Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 39 of 313
Found at i:13211215 original size:44 final size:42
Alignment explanation
Indices: 13211141--13211240 Score: 114
Period size: 45 Copynumber: 2.4 Consensus size: 42
13211131 TCTCTAATTA
* **
13211141 ATTTAAATTAAATAAGAGATAAATAATAAATTTTTATATTATCAT
1 ATTTAAATTAATTAAGAGATAAATAATAAATGATTAT-TT-T-AT
* *
13211186 ATTTAAATTAATTAAGTGAT-AATATTAAATGATTATTTTAT
1 ATTTAAATTAATTAAGAGATAAATAATAAATGATTATTTTAT
13211227 ATTT-AATTAATTAA
1 ATTTAAATTAATTAA
13211241 AGTAATATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 10 0.20
41 6 0.12
42 1 0.02
43 2 0.04
44 13 0.26
45 18 0.36
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (42 bp):
ATTTAAATTAATTAAGAGATAAATAATAAATGATTATTTTAT
Found at i:13226288 original size:19 final size:19
Alignment explanation
Indices: 13226273--13226310 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13226263 AAGAAATTTC
13226273 AAAAATAAAACTAAATAAT
1 AAAAATAAAACTAAATAAT
13226292 AAAAATAAAACTAAATAAT
1 AAAAATAAAACTAAATAAT
13226311 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAATAAAACTAAATAAT
Found at i:13235371 original size:9 final size:8
Alignment explanation
Indices: 13235356--13235393 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
13235346 AGATACAATA
13235356 TTTTTATT
1 TTTTTATT
13235364 TCTTTTA-T
1 T-TTTTATT
*
13235372 TTTTAATT
1 TTTTTATT
13235380 TTTTTATT
1 TTTTTATT
13235388 TTTTTA
1 TTTTTA
13235394 ATTTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 17 0.65
9 5 0.19
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:13235374 original size:15 final size:15
Alignment explanation
Indices: 13235354--13235390 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
13235344 ATAGATACAA
13235354 TATTTTT-ATTTCTTT
1 TATTTTTAATTT-TTT
13235369 TATTTTTAATTTTTT
1 TATTTTTAATTTTTT
13235384 TATTTTT
1 TATTTTT
13235391 TTAATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTAATTTTTT
Found at i:13243665 original size:42 final size:43
Alignment explanation
Indices: 13243553--13243718 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 43
13243543 AGAACATAAA
* * * *
13243553 CAATGCCGACGTCCCAGACGTGGTCTTACATGTAATCAAACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACAT
* * * * *
13243596 CAATGCCACTATCCCAGACAAGGTCTTACATGAAATCAGATA-
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACAT
* * * *
13243638 CGATGTCAATGTCCCAGACATGGTCTTACACAT-AAAACATAA-GT
1 CAATGCCAATGTCCCAGACATGGTCTT--ACATGAAATCA-AACAT
* * * *
13243682 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
1 CAATGCCAATGTCCCAGACATGGTCTTACATGAAATC
13243719 CTATGACATG
Statistics
Matches: 96, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 25 0.26
43 42 0.44
44 29 0.30
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAACAT
Found at i:13244005 original size:20 final size:20
Alignment explanation
Indices: 13243976--13244023 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
13243966 TTCTTTAATT
*
13243976 ATTTATCTAAATAAATTCAA
1 ATTTAACTAAATAAATTCAA
*
13243996 ATTTAACTAAATAAATTTAA
1 ATTTAACTAAATAAATTCAA
13244016 ATTTAACT
1 ATTTAACT
13244024 TATTCAGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTTAACTAAATAAATTCAA
Found at i:13249403 original size:35 final size:35
Alignment explanation
Indices: 13249364--13249432 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
13249354 ATTTTCAGGC
* * *
13249364 AAAGTAATAGTATCTTAAAGTTGTGTATCTTTCCT
1 AAAGTAAGAATATCTTAAAGTTGTATATCTTTCCT
13249399 AAAGTAAGAATATCTTAAAGTTGTATATCTTTCC
1 AAAGTAAGAATATCTTAAAGTTGTATATCTTTCC
13249433 CTATTTGTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (35 bp):
AAAGTAAGAATATCTTAAAGTTGTATATCTTTCCT
Found at i:13249979 original size:57 final size:58
Alignment explanation
Indices: 13249896--13250005 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
13249886 ACAATATAAA
* * * *
13249896 TTCATTTTAGAGAAAGCCACATTCATTTTCAAATGATTC-TATTTCTTCATTTTCATT
1 TTCATTTTAGAGAAAACCACAATCATTTTCAAATGATTCACATTTCTCCATTTTCATT
* * *
13249953 TTCATTTTAGGGAAAACCATAATCATTTTCAAATGTTTCACATTTCTCCATTT
1 TTCATTTTAGAGAAAACCACAATCATTTTCAAATGATTCACATTTCTCCATTT
13250006 CTATCAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 34 0.76
58 11 0.24
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.45
Consensus pattern (58 bp):
TTCATTTTAGAGAAAACCACAATCATTTTCAAATGATTCACATTTCTCCATTTTCATT
Found at i:13262686 original size:75 final size:75
Alignment explanation
Indices: 13262596--13262787 Score: 217
Period size: 75 Copynumber: 2.6 Consensus size: 75
13262586 ACCATTATTC
* * * *
13262596 ATGTACCACGATCTGCCAGTTCAAT-GCACT-TTGCATCGAAGGAAACGTCATGAATTCATTGTA
1 ATGTACCACAATCTGCCAGTTCAATAG-A-TATTGCATCAAAGGAAACATCATGAATTCATTATA
13262659 GAGTCATGTTTT
64 GAGTCATGTTTT
* *
13262671 ATGTACCACAATCTGCCAGTTCAATAGATATTTCATCAAAGGCAACATCATGAATTCATTATAGA
1 ATGTACCACAATCTGCCAGTTCAATAGATATTGCATCAAAGGAAACATCATGAATTCATTATAGA
*
13262736 GTCATGTTTC
66 GTCATGTTTT
* * * * * * * *
13262746 ATATGCCTCGATCTGCTAATTCAATGGATATTCCATCAAAGG
1 ATGTACCACAATCTGCCAGTTCAATAGATATTGCATCAAAGG
13262788 CAGTGCCATG
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.01
75 98 0.98
76 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (75 bp):
ATGTACCACAATCTGCCAGTTCAATAGATATTGCATCAAAGGAAACATCATGAATTCATTATAGA
GTCATGTTTT
Found at i:13262918 original size:35 final size:35
Alignment explanation
Indices: 13262872--13262947 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
13262862 CAGAGTAAGG
13262872 TTCTTCATCACTTTCACAAACATGCAAGACTAGAC
1 TTCTTCATCACTTTCACAAACATGCAAGACTAGAC
13262907 TTCTTCATCACTTTCACAAACATGCAAGACTAGAC
1 TTCTTCATCACTTTCACAAACATGCAAGACTAGAC
13262942 TT-TTCA
1 TTCTTCA
13262948 CCGAACAGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.32
Consensus pattern (35 bp):
TTCTTCATCACTTTCACAAACATGCAAGACTAGAC
Found at i:13266211 original size:20 final size:20
Alignment explanation
Indices: 13266186--13266223 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13266176 ACTCGGAAGT
13266186 AGACTTGTGATCTTCAATCG
1 AGACTTGTGATCTTCAATCG
13266206 AGACTTGTGATCTTCAAT
1 AGACTTGTGATCTTCAAT
13266224 TGAACTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
AGACTTGTGATCTTCAATCG
Found at i:13270685 original size:20 final size:19
Alignment explanation
Indices: 13270644--13270687 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13270634 ATATATCTAA
* * *
13270644 ATTACAAATAAAATTAATT
1 ATTATAAATAAAAATAAAT
13270663 ATTATAAATAAAAATAGAAT
1 ATTATAAATAAAAATA-AAT
13270683 ATTAT
1 ATTAT
13270688 TTAAACTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTATAAATAAAAATAAAT
Found at i:13270906 original size:41 final size:41
Alignment explanation
Indices: 13270849--13270931 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
13270839 AGATGAGATA
13270849 AAAGCGTTGCTTTTTTTTTTTTTTATATCGGATATAAACGC
1 AAAGCGTTGCTTTTTTTTTTTTTTATATCGGATATAAACGC
*
13270890 AAAGCGTTTCTTTTTTTTTTTTTTATATCGGATATAAACGC
1 AAAGCGTTGCTTTTTTTTTTTTTTATATCGGATATAAACGC
13270931 A
1 A
13270932 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.49
Consensus pattern (41 bp):
AAAGCGTTGCTTTTTTTTTTTTTTATATCGGATATAAACGC
Found at i:13271907 original size:25 final size:25
Alignment explanation
Indices: 13271879--13271929 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13271869 AATCAAGATA
*
13271879 AATTAATCTACTTTACTATCTAGCT
1 AATTAATCTACTTTACCATCTAGCT
13271904 AATTAATCTACTTTACCATCTAGCT
1 AATTAATCTACTTTACCATCTAGCT
13271929 A
1 A
13271930 GCAGGGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTAATCTACTTTACCATCTAGCT
Found at i:13276556 original size:13 final size:12
Alignment explanation
Indices: 13276536--13276573 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
13276526 TTATACAAGT
13276536 TTGAAAAAAAAA
1 TTGAAAAAAAAA
13276548 TTCGAAAAAAAAAA
1 TT-G-AAAAAAAAA
13276562 TTGAAAAAAAAA
1 TTGAAAAAAAAA
13276574 GTGATTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.46
13 2 0.08
14 11 0.46
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.16
Consensus pattern (12 bp):
TTGAAAAAAAAA
Found at i:13276558 original size:14 final size:13
Alignment explanation
Indices: 13276539--13276573 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
13276529 TACAAGTTTG
13276539 AAAAAAAAATTCGA
1 AAAAAAAAATT-GA
13276553 AAAAAAAAATTGA
1 AAAAAAAAATTGA
13276566 AAAAAAAA
1 AAAAAAAA
13276574 GTGATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.80, C:0.03, G:0.06, T:0.11
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:13285312 original size:148 final size:148
Alignment explanation
Indices: 13285044--13285339 Score: 448
Period size: 148 Copynumber: 2.0 Consensus size: 148
13285034 TATTATCAGG
* * *
13285044 CTTCAATTCTCACGACTGTTGTGACATGCGGAGCTTCCTTCAACCTTATCATCTGCTTCTTCAGA
1 CTTCAATTCTCACGACTATTGCGACATGCAGAGCTTCCTTCAACCTTATCATCTGCTTCTTCAGA
* * * *
13285109 GCAACTGAAGAAAATGATGATATGGAAAGAGTAAGAATCGTTAAAAGAATTAAGAAAATTATGTC
66 GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
* *
13285174 TTCACACATACCTATATA
131 TTCACACACACCAATATA
* * *
13285192 CTTCAATTCTCACGATTATTGCGACATGCAGAGCTTCCTTCAACCTTATCCTCTTCTTCTTCAGA
1 CTTCAATTCTCACGACTATTGCGACATGCAGAGCTTCCTTCAACCTTATCATCTGCTTCTTCAGA
* * * *
13285257 GCAACTAAAGAAAATGATGTTATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAATTTTTTTC
66 GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
13285322 TTCACACACACCAATATA
131 TTCACACACACCAATATA
13285340 TATACTCCCT
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 132 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (148 bp):
CTTCAATTCTCACGACTATTGCGACATGCAGAGCTTCCTTCAACCTTATCATCTGCTTCTTCAGA
GCAACTAAAGAAAATGATGATATGGAAAGAATAAAAATCGTAAAAAGAATTAAGAAAATTATGTC
TTCACACACACCAATATA
Found at i:13287354 original size:43 final size:44
Alignment explanation
Indices: 13287306--13287458 Score: 168
Period size: 43 Copynumber: 3.5 Consensus size: 44
13287296 TATCGAGATG
*
13287306 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* * *
13287349 TGATTACGTGTAAGACCATGTTTGGGATATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* * * * * * *
13287392 TGATTTCGTGTAAGACCCTGTCTGGCACAGTGGCACCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* *
13287435 TGATAACATGTAAGACCATATCTG
1 TGATTACATGTAAGACCATGTCTG
13287459 AGATATGGCA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 90 0.99
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
Found at i:13297444 original size:40 final size:40
Alignment explanation
Indices: 13297384--13297567 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
13297374 TATTCGAATG
*
13297384 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
13297424 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
13297464 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
13297504 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
13297544 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
13297568 CTTGTGTGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:13297517 original size:80 final size:80
Alignment explanation
Indices: 13297384--13297567 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
13297374 TATTCGAATG
* * *
13297384 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
13297448 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
13297464 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
13297529 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
13297544 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
13297568 CTTGTGTGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 89 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:13308123 original size:47 final size:47
Alignment explanation
Indices: 13308032--13308178 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
13308022 ATTTTGTTAC
13308032 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
13308081 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
* * * * *
13308128 GATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
13308175 GATG
1 GATG
13308179 GAAGTGGAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
47 73 0.78
49 20 0.22
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGT
Found at i:13310020 original size:39 final size:40
Alignment explanation
Indices: 13309960--13310099 Score: 189
Period size: 39 Copynumber: 3.5 Consensus size: 40
13309950 TAATGGAGAA
*
13309960 TTATATACGGGC-TAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
*
13309999 TTATATCCGGG-TTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
13310038 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTA
1 TTATATCCGGGCTTAAGTCCCG-AAGGCATTCGTGCTGGTG
13310077 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGCTT-AAGTCCCG
13310100 CATGCTTTGT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
39 70 0.78
40 18 0.20
41 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (40 bp):
TTATATCCGGGCTTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:13314061 original size:18 final size:18
Alignment explanation
Indices: 13314039--13314116 Score: 86
Period size: 18 Copynumber: 4.3 Consensus size: 18
13314029 TGCGACTAAG
*
13314039 GAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCAGGTGAA
* *
13314057 TAAGAAGATGC-GACTGAA
1 GAAGAAGATGCAG-GTGAA
* *
13314075 GAAGAAGATGTAGGTGAG
1 GAAGAAGATGCAGGTGAA
*
13314093 GAAGAAGATGCAGGTGAG
1 GAAGAAGATGCAGGTGAA
13314111 GAAGAA
1 GAAGAA
13314117 AATTCAGTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
17 1 0.02
18 48 0.96
19 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.38, T:0.14
Consensus pattern (18 bp):
GAAGAAGATGCAGGTGAA
Found at i:13314069 original size:36 final size:36
Alignment explanation
Indices: 13314021--13314103 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
13314011 CACAGATGAG
* *
13314021 GAAGAATATGCGACT-AAGGAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCGACTGAA-GAAGAAGATGCAGGTGAA
* * *
13314057 TAAGAAGATGCGACTGAAGAAGAAGATGTAGGTGAG
1 GAAGAAGATGCGACTGAAGAAGAAGATGCAGGTGAA
13314093 GAAGAAGATGC
1 GAAGAAGATGC
13314104 AGGTGAGGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.35, T:0.16
Consensus pattern (36 bp):
GAAGAAGATGCGACTGAAGAAGAAGATGCAGGTGAA
Found at i:13314115 original size:36 final size:36
Alignment explanation
Indices: 13314021--13314116 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 36
13314011 CACAGATGAG
* * *
13314021 GAAGAATATGCGACTAAGGAAGAAGTTGCAGGTGAA
1 GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
* * * *
13314057 TAAGAAGATGCGACTGAAGAAGAAGATGTAGGTGAG
1 GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
*
13314093 GAAGAAGATGC-AGGTGAGGAAGAA
1 GAAGAAGATGCGA-CTGAGGAAGAA
13314117 AATTCAGTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.43, C:0.06, G:0.36, T:0.15
Consensus pattern (36 bp):
GAAGAAGATGCGACTGAGGAAGAAGATGCAGGTGAA
Found at i:13316003 original size:48 final size:48
Alignment explanation
Indices: 13315931--13316543 Score: 620
Period size: 48 Copynumber: 12.8 Consensus size: 48
13315921 AAAGGGTAAG
* * *
13315931 ATGCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAAA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * *
13315979 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-ATATTT
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATAATA
* * * * *
13316027 AGGCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTTTCGTAACA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * * * * *
13316075 ATACCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
13316123 AGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
** * * * * * *
13316171 ATATCGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATATTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
13316219 AGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
** * ** * *
13316267 ATATCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATTG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
* * * *
13316315 AGGCCGATGACATCTCCCAAAACATGGTCTTACACTAGCTCTCATAACA
1 ATGCCGATGCCATGTCCC-AAACATGGTCTTACACTAGCTCTCATAATA
* * * * *
13316364 ATGCTGATGCCATGTCTCAAACATGGTCTTACACTGGCTCAT-GTATTA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATAATA
* * *
13316412 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
** * * * *
13316460 ATATCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCAT-GTATTA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCATAATA
* *
13316508 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTA
13316544 TGTAACATCC
Statistics
Matches: 448, Mismatches: 111, Indels: 12
0.78 0.19 0.02
Matches are distributed among these distances:
47 2 0.00
48 405 0.90
49 41 0.09
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATA
Found at i:13316097 original size:96 final size:96
Alignment explanation
Indices: 13315933--13316543 Score: 909
Period size: 96 Copynumber: 6.4 Consensus size: 96
13315923 AGGGTAAGAT
* * * * *
13315933 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAAAATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
*
13315998 AACATGGTCTTACACTGGCTCATATATTTAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* * * *
13316029 GCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTTTCGTAACAATACCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
* *
13316094 AACATGGTCTTACATTGGCTCACATATTGAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* *
13316125 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATATCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
* *
13316190 AACATGGTCTTACATTGGCTCACATATTGAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* *
13316221 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATATCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
* *
13316286 AACATGGTCTTACACTAGCTCAAATATTGAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
* * * * * * *
13316317 GCCGATGACATCTCCCAAAACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATG-TCT
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTC-
* *
13316381 CAAACATGGTCTTACACTGGCTCATGTATTAAG
64 CAAACATGGTCTTACACTGGCTCATATATTGAG
*
13316414 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATATCGATGCCATGTTCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
* *
13316479 AACATGGTCTTACACTGGCTCATGTATTAAG
66 AACATGGTCTTACACTGGCTCATATATTGAG
13316510 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTA
13316544 TGTAACATCC
Statistics
Matches: 471, Mismatches: 41, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
96 388 0.82
97 83 0.18
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTAATAATACCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCATATATTGAG
Found at i:13320396 original size:56 final size:55
Alignment explanation
Indices: 13320329--13320445 Score: 162
Period size: 56 Copynumber: 2.1 Consensus size: 55
13320319 AATAGTCCCC
* *
13320329 TCATTAGCTAGATTAAGCTATAAAGGTTCCAAAAGCACAAAAATCAACAAAAATGA
1 TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACAC-AAAATCAACAAAAATGA
* * * *
13320385 TCATCAGCTAGATTAAGCTATAAGGGTTTCAAAAACTCAAAATTAACAAAAATGA
1 TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACACAAAATCAACAAAAATGA
*
13320440 CCATCA
1 TCATCA
13320446 AAATCACTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 21 0.39
56 33 0.61
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (55 bp):
TCATCAGCTAGATTAAGCTATAAAGGTTCCAAAAACACAAAATCAACAAAAATGA
Found at i:13321714 original size:13 final size:13
Alignment explanation
Indices: 13321696--13321740 Score: 81
Period size: 13 Copynumber: 3.4 Consensus size: 13
13321686 AATTTATGAA
13321696 AAATGTGTTCTGT
1 AAATGTGTTCTGT
13321709 AAATGTGTTCTGT
1 AAATGTGTTCTGT
13321722 AAAATGTGTTCTGT
1 -AAATGTGTTCTGT
13321736 AAATG
1 AAATG
13321741 CTTGAGATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 18 0.58
14 13 0.42
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (13 bp):
AAATGTGTTCTGT
Found at i:13321728 original size:14 final size:14
Alignment explanation
Indices: 13321695--13321738 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
13321685 AAATTTATGA
13321695 AAAATGTGTTCTGT
1 AAAATGTGTTCTGT
13321709 -AAATGTGTTCTGT
1 AAAATGTGTTCTGT
13321722 AAAATGTGTTCTGT
1 AAAATGTGTTCTGT
13321736 AAA
1 AAA
13321739 TGCTTGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (14 bp):
AAAATGTGTTCTGT
Found at i:13331685 original size:20 final size:20
Alignment explanation
Indices: 13331645--13331686 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13331635 TATGAAAGAC
*
13331645 AAAAAAATTATTTTAATCTT
1 AAAAAAATTAATTTAATCTT
13331665 AAAAAAATTAAATTTAA-CTT
1 AAAAAAATT-AATTTAATCTT
13331685 AA
1 AA
13331687 TTGAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAAATTAATTTAATCTT
Found at i:13335301 original size:11 final size:10
Alignment explanation
Indices: 13335280--13335323 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
13335270 AACTATTATT
*
13335280 TTTTTTACTA
1 TTTTTTGCTA
13335290 TTTTATTGCTA
1 TTTT-TTGCTA
*
13335301 TTTTTTACT-
1 TTTTTTGCTA
13335310 TTTTTTGCTA
1 TTTTTTGCTA
13335320 TTTT
1 TTTT
13335324 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (10 bp):
TTTTTTGCTA
Found at i:13335332 original size:20 final size:19
Alignment explanation
Indices: 13335280--13335334 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
13335270 AACTATTATT
13335280 TTTTTTACTATTTTATTGCTA
1 TTTTTTACT-TTTT-TTGCTA
13335301 TTTTTTACTTTTTTTGCTA
1 TTTTTTACTTTTTTTGCTA
13335320 TTTTATTA-TTTTTTT
1 TTTT-TTACTTTTTTT
13335335 CACTATTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.52
20 7 0.21
21 9 0.27
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTTACTTTTTTTGCTA
Found at i:13335340 original size:20 final size:19
Alignment explanation
Indices: 13335280--13335343 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
13335270 AACTATTATT
*
13335280 TTTTTTACTATTTTATTGCTA
1 TTTTTTACT-TTTT-TTACTA
*
13335301 TTTTTTACTTTTTTTGCTA
1 TTTTTTACTTTTTTTACTA
13335320 TTTTATTA-TTTTTTTCACTA
1 TTTT-TTACTTTTTTT-ACTA
13335340 TTTT
1 TTTT
13335344 GCTACCATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
19 17 0.43
20 14 0.35
21 9 0.22
ACGTcount: A:0.16, C:0.09, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTTACTTTTTTTACTA
Found at i:13335688 original size:15 final size:15
Alignment explanation
Indices: 13335668--13335697 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13335658 AGTTGAACCT
13335668 GAACATGTAGACCCC
1 GAACATGTAGACCCC
13335683 GAACATGTAGACCCC
1 GAACATGTAGACCCC
13335698 TAATGATATC
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:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
GAACATGTAGACCCC
Found at i:13337521 original size:18 final size:20
Alignment explanation
Indices: 13337500--13337540 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
13337490 TAATAGTTTA
13337500 AAATTA-AATAATTATT-TT
1 AAATTATAATAATTATTCTT
*
13337518 AAA-TATAATTATTATTCTT
1 AAATTATAATAATTATTCTT
13337537 AAAT
1 AAAT
13337541 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATAATAATTATTCTT
Found at i:13337763 original size:17 final size:17
Alignment explanation
Indices: 13337741--13337791 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
13337731 TGTACACACG
13337741 ATATAGGTAAAAAATAA
1 ATATAGGTAAAAAATAA
* *
13337758 ATATAGGCGTAAAAATTAT
1 ATATA-G-GTAAAAAATAA
*
13337777 ATATAAG-AAAAAATA
1 ATATAGGTAAAAAATA
13337792 TATCAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 1 0.04
19 14 0.50
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (17 bp):
ATATAGGTAAAAAATAA
Found at i:13337887 original size:19 final size:19
Alignment explanation
Indices: 13337856--13337893 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13337846 ATATATATCG
13337856 AAAATATATTTTTCATTAT
1 AAAATATATTTTTCATTAT
13337875 AAAATTATATTTTT-ATTAT
1 AAAA-TATATTTTTCATTAT
13337894 TCTATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAATATATTTTTCATTAT
Found at i:13337920 original size:21 final size:19
Alignment explanation
Indices: 13337896--13337935 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
13337886 TTTATTATTC
13337896 TATTAATATAAATAAAGAATT
1 TATTAAT-TAAA-AAAGAATT
*
13337917 TATTAATTAAAAATGAATT
1 TATTAATTAAAAAAGAATT
13337936 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TATTAATTAAAAAAGAATT
Found at i:13339847 original size:7 final size:7
Alignment explanation
Indices: 13339837--13339871 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
13339827 TATTTTTTAA
13339837 TATATTG
1 TATATTG
13339844 TATATTG
1 TATATTG
*
13339851 TATATTT
1 TATATTG
13339858 TAATATTG
1 T-ATATTG
13339866 TATATT
1 TATATT
13339872 TTTATATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (7 bp):
TATATTG
Found at i:13339865 original size:15 final size:15
Alignment explanation
Indices: 13339845--13339878 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
13339835 AATATATTGT
13339845 ATATTGTATATTTTA
1 ATATTGTATATTTTA
*
13339860 ATATTGTATATTTTT
1 ATATTGTATATTTTA
13339875 ATAT
1 ATAT
13339879 GTGCATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
ATATTGTATATTTTA
Found at i:13339866 original size:22 final size:21
Alignment explanation
Indices: 13339803--13339872 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 21
13339793 GCAAATATTA
*
13339803 TTATATTTTTATATGTGTAATAT
1 TTATATTTTAATAT-TGT-ATAT
*
13339826 TTATTTTTTAATATATTGTATAT
1 TTATATTTT-A-ATATTGTATAT
13339849 TGTATATTTTAATATTGTATAT
1 T-TATATTTTAATATTGTATAT
13339871 TT
1 TT
13339873 TTATATGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.02
22 12 0.29
23 14 0.34
24 10 0.24
25 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTATATTTTAATATTGTATAT
Found at i:13340153 original size:21 final size:18
Alignment explanation
Indices: 13340116--13340154 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
13340106 GTTGATGTTT
13340116 TTTAAAAAATAAAATATA
1 TTTAAAAAATAAAATATA
13340134 TTTAAAATAATGATAAATATA
1 TTTAAAA-AAT-A-AAATATA
13340155 ATAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 1 0.06
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTTAAAAAATAAAATATA
Found at i:13340175 original size:20 final size:20
Alignment explanation
Indices: 13340155--13340195 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
13340145 GATAAATATA
13340155 ATAA-TATT-TTTTA-TTAT
1 ATAATTATTATTTTATTTAT
13340172 ATAATTATTATTTTATTTAT
1 ATAATTATTATTTTATTTAT
13340192 ATAA
1 ATAA
13340196 ATAAAGGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 5 0.24
20 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATAATTATTATTTTATTTAT
Found at i:13340803 original size:19 final size:19
Alignment explanation
Indices: 13340773--13340823 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13340763 TTATAAATAA
13340773 ATAAATAAAATTCA-AGAAAT
1 ATAAA-AAAATT-AGAGAAAT
*
13340793 ATAAAAAAATTAGAGAATT
1 ATAAAAAAATTAGAGAAAT
*
13340812 ATAAAAACATTA
1 ATAAAAAAATTA
13340824 ATCAAAGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 22 0.79
20 5 0.18
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (19 bp):
ATAAAAAAATTAGAGAAAT
Found at i:13343210 original size:16 final size:16
Alignment explanation
Indices: 13343189--13343256 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
13343179 TTTGGTTCGC
13343189 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13343205 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13343221 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13343237 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
13343253 TGTA
1 TGTA
13343257 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13343296 original size:45 final size:41
Alignment explanation
Indices: 13343237--13343346 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
13343227 GGATTAGAGG
*
13343237 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
13343279 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
13343322 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
13343347 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:13343509 original size:16 final size:16
Alignment explanation
Indices: 13343472--13343513 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13343462 TTAATCATAT
*
13343472 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
13343488 TT-AAATATATTATAA
1 TTAAAATATATTATAA
13343503 TTAAAATATAT
1 TTAAAATATAT
13343514 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:13343520 original size:14 final size:15
Alignment explanation
Indices: 13343481--13343522 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13343471 TTTAAACATA
*
13343481 ATTATTATTAAATAT
1 ATTATAATTAAATAT
13343496 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
13343510 A-TATAATTTAATA
1 ATTATAATTAAATA
13343523 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:13343614 original size:120 final size:121
Alignment explanation
Indices: 13343470--13343738 Score: 456
Period size: 120 Copynumber: 2.2 Consensus size: 121
13343460 ATTTAATCAT
13343470 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
13343535 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATG-TA
13343591 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
13343655 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
* *
13343711 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
13343739 ATGTTGACAA
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 131 0.92
121 7 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
Found at i:13343631 original size:16 final size:16
Alignment explanation
Indices: 13343588--13343633 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
13343578 ACTATAAAAG
*
13343588 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
13343604 ATTATT-AAATATATT
1 ATAATTAAAATATATT
13343619 ATAATTAAAATATAT
1 ATAATTAAAATATAT
13343634 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:13343640 original size:14 final size:15
Alignment explanation
Indices: 13343588--13343642 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
13343578 ACTATAAAAG
13343588 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
13343604 ATTATTAAATATATT
1 ATAATTAAATATATT
13343619 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
13343632 ATAATTTAATA
1 ATAATTAAATA
13343643 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:13343705 original size:61 final size:61
Alignment explanation
Indices: 13343520--13343707 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
13343510 ATATAATTTA
* * *
13343520 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
13343581 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
13343639 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
13343701 ATAAAAT
1 ATAAAAT
13343708 GTAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:13347160 original size:8 final size:8
Alignment explanation
Indices: 13347143--13347177 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
13347133 TTTGATTATG
13347143 ATTTTT-A
1 ATTTTTAA
13347150 ATTTTTAA
1 ATTTTTAA
13347158 ATTTTTATA
1 ATTTTTA-A
13347167 ATTTTTAA
1 ATTTTTAA
13347175 ATT
1 ATT
13347178 ATTTCTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTTAA
Found at i:13347170 original size:17 final size:16
Alignment explanation
Indices: 13347144--13347177 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
13347134 TTGATTATGA
13347144 TTTTTAATTTTTAAAT
1 TTTTTAATTTTTAAAT
13347160 TTTTATAATTTTTAAAT
1 TTTT-TAATTTTTAAAT
13347177 T
1 T
13347178 ATTTCTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTTAAAT
Found at i:13365042 original size:15 final size:16
Alignment explanation
Indices: 13365003--13365046 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
13364993 TATTAATTTA
*
13365003 GAAATATAAAAAATTAT
1 GAAATA-AAAAAACTAT
13365020 GAAATAAAAAAACTAT
1 GAAATAAAAAAACTAT
*
13365036 -AATTAAAAAAA
1 GAAATAAAAAAA
13365047 GATTAAGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.40
16 9 0.36
17 6 0.24
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (16 bp):
GAAATAAAAAAACTAT
Found at i:13366963 original size:8 final size:8
Alignment explanation
Indices: 13366940--13366973 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
13366930 TAAATAATGT
13366940 TATTATTA
1 TATTATTA
13366948 TA--ATTA
1 TATTATTA
13366954 TATTATTA
1 TATTATTA
13366962 TATTATTA
1 TATTATTA
13366970 TATT
1 TATT
13366974 TATAAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:13384609 original size:58 final size:58
Alignment explanation
Indices: 13384547--13384665 Score: 222
Period size: 58 Copynumber: 2.1 Consensus size: 58
13384537 TCAAAAACTA
13384547 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAA-ATTTAGTTTTGAATTTTCTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTT-GTTTTGAATTTTCTC
13384605 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
13384663 CTT
1 CTT
13384666 TTTCAAAAAC
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 56 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.50
Consensus pattern (58 bp):
CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTC
Found at i:13384709 original size:131 final size:134
Alignment explanation
Indices: 13384475--13384820 Score: 482
Period size: 131 Copynumber: 2.5 Consensus size: 134
13384465 TTTTAGGGAT
*
13384475 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTATTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
* *
13384540 AAAACTACTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAATTTAG-TTTTGA-ATTTT-
66 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCATATTTTA
13384602 CTCC
131 CTCC
**
13384606 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
* *
13384671 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTTCATTTTCTC
66 AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCA-----T-
*
13384736 CTTTTTCAAAAACTCC
125 -ATTTT-----ACTCC
*
13384752 TTCTATGTTTATAGAAATTAAAGCTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
1 TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
13384817 AAAA
66 AAAA
13384821 ATTTGCTAGA
Statistics
Matches: 189, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
131 110 0.58
132 5 0.03
140 4 0.02
146 70 0.37
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.49
Consensus pattern (134 bp):
TTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTCA
AAAACTACTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAATTTAGTTTTTCATATTTTA
CTCC
Found at i:13384724 original size:73 final size:73
Alignment explanation
Indices: 13384605--13384820 Score: 369
Period size: 73 Copynumber: 3.0 Consensus size: 73
13384595 GAATTTTCTC
**
13384605 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAACATTTGTTTTGAATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
13384670 AAAAACTA
66 AAAAACTA
* **
13384678 CTTCTATGTTTATAAAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTTCATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
*
13384743 AAAAACTC
66 AAAAACTA
*
13384751 CTTCTATGTTTATAGAAATTAAAGCTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
1 CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
13384816 AAAAA
66 AAAAA
13384821 ATTTGCTAGA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 133 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.49
Consensus pattern (73 bp):
CTTCTATGTTTATAGAAATTAAAGTTATTTTTAACAAAGTTTTGTTTTGAATTTTCTCCTTTTTC
AAAAACTA
Found at i:13390730 original size:43 final size:44
Alignment explanation
Indices: 13390664--13390780 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 44
13390654 AGCTCGTACA
* * *
13390664 ATGCCAACGTTCC-AGACATGGTCTTACATGT-AATC-AAATATCG
1 ATGCCAACG-TCCTAGATAGGGTCTTACACGTAAATCTAAA-ATCG
*
13390707 ATGCC-ACTGTCCTAGATAGGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAAC-GTCCTAGATAGGGTCTTACACGTAAATCTAAAATCG
*
13390751 ATGCCAACGTCCTAGA-CGTGGTCTTACACG
1 ATGCCAACGTCCTAGATAG-GGTCTTACACG
13390781 ATATCACATC
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
42 5 0.08
43 22 0.35
44 32 0.51
45 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCTAGATAGGGTCTTACACGTAAATCTAAAATCG
Found at i:13400712 original size:43 final size:42
Alignment explanation
Indices: 13400665--13400763 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 42
13400655 TCCCAAACGT
* *
13400665 GGTCTTACATGTAATTAAATATTGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATA-AGATGCCACTGTCCCAGACAG
* * * * *
13400708 GGTCTTACATGAAATCATATAAGATGGCAGTGTCCCAGACAT
1 GGTCTTACATGTAATCAAATAAGATGCCACTGTCCCAGACAG
*
13400750 GGTCTTACACGTAA
1 GGTCTTACATGTAA
13400764 ATCTCAAATC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCCACTGTCCCAGACAG
Found at i:13402154 original size:42 final size:42
Alignment explanation
Indices: 13402039--13402193 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
13402029 GGGCTGGTAC
* * *
13402039 ATGCCATATCCCAGACATGGTCTTACATGTAA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATAG
* *
13402081 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
* * * *
13402124 ATGCCATATCCCAAATATGGTATTACACGAAGTCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
13402166 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
13402194 ATAGTCCTAG
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
Found at i:13405631 original size:27 final size:27
Alignment explanation
Indices: 13405601--13405833 Score: 297
Period size: 27 Copynumber: 8.6 Consensus size: 27
13405591 ATATTGAGTC
* * *
13405601 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
13405628 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
13405655 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
13405683 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
13405710 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
13405738 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
13405765 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
13405792 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
13405819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13405834 GTACAATTTA
Statistics
Matches: 183, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
27 132 0.72
28 51 0.28
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:13405693 original size:55 final size:54
Alignment explanation
Indices: 13405601--13405833 Score: 306
Period size: 55 Copynumber: 4.3 Consensus size: 54
13405591 ATATTGAGTC
* * * * *
13405601 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
*
13405655 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAAT
** * *
13405710 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAAT
* ** *
13405765 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
13405819 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13405834 GTACAATTTA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
54 60 0.38
55 99 0.62
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAAT
Found at i:13405768 original size:82 final size:82
Alignment explanation
Indices: 13405601--13405832 Score: 315
Period size: 82 Copynumber: 2.8 Consensus size: 82
13405591 ATATTGAGTC
* * * *
13405601 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAG
*
13405666 TGCTACATAGTCAAACT
66 TGCCACATAGTCAAACT
*
13405683 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAA-TCGCACACTTA
* * *
13405748 GTGCCGCATGGTC-AATT
65 GTGCCACATAGTCAAACT
* ** *
13405765 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTA
13405829 GTGC
65 GTGC
13405833 TGTACAATTT
Statistics
Matches: 135, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
81 16 0.12
82 98 0.73
83 21 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAGTCAAATCGCACACTTAG
TGCCACATAGTCAAACT
Found at i:13415575 original size:27 final size:27
Alignment explanation
Indices: 13415545--13415722 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13415535 ATATTGAGTC
* * * *
13415545 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
13415572 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13415599 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
13415627 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
13415654 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
13415681 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
13415708 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13415723 GTACAATAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:13415684 original size:82 final size:81
Alignment explanation
Indices: 13415566--13415721 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13415556 TGCTATATAA
* *
13415566 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
13415631 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
13415648 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
13415712 CACTTAGTGC
65 CACTTAGTGC
13415722 TGTACAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:13416227 original size:12 final size:12
Alignment explanation
Indices: 13416210--13416235 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13416200 ATGGCATACT
13416210 TATGTATATATA
1 TATGTATATATA
13416222 TATGTATATATA
1 TATGTATATATA
13416234 TA
1 TA
13416236 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:13424869 original size:30 final size:30
Alignment explanation
Indices: 13424835--13424895 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13424825 TTAAATTTTG
13424835 TAATTGATATTCAAGTTAAACTGAAAAACT
1 TAATTGATATTCAAGTTAAACTGAAAAACT
** * * *
13424865 TAATTTTTATTCAAGTTGATCTGAATAACT
1 TAATTGATATTCAAGTTAAACTGAAAAACT
13424895 T
1 T
13424896 GATTAACTCA
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:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (30 bp):
TAATTGATATTCAAGTTAAACTGAAAAACT
Found at i:13446712 original size:12 final size:12
Alignment explanation
Indices: 13446695--13446721 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13446685 ACACATGCCT
13446695 GTGTGCTAGGCC
1 GTGTGCTAGGCC
13446707 GTGTGCTAGGCC
1 GTGTGCTAGGCC
13446719 GTG
1 GTG
13446722 CCAAACCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:13448900 original size:39 final size:39
Alignment explanation
Indices: 13448856--13448973 Score: 200
Period size: 39 Copynumber: 3.0 Consensus size: 39
13448846 AATTATGTTA
* *
13448856 CCAGCACAAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
13448895 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
13448934 CCAGCACGAAGCCTGTGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
13448973 C
1 C
13448974 GAGTGTCTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:13452057 original size:40 final size:39
Alignment explanation
Indices: 13451967--13452151 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
13451957 TCGAATGATG
* * * *
13451967 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
13452007 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13452047 TCTGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
13452086 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
13452127 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
13452152 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13452173 original size:79 final size:79
Alignment explanation
Indices: 13452020--13452184 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
13452010 GGACTAAGAT
* * **
13452020 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
*
13452085 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
13452099 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATTGGAACGAGTTA-C
* *
13452162 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
13452178 CCGAAGG
1 CCGAAGG
13452185 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.66
80 23 0.31
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:13455888 original size:37 final size:37
Alignment explanation
Indices: 13455838--13455953 Score: 180
Period size: 37 Copynumber: 3.1 Consensus size: 37
13455828 TTATTACGAA
* * *
13455838 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
13455875 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGA-AGTCATCGG
*
13455912 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
13455949 GTCTT
1 GTCTT
13455954 TAGAGCTCGG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 1 0.01
37 72 0.99
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:13456150 original size:47 final size:47
Alignment explanation
Indices: 13456072--13457140 Score: 1971
Period size: 47 Copynumber: 22.7 Consensus size: 47
13456062 CCCTTCGGGA
* * * * * * *
13456072 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
* * *
13456119 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
*
13456166 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
*
13456213 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
*
13456260 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456307 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456354 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456401 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456448 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456495 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456542 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456589 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456636 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456683 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456730 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456777 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456824 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456871 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456918 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13456965 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
13457012 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
*
13457059 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA--AGGC
1 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
*
13457104 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACGTTCATCACAT
13457141 AGAATCCTAA
Statistics
Matches: 1008, Mismatches: 12, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
45 12 0.01
47 996 0.99
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
Found at i:13467843 original size:43 final size:43
Alignment explanation
Indices: 13467795--13468163 Score: 351
Period size: 43 Copynumber: 8.7 Consensus size: 43
13467785 ATTGTAAAAA
13467795 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
* * * * * * *
13467838 GTGTAAAACC-CTATTTGGGACAGTGGAATCAATATGTG-TTCTC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATT-AC
* * ** *
13467881 TTGTAAGACCA--TACTGGAATGTTGGTATCGATATGTGATTAC
1 GTGTAAGACCACGT-CTGGGACATTGGCATCGATATGTGATTAC
* * *
13467923 ATGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
* * * *
13467966 ATGTAAGACC-CTATCTGGGATAGTGGCATCGATATGTG-TTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTAC
* * *
13468008 GTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTAT
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
* * * *
13468051 GTGTAAGACCATGTCTAGGACATCGGCATC-ATATTTGATT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
* *
13468092 GTGTAAGACC-CTATCTGGGACAGTGGCATCGATATGTGATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGATTAC
* * *
13468135 ATGTAAGACCATGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
13468164 TGTACGATAT
Statistics
Matches: 262, Mismatches: 50, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
41 25 0.10
42 84 0.32
43 152 0.58
44 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:13467940 original size:85 final size:87
Alignment explanation
Indices: 13467817--13468152 Score: 304
Period size: 85 Copynumber: 3.9 Consensus size: 87
13467807 GTCTGGGACA
* *
13467817 TTGGCATCGATATGTGATTACGTGTAAAACC-CTATTTGGGACAG-TGGAATCAATATGTG-TTC
1 TTGGCATCGATATGTGATTACGTGTAAGACCAC-GTTTGGGAC-GTTGGAATCAATATGTGATT-
* *
13467879 TCTTGTAAGACCATA-CTGGAAT-G
63 ACATGTAAGACCATATCTGGAATAG
* * * *
13467902 TTGGTATCGATATGTGATTACATGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACA
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGAATCAATATGTGATTACA
* *
13467967 TGTAAGACCCTATCTGGGATAG
66 TGTAAGACCATATCTGGAATAG
* * * * **
13467989 -TGGCATCGATATGTG-TTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTATG
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGAATCAATATGTGATTACA
* *
13468052 TGTAAGACCATGTCTAGG-ACA-
66 TGTAAGACCATATCT-GGAATAG
* * * *
13468073 TCGGCATC-ATATTTGATT-CGTGTAAGACC-C-TATCTGGGACAG-TGGCATCGATATGTGATT
1 TTGGCATCGATATGTGATTACGTGTAAGACCACGT-T-TGGGAC-GTTGGAATCAATATGTGATT
*
13468133 ACATGTAAGACCATGTCTGG
63 ACATGTAAGACCATATCTGG
13468153 GACGTTGGCA
Statistics
Matches: 215, Mismatches: 25, Indels: 24
0.81 0.09 0.09
Matches are distributed among these distances:
82 1 0.00
83 3 0.01
84 57 0.27
85 128 0.60
86 25 0.12
87 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (87 bp):
TTGGCATCGATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGAATCAATATGTGATTACA
TGTAAGACCATATCTGGAATAG
Found at i:13468033 original size:128 final size:126
Alignment explanation
Indices: 13467796--13468163 Score: 472
Period size: 128 Copynumber: 2.9 Consensus size: 126
13467786 TTGTAAAAAG
* *
13467796 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACGTGTAAAACCCTATTTGGGACAG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATCTGGGACAG
* * * * * *
13467861 TGGAATCAATATGTGTTCTCTTGTAAGACCA-TACTGGAATGTTGGTATCGATATGTGATTACA
66 TGGCATCGATATGTGTT-ACATGTAAGACCAGT-CTGG-ACGTTGGCATCGATATGTGATTACA
* * * *
13467924 TGTAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCCTATCTGGGATAG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATCTGGGACAG
* **
13467989 TGGCATCGATATGTGTTACGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTATG
66 TGGCATCGATATGTGTTACATGTAAGACCA-GTCT-GGACGTTGGCATCGATATGTGATTACA
* * * *
13468052 TGTAAGACCATGTCTAGGACATCGGCATC-ATATTTGATT-CGTGTAAGACCCTATCTGGGACAG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATCTGGGACAG
13468115 TGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
66 TGGCATCGATATGTG-TTACATGTAAGACCA-GTCT-GGACGTTGGCAT
13468164 TGTACGATAT
Statistics
Matches: 211, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
126 37 0.18
127 50 0.24
128 121 0.57
129 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (126 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTACGTGTAAGACCCTATCTGGGACAG
TGGCATCGATATGTGTTACATGTAAGACCAGTCTGGACGTTGGCATCGATATGTGATTACA
Found at i:13469518 original size:50 final size:51
Alignment explanation
Indices: 13469458--13469562 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 51
13469448 TATGCATAAT
* *
13469458 AGAATTTGTATTCAATGAATTGGTCTTATGTATGACCTTTGATACATTGTA
1 AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGTA
13469509 AGAA-TTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGTA
1 AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGTA
13469559 AGAA
1 AGAA
13469563 AGGAGATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (51 bp):
AGAATTTGTATTCAATGAATTAGCCTTATGTATGACCTTTGATACATTGTA
Found at i:13471409 original size:40 final size:39
Alignment explanation
Indices: 13471319--13471522 Score: 205
Period size: 40 Copynumber: 5.1 Consensus size: 39
13471309 TCAAATGATG
* * *
13471319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
13471359 TCCAGACTAAGATCCGAAGGAATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
13471399 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
13471438 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* ** * *
13471479 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
13471518 TCCGG
1 TCCGG
13471523 TTAAATTCCG
Statistics
Matches: 137, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 35 0.26
40 92 0.67
41 10 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:13471463 original size:79 final size:78
Alignment explanation
Indices: 13471319--13471536 Score: 235
Period size: 79 Copynumber: 2.7 Consensus size: 78
13471309 TCAAATGATG
* * **
13471319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCAGACTAAGATCCGAAGGAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCC-GGTTAAG-TCCGAAGGAATT
13471383 TGTGCGAGTTACTA-A
63 TGTGCGAGTTACTATA
* * *
13471398 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGTTAAGT-CCGAAGGAATT
13471462 TGTGCGAGTTACTATA
63 TGTGCGAGTTACTATA
* * ** * *
13471478 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGTT-AAGTCCGAAGG
13471537 TACGTGATTC
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.59
80 47 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAGTCCGAAGGAATTTGT
GCGAGTTACTATA
Found at i:13479857 original size:30 final size:30
Alignment explanation
Indices: 13479823--13479880 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13479813 CCATATACAT
*
13479823 ATATTTAGGATATTTT-ACAAATTAGTCCTC
1 ATATTT-GCATATTTTGACAAATTAGTCCTC
* *
13479853 ATATTTTCATATTTTGACAATTTAGTCC
1 ATATTTGCATATTTTGACAAATTAGTCC
13479881 CTAATTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (30 bp):
ATATTTGCATATTTTGACAAATTAGTCCTC
Found at i:13482463 original size:48 final size:49
Alignment explanation
Indices: 13482383--13482508 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
13482373 TATGATAGCT
* * * * **
13482383 AGTGTAAGACCATGTCTGGGACATGGTATTAGCATTGATATGTG-TGCC
1 AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
* * * **
13482431 AGTGTAAGACCATATTTGGGATATGGCGTTAGCCTCAATATGTGATTTC
1 AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
13482480 A-TGTAAGACCATATATGGGATATGGCATT
1 AGTGTAAGACCATATATGGGATATGGCATT
13482509 GATAGGAGAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 62 0.95
49 3 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (49 bp):
AGTGTAAGACCATATATGGGATATGGCATTAGCATCAATATGTGATGCC
Found at i:13490515 original size:19 final size:19
Alignment explanation
Indices: 13490469--13490516 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
13490459 GTATATATTT
13490469 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
13490487 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
13490506 TAAGTTTTATT
1 TAAATTTTATT
13490517 AATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:13490576 original size:42 final size:42
Alignment explanation
Indices: 13490526--13490619 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
13490516 TAATATTCTA
** * *
13490526 GAAA-TATTTTATTTTATCTTTTAGTGGTTTATTAAAATAAG
1 GAAACTATTTTACCTTATATTTTAGTAGTTTATTAAAATAAG
* *
13490567 GGAACTATTTTCCCTTATATTTTAGTAGTTTATTAAAATAAG
1 GAAACTATTTTACCTTATATTTTAGTAGTTTATTAAAATAAG
*
13490609 GAAATTATTTT
1 GAAACTATTTT
13490620 CCCAATTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 3 0.07
42 41 0.93
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (42 bp):
GAAACTATTTTACCTTATATTTTAGTAGTTTATTAAAATAAG
Found at i:13490620 original size:42 final size:42
Alignment explanation
Indices: 13490539--13490622 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
13490529 ATATTTTATT
* * *
13490539 TTATCTTTTAGTGGTTTATTAAAATAAGGGAACTATTTTCCC
1 TTATATTTTAGTAGTTTATTAAAATAAGGAAACTATTTTCCC
*
13490581 TTATATTTTAGTAGTTTATTAAAATAAGGAAATTATTTTCCC
1 TTATATTTTAGTAGTTTATTAAAATAAGGAAACTATTTTCCC
13490623 AATTAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (42 bp):
TTATATTTTAGTAGTTTATTAAAATAAGGAAACTATTTTCCC
Found at i:13496799 original size:77 final size:77
Alignment explanation
Indices: 13496671--13496824 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
13496661 TTTTAAACAT
* *
13496671 GAACCCTAGCATGAAATATGGGTAGAAATGGAGAGAGGAAGCTACCGGGATTTCAAAAATACAAA
1 GAACCCTAGCATGAAATATGGGTAGAAATGGAGAGAGGAAGCTACCAGGATTTAAAAAATACAAA
13496736 TAGCATGAAAAA
66 TAGCATGAAAAA
13496748 GAACCCTAGCATGAAATATGGGTAGAAATGGAGAGAGGAAGCTACCAGGATTTAAAAAATACAAA
1 GAACCCTAGCATGAAATATGGGTAGAAATGGAGAGAGGAAGCTACCAGGATTTAAAAAATACAAA
13496813 TAGCATGAAAAA
66 TAGCATGAAAAA
13496825 CGGGGCTTGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.17
Consensus pattern (77 bp):
GAACCCTAGCATGAAATATGGGTAGAAATGGAGAGAGGAAGCTACCAGGATTTAAAAAATACAAA
TAGCATGAAAAA
Found at i:13502368 original size:10 final size:10
Alignment explanation
Indices: 13502353--13502402 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
13502343 TAATTTTAGG
13502353 ATTTAT-TTT
1 ATTTATCTTT
13502362 CATTTATCTTT
1 -ATTTATCTTT
13502373 ATTTATCTTT
1 ATTTATCTTT
13502383 ATTTAT-TTGT
1 ATTTATCTT-T
13502393 ATTTATCTTT
1 ATTTATCTTT
13502403 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:13504463 original size:17 final size:18
Alignment explanation
Indices: 13504431--13504464 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13504421 TATTCCTCAT
13504431 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
13504449 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
13504465 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:13505241 original size:84 final size:84
Alignment explanation
Indices: 13505100--13505268 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
13505090 AAGTCCGTTC
13505100 TAGCCCCGTTTTTAATTATTTTTACGTTTTTGAAATCCTTGTAACAAGATTTACTCATTTCTACC
1 TAGCCCCGTTTTTAATTATTTTTACGTTTTTGAAATCCTTGTAACAAGATTTACTCATTTCTACC
13505165 CATATTTTGAGCTAGGGTT
66 CATATTTTGAGCTAGGGTT
*
13505184 TAGCCCCGTTTTTTATTATTTTTACGTTTTTGAAATCCTTGTAACAAGATTTACTCATTTCTACC
1 TAGCCCCGTTTTTAATTATTTTTACGTTTTTGAAATCCTTGTAACAAGATTTACTCATTTCTACC
13505249 CATATTTTGAGCTAGGGTT
66 CATATTTTGAGCTAGGGTT
13505268 T
1 T
13505269 GTGTTTAAAA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (84 bp):
TAGCCCCGTTTTTAATTATTTTTACGTTTTTGAAATCCTTGTAACAAGATTTACTCATTTCTACC
CATATTTTGAGCTAGGGTT
Found at i:13505571 original size:30 final size:30
Alignment explanation
Indices: 13505523--13505581 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13505513 TTTACGAGCC
* * *
13505523 TAGGGGCCAAAGTGCAAATATGTGAAAGTT
1 TAGGGGCCAAAATACAAATATGTAAAAGTT
* *
13505553 TAGGGGTCAAAATACAAATTTGTAAAAGT
1 TAGGGGCCAAAATACAAATATGTAAAAGT
13505582 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (30 bp):
TAGGGGCCAAAATACAAATATGTAAAAGTT
Found at i:13505838 original size:18 final size:20
Alignment explanation
Indices: 13505802--13505848 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13505792 AGTTGTAAGT
13505802 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
13505822 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
13505841 ATGATATA
1 AT-ATATA
13505849 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:13506273 original size:50 final size:50
Alignment explanation
Indices: 13506196--13506540 Score: 388
Period size: 50 Copynumber: 6.9 Consensus size: 50
13506186 TCCGTTGTGA
*
13506196 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
13506246 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* *
13506297 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
13506347 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
13506398 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * *
13506448 GTCATATGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * *
13506498 GTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
13506541 GAGCTTCGGT
Statistics
Matches: 238, Mismatches: 51, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
49 8 0.03
50 151 0.63
51 73 0.31
52 6 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:13506487 original size:101 final size:101
Alignment explanation
Indices: 13506197--13506479 Score: 512
Period size: 101 Copynumber: 2.8 Consensus size: 101
13506187 CCGTTGTGAG
13506197 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
13506262 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
13506298 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
13506363 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
* * * * *
13506399 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCATATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
*
13506464 TAAGTGCAGGCTACTA
66 TAAGTGTAGGCTACTA
13506480 CATGTACCGG
Statistics
Matches: 176, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 176 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGTAC
TAAGTGTAGGCTACTATGCGTACCCATTAACTTCGA
Found at i:13506758 original size:15 final size:15
Alignment explanation
Indices: 13506740--13506770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13506730 AGAATAGAGT
13506740 AAGTGAAATTATGTA
1 AAGTGAAATTATGTA
*
13506755 AAGTGAAATTTTGTA
1 AAGTGAAATTATGTA
13506770 A
1 A
13506771 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
AAGTGAAATTATGTA
Found at i:13510152 original size:40 final size:39
Alignment explanation
Indices: 13510115--13510206 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
13510105 GCTACTCGTT
*
13510115 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
13510155 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
13510194 CAAATGCCTTCGG
1 CAAATGCCTTCGG
13510207 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:13510186 original size:39 final size:40
Alignment explanation
Indices: 13510096--13510259 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
13510086 CGGAATTTAA
** *
13510096 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
13510136 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13510175 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13510215 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13510255 CCGGA
1 CCGGA
13510260 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13520217 original size:20 final size:21
Alignment explanation
Indices: 13520178--13520225 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13520168 ATTTTGATAT
*
13520178 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
*
13520199 ACATGATATG-TATGTTATGC
1 ACATGATATGATATGATATGC
13520219 ACATGAT
1 ACATGAT
13520226 GTATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:13523166 original size:31 final size:30
Alignment explanation
Indices: 13523131--13523212 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 30
13523121 CGTTTACAGT
13523131 AAAGGCTTCGGCCCAGTGATATGAATT-ATG
1 AAAGGCTTCGGCCCAGT-ATATGAATTAATG
* *
13523161 AAAAGGCTTCGGCCCAGTA-ATCATTTAATG
1 -AAAGGCTTCGGCCCAGTATATGAATTAATG
*
13523191 AAAGACTTCGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
13523213 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
29 22 0.49
30 6 0.13
31 17 0.38
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATTAATG
Found at i:13530563 original size:7 final size:8
Alignment explanation
Indices: 13530541--13530565 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13530531 AAATTTAAAA
13530541 ATATTTTT
1 ATATTTTT
13530549 ATATTTTT
1 ATATTTTT
13530557 ATATTTTT
1 ATATTTTT
13530565 A
1 A
13530566 AATATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATATTTTT
Found at i:13543708 original size:22 final size:23
Alignment explanation
Indices: 13543660--13543710 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13543650 TTTGTAATTT
*
13543660 AATTCTTGTATTTTTATTTTGAGA
1 AATT-TTGTATTTTTATTTTGACA
* *
13543684 AATTTTGTTTTTTTATTTT-TCA
1 AATTTTGTATTTTTATTTTGACA
13543706 AATTT
1 AATTT
13543711 AAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.65
Consensus pattern (23 bp):
AATTTTGTATTTTTATTTTGACA
Found at i:13547924 original size:15 final size:15
Alignment explanation
Indices: 13547889--13547940 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13547879 TTAAGAATTT
*
13547889 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13547903 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13547917 TATTTAATAATAAT-
1 TATTTAATTATAATA
13547931 TATGTTAATT
1 TAT-TTAATT
13547941 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13548039 original size:16 final size:16
Alignment explanation
Indices: 13548018--13548059 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13548008 TTATTAAATT
*
13548018 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13548034 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13548049 AT-TATGTTTAA
1 ATATAT-TTTAA
13548060 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13548044 original size:15 final size:15
Alignment explanation
Indices: 13548009--13548050 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13547999 TTAAGAATTT
*
13548009 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13548023 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13548037 TATTTAATAATAAT
1 TATTTAATTATAAT
13548051 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13548285 original size:45 final size:43
Alignment explanation
Indices: 13548185--13548294 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
13548175 TTTTCCATTA
13548185 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
13548224 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
13548269 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
13548295 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:13548296 original size:16 final size:16
Alignment explanation
Indices: 13548275--13548342 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
13548265 GATTTGCTAT
*
13548275 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
13548291 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
13548307 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13548323 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13548339 TACA
1 TACA
13548343 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13551251 original size:15 final size:15
Alignment explanation
Indices: 13551231--13551262 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13551221 GTGTGGGATA
*
13551231 TAATTTAATTAATTT
1 TAATTTAATAAATTT
13551246 TAATTTAATAAATTT
1 TAATTTAATAAATTT
13551261 TA
1 TA
13551263 GAATATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTAATAAATTT
Found at i:13551910 original size:3 final size:3
Alignment explanation
Indices: 13551902--13551927 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13551892 GCTTCGTAGG
13551902 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
13551928 AAAGTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13553797 original size:20 final size:20
Alignment explanation
Indices: 13553761--13553818 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
13553751 TAGCTCGTCC
* * *
13553761 AGCTCACAACCATCTCAGCA
1 AGCTCACATCCAGCTCAACA
**
13553781 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
13553801 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
13553819 TTTCAGCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:13557787 original size:20 final size:20
Alignment explanation
Indices: 13557764--13557821 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
13557754 TAGCTTGTCC
*
13557764 AGCTCACAACCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
** *
13557784 AGCTCAGTTCCAGCTTAACA
1 AGCTCACATCCAGCTCAACA
*
13557804 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
13557822 TTTCAGCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:13561511 original size:40 final size:40
Alignment explanation
Indices: 13561446--13561657 Score: 293
Period size: 40 Copynumber: 5.3 Consensus size: 40
13561436 TCTTCGGAAT
* ** *
13561446 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
13561485 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
13561525 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
13561565 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * *
13561605 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
13561645 TTAGCCCGGATAT
1 TTAGCCCGGATAT
13561658 CATTCAAATG
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 151 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:13569657 original size:39 final size:40
Alignment explanation
Indices: 13569539--13569723 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
13569529 GCTACTCGTT
* *
13569539 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTATCTCGCA
*
13569579 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ATCTCGCA
* *
13569619 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * * *
13569658 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
13569699 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13569724 CATCATTCGA
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 4 0.03
39 30 0.25
40 73 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:13569707 original size:79 final size:81
Alignment explanation
Indices: 13569539--13569723 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
13569529 GCTACTCGTT
* *
13569539 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
13569603 GATTTAGTAATTCGCAC
65 GATATAGTAATTAGCAC
* * ** *
13569620 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
13569682 GATATGGTCACTTAGCA-
65 GATATAGT-AATTAGCAC
13569699 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
13569724 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAATTAGCAC
Found at i:13576536 original size:6 final size:6
Alignment explanation
Indices: 13576525--13576559 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
13576515 TATGCATAGT
*
13576525 CAGATA CAGATA CAGATA CAGATA CAAATA CAGAT
1 CAGATA CAGATA CAGATA CAGATA CAGATA CAGAT
13576560 TTAATTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (6 bp):
CAGATA
Found at i:13578020 original size:19 final size:19
Alignment explanation
Indices: 13577996--13578035 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13577986 GGAGGTCGAC
13577996 CGTGGGAAACGAAAGGTTT
1 CGTGGGAAACGAAAGGTTT
13578015 CGTGGGAAACGAAAGGTTT
1 CGTGGGAAACGAAAGGTTT
13578034 CG
1 CG
13578036 GACTAACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.38, T:0.20
Consensus pattern (19 bp):
CGTGGGAAACGAAAGGTTT
Found at i:13580169 original size:32 final size:32
Alignment explanation
Indices: 13580133--13580212 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
13580123 GGCCCACACA
*
13580133 CCCGTGTGACTCACACGCCCCACTTGGCCTTG
1 CCCGTGTGACCCACACGCCCCACTTGGCCTTG
* *
13580165 CCCGTGTGGCCCACACGCCCCACTTGGCCTAG
1 CCCGTGTGACCCACACGCCCCACTTGGCCTTG
* **
13580197 ACCGTACGACCCACAC
1 CCCGTGTGACCCACAC
13580213 AGTCGTGTGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.16
Consensus pattern (32 bp):
CCCGTGTGACCCACACGCCCCACTTGGCCTTG
Found at i:13591951 original size:29 final size:29
Alignment explanation
Indices: 13591888--13591955 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
13591878 TAATCAACCG
13591888 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
13591917 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
13591946 CGCACACTTA
1 CGCACACTTA
13591956 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:13592067 original size:174 final size:174
Alignment explanation
Indices: 13591777--13592104 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
13591767 AACTCAAGGT
*
13591777 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
13591842 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
13591907 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
13591951 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
13592016 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
13592081 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
13592105 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:13592096 original size:29 final size:30
Alignment explanation
Indices: 13592057--13592135 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
13592047 CTTAATAATC
13592057 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
13592087 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
13592116 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13592136 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Done.