Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 37 of 135
Found at i:14193137 original size:58 final size:58
Alignment explanation
Indices: 14192844--14193153 Score: 264
Period size: 58 Copynumber: 5.3 Consensus size: 58
14192834 TAAAATTCTG
*
14192844 TTTTTAACCCCGATTTCACCAAAAATTACCATTTTAACCCCC-GG-ATCTTTTAAAATTCCA
1 TTTTTAACCCCGATTTCACC-AAAATTACCATTTT-ACCCCCGGGTATC-TAT-AAATTCCA
* * * *
14192904 --TTTAATCCCGATTTCACCGAAAATTACCTTTTTA-CCTCGAAGCT-TCTA-AAATTCCA
1 TTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCG--GGTATCTATAAATTCCA
* * *
14192960 TTTTTAACCCCGATTTTACCAAAAATTACCATTTTACCCCCGAAGCT-TCTA-AAATTCTA
1 TTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCCCG--GGTATCTATAAATTCCA
* * * *
14193019 TTTTTAACCCCGATTTCATCGAAAATTGCCATTTTACCCCC--GAATCTTTTAAAATTCCA
1 TTTTTAACCCCGATTTCA-CCAAAATTACCATTTTACCCCCGGGTATC-TAT-AAATTCCA
* * * * *
14193078 TTTTTAACCCCGATTACACCAAAATTACCATTTTGCCCCCGGGTATCCATAAGTCCCA
1 TTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGGGTATCTATAAATTCCA
*
14193136 TTTTTCACCCCGATTTCA
1 TTTTTAACCCCGATTTCA
14193154 TTATTTTATC
Statistics
Matches: 206, Mismatches: 30, Indels: 30
0.77 0.11 0.11
Matches are distributed among these distances:
56 13 0.06
57 2 0.01
58 102 0.50
59 84 0.41
60 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (58 bp):
TTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCCCGGGTATCTATAAATTCCA
Found at i:14195336 original size:62 final size:61
Alignment explanation
Indices: 14195094--14195601 Score: 444
Period size: 60 Copynumber: 8.5 Consensus size: 61
14195084 AGAGAAAGTT
* * * * **
14195094 GGTGTCGGTCATTGCATGGCCAACA-CAAAAAAA-TT-AATTTTTTACCAGATAAAAAAATG
1 GGTGTCGGCCATTGCATGACCAACACCAAAAAAATTTGAATTTTTTATCAGA-CAAAAAGGG
*
14195153 GGTGTCGGCCA-TGCAATGGA-CAACACC--AAAAATTTGAATTTTTTATCTGACAAAAAGGG
1 GGTGTCGGCCATTGC-AT-GACCAACACCAAAAAAATTTGAATTTTTTATCAGACAAAAAGGG
* * * * *
14195212 AGTGTCGTCTATTGCATGACCAACACCAAAAAAATTT-AATTTTTTACCAGATAAAAAAGGG
1 GGTGTCGGCCATTGCATGACCAACACCAAAAAAATTTGAATTTTTTATCAGA-CAAAAAGGG
* * *
14195273 GGTGTCGGCCATGGCATGACCAACACCAAAAAAAATTTAAATTTTTTATCTGACAAAAAGGG
1 GGTGTCGGCCATTGCATGACCAACACC-AAAAAAATTTGAATTTTTTATCAGACAAAAAGGG
* * * *
14195335 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAA-TTGATTTTTTTATCAG-TAAATAGGG
1 GGTGTCGGCCATTGCATGACCAACACCAAAAAAATTTGAATTTTTTATCAGACAAAAAGGG
** * *
14195394 GGAATCGGCCATTGCATGACCAACA-CAAAAAAA-TTGATTTTTTTATCAGTA-AATAA--G
1 GGTGTCGGCCATTGCATGACCAACACCAAAAAAATTTGAATTTTTTATCAG-ACAAAAAGGG
* * ** * *
14195451 GGTGTCGGCCATGGCAT-AGCCAAAAAATAAAAAAAATTAAATTTTTTATCTA-ACAAAAAGGG
1 GGTGTCGGCCATTGCATGA-CC-AACACCAAAAAAATTTGAATTTTTTATC-AGACAAAAAGGG
* * * * * **
14195513 AGTGTCGGCCA-TGCAATGGCCAACACC-TAAAAATTTGATTTTTTTATCAAATTAAAAGGG
1 GGTGTCGGCCATTGC-ATGACCAACACCAAAAAAATTTGAATTTTTTATCAGACAAAAAGGG
*
14195573 GGTGTCGGCCA-TGCAATGGCCAACACCAA
1 GGTGTCGGCCATTGC-ATGACCAACACCAA
14195602 TTTTTTTTTT
Statistics
Matches: 369, Mismatches: 54, Indels: 50
0.78 0.11 0.11
Matches are distributed among these distances:
56 1 0.00
57 17 0.05
58 37 0.10
59 83 0.22
60 109 0.30
61 52 0.14
62 58 0.16
63 12 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (61 bp):
GGTGTCGGCCATTGCATGACCAACACCAAAAAAATTTGAATTTTTTATCAGACAAAAAGGG
Found at i:14195510 original size:178 final size:181
Alignment explanation
Indices: 14195152--14195601 Score: 538
Period size: 178 Copynumber: 2.5 Consensus size: 181
14195142 ATAAAAAAAT
* * * **
14195152 GGGTGTCGGCCATGCAATGGACAACACCAAAAATTTGAATTTTTTATCTGACAAAAAGGGAGTGT
1 GGGTGTCGGCCATGCAATGGCCAACACCAAAAATTTGATTTTTTTATCAGACAAAAAGGGAGAAT
* * *
14195217 CGTCTATTGCATGACCAACACCAAAAAAATTTAATTTTTTACCAGATAAAAAAGGGGGTGTCGGC
66 CGGCCATTGCATGACCAACACCAAAAAAATTGAATTTTTTACCAGATAAAAAA-GGGGTGTCGGC
** * *
14195282 CATGGCATGACCAACACCAAAAAAAATTTAAATTTTTTATCTGACAAAAAGG
130 CATGGCATGACCAACAAAAAAAAAAAATTAAATTTTTTATCTAACAAAAAGG
* * * *
14195334 GGGTGTCGGCCATTGC-ATGGCCAACACCAAAAAAATTGATTTTTTTATCAG-TAAATAGGGGGA
1 GGGTGTCGGCCA-TGCAATGGCCAACACC-AAAAATTTGATTTTTTTATCAGACAAAAAGGGAGA
* * *
14195397 ATCGGCCATTGCATGACCAACA-CAAAAAAATTGATTTTTTTATCAG-TAAATAA-GGGTGTCGG
64 ATCGGCCATTGCATGACCAACACCAAAAAAATTGAATTTTTTACCAGATAAAAAAGGGGTGTCGG
14195459 CCATGGCAT-AGCCAA-AAAATAAAAAAAATTAAATTTTTTATCTAACAAAAAGG
129 CCATGGCATGA-CCAACAAAA-AAAAAAAATTAAATTTTTTATCTAACAAAAAGG
* * ** * **
14195512 GAGTGTCGGCCATGCAATGGCCAACACCTAAAAATTTGATTTTTTTATCAAATTAAAAGGGGGTG
1 GGGTGTCGGCCATGCAATGGCCAACACC-AAAAATTTGATTTTTTTATCAGACAAAAAGGGAGAA
*
14195577 TCGGCCA-TGCAATGGCCAACACCAA
65 TCGGCCATTGC-ATGACCAACACCAA
14195602 TTTTTTTTTT
Statistics
Matches: 232, Mismatches: 28, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
177 6 0.03
178 99 0.43
179 25 0.11
180 9 0.04
181 21 0.09
182 50 0.22
183 22 0.09
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (181 bp):
GGGTGTCGGCCATGCAATGGCCAACACCAAAAATTTGATTTTTTTATCAGACAAAAAGGGAGAAT
CGGCCATTGCATGACCAACACCAAAAAAATTGAATTTTTTACCAGATAAAAAAGGGGTGTCGGCC
ATGGCATGACCAACAAAAAAAAAAAATTAAATTTTTTATCTAACAAAAAGG
Found at i:14201584 original size:62 final size:62
Alignment explanation
Indices: 14201482--14201605 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
14201472 ACTCCATAAT
*
14201482 TTTTATTAAAAATAATAAGCCATATCAAAGAAAGGGTGAAAAAAGGAATTAGATTATTTATA
1 TTTTATTAAAAATAATAAGCCATATCAAAGAAAGGGTGAAAAAAGAAATTAGATTATTTATA
* * *
14201544 TTTTGTTAAAAATAATAAGCCATATTAAAGAAAGGGTGAAAAAAGAAATTAGGTTATTTATA
1 TTTTATTAAAAATAATAAGCCATATCAAAGAAAGGGTGAAAAAAGAAATTAGATTATTTATA
14201606 GTAGTAGTAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.31
Consensus pattern (62 bp):
TTTTATTAAAAATAATAAGCCATATCAAAGAAAGGGTGAAAAAAGAAATTAGATTATTTATA
Found at i:14204214 original size:31 final size:31
Alignment explanation
Indices: 14204119--14204214 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 31
14204109 TAGTTGACAA
* * * *
14204119 ATTTTGTAAATATTGAGGGCCAAATTTATTG
1 ATTTTATAAATATTGAGAGCTAAATTTGTTG
* * ***
14204150 ATTTTTTAAA-ATT-AGAGCTAAA-ATGACAA
1 ATTTTATAAATATTGAGAGCTAAATTTG-TTG
*
14204179 ATTTTATAAATATTGAGCGCTAAATTTGTTG
1 ATTTTATAAATATTGAGAGCTAAATTTGTTG
14204210 ATTTT
1 ATTTT
14204215 TTTATATTAA
Statistics
Matches: 47, Mismatches: 14, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
28 1 0.02
29 16 0.34
30 6 0.13
31 22 0.47
32 2 0.04
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (31 bp):
ATTTTATAAATATTGAGAGCTAAATTTGTTG
Found at i:14204245 original size:60 final size:60
Alignment explanation
Indices: 14204113--14204248 Score: 157
Period size: 60 Copynumber: 2.3 Consensus size: 60
14204103 TAGGACTAGT
* * *
14204113 TGACAAATTTTGTAAATATTGAGGGCCAAATTTATTGATTTTTTAAAATTAGAGCTAAAA
1 TGACAAAATTTATAAATATTGAGCGCCAAATTTATTGATTTTTTAAAATTAGAGCTAAAA
* * * * * * *
14204173 TGACAAATTTTATAAATATTGAGCGCTAAATTTGTTGATTTTTTTATATTA-AGATCAAAT
1 TGACAAAATTTATAAATATTGAGCGCCAAATTTATTGATTTTTTAAAATTAGAGCT-AAAA
*
14204233 TGATAAAATTTATAAA
1 TGACAAAATTTATAAA
14204249 CATTAGAGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 3 0.05
60 62 0.95
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (60 bp):
TGACAAAATTTATAAATATTGAGCGCCAAATTTATTGATTTTTTAAAATTAGAGCTAAAA
Found at i:14207133 original size:3 final size:3
Alignment explanation
Indices: 14207127--14207166 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
14207117 AATAATAATA
14207127 ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14207167 TACGCTAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14207138 original size:19 final size:19
Alignment explanation
Indices: 14207116--14207155 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14207106 ATTTAAATAA
14207116 TAATAATAATAATTATTAT
1 TAATAATAATAATTATTAT
* * *
14207135 TAATTATTATTATTATTAT
1 TAATAATAATAATTATTAT
14207154 TA
1 TA
14207156 TTATTATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATAATAATAATTATTAT
Found at i:14211410 original size:20 final size:21
Alignment explanation
Indices: 14211369--14211411 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14211359 TAATTTACTT
14211369 TAATTTGATTTTGCTAGTTAG
1 TAATTTGATTTTGCTAGTTAG
* *
14211390 TAATTTTATTTTG-TTGTTAG
1 TAATTTGATTTTGCTAGTTAG
14211410 TA
1 TA
14211412 GTAGTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.58
Consensus pattern (21 bp):
TAATTTGATTTTGCTAGTTAG
Found at i:14211486 original size:92 final size:92
Alignment explanation
Indices: 14211376--14211638 Score: 395
Period size: 92 Copynumber: 2.8 Consensus size: 92
14211366 CTTTAATTTG
14211376 ATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTT
1 ATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTT
*
14211441 ATTGATTTAAAATTTAATAATGTTTAA
66 ATTGATTTAAAATTTAATAATATTTAA
* *
14211468 ATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAACATTATTCATATTT
1 ATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTT
14211533 ATTGATTTAAAATTTAATAATATTTAA
66 ATTGATTTAAAATTTAATAATATTTAA
***** *
14211560 A-AAAAATAGTTAGTAA-TTTATTTTGTTATTAGTAAGTAGTAGTAAGTAAAAAATATTGTTCAT
1 ATTTTGCTAGTTAGTAATTTTATTTTG---TT-GTTAGTAGTAGTAAGTAAAAAATATTGTTCAT
14211623 ATTTATTGATTTAAAA
62 ATTTATTGATTTAAAA
14211639 AAATAATATA
Statistics
Matches: 156, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
90 9 0.06
91 10 0.06
92 90 0.58
93 2 0.01
94 45 0.29
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (92 bp):
ATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAAGTAAAAAATATTGTTCATATTT
ATTGATTTAAAATTTAATAATATTTAA
Found at i:14211880 original size:16 final size:16
Alignment explanation
Indices: 14211832--14211881 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14211822 TAAAACTAGC
*
14211832 TAATTAATTACCAAAA
1 TAATTAATTATCAAAA
*
14211848 T-A-TAA-TATAAAAGA
1 TAATTAATTATCAAA-A
14211862 TAATTAATTATCAAAA
1 TAATTAATTATCAAAA
14211878 TAAT
1 TAAT
14211882 ACCCCATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 5 0.19
14 5 0.19
15 2 0.07
16 9 0.33
17 6 0.22
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATTAATTATCAAAA
Found at i:14213260 original size:43 final size:43
Alignment explanation
Indices: 14213178--14213262 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
14213168 ATTAACATGT
* * *
14213178 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAACTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* *
14213221 TAAACTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAACTATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
14213263 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (43 bp):
TAAACTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:14213903 original size:21 final size:21
Alignment explanation
Indices: 14213877--14213923 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
14213867 ACGAGCCACC
*
14213877 GCAATACTTTACTCCTCGCGA-
1 GCAATACTCTACTCCTC-CGAG
14213898 GCAATACTCTACTCCTCCGAG
1 GCAATACTCTACTCCTCCGAG
14213919 GCAAT
1 GCAAT
14213924 TGGACCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.26
Consensus pattern (21 bp):
GCAATACTCTACTCCTCCGAG
Found at i:14216611 original size:29 final size:28
Alignment explanation
Indices: 14216579--14216719 Score: 103
Period size: 28 Copynumber: 4.9 Consensus size: 28
14216569 AGACTTCCAG
14216579 GGGTAAAATGGTAAATTTTGGTAAAATAA
1 GGGTAAAATGGT-AATTTTGGTAAAATAA
* * *
14216608 GGGTCAAAATGG-AATTTTAG-AAAGTTTAG
1 GGGT-AAAATGGTAATTTTGGTAAA--ATAA
* **
14216637 GGGTAAAATGGTAATTTTGGTGAAATTG
1 GGGTAAAATGGTAATTTTGGTAAAATAA
* *
14216665 GGGTCAAAATGG-AGTTTT-G-AAAGTTTAA
1 GGGT-AAAATGGTAATTTTGGTAAA--ATAA
14216693 GGGTAAAATGGTAATTTTTGGTAAAAT
1 GGGTAAAATGGTAA-TTTTGGTAAAAT
14216720 CGGGGTCAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 24
0.69 0.11 0.19
Matches are distributed among these distances:
26 2 0.02
27 11 0.13
28 31 0.36
29 29 0.34
30 10 0.12
31 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTGGTAAAATAA
Found at i:14216625 original size:57 final size:56
Alignment explanation
Indices: 14216549--14216798 Score: 238
Period size: 58 Copynumber: 4.3 Consensus size: 56
14216539 TTGGATACTC
* * *
14216549 AGGGGCAAAATAGTAATTTTAG-ACTTCCAGGGGTAAAATGGTAAATTTTGGTAAAAT
1 AGGGTCAAAAT-GGAATTTTAGAAGTT-CAGGGGTAAAATGGTAAATTTTGGTAAAAT
* *
14216606 AAGGGTCAAAATGGAATTTTAGAAAGTTTAGGGGTAAAATGGT-AATTTTGGTGAAATT
1 -AGGGTCAAAATGGAATTTTAG-AAGTTCAGGGGTAAAATGGTAAATTTTGGT-AAAAT
* * * * *
14216664 GGGGTCAAAATGGAGTTTT-GAAAGTTTAAGGGTAAAATGGTAATTTTTGGTAAAAT
1 AGGGTCAAAATGGAATTTTAG-AAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAAT
* * * *
14216720 CGGGGTCAAAAATGGAATTTTAGAAAGTTC-GGGGTAAAATGATAATTTTTGGTGAAAT
1 -AGGGTC-AAAATGGAATTTTAG-AAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAAT
*
14216778 CGAGGTCAAAAATGGAATTTT
1 AG-GGTC-AAAATGGAATTTT
14216799 GAAAAGTTGG
Statistics
Matches: 168, Mismatches: 16, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
56 25 0.15
57 50 0.30
58 83 0.49
59 10 0.06
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (56 bp):
AGGGTCAAAATGGAATTTTAGAAGTTCAGGGGTAAAATGGTAAATTTTGGTAAAAT
Found at i:14216805 original size:58 final size:59
Alignment explanation
Indices: 14216578--14216894 Score: 287
Period size: 58 Copynumber: 5.3 Consensus size: 59
14216568 TAGACTTCCA
* * * * *
14216578 GGGGTAAAATGGTAAATTTTGGTAAAAT-AAGGGTC-AAAATGGAATTTT-AGAAAGTTTA
1 GGGGTAAAATGATAATTTTTGGTGAAATCGA-GGTCAAAAATGGAATTTTGAGAAAG-TTC
* * * * *
14216636 GGGGTAAAATGGTAA-TTTTGGTGAAATTGGGGTC-AAAATGGAGTTTT--GAAAGTTTA
1 GGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAGAAAG-TTC
* * * *
14216692 AGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTT-AGAAAGTTC
1 GGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAGAAAGTTC
14216750 GGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAGTTGGAAAGTT
1 GGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTG---A----GAAAGTT
14216815 C
59 C
* *
14216816 GGGGGTAAAAT-AGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTG-GAAAGTTC
1 -GGGGTAAAATGA-TAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAGAAAGTTC
14216875 GGGGGTAAAAAT-ATAATTTT
1 -GGGGT-AAAATGATAATTTT
14216895 GGAAAGTTTT
Statistics
Matches: 229, Mismatches: 15, Indels: 29
0.84 0.05 0.11
Matches are distributed among these distances:
56 23 0.10
57 44 0.19
58 74 0.32
59 26 0.11
60 6 0.03
62 1 0.00
66 9 0.04
67 46 0.20
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (59 bp):
GGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAGAAAGTTC
Found at i:14216833 original size:67 final size:66
Alignment explanation
Indices: 14216742--14216873 Score: 212
Period size: 67 Copynumber: 2.0 Consensus size: 66
14216732 TGGAATTTTA
*
14216742 GAAAGTTCGGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAGTT
1 GAAAGTTCGGGGTAAAATGATAATTTTTAGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAGTT
14216807 G
66 G
* *
14216808 GAAAGTTCGGGGGTAAAAT-AGTAATTTTTAGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG
1 GAAAGTTC-GGGGTAAAATGA-TAATTTTTAGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAG
14216872 TT
64 TT
14216874 CGGGGGTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
66 9 0.15
67 52 0.85
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (66 bp):
GAAAGTTCGGGGTAAAATGATAATTTTTAGTGAAATCGAGGTCAAAAATGGAATTTTGAAAAGTT
G
Found at i:14216884 original size:29 final size:29
Alignment explanation
Indices: 14216805--14216902 Score: 103
Period size: 29 Copynumber: 3.3 Consensus size: 29
14216795 TTTTGAAAAG
14216805 TTGGAAAGTTCGGGGGT-AAAATAGTAATTT
1 TTGGAAAGTTCGGGGGTAAAAAT-GTAA-TT
* * *
14216835 TTAGTGAAA--TCGAGGTTAAAAATGGAATT
1 TT-G-GAAAGTTCGGGGGTAAAAATGTAATT
*
14216864 TTGGAAAGTTCGGGGGTAAAAATATAATT
1 TTGGAAAGTTCGGGGGTAAAAATGTAATT
14216893 TTGGAAAGTT
1 TTGGAAAGTT
14216903 TTTAGGTCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 30 0.54
30 11 0.20
31 6 0.11
32 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.33
Consensus pattern (29 bp):
TTGGAAAGTTCGGGGGTAAAAATGTAATT
Found at i:14218996 original size:12 final size:12
Alignment explanation
Indices: 14218981--14219013 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14218971 AATTAGACTT
14218981 TTAATTTTAATA
1 TTAATTTTAATA
*
14218993 TTAAGTTTAATA
1 TTAATTTTAATA
14219005 TT-ATTTTAA
1 TTAATTTTAA
14219014 ATTTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:14219018 original size:17 final size:16
Alignment explanation
Indices: 14219009--14219078 Score: 63
Period size: 17 Copynumber: 4.4 Consensus size: 16
14218999 TTAATATTAT
14219009 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
14219025 TTTAAATTTAAAGTAAA
1 TTTAAATTT-AATTAAA
***
14219042 TTTAAA--TAGGCAAA
1 TTTAAATTTAATTAAA
*
14219056 TTTAAATTTAAAATAAA
1 TTTAAATTT-AATTAAA
14219073 TTTAAA
1 TTTAAA
14219079 ATCAATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 10 0.23
17 22 0.50
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:14219029 original size:6 final size:6
Alignment explanation
Indices: 14219009--14219078 Score: 58
Period size: 6 Copynumber: 12.0 Consensus size: 6
14218999 TTAATATTAT
* **
14219009 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TAGGCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
*
14219056 TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
14219079 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
4 2 0.04
5 12 0.24
6 32 0.64
8 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:14219032 original size:11 final size:12
Alignment explanation
Indices: 14219009--14219078 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 12
14218999 TTAATATTAT
14219009 TTTAAATTT-AA
1 TTTAAATTTAAA
14219020 -TTAAATTTAAA
1 TTTAAATTTAAA
*
14219031 TTTAAA-GTAAA
1 TTTAAATTTAAA
**
14219042 TTTAAATAGGCAAA
1 TTTAAAT--TTAAA
14219056 TTTAAATTTAAA
1 TTTAAATTTAAA
*
14219068 -ATAAATTTAAA
1 TTTAAATTTAAA
14219079 ATCAATTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
10 8 0.16
11 22 0.45
12 8 0.16
14 11 0.22
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:14219079 original size:11 final size:11
Alignment explanation
Indices: 14219058--14219089 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14219048 TAGGCAAATT
14219058 TAAATTTAAAA
1 TAAATTTAAAA
14219069 TAAATTTAAAA
1 TAAATTTAAAA
*
14219080 TCAATTTAAA
1 TAAATTTAAA
14219090 CTCTTAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:14220120 original size:11 final size:10
Alignment explanation
Indices: 14220100--14220126 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14220090 TTAAATATAT
14220100 AAAAATAAAA
1 AAAAATAAAA
14220110 AAAAATAAAA
1 AAAAATAAAA
14220120 AAAAATA
1 AAAAATA
14220127 CGTGTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:14221294 original size:15 final size:15
Alignment explanation
Indices: 14221274--14221350 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 15
14221264 ATACTACAAA
14221274 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
14221289 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
14221306 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
14221323 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
*
14221336 ATATTT-TTAATAAT
1 ATATTTATTATTAAT
14221350 A
1 A
14221351 GAATCTAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 8 0.16
14 12 0.24
15 12 0.24
16 1 0.02
17 7 0.14
18 1 0.02
19 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:14221568 original size:16 final size:16
Alignment explanation
Indices: 14221537--14221573 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14221527 ATGTGAAGAA
14221537 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
14221553 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
14221569 TATTA
1 TATTA
14221574 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:14223092 original size:20 final size:21
Alignment explanation
Indices: 14223047--14223097 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
14223037 ATTAAGGCTT
14223047 TATTTTAATA-TAATGTTTAC
1 TATTTTAATACTAATGTTTAC
14223067 -ATTTTAATACT-AT-TTTAC
1 TATTTTAATACTAATGTTTAC
*
14223085 ATATTTTATTACT
1 -TATTTTAATACT
14223098 CCCATCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTTAATACTAATGTTTAC
Found at i:14226441 original size:42 final size:43
Alignment explanation
Indices: 14226284--14226439 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 43
14226274 AAAAATATCA
* *
14226284 CTAAAGACCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGACTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
* * *
14226327 CTAAAAATTATGTTCTTTAGCGGCGTTGGTGGGAAAAGCGCCG
1 CTAAAGACTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
*
14226370 CTAAAGA-TCATGTTCTTTAGCGGCGTTTTTGGG-AAAGCGCCG
1 CTAAAGACT-ATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
*
14226412 CTAAAGACTATGTTCTATAGCGGCGTTT
1 CTAAAGACTATGTTCTTTAGCGGCGTTT
14226440 TTCCTCATAA
Statistics
Matches: 102, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 35 0.34
43 67 0.66
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (43 bp):
CTAAAGACTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
Found at i:14239332 original size:21 final size:21
Alignment explanation
Indices: 14239303--14239346 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14239293 AAATAATAAA
14239303 TAATGATTT-AAATAATATTTT
1 TAATGATTTCAAAT-ATATTTT
* *
14239324 TAATTATTTCAAATATTTTTT
1 TAATGATTTCAAATATATTTT
14239345 TA
1 TA
14239347 CCATCTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TAATGATTTCAAATATATTTT
Found at i:14243855 original size:14 final size:14
Alignment explanation
Indices: 14243836--14243878 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
14243826 CGTCATAAAA
14243836 TATTTTTTAATATT
1 TATTTTTTAATATT
* *
14243850 TATTTTTTAAGA-G
1 TATTTTTTAATATT
*
14243863 TATTTGTTAATATT
1 TATTTTTTAATATT
14243877 TA
1 TA
14243879 CTTGTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TATTTTTTAATATT
Found at i:14243892 original size:27 final size:27
Alignment explanation
Indices: 14243831--14243892 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
14243821 ATTCACGTCA
* * *
14243831 TAAAA-TATTTTTTAATATTTATTTTT
1 TAAAAGTATTTGTTAATATTTATCTTG
*
14243857 TAAGAGTATTTGTTAATATTTA-CTTG
1 TAAAAGTATTTGTTAATATTTATCTTG
14243883 TAAAATGTAT
1 TAAAA-GTAT
14243893 ACCGCAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (27 bp):
TAAAAGTATTTGTTAATATTTATCTTG
Found at i:14244165 original size:22 final size:22
Alignment explanation
Indices: 14244140--14244182 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
14244130 ATATATTTAT
14244140 ATTAAATTAATAACCCAAAACA
1 ATTAAATTAATAACCCAAAACA
* *
14244162 ATTAAATTAATTACTCAAAAC
1 ATTAAATTAATAACCCAAAAC
14244183 CTAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
ATTAAATTAATAACCCAAAACA
Found at i:14255849 original size:19 final size:19
Alignment explanation
Indices: 14255825--14255873 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
14255815 AATATCGACG
*
14255825 GAAAAAATTAATTAAAAAT
1 GAAAAAATTAACTAAAAAT
* *
14255844 GAAAAAATAAACTAAAATT
1 GAAAAAATTAACTAAAAAT
*
14255863 AAAAAAATTAA
1 GAAAAAATTAA
14255874 GAGTAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
GAAAAAATTAACTAAAAAT
Found at i:14258039 original size:58 final size:57
Alignment explanation
Indices: 14257977--14258085 Score: 128
Period size: 57 Copynumber: 1.9 Consensus size: 57
14257967 TTTTTTTGTC
* * *
14257977 CAATTTGCTACTTAAACTTGACATTTTTTTCTAAGTTGATACTTAATCTTTTGGGGGT
1 CAATTTGATACCTAAACTTGA-ATTTTTTTCTAAGTTGATACCTAATCTTTTGGGGGT
** * * * *
14258035 CAATTTGATACCTGGATTTGATTTTTTTTCTAATTTGGTACCTAATCTTTT
1 CAATTTGATACCTAAACTTGAATTTTTTTCTAAGTTGATACCTAATCTTTT
14258086 TTTTTATTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 26 0.62
58 16 0.38
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (57 bp):
CAATTTGATACCTAAACTTGAATTTTTTTCTAAGTTGATACCTAATCTTTTGGGGGT
Found at i:14258612 original size:58 final size:59
Alignment explanation
Indices: 14258477--14258647 Score: 254
Period size: 58 Copynumber: 2.9 Consensus size: 59
14258467 AATTGAATCT
*
14258477 AAAAAAAGCTTAGGTACCAAATTAGAAAAAAAATGTCAAGTTCAAGTACCAAATTGGGCC
1 AAAAAAAGTTTAGGTACCAAATTA-AAAAAAAATGTCAAGTTCAAGTACCAAATTGGGCC
* * * *
14258537 CAAAAAAGTTCAGGTACCAAATTAAGAAAAATTGTCAAGTTCAAGTACCAAATTGGG-C
1 AAAAAAAGTTTAGGTACCAAATTAAAAAAAAATGTCAAGTTCAAGTACCAAATTGGGCC
* * *
14258595 AAAAAAAGTTTATGTACCAAATTAAAAAAAAATGTCAAGTTCAATTATCAAAT
1 AAAAAAAGTTTAGGTACCAAATTAAAAAAAAATGTCAAGTTCAAGTACCAAAT
14258648 ATTATATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
58 47 0.47
59 31 0.31
60 21 0.21
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.23
Consensus pattern (59 bp):
AAAAAAAGTTTAGGTACCAAATTAAAAAAAAATGTCAAGTTCAAGTACCAAATTGGGCC
Found at i:14259864 original size:12 final size:12
Alignment explanation
Indices: 14259849--14259885 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
14259839 ACAATTCATA
14259849 TCACTTTCAATT
1 TCACTTTCAATT
*
14259861 TCACTTTCACTT
1 TCACTTTCAATT
14259873 TCACTTTCAATT
1 TCACTTTCAATT
14259885 T
1 T
14259886 TGATCACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (12 bp):
TCACTTTCAATT
Found at i:14259868 original size:6 final size:6
Alignment explanation
Indices: 14259849--14259881 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14259839 ACAATTCATA
*
14259849 TCACTT TCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCA
14259882 ATTTTGATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.48
Consensus pattern (6 bp):
TCACTT
Found at i:14262736 original size:17 final size:17
Alignment explanation
Indices: 14262716--14262777 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
14262706 TATTTCAAGT
*
14262716 TTAAATTTAAACTTATC
1 TTAAATTTAAATTTATC
* *
14262733 TTAAGTTTGAATTTA-C
1 TTAAATTTAAATTTATC
*
14262749 TTTAAATTTAAATTTATT
1 -TTAAATTTAAATTTATC
*
14262767 TTAAAATTAAA
1 TTAAATTTAAA
14262778 AGTAATTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 1 0.03
17 35 0.97
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:14264613 original size:30 final size:30
Alignment explanation
Indices: 14264579--14264934 Score: 219
Period size: 30 Copynumber: 12.1 Consensus size: 30
14264569 GCTAGAAGGT
*
14264579 CCCTAAACTTTTCAAAAATCACATTTTGAC
1 CCCTAAACTTTTCAAAAATTACATTTTGAC
* *
14264609 CCCTAAAC-TTTCTAAAAATTATATTTTAAC
1 CCCTAAACTTTTC-AAAAATTACATTTTGAC
* *
14264639 CTCC-AAACTTCTAAAAAATT-CATTTTTGA-
1 C-CCTAAACTTTTCAAAAATTACA-TTTTGAC
*
14264668 CCCTAAACTTTCCAAAAATTACCATTTT-AC
1 CCCTAAACTTTTCAAAAATTA-CATTTTGAC
* * *
14264698 CCCTAAA-TTTCCAAAAATTCCATTTTTGAT
1 CCCTAAACTTTTCAAAAATTACA-TTTTGAC
*
14264728 CTC-AAAC-TTTCTAAAAATTACCATTTT-AC
1 CCCTAAACTTTTC-AAAAATTA-CATTTTGAC
* * * *
14264757 CCTTAAA-TTTCCAAAAATTTCTTTTTGAC
1 CCCTAAACTTTTCAAAAATTACATTTTGAC
* * * *
14264786 CTC-GAACTTTTCAAAAATTATATTTTTA-
1 CCCTAAACTTTTCAAAAATTACATTTTGAC
* *
14264814 CCCTCGAACTTTCCAAAAATTACCATTTT-A-
1 CCCT-AAACTTTTCAAAAATTA-CATTTTGAC
* * *
14264844 CCCTCAAA-TTTCCAAAAATTTCTTTTTGAC
1 CCCT-AAACTTTTCAAAAATTACATTTTGAC
* * *
14264874 CTC-GAACTTTTCAAAAATTATATTTTGA-
1 CCCTAAACTTTTCAAAAATTACATTTTGAC
*
14264902 CCCTCGAA-TTTTCCAAAAATTACCATTTT-AC
1 CCCT-AAACTTTT-CAAAAATTA-CATTTTGAC
14264933 CC
1 CC
14264935 TCGAACATCC
Statistics
Matches: 255, Mismatches: 43, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
28 22 0.09
29 104 0.41
30 109 0.43
31 20 0.08
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTTTCAAAAATTACATTTTGAC
Found at i:14264768 original size:88 final size:89
Alignment explanation
Indices: 14264582--14264983 Score: 351
Period size: 88 Copynumber: 4.5 Consensus size: 89
14264572 AGAAGGTCCC
* * * *
14264582 TAAACTTTTCAAAAATCA-CATTTTGACCCCTAAACTTTCTAAAAATTATATTTT-AACCTCCAA
1 TAAA-TTTCCAAAAATTATCATTTTGACCCCTAAA-TTTCCAAAAATTATATTTTGACCCT-CAA
*
14264645 AC-TTCTAAAAAATT--CATTTTTGACCC-
63 ACTTTC-CAAAAATTACCA-TTTT-ACCCT
* *
14264671 TAAACTTTCCAAAAATTACCATTTT-ACCCCTAAATTTCCAAAAATTCCAT-TTTTGA-TCTCAA
1 TAAA-TTTCCAAAAATTATCATTTTGACCCCTAAATTTCCAAAAATT--ATATTTTGACCCTCAA
*
14264733 ACTTTCTAAAAATTACCATTTTACCCT
63 ACTTTCCAAAAATTACCATTTTACCCT
* * * * * * *
14264760 TAAATTTCCAAAAATT-TCTTTTTGACCTCGAACTTTTCAAAAATTATATTTTTACCCTCGAACT
1 TAAATTTCCAAAAATTATCATTTTGACCCCTAAATTTCCAAAAATTATATTTTGACCCTCAAACT
14264824 TTCCAAAAATTACCATTTTACCCT
66 TTCCAAAAATTACCATTTTACCCT
* * * * * * * *
14264848 CAAATTTCCAAAAATT-TCTTTTTGACCTCGAACTTTTCAAAAATTATATTTTGACCCTCGAATT
1 TAAATTTCCAAAAATTATCATTTTGACCCCTAAATTTCCAAAAATTATATTTTGACCCTCAAACT
14264912 TTCCAAAAATTACCATTTTACCCT
66 TTCCAAAAATTACCATTTTACCCT
** ** * * *
14264936 CGAACATCCAAAAATTATCGTTTT-ACCCCTCGAAGTTTTCAAAAATTA
1 TAAATTTCCAAAAATTATCATTTTGACCCCT--AAATTTCCAAAAATTA
14264984 CCGTTTTACC
Statistics
Matches: 274, Mismatches: 25, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
86 2 0.01
87 10 0.04
88 188 0.69
89 48 0.18
90 26 0.09
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.38
Consensus pattern (89 bp):
TAAATTTCCAAAAATTATCATTTTGACCCCTAAATTTCCAAAAATTATATTTTGACCCTCAAACT
TTCCAAAAATTACCATTTTACCCT
Found at i:14264889 original size:58 final size:60
Alignment explanation
Indices: 14264584--14265071 Score: 279
Period size: 59 Copynumber: 8.3 Consensus size: 60
14264574 AAGGTCCCTA
* * * * * *
14264584 AACTTTTCAAAAATCACATTTTGACCC-CTAAACTTTCTAAAAATTATA-TTTTAACCTCCA
1 AACTTTCCAAAAATTACATTTTGACCCTCGAAA-TTTCCAAAAATTATATTTTTACCCT-CG
* * *
14264644 AAC-TTCTAAAAAATT-CATTTTTGACCCT--AAACTTTCCAAAAATTACCA-TTTTACCC-CT
1 AACTTTC-CAAAAATTACA-TTTTGACCCTCGAAA-TTTCCAAAAATTA-TATTTTTACCCTCG
* * * * * *
14264702 AAATTTCCAAAAATTCCATTTTTGA-TCTC-AAACTTTCTAAAAATTACCA-TTTTACCCT-T
1 AACTTTCCAAAAATTACA-TTTTGACCCTCGAAA-TTTCCAAAAATTA-TATTTTTACCCTCG
* * * * *
14264761 AAATTTCCAAAAATTTCTTTTTGA-CCTCGAACTTTTCAAAAATTATATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTGACCCTCGAAATTTCCAAAAATTATATTTTTACCCTCG
*
14264820 AACTTTCCAAAAATTACCATTTT-ACCCTC-AAATTTCCAAAAATT-TCTTTTTGA-CCTCG
1 AACTTTCCAAAAATTA-CATTTTGACCCTCGAAATTTCCAAAAATTATATTTTT-ACCCTCG
* * * *
14264878 AACTTTTCAAAAATTATATTTTGACCCTCGAATTTTCCAAAAATTACCA-TTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTGACCCTCGAAATTTCCAAAAATTA-TATTTTTACCCTCG
* * * * ***
14264938 AAC-ATCCAAAAATTATCGTTTT-ACCCCTCGAAGTTTTCAAAAATTACCGTTTTACCCTCG
1 AACTTTCCAAAAATTA-CATTTTGA-CCCTCGAAATTTCCAAAAATTATATTTTTACCCTCG
** * ** * * *
14264998 -GGTGTCCAAAAATTACCGTTTAACCCCCGAACA--TCCAAAAATTATCA-TTTTACCCCCG
1 AACTTTCCAAAAATTACATTTTGACCCTCGAA-ATTTCCAAAAATTAT-ATTTTTACCCTCG
* *
14265056 AA-TATCCAAAATTTAC
1 AACTTTCCAAAAATTAC
14265072 CGTTTTGCGC
Statistics
Matches: 350, Mismatches: 51, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
57 6 0.02
58 105 0.30
59 145 0.41
60 94 0.27
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.36
Consensus pattern (60 bp):
AACTTTCCAAAAATTACATTTTGACCCTCGAAATTTCCAAAAATTATATTTTTACCCTCG
Found at i:14264959 original size:29 final size:29
Alignment explanation
Indices: 14264622--14265066 Score: 261
Period size: 29 Copynumber: 15.1 Consensus size: 29
14264612 TAAACTTTCT
* * *
14264622 AAAAATTAT-ATTTTAACCTCCAAACTTCT
1 AAAAATTATCATTTTACCCT-CGAACTTCC
* *
14264651 AAAAAAT-TCATTTTTGACCCT-AAACTTTCC
1 AAAAATTATCA-TTTT-ACCCTCGAAC-TTCC
* * *
14264681 AAAAATTACCATTTTACCC-CTAAATTTCC
1 AAAAATTATCATTTTACCCTC-GAACTTCC
* * * *
14264710 AAAAATT-CCATTTTTGA-TCTCAAACTTTCT
1 AAAAATTATCA-TTTT-ACCCTCGAAC-TTCC
* ** *
14264740 AAAAATTACCATTTTACCCTTAAATTTCC
1 AAAAATTATCATTTTACCCTCGAACTTCC
* *
14264769 AAAAATT-TCTTTTTGA-CCTCGAACTTTTC
1 AAAAATTATCATTTT-ACCCTCGAAC-TTCC
14264798 AAAAATTAT-ATTTTTACCCTCGAACTTTCC
1 AAAAATTATCA-TTTTACCCTCGAAC-TTCC
* * *
14264828 AAAAATTACCATTTTACCCTCAAATTTCC
1 AAAAATTATCATTTTACCCTCGAACTTCC
* *
14264857 AAAAATT-TCTTTTTGA-CCTCGAACTTTTC
1 AAAAATTATCATTTT-ACCCTCGAAC-TTCC
*
14264886 AAAAATTAT-ATTTTGACCCTCGAATTTTCC
1 AAAAATTATCATTTT-ACCCTCGAA-CTTCC
* *
14264916 AAAAATTACCATTTTACCCTCGAACATCC
1 AAAAATTATCATTTTACCCTCGAACTTCC
* * *
14264945 AAAAATTATCGTTTTACCCCTCGAAGTTTTC
1 AAAAATTATCATTTTA-CCCTCGAA-CTTCC
* * **
14264976 AAAAATTACCGTTTTACCCTCG-GGTGTCC
1 AAAAATTATCATTTTACCCTCGAACT-TCC
* * * * *
14265005 AAAAATTACCGTTTAACCCCCGAACATCC
1 AAAAATTATCATTTTACCCTCGAACTTCC
*
14265034 AAAAATTATCATTTTACCCCCGAA-TATCC
1 AAAAATTATCATTTTACCCTCGAACT-TCC
14265063 AAAA
1 AAAA
14265067 TTTACCGTTT
Statistics
Matches: 333, Mismatches: 53, Indels: 60
0.75 0.12 0.13
Matches are distributed among these distances:
28 26 0.08
29 155 0.47
30 120 0.36
31 32 0.10
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAAATTATCATTTTACCCTCGAACTTCC
Found at i:14268218 original size:26 final size:26
Alignment explanation
Indices: 14268189--14268243 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
14268179 TCTTTTCTTA
14268189 TTTTACA-AATTTTAATCATTTTATTT
1 TTTTACATAA-TTTAATCATTTTATTT
* **
14268215 TTTTCCATAATTTAATTTTTTTATTT
1 TTTTACATAATTTAATCATTTTATTT
14268241 TTT
1 TTT
14268244 GTGCAACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTACATAATTTAATCATTTTATTT
Found at i:14270354 original size:50 final size:50
Alignment explanation
Indices: 14270295--14270394 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
14270285 AGTAAACGAA
14270295 GTACAATATTATTTAACTACATAAACAATATAATGGTTTTACCTTTTAAC
1 GTACAATATTATTTAACTACATAAACAATATAATGGTTTTACCTTTTAAC
*
14270345 GTACAATATTATTTAACTATATAAACAATATAATGGTTTTACCTTTTAAC
1 GTACAATATTATTTAACTACATAAACAATATAATGGTTTTACCTTTTAAC
14270395 TTAAGGAGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (50 bp):
GTACAATATTATTTAACTACATAAACAATATAATGGTTTTACCTTTTAAC
Found at i:14277091 original size:3 final size:3
Alignment explanation
Indices: 14277083--14277117 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14277073 ATGAAAATTG
14277083 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14277118 ATAATCTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14281224 original size:17 final size:17
Alignment explanation
Indices: 14281204--14281240 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14281194 AGTTTTTCTA
*
14281204 AAATTTAAACTTAATAT
1 AAATTTAAACTTAAAAT
*
14281221 AAATTTAAATTTAAAAT
1 AAATTTAAACTTAAAAT
14281238 AAA
1 AAA
14281241 AATTAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTAAACTTAAAAT
Found at i:14281279 original size:20 final size:20
Alignment explanation
Indices: 14281234--14281280 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
14281224 TTTAAATTTA
*
14281234 AAATA-AAAATTAAATGTCC
1 AAATACAAAATTAAAAGTCC
*
14281253 AAATACAAAATTAAAAGTTC
1 AAATACAAAATTAAAAGTCC
*
14281273 AATTACAA
1 AAATACAA
14281281 GTCCAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATACAAAATTAAAAGTCC
Found at i:14283045 original size:29 final size:28
Alignment explanation
Indices: 14283015--14283234 Score: 120
Period size: 29 Copynumber: 7.6 Consensus size: 28
14283005 AAACTGTCCA
14283015 AAAATTACATTTTGACCCTGATTTCACC
1 AAAATTACATTTTGACCCTGATTTCACC
14283043 AAAATTATCATTTT-ACCCTCGAACTTT--CC
1 AAAATTA-CATTTTGACCCT-G-A-TTTCACC
*
14283072 AAAATTCCATTTTTGA-CCTCGATTTCACC
1 AAAATTACA-TTTTGACCCT-GATTTCACC
**
14283101 AAAAATTATCATTTT-ACCCCCAAACTTT--CC
1 -AAAATTA-CATTTTGA--CCCTGA-TTTCACC
* *
14283131 AAAATTCCATTTTGACCCTAATTTCACC
1 AAAATTACATTTTGACCCTGATTTCACC
*
14283159 AAAATTACCATTCT-ACCCCCTGAACTTT--CC
1 AAAATTA-CATTTTGA--CCCTG-A-TTTCACC
* * * *
14283189 AAAATTTCATTTTAACCCTAATTTTACC
1 AAAATTACATTTTGACCCTGATTTCACC
14283217 AAAATTACCATTTT-ACCC
1 AAAATTA-CATTTTGACCC
14283235 CTGAACCTTC
Statistics
Matches: 153, Mismatches: 13, Indels: 52
0.70 0.06 0.24
Matches are distributed among these distances:
26 6 0.04
27 9 0.06
28 46 0.30
29 50 0.33
30 27 0.18
31 7 0.05
32 8 0.05
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTGATTTCACC
Found at i:14283101 original size:58 final size:58
Alignment explanation
Indices: 14283001--14283260 Score: 321
Period size: 58 Copynumber: 4.5 Consensus size: 58
14282991 GCTCATAAGT
* * * * *
14283001 CCCTAAACTGTCCAAAAATTACATTTTGACCCTGATTTCACCAAAATTATCATTTTACC
1 CCCTGAACTTTCC-AAAATTCCATTTTGACCCTAATTTCACCAAAATTACCATTTTACC
* * *
14283060 CTC-GAACTTTCCAAAATTCCATTTTTGA-CCTCGATTTCACCAAAAATTATCATTTTACC
1 CCCTGAACTTTCCAAAATTCCA-TTTTGACCCT-AATTTCACC-AAAATTACCATTTTACC
* *
14283119 CCC-AAACTTTCCAAAATTCCATTTTGACCCTAATTTCACCAAAATTACCATTCTACC
1 CCCTGAACTTTCCAAAATTCCATTTTGACCCTAATTTCACCAAAATTACCATTTTACC
* * *
14283176 CCCTGAACTTTCCAAAATTTCATTTTAACCCTAATTTTACCAAAATTACCATTTTA-C
1 CCCTGAACTTTCCAAAATTCCATTTTGACCCTAATTTCACCAAAATTACCATTTTACC
* *
14283233 CCCTGAACCTTCCAAAATCCCATTTTGA
1 CCCTGAACTTTCCAAAATTCCATTTTGA
14283261 ACCCCAAATT
Statistics
Matches: 178, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
57 54 0.30
58 83 0.47
59 41 0.23
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (58 bp):
CCCTGAACTTTCCAAAATTCCATTTTGACCCTAATTTCACCAAAATTACCATTTTACC
Found at i:14283256 original size:28 final size:27
Alignment explanation
Indices: 14283110--14283258 Score: 113
Period size: 29 Copynumber: 5.2 Consensus size: 27
14283100 CAAAAATTAT
* *
14283110 CATTTTACCCCCAAACTTTCCAAAATTC
1 CATTTTA-CCCCTAACTTTCCAAAATAC
14283138 CATTTTGA-CCCTAA-TTTCACCAAAATTAC
1 CATTTT-ACCCCTAACTTT--CCAAAA-TAC
* **
14283167 CATTCTACCCCCTGAACTTTCCAAAATTT
1 CATTTTA-CCCCT-AACTTTCCAAAATAC
* *
14283196 CATTTTAACCCTAATTTTACCAAAATTAC
1 CATTTTACCCCTAACTTT-CCAAAA-TAC
* *
14283225 CATTTTACCCCTGAACCTTCCAAAATCC
1 CATTTTACCCCT-AACTTTCCAAAATAC
14283253 CATTTT
1 CATTTT
14283259 GAACCCCAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
26 3 0.03
27 10 0.10
28 31 0.32
29 33 0.34
30 14 0.15
31 2 0.02
32 3 0.03
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.35
Consensus pattern (27 bp):
CATTTTACCCCTAACTTTCCAAAATAC
Found at i:14289810 original size:19 final size:19
Alignment explanation
Indices: 14289786--14289822 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14289776 CTAAAAAATG
14289786 TAATTGCTATACAACTAAC
1 TAATTGCTATACAACTAAC
14289805 TAATTGCTATACAACTAA
1 TAATTGCTATACAACTAA
14289823 TTACCCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (19 bp):
TAATTGCTATACAACTAAC
Found at i:14291003 original size:21 final size:22
Alignment explanation
Indices: 14290969--14291021 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
14290959 TTTTTCCTTC
*
14290969 TTTTACATATTTGTTAT-A-TTA
1 TTTTATATATTTGTT-TGAGTTA
14290990 TTTT-TATATGTTGTTTGAGTTA
1 TTTTATATAT-TTGTTTGAGTTA
14291012 TTTTATATAT
1 TTTTATATAT
14291022 ATCTAGTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 7 0.26
23 5 0.19
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTATATATTTGTTTGAGTTA
Found at i:14291056 original size:21 final size:20
Alignment explanation
Indices: 14291030--14291076 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
14291020 ATATCTAGTG
14291030 TTTTATAAATTTATAAATAAT
1 TTTTATAAATTTA-AAATAAT
** *
14291051 TTTTATATGTTTAAAATTAT
1 TTTTATAAATTTAAAATAAT
14291071 TTTTAT
1 TTTTAT
14291077 GTAAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTATAAATTTAAAATAAT
Found at i:14291299 original size:22 final size:20
Alignment explanation
Indices: 14291259--14291304 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
14291249 TTCATTCAAC
* *
14291259 TATTAATTTTTCAATTTAAT
1 TATTAATTTTTCAAATTAAA
14291279 TATTAAATTTTTCGAAATTAAA
1 TATT-AATTTTTC-AAATTAAA
14291301 TATT
1 TATT
14291305 TTGATTACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTAATTTTTCAAATTAAA
Found at i:14291723 original size:23 final size:23
Alignment explanation
Indices: 14291697--14291766 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
14291687 TTTATTTAAC
*
14291697 TTAATCGAACATGTTCAGGAACA
1 TTAATCGAACATGTTCACGAACA
* *
14291720 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
* *
14291743 TATAATTGAACATATTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
14291767 ATGATAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:14293278 original size:18 final size:18
Alignment explanation
Indices: 14293255--14293289 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14293245 TATAAATTAA
*
14293255 AAAGTCCAATTACAAAAG
1 AAAGTCCAAATACAAAAG
14293273 AAAGTCCAAATACAAAA
1 AAAGTCCAAATACAAAA
14293290 TATAGGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.17, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAGTCCAAATACAAAAG
Found at i:14295155 original size:30 final size:30
Alignment explanation
Indices: 14295115--14295379 Score: 117
Period size: 29 Copynumber: 8.9 Consensus size: 30
14295105 TCTAGTCCCC
14295115 AAACTTTCCAAAATTCCATTTTTTAACCCTA
1 AAACTTTCCAAAATTCCA-TTTTTAACCCTA
* *
14295146 AAAC-TTCCAAAAATTATCA-TTTTACCCCT-
1 AAACTTTCC-AAAATT-CCATTTTTAACCCTA
* *
14295175 AAACTTTCCAAAATTCCA-TTTTGACCCCA
1 AAACTTTCCAAAATTCCATTTTTAACCCTA
*
14295204 AAAC-TTCCAAAAAATT--ATCGTTTTACCCCT-
1 AAACTTTCC--AAAATTCCAT--TTTTAACCCTA
* * *
14295234 AAACTTTCCAAAATTCTATTTTTGACCCGA
1 AAACTTTCCAAAATTCCATTTTTAACCCTA
*** ** **
14295264 TTTC-ACCCAAAAATTACCA-TTTT-ACCCCC
1 AAACTTTCC-AAAATT-CCATTTTTAACCCTA
* **
14295293 AAACTTTCCAAAATTCCATTTTTGACCCCG
1 AAACTTTCCAAAATTCCATTTTTAACCCTA
* ** **
14295323 ATA-TCACCTAAAATTACCA-TTTT-ACCCCC
1 AAACTTTCC-AAAATT-CCATTTTTAACCCTA
*
14295352 AAACTTTCTAAAATTCCATTTTTAACCC
1 AAACTTTCCAAAATTCCATTTTTAACCC
14295380 CGATTTCATC
Statistics
Matches: 177, Mismatches: 34, Indels: 47
0.69 0.13 0.18
Matches are distributed among these distances:
28 20 0.11
29 64 0.36
30 63 0.36
31 28 0.16
32 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (30 bp):
AAACTTTCCAAAATTCCATTTTTAACCCTA
Found at i:14295187 original size:29 final size:29
Alignment explanation
Indices: 14295111--14295248 Score: 133
Period size: 30 Copynumber: 4.7 Consensus size: 29
14295101 GCTCTCTAGT
*
14295111 CCCC-AAACTTTCCAAAATTCCAT-TTTTTA
1 CCCCTAAACTTTCCAAAATT--ATCATTTTA
*
14295140 ACCCTAAAAC-TTCCAAAAATTATCATTTTA
1 CCCCT-AAACTTTCC-AAAATTATCATTTTA
*
14295170 CCCCTAAACTTTCCAAAATT-CCATTTTGA
1 CCCCTAAACTTTCCAAAATTATCATTTT-A
* *
14295199 CCCCAAAAC-TTCCAAAAAATTATCGTTTTA
1 CCCCTAAACTTTCC--AAAATTATCATTTTA
14295229 CCCCTAAACTTTCCAAAATT
1 CCCCTAAACTTTCCAAAATT
14295249 CTATTTTTGA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
28 10 0.11
29 30 0.33
30 32 0.35
31 19 0.21
ACGTcount: A:0.36, C:0.29, G:0.01, T:0.33
Consensus pattern (29 bp):
CCCCTAAACTTTCCAAAATTATCATTTTA
Found at i:14295395 original size:30 final size:31
Alignment explanation
Indices: 14295240--14295404 Score: 111
Period size: 29 Copynumber: 5.5 Consensus size: 31
14295230 CCCTAAACTT
* *
14295240 TCCAAAATT-CTATTTTTGA-CCCGATTTCA
1 TCCAAAATTACCATTTTTAACCCCGATTTCA
* * * *
14295269 CCCAAAAATTACCA-TTTTACCCCCAAACTT--
1 TCC-AAAATTACCATTTTTAACCCC-GATTTCA
* *
14295299 TCCAAAATT-CCATTTTTGACCCCGATATCA
1 TCCAAAATTACCATTTTTAACCCCGATTTCA
* *
14295329 -CCTAAAATTACCA-TTTTACCCCCAAACTTTC-
1 TCC-AAAATTACCATTTTTAACCCC-GA-TTTCA
14295360 T--AAAATT-CCATTTTTAACCCCGATTTCA
1 TCCAAAATTACCATTTTTAACCCCGATTTCA
14295388 TCCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
14295405 ACCCTCGAAC
Statistics
Matches: 101, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
27 4 0.04
28 10 0.10
29 33 0.33
30 32 0.32
31 16 0.16
32 6 0.06
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (31 bp):
TCCAAAATTACCATTTTTAACCCCGATTTCA
Found at i:14295424 original size:29 final size:28
Alignment explanation
Indices: 14295273--14295425 Score: 118
Period size: 29 Copynumber: 5.2 Consensus size: 28
14295263 ATTTCACCCA
* *
14295273 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTA-CCCCGAACTTTCT
**
14295302 AAAATT-CCATTTTTGACCCCGATA-TCACCT
1 AAAATTACCA-TTTT-ACCCCGA-ACT-TTCT
*
14295332 AAAATTACCATTTTACCCCCAAACTTTCT
1 AAAATTACCATTTTA-CCCCGAACTTTCT
14295361 AAAATT-CCATTTTTAACCCCG-A-TTTCAT
1 AAAATTACCA-TTTT-ACCCCGAACTTTC-T
14295389 CCAAAATTACCATTTTACCCTCGAACTTTCT
1 --AAAATTACCATTTTACCC-CGAACTTTCT
14295420 AAAATT
1 AAAATT
14295426 CTATTTTTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
27 4 0.04
28 8 0.08
29 44 0.44
30 32 0.32
31 8 0.08
32 4 0.04
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCGAACTTTCT
Found at i:14295433 original size:29 final size:28
Alignment explanation
Indices: 14295273--14295463 Score: 115
Period size: 29 Copynumber: 6.5 Consensus size: 28
14295263 ATTTCACCCA
* *
14295273 AAAATTACCA-TTTTACCCCCAAACTTTCC
1 AAAATT-CCATTTTTA-CCCCGAACTTTCT
**
14295302 AAAATTCCATTTTTGACCCCGATA-TCACCT
1 AAAATTCCATTTTT-ACCCCGA-ACT-TTCT
*
14295332 AAAATTACCA-TTTTACCCCCAAACTTTCT
1 AAAATT-CCATTTTTA-CCCCGAACTTTCT
14295361 AAAATTCCATTTTTAACCCCG-A-TTTCAT
1 AAAATTCCATTTTT-ACCCCGAACTTTC-T
14295389 CCAAAATTACCA-TTTTACCCTCGAACTTTCT
1 --AAAATT-CCATTTTTACCC-CGAACTTTCT
* * *
14295420 AAAATTCTATTTTTAAACCCGAATTTTCCT
1 AAAATTCCATTTTT-ACCCCGAACTTT-CT
* *
14295450 GAAATTACATTTTT
1 AAAATTCCATTTTT
14295464 CCCTCGAGAG
Statistics
Matches: 129, Mismatches: 14, Indels: 37
0.72 0.08 0.21
Matches are distributed among these distances:
27 4 0.03
28 10 0.08
29 55 0.43
30 48 0.37
31 8 0.06
32 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCGAACTTTCT
Found at i:14295434 original size:59 final size:60
Alignment explanation
Indices: 14295111--14295462 Score: 344
Period size: 59 Copynumber: 6.0 Consensus size: 60
14295101 GCTCTCTAGT
* *** * * *
14295111 CCCCAAACTTTCCAAAATTCCATTTTTTAA-CCCTAAAACTTCCAAAAATTATCATTTTAC
1 CCCCAAACTTTCCAAAATTCCA-TTTTTAACCCCGATTTCATCCTAAAATTACCATTTTAC
* * *** * * * *
14295171 CCCTAAACTTTCCAAAATTCCA-TTTTGACCCC-AAAACTTCCAAAAAATTATCGTTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCC-TAAAATTACCATTTTAC
* * * * *
14295230 CCCTAAACTTTCCAAAATTCTATTTTTGA-CCCGATTTCACCCAAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCCTAAAATTACCATTTTAC
* *
14295289 CCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATATCA-CCTAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCCTAAAATTACCATTTTAC
*
14295348 CCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCATCC-AAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCCTAAAATTACCATTTTAC
* * * * * *
14295407 CCTCGAACTTTCTAAAATTCTATTTTTAAACCCGAATTT--TCCTGAAATTA-CATTTT
1 CCCCAAACTTTCCAAAATTCCATTTTTAACCCCG-ATTTCATCCTAAAATTACCATTTT
14295463 TCCCTCGAGA
Statistics
Matches: 261, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
58 23 0.09
59 192 0.74
60 46 0.18
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (60 bp):
CCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCCTAAAATTACCATTTTAC
Found at i:14299873 original size:17 final size:16
Alignment explanation
Indices: 14299853--14299925 Score: 76
Period size: 17 Copynumber: 4.3 Consensus size: 16
14299843 CATTTGAAAA
14299853 TTAAATTTATTTTAAT
1 TTAAATTTATTTTAAT
14299869 CTTAAATTTATTTTAAAT
1 -TTAAATTTATTTT-AAT
*
14299887 TTAATTTTAATTTTAAT
1 TTAAATTT-ATTTTAAT
*
14299904 TT-AATATTATTATAAAT
1 TTAAAT-TTATT-TTAAT
14299921 TTAAA
1 TTAAA
14299926 AAGAAAAGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
16 5 0.10
17 33 0.69
18 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:14299884 original size:11 final size:11
Alignment explanation
Indices: 14299870--14299923 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
14299860 TATTTTAATC
14299870 TTAAATTTATT
1 TTAAATTTATT
14299881 TTAAATTTAATT
1 TTAAATTT-ATT
* *
14299893 TTAATTTTAAT
1 TTAAATTTATT
14299904 TT-AATATTATT
1 TTAAAT-TTATT
*
14299915 ATAAATTTA
1 TTAAATTTA
14299924 AAAAGAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 2 0.06
11 20 0.57
12 13 0.37
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTAAATTTATT
Found at i:14299893 original size:12 final size:12
Alignment explanation
Indices: 14299863--14299905 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
14299853 TTAAATTTAT
*
14299863 TTTAATCTTAAA
1 TTTAATTTTAAA
14299875 TTT-ATTTTAAA
1 TTTAATTTTAAA
*
14299886 TTTAATTTTAAT
1 TTTAATTTTAAA
14299898 TTTAATTT
1 TTTAATTT
14299906 AATATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAATTTTAAA
Found at i:14300795 original size:29 final size:29
Alignment explanation
Indices: 14300746--14300807 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
14300736 TTGTTTATAG
*
14300746 GACCCCAAACAGTCTAAAAATTACATTTT
1 GACCCCAAACAGTCTAAAAATTACATTCT
* *
14300775 GACCCCAAA-ATTTTAAGAAATTACATTCT
1 GACCCCAAACAGTCTAA-AAATTACATTCT
14300804 GACC
1 GACC
14300808 TCGAAACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.27
Consensus pattern (29 bp):
GACCCCAAACAGTCTAAAAATTACATTCT
Found at i:14300824 original size:29 final size:28
Alignment explanation
Indices: 14300746--14300827 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 28
14300736 TTGTTTATAG
* * *
14300746 GACCCCAAACAGTCTAAAAATTACATTTT
1 GACCCCAAA-ATTCCAAAAATTACATTCT
**
14300775 GACCCCAAAATTTTAAGAAATTACATTCT
1 GACCCCAAAATTCCAA-AAATTACATTCT
* *
14300804 GACCTCGAAACTTCCAAAAATTAC
1 GACC-CCAAAATTCCAAAAATTAC
14300828 CATTTTACCC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 5 0.11
29 31 0.70
30 8 0.18
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.27
Consensus pattern (28 bp):
GACCCCAAAATTCCAAAAATTACATTCT
Found at i:14300901 original size:88 final size:87
Alignment explanation
Indices: 14300792--14301007 Score: 312
Period size: 88 Copynumber: 2.5 Consensus size: 87
14300782 AAATTTTAAG
* *
14300792 AAATTA-CATTCTGACCTCGAAACTTCCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTC
1 AAATTACCATT-TTACCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTC
*
14300856 CATTTTTAACCCCAGTTTCACCGA
65 CA-TTTTAACCCCAGTTTCACCAA
***
14300880 AAATTACCATTTTACCCCGAAACTTCCAAAAATTACCATTTTACCCTTGAACCTTCTAAAATTCC
1 AAATTACCATTTTACCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCC
*
14300945 ATTTTAACCCCGGTTTCACCAA
66 ATTTTAACCCCAGTTTCACCAA
*
14300967 AAATTACCATTTTACCCCCGAACCTTCC-AAAATT-CCATTTT
1 AAATTACCATTTTA-CCCCGAAACTTCCAAAAATTACCATTTT
14301008 TAACCCCGAT
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
86 7 0.06
87 39 0.33
88 68 0.58
89 4 0.03
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (87 bp):
AAATTACCATTTTACCCCGAAACTTCCAAAAATTACCATTTTACCCCCAAACCTTCTAAAATTCC
ATTTTAACCCCAGTTTCACCAA
Found at i:14300956 original size:58 final size:56
Alignment explanation
Indices: 14300879--14301037 Score: 194
Period size: 58 Copynumber: 2.7 Consensus size: 56
14300869 AGTTTCACCG
* ** *
14300879 AAAATTACCATTTT-ACCCCGAAACTTCCAAAAATTACCATTTTACCCTTGAACCTTCT
1 AAAATT-CCATTTTAACCCCG--ATTTCCAAAAATTACCATTTTACCCCCGAACCTTCC
*
14300937 AAAATTCCATTTTAACCCCGGTTTCACCAAAAATTACCATTTTACCCCCGAACCTTCC
1 AAAATTCCATTTTAACCCCGATTT--CCAAAAATTACCATTTTACCCCCGAACCTTCC
*
14300995 AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTT
1 AAAATTCCA-TTTTAACCCCGATTTC-CAAAAATTACCATTTT
14301038 GCCCGCGGGT
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
56 2 0.02
57 8 0.09
58 65 0.73
59 14 0.16
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (56 bp):
AAAATTCCATTTTAACCCCGATTTCCAAAAATTACCATTTTACCCCCGAACCTTCC
Found at i:14301008 original size:29 final size:30
Alignment explanation
Indices: 14300809--14301037 Score: 151
Period size: 29 Copynumber: 7.8 Consensus size: 30
14300799 ATTCTGACCT
*
14300809 CGAAACTTCCAAAAATTACCATTTTACCCC
1 CGAACCTTCCAAAAATTACCATTTTACCCC
* * *
14300839 CAAACCTT-CTAAAATT-CCATTTTTAACCC
1 CGAACCTTCCAAAAATTACCA-TTTTACCCC
** *
14300868 C--AGTTTCACCGAAAATTACCATTTTA-CCC
1 CGAACCTT--CCAAAAATTACCATTTTACCCC
* *
14300897 CGAAACTTCCAAAAATTACCATTTTACCCT
1 CGAACCTTCCAAAAATTACCATTTTACCCC
* * *
14300927 TGAACCTT-CTAAAATT-CCATTTTAACCC
1 CGAACCTTCCAAAAATTACCATTTTACCCC
**
14300955 CG--GTTTCACCAAAAATTACCATTTTACCCC
1 CGAACCTT--CCAAAAATTACCATTTTACCCC
*
14300985 CGAACCTTCC-AAAATT-CCATTTTTAACCC
1 CGAACCTTCCAAAAATTACCA-TTTTACCCC
* *
14301014 CG-A-TTTCACCAAAATTACCATTTT
1 CGAACCTTC-CAAAAATTACCATTTT
14301038 GCCCGCGGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
26 2 0.01
27 6 0.04
28 19 0.12
29 77 0.49
30 44 0.28
31 6 0.04
32 2 0.01
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.32
Consensus pattern (30 bp):
CGAACCTTCCAAAAATTACCATTTTACCCC
Found at i:14303691 original size:28 final size:27
Alignment explanation
Indices: 14303660--14303735 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 27
14303650 AAATTATTTA
14303660 TTTTATATTATTTTAATATTTAATAATT
1 TTTTATATTATTTTAATATTTAA-AATT
* * *
14303688 TTTTACATT-TTTT-ATTTATTGAAATT
1 TTTTATATTATTTTAATAT-TTAAAATT
*
14303714 TTTATATAGTTATCTTAATATT
1 TTT-TATA-TTATTTTAATATT
14303736 ATTTTAATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
26 10 0.27
27 10 0.27
28 10 0.27
29 4 0.11
30 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTATATTATTTTAATATTTAAAATT
Found at i:14304853 original size:15 final size:14
Alignment explanation
Indices: 14304816--14304853 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14304806 AATTTGATTG
*
14304816 AAAATGATTTTCGA
1 AAAATGAATTTCGA
14304830 AAAAT-AATTTCTGA
1 AAAATGAATTTC-GA
14304844 AAAATGAATT
1 AAAATGAATT
14304854 ACTTTTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 12 0.57
15 4 0.19
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (14 bp):
AAAATGAATTTCGA
Found at i:14305729 original size:14 final size:14
Alignment explanation
Indices: 14305710--14305736 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14305700 AAAACATAAC
14305710 AATAGAGAGAAAAA
1 AATAGAGAGAAAAA
14305724 AATAGAGAGAAAA
1 AATAGAGAGAAAA
14305737 GCACACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.07
Consensus pattern (14 bp):
AATAGAGAGAAAAA
Found at i:14306564 original size:25 final size:26
Alignment explanation
Indices: 14306513--14306564 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
14306503 GAGGAACACG
14306513 AAGTGGCGGCACCAATGGAGGGTTTTT
1 AAGTGGCGGCACCAA-GGAGGGTTTTT
*
14306540 AAGTGGCGGCACTAA-GAGGTGTTTT
1 AAGTGGCGGCACCAAGGAGG-GTTTT
14306565 GCCACTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 5 0.22
27 14 0.61
ACGTcount: A:0.23, C:0.13, G:0.37, T:0.27
Consensus pattern (26 bp):
AAGTGGCGGCACCAAGGAGGGTTTTT
Found at i:14306966 original size:12 final size:12
Alignment explanation
Indices: 14306951--14306981 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14306941 TTAATTAATT
*
14306951 TTTTAAGTTTAA
1 TTTTAAATTTAA
14306963 TTTTAAATTTAA
1 TTTTAAATTTAA
14306975 TTTTAAA
1 TTTTAAA
14306982 ATATTTTAAT
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:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTTAAATTTAA
Found at i:14308832 original size:43 final size:43
Alignment explanation
Indices: 14308750--14308834 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
14308740 ATTAACATGT
* * *
14308750 TAAATTATATTACTTGACTCGTGTTAATATAGTTGCATGTTAC
1 TAAACTATATTACTTGACTCGTATTAATATACTTGCATGTTAC
* *
14308793 TAAACTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAACTATATTACTTGACTCGTATTAATATACTTG-CATGTTA
14308835 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (43 bp):
TAAACTATATTACTTGACTCGTATTAATATACTTGCATGTTAC
Found at i:14309215 original size:17 final size:17
Alignment explanation
Indices: 14309190--14309285 Score: 93
Period size: 17 Copynumber: 5.6 Consensus size: 17
14309180 CCAACTTTTA
* *
14309190 ATTTAAAATTTTAATTT
1 ATTTTAAATTTGAATTT
*
14309207 ATTTTAAATTCGAATTT
1 ATTTTAAATTTGAATTT
* *
14309224 ATTTTAAATTTGAAATC
1 ATTTTAAATTTGAATTT
*** *
14309241 ATTTTGGGTTTTAAATTT
1 ATTTT-AAATTTGAATTT
14309259 ATTTTAAATTTGAATTT
1 ATTTTAAATTTGAATTT
*
14309276 ATTTTGAATT
1 ATTTTAAATT
14309286 GAAAATTAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
17 50 0.82
18 11 0.18
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (17 bp):
ATTTTAAATTTGAATTT
Found at i:14309292 original size:35 final size:34
Alignment explanation
Indices: 14309190--14309289 Score: 103
Period size: 35 Copynumber: 2.9 Consensus size: 34
14309180 CCAACTTTTA
* * *
14309190 ATTTAAAATTTTAATTTATTTTAAATTCG-AATTT
1 ATTTTAAATTTGAATTTATTTTGAATT-GAAATTT
* * ** *
14309224 ATTTTAAATTTGAAATCATTTTGGGTTTTAAATTT
1 ATTTTAAATTTGAATTTATTTT-GAATTGAAATTT
14309259 ATTTTAAATTTGAATTTATTTTGAATTGAAA
1 ATTTTAAATTTGAATTTATTTTGAATTGAAA
14309290 ATTAAATTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
34 24 0.47
35 27 0.53
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (34 bp):
ATTTTAAATTTGAATTTATTTTGAATTGAAATTT
Found at i:14311110 original size:29 final size:29
Alignment explanation
Indices: 14311048--14311328 Score: 212
Period size: 29 Copynumber: 9.6 Consensus size: 29
14311038 GAAGGTCCCT
* * * *
14311048 AAACTATCTAAAAATTATATTTTTGATCCTA
1 AAACTTTC-AAAAATTACATTTTT-ACCCCA
14311079 AAACTTTCAAAAATTACA-TTTTACCCCCA
1 AAACTTTCAAAAATTACATTTTTA-CCCCA
* **
14311108 AAACTTCTC-AAAATTACAATTTTACCCTT
1 AAACTT-TCAAAAATTACATTTTTACCCCA
* *
14311137 AAACTTCCAAAAATT-CTATTTTAACCCCA
1 AAACTTTCAAAAATTAC-ATTTTTACCCCA
*
14311166 AAACTTCTC-AAAATTACATTTTTACCCTA
1 AAACTT-TCAAAAATTACATTTTTACCCCA
* ** * *
14311195 GAACTCCCAAAAATTCCATTTTGACCCCA
1 AAACTTTCAAAAATTACATTTTTACCCCA
* * *
14311224 AAACTTCCAAAAATTCCATTTTTACCCCT
1 AAACTTTCAAAAATTACATTTTTACCCCA
* * * * *
14311253 AAACTTCCAAAATTTCCATTTTTATCCCT
1 AAACTTTCAAAAATTACATTTTTACCCCA
* * * *
14311282 GAAC-TTCTAAAATTTCCATTTTTAACCCTA
1 AAACTTTC-AAAAATTACATTTTT-ACCCCA
14311312 AAACTTTCAAAAATTAC
1 AAACTTTCAAAAATTAC
14311329 CAAATTACCC
Statistics
Matches: 205, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
28 6 0.03
29 158 0.77
30 31 0.15
31 10 0.05
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.35
Consensus pattern (29 bp):
AAACTTTCAAAAATTACATTTTTACCCCA
Found at i:14311148 original size:58 final size:57
Alignment explanation
Indices: 14311048--14311328 Score: 273
Period size: 58 Copynumber: 4.8 Consensus size: 57
14311038 GAAGGTCCCT
* * * * *
14311048 AAACTATCTAAAAATTATATTTTTGATCCTAAAACTTTCAAAAATTACATTTTACCCCCA
1 AAACT-TCTCAAAATTACATTTTT-ACCCTTAAACTTCCAAAAATTACATTTTA-CCCCA
*
14311108 AAACTTCTCAAAATTACAATTTTACCCTTAAACTTCCAAAAATT-CTATTTTAACCCCA
1 AAACTTCTCAAAATTACATTTTTACCCTTAAACTTCCAAAAATTAC-ATTTT-ACCCCA
* *
14311166 AAACTTCTCAAAATTACATTTTTACCC-TAGAACTCCCAAAAATTCCATTTTGACCCCA
1 AAACTTCTCAAAATTACATTTTTACCCTTA-AACTTCCAAAAATTACATTTT-ACCCCA
* * * * * *
14311224 AAACTTC-CAAAAATTCCATTTTTACCCCTAAACTTCCAAAATTTCCATTTTTATCCCT
1 AAACTTCTC-AAAATTACATTTTTACCCTTAAACTTCCAAAAATTACA-TTTTACCCCA
* * * *
14311282 GAACTTCT-AAAATTTCCATTTTTAACCCTAAAACTTTCAAAAATTAC
1 AAACTTCTCAAAA-TTACATTTTT-ACCCTTAAACTTCCAAAAATTAC
14311329 CAAATTACCC
Statistics
Matches: 191, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
57 8 0.04
58 137 0.72
59 41 0.21
60 5 0.03
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.35
Consensus pattern (57 bp):
AAACTTCTCAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTACCCCA
Found at i:14311228 original size:87 final size:87
Alignment explanation
Indices: 14311078--14311326 Score: 258
Period size: 87 Copynumber: 2.9 Consensus size: 87
14311068 TTTTGATCCT
* * * * *
14311078 AAAACTT-TCAAAAATTACA-TTTTACCCCCAAAACTTCTC-AAAATTACAATTTTACCCTTAAA
1 AAAACTTCTC-AAAATTACATTTTTACCCCTAGAAC-TCCCAAAAATT-CCATTTTACCCTAAAA
*
14311140 CTTCCAAAAATTCTATTTTAACCCC
63 CTTCCAAAAATTCCATTTTAACCCC
*
14311165 AAAACTTCTCAAAATTACATTTTTA-CCCTAGAACTCCCAAAAATTCCATTTTGACCCCAAAACT
1 AAAACTTCTCAAAATTACATTTTTACCCCTAGAACTCCCAAAAATTCCATTTT-ACCCTAAAACT
*
14311229 TCCAAAAATTCCATTTTTACCCC
65 TCCAAAAATTCCATTTTAACCCC
* * * * * *
14311252 TAAACTTC-CAAAATTTCCATTTTTATCCCT-GAACTTCTAAAATTTCCATTTTTAACCCTAAAA
1 AAAACTTCTCAAAA-TTACATTTTTACCCCTAGAACTCCCAAAAATTCCA-TTTT-ACCCTAAAA
*
14311315 CTTTCAAAAATT
63 CTTCCAAAAATT
14311327 ACCAAATTAC
Statistics
Matches: 139, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
86 14 0.10
87 91 0.65
88 34 0.24
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.35
Consensus pattern (87 bp):
AAAACTTCTCAAAATTACATTTTTACCCCTAGAACTCCCAAAAATTCCATTTTACCCTAAAACTT
CCAAAAATTCCATTTTAACCCC
Found at i:14313075 original size:21 final size:21
Alignment explanation
Indices: 14313051--14313103 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
14313041 TTCATAACAT
*
14313051 TAAACCATAAAACTT-AAACCC
1 TAAACC-TAAAACTTAAAACCA
*
14313072 TAAACCTAACACTTAAAACCA
1 TAAACCTAAAACTTAAAACCA
14313093 TAAACCCTAAA
1 TAAA-CCTAAA
14313104 CCCTAGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.26
21 15 0.56
22 5 0.19
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCTAAAACTTAAAACCA
Found at i:14320328 original size:25 final size:25
Alignment explanation
Indices: 14320292--14320339 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
14320282 TTTCTCGATT
14320292 TTCCTCTATTCT-CTTTTCGATTTTC
1 TTCCTCTATTCTACTTTTC-ATTTTC
14320317 TTCCTCCT-TTCTACTTTTCATTT
1 TTCCT-CTATTCTACTTTTCATTT
14320340 CTCAATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.08, C:0.29, G:0.02, T:0.60
Consensus pattern (25 bp):
TTCCTCTATTCTACTTTTCATTTTC
Found at i:14321724 original size:19 final size:17
Alignment explanation
Indices: 14321695--14321745 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
14321685 TGTCACGTCA
*
14321695 ATAAATGATTTTAAAAT
1 ATAAATTATTTTAAAAT
14321712 ATTAAAATTATTTTTTAAAAT
1 A-T-AAATTA--TTTTAAAAT
14321733 ATAAATT-TTTTAA
1 ATAAATTATTTTAA
14321746 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
16 6 0.21
17 1 0.03
18 1 0.03
19 10 0.34
20 1 0.03
21 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATAAATTATTTTAAAAT
Found at i:14321737 original size:20 final size:20
Alignment explanation
Indices: 14321703--14321770 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 20
14321693 CAATAAATGA
14321703 TTTTAAAATATTAAAATTATT
1 TTTTAAAATA-TAAAATTATT
14321724 TTTTAAAATATAAATTTTTTAATTATT
1 TTTTAAAATAT-AA------AATTATT
14321751 TTTTAAAATATAAAATTATT
1 TTTTAAAATATAAAATTATT
14321771 AAAATTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
20 8 0.20
21 12 0.30
26 2 0.05
27 18 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATATAAAATTATT
Found at i:14321754 original size:28 final size:31
Alignment explanation
Indices: 14321706--14321842 Score: 182
Period size: 31 Copynumber: 4.7 Consensus size: 31
14321696 TAAATGATTT
14321706 TAAAA-TATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
**
14321734 T-AAATT-TTTTAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
14321761 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
14321792 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
14321823 TAAAATTATT-AAATTATTTT
1 TAAAATTATTAAAATTATTTT
14321843 AATTTTCAAT
Statistics
Matches: 99, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
27 23 0.23
28 7 0.07
29 7 0.07
30 20 0.20
31 42 0.42
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:14322817 original size:32 final size:33
Alignment explanation
Indices: 14322772--14322839 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
14322762 TTAGAAAGAG
*** *
14322772 AAAATCCCCAAAATTTTCAAAATTTTAAAACCT
1 AAAATCCCCAAAATCCCCAAAATTTGAAAACCT
*
14322805 AAAA-CCCGAAAATCCCCAAAATTTGAAAACCT
1 AAAATCCCCAAAATCCCCAAAATTTGAAAACCT
14322837 AAA
1 AAA
14322840 CTAAAATTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (33 bp):
AAAATCCCCAAAATCCCCAAAATTTGAAAACCT
Found at i:14323783 original size:6 final size:6
Alignment explanation
Indices: 14323772--14323811 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
14323762 TACATTTATC
14323772 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
14323812 TGATGTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:14326167 original size:40 final size:40
Alignment explanation
Indices: 14326122--14326201 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
14326112 AATGAAAAGC
*
14326122 ATTAGTGAATGAAAAGTGGGTATGTGGATTTTGACAATCT
1 ATTAGTGAATGAAAAGTGGGCATGTGGATTTTGACAATCT
14326162 ATTAGTGAATGAAAAGTGGGCATGTGGATTTTGACAATCT
1 ATTAGTGAATGAAAAGTGGGCATGTGGATTTTGACAATCT
14326202 CAAATAATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.34
Consensus pattern (40 bp):
ATTAGTGAATGAAAAGTGGGCATGTGGATTTTGACAATCT
Found at i:14331386 original size:20 final size:22
Alignment explanation
Indices: 14331350--14331392 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
14331340 CCCCGCGGGA
14331350 TCCTGACAAAAACAAAAATCTG
1 TCCTGACAAAAACAAAAATCTG
14331372 TCCTG-CAAAAA-AAAAATCTG
1 TCCTGACAAAAACAAAAATCTG
14331392 T
1 T
14331393 AATAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 6 0.29
22 5 0.24
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (22 bp):
TCCTGACAAAAACAAAAATCTG
Found at i:14331769 original size:13 final size:13
Alignment explanation
Indices: 14331725--14331770 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
14331715 TCCCTACCCC
14331725 TTAAAATAAA-CA
1 TTAAAATAAATCA
*
14331737 -TATAAACAAATACA
1 TTA-AAATAAAT-CA
14331751 TTAAAATAAATCA
1 TTAAAATAAATCA
14331764 TTAAAAT
1 TTAAAAT
14331771 TTTGCAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 9 0.32
14 9 0.32
15 2 0.07
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (13 bp):
TTAAAATAAATCA
Found at i:14336574 original size:17 final size:18
Alignment explanation
Indices: 14336539--14336579 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
14336529 ATTTTTTAGG
*
14336539 TTTAAATTTATTATTAAA
1 TTTAAATTCATTATTAAA
14336557 TTTAAATTCATT-TTAAA
1 TTTAAATTCATTATTAAA
14336574 TTTAAA
1 TTTAAA
14336580 ATATTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTCATTATTAAA
Found at i:14336660 original size:14 final size:14
Alignment explanation
Indices: 14336614--14336713 Score: 73
Period size: 14 Copynumber: 7.3 Consensus size: 14
14336604 ATTAAAATTT
* *
14336614 AAATTAAAAAGTCC
1 AAATTACAAAGGCC
* *
14336628 AAATAACAAAGTCC
1 AAATTACAAAGGCC
*
14336642 CAATTACAAAGGCC
1 AAATTACAAAGGCC
14336656 AAATT--AAAGGCC
1 AAATTACAAAGGCC
*
14336668 CAATTACAAAGGCCC
1 AAATTACAAAGG-CC
*
14336683 AAATT--GAAGGCC
1 AAATTACAAAGGCC
* *
14336695 CAATTACAATGGCCC
1 AAATTACAAAGG-CC
14336710 AAAT
1 AAAT
14336714 AGGCCCAATG
Statistics
Matches: 67, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
12 17 0.25
13 4 0.06
14 35 0.52
15 11 0.16
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (14 bp):
AAATTACAAAGGCC
Found at i:14336670 original size:13 final size:13
Alignment explanation
Indices: 14336649--14336713 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 13
14336639 TCCCAATTAC
14336649 AAAGG-CCAAATT
1 AAAGGCCCAAATT
14336661 AAAGGCCC-AATT
1 AAAGGCCCAAATT
14336673 ACAAAGGCCCAAATT
1 --AAAGGCCCAAATT
*
14336688 GAAGGCCC-AATT
1 AAAGGCCCAAATT
14336700 ACAATGGCCCAAAT
1 A-AA-GGCCCAAAT
14336714 AGGCCCAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
12 13 0.30
13 11 0.25
14 13 0.30
15 7 0.16
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (13 bp):
AAAGGCCCAAATT
Found at i:14336692 original size:27 final size:27
Alignment explanation
Indices: 14336635--14336713 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
14336625 TCCAAATAAC
*
14336635 AAAGTCCCAATTACAAAGG-CCAAATT
1 AAAGGCCCAATTACAAAGGCCCAAATT
14336661 AAAGGCCCAATTACAAAGGCCCAAATT
1 AAAGGCCCAATTACAAAGGCCCAAATT
* *
14336688 GAAGGCCCAATTACAATGGCCCAAAT
1 AAAGGCCCAATTACAAAGGCCCAAAT
14336714 AGGCCCAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 18 0.37
27 31 0.63
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.16
Consensus pattern (27 bp):
AAAGGCCCAATTACAAAGGCCCAAATT
Found at i:14337496 original size:25 final size:23
Alignment explanation
Indices: 14337458--14337503 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
14337448 TTAATTATTG
14337458 ATATTTATAGTAATTAATAATAATA
1 ATATTTATAGTAA-TAA-AATAATA
14337483 ATATTTATTA-TAATAAAATAA
1 ATATTTA-TAGTAATAAAATAA
14337504 AAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 10 0.50
26 2 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTTATAGTAATAAAATAATA
Found at i:14338625 original size:29 final size:29
Alignment explanation
Indices: 14338593--14338695 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
14338583 CAAACTTTTT
*
14338593 AAAATT-CCATTTTAACTCC-GATTTCACCC
1 AAAATTACCATTTT-AC-CCTGATTTCACCA
* *
14338622 AAAATTACTATTTTACCCTGAACTTT---CT
1 AAAATTACCATTTTACCCTG-A-TTTCACCA
14338650 AAAATT-CCATTTTTAACCCTGATTTCACCA
1 AAAATTACCA-TTTT-ACCCTGATTTCACCA
14338680 AAAATTACCATTTTAC
1 AAAATTACCATTTTAC
14338696 TCCCAAACTT
Statistics
Matches: 60, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
27 5 0.08
28 14 0.23
29 17 0.28
30 18 0.30
31 6 0.10
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTGATTTCACCA
Found at i:14338725 original size:59 final size:57
Alignment explanation
Indices: 14338561--14338727 Score: 228
Period size: 58 Copynumber: 2.9 Consensus size: 57
14338551 CCCAAAACTT
* *
14338561 CCAAAAATTACCCTTTTACCTCCAAACTTTTTAAAATTCCA-TTTTAACTCCGATTTCA
1 CCAAAAATTACCATTTTACC-CCAAACTTTCTAAAATTCCATTTTTAAC-CCGATTTCA
* * **
14338619 CCCAAAATTACTATTTTACCCTGAACTTTCTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCAAACTTTCTAAAATTCCATTTTTAACCC-GATTTCA
*
14338677 CCAAAAATTACCATTTTACTCCCAAACTTTCTAAAATTTCATTTTTAACCC
1 CCAAAAATTACCATTTTAC-CCCAAACTTTCTAAAATTCCATTTTTAACCC
14338728 CGAATTTTCC
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
57 19 0.20
58 48 0.51
59 28 0.29
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (57 bp):
CCAAAAATTACCATTTTACCCCAAACTTTCTAAAATTCCATTTTTAACCCGATTTCA
Found at i:14338744 original size:59 final size:57
Alignment explanation
Indices: 14338559--14338751 Score: 212
Period size: 58 Copynumber: 3.3 Consensus size: 57
14338549 ACCCCAAAAC
* * * *
14338559 TTCCAAAAATTACCCTTTTACCTCCAAACTTTTTAAAATTCCA-TTTTAACTCCGATT
1 TTCCCAAAATTACCATTTTACC-CCAAACTTTCTAAAATTCCATTTTTAACCCCGATT
* * ** *
14338616 TCACCCAAAATTACTATTTTACCCTGAACTTTCTAAAATTCCATTTTTAACCCTGA-T
1 T-TCCCAAAATTACCATTTTACCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATT
*
14338673 TTCACCAAAAATTACCATTTTACTCCCAAACTTTCTAAAATTTCATTTTTAACCCCGAATT
1 TTC-CC-AAAATTACCATTTTAC-CCCAAACTTTCTAAAATTCCATTTTTAACCCCG-ATT
*
14338734 TTCCCGAAATTA-CATTTT
1 TTCCCAAAATTACCATTTT
14338752 TGGCATCGAG
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
56 1 0.01
57 22 0.19
58 48 0.42
59 35 0.31
60 3 0.03
61 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (57 bp):
TTCCCAAAATTACCATTTTACCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATT
Found at i:14350727 original size:169 final size:169
Alignment explanation
Indices: 14350448--14350785 Score: 658
Period size: 169 Copynumber: 2.0 Consensus size: 169
14350438 CCCATTTGAG
14350448 CATATTTTACAGGTCTCGACACCCTGAAGCAAGACGAGAAATAACGAGTTCATGACGGACCCCGT
1 CATATTTTACAGGTCTCGACACCCTGAAGCAAGACGAGAAATAACGAGTTCATGACGGACCCCGT
14350513 GAAGTTATAAGGACAACCATTTTTCAGACAGATTACAGTTATTTGATCCTTTCCCCAAGTTTGGG
66 GAAGTTATAAGGACAACCATTTTTCAGACAGATTACAGTTATTTGATCCTTTCCCCAAGTTTGGG
14350578 GCAGATCACCATCAATCGACCTTACTCCAATCACAGAAT
131 GCAGATCACCATCAATCGACCTTACTCCAATCACAGAAT
*
14350617 CATATTTTACAGGTCTCGATACCCTGAAGCAAGACGAGAAATAACGAGTTCATGACGGACCCCGT
1 CATATTTTACAGGTCTCGACACCCTGAAGCAAGACGAGAAATAACGAGTTCATGACGGACCCCGT
14350682 GAAGTTATAAGGACAACCATTTTTCAGACAGATTACAGTTATTTGATCCTTTCCCCAAGTTTGGG
66 GAAGTTATAAGGACAACCATTTTTCAGACAGATTACAGTTATTTGATCCTTTCCCCAAGTTTGGG
*
14350747 GCAGATCACCATCAATCGACCTTACTCCAATCACGGAAT
131 GCAGATCACCATCAATCGACCTTACTCCAATCACAGAAT
14350786 AATTCAACAA
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 167 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (169 bp):
CATATTTTACAGGTCTCGACACCCTGAAGCAAGACGAGAAATAACGAGTTCATGACGGACCCCGT
GAAGTTATAAGGACAACCATTTTTCAGACAGATTACAGTTATTTGATCCTTTCCCCAAGTTTGGG
GCAGATCACCATCAATCGACCTTACTCCAATCACAGAAT
Found at i:14351244 original size:200 final size:200
Alignment explanation
Indices: 14350877--14351585 Score: 956
Period size: 200 Copynumber: 3.5 Consensus size: 200
14350867 CTTCGTACCC
* * * * * *
14350877 AGCTTCCTGATGAGATATAGAGAAGTAGACCAAGTTCGTCTTCTTGAGGAGATCCAGAGAAGTGA
1 AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
* * * * *
14350942 AATAAAACAAGT-GATA-AGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAATTCAACGCT
66 ATTAAAACAA-TAGA-AGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCATCGCT
* *
14351005 CAAAGCGAGCAAATCTTCGTACCCAGCTTCCTTATGAGACACTGAGAAGCAAGTCGAAACAATAA
129 CAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAA
**
14351070 AATGGCA
194 AATGGTT
* * * *
14351077 AGCTTCTTGGTAAGATACAGAGAAGTGGACCAAATTCATCTTCCTGAGAAGATCCAGAGAAGCGA
1 AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
* * *
14351142 ATTAAAACAATAGAGGCGATCATCTTCCTGATGAAATACAGAGAAGAATACCAACTCATCGCTCA
66 ATTAAAACAATAGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCATCGCTCA
*
14351207 AAGCGAGCAAATCTTAGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAA
131 AAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAA
14351272 TGGTT
196 TGGTT
* *
14351277 AGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAGCGA
1 AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
* * *
14351342 ATTAAAACAACAGAAGTGGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTCA
66 ATTAAAACAATAGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTC-A---T--
* * * *
14351407 ACGCTCAACGCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
125 -CGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAAC
*
14351472 AATAAAAAGGTT
189 AATAAAATGGTT
* * *
14351484 AGCTTCCTGATAAGACACAGAGATGTGGACCAAATTCGTCTTCCTGAGTAGATCCAGAGAAGCGA
1 AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
* *
14351549 ATTAAAACAGAT-GATTGCGGTCATCTTCTTGATGAGA
66 ATTAAAACA-ATAGA-AGCGGTCATCTTCCTGATGAGA
14351586 CATAAGGAAG
Statistics
Matches: 449, Mismatches: 49, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
199 1 0.00
200 284 0.63
201 1 0.00
204 1 0.00
207 141 0.31
208 21 0.05
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (200 bp):
AGCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGA
ATTAAAACAATAGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCATCGCTCA
AAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAA
TGGTT
Found at i:14351981 original size:17 final size:18
Alignment explanation
Indices: 14351946--14351986 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
14351936 ATTTTTTAGG
*
14351946 TTTAAATTTATTATTAAA
1 TTTAAATTCATTATTAAA
14351964 TTTAAATTCATT-TTAAA
1 TTTAAATTCATTATTAAA
14351981 TTTAAA
1 TTTAAA
14351987 ATATTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAATTCATTATTAAA
Found at i:14352071 original size:13 final size:13
Alignment explanation
Indices: 14352055--14352106 Score: 70
Period size: 13 Copynumber: 3.9 Consensus size: 13
14352045 GTCCATTTAC
14352055 AAAGGCCCAAATT
1 AAAGGCCCAAATT
14352068 AAAGGCCCAAATT
1 AAAGGCCCAAATT
*
14352081 GAAGGCCC-AATT
1 AAAGGCCCAAATT
14352093 ACAATGGCCCAAAT
1 A-AA-GGCCCAAAT
14352107 AGGCCCAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 4 0.12
13 22 0.65
14 5 0.15
15 3 0.09
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (13 bp):
AAAGGCCCAAATT
Found at i:14352085 original size:26 final size:27
Alignment explanation
Indices: 14352056--14352106 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
14352046 TCCATTTACA
14352056 AAGGCCCAAATTA-AA-GGCCCAAATTG
1 AAGGCCC-AATTACAATGGCCCAAATTG
14352082 AAGGCCCAATTACAATGGCCCAAAT
1 AAGGCCCAATTACAATGGCCCAAAT
14352107 AGGCCCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
27 9 0.39
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (27 bp):
AAGGCCCAATTACAATGGCCCAAATTG
Found at i:14353910 original size:30 final size:29
Alignment explanation
Indices: 14353862--14353943 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
14353852 TGCTTGTAGG
* * *
14353862 TCCCTAAACTGTTCAAAAATTATATTTGTAA
1 TCCCAAAACT-TTAAAAAATTACATTT-TAA
*
14353893 TCCCAAAACTTTAAAAAAATACATTTTAA
1 TCCCAAAACTTTAAAAAATTACATTTTAA
*
14353922 CCCCAAAACTTTAAAAAATTAC
1 TCCCAAAACTTTAAAAAATTAC
14353944 TCTTTTTCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 23 0.51
30 13 0.29
31 9 0.20
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (29 bp):
TCCCAAAACTTTAAAAAATTACATTTTAA
Found at i:14353954 original size:29 final size:29
Alignment explanation
Indices: 14353867--14353983 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 29
14353857 GTAGGTCCCT
* * * *
14353867 AAACTGTTCAAAAATTATATTTGTAATCCCA
1 AAACT-TTAAAAAAATACATTT-TAACCCCA
14353898 AAACTTTAAAAAAATACATTTTAACCCCA
1 AAACTTTAAAAAAATACATTTTAACCCCA
* ** *
14353927 AAACTTTAAAAAATTAC-TCTTTTTCCCCT
1 AAACTTTAAAAAAATACAT-TTTAACCCCA
** * *
14353956 AAACTTTCCAAAATTCCATTTTAACCCC
1 AAACTTTAAAAAAATACATTTTAACCCC
14353984 GATTTCACCC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 1 0.01
29 51 0.72
30 14 0.20
31 5 0.07
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (29 bp):
AAACTTTAAAAAAATACATTTTAACCCCA
Found at i:14353998 original size:58 final size:59
Alignment explanation
Indices: 14353936--14354103 Score: 227
Period size: 59 Copynumber: 2.9 Consensus size: 59
14353926 AAAACTTTAA
* *
14353936 AAAATTACTC-TTTTTCCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTTCACCC
1 AAAATTACTCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA-CC
* * **
14353994 AAAATTA-TCATTTTACCCCCAAACTTTCTAAAATTCTATTTTTAACCCTAATTTCACC
1 AAAATTACTCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
*
14354052 AAAATTTAC-CATTTTACACCTAAACTTTCTAAAATTCCATTTTTAACCCCGA
1 AAAA-TTACTCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGA
14354104 ATTTTCTCGA
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
57 2 0.02
58 37 0.39
59 56 0.59
ACGTcount: A:0.33, C:0.28, G:0.01, T:0.38
Consensus pattern (59 bp):
AAAATTACTCATTTTACCCCTAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:14354109 original size:29 final size:28
Alignment explanation
Indices: 14353951--14354124 Score: 84
Period size: 29 Copynumber: 5.9 Consensus size: 28
14353941 TACTCTTTTT
*
14353951 CCCCTAAACTTTCCAAAATTCCATTTTAA
1 CCCC-AAATTTTCCAAAATTCCATTTTAA
* * * *
14353980 CCCC-GATTTCACCCAAAATTATCATTTTAC
1 CCCCAAATTT--TCCAAAATT-CCATTTTAA
* * *
14354010 CCCCAAACTTTCTAAAATTCTATTTTTAA
1 CCCCAAATTTTCCAAAATTCCA-TTTTAA
* *
14354039 -CCCTAATTTCACCAAAATTTACCATTTT-A
1 CCCCAAATTT-TCCAAAA-TT-CCATTTTAA
* * *
14354068 CACCTAAACTTTCTAAAATTCCATTTTTAA
1 C-CCCAAATTTTCCAAAATTCCA-TTTTAA
* * *
14354098 CCCCGAATTTTCTCGAAATTACATTTT
1 CCCCAAATTTTC-CAAAATTCCATTTT
14354125 TGCCATCGAG
Statistics
Matches: 104, Mismatches: 28, Indels: 26
0.66 0.18 0.16
Matches are distributed among these distances:
27 3 0.03
28 11 0.11
29 48 0.46
30 31 0.30
31 11 0.11
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.38
Consensus pattern (28 bp):
CCCCAAATTTTCCAAAATTCCATTTTAA
Found at i:14356942 original size:28 final size:28
Alignment explanation
Indices: 14356911--14357129 Score: 153
Period size: 29 Copynumber: 7.5 Consensus size: 28
14356901 AAACCGGAGT
* *
14356911 TAAAATGGGATTTTAGAAAGTTTAGGGG
1 TAAAATGGAATTTTGGAAAGTTTAGGGG
* *
14356939 TAAAATGGTAATTTTTGGTAAA--ATCGGGG
1 TAAAATGG-AA-TTTTGG-AAAGTTTAGGGG
14356968 TCAAAATGGAATTTTGGAAAGTTTAGGGG
1 T-AAAATGGAATTTTGGAAAGTTTAGGGG
** * **
14356997 TAAAATGGTAATTTTTGGTAAAACTAAGGTC
1 TAAAATGG-AA-TTTTGG-AAAGTTTAGGGG
* *
14357028 AAAAATGGAATTTTGGAAAG-TTCGAGGG
1 TAAAATGGAATTTTGGAAAGTTTAG-GGG
*
14357056 TAAAATGGTAATTTTTGATGAAA---TCGGGG
1 TAAAATGG-AA-TTTTG--GAAAGTTTAGGGG
14357085 TCAAAATGGAATTTTGGAAAGTTTAGGGG
1 T-AAAATGGAATTTTGGAAAGTTTAGGGG
14357114 CTAAAATGGTAATTTT
1 -TAAAATGG-AATTTT
14357130 TGGTGAAACC
Statistics
Matches: 152, Mismatches: 19, Indels: 38
0.73 0.09 0.18
Matches are distributed among these distances:
26 4 0.03
27 5 0.03
28 37 0.24
29 43 0.28
30 42 0.28
31 17 0.11
32 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (28 bp):
TAAAATGGAATTTTGGAAAGTTTAGGGG
Found at i:14356976 original size:58 final size:58
Alignment explanation
Indices: 14356893--14357189 Score: 382
Period size: 58 Copynumber: 5.1 Consensus size: 58
14356883 AAAAAAGGAA
* * * *
14356893 TTTTGGTGAAACCGGAGTTAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGTGAAACCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
* *
14356951 TTTTGGTAAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
1 TTTTGGTGAAACCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
* *** *
14357009 TTTTGGTAAAACTAAGGTCAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAAT
1 TTTTGGTGAAACCGGGGTC-AAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAAT
* *
14357068 TTTTGATGAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGCTAAAATGGTAAT
1 TTTTGGTGAAACCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGG-TAAAATGGTAAT
* * * *
14357127 TTTTGGTGAAACCAAGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAAT
1 TTTTGGTGAAACC-GGGGTCAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAAT
14357186 TTTT
1 TTTT
14357190 AAACAATTTA
Statistics
Matches: 209, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
58 92 0.44
59 92 0.44
60 25 0.12
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (58 bp):
TTTTGGTGAAACCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
Found at i:14357062 original size:59 final size:58
Alignment explanation
Indices: 14356912--14357189 Score: 364
Period size: 59 Copynumber: 4.7 Consensus size: 58
14356902 AACCGGAGTT
* * **
14356912 AAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTC
1 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCAAGGTC
14356970 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAA-CTAAGGTC
1 AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATC-AAGGTC
* * * **
14357028 AAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGATGAAATCGGGGTC
1 -AAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATTTTTGGTAAAATCAAGGTC
* * *
14357087 AAAATGGAATTTTGGAAAGTTTAGGGGCTAAAATGGTAATTTTTGGTGAAACCAAGGTTA
1 AAAATGGAATTTTGGAAAGTTTAGGGG-TAAAATGGTAATTTTTGGTAAAATCAAGG-TC
*
14357147 AAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTT
1 AAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGGTAATTTTT
14357190 AAACAATTTA
Statistics
Matches: 196, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
57 1 0.01
58 77 0.39
59 94 0.48
60 24 0.12
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.32
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGGTAAAATCAAGGTC
Found at i:14357179 original size:118 final size:117
Alignment explanation
Indices: 14356893--14357189 Score: 465
Period size: 117 Copynumber: 2.5 Consensus size: 117
14356883 AAAAAAGGAA
* * * *
14356893 TTTTGGTGAAACC-GGAGTT-AAAATGGGATTTTAGAAAGTT-TAGGGGTAAAATGGTAATTTTT
1 TTTTGGTGAAACCAAG-GTTAAAAATGGAATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTT
*
14356955 GGTAAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
64 GATAAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
* * *
14357009 TTTTGGTAAAACTAAGGTCAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGA
1 TTTTGGTGAAACCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGA
*
14357074 TGAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGCTAAAATGGTAAT
66 TAAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGG-TAAAATGGTAAT
14357127 TTTTGGTGAAACCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTT
1 TTTTGGTGAAACCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTT
14357190 AAACAATTTA
Statistics
Matches: 165, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
116 13 0.08
117 79 0.48
118 73 0.44
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (117 bp):
TTTTGGTGAAACCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGA
TAAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAAT
Found at i:14358261 original size:3 final size:3
Alignment explanation
Indices: 14358249--14358299 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
14358239 ATACATTTAA
* * *
14358249 TAT TATT TAT TAT TGT TA- TATT TAT TAT TAC TAT TAT TAT TAA TAT
1 TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
14358295 TAT TA
1 TAT TA
14358300 AAATATTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:14358285 original size:12 final size:11
Alignment explanation
Indices: 14358249--14358299 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
14358239 ATACATTTAA
14358249 TATTATT-TAT
1 TATTATTATAT
*
14358259 TATTGTTATATT
1 TATTATTATA-T
14358271 TATTATTACTAT
1 TATTATTA-TAT
14358283 TATTATTAATAT
1 TATTATT-ATAT
14358295 TATTA
1 TATTA
14358300 AAATATTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 24 0.69
13 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTATTATAT
Found at i:14360314 original size:19 final size:20
Alignment explanation
Indices: 14360284--14360336 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
14360274 GATTAATTTT
* *
14360284 TAAAATTATAAAAA-TATTT
1 TAAAAATATAAAAATTATTA
14360303 TGAAAAAT-TAAAAATTATTA
1 T-AAAAATATAAAAATTATTA
14360323 TAAAAATATAAAAA
1 TAAAAATATAAAAA
14360337 AATATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAATATAAAAATTATTA
Found at i:14360354 original size:14 final size:15
Alignment explanation
Indices: 14360335--14360363 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14360325 AAAATATAAA
14360335 AAAATA-TATTTTTT
1 AAAATATTATTTTTT
14360349 AAAATATTATTTTTT
1 AAAATATTATTTTTT
14360364 TAGAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AAAATATTATTTTTT
Found at i:14362905 original size:19 final size:21
Alignment explanation
Indices: 14362867--14362905 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14362857 GTTTAAATTT
14362867 TATTTTATTTACAATTTAATC
1 TATTTTATTTACAATTTAATC
*
14362888 TATTTT-TTT-CATTTTAAT
1 TATTTTATTTACAATTTAAT
14362906 ATTATACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTATTTACAATTTAATC
Found at i:14365641 original size:59 final size:59
Alignment explanation
Indices: 14365520--14365951 Score: 604
Period size: 59 Copynumber: 7.4 Consensus size: 59
14365510 GATGCCCGGA
** * *
14365520 GGGTAAAATGGTAATTTTTGGTGAGTTCG-GGGTAAAAATGGAATTTTGGAAAG-TTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
* *
14365577 AGGGTAAAATTGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGGAAGTTTGG
1 -GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
* * * *
14365637 GGGTAAAATGGTAATTTTTGGTGAAATAGGGGTT-AAAATGGAATTTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
* * * *
14365695 GGGTGAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGGAAATTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
* *
14365754 GGGTAAAATGGTAATTTTTGGTGAAAT-TAGGGTTAAAAATGGGATTTTGGGAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGGAAGTTTGG
* * * *
14365813 GGGTAAAATGGTAATTTTTTGTGAAATTTG-GGTTTAAAATGGAATTTTGGGAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAA-TCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
*
14365872 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
*
14365931 AGGTAAAATGGTAATTTTTGG
1 GGGTAAAATGGTAATTTTTGG
14365952 ACAGTTCAGT
Statistics
Matches: 334, Mismatches: 33, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
58 81 0.24
59 248 0.74
60 5 0.01
ACGTcount: A:0.31, C:0.02, G:0.32, T:0.35
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGGAAGTTTGG
Found at i:14367792 original size:6 final size:6
Alignment explanation
Indices: 14367781--14367839 Score: 59
Period size: 6 Copynumber: 9.8 Consensus size: 6
14367771 TTAAATTTGA
* *
14367781 TTAAAT TTAAAT TTAAA- ATAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
14367829 ATAAAT TTAAA
1 TTAAAT TTAAA
14367840 ATCTATTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
8 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:14367802 original size:17 final size:17
Alignment explanation
Indices: 14367782--14367839 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
14367772 TAAATTTGAT
14367782 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
14367799 TAAATTTAAA--T-AAG
1 TAAATTTAAATTTAAAA
14367813 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
14367830 TAAATTTAAA
1 TAAATTTAAA
14367840 ATCTATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 12 0.33
15 1 0.03
16 1 0.03
17 22 0.61
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Done.