Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 49 of 255
Found at i:13773100 original size:85 final size:85
Alignment explanation
Indices: 13772957--13773135 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
13772947 GGCCGGCCAT
13772957 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
* *
13773022 GTAAGGGTTAGTAAAATAAA
66 GTAAGGATTAATAAAATAAA
13773042 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
13773107 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
13773127 GGGCATGGG
1 GAGCATGGG
13773136 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:13775367 original size:47 final size:47
Alignment explanation
Indices: 13775316--13775798 Score: 669
Period size: 47 Copynumber: 10.1 Consensus size: 47
13775306 TTAGGATTTT
* *
13775316 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
13775363 ATGTGATGAATGTGAACATGCGTATTTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
13775410 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
13775457 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCGTATGTGTGATAAGGCCGAATGGCCA
13775508 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
13775555 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
13775608 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*
13775655 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ** *
13775702 ATGTGATGAATGTGAACATGCATATACGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
13775749 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
13775796 ATG
1 ATG
13775799 CGAAACGTGT
Statistics
Matches: 391, Mismatches: 35, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
47 303 0.77
48 2 0.01
50 1 0.00
51 42 0.11
52 1 0.00
53 42 0.11
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:13775635 original size:23 final size:23
Alignment explanation
Indices: 13775608--13775682 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
13775598 CGAATGGCCA
13775608 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
13775631 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
13775655 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
13775678 ATGTG
1 ATGTG
13775683 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:13775861 original size:46 final size:46
Alignment explanation
Indices: 13775772--13775862 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
13775762 GAACATGAAT
* * * *
13775772 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
13775818 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
13775863 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:13775877 original size:292 final size:291
Alignment explanation
Indices: 13775316--13775847 Score: 792
Period size: 292 Copynumber: 1.8 Consensus size: 291
13775306 TTAGGATTTT
* *
13775316 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * * ** *
13775381 TGCGTATTTGTGATAAGGCCGAATGGCCACTGTGATGGATGTGAACATGCGTATGTGTGATAAGG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGAGATAAGG
*
13775446 CCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGTGTGATAAAGCCGAATGGCCAATG
131 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATATGTGTGATAAAGCCGAATGGCCAATG
* * * *
13775511 TGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGT
196 CGA-GAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGT
13775576 ATATATATATGCGTGATAAGGCCGAATGGCCA
260 ATATATATATGCGTGATAAGGCCGAATGGCCA
13775608 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
13775673 TGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAACATGCATATACGAGATAAGG
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGAGATAAGG
* *
13775738 CCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATATGTG-G-TAAGGCCGAATGGCTAATG
131 CCGAATGGCCAATGTGATGAATGTGAACATGTATATATATGTGTGATAAAGCCGAATGGCCAATG
* *
13775799 CGA-AACGTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
196 CGAGAACGTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
13775848 GATATGTACG
Statistics
Matches: 217, Mismatches: 19, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
286 5 0.02
287 20 0.09
288 21 0.10
289 11 0.05
290 9 0.04
291 1 0.00
292 150 0.69
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (291 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGAGATAAGG
CCGAATGGCCAATGTGATGAATGTGAACATGTATATATATGTGTGATAAAGCCGAATGGCCAATG
CGAGAACGTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACCTGTA
TATATATATGCGTGATAAGGCCGAATGGCCA
Found at i:13776115 original size:37 final size:37
Alignment explanation
Indices: 13776009--13776117 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
13775999 GGAAATATAT
*
13776009 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
13776046 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
13776083 TCCGGGTAAGACCCGATAACTTCATGTAGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
13776118 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:13780628 original size:50 final size:48
Alignment explanation
Indices: 13780453--13780684 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 48
13780443 TCTATTGTGA
*
13780453 GGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCG-ATAATT
* * * * *
13780502 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAA-TT
* * **
13780552 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAATT
* *
13780602 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGATAATT
* *
13780652 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
13780685 TGCATACCAG
Statistics
Matches: 155, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 69 0.45
50 49 0.32
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATT
Found at i:13785046 original size:22 final size:22
Alignment explanation
Indices: 13785018--13785061 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13785008 CGGTCGTGTG
13785018 TCCCCTGGTACTTATTAAGAAA
1 TCCCCTGGTACTTATTAAGAAA
*
13785040 TCCCCTGGTACTTATTTAGAAA
1 TCCCCTGGTACTTATTAAGAAA
13785062 CCAATTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (22 bp):
TCCCCTGGTACTTATTAAGAAA
Found at i:13790378 original size:19 final size:20
Alignment explanation
Indices: 13790354--13790391 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13790344 GGTACCACCA
13790354 AAACAT-ATATCA-CATCTTG
1 AAACATCAT-TCATCATCTTG
13790373 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13790392 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (20 bp):
AAACATCATTCATCATCTTG
Found at i:13790780 original size:46 final size:46
Alignment explanation
Indices: 13790616--13790788 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
13790606 AACCCGCCCC
* * * *
13790616 TAAGTGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * * *
13790662 TAAATGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13790710 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
13790755 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13790789 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13790785 original size:93 final size:93
Alignment explanation
Indices: 13790621--13790791 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
13790611 GCCCCTAAGT
* * *
13790621 GAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
13790686 CAAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* *
13790714 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
13790778 ACGAGTTCGGATGC
65 ACAAGTTCGGATGC
13790792 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13790807 original size:46 final size:45
Alignment explanation
Indices: 13790666--13790807 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
13790656 CATCCATAAA
*
13790666 TGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
13790713 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
13790759 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
13790805 TGA
1 TGA
13790808 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:13791245 original size:30 final size:30
Alignment explanation
Indices: 13791211--13791270 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13791201 ATTTAATATG
13791211 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
** *
13791241 AACTTTAGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
13791271 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:13797925 original size:27 final size:27
Alignment explanation
Indices: 13797876--13798310 Score: 412
Period size: 27 Copynumber: 16.3 Consensus size: 27
13797866 CCCGATTAGT
* *
13797876 AAATACCCTC-AATTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACTA
*
13797902 AAATACCCTCGATTTGTAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACT-A
* *
13797929 AAATACCCTCAATTTGTAAAATTA-TC
1 AAATACCCTCGATTTGTAAAATTACTA
* * *
13797955 GAATACCCTC-AATTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACTA
*
13797981 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACTA
* *
13798008 AAATACCCCCGATTTGTAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACT-A
*
13798035 AAATACCCTCGA-TTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACTA
*
13798061 AAATAGCCTCGATTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTACTA
*
13798088 AAATACTCC-CGATTTGTAAAATTACCA
1 AAATAC-CCTCGATTTGTAAAATTACTA
* * *
13798115 AAATACCCTC-AATTGTGAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACTA
* * *
13798141 AAATACCCT-TACTTTGCAAAATTACCA
1 AAATACCCTCGA-TTTGTAAAATTACTA
* *
13798168 AAATACCCTCGA-TTGTGAAATTACGA
1 AAATACCCTCGATTTGTAAAATTACTA
* * *
13798194 AAACACCCTTGATTTGTAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACT-A
* * *
13798221 AAACACCCTCAATTTGTAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACT-A
* * *
13798248 AAACACCCCCGATTTGTAAAATTA-TCG
1 AAATACCCTCGATTTGTAAAATTACT-A
*
13798275 AAACACCCTCGATTTGTAAAATTA-TCA
1 AAATACCCTCGATTTGTAAAATTACT-A
13798302 AAATACCCT
1 AAATACCCT
13798311 TGTAGTGTAA
Statistics
Matches: 347, Mismatches: 48, Indels: 27
0.82 0.11 0.06
Matches are distributed among these distances:
25 11 0.03
26 96 0.28
27 237 0.68
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACTA
Found at i:13797960 original size:53 final size:52
Alignment explanation
Indices: 13797876--13798338 Score: 411
Period size: 53 Copynumber: 8.7 Consensus size: 52
13797866 CCCGATTAGT
* * *
13797876 AAATACCCTC-AATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-TCAAATACCCTCGATTTGTAAAATTA-CG
* * * * *
13797929 AAATACCCTCAATTTGTAAAATTATCGAATACCCTC-AATTGTGAAATTACTA
1 AAATACCCTCGATTTGTAAAATTATCAAATACCCTCGATTTGTAAAATTAC-G
* *
13797981 AAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATC-AAATACCCTCGATTTGTAAAATTA-CG
* * * *
13798035 AAATACCCTCGA-TTGTGAAATTACTAAAATAGCCTCGATTTGTAAAATTACTA
1 AAATACCCTCGATTTGTAAAATTA-TCAAATACCCTCGATTTGTAAAATTAC-G
* * *
13798088 AAATACTCC-CGATTTGTAAAATTACCAAAATACCCTC-AATTGTGAAATTACTG
1 AAATAC-CCTCGATTTGTAAAATTATC-AAATACCCTCGATTTGTAAAATTAC-G
* * * *
13798141 AAATACCCT-TACTTTGCAAAATTACCAAAATACCCTCGA-TTGTGAAATTACG
1 AAATACCCTCGA-TTTGTAAAATTATC-AAATACCCTCGATTTGTAAAATTACG
* * * *
13798193 AAAACACCCTTGATTTGTAAAATTATCGAAACACCCTCAATTTGTAAAATTATCG
1 -AAATACCCTCGATTTGTAAAATTATC-AAATACCCTCGATTTGTAAAATTA-CG
* * * *
13798248 AAACACCCCCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTATC-AAATACCCTCGATTTGTAAAATTA-CG
* *
13798302 AAATACCCTTG-TAGTGTAAAAATTATCGAAATACCCT
1 AAATACCCTCGAT-TTGT-AAAATTATC-AAATACCCT
13798339 TGTAGTGTAA
Statistics
Matches: 345, Mismatches: 46, Indels: 36
0.81 0.11 0.08
Matches are distributed among these distances:
51 1 0.00
52 40 0.12
53 155 0.45
54 128 0.37
55 21 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (52 bp):
AAATACCCTCGATTTGTAAAATTATCAAATACCCTCGATTTGTAAAATTACG
Found at i:13798083 original size:80 final size:80
Alignment explanation
Indices: 13797876--13798310 Score: 522
Period size: 80 Copynumber: 5.4 Consensus size: 80
13797866 CCCGATTAGT
* * * *
13797876 AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCAA
1 AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGA
13797941 TTTGTAAAATTATCG
66 TTTGTAAAATTATCG
13797956 -AATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGA
1 AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGA
13798020 TTTGTAAAATTATCG
66 TTTGTAAAATTATCG
* * * *
13798035 AAATACCCTCGATTGTGAAATTACTAAAATAGCCTCGATTTGTAAAATTACTAAAATACTCCCGA
1 AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGA
* *
13798100 TTTGTAAAATTACCA
66 TTTGTAAAATTATCG
* * * *
13798115 AAATACCCTCAATTGTGAAATTACTGAAATACCCT-TACTTTGCAAAATTACCAAAATACCCTCG
1 AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGA-TTTGTAAAATTACCAAAATACCCCCG
*
13798179 A-TTGTGAAATTA-CG
65 ATTTGTAAAATTATCG
* * * * * * * * * *
13798193 AAAACACCCTTGATTTGTAAAATTA-TCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCC
1 -AAATACCC-TCAATTGTGAAATTACT-AAAATACCCTCGATTTGTAAAATTACCAAAATACCCC
13798257 CGATTTGTAAAATTATCG
63 CGATTTGTAAAATTATCG
* * *
13798275 AAACACCCTCGATTTGTAAAATTA-TCAAAATACCCT
1 AAATACCCTC-AATTGTGAAATTACT-AAAATACCCT
13798311 TGTAGTGTAA
Statistics
Matches: 311, Mismatches: 35, Indels: 17
0.86 0.10 0.05
Matches are distributed among these distances:
78 1 0.00
79 94 0.30
80 172 0.55
81 42 0.14
82 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATACCCTCAATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCGA
TTTGTAAAATTATCG
Found at i:13798319 original size:27 final size:27
Alignment explanation
Indices: 13798208--13798351 Score: 123
Period size: 27 Copynumber: 5.3 Consensus size: 27
13798198 ACCCTTGATT
* ** *
13798208 TGTAAAATTATCGAAACACCC-TCAATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* ** *
13798235 TGTAAAATTATCGAAACACCCCCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * *
13798262 TGTAAAATTATCGAAACACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
*
13798289 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
13798316 TGTAAAAATTATCGAAATACCCTTGTAG
1 TGT-AAAATTATCGAAATACCCTTGTAG
13798344 TGTAAAAT
1 TGTAAAAT
13798352 GACCAACATA
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
27 79 0.75
28 27 0.25
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:13798399 original size:27 final size:27
Alignment explanation
Indices: 13798361--13798445 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
13798351 TGACCAACAT
*
13798361 AATTATCAAAATACCCTTGTAGTGTAA
1 AATTATCGAAATACCCTTGTAGTGTAA
13798388 AATTATCGAAATACCCTTGTAGTGTAAA
1 AATTATCGAAATACCCTTGTAGTGT-AA
*
13798416 AATTATTGAAATACCCTTGTAGTGTAA
1 AATTATCGAAATACCCTTGTAGTGTAA
13798443 AAT
1 AAT
13798446 GACCGACATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 29 0.53
28 26 0.47
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGTGTAA
Found at i:13798428 original size:94 final size:94
Alignment explanation
Indices: 13798289--13798541 Score: 418
Period size: 94 Copynumber: 2.7 Consensus size: 94
13798279 ACCCTCGATT
*
13798289 TGTAAAATTATCAAAATACCCTTGTAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGA
1 TGTAAAATTATCGAAATACCCTTGTAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGA
*
13798354 CCAACATAATTATCAAAATACCCTTGTAG
66 CCAACATAATTATCAAAATACCCTTATAG
*
13798383 TGTAAAATTATCGAAATACCCTTGTAGTGTAAAAATTATTGAAATACCCTTGTAGTGTAAAATGA
1 TGTAAAATTATCGAAATACCCTTGTAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGA
*
13798448 CCGACATAATTATCAAAATACCCTTATAG
66 CCAACATAATTATCAAAATACCCTTATAG
* * * * *
13798477 TGTAAAATTATCGAAATACCCTTGTAGTGT-AAAATGACCGACATACCCCTGTAGGGTAAAATGA
1 TGTAAAATTATCGAAATACCCTTGTAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGA
13798541 C
66 C
13798542 TATTTTGCCC
Statistics
Matches: 149, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 29 0.19
94 120 0.81
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (94 bp):
TGTAAAATTATCGAAATACCCTTGTAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGA
CCAACATAATTATCAAAATACCCTTATAG
Found at i:13798444 original size:28 final size:28
Alignment explanation
Indices: 13798265--13798350 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
13798255 CCCGATTTGT
* * *
13798265 AAAATTATCGAAACACCCTCG-ATTTGT-
1 AAAATTATCGAAATACCCTTGTA-GTGTA
*
13798292 AAAATTATCAAAATACCCTTGTAGTGTA
1 AAAATTATCGAAATACCCTTGTAGTGTA
13798320 AAAATTATCGAAATACCCTTGTAGTGTA
1 AAAATTATCGAAATACCCTTGTAGTGTA
13798348 AAA
1 AAA
13798351 TGACCAACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
27 21 0.40
28 31 0.60
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (28 bp):
AAAATTATCGAAATACCCTTGTAGTGTA
Found at i:13798493 original size:27 final size:27
Alignment explanation
Indices: 13798455--13798538 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
13798445 TGACCGACAT
* *
13798455 AATTATCAAAATACCCTTATAGTGTAA
1 AATTATCGAAATACCCTTGTAGTGTAA
13798482 AATTATCGAAATACCCTTGTAGTGTAA
1 AATTATCGAAATACCCTTGTAGTGTAA
* * * * *
13798509 AATGACCGACATACCCCTGTAGGGTAA
1 AATTATCGAAATACCCTTGTAGTGTAA
13798536 AAT
1 AAT
13798539 GACTATTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (27 bp):
AATTATCGAAATACCCTTGTAGTGTAA
Found at i:13798507 original size:66 final size:67
Alignment explanation
Indices: 13798388--13798521 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
13798378 TGTAGTGTAA
* * *
13798388 AATTATCGAAATACCCTTGTAGTGTAAAAATTATTGAAATACCCTTGTAGTGTAAAATGACCGAC
1 AATTATCAAAATACCCTTATAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGACCGAC
13798453 AT
66 AT
13798455 AATTATCAAAATACCCTTATAGTGT-AAAATTATCGAAATACCCTTGTAGTGTAAAATGACCGAC
1 AATTATCAAAATACCCTTATAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGACCGAC
13798519 AT
66 AT
13798521 A
1 A
13798522 CCCCTGTAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 41 0.64
67 23 0.36
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (67 bp):
AATTATCAAAATACCCTTATAGTGTAAAAATTATCGAAATACCCTTGTAGTGTAAAATGACCGAC
AT
Found at i:13801424 original size:28 final size:28
Alignment explanation
Indices: 13801367--13801429 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
13801357 TGGGAAGTAG
* * *
13801367 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* *
13801395 TTGGGCCTGATGGGCCATGTTAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
13801423 TTGGGCC
1 TTGGGCC
13801430 CTAAGGAGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.29
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:13801784 original size:27 final size:26
Alignment explanation
Indices: 13801746--13801965 Score: 115
Period size: 27 Copynumber: 8.2 Consensus size: 26
13801736 TAATAAATAG
*
13801746 AAATTACCGAAATACCGCCGATTTGTA
1 AAATTACTGAAATACC-CCGATTTGTA
* * * *
13801773 AAATTACAGAAATACCCTTGA-CTGTG
1 AAATTACTGAAATACCC-CGATTTGTA
** * *
13801799 AAATTGTTGAGATACCTTCGATTTGTA
1 AAATTACTGAAATACC-CCGATTTGTA
**
13801826 AAATTA-TCGAAATACCTTGATTTGTA
1 AAATTACT-GAAATACCCCGATTTGTA
*
13801852 AAATTACTGAAATATCCCCGATTTGTG
1 AAATTACTGAAATA-CCCCGATTTGTA
* ** * * *
13801879 AAATTATTGAAGCACCTTCAATTTTTA
1 AAATTACTGAAATACC-CCGATTTGTA
* * *
13801906 AAATTA-TCGAAACACCCTCAATTTCTA
1 AAATTACT-GAAATACCC-CGATTTGTA
* *
13801933 AAATTA-TCGAAACACCCCCAATTTGTA
1 AAATTACT-GAAATA-CCCCGATTTGTA
13801960 AAATTA
1 AAATTA
13801966 TCGTAATACC
Statistics
Matches: 154, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
26 43 0.28
27 108 0.70
28 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (26 bp):
AAATTACTGAAATACCCCGATTTGTA
Found at i:13801874 original size:53 final size:53
Alignment explanation
Indices: 13801746--13801944 Score: 156
Period size: 53 Copynumber: 3.7 Consensus size: 53
13801736 TAATAAATAG
* * *
13801746 AAATTACCGAAATACCGCCGATTTGTAAAATTA-CAGAAATACCCTTGA-CTGTG
1 AAATTACTGAAATACCGCCGATTTGTAAAATTATC-GAAATA-CCTTGATTTGTA
** * **
13801799 AAATTGTTGAGATACCTTCGATTTGTAAAATTATCGAAATACCTTGATTTGTA
1 AAATTACTGAAATACCGCCGATTTGTAAAATTATCGAAATACCTTGATTTGTA
* * ** * *
13801852 AAATTACTGAAATATCC-CCGATTTGTGAAATTATTGAAGCACCTTCAATTTTTA
1 AAATTACTGAAATA-CCGCCGATTTGTAAAATTATCGAAATACCTT-GATTTGTA
* * *
13801906 AAATTA-TCGAAACACC-CTCAATTTCTAAAATTATCGAAA
1 AAATTACT-GAAATACCGC-CGATTTGTAAAATTATCGAAA
13801945 CACCCCCAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 6 0.05
53 74 0.64
54 36 0.31
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (53 bp):
AAATTACTGAAATACCGCCGATTTGTAAAATTATCGAAATACCTTGATTTGTA
Found at i:13801880 original size:80 final size:80
Alignment explanation
Indices: 13801746--13801917 Score: 206
Period size: 80 Copynumber: 2.1 Consensus size: 80
13801736 TAATAAATAG
* * *
13801746 AAATTACCGAAATACCGCCGATTTGTAAAATTACAGAAATACCCTTGACTGTGAAATTGTTG-AG
1 AAATTATCGAAATACCGCCGATTTGTAAAATTACAGAAATACCCTCGACTGTGAAATTATTGAAG
* *
13801810 ATACCTTCGATTTGTA
66 -CACCTTCAATTTGTA
** * *
13801826 AAATTATCGAAATACC-TTGATTTGTAAAATTACTGAAATATCCC-CGATTTGTGAAATTATTGA
1 AAATTATCGAAATACCGCCGATTTGTAAAATTACAGAAATA-CCCTCGA-CTGTGAAATTATTGA
*
13801889 AGCACCTTCAATTTTTA
64 AGCACCTTCAATTTGTA
13801906 AAATTATCGAAA
1 AAATTATCGAAA
13801918 CACCCTCAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 23 0.29
80 54 0.68
81 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (80 bp):
AAATTATCGAAATACCGCCGATTTGTAAAATTACAGAAATACCCTCGACTGTGAAATTATTGAAG
CACCTTCAATTTGTA
Found at i:13801965 original size:81 final size:80
Alignment explanation
Indices: 13801812--13801966 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 80
13801802 TTGTTGAGAT
* * ** * * * *
13801812 ACCTTCGATTTGTAAAATTATCGAAATACCTTGATTTGTAAAATTACTGAAATATCCCCGATTTG
1 ACCTTCAATTTGTAAAATTATCGAAACACCTCAATTTCTAAAATTACTGAAACACCCCCAATTTG
*
13801877 TGAAATTATTGAAGC
66 TAAAATTATTGAAGC
*
13801892 ACCTTCAATTTTTAAAATTATCGAAACACCCTCAATTTCTAAAATTA-TCGAAACACCCCCAATT
1 ACCTTCAATTTGTAAAATTATCGAAACA-CCTCAATTTCTAAAATTACT-GAAACACCCCCAATT
13801956 TGTAAAATTAT
64 TGTAAAATTAT
13801967 CGTAATACCT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 26 0.41
81 37 0.59
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (80 bp):
ACCTTCAATTTGTAAAATTATCGAAACACCTCAATTTCTAAAATTACTGAAACACCCCCAATTTG
TAAAATTATTGAAGC
Found at i:13801966 original size:27 final size:27
Alignment explanation
Indices: 13801819--13801968 Score: 153
Period size: 27 Copynumber: 5.6 Consensus size: 27
13801809 GATACCTTCG
* **
13801819 ATTTGTAAAATTATCGAAATA-CCTTG
1 ATTTGTAAAATTATCGAAACACCCTCA
* *
13801845 ATTTGTAAAATTA-CTGAAATATCCC-CG
1 ATTTGTAAAATTATC-GAAACA-CCCTCA
* * * *
13801872 ATTTGTGAAATTATTGAAGCACCTTCA
1 ATTTGTAAAATTATCGAAACACCCTCA
*
13801899 ATTTTTAAAATTATCGAAACACCCTCA
1 ATTTGTAAAATTATCGAAACACCCTCA
* *
13801926 ATTTCTAAAATTATCGAAACACCCCCA
1 ATTTGTAAAATTATCGAAACACCCTCA
13801953 ATTTGTAAAATTATCG
1 ATTTGTAAAATTATCG
13801969 TAATACCTTT
Statistics
Matches: 104, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 21 0.20
27 80 0.77
28 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAACACCCTCA
Found at i:13805524 original size:18 final size:18
Alignment explanation
Indices: 13805497--13805538 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13805487 GACAAATCTT
* *
13805497 AAAATCTTTAACAGTTTC
1 AAAATTTTTAACAATTTC
13805515 AAAATTTTTAACAATTTC
1 AAAATTTTTAACAATTTC
13805533 AAAATT
1 AAAATT
13805539 AAAGGTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATTTTTAACAATTTC
Found at i:13809603 original size:15 final size:15
Alignment explanation
Indices: 13809579--13809608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13809569 CTAATGTATT
13809579 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
13809594 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
13809609 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:13818792 original size:34 final size:34
Alignment explanation
Indices: 13818748--13818816 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
13818738 ACATCGACTC
* *
13818748 TACCATGAGAATAAAACATGAAAGAGAGGGGTGT
1 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
13818782 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
1 TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
13818816 T
1 T
13818817 TTAGTCTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (34 bp):
TACCACGAGAATAAAACACGAAAGAGAGGGGTGT
Found at i:13820738 original size:88 final size:89
Alignment explanation
Indices: 13820559--13820817 Score: 315
Period size: 88 Copynumber: 2.9 Consensus size: 89
13820549 TATTAGAAAT
* * * * *
13820559 GAGTAAGACCATGATTGAAAGACATTATGACATCATGATTCTATAGAGTAAGACTAGGACTAAAA
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGA-TCTATAGAGTAAGACCATGACTAAAA
*
13820624 GACATTATGGCATCACGACTCCATC
65 GACGTTATGGCATCACGACTCCATC
* * *
13820649 GAGTAAGACCATAACTGAAAGACGTTATGGCATCATGA-CTATCGAGTAAGACCATGACTGAAAG
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATCTATAGAGTAAGACCATGACTAAAAG
* *
13820713 ACGTTATGGCATCACGATTCTATC
66 ACGTTATGGCATCACGACTCCATC
* * * * *
13820737 GAGTAAGACCATGACTGAAAGATGTTATGGCATCATAATTCTATTGAGTAAGACC-TTAGTTAAA
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGA-TCTATAGAGTAAGACCATGA-CTAAA
* *
13820801 GGACGCTATGGCATCAC
64 AGACGTTATGGCATCAC
13820818 AAATCAAATG
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
88 78 0.53
89 2 0.01
90 66 0.45
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (89 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATCTATAGAGTAAGACCATGACTAAAAG
ACGTTATGGCATCACGACTCCATC
Found at i:13820811 original size:133 final size:133
Alignment explanation
Indices: 13820559--13820816 Score: 329
Period size: 133 Copynumber: 1.9 Consensus size: 133
13820549 TATTAGAAAT
* * *
13820559 GAGTAAGACCATGATTGAAAGACATTATGACATCATGATTCTATAGAGTAAGACTAGGACTAAAA
1 GAGTAAGACCATGACTGAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
* *
13820624 GACATTATGGCATCACGACTCCATCGAGTAAGACCATAACTGAAAGACGTTATGGCATCATGACT
66 GACATTATGGCATCACAACTCCATCGAGTAAGACCATAACTGAAAGACGCTATGGCATCATGACT
13820689 ATC
131 ATC
* * * * *
13820692 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTGAAA
1 GAGTAAGACCATGACTGAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
** * * * * * * *
13820757 GATGTTATGGCATCATAATTCTATTGAGTAAGACC-TTAGTTAAAGGACGCTATGGCATCA
66 GACATTATGGCATCACAACTCCATCGAGTAAGACCATAACTGAAA-GACGCTATGGCATCA
13820817 CAAATCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
132 6 0.06
133 99 0.94
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.25
Consensus pattern (133 bp):
GAGTAAGACCATGACTGAAAGACATTATGACATCACGATTCTATAGAGTAAGACCAGGACTAAAA
GACATTATGGCATCACAACTCCATCGAGTAAGACCATAACTGAAAGACGCTATGGCATCATGACT
ATC
Found at i:13820816 original size:45 final size:45
Alignment explanation
Indices: 13820559--13820791 Score: 308
Period size: 45 Copynumber: 5.2 Consensus size: 45
13820549 TATTAGAAAT
* * * *
13820559 GAGTAAGACCATGATTGAAAGACATTATGACATCATGATTCTATA
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
* * * * * * *
13820604 GAGTAAGACTAGGACTAAAAGACATTATGGCATCACGACTCCATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
*
13820649 GAGTAAGACCATAACTGAAAGACGTTATGGCATCATGA--CTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
*
13820692 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
* * *
13820737 GAGTAAGACCATGACTGAAAGATGTTATGGCATCATAATTCTATT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
13820782 GAGTAAGACC
1 GAGTAAGACC
13820792 TTAGTTAAAG
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
43 40 0.24
45 124 0.76
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATC
Found at i:13820834 original size:45 final size:45
Alignment explanation
Indices: 13820762--13820947 Score: 144
Period size: 45 Copynumber: 4.1 Consensus size: 45
13820752 TGAAAGATGT
* * * * * * *
13820762 TATGGCATCATAATTCTATTGAGTAAGACCTTAGTT-AAAGGACGC
1 TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAA-GACAC
*
13820807 TATGGCATCACAAATCAAATGAATAAGACCATGGTTGAAAGACAC
1 TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAAGACAC
* **** * *
13820852 TATGGCAACACGACGGAAAATGAATAAAACCATGGTTGAAAGACAC
1 TATGGCATCAC-AAATCAAATGAATAAGACCATAGTTGAAAGACAC
* * *
13820898 TATGGCATCA-AGATAAGAAT-ACATAAGACCATGGTTGAAAGACAC
1 TATGGCATCACAAATCA-AATGA-ATAAGACCATAGTTGAAAGACAC
*
13820943 CATGG
1 TATGG
13820948 GACACTCTGA
Statistics
Matches: 117, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
44 4 0.03
45 72 0.62
46 41 0.35
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
TATGGCATCACAAATCAAATGAATAAGACCATAGTTGAAAGACAC
Found at i:13820836 original size:90 final size:89
Alignment explanation
Indices: 13820517--13820858 Score: 286
Period size: 90 Copynumber: 3.8 Consensus size: 89
13820507 AGAGAACAAA
* *
13820517 TAAGACCTTAGTTGAAAGACACTATGGCA-C-CATATTAGAAAT-GAGTAAGACCATGATTGAAA
1 TAAGACCTTAGTT-AAAGACACTATGGCATCACA-ATT--CAATCGAGTAAGACCATGACTGAAA
* *
13820579 GACATTATGACATCATGATTCTATAGAG
62 GACGTTATGGCATCATGATTCTATAGAG
* * * * * *
13820607 TAAGA-C-TAGGACTAAAAGACATTATGGCATCACGACTCCATCGAGTAAGACCATAACTGAAAG
1 TAAGACCTTA-G--TTAAAGACACTATGGCATCACAATTCAATCGAGTAAGACCATGACTGAAAG
*
13820670 ACGTTATGGCATCATGA--CTATCGAG
63 ACGTTATGGCATCATGATTCTATAGAG
* * * ** * * *
13820695 TAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGACTGAAAGAT
1 TAAGACC-TTAGTTAAAGACACTATGGCATCACAATTCAATCGAGTAAGACCATGACTGAAAGAC
* *
13820760 GTTATGGCATCATAATTCTATTGAG
65 GTTATGGCATCATGATTCTATAGAG
* * * **
13820785 TAAGACCTTAGTTAAAGGACGCTATGGCATCACAAATCAAAT-GAATAAGACCATGGTTGAAAGA
1 TAAGACCTTAGTTAAA-GACACTATGGCATCACAATTC-AATCGAGTAAGACCATGACTGAAAGA
**
13820849 CACTATGGCA
64 CGTTATGGCA
13820859 ACACGACGGA
Statistics
Matches: 205, Mismatches: 34, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
88 75 0.37
89 11 0.05
90 111 0.54
91 7 0.03
92 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (89 bp):
TAAGACCTTAGTTAAAGACACTATGGCATCACAATTCAATCGAGTAAGACCATGACTGAAAGACG
TTATGGCATCATGATTCTATAGAG
Found at i:13820884 original size:46 final size:44
Alignment explanation
Indices: 13820823--13820947 Score: 162
Period size: 46 Copynumber: 2.8 Consensus size: 44
13820813 ATCACAAATC
*
13820823 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACACGACGGA
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGA--GA
* * *
13820869 AAATGAATAAAACCATGGTTGAAAGACACTATGGCATCAAGATA
1 AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAGA
*
13820913 AGAAT-ACATAAGACCATGGTTGAAAGACACCATGG
1 A-AATGA-ATAAGACCATGGTTGAAAGACACTATGG
13820948 GACACTCTGA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 3 0.04
45 29 0.41
46 39 0.55
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.18
Consensus pattern (44 bp):
AAATGAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAGA
Found at i:13821837 original size:20 final size:20
Alignment explanation
Indices: 13821812--13821865 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
13821802 TATTTAAGCT
13821812 AAAGTAAGTAAATGCAATGA
1 AAAGTAAGTAAATGCAATGA
*
13821832 AAAGTAAGTAAATGCAATGG
1 AAAGTAAGTAAATGCAATGA
13821852 AAAGTAAGTAAATG
1 AAAGTAAGTAAATG
13821866 GAAGGGTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.22, T:0.20
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:13823960 original size:9 final size:9
Alignment explanation
Indices: 13823946--13823979 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
13823936 ATCTATATAC
13823946 TTTTTTTTA
1 TTTTTTTTA
*
13823955 TTTTTTTTG
1 TTTTTTTTA
13823964 TTTTTTTTA
1 TTTTTTTTA
13823973 TTTTTTT
1 TTTTTTT
13823980 CAAACATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:13830077 original size:39 final size:40
Alignment explanation
Indices: 13829920--13830144 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
13829910 GCTACTCGTT
* *
13829920 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
13829960 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
13830000 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
13830040 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
13830079 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
13830120 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13830145 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:13830104 original size:119 final size:120
Alignment explanation
Indices: 13829922--13830144 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
13829912 TACTCGTTCA
*
13829922 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
13829987 TTAGTAAC-TCGCACAAATACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-ACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
13830042 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
13830104 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAACCTTCGGGACTTAACCCGGA
13830145 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:13838174 original size:40 final size:40
Alignment explanation
Indices: 13838121--13838366 Score: 213
Period size: 40 Copynumber: 6.2 Consensus size: 40
13838111 CCTTTGGAAT
* *
13838121 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC
1 TTAACCCGGTTATAG-TAACTCGTACAAATGCCTTCGGGAC
* *
13838160 ATAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGAC
1 TTAACCCGGTTATAGTAACTCGTACAAATGCCTTCGGGAC
13838200 TTAACCCGGATT-TAGTAACTCGTACAAATGCCTTCGGGAC
1 TTAACCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGAC
* *
13838240 TTAACCCGGATT-TAGTAACTCGCACCAATG-CTTCGGG-C
1 TTAACCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGAC
* * * *
13838278 TTAGCCCGG-AATTAGTATCTCGCACAAATGCCTTC-GGATC
1 TTAACCCGGTTA-TAGTAACTCGTACAAATGCCTTCGGGA-C
** * * * **
13838318 TTAGTCCGGATATGGTCACTTATCACAAA-GCCTTCGGGAC
1 TTAACCCGGTTATAGTAACTCGT-ACAAATGCCTTCGGGAC
*
13838358 TTAGCCCGG
1 TTAACCCGG
13838367 ACATCATTCG
Statistics
Matches: 175, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
38 27 0.15
39 14 0.08
40 123 0.70
41 11 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAACCCGGTTATAGTAACTCGTACAAATGCCTTCGGGAC
Found at i:13838258 original size:80 final size:80
Alignment explanation
Indices: 13838121--13838367 Score: 256
Period size: 80 Copynumber: 3.1 Consensus size: 80
13838111 CCTTTGGAAT
* * *
13838121 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGT
1 TTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGT
13838183 ACAAATGCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
* *
13838200 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTAC
*
13838265 CAATG-CTTCGGG-C
66 AAATGCCTTCGGGAC
* * * * * * * * **
13838278 TTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTATC
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGT-
13838342 ACAAA-GCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
*
13838358 TTAGCCCGGA
1 TTAACCCGGA
13838368 CATCATTCGA
Statistics
Matches: 142, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.02
78 49 0.35
79 23 0.16
80 65 0.46
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTAC
AAATGCCTTCGGGAC
Found at i:13842234 original size:46 final size:45
Alignment explanation
Indices: 13842184--13842356 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
13842174 TGGTTGAGCA
13842184 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
13842230 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
13842275 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
13842323 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13842357 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:13842340 original size:93 final size:93
Alignment explanation
Indices: 13842181--13842351 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13842171 GGATGGTTGA
* *
13842181 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13842246 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
13842274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13842339 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13842352 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13867195 original size:53 final size:53
Alignment explanation
Indices: 13867017--13867219 Score: 181
Period size: 53 Copynumber: 3.8 Consensus size: 53
13867007 ATTAGGGTTT
* * * * * * *
13867017 AAGGATACCAAGTAAGGCCATGCTAAGGCATGGCATTGGTAAGTTTTACAATGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCATAAGGC
* * * * * * *
13867071 AAGGAAATCATGTAAAACCATGACAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTC-ATAAGGC
** * * *
13867126 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
** *
13867179 AAGGATACCATGTAAGACCATATCAAGACATGGCAGTGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTA
13867220 TGTTTAAAAA
Statistics
Matches: 114, Mismatches: 33, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 41 0.36
54 36 0.32
55 37 0.32
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:13872125 original size:43 final size:41
Alignment explanation
Indices: 13872077--13872183 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
13872067 TGTAAGACTG
* *
13872077 TGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAGGACCA
1 TGTCTGGGACACAGGCATCGATT-AGATTT-CGTATAAGACCA
** * * *
13872120 TGTCTGGGACATTGGCATCGTATTTGATTTCGTGTAAGACCC
1 TGTCTGGGACACAGGCATCG-ATTAGATTTCGTATAAGACCA
*
13872162 TGTCTGGGACAGAGGCATCGAT
1 TGTCTGGGACACAGGCATCGAT
13872184 ATTGAATTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.04
42 27 0.50
43 22 0.41
44 3 0.06
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (41 bp):
TGTCTGGGACACAGGCATCGATTAGATTTCGTATAAGACCA
Found at i:13872179 original size:42 final size:41
Alignment explanation
Indices: 13872064--13872213 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 41
13872054 GTCTGAGACA
** * *
13872064 TCGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-TGATT
* * **
13872106 TACGTATAGGACCATGTCTGGGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGATT
* *
13872149 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTG-ATT
* * *
13872192 TCATGTAAGACCACGTCCGGGA
1 TCGTGTAAGACCATGTCTGGGA
13872214 TGTCAGCATT
Statistics
Matches: 87, Mismatches: 17, Indels: 7
0.78 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 51 0.59
44 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATT
Found at i:13888050 original size:35 final size:35
Alignment explanation
Indices: 13887996--13888202 Score: 144
Period size: 35 Copynumber: 5.9 Consensus size: 35
13887986 AGGTAAGTAT
* * *
13887996 ATGTGAGGTCATATGGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * **
13888031 ATGTGAGGTTATATTGAACTTTTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
** * * * *
13888066 ATGTGAACTTCTATTGAATTTGTATATTCAGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * *
13888101 ATGCGAGATTATATTGAATTTGTATATTCGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * * * * * *
13888136 ATGAGATGTTTTATTGAATTTGAACATTAGGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * * *
13888171 ATGTGATGATATATTAAACTTATATATTCGGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGC
13888203 CATATGAAAT
Statistics
Matches: 129, Mismatches: 43, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 129 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:13888151 original size:70 final size:70
Alignment explanation
Indices: 13888077--13888209 Score: 180
Period size: 70 Copynumber: 1.9 Consensus size: 70
13888067 TGTGAACTTC
* * * * *
13888077 TATTGAATTTGTATATTCA-GTTACATGCGA-GATTATATTGAATTTGTATATTCGGCCATATGA
1 TATTGAATTTGAACATT-AGGTTACATGCGATGA-TATATTAAACTTATATATTCGGCCATATGA
13888140 GATGTTT
64 GATGTTT
*
13888147 TATTGAATTTGAACATTAGGTTACATGTGATGATATATTAAACTTATATATTCGGCCATATGA
1 TATTGAATTTGAACATTAGGTTACATGCGATGATATATTAAACTTATATATTCGGCCATATGA
13888210 AATAATATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 1 0.02
70 52 0.95
71 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (70 bp):
TATTGAATTTGAACATTAGGTTACATGCGATGATATATTAAACTTATATATTCGGCCATATGAGA
TGTTT
Found at i:13905296 original size:35 final size:35
Alignment explanation
Indices: 13905251--13905383 Score: 158
Period size: 35 Copynumber: 3.8 Consensus size: 35
13905241 AGGTAAGTAT
* ** *
13905251 ATGTGAGGTTATATTGAAGTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
* * *
13905286 ATGTAAGGTTATATTAAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
* * *
13905321 ATGTGAGCTTATATTGAACTTGTATTTTCGTTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
* *
13905356 ATGTGAGATTATATTGAATTTGTATATT
1 ATGTGAGGTTATATTGAACTTGTATATT
13905384 TGGCCATATA
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 82 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGATTAC
Found at i:13905439 original size:105 final size:104
Alignment explanation
Indices: 13905251--13905446 Score: 225
Period size: 105 Copynumber: 1.9 Consensus size: 104
13905241 AGGTAAGTAT
* * *** *
13905251 ATGTGAGGTTATATTGAAGTTGTATATTCGGCTGCATGTAAGGTTATATTAAACTTGTGTATTCG
1 ATGTGAGATTATATTGAAGTTGTATATTCGGC-GCATATAAGGTTATATTAAACTTGAACATTAG
* *
13905316 ATTACATGTGAGCTTATATTGAACTTGTATTTTCGTTTAC
65 ATTACATGTGAGCATATATAGAACTTGTATTTTCGTTTAC
* * * *
13905356 ATGTGAGATTATATTGAATTTGTATATTTGGC-CATATAAGATGTTTTATTGAACTTGAACATTA
1 ATGTGAGATTATATTGAAGTTGTATATTCGGCGCATATAAG--GTTATATTAAACTTGAACATTA
*
13905420 GGTTACATGTGATG-ATATATAGAACTT
64 GATTACATGTGA-GCATATATAGAACTT
13905447 ATATAATCGG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
103 7 0.09
105 67 0.89
106 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (104 bp):
ATGTGAGATTATATTGAAGTTGTATATTCGGCGCATATAAGGTTATATTAAACTTGAACATTAGA
TTACATGTGAGCATATATAGAACTTGTATTTTCGTTTAC
Found at i:13906813 original size:31 final size:31
Alignment explanation
Indices: 13906775--13906838 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
13906765 CCTTTTCATA
13906775 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
13906806 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
13906837 TT
1 TT
13906839 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:13907096 original size:23 final size:24
Alignment explanation
Indices: 13907032--13907148 Score: 161
Period size: 23 Copynumber: 5.0 Consensus size: 24
13907022 GCTTTATCAT
*
13907032 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
13907057 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13907081 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
13907103 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13907126 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13907149 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.12
23 45 0.53
24 18 0.21
25 12 0.14
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13907223 original size:20 final size:20
Alignment explanation
Indices: 13907198--13907244 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
13907188 TTATGATTAC
13907198 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
13907218 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
13907238 ACCATGT
1 ATCATGT
13907245 CTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:13907313 original size:25 final size:25
Alignment explanation
Indices: 13907281--13907328 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13907271 ATACATAAAC
* *
13907281 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
13907306 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
13907329 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:13911131 original size:48 final size:48
Alignment explanation
Indices: 13911031--13911135 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
13911021 GTGTGAGCTT
* * *
13911031 CATTAATTTGGCTTCATGCCATGATATCAGCACTTCGGGTGCAAGTTT
1 CATTGATTTAGCTTCATGCCATGATATCAGCACTTCGGGTGCAAGTTA
* * * *
13911079 CATTGATTTAGCTTCGA-GCCATGATATTAGCACTTTGGTTGCGAGTTA
1 CATTGATTTAGCTTC-ATGCCATGATATCAGCACTTCGGGTGCAAGTTA
13911127 CATTGATTT
1 CATTGATTT
13911136 TGGGTTTGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
48 48 0.98
49 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (48 bp):
CATTGATTTAGCTTCATGCCATGATATCAGCACTTCGGGTGCAAGTTA
Found at i:13911745 original size:12 final size:13
Alignment explanation
Indices: 13911704--13911745 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
13911694 GGTTAGTTTG
13911704 ATTATGTATATAA
1 ATTATGTATATAA
* *
13911717 ATGTATATATATGA
1 AT-TATGTATATAA
13911731 ATTATGT-TATAA
1 ATTATGTATATAA
13911743 ATT
1 ATT
13911746 TGAGGTTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 7 0.29
13 6 0.25
14 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (13 bp):
ATTATGTATATAA
Found at i:13913576 original size:40 final size:39
Alignment explanation
Indices: 13913478--13913637 Score: 178
Period size: 40 Copynumber: 4.1 Consensus size: 39
13913468 TCCTCGTTCA
* * *
13913478 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
*
13913517 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* * * *
13913556 GAATGCCTTCGGGACTTAACCCGAATTTCGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* * * *
13913596 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCAC
13913636 AA
1 AA
13913638 ATACCTTTGG
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.35
40 65 0.61
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:13913660 original size:40 final size:41
Alignment explanation
Indices: 13913561--13913653 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
13913551 CGCACGAATG
*
13913561 CCTTCGG-GACTTAACCC-GAATTTCGTATCTCGCACAAAGG
1 CCTTCGGAG-CTTAACCCGGAATTTCGTATCTCGCACAAAGA
* *
13913601 CCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATA
1 CCTTCGGAGCTTAACCCGGAATTTCGTATCTCGCACAAAGA
* *
13913641 CCTTTGGATCTTA
1 CCTTCGGAGCTTA
13913654 GTCCGGATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 39 0.85
41 7 0.15
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
CCTTCGGAGCTTAACCCGGAATTTCGTATCTCGCACAAAGA
Found at i:13917821 original size:20 final size:20
Alignment explanation
Indices: 13917796--13917833 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13917786 GACTAAACAG
13917796 AGAACTTTAG-AAATTTTTAC
1 AGAAC-TTAGAAAATTTTTAC
13917816 AGAACTTAGAAAATTTTT
1 AGAACTTAGAAAATTTTT
13917834 CCACTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AGAACTTAGAAAATTTTTAC
Found at i:13919372 original size:93 final size:96
Alignment explanation
Indices: 13919208--13919468 Score: 289
Period size: 93 Copynumber: 2.8 Consensus size: 96
13919198 ACATTTGGGT
* * * * * * *
13919208 GATGTGTGTGTCAGTGTAAAACTTGTCTAGGACACGGGATCGACACAGAAAAGTGAGAGCCAGTG
1 GATGTGTGTGTCAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTG
* * * * *
13919273 CAAGACCTATCTTGGACATGGCA-TCGGCTT
66 TAAGACCTATCTGGGACATGGCACTAGCCTC
* *
13919303 GA-G-GTGTGTTAGTGTAAGACCTATCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTG
1 GATGTGTGTGTCAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTG
*
13919366 TAAGACCTGTCTGGGACATGGCACTAGCCTC
66 TAAGACCTATCTGGGACATGGCACTAGCCTC
* * * * *
13919397 GATGTATGTAAGTCAATGTAAGACCTGTGTGGGACATGGCATCGACTTAGAT--GTGAGAGCTAG
1 GATGTGTGT--GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAG
13919460 TGTAAGACC
64 TGTAAGACC
13919469 ATGTTTGGAA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
93 71 0.51
94 7 0.05
95 3 0.02
96 23 0.17
98 35 0.25
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (96 bp):
GATGTGTGTGTCAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTG
TAAGACCTATCTGGGACATGGCACTAGCCTC
Found at i:13919373 original size:49 final size:49
Alignment explanation
Indices: 13919233--13919468 Score: 152
Period size: 49 Copynumber: 5.0 Consensus size: 49
13919223 GTAAAACTTG
* * * * * *
13919233 TCTAGGACACGGGATCGACACAGAAAAGTGAGAGCCAGTGCAAGACCTA
1 TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACCTA
* * * * * *
13919282 TCTTGGACATGGCATCGGC-T---TGAG-GTGTGTTAGTGTAAGACCTA
1 TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACCTA
*
13919326 TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACCTG
1 TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACCTA
* * * * * * *
13919375 TCTGGGACATGGCA-CTAGCCTCGATGTA-TGTA-AG-TCAATGTAAGACCTG
1 TCTAGGACATGGCATCGA-CATAGAT-AAGTG-AGAGCT-AGTGTAAGACCTA
* * *
13919424 TGTGGGACATGGCATCGACTTAGAT--GTGAGAGCTAGTGTAAGACC
1 TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACC
13919469 ATGTTTGGAA
Statistics
Matches: 144, Mismatches: 30, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
44 32 0.22
45 3 0.02
46 1 0.01
47 14 0.10
48 7 0.05
49 83 0.58
50 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (49 bp):
TCTAGGACATGGCATCGACATAGATAAGTGAGAGCTAGTGTAAGACCTA
Found at i:13924452 original size:28 final size:27
Alignment explanation
Indices: 13924421--13924554 Score: 133
Period size: 29 Copynumber: 4.7 Consensus size: 27
13924411 ACATACCTGC
*
13924421 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCATTAGGCCCAAT-TCATTT
* * *
13924449 ATATGGCCCATTCGGCCTAATTCACGTTC
1 ATATGGCCCATTAGGCCCAATTCA--TTT
* *
13924478 ATATGACCCATCAGGCCCAATTCATATT
1 ATATGGCCCATTAGGCCCAATTCAT-TT
*
13924506 CATATGGTCCATTAGGCCCAATCTCATTT
1 -ATATGGCCCATTAGGCCCAAT-TCATTT
**
13924535 ATATGGCCCATCCGGCCCAA
1 ATATGGCCCATTAGGCCCAA
13924555 ATCACATTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
27 4 0.05
28 36 0.42
29 42 0.49
30 4 0.05
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCCAATTCATTT
Found at i:13924496 original size:57 final size:57
Alignment explanation
Indices: 13924420--13924554 Score: 152
Period size: 57 Copynumber: 2.4 Consensus size: 57
13924410 TACATACCTG
* *
13924420 CATATGGCCCA-CTAGGCCCAATCTCAT-TT-ATATGGCCCATTCGGCCTAAT-TCACGTT
1 CATATGGCCCATC-AGGCCCAAT-TCATATTCATATGGCCCATTAGGCCCAATCTCA--TT
* *
13924477 CATATGACCCATCAGGCCCAATTCATATTCATATGGTCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATTCATATTCATATGGCCCATTAGGCCCAATCTCATT
* *
13924534 TATATGGCCCATCCGGCCCAA
1 CATATGGCCCATCAGGCCCAA
13924555 ATCACATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
56 4 0.06
57 41 0.61
58 19 0.28
59 3 0.04
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
CATATGGCCCATCAGGCCCAATTCATATTCATATGGCCCATTAGGCCCAATCTCATT
Found at i:13932956 original size:30 final size:28
Alignment explanation
Indices: 13932904--13932959 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 28
13932894 AAGGTTTTTA
13932904 GACACGGGCGTGTCACGGCCGTGTGAGG
1 GACACGGGCGTGTCACGGCCGTGTGAGG
13932932 GACACGGGGCGTGTGC-CAGGCCGTGTGA
1 GACAC-GGGCGTGT-CAC-GGCCGTGTGA
13932960 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 5 0.20
29 9 0.36
30 11 0.44
ACGTcount: A:0.14, C:0.25, G:0.46, T:0.14
Consensus pattern (28 bp):
GACACGGGCGTGTCACGGCCGTGTGAGG
Found at i:13936313 original size:51 final size:51
Alignment explanation
Indices: 13936247--13936346 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
13936237 TGGATACGAG
** *
13936247 CATCCGAGCTCGTTGAGTGGTCCAAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTGAGAAGTCCAAGCTCATAATGGATGCGATACATGTAA
* * * * * *
13936298 CATCTGAGCTTGTTGAGAAGTCCGAGCTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTGAGAAGTCCAAGCTCATAATGGATGCGATACATGT
13936347 TATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
CATCCGAGCTCGTTGAGAAGTCCAAGCTCATAATGGATGCGATACATGTAA
Found at i:13946140 original size:20 final size:21
Alignment explanation
Indices: 13946104--13946142 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13946094 GTGTAAATGT
13946104 AGTAACATAATTGTTATTTTA
1 AGTAACATAATTGTTATTTTA
*
13946125 AGTAACTTAA-TGTTATTT
1 AGTAACATAATTGTTATTT
13946143 ATATGATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (21 bp):
AGTAACATAATTGTTATTTTA
Found at i:13947868 original size:59 final size:59
Alignment explanation
Indices: 13947801--13947918 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
13947791 TCGGGTAAGG
13947801 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
13947860 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
13947919 TATCCAAGCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (59 bp):
GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
Found at i:13950149 original size:15 final size:15
Alignment explanation
Indices: 13950126--13950168 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13950116 GTACGGTATC
* *
13950126 GTATATTGGGTTTCT
1 GTATCTTGGATTTCT
13950141 GTATCTTGGATTTCT
1 GTATCTTGGATTTCT
13950156 -TCATCTTGGATTT
1 GT-ATCTTGGATTT
13950169 TTCTGTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
GTATCTTGGATTTCT
Found at i:13950177 original size:15 final size:15
Alignment explanation
Indices: 13950143--13950186 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13950133 GGGTTTCTGT
13950143 ATCTTGGATTTCTTC
1 ATCTTGGATTTCTTC
13950158 ATCTTGGATTT-TTC
1 ATCTTGGATTTCTTC
* *
13950172 TGTCTTGGGTTTCTT
1 -ATCTTGGATTTCTT
13950187 TATTTTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.09, C:0.16, G:0.18, T:0.57
Consensus pattern (15 bp):
ATCTTGGATTTCTTC
Found at i:13966863 original size:39 final size:39
Alignment explanation
Indices: 13966809--13966983 Score: 165
Period size: 40 Copynumber: 4.4 Consensus size: 39
13966799 CAACCAAGTA
* * *
13966809 CCTTCGGGATTTAGCCAGACATAGCT-ACTCGCTCAGATG
1 CCTTCGGGACTTAGCCAGACATAG-TAACTCGCACAAATG
* **
13966848 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCAGACATAGTAACTCGCACAAATG
* * **
13966888 CCTTCGAGACTTAGCCCGGTTATAGTAACTCAG-ACAAATG
1 CCTTCGGGACTTAG-CCAGACATAGTAACTC-GCACAAATG
* **
13966928 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCAGACATAGTAACTCGCACAAATG
*
13966968 CCTTCGAGACTTAGCC
1 CCTTCGGGACTTAGCC
13966984 CGGTTATCAT
Statistics
Matches: 123, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 17 0.14
40 105 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCAGACATAGTAACTCGCACAAATG
Found at i:13966890 original size:40 final size:40
Alignment explanation
Indices: 13966835--13966990 Score: 260
Period size: 40 Copynumber: 3.9 Consensus size: 40
13966825 AGACATAGCT
* * *
13966835 ACTCGCTCAGATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
13966875 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
*
13966915 ACTCAG-ACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTC-GCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
13966955 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTAT
13966991 CATCTGAATA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGAGACTTAGCCCGGTTATAGTA
Found at i:13968774 original size:39 final size:39
Alignment explanation
Indices: 13968731--13968882 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
13968721 ATGCAAGATA
* *
13968731 CTGGAAATGGATCCGAGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
* * *
13968770 CTGGAAATGTATCTGGGCTAAAGTCCGGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
13968809 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
** *
13968848 CAAGAAATATATCCGGGCTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTT
13968883 TATGCTGGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
Found at i:13979426 original size:30 final size:30
Alignment explanation
Indices: 13979392--13979452 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
13979382 TCCTTAACTC
13979392 AAAC-TTTGAAAAAATTACAATTTTGCCCCT
1 AAACTTTTG-AAAAATTACAATTTTGCCCCT
* * *
13979422 AAACTTTTGCATATTTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
13979452 A
1 A
13979453 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:13988269 original size:30 final size:30
Alignment explanation
Indices: 13988235--13988295 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13988225 TCCTTAACTC
13988235 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
13988265 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
13988295 A
1 A
13988296 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:13996031 original size:28 final size:28
Alignment explanation
Indices: 13995999--13996125 Score: 123
Period size: 29 Copynumber: 4.5 Consensus size: 28
13995989 TACATACATG
*
13995999 CATATGGCCCA-CTAGGCCCAATCTTATT
1 CATATGGCCCATC-AGGCCCAATCTCATT
* * *
13996027 TATATGGCCCATCCGACCCAAT-TCACGTT
1 CATATGGCCCATCAGGCCCAATCTCA--TT
* *
13996056 CATATGACCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAA-TCTCATT
* *
13996085 CATATGGCCCATTAGGCCAAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
*
13996113 TATATGGCCCATC
1 CATATGGCCCATC
13996126 CAGTCCAAAT
Statistics
Matches: 79, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.03
28 34 0.43
29 40 0.51
30 1 0.01
31 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:13996141 original size:29 final size:28
Alignment explanation
Indices: 13996024--13996145 Score: 111
Period size: 29 Copynumber: 4.3 Consensus size: 28
13996014 GCCCAATCTT
* *
13996024 ATTTATATGGCCCATCCGACCCAATTCAC
1 ATTTATATGGCCCATCAG-CCCAAATCAC
* * * *
13996053 GTTCATATGACCCATCAGGCCCAATTCAC
1 ATTTATATGGCCCATCA-GCCCAAATCAC
* * * *
13996082 ATTCATATGGCCCATTAGGCCAAATCTC
1 ATTTATATGGCCCATCAGCCCAAATCAC
*
13996110 ATTTATATGGCCCATCCAGTCCAAATCAC
1 ATTTATATGGCCCAT-CAGCCCAAATCAC
13996139 A-TTATAT
1 ATTTATAT
13996146 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 28 0.36
29 48 0.62
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (28 bp):
ATTTATATGGCCCATCAGCCCAAATCAC
Found at i:13996382 original size:16 final size:16
Alignment explanation
Indices: 13996357--13996395 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
13996347 ATAGCCAAAC
*
13996357 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCAGCA
*
13996373 TTTCGGCTTTTCAGCA
1 TTTCGACTTTTCAGCA
13996389 TTTCGAC
1 TTTCGAC
13996396 CTTTGCTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (16 bp):
TTTCGACTTTTCAGCA
Found at i:14002272 original size:255 final size:256
Alignment explanation
Indices: 14001820--14002320 Score: 835
Period size: 255 Copynumber: 2.0 Consensus size: 256
14001810 TCCCAAGTGA
*
14001820 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGTAAT
1 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
* * * *
14001885 GACACTGCTCATTTTACTTTTTGTTCAGGTGAACAGTCTAGATCCTCCATTGTCCATTCTGTGGC
66 GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
*
14001950 CTCCAACCAATATTCAGCCACATTAGGAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
131 CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
*
14002015 TTGATCGAAGTCGCTCCGA-AATAGACCCTCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
196 TTGATCGAAGTCGCT-CGAGAATAGACCCCCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
*
14002076 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAGT
1 CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
* * * *
14002141 GACACTGC-CCTTTCAGTTTTTGTTTAGGTGAACAGTCCAGATCCTCCATTATCCTTTCCGTGGC
66 GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
* *
14002205 CTCCAACCAATATTCAGCCACGTTAGAAGCCACACTAGCCACGCCCTTAAAAATCTCAGCCCCAT
131 CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
* *
14002270 TTGATCGAAGTCGCTCTAGAATGGACCCCCAATTTCCCGTGCCATTATTGG
196 TTGATCGAAGTCGCTCGAGAATAGACCCCCAATTTCCCGTGCCATTATTGG
14002321 GCCCAGCGAC
Statistics
Matches: 228, Mismatches: 16, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
254 2 0.01
255 155 0.68
256 71 0.31
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.29
Consensus pattern (256 bp):
CCTGCTCAGGTTGAGTGCCCTCTTTCATTGTCAGCCACCACTGGTAAGCTTCTTCCCTTAGCAAT
GACACTGCTCATTTCACTTTTTGTTCAGGTGAACAGTCCAGATCCTCCATTATCCATTCCGTGGC
CTCCAACCAATATTCAGCCACATTAGAAGCCACACCAGCCACGCCCTTAAAAATCTCAGCCCCAT
TTGATCGAAGTCGCTCGAGAATAGACCCCCAATTTCCCGTGCCATTATTGGCCTCCAAAAT
Found at i:14004149 original size:29 final size:28
Alignment explanation
Indices: 14004077--14004228 Score: 166
Period size: 29 Copynumber: 5.4 Consensus size: 28
14004067 ACCCCTACAT
*
14004077 ACATGTATATGGCCCA-CTAGGCCCAATC
1 ACATTTATATGGCCCATCT-GGCCCAATC
*
14004105 TCATTTATATGGCCCATCTGGCCCAATTC
1 ACATTTATATGGCCCATCTGGCCCAA-TC
* * *
14004134 ACATTCATATGACCCATCAGGCCCAATTC
1 ACATTTATATGGCCCATCTGGCCCAA-TC
*
14004163 ACATTAATATGGCCCAT-TAGGCCCAATC
1 ACATTTATATGGCCCATCT-GGCCCAATC
* *
14004191 TCATTTATATGGCCCATCCGGCCCAAATC
1 ACATTTATATGGCCCATCTGGCCC-AATC
14004220 ACA-TTATAT
1 ACATTTATAT
14004229 TCATGCTCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
28 49 0.46
29 57 0.54
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (28 bp):
ACATTTATATGGCCCATCTGGCCCAATC
Found at i:14004159 original size:57 final size:57
Alignment explanation
Indices: 14004095--14004225 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 57
14004085 ATGGCCCACT
* *
14004095 AGGCCCAA-TCTCATTTATATGGCCCATCT-GGCCCAATTCACATTCATATGACCCATC
1 AGGCCCAATTCACATTAATATGGCCCAT-TAGGCCCAA-TCACATTCATATGACCCATC
* * *
14004152 AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATC
1 AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCACATTCATATGACCCATC
* *
14004209 CGGCCCAAATCACATTA
1 AGGCCCAATTCACATTA
14004226 TATTCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 41 0.63
58 24 0.37
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (57 bp):
AGGCCCAATTCACATTAATATGGCCCATTAGGCCCAATCACATTCATATGACCCATC
Found at i:14007353 original size:96 final size:96
Alignment explanation
Indices: 14007189--14007542 Score: 592
Period size: 96 Copynumber: 3.7 Consensus size: 96
14007179 ATTTTGTTAC
*
14007189 GATGAATGTGAAAGTGTATGTATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
14007254 TATGTATGTGATAAGGCCGAATGGCCAATGT
66 TATGTATGTGATAAGGCCGAATGGCCAATGT
14007285 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
14007350 TATGTGTATGTGATAAGGCCGAATGGCCAATGT
66 TA--TGTATGTGATAAGGCCGAATGGCCAATGT
*
14007383 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
14007446 TATGTATGTGATAAGGCCGAATGGCCAATGT
66 TATGTATGTGATAAGGCCGAATGGCCAATGT
* * * *
14007477 GATGAATGTGAAA--GTATATATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGT
14007539 GTAT
65 GTAT
14007543 AACTGTGATA
Statistics
Matches: 246, Mismatches: 7, Indels: 12
0.93 0.03 0.05
Matches are distributed among these distances:
92 4 0.02
94 80 0.33
95 3 0.01
96 110 0.45
98 49 0.20
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:14007408 original size:25 final size:25
Alignment explanation
Indices: 14007379--14007457 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
14007369 CGAATGGCCA
14007379 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * ***
14007404 ATGTGAT-AAGGCCG-AA-TG-ACCA
1 ATGTGATGAATG-TGAAAGTGTATGT
14007426 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
14007451 ATGTGAT
1 ATGTGAT
14007458 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 9 0.23
23 7 0.18
24 7 0.18
25 16 0.41
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:14007554 original size:47 final size:47
Alignment explanation
Indices: 14007189--14007542 Score: 575
Period size: 47 Copynumber: 7.4 Consensus size: 47
14007179 ATTTTGTTAC
*
14007189 GATGAATGTGAAAGTGTATGTATATGTGATAAGGTCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
14007238 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
14007285 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
14007334 GATGAATGTGAAAGTGTATGTGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTA--TGTATGTGATAAGGCCGAATGGCCAATGT
*
14007383 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
14007430 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
* * * *
14007477 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
*
14007524 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
14007543 AACTGTGATA
Statistics
Matches: 291, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
47 176 0.60
48 3 0.01
49 110 0.38
51 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:14008801 original size:15 final size:16
Alignment explanation
Indices: 14008770--14008803 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14008760 GTAGCCAAAC
*
14008770 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCAGCA
14008786 TTTCGGC-TTTCAGCA
1 TTTCGGCTTTTCAGCA
14008801 TTT
1 TTT
14008804 TGGCCTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:14023106 original size:17 final size:18
Alignment explanation
Indices: 14023081--14023115 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14023071 AGAACACAAA
*
14023081 GTAACAATC-TCAAAAAC
1 GTAAAAATCATCAAAAAC
14023098 GTAAAAATCATCAAAAAC
1 GTAAAAATCATCAAAAAC
14023116 CGAACAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.20, G:0.06, T:0.17
Consensus pattern (18 bp):
GTAAAAATCATCAAAAAC
Found at i:14030010 original size:28 final size:27
Alignment explanation
Indices: 14029924--14030013 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
14029914 GTGACAGAGT
* *
14029924 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
14029953 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
14029980 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
14030008 CACCAG
1 CACCAG
14030014 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:14030166 original size:28 final size:28
Alignment explanation
Indices: 14030119--14030183 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
14030109 AAATTAACCC
* *
14030119 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATAAA
* *
14030147 TAGGGGTATAATGGTAATTTTGCATAAA
1 TAGGGGTATAAAGGTAATTTAGCATAAA
14030175 TAGGGGTAT
1 TAGGGGTAT
14030184 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATAAA
Found at i:14031269 original size:12 final size:13
Alignment explanation
Indices: 14031250--14031282 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
14031240 GGGTTCGGCT
14031250 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
14031263 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
14031275 ATGGAGAA
1 ATGGAGAA
14031283 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:14034560 original size:27 final size:28
Alignment explanation
Indices: 14034525--14034609 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 28
14034515 AGCATGGCTG
*
14034525 CCAGA-ACAGATAAT-GTGACAGAGTCA
1 CCAGATACAGATAATCGTGACAGAGCCA
*
14034551 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGACAGAGCCA
* *
14034579 CCAGAT-CAGATAATTGTG-CAATAGCCA
1 CCAGATACAGATAATCGTGAC-AGAGCCA
14034606 CCAG
1 CCAG
14034610 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.12
27 30 0.58
28 16 0.31
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (28 bp):
CCAGATACAGATAATCGTGACAGAGCCA
Found at i:14036038 original size:24 final size:24
Alignment explanation
Indices: 14036011--14036093 Score: 166
Period size: 24 Copynumber: 3.5 Consensus size: 24
14036001 CTTGATCAGT
14036011 TCCTAAATCCTATCCCTTATCAAC
1 TCCTAAATCCTATCCCTTATCAAC
14036035 TCCTAAATCCTATCCCTTATCAAC
1 TCCTAAATCCTATCCCTTATCAAC
14036059 TCCTAAATCCTATCCCTTATCAAC
1 TCCTAAATCCTATCCCTTATCAAC
14036083 TCCTAAATCCT
1 TCCTAAATCCT
14036094 CTCCTGACAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (24 bp):
TCCTAAATCCTATCCCTTATCAAC
Found at i:14038525 original size:40 final size:40
Alignment explanation
Indices: 14038463--14038674 Score: 212
Period size: 40 Copynumber: 5.3 Consensus size: 40
14038453 CATTTGAATG
* * * *
14038463 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
14038503 TTATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * * *
14038543 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * * *
14038583 TTATCCTGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
14038623 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
14038663 ATATCC-GGCTAA
1 ATATCCGGGCTAA
14038675 ATTCCGAAGA
Statistics
Matches: 136, Mismatches: 34, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
39 8 0.06
40 127 0.93
41 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:14038668 original size:80 final size:80
Alignment explanation
Indices: 14038463--14038674 Score: 293
Period size: 80 Copynumber: 2.7 Consensus size: 80
14038453 CATTTGAATG
* * *
14038463 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCGATTTTATCCGGGCTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGACCTGAAGGCA
*
14038528 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTACT
* * *
14038543 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCTGACTAAGATCC-GAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGA-CCTGAAGGC
14038607 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * * * *
14038623 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCTTGTGGTTATATCCGG-CTAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAA
14038675 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 4 0.03
80 110 0.95
81 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGACCTGAAGGCA
TTTGTGCGAGTTACT
Found at i:14055778 original size:27 final size:27
Alignment explanation
Indices: 14055740--14055792 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
14055730 TGCATGAATA
14055740 CTACAACTAAAGCTTAAAATAAACTAC
1 CTACAACTAAAGCTTAAAATAAACTAC
14055767 CTACAACTAAAGCTTAAAATAAACTA
1 CTACAACTAAAGCTTAAAATAAACTA
14055793 ACTCAGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.23
Consensus pattern (27 bp):
CTACAACTAAAGCTTAAAATAAACTAC
Found at i:14056217 original size:21 final size:18
Alignment explanation
Indices: 14056172--14056225 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
14056162 TTCTCATTTT
14056172 TAGCAACTTCTTCTTCAG
1 TAGCAACTTCTTCTTCAG
* *
14056190 CAACAACTTCTTCTTCTGTAG
1 TAGCAACTTCTTCTTC---AG
14056211 TAGCAACTTCCTTCT
1 TAGCAACTT-CTTCT
14056226 CAACAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 14 0.50
21 9 0.32
22 5 0.18
ACGTcount: A:0.22, C:0.30, G:0.09, T:0.39
Consensus pattern (18 bp):
TAGCAACTTCTTCTTCAG
Found at i:14060691 original size:15 final size:15
Alignment explanation
Indices: 14060671--14060700 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14060661 AATTGAATAA
14060671 AAATCACTTTACGAG
1 AAATCACTTTACGAG
14060686 AAATCACTTTACGAG
1 AAATCACTTTACGAG
14060701 CCTAGGGGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
AAATCACTTTACGAG
Found at i:14061620 original size:54 final size:54
Alignment explanation
Indices: 14061547--14061683 Score: 247
Period size: 54 Copynumber: 2.5 Consensus size: 54
14061537 ATGTCGTTGT
* * *
14061547 AGGGGATTTAGCCTGGACTGGTAATCTCGACAATACCCTATGAGTTTATGTTAC
1 AGGGGATTTAGCCTGGACTGGTAATCCCAAAAATACCCTATGAGTTTATGTTAC
14061601 AGGGGATTTAGCCTGGACTGGTAATCCCAAAAATACCCTATGAGTTTATGTTAC
1 AGGGGATTTAGCCTGGACTGGTAATCCCAAAAATACCCTATGAGTTTATGTTAC
14061655 AGGGGATTTAGCCTGGACTGGTAATCCCA
1 AGGGGATTTAGCCTGGACTGGTAATCCCA
14061684 CTATAAGAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (54 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCAAAAATACCCTATGAGTTTATGTTAC
Found at i:14070062 original size:23 final size:23
Alignment explanation
Indices: 14070034--14070077 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14070024 CATGCTAATA
14070034 ATAAATACAATC-ATCATGCATTC
1 ATAAAT-CAATCAATCATGCATTC
*
14070057 ATAAATCAATCAATTATGCAT
1 ATAAATCAATCAATCATGCAT
14070078 ATTAGGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (23 bp):
ATAAATCAATCAATCATGCATTC
Found at i:14080867 original size:93 final size:96
Alignment explanation
Indices: 14080745--14080917 Score: 219
Period size: 93 Copynumber: 1.8 Consensus size: 96
14080735 GACAAGAGCT
* * * * * * *
14080745 AGTGTAAGACCTGTCTGGGATATGGCATCAGCTTGT-TG-GAT-GTTAGTGTAAGACC-TGTTTG
1 AGTGTAAGACCTGTCTAGGACACGACATCAACTT-TATGTGATAGTTAGTGCAAGACCATGTCTG
14080806 GGACATGCCATCGGCCTCAGTATATGAAAGTC
65 GGACATGCCATCGGCCTCAGTATATGAAAGTC
*
14080838 AGTGTAAGACCTGTCTAGGACACGACATCAACTTTAATGTGCTAGTTAGTGCAAGACCATGTCTG
1 AGTGTAAGACCTGTCTAGGACACGACATCAACTTT-ATGTGATAGTTAGTGCAAGACCATGTCTG
*
14080903 GGACATGGCATCGGC
65 GGACATGCCATCGGC
14080918 ATTTGATCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
92 1 0.02
93 29 0.44
94 2 0.03
95 2 0.03
96 13 0.20
97 19 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (96 bp):
AGTGTAAGACCTGTCTAGGACACGACATCAACTTTATGTGATAGTTAGTGCAAGACCATGTCTGG
GACATGCCATCGGCCTCAGTATATGAAAGTC
Found at i:14088283 original size:46 final size:46
Alignment explanation
Indices: 14088211--14088385 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
14088201 GGTGGTATGT
* *
14088211 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCA-CAACATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATCAACACGA
* ** *
14088257 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCAACACGA
* * * * *
14088303 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACACTGATAAATGA
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCA-TCA-ACACGA
* * *
14088352 GAGCCAGTGTAAGACCTGTTTGGGATATCGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATC
14088386 AGCCTCGATA
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
45 2 0.02
46 63 0.59
47 8 0.07
48 1 0.01
49 33 0.31
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCAACACGA
Found at i:14088376 original size:49 final size:47
Alignment explanation
Indices: 14088211--14088437 Score: 185
Period size: 49 Copynumber: 4.8 Consensus size: 47
14088201 GGTGGTATGT
* * *
14088211 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC--AACATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACACTGAAAATGA
* * * * *
14088257 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTG-AGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACACTGAAAATGA
*
14088303 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACACTGATAAATGA
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACACTGA-AAATGA
* * * *
14088352 GAGCCAGTGTAAGACCTGTTTGGGATATCGCATC-AGC-CTCGATATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGA-CACT-GA-AAATGA
* * * * *
14088401 AAGTCAGTGTAAGACCTGTCTAGGACACAGCATCGAC
1 GAGCCAGTGTAAGACATGTCTGGGACA-TGCATCGAC
14088438 TTTAATGTGC
Statistics
Matches: 148, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
45 3 0.02
46 61 0.41
47 10 0.07
48 3 0.02
49 70 0.47
50 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACACTGAAAATGA
Found at i:14103249 original size:40 final size:40
Alignment explanation
Indices: 14103158--14103327 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
14103148 TCCTCGTTCA
* * * * *
14103158 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
14103197 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
14103237 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
14103277 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
14103317 AAGGCCTTCGG
1 AATGCCTTCGG
14103328 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:14120870 original size:6 final size:6
Alignment explanation
Indices: 14120854--14121003 Score: 74
Period size: 6 Copynumber: 24.8 Consensus size: 6
14120844 CCATTGAGCG
* * * * * *
14120854 AGAAAA GGAAAA AGAAAT TGAAAA AGAAAT TG--AA AG-AAA ACAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
* * * * * *
14120899 AGAAAA CGAAAA AGAAAA AGAAAT TGCAAA AGAAAA AGAAAT CG-AAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
** * * *
14120946 AGTGAG AGAAAA AGAAAA TGAAGAAA AGAAAA TTGAAAA AGAAAA AGCAAAAA
1 AGAAAA AGAAAA AGAAAA AG-A-AAA AGAAAA -AGAAAA AGAAAA AG--AAAA
14120999 AGAAA
1 AGAAA
14121004 TTGAAAGAGA
Statistics
Matches: 103, Mismatches: 33, Indels: 16
0.68 0.22 0.11
Matches are distributed among these distances:
4 2 0.02
5 6 0.06
6 78 0.76
7 7 0.07
8 10 0.10
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (6 bp):
AGAAAA
Found at i:14120876 original size:12 final size:12
Alignment explanation
Indices: 14120861--14121027 Score: 60
Period size: 12 Copynumber: 13.9 Consensus size: 12
14120851 GCGAGAAAAG
14120861 GAAAAAGAAATT
1 GAAAAAGAAATT
14120873 GAAAAAGAAATT
1 GAAAAAGAAATT
*
14120885 G--AAAGAAA-A
1 GAAAAAGAAATT
* **
14120894 CAAAAAGAAAAC
1 GAAAAAGAAATT
**
14120906 GAAAAAGAAAAA
1 GAAAAAGAAATT
** *
14120918 GAAATTGCAAA-A
1 GAAAAAG-AAATT
*
14120930 GAAAAAGAAATC
1 GAAAAAGAAATT
* *
14120942 GAAAAGTGAGA--
1 GAAAA-AGAAATT
*
14120953 GAAAAAGAAAAT
1 GAAAAAGAAATT
14120965 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
**
14120980 GAAAAAGAAAAA
1 GAAAAAGAAATT
14120992 GCAAAAAAGAAATT
1 G--AAAAAGAAATT
* **
14121006 GAAAGAGAGCTT
1 GAAAAAGAAATT
14121018 G-AAAAGAAAT
1 GAAAAAGAAAT
14121028 CAAGTGAAAA
Statistics
Matches: 117, Mismatches: 25, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
10 10 0.09
11 21 0.18
12 53 0.45
13 12 0.10
14 16 0.14
15 5 0.04
ACGTcount: A:0.68, C:0.04, G:0.19, T:0.10
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:14120882 original size:18 final size:18
Alignment explanation
Indices: 14120855--14120992 Score: 95
Period size: 18 Copynumber: 7.7 Consensus size: 18
14120845 CATTGAGCGA
*
14120855 GAAAAGGAAAAAGAAATT
1 GAAAAAGAAAAAGAAATT
**
14120873 GAAAAAGAAATTGAAA--
1 GAAAAAGAAAAAGAAATT
* **
14120889 G-AAAACAAAAAGAAAAC
1 GAAAAAGAAAAAGAAATT
14120906 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAAGAAATT
* *
14120924 GCAAAAGAAAAAGAAATC
1 GAAAAAGAAAAAGAAATT
** * **
14120942 G-AAAAGTGAGAGAAAAA
1 GAAAAAGAAAAAGAAATT
*
14120959 GAAAATGAAGAAAAGAAAATT
1 GAAAAAG-A-AAAAG-AAATT
14120980 GAAAAAGAAAAAG
1 GAAAAAGAAAAAG
14120993 CAAAAAAGAA
Statistics
Matches: 90, Mismatches: 23, Indels: 13
0.71 0.18 0.10
Matches are distributed among these distances:
15 11 0.12
16 1 0.01
17 13 0.14
18 47 0.52
19 5 0.06
20 4 0.04
21 9 0.10
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.08
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATT
Found at i:14120974 original size:14 final size:13
Alignment explanation
Indices: 14120954--14121009 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
14120944 AAAGTGAGAG
14120954 AAAAAGAAAATGA
1 AAAAAGAAAATGA
14120967 AGAAAAGAAAATTG-
1 A-AAAAGAAAA-TGA
*
14120981 AAAAAGAAAAAGCA
1 AAAAAGAAAATG-A
*
14120995 AAAAAGAAATTGA
1 AAAAAGAAAATGA
14121008 AA
1 AA
14121010 GAGAGCTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.03
13 13 0.36
14 20 0.56
15 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (13 bp):
AAAAAGAAAATGA
Found at i:14120989 original size:27 final size:26
Alignment explanation
Indices: 14120953--14121009 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
14120943 AAAAGTGAGA
*
14120953 GAAAAAGAAAATG-AAGAAAAGAAAATT
1 GAAAAAGAAAAAGCAA-AAAAG-AAATT
14120980 GAAAAAGAAAAAGCAAAAAAGAAATT
1 GAAAAAGAAAAAGCAAAAAAGAAATT
14121006 GAAA
1 GAAA
14121010 GAGAGCTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.32
27 17 0.61
28 2 0.07
ACGTcount: A:0.72, C:0.02, G:0.18, T:0.09
Consensus pattern (26 bp):
GAAAAAGAAAAAGCAAAAAAGAAATT
Found at i:14121067 original size:33 final size:33
Alignment explanation
Indices: 14121006--14121068 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
14120996 AAAAGAAATT
14121006 GAAAGAGAGCTTGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGCTTGAAAAGAAATCAAGTGAAAAA
*
14121039 GAAAGAGAG-TCTGTAAAAGAAA-CGAGTGAA
1 GAAAGAGAGCT-TG-AAAAGAAATCAAGTGAA
14121069 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
33 18 0.67
34 8 0.30
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGCTTGAAAAGAAATCAAGTGAAAAA
Found at i:14124411 original size:15 final size:15
Alignment explanation
Indices: 14124379--14124412 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14124369 GTTCAACGAA
*
14124379 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
14124394 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
14124409 GAGG
1 GAGG
14124413 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:14133600 original size:24 final size:24
Alignment explanation
Indices: 14133588--14133679 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
14133578 TTGACATTCC
14133588 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
14133612 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * *
14133636 AATTCACACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
14133660 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
14133680 AAATCATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:14133625 original size:48 final size:48
Alignment explanation
Indices: 14133543--14133676 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
14133533 CCATGTTAAC
* ** * * * * *
14133543 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
* *
14133591 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
* * *
14133639 TCACACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTG
14133677 CCAAAATCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
Found at i:14133643 original size:72 final size:72
Alignment explanation
Indices: 14133543--14133679 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
14133533 CCATGTTAAC
* ** * * *
14133543 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
14133608 TACAAAT
66 TACAAAT
* *
14133615 CCGCACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
14133680 AAATCATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:14134879 original size:17 final size:17
Alignment explanation
Indices: 14134857--14134890 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14134847 CCCCACTTAA
*
14134857 TATATTATAACTTATTT
1 TATATTATAACATATTT
14134874 TATATTATAACATATTT
1 TATATTATAACATATTT
14134891 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:14137541 original size:26 final size:27
Alignment explanation
Indices: 14137512--14137571 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
14137502 CCACATATAT
*
14137512 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
14137538 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
14137565 ATATCTG
1 ATATCTG
14137572 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:14141014 original size:10 final size:10
Alignment explanation
Indices: 14140999--14141037 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
14140989 AACTCCGACC
14140999 AGCTCAATTG
1 AGCTCAATTG
* *
14141009 AGCTCATTTC
1 AGCTCAATTG
*
14141019 AGCTCAATCG
1 AGCTCAATTG
14141029 AGCTCAATT
1 AGCTCAATT
14141038 TAGCAACAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:14141021 original size:20 final size:20
Alignment explanation
Indices: 14140998--14141058 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
14140988 CAACTCCGAC
14140998 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
14141018 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
* *
14141039 -AGCAACAATTCAGCTCATTT
1 CAGC-TCAATTGAGCTCATTT
14141059 ATTTTATTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 22 0.63
21 13 0.37
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:14142435 original size:10 final size:11
Alignment explanation
Indices: 14142413--14142437 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14142403 AAAAAAATCG
14142413 AAATTCAAAAA
1 AAATTCAAAAA
14142424 AAATTCAAAAA
1 AAATTCAAAAA
14142435 AAA
1 AAA
14142438 AGTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:14142461 original size:28 final size:28
Alignment explanation
Indices: 14142430--14142510 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 28
14142420 AAAAAAATTC
*
14142430 AAAAAAAAAGTGAAAAAAA-TCGAGCAAA
1 AAAAAAAAAGTAAAAAAAAGT-GAGCAAA
14142458 AAAAAAGAAAG-AAAAAAAAGTGAGCAAA
1 AAAAAA-AAAGTAAAAAAAAGTGAGCAAA
**
14142486 AAAAATCAAGTTAAAAAAAAAGTGA
1 AAAAAAAAAG-T-AAAAAAAAGTGA
14142511 AAAGTCTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
27 3 0.07
28 25 0.56
29 5 0.11
30 12 0.27
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.09
Consensus pattern (28 bp):
AAAAAAAAAGTAAAAAAAAGTGAGCAAA
Found at i:14143409 original size:18 final size:18
Alignment explanation
Indices: 14143388--14143422 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14143378 AGAAAAGAAA
14143388 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
14143406 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
14143423 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Done.