 TTAAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 13 0.41
21 4 0.12
22 15 0.47
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AACAAATATTTATATAAATA
Found at i:14697382 original size:23 final size:23
Alignment explanation
Indices: 14697351--14697395 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
14697341 TACAATCAAC
14697351 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
14697374 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
14697396 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:14698471 original size:24 final size:24
Alignment explanation
Indices: 14698439--14698489 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
14698429 TACTTGGGTA
14698439 ATTTGCCATCAATTCATCCTTTAC
1 ATTTGCCATCAATTCATCCTTTAC
* *
14698463 ATTTTCCATTAATTCATCCTTTAC
1 ATTTGCCATCAATTCATCCTTTAC
14698487 ATT
1 ATT
14698490 CGTAGTGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCCTTTAC
Found at i:14698546 original size:33 final size:32
Alignment explanation
Indices: 14698495--14698655 Score: 142
Period size: 33 Copynumber: 4.8 Consensus size: 32
14698485 ACATTCGTAG
* * *
14698495 TGCCATAACTCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
14698528 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * *
14698562 TTGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAGAA
* *
14698596 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
14698629 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
14698656 ATAAACACTG
Statistics
Matches: 99, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
32 6 0.06
33 67 0.68
34 2 0.02
35 23 0.23
36 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:14698668 original size:101 final size:101
Alignment explanation
Indices: 14698483--14698722 Score: 426
Period size: 101 Copynumber: 2.4 Consensus size: 101
14698473 AATTCATCCT
* * *
14698483 TTACATTCGTAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
* *
14698548 CTTACATATAAACATTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
14698584 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
14698649 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
*
14698685 TTACGTTCACAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
14698723 CGTCAATTCA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 133 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATAGTC
Found at i:14698719 original size:33 final size:32
Alignment explanation
Indices: 14698493--14698720 Score: 123
Period size: 33 Copynumber: 6.8 Consensus size: 32
14698483 TTACATTCGT
* * * * *
14698493 AGTGCCATAACTCAGTTATGGTCTTATCATCAG
1 AGTGCCATAGCCCAGCTATGGTCTTA-CTTCAC
* *
14698526 AATGCCATAGCCCAGCTATGGTCTTACATATAAAC
1 AGTGCCATAGCCCAGCTATGGTCTTAC-T-T-CAC
* * * * * *
14698561 ATTGCCATGGTCCAACCATGGTCTTACGTTCAT
1 AGTGCCATAGCCCAGCTATGGTCTTAC-TTCAC
* * * *
14698594 AGTGCCATAACCCAGTTATGGTCTTATCATCAG
1 AGTGCCATAGCCCAGCTATGGTCTTA-CTTCAC
* *
14698627 AATGCCATAGCCCAGCTATGGTCTTACATATAAAC
1 AGTGCCATAGCCCAGCTATGGTCTTAC-T-T-CAC
* * * * * *
14698662 ACTGCCATGGTCCAACCATAGTCTTACGTTCAC
1 AGTGCCATAGCCCAGCTATGGTCTTAC-TTCAC
* *
14698695 AGTGCCATAACCCAGTTATGGTCTTA
1 AGTGCCATAGCCCAGCTATGGTCTTA
14698721 TCCGTCAATT
Statistics
Matches: 142, Mismatches: 46, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
32 2 0.01
33 88 0.62
34 5 0.04
35 47 0.33
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (32 bp):
AGTGCCATAGCCCAGCTATGGTCTTACTTCAC
Found at i:14701633 original size:16 final size:18
Alignment explanation
Indices: 14701602--14701639 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
14701592 ATACATATTC
14701602 TTTTTTCTTCACTAAGAT
1 TTTTTTCTTCACTAAGAT
*
14701620 TTTTTTC-TCA-TAAGGT
1 TTTTTTCTTCACTAAGAT
14701636 TTTT
1 TTTT
14701640 ATTTTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTTTTCTTCACTAAGAT
Found at i:14702572 original size:13 final size:12
Alignment explanation
Indices: 14702541--14702578 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
14702531 AAAATTGTTC
14702541 AATTTTTT--TT
1 AATTTTTTAATT
14702551 AATTTTTTAATT
1 AATTTTTTAATT
14702563 AATGTTTTTAATT
1 AAT-TTTTTAATT
14702576 AAT
1 AAT
14702579 AAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.32
12 5 0.20
13 12 0.48
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (12 bp):
AATTTTTTAATT
Found at i:14702630 original size:13 final size:13
Alignment explanation
Indices: 14702612--14702636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14702602 TTGTTCAATT
14702612 TTTTTAATTAATG
1 TTTTTAATTAATG
14702625 TTTTTAATTAAT
1 TTTTTAATTAAT
14702637 AAATATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:14702719 original size:19 final size:19
Alignment explanation
Indices: 14702695--14702735 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14702685 TATAAATAAA
*
14702695 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
14702714 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
14702733 ATA
1 ATA
14702736 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:14708534 original size:31 final size:30
Alignment explanation
Indices: 14708470--14708544 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
14708460 TGTTAGAAAA
*
14708470 TTTGGTCACCCAAATTTTAGGACGTTTTTAT
1 TTTGGTCACCCAAATTTTAGGACG-TTTCAT
*
14708501 TTTGGTCACCCAACTTTTAGGGTAC-TTTCAT
1 TTTGGTCACCCAAATTTTA-GG-ACGTTTCAT
*
14708532 TTTAGTCACCCAA
1 TTTGGTCACCCAA
14708545 GCGTCAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
31 35 0.90
32 2 0.05
33 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTGGTCACCCAAATTTTAGGACGTTTCAT
Found at i:14709885 original size:20 final size:19
Alignment explanation
Indices: 14709851--14709908 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
14709841 CCCTAACCTC
*
14709851 GTTAATTAAGCTTAAAATTA-
1 GTTAATTATGCTT--AATTAG
*
14709871 GTTAATTATGTTTAATTAG
1 GTTAATTATGCTTAATTAG
**
14709890 GTTAATTATAATTAATTAG
1 GTTAATTATGCTTAATTAG
14709909 TTGTTAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.15
19 17 0.52
20 11 0.33
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
GTTAATTATGCTTAATTAG
Found at i:14709895 original size:19 final size:19
Alignment explanation
Indices: 14709866--14709908 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14709856 TTAAGCTTAA
**
14709866 AATTA-GTTAATTATGTTT
1 AATTAGGTTAATTATAATT
14709884 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
14709903 AATTAG
1 AATTAG
14709909 TTGTTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:14710067 original size:2 final size:2
Alignment explanation
Indices: 14710060--14710088 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14710050 GTCATATTCT
14710060 TA 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 TA T
14710089 TATTAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14716326 original size:54 final size:54
Alignment explanation
Indices: 14716254--14716362 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
14716244 AAGTTTGGTC
14716254 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
1 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
14716308 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
1 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
14716362 C
1 C
14716363 TTAGATTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (54 bp):
CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
Found at i:14716914 original size:32 final size:32
Alignment explanation
Indices: 14716854--14716918 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
14716844 TTGAAATCAT
*
14716854 AAAATTAATATTGAGTGGTAAAATTTAATTAAA
1 AAAATTAATATTGAGTGGCAAAATTTAA-TAAA
*
14716887 AAAATCTAA-ATTG-GTGGCAAATTTTAATAAA
1 AAAAT-TAATATTGAGTGGCAAAATTTAATAAA
14716918 A
1 A
14716919 TTCAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.17
32 12 0.41
33 9 0.31
34 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (32 bp):
AAAATTAATATTGAGTGGCAAAATTTAATAAA
Found at i:14718857 original size:21 final size:21
Alignment explanation
Indices: 14718833--14718883 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
14718823 AAGCTTCACG
14718833 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
14718854 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
*
14718875 GGTCGAAGT
1 TGT-GAAGT
14718884 TAGAGTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (21 bp):
TGTGAAGTCAAAATTATTGTA
Found at i:14735653 original size:16 final size:16
Alignment explanation
Indices: 14735632--14735662 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14735622 AGCCCCTTGC
*
14735632 GGGGGTCCCTTGCCTT
1 GGGGGTCCCGTGCCTT
14735648 GGGGGTCCCGTGCCT
1 GGGGGTCCCGTGCCT
14735663 CGATGTTGTG
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:0.00, C:0.32, G:0.42, T:0.26
Consensus pattern (16 bp):
GGGGGTCCCGTGCCTT
Found at i:14736575 original size:49 final size:50
Alignment explanation
Indices: 14736507--14736608 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 50
14736497 TCTTATAAAG
* *
14736507 AACATATATAAAGCATT-AAACACATTATATTCTTTCCAAAAAGAATTAT
1 AACATATAGAAAGCATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
* * *
14736556 AACATATGGAAAGTATTAAAAAAACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATAGAAAGCATT-AAAAAACATTATATTCTTTCCAAAAAGAATTAT
14736607 AA
1 AA
14736609 TTACAATGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 14 0.30
51 32 0.70
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (50 bp):
AACATATAGAAAGCATTAAAAAACATTATATTCTTTCCAAAAAGAATTAT
Found at i:14738726 original size:20 final size:20
Alignment explanation
Indices: 14738701--14738738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14738691 AAAGGTTAAC
14738701 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
14738721 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
14738739 AATAAATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:14739655 original size:42 final size:42
Alignment explanation
Indices: 14739600--14739697 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
14739590 ATATGAACAA
*
14739600 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATAGG
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACAGG
*
14739642 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACGGG
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACAGG
*
14739684 CACTAAGTTTGCGA
1 CACTAAGTGTGCGA
14739698 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (42 bp):
CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACAGG
Found at i:14740695 original size:95 final size:95
Alignment explanation
Indices: 14740532--14740776 Score: 438
Period size: 95 Copynumber: 2.6 Consensus size: 95
14740522 CGATTCAAGT
* *
14740532 CCAATTTAGTGTGTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGTCCAATTTGGTGTCTATA
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGTCCAATTTGGTGTCTATA
14740597 TGCTGTCCAATTTTGGTGTAAAAATGCTGC
66 TGCTGTCCAATTTTGGTGTAAAAATGCTGC
*
14740627 CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCCCAATTTGGTGTCTATA
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGTCCAATTTGGTGTCTATA
*
14740692 TGCTGTCCAATTTTGGTGTAAATATGCTGC
66 TGCTGTCCAATTTTGGTGTAAAAATGCTGC
*
14740722 CCAATTTGGTGTCTATATTCTGTCCAA-TTTTGGTGTAAAAATGCTGTCCAATTTG
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGTCCAATTTG
14740777 AGATATATAT
Statistics
Matches: 144, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 27 0.19
95 117 0.81
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (95 bp):
CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGTCCAATTTGGTGTCTATA
TGCTGTCCAATTTTGGTGTAAAAATGCTGC
Found at i:14740786 original size:47 final size:47
Alignment explanation
Indices: 14740532--14740776 Score: 418
Period size: 47 Copynumber: 5.2 Consensus size: 47
14740522 CGATTCAAGT
* * *
14740532 CCAATTTAGTGTGTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGT
1 CCAATTTGGTGTCTATATGCTGTCCAA-TTTTGGTGTAAAAATGCTGC
14740580 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
14740627 CCAATTTGGTGTCTATATGCTGTCCAATTTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTCTATATGCTGTCCAA-TTTTGGTGTAAAAATGCTGC
*
14740675 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAATATGCTGC
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
* *
14740722 CCAATTTGGTGTCTATATTCTGTCCAATTTTGGTGTAAAAATGCTGT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
14740769 CCAATTTG
1 CCAATTTG
14740777 AGATATATAT
Statistics
Matches: 189, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
47 117 0.62
48 72 0.38
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (47 bp):
CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
Done.