Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 36 of 318
Found at i:9958746 original size:32 final size:32
Alignment explanation
Indices: 9958647--9958754 Score: 99
Period size: 33 Copynumber: 3.3 Consensus size: 32
9958637 GGTGTACATT
* * **
9958647 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTCCAAG-AGTACACATAAAGTATACATAA
* * * * *
9958680 CCTTTTCATATAGTATACATTAAGTATACCTAA
1 CCTTTCCA-AGAGTACACATAAAGTATACATAA
*
9958713 CCTTTCCAAGAGTACACATAAAGTGTACATAA
1 CCTTTCCAAGAGTACACATAAAGTATACATAA
*
9958745 CCTTTTCAAG
1 CCTTTCCAAG
9958755 TTATACCATT
Statistics
Matches: 58, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
32 28 0.48
33 29 0.50
34 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.32
Consensus pattern (32 bp):
CCTTTCCAAGAGTACACATAAAGTATACATAA
Found at i:9961475 original size:44 final size:42
Alignment explanation
Indices: 9961409--9961572 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
9961399 TCCGATATGT
* *
9961409 GATTTCGTGTAAGACCACGTCTGGGACGTTGGTATCGATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTT-A
* *
9961452 GATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATA
1 GATTT-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTA
** * *
9961494 TGACCTCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTT
1 -GATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTA
* * * * *
9961538 GATTACATGTAAGACCTTCTCTAGGACGTTGGCAT
1 GATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
9961573 TGTATGAGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
42 31 0.32
43 37 0.38
44 30 0.31
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTA
Found at i:9961510 original size:86 final size:85
Alignment explanation
Indices: 9961413--9961577 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
9961403 ATATGTGATT
* * *
9961413 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGTATCGAT-TTGAGATTTACGTGTAAGACCATGTCT
1 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATT-AGA-TTACATGTAAGACCATCTCT
*
9961475 GGGACATTGGCATCGTATATGACC
62 AGGACATTGGCATCGTATATGACC
* *
9961499 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCTTCTCTAGGA
1 TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACCATCTCTAGGA
* *
9961564 CGTTGGCATTGTAT
66 CATTGGCATCGTAT
9961578 GAGTTTACGA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 33 0.49
86 32 0.47
87 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACCATCTCTAGGA
CATTGGCATCGTATATGACC
Found at i:9962893 original size:14 final size:14
Alignment explanation
Indices: 9962876--9962904 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9962866 ATTATGAAAA
9962876 AGGAAATTTGAATC
1 AGGAAATTTGAATC
9962890 AGGAAATTTGAATC
1 AGGAAATTTGAATC
9962904 A
1 A
9962905 AATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AGGAAATTTGAATC
Found at i:9964603 original size:24 final size:24
Alignment explanation
Indices: 9964575--9964626 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
9964565 CAAAATGAAA
9964575 GCAAGAAAATAACAAAAGAACGAT
1 GCAAGAAAATAACAAAAGAACGAT
9964599 GCAAGAAAATAACAAAAGAACGAT
1 GCAAGAAAATAACAAAAGAACGAT
9964623 GCAA
1 GCAA
9964627 ATCCTACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.13, G:0.17, T:0.08
Consensus pattern (24 bp):
GCAAGAAAATAACAAAAGAACGAT
Found at i:9965695 original size:2 final size:2
Alignment explanation
Indices: 9965688--9965721 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9965678 GATGTAATTG
9965688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9965722 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9966923 original size:29 final size:29
Alignment explanation
Indices: 9966886--9966945 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
9966876 ACCCAGACAA
*
9966886 ATGAACACAATAAAAGATAACAAGAAATG
1 ATGAACACAAGAAAAGATAACAAGAAATG
*
9966915 ATGAACACAAGAAAAGATTACAAGAAATG
1 ATGAACACAAGAAAAGATAACAAGAAATG
9966944 AT
1 AT
9966946 ACTAAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (29 bp):
ATGAACACAAGAAAAGATAACAAGAAATG
Found at i:9972135 original size:24 final size:24
Alignment explanation
Indices: 9972083--9972137 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
9972073 ATACATCATC
* *
9972083 ATTAAAAATTGTAAATAAATTCTA
1 ATTAAAAATGGTAAATAAAATCTA
9972107 ATTAAAAATGGTAAA-AAAATCATA
1 ATTAAAAATGGTAAATAAAATC-TA
*
9972131 TTTAAAA
1 ATTAAAA
9972138 CTTAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (24 bp):
ATTAAAAATGGTAAATAAAATCTA
Found at i:9975422 original size:54 final size:52
Alignment explanation
Indices: 9975215--9975419 Score: 234
Period size: 53 Copynumber: 3.9 Consensus size: 52
9975205 TATCATACCA
* * * * * *
9975215 ATGCCATATCCCGGATATGGTCTTACAC-GAGAGCACTTATCACTTTTCTCCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTTTATCCG
* *
9975267 ATGCCATAGCCTAGCTATGGTCTTATACGG-ATCACTTGTATCACTTTAATCCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTATCCG
* * **
9975320 AAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTTTG
1 ATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTATCCG
9975374 ATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTT
1 ATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTT
9975420 GTTGCCATGG
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
51 4 0.03
52 24 0.18
53 51 0.39
54 47 0.36
55 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTATCCG
Found at i:9986253 original size:22 final size:21
Alignment explanation
Indices: 9986225--9986277 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
9986215 TTGATGATGA
9986225 TATTTATAATT-TTTTTACTTT
1 TATTTATAATTATTTTTA-TTT
*
9986246 TATGTTATATTTATTTTTATTT
1 TAT-TTATAATTATTTTTATTT
9986268 TATTTATAAT
1 TATTTATAAT
9986278 GCCTATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.32
22 13 0.46
23 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTATAATTATTTTTATTT
Found at i:9990132 original size:44 final size:44
Alignment explanation
Indices: 9990069--9990157 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
9990059 ATATACAACT
*
9990069 AAAGTTGCGTACTCCTGGCTCATTCTCAAAAAGATAGGCATGGG
1 AAAGTTGCGTACTCCTGGCTCATTCTAAAAAAGATAGGCATGGG
9990113 AAAGTTGCGTACTCCTGGCTCATTCTAAAAAAGATAGGCATGGG
1 AAAGTTGCGTACTCCTGGCTCATTCTAAAAAAGATAGGCATGGG
9990157 A
1 A
9990158 CCTCACCGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGTTGCGTACTCCTGGCTCATTCTAAAAAAGATAGGCATGGG
Found at i:9992060 original size:29 final size:28
Alignment explanation
Indices: 9992028--9992102 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 28
9992018 GGGATACAAT
**
9992028 ATTTTTTACTATTTTTA-GAGTTTGTAATA
1 ATTTTTTA-TATTTTTATGA-TTACTAATA
*
9992057 ATTTGTTATAATCTTTTATGATTACTAATA
1 ATTTTTTAT-AT-TTTTATGATTACTAATA
9992087 A-TTTTTATATTTTTAT
1 ATTTTTTATATTTTTAT
9992103 TATATTTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.15
28 3 0.08
29 15 0.38
30 13 0.33
31 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (28 bp):
ATTTTTTATATTTTTATGATTACTAATA
Found at i:9992109 original size:19 final size:19
Alignment explanation
Indices: 9992087--9992158 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
9992077 ATTACTAATA
9992087 ATTTTTATATTTTTATTAT
1 ATTTTTATATTTTTATTAT
* *
9992106 A-TTTTACATTTTCTAATA-
1 ATTTTTATATTTT-TATTAT
* *
9992124 ATGTTTATAGTTTTTATAGAT
1 ATTTTTATA-TTTTTAT-TAT
*
9992145 TTTTTTATATTTTT
1 ATTTTTATATTTTT
9992159 TTCCAATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
18 11 0.28
19 12 0.30
20 10 0.25
21 7 0.17
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTTTATTAT
Found at i:9992110 original size:18 final size:17
Alignment explanation
Indices: 9992089--9992140 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
9992079 TACTAATAAT
9992089 TTTTATATTTTTATTATA
1 TTTTATATTTTTATTA-A
* *
9992107 TTTTACATTTTCTAATAA
1 TTTTATATTTT-TATTAA
9992125 TGTTTATAGTTTTTAT
1 T-TTTATA-TTTTTAT
9992141 AGATTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 12 0.44
19 11 0.41
20 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTATATTTTTATTAA
Found at i:9992660 original size:84 final size:84
Alignment explanation
Indices: 9992572--9992737 Score: 226
Period size: 84 Copynumber: 2.0 Consensus size: 84
9992562 CCCTCATTTT
* * *
9992572 TTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGTATCAAAAAAGCCCTCAAACTTCTTCA
1 TTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATC-AAAAAGCCCTCAAAATTCTTCA
9992637 AAAA-AAATTAAGCCCCTAC
65 AAAAGAAATTAAGCCCCTAC
* * * * * *
9992656 TTTTTTTCACTCAATTGGGTACTTAAAGTTTCAAAATGCATCAAAAGGCCCTCAAAATTTTTCAA
1 TTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGCCCTCAAAATTCTTCAA
*
9992721 AAAGCAATTAAGCCCCT
66 AAAGAAATTAAGCCCCT
9992738 GCTCTTATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 23 0.32
84 48 0.68
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (84 bp):
TTTTTTGCACTCAATTGAGCACTTAAACTTTCAAAATGCATCAAAAAGCCCTCAAAATTCTTCAA
AAAGAAATTAAGCCCCTAC
Found at i:9997915 original size:5 final size:5
Alignment explanation
Indices: 9997905--9997933 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9997895 CAGATGGCAA
9997905 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
9997934 AGTACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:9998234 original size:28 final size:29
Alignment explanation
Indices: 9998189--9998245 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
9998179 TTTCCTTAAA
9998189 TATCTAAATTAATAAATATATAAGAAATGC
1 TATCTAAA-TAATAAATATATAAGAAATGC
9998219 TATCTAAA-AATAAATATATAAGAAATG
1 TATCTAAATAATAAATATATAAGAAATG
9998246 TAATAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.70
30 8 0.30
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (29 bp):
TATCTAAATAATAAATATATAAGAAATGC
Found at i:10000005 original size:15 final size:15
Alignment explanation
Indices: 9999985--10000014 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9999975 TATTATTATT
9999985 AAATTTAAAAATAAA
1 AAATTTAAAAATAAA
*
10000000 AAATTTATAAATAAA
1 AAATTTAAAAATAAA
10000015 TACTAATAAA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTTAAAAATAAA
Found at i:10000332 original size:21 final size:22
Alignment explanation
Indices: 10000285--10000333 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
10000275 ATAATTACAA
*
10000285 TTAAAAAAATATTTAAATAACT
1 TTAAAAAAATATTAAAATAACT
* * *
10000307 ATAAATAAA-ATTAAAATAATT
1 TTAAAAAAATATTAAAATAACT
10000328 TTAAAA
1 TTAAAA
10000334 CCCTTCGATT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAAAAAATATTAAAATAACT
Found at i:10006711 original size:8 final size:8
Alignment explanation
Indices: 10006698--10006736 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
10006688 ATACGTATGC
10006698 TTGTGAAA
1 TTGTGAAA
10006706 TTGTGAAA
1 TTGTGAAA
10006714 TTGTGAAA
1 TTGTGAAA
*
10006722 TTATGAAA
1 TTGTGAAA
*
10006730 TTATGAA
1 TTGTGAA
10006737 CATGTATGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (8 bp):
TTGTGAAA
Found at i:10008800 original size:35 final size:35
Alignment explanation
Indices: 10008761--10008873 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 35
10008751 ATCTGTTTGC
10008761 TGTGTTTCTGAGGGACTAGCTCTTATGAGCATTGG
1 TGTGTTTCTGAGGGACTAGCTCTTATGAGCATTGG
* ** * *
10008796 TGTGTTTCAGTTGGACTAGCTCTTATGACCATTAG
1 TGTGTTTCTGAGGGACTAGCTCTTATGAGCATTGG
* * *
10008831 TGTGTTT-TGGAGGGATTGGCTCTTGTGAGCATCTGG
1 TGTGTTTCT-GAGGGACTAGCTCTTATGAGCAT-TGG
10008867 TGTGTTT
1 TGTGTTT
10008874 TGGTTGGACT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
35 54 0.86
36 9 0.14
ACGTcount: A:0.15, C:0.13, G:0.31, T:0.41
Consensus pattern (35 bp):
TGTGTTTCTGAGGGACTAGCTCTTATGAGCATTGG
Found at i:10014280 original size:20 final size:20
Alignment explanation
Indices: 10014250--10014300 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
10014240 GTGAAATAAG
* *
10014250 TTATA-ATTTTTATGATTTT
1 TTATATATTTTTATGAATTA
10014269 TTATATATTTTTA-GAATTA
1 TTATATATTTTTATGAATTA
10014288 TTA-ATATTTTTAT
1 TTATATATTTTTAT
10014301 AAAATTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 9 0.32
19 12 0.43
20 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTATATATTTTTATGAATTA
Found at i:10014443 original size:7 final size:7
Alignment explanation
Indices: 10014433--10014479 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
10014423 TTTTTGAATT
10014433 TTTTATA
1 TTTTATA
10014440 TTTTA-A
1 TTTTATA
10014446 TTTTTATA
1 -TTTTATA
10014454 TTTTTATA
1 -TTTTATA
10014462 TTTTATA
1 TTTTATA
10014469 TTTTATA
1 TTTTATA
10014476 TTTT
1 TTTT
10014480 TGTACTTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 1 0.03
7 28 0.74
8 9 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:10014449 original size:14 final size:14
Alignment explanation
Indices: 10014432--10014480 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
10014422 TTTTTTGAAT
10014432 TTTTTATATTTTAA
1 TTTTTATATTTTAA
*
10014446 TTTTTATATTTTTA
1 TTTTTATATTTTAA
10014460 TATTTTATATTTTATA
1 T-TTTTATATTTTA-A
10014476 TTTTT
1 TTTTT
10014481 GTACTTGTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 14 0.45
15 15 0.48
16 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTATATTTTAA
Found at i:10014449 original size:15 final size:15
Alignment explanation
Indices: 10014424--10014480 Score: 71
Period size: 14 Copynumber: 3.7 Consensus size: 15
10014414 GAATACATTT
10014424 TTTTGAATTTTTTATA
1 TTTT-AATTTTTTATA
10014440 TTTTAA-TTTTTATA
1 TTTTAATTTTTTATA
* *
10014454 TTTTTATATTTTATA
1 TTTTAATTTTTTATA
10014469 TTTTATATTTTT
1 TTTTA-ATTTTT
10014481 GTACTTGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
14 13 0.37
15 13 0.37
16 9 0.26
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTAATTTTTTATA
Found at i:10014457 original size:22 final size:22
Alignment explanation
Indices: 10014432--10014480 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
10014422 TTTTTTGAAT
10014432 TTTTTATATTTTA-ATTTTTATA
1 TTTTTATATTTTATA-TTTTATA
10014454 TTTTTATATTTTATATTTTATA
1 TTTTTATATTTTATATTTTATA
10014476 TTTTT
1 TTTTT
10014481 GTACTTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTATATTTTATATTTTATA
Found at i:10014607 original size:14 final size:14
Alignment explanation
Indices: 10014568--10014610 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
10014558 TTAATTAATA
*
10014568 TATTTTTTATTAAT
1 TATTTTTTATTTAT
**
10014582 TATTTTAAATTTAT
1 TATTTTTTATTTAT
*
10014596 TGTTTTTTATTTAT
1 TATTTTTTATTTAT
10014610 T
1 T
10014611 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (14 bp):
TATTTTTTATTTAT
Found at i:10014609 original size:25 final size:27
Alignment explanation
Indices: 10014568--10014624 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
10014558 TTAATTAATA
10014568 TATT-TTTTATTAATTA-TTTTAAATT
1 TATTGTTTTATTAATTATTTTTAAATT
*
10014593 TATTGTTTT-TTATTTATTTTTAAATT
1 TATTGTTTTATTAATTATTTTTAAATT
10014619 T-TTGTT
1 TATTGTT
10014625 GACATGGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (27 bp):
TATTGTTTTATTAATTATTTTTAAATT
Found at i:10014749 original size:3 final size:3
Alignment explanation
Indices: 10014741--10014776 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10014731 TTGATTAGTT
10014741 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10014777 AGGACTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10016410 original size:3 final size:3
Alignment explanation
Indices: 10016402--10016477 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
10016392 AGTTGCTATG
10016402 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10016450 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10016478 TGCTGATGAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10017206 original size:17 final size:18
Alignment explanation
Indices: 10017184--10017221 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10017174 AATATTTATT
*
10017184 ATTTAATATAATAA-ATA
1 ATTTAAAATAATAACATA
*
10017201 ATTTAAAATGATAACATA
1 ATTTAAAATAATAACATA
10017219 ATT
1 ATT
10017222 AATTAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (18 bp):
ATTTAAAATAATAACATA
Found at i:10017973 original size:27 final size:25
Alignment explanation
Indices: 10017943--10017995 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
10017933 ATCTTTCTTA
*
10017943 TTTTATTAATGGAATATTTTAATATGT
1 TTTTATTAA-AGAA-ATTTTAATATGT
* *
10017970 TTTTCTTAAAGTAATTTTAATATGT
1 TTTTATTAAAGAAATTTTAATATGT
10017995 T
1 T
10017996 GTAGAACTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 13 0.57
26 2 0.09
27 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (25 bp):
TTTTATTAAAGAAATTTTAATATGT
Found at i:10019185 original size:27 final size:27
Alignment explanation
Indices: 10019154--10019219 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
10019144 GGAAGGTAAG
*
10019154 AGAGGTGACACCAGTGGAGGGTGAGAA
1 AGAGGCGACACCAGTGGAGGGTGAGAA
* *
10019181 AGAGGCGGCTCCAGTGGAGGGTGAGAGA
1 AGAGGCGACACCAGTGGAGGGTGAGA-A
*
10019209 A-AGGCAACACC
1 AGAGGCGACACC
10019220 CGTGTTGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.42, T:0.09
Consensus pattern (27 bp):
AGAGGCGACACCAGTGGAGGGTGAGAA
Found at i:10022400 original size:16 final size:16
Alignment explanation
Indices: 10022381--10022411 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10022371 CTTCTTCACT
10022381 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
10022397 TACTTACTTACTTAA
1 TACTCACTTACTTAA
10022412 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:10022417 original size:20 final size:20
Alignment explanation
Indices: 10022378--10022417 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10022368 AAACTTCTTC
* *
10022378 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
10022398 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
10022418 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:10022856 original size:55 final size:53
Alignment explanation
Indices: 10022625--10022859 Score: 212
Period size: 55 Copynumber: 4.4 Consensus size: 53
10022615 CATGAGTTGT
* * * * *
10022625 CATGGTCTTACGTGGTATCCTT---TT-GAAACTTACCATTTCCATGTCTTAA
1 CATGGTCTTACATGGTATCCTTACCTTAGAAACTTACCAATGCCATGCCTTGA
* * * *
10022674 CATGGTCTTACATGGTTTCCTTGCCTTATG-AACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTA-GAAACTTACCAATGCCATGCCTTGA
* * * * * *
10022727 CATGGTTTTACATGGGA-CCTTTGCCATATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTACC-T-TAGAAACTTACCAATGCCATGCCTTGA
* * *
10022782 CATGGTCTTACATGATATCCTTACCTTAGAAACCTTACCAATTGCCAAGCCTTGG
1 CATGGTCTTACATGGTATCCTTACCTTAGAAA-CTTACCAA-TGCCATGCCTTGA
10022837 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
10022860 AACCCTAATG
Statistics
Matches: 149, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 20 0.13
52 4 0.03
53 41 0.28
54 11 0.07
55 71 0.48
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CATGGTCTTACATGGTATCCTTACCTTAGAAACTTACCAATGCCATGCCTTGA
Found at i:10025889 original size:165 final size:165
Alignment explanation
Indices: 10025617--10025946 Score: 588
Period size: 165 Copynumber: 2.0 Consensus size: 165
10025607 TCCAGTTCAG
*
10025617 GTGCGAGCTCTGGTTCGGGTGCAGAAGGCAGATGTGACATACGTTGGGAGAGATGCCCTAGTCTT
1 GTGCGAGCTCCGGTTCGGGTGCAGAAGGCAGATGTGACATACGTTGGGAGAGATGCCCTAGTCTT
*
10025682 TCCATGTGTAAAGGGACTAGCATTGTTTGCCCACCAAATAAAAAAGGTTTCCTACACGCCATGTA
66 TCCATGTATAAAGGGACTAGCATTGTTTGCCCACCAAATAAAAAAGGTTTCCTACACGCCATGTA
*
10025747 CTAGACAATGCATAATCCATCCGAGGTCTTTGCCC
131 CTAGACAATGCATAATCCATCCGAGGTCTTCGCCC
* *
10025782 GTGCGAGCTCCGGTTCGGGTGCAGAAGGCAGATGTGACATGCGTTGGGAGAGGTGCCCTAGTCTT
1 GTGCGAGCTCCGGTTCGGGTGCAGAAGGCAGATGTGACATACGTTGGGAGAGATGCCCTAGTCTT
* * *
10025847 TCCATGTATGAAGGGACTATCATTGTTTTCCCACCAAATAAAAAAGGTTTCCTACACGCCATGTA
66 TCCATGTATAAAGGGACTAGCATTGTTTGCCCACCAAATAAAAAAGGTTTCCTACACGCCATGTA
10025912 CTAGACAATGCATAATCCATCCGAGGTCTTCGCCC
131 CTAGACAATGCATAATCCATCCGAGGTCTTCGCCC
10025947 TGTCTGGTTG
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 157 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (165 bp):
GTGCGAGCTCCGGTTCGGGTGCAGAAGGCAGATGTGACATACGTTGGGAGAGATGCCCTAGTCTT
TCCATGTATAAAGGGACTAGCATTGTTTGCCCACCAAATAAAAAAGGTTTCCTACACGCCATGTA
CTAGACAATGCATAATCCATCCGAGGTCTTCGCCC
Found at i:10030672 original size:46 final size:46
Alignment explanation
Indices: 10030522--10030735 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 46
10030512 ATGTGGGCCC
** * *
10030522 GTGTAAGACATGTCT-GTGACATGCATCGG-CTATATTATGAAAGCCA
1 GTGTAAGACATGTCTAG-GACATGCATCGGCCTCGA-GATGTAAGCCA
* * * * * *
10030568 GTGTAAGACCATGTCTAGGGCATGGCATAGGCATTGAGACG-AGTGCCA
1 GTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA-AGCCA
*
10030616 ATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCCA
1 GTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCCA
* * *
10030662 GTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGATGT--GCTA
1 GTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGATGTAAGCCA
*
10030706 GTGTAAGACATGTCTGGGACATGCATCGGC
1 GTGTAAGACATGTCTAGGACATGCATCGGC
10030736 ACGGATGTGT
Statistics
Matches: 141, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
44 32 0.23
45 2 0.01
46 59 0.42
47 26 0.18
48 20 0.14
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCCA
Found at i:10034760 original size:2 final size:2
Alignment explanation
Indices: 10034753--10034789 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10034743 ACCATACCAT
*
10034753 AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10034790 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:10039721 original size:40 final size:40
Alignment explanation
Indices: 10039676--10039842 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
10039666 CGGAATATAA
10039676 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
10039716 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
10039756 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10039796 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10039835 CCGGATAT
1 CCGGATAT
10039843 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10039826 original size:80 final size:79
Alignment explanation
Indices: 10039676--10039842 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
10039666 CGGAATATAA
* *
10039676 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
10039741 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
10039756 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
10039818 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
10039835 CCGGATAT
1 CCGGATAT
10039843 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:10040690 original size:17 final size:19
Alignment explanation
Indices: 10040667--10040712 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
10040657 AAGAAGCATG
10040667 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
10040685 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
10040703 AATCATGCTC
1 AATCATGCTC
10040713 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:10047728 original size:40 final size:40
Alignment explanation
Indices: 10047683--10047849 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
10047673 CGGAATATAA
10047683 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
10047723 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
10047763 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
10047803 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
10047842 CCGGATAT
1 CCGGATAT
10047850 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:10047833 original size:80 final size:79
Alignment explanation
Indices: 10047683--10047849 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
10047673 CGGAATATAA
* *
10047683 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
10047748 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
10047763 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
10047825 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
10047842 CCGGATAT
1 CCGGATAT
10047850 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:10048697 original size:17 final size:19
Alignment explanation
Indices: 10048674--10048719 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
10048664 AAGAAGCATG
10048674 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
10048692 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
10048710 AATCATGCTC
1 AATCATGCTC
10048720 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:10049730 original size:2 final size:2
Alignment explanation
Indices: 10049725--10049770 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
10049715 ACACACACTC
10049725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10049767 AT AT
1 AT AT
10049771 GTTCAGGCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10052158 original size:23 final size:25
Alignment explanation
Indices: 10052132--10052178 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
10052122 TATCATTCAT
*
10052132 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
10052155 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
10052179 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:10052499 original size:46 final size:46
Alignment explanation
Indices: 10052439--10052609 Score: 263
Period size: 46 Copynumber: 3.7 Consensus size: 46
10052429 TTTGACGTGA
* * * * * *
10052439 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
10052485 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10052531 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
10052577 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
10052610 CAGGTTGTCA
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 3 0.03
46 113 0.97
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:10052623 original size:38 final size:38
Alignment explanation
Indices: 10052572--10052647 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
10052562 CATTTCATAT
10052572 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
10052610 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
10052648 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:10061346 original size:40 final size:40
Alignment explanation
Indices: 10061291--10061478 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
10061281 ATGATAACCA
* * *
10061291 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTACATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCG
* *
10061331 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCG
* * *
10061371 GGCTAAGTCCCGAGGGCATTTGTGCGAGCTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCG
* *
10061411 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCG
* *
10061451 GGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
10061479 AGCTATATCC
Statistics
Matches: 134, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 8 0.06
40 126 0.94
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCCG
Found at i:10066134 original size:40 final size:40
Alignment explanation
Indices: 10066076--10066243 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
10066066 CAATTGAATG
* *
10066076 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
10066117 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
10066156 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
10066196 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
10066236 ATATCCGG
1 ATATCCGG
10066244 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:10066214 original size:80 final size:79
Alignment explanation
Indices: 10066076--10066243 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
10066066 CAATTGAATG
* * *
10066076 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
10066141 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
10066156 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
10066220 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
10066236 ATATCCGG
1 ATATCCGG
10066244 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:10072570 original size:40 final size:40
Alignment explanation
Indices: 10072513--10072728 Score: 267
Period size: 40 Copynumber: 5.5 Consensus size: 40
10072503 GGATGATAAT
* * *
10072513 CGGGCTAAGTCTCGAAGGAATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATC
* *
10072553 CAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATC
* * *
10072593 CGGGCTAAGTCCCGAGGGCATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATC
* *
10072633 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATC
* * *
10072673 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACATC
* *
10072712 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
10072729 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 128 0.81
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATC
Found at i:10080340 original size:7 final size:7
Alignment explanation
Indices: 10080330--10080356 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10080320 AAATGAGAAA
10080330 TGAATGT
1 TGAATGT
10080337 TGAATGT
1 TGAATGT
10080344 TGAATGT
1 TGAATGT
10080351 TGAATG
1 TGAATG
10080357 AGGGATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (7 bp):
TGAATGT
Found at i:10082763 original size:12 final size:11
Alignment explanation
Indices: 10082747--10082781 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10082737 GAAGAAGAAG
10082747 AAGA-AAAACT
1 AAGAGAAAACT
*
10082757 AAGAGAAAACC
1 AAGAGAAAACT
10082768 AAGAGAAAACT
1 AAGAGAAAACT
10082779 AAG
1 AAG
10082782 CCTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.66, C:0.11, G:0.17, T:0.06
Consensus pattern (11 bp):
AAGAGAAAACT
Found at i:10084420 original size:41 final size:41
Alignment explanation
Indices: 10084375--10084459 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
10084365 CTAATTAGTC
10084375 TATACTTAAGAATACCAAATTATCTAGTATCATTTGAAATT
1 TATACTTAAGAATACCAAATTATCTAGTATCATTTGAAATT
10084416 TATACTTAAGAATACCAAATTATCTAGTATCATTTGAAATT
1 TATACTTAAGAATACCAAATTATCTAGTATCATTTGAAATT
10084457 TAT
1 TAT
10084460 CAGTTTGGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (41 bp):
TATACTTAAGAATACCAAATTATCTAGTATCATTTGAAATT
Found at i:10084460 original size:21 final size:21
Alignment explanation
Indices: 10084394--10084460 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
10084384 GAATACCAAA
10084394 TTATCTAGTATCATTTGAAAT
1 TTATCTAGTATCATTTGAAAT
***
10084415 TTATACTTAAG-A--ATACCAAA-
1 TTAT-C-T-AGTATCATTTGAAAT
10084435 TTATCTAGTATCATTTGAAAT
1 TTATCTAGTATCATTTGAAAT
10084456 TTATC
1 TTATC
10084461 AGTTTGGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 1 0.03
20 9 0.27
21 14 0.42
22 1 0.03
23 2 0.06
24 2 0.06
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.43
Consensus pattern (21 bp):
TTATCTAGTATCATTTGAAAT
Found at i:10084870 original size:24 final size:25
Alignment explanation
Indices: 10084823--10084870 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
10084813 AAATAAAAAC
*
10084823 TTTAAAATACAATAAATCAAATATA
1 TTTAAAATACAATAAAACAAATATA
10084848 TTTAAAA-AC-ATAAAAACAAATAT
1 TTTAAAATACAAT-AAAACAAATAT
10084871 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
25 7 0.33
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TTTAAAATACAATAAAACAAATATA
Found at i:10085123 original size:22 final size:22
Alignment explanation
Indices: 10085098--10085173 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 22
10085088 GACAAAAAGT
* *
10085098 AGCAGCAAACCAACACTAAAAC
1 AGCAGCAAAACAACACCAAAAC
* *
10085120 AGCAGCAAAATAGCACCAAAAC
1 AGCAGCAAAACAACACCAAAAC
* *
10085142 AGCAGCAAAACAGCAACAAAAC
1 AGCAGCAAAACAACACCAAAAC
* *
10085164 ATCACCAAAA
1 AGCAGCAAAA
10085174 TAGCATCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.57, C:0.29, G:0.11, T:0.04
Consensus pattern (22 bp):
AGCAGCAAAACAACACCAAAAC
Found at i:10085152 original size:33 final size:31
Alignment explanation
Indices: 10085092--10085215 Score: 113
Period size: 33 Copynumber: 3.8 Consensus size: 31
10085082 AAACATGACA
* * *
10085092 AAAAGTAGCAGCAAACCAACACTAAAACAGCAGC
1 AAAA-TAGCACCAAAACAGCAC-AAAACAGCA-C
10085126 AAAATAGCACCAAAACAGCAGCAAAACAGCAAC
1 AAAATAGCACCAAAACAGCA-CAAAACAGC-AC
* * * *
10085159 AAAACATCACCAAAATAGCATCAAAATAGCAC
1 AAAATAGCACCAAAACAGCA-CAAAACAGCAC
* *
10085191 CAAATAGCAACAAAACAGCACAAAA
1 AAAATAGCACCAAAACAGCACAAAA
10085216 AATAGCATCA
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
31 5 0.07
32 17 0.23
33 47 0.63
34 6 0.08
ACGTcount: A:0.57, C:0.26, G:0.10, T:0.06
Consensus pattern (31 bp):
AAAATAGCACCAAAACAGCACAAAACAGCAC
Found at i:10085178 original size:22 final size:22
Alignment explanation
Indices: 10085115--10085222 Score: 128
Period size: 22 Copynumber: 4.9 Consensus size: 22
10085105 AACCAACACT
* *
10085115 AAAACAGCAGCAAAATAGCACC
1 AAAACAGCACCAAAATAGCAAC
* *
10085137 AAAACAGCAGCAAAACAGCAAC
1 AAAACAGCACCAAAATAGCAAC
* *
10085159 AAAACATCACCAAAATAGCATC
1 AAAACAGCACCAAAATAGCAAC
*
10085181 AAAATAGCACC-AAATAGCAAC
1 AAAACAGCACCAAAATAGCAAC
*
10085202 AAAACAGCACAAAAAATAGCA
1 AAAACAGCAC-CAAAATAGCA
10085223 TCACCGACAA
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.25
22 47 0.64
23 8 0.11
ACGTcount: A:0.58, C:0.25, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAACAGCACCAAAATAGCAAC
Found at i:10085216 original size:11 final size:10
Alignment explanation
Indices: 10085115--10085215 Score: 85
Period size: 11 Copynumber: 9.4 Consensus size: 10
10085105 AACCAACACT
10085115 AAAACAGCAGC
1 AAAACAGCA-C
*
10085126 AAAATAGCACC
1 AAAACAGCA-C
10085137 AAAACAGCAGC
1 AAAACAGCA-C
10085148 AAAACAGCAAC
1 AAAACAGC-AC
*
10085159 AAAACATCACC
1 AAAACAGCA-C
*
10085170 AAAATAGCATC
1 AAAACAGCA-C
*
10085181 AAAATAGCAC
1 AAAACAGCAC
* *
10085191 CAAATAGCAAC
1 AAAACAGC-AC
10085202 AAAACAGCAC
1 AAAACAGCAC
10085212 AAAA
1 AAAA
10085216 AATAGCATCA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
10 15 0.20
11 60 0.79
12 1 0.01
ACGTcount: A:0.58, C:0.26, G:0.10, T:0.06
Consensus pattern (10 bp):
AAAACAGCAC
Found at i:10085218 original size:44 final size:44
Alignment explanation
Indices: 10085098--10085225 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 44
10085088 GACAAAAAGT
* * *
10085098 AGCAGCAAACCAAC-ACTAAAACAGCAGC-AAAATAGCACCAAAAC
1 AGCAGCAAAACAGCAAC-AAAACAGCA-CAAAAATAGCATCAAAAC
* * *
10085142 AGCAGCAAAACAGCAACAAAACATCACCAAAATAGCATCAAAAT
1 AGCAGCAAAACAGCAACAAAACAGCACAAAAATAGCATCAAAAC
* *
10085186 AGCA-CCAAATAGCAACAAAACAGCACAAAAAATAGCATCA
1 AGCAGCAAAACAGCAACAAAACAGCAC-AAAAATAGCATCA
10085226 CCGACAACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 20 0.28
44 50 0.69
45 2 0.03
ACGTcount: A:0.56, C:0.27, G:0.10, T:0.07
Consensus pattern (44 bp):
AGCAGCAAAACAGCAACAAAACAGCACAAAAATAGCATCAAAAC
Found at i:10089063 original size:15 final size:15
Alignment explanation
Indices: 10089043--10089072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10089033 AAGTTACTTC
*
10089043 AAAAATTAAAAATAA
1 AAAAATAAAAAATAA
10089058 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
10089073 TTTAATATTA
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:10096895 original size:20 final size:21
Alignment explanation
Indices: 10096872--10096911 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10096862 ATACCTGGTA
10096872 AAAGG-TATCGATACTTTTTG
1 AAAGGATATCGATACTTTTTG
10096892 AAAGGATATCGATACTTTTT
1 AAAGGATATCGATACTTTTT
10096912 ATGATTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
AAAGGATATCGATACTTTTTG
Found at i:10098694 original size:41 final size:41
Alignment explanation
Indices: 10098630--10098713 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
10098620 TCTAGTTGTT
* *
10098630 GTATATAAATTTCCCCATTCAAATCCCCGTGAAGGAATACA
1 GTATATAAATTTCCCCATCCAAATCCCCGTGAAAGAATACA
* *
10098671 GTATATAAATTTCCCGATCCAAATCCCCGTGAAAGAATGCA
1 GTATATAAATTTCCCCATCCAAATCCCCGTGAAAGAATACA
10098712 GT
1 GT
10098714 CTTTATATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
GTATATAAATTTCCCCATCCAAATCCCCGTGAAAGAATACA
Found at i:10111318 original size:52 final size:51
Alignment explanation
Indices: 10111188--10111319 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
10111178 ATGTGTTCTG
* * *
10111188 CATTTAATAAAGTCATGCATTATA-TAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTA-AGTAACTCCCATGTTAGTTAAGTTTGCAT
* * *
10111239 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTAAGTAACTCCCATGTTAGTT-AAGTTTGCAT
*
10111290 CATTAAATTAAGTCATGTATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTAAGTAACTC
10111320 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 31 0.46
51 14 0.21
52 23 0.34
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTAAGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:10115760 original size:15 final size:15
Alignment explanation
Indices: 10115742--10115776 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10115732 ATTCTATGTG
* *
10115742 AAAATATTTATAAAT
1 AAAATATGTAAAAAT
10115757 AAAATATGTAAAAAT
1 AAAATATGTAAAAAT
10115772 AAAAT
1 AAAAT
10115777 GAAAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAATATGTAAAAAT
Found at i:10122694 original size:16 final size:16
Alignment explanation
Indices: 10122659--10122696 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10122649 TTTCAAACAG
10122659 CTTATGTTTTAGAAGT
1 CTTATGTTTTAGAAGT
* *
10122675 -TTATGTTTTTGTAGT
1 CTTATGTTTTAGAAGT
10122690 CTTATGT
1 CTTATGT
10122697 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.58
Consensus pattern (16 bp):
CTTATGTTTTAGAAGT
Found at i:10131480 original size:19 final size:19
Alignment explanation
Indices: 10131449--10131486 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10131439 TTGCAATTTA
10131449 AATTTTTATTTTATTTTCT
1 AATTTTTATTTTATTTTCT
10131468 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
10131487 TCTGACAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:10137385 original size:13 final size:13
Alignment explanation
Indices: 10137367--10137396 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10137357 ACATATATCC
10137367 ATTTTCTTTTTTT
1 ATTTTCTTTTTTT
10137380 ATTTTCTTTTTTT
1 ATTTTCTTTTTTT
10137393 ATTT
1 ATTT
10137397 AAAAATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
ATTTTCTTTTTTT
Found at i:10138267 original size:2 final size:2
Alignment explanation
Indices: 10138243--10138298 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
10138233 TTACACCATG
* * * *
10138243 TA TA TA TT TT TA TA AA TA T- TA TA TA TA TA TA TA TA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10138283 TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
10138299 TGTGTACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:10142697 original size:2 final size:2
Alignment explanation
Indices: 10142648--10142685 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10142638 GATTGGTATG
10142648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10142686 GATAAGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10147163 original size:25 final size:25
Alignment explanation
Indices: 10147134--10147185 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10147124 TTGATAATTT
10147134 GGATGTGGTTGAAAGGGTCAGACAC
1 GGATGTGGTTGAAAGGGTCAGACAC
*
10147159 GGATGTGGTTGAAAGGGTCGGACAC
1 GGATGTGGTTGAAAGGGTCAGACAC
10147184 GG
1 GG
10147186 TATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.25, C:0.12, G:0.44, T:0.19
Consensus pattern (25 bp):
GGATGTGGTTGAAAGGGTCAGACAC
Found at i:10152492 original size:29 final size:30
Alignment explanation
Indices: 10152454--10152515 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
10152444 TTTTGGTGTT
10152454 TTATGATAGAATATGAGGTTTTAAATTATG
1 TTATGATAGAATATGAGGTTTTAAATTATG
10152484 TTAT-ATAGAATATGAGGTTTTAAATTATG
1 TTATGATAGAATATGAGGTTTTAAATTATG
10152513 TTA
1 TTA
10152516 GACAACTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 28 0.88
30 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (30 bp):
TTATGATAGAATATGAGGTTTTAAATTATG
Found at i:10153222 original size:46 final size:44
Alignment explanation
Indices: 10153169--10153344 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 44
10153159 TATTTGGGCA
*
10153169 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
10153215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
* *
10153263 -CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAA-G
* *
10153308 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10153345 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:10160000 original size:27 final size:27
Alignment explanation
Indices: 10159941--10160092 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
10159931 TTTGGTTTAC
*
10159941 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* ** *
10159967 AAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
10159994 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
10160021 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
10160048 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
10160075 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
10160093 TCGACCTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:10160051 original size:54 final size:54
Alignment explanation
Indices: 10159935--10160092 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 54
10159925 AAATACTTTG
* ** *
10159935 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCATTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
*
10159988 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
* * * *
10160042 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
10160093 TCGACCTGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 20 0.22
54 72 0.77
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:10160080 original size:81 final size:80
Alignment explanation
Indices: 10159941--10160164 Score: 204
Period size: 81 Copynumber: 2.8 Consensus size: 80
10159931 TTTGGTTTAC
* * **
10159941 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAA
1 AAAATTACCAAAATACCCTGCTTTGTAAAATTACCAAAATACCACTAATTTATAAAATTACCAAA
10160006 ATACCCCTAGTTTGT
66 ATACCCCTAGTTTGT
* * * **
10160021 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACCAAAATACCACTAATTTATAAAATTACCA
* **
10160085 AAATA-CCCTCGACCTGT
64 AAATACCCCTAG-TTTGT
*** * * *
10160102 AAAATTATTGAAATACCCTCGAC-TTGTAAAATTACCAAAGTACC-CTCGATTTATAGAATTACC
1 AAAATTACCAAAATACCCT-G-CTTTGTAAAATTACCAAAATACCACT-AATTTATAAAATTACC
10160165 GTTTTACCCT
Statistics
Matches: 116, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
80 27 0.23
81 88 0.76
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGCTTTGTAAAATTACCAAAATACCACTAATTTATAAAATTACCAAA
ATACCCCTAGTTTGT
Found at i:10160103 original size:54 final size:54
Alignment explanation
Indices: 10159941--10160164 Score: 211
Period size: 54 Copynumber: 4.2 Consensus size: 54
10159931 TTTGGTTTAC
** * * * *
10159941 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* * *
10159994 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGA-TTTGT
* * **
10160048 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * * *
10160102 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTTGT
*
10160156 AGAATTACC
1 AAAATTACC
10160165 GTTTTACCCT
Statistics
Matches: 137, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
53 19 0.14
54 116 0.85
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:10160106 original size:27 final size:27
Alignment explanation
Indices: 10160076--10160150 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
10160066 CTAATTTGTG
10160076 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
10160103 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
10160130 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
10160151 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:10160569 original size:27 final size:27
Alignment explanation
Indices: 10160142--10160568 Score: 547
Period size: 27 Copynumber: 15.8 Consensus size: 27
10160132 ATTACCAAAG
*
10160142 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
10160169 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
10160196 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
10160223 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
10160250 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
10160277 TACCCTC-AGTTTACAGAATTATTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
10160304 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
10160331 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
10160358 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
10160385 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
10160412 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
10160439 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
10160466 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
10160493 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
10160520 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
10160547 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
10160569 TAAAATACCC
Statistics
Matches: 356, Mismatches: 36, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.01
27 348 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:10160577 original size:27 final size:27
Alignment explanation
Indices: 10160520--10160579 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
10160510 ATTATCGTTT
* ****
10160520 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
10160547 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
10160574 TACCCT
1 TACCCT
10160580 TGGTTTGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:10161846 original size:25 final size:25
Alignment explanation
Indices: 10161817--10161864 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10161807 TTATAATATG
* * *
10161817 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10161842 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10161865 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10161939 original size:20 final size:20
Alignment explanation
Indices: 10161908--10161966 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
10161898 TAAATATGGT
*
10161908 ATGTATGATATGCACATGAA
1 ATGTACGATATGCACATGAA
* *
10161928 ATGTACGCTATGCACATGAT
1 ATGTACGATATGCACATGAA
*
10161948 ATGTATGATATGCACATGA
1 ATGTACGATATGCACATGA
10161967 GGTAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTACGATATGCACATGAA
Found at i:10162044 original size:24 final size:24
Alignment explanation
Indices: 10162017--10162159 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
10162007 GAGGAAGTGA
10162017 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
10162041 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
10162065 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
10162088 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
10162112 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
10162136 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
10162160 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:10162110 original size:47 final size:47
Alignment explanation
Indices: 10162017--10162159 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
10162007 GAGGAAGTGA
10162017 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
10162065 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
10162112 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
10162160 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:10162133 original size:71 final size:72
Alignment explanation
Indices: 10162017--10162160 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
10162007 GAGGAAGTGA
*
10162017 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
10162080 CCAGTTAT
65 CCAGTTAT
** * *
10162088 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
10162153 CAGTTAT
66 CAGTTAT
10162160 A
1 A
10162161 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:10162386 original size:31 final size:31
Alignment explanation
Indices: 10162351--10162483 Score: 185
Period size: 31 Copynumber: 4.1 Consensus size: 31
10162341 CGTTTACAGT
10162351 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
10162382 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
10162420 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
10162451 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
10162482 AA
1 AA
10162484 TACGAAAAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
31 61 0.66
33 1 0.01
36 1 0.01
38 29 0.32
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:10162420 original size:38 final size:38
Alignment explanation
Indices: 10162368--10162506 Score: 193
Period size: 38 Copynumber: 3.8 Consensus size: 38
10162358 TCGGCCCAGT
10162368 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
10162406 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T--
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
10162437 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
10162475 AATATGAAATACGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
10162507 GCATGATTGA
Statistics
Matches: 89, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
31 29 0.33
33 1 0.01
36 1 0.01
38 45 0.51
39 13 0.15
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:10162432 original size:69 final size:69
Alignment explanation
Indices: 10162351--10162506 Score: 276
Period size: 69 Copynumber: 2.2 Consensus size: 69
10162341 CGTTTACAGT
10162351 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAAC
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAAC
*
10162416 ATGA
66 ACGA
*
10162420 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAAT
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAAC
10162485 ACGA
66 ACGA
*
10162489 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
10162507 GCATGATTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
69 70 0.84
70 13 0.16
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAAATATGAAAC
ACGA
Found at i:10167702 original size:2 final size:2
Alignment explanation
Indices: 10167695--10167727 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10167685 CACCTCACTC
10167695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10167728 CCAAAACCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10173716 original size:30 final size:30
Alignment explanation
Indices: 10173680--10173737 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10173670 AAGCTAAGAA
10173680 CAGGAGTAGGGATGTCAATTAGGTGGAGAC
1 CAGGAGTAGGGATGTCAATTAGGTGGAGAC
*
10173710 CAGGAGTCGGGATGTCAATTAGGTGGAG
1 CAGGAGTAGGGATGTCAATTAGGTGGAG
10173738 TGGGTGCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.10, G:0.41, T:0.21
Consensus pattern (30 bp):
CAGGAGTAGGGATGTCAATTAGGTGGAGAC
Found at i:10175878 original size:38 final size:37
Alignment explanation
Indices: 10175822--10175955 Score: 151
Period size: 38 Copynumber: 3.5 Consensus size: 37
10175812 TATTATACAA
* * *
10175822 GCTTCGTGCGTAGCAGGCTTAATGCCGTTGTTATTCAA
1 GCTTTGTGCCTAGCAGGCTTAATGCCG-TGTTATTCAG
* * *
10175860 GCTTTATGCCTAGTAGGCTTAGTGCCAGTGTTATTCAG
1 GCTTTGTGCCTAGCAGGCTTAATGCC-GTGTTATTCAG
* **
10175898 GCTTTGTGCCTAGCAGGCTGAATGTTGATGTTATTCAG
1 GCTTTGTGCCTAGCAGGCTTAATGCCG-TGTTATTCAG
*
10175936 GCTTTGTGCCTAGCATGCTT
1 GCTTTGTGCCTAGCAGGCTT
10175956 CTTACCAGTG
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 78 0.98
39 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (37 bp):
GCTTTGTGCCTAGCAGGCTTAATGCCGTGTTATTCAG
Found at i:10175964 original size:76 final size:76
Alignment explanation
Indices: 10175822--10175966 Score: 173
Period size: 76 Copynumber: 1.9 Consensus size: 76
10175812 TATTATACAA
* * * * *
10175822 GCTTCGTGCGTAGCAGGCTTAATGCCGTTGTTATTCAAGCTTTATGCCTAGTAGGCTTAGTGCCA
1 GCTTCGTGCCTAGCAGGCTGAATGCCGATGTTATTCAAGCTTTATGCCTAGCAGGCTTAGTACCA
10175887 GTGTTATTCAG
66 GTGTTATTCAG
* ** * * * **
10175898 GCTTTGTGCCTAGCAGGCTGAATGTTGATGTTATTCAGGCTTTGTGCCTAGCATGCTTCTTACCA
1 GCTTCGTGCCTAGCAGGCTGAATGCCGATGTTATTCAAGCTTTATGCCTAGCAGGCTTAGTACCA
10175963 GTGT
66 GTGT
10175967 AATAAAATTT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
76 56 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (76 bp):
GCTTCGTGCCTAGCAGGCTGAATGCCGATGTTATTCAAGCTTTATGCCTAGCAGGCTTAGTACCA
GTGTTATTCAG
Found at i:10176988 original size:39 final size:41
Alignment explanation
Indices: 10176933--10177018 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 41
10176923 TTAAATACAT
10176933 TTAAAACAAATATTAAAACAAGAAACAAA-T-AAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTGAAAAATATA
* * * *
10176972 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATTGAAAAATATA
*
10177013 ATAAAA
1 TTAAAA
10177019 ATTAATTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 25 0.62
40 1 0.03
41 14 0.35
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAACAAATATTAAAACAAGAAACAAATTGAAAAATATA
Found at i:10177061 original size:29 final size:27
Alignment explanation
Indices: 10177004--10177069 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10176994 ACACAAATTG
* * *
10177004 AAAAATATAATAAAAATTAATTATATT
1 AAAAATAAAATTAAAATTAAATATATT
*
10177031 AAAATTAAAATTAAAATATAAATATGATT
1 AAAAATAAAATTAAAAT-TAAATAT-ATT
10177060 AAAAATAAAA
1 AAAAATAAAA
10177070 ATATATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 14 0.44
28 6 0.19
29 12 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAATAAAATTAAAATTAAATATATT
Found at i:10178156 original size:12 final size:12
Alignment explanation
Indices: 10178139--10178172 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10178129 TGGACCGCCC
10178139 ATATTAATTTTT
1 ATATTAATTTTT
*
10178151 ATATTATTTTTT
1 ATATTAATTTTT
10178163 ATA-TAATTTT
1 ATATTAATTTT
10178173 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:10180436 original size:37 final size:37
Alignment explanation
Indices: 10180394--10180469 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
10180384 AAATATTTTG
10180394 TTATACTTAATTATAAGTCTTTTCGTTATATTAAAAC
1 TTATACTTAATTATAAGTCTTTTCGTTATATTAAAAC
10180431 TTATACTTAATTATAAGTCTTTTCGTTATATTAAAAC
1 TTATACTTAATTATAAGTCTTTTCGTTATATTAAAAC
10180468 TT
1 TT
10180470 TGTAACAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (37 bp):
TTATACTTAATTATAAGTCTTTTCGTTATATTAAAAC
Found at i:10184446 original size:28 final size:28
Alignment explanation
Indices: 10184396--10184486 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 28
10184386 GTTCGCACCC
* * * *
10184396 TGCCACTTCGCGGTGCCATCTCGCATCT
1 TGCCACTTCGCAGAGTCAGCTCGCATCT
* * *
10184424 TGCCTCTTTGCAGAGTCAGCTCGCACCT
1 TGCCACTTCGCAGAGTCAGCTCGCATCT
** *
10184452 TGCCACTTCGTGGAGTCAGCTTGCATCT
1 TGCCACTTCGCAGAGTCAGCTCGCATCT
10184480 TG-CACTT
1 TGCCACTT
10184487 TGACACTTCG
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 5 0.10
28 45 0.90
ACGTcount: A:0.13, C:0.34, G:0.22, T:0.31
Consensus pattern (28 bp):
TGCCACTTCGCAGAGTCAGCTCGCATCT
Found at i:10189462 original size:17 final size:18
Alignment explanation
Indices: 10189442--10189475 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10189432 AAGTGAATTG
10189442 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
10189459 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
10189476 ATAAGGAATA
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:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:10190226 original size:20 final size:20
Alignment explanation
Indices: 10190203--10190251 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
10190193 GAAATTCTAA
*
10190203 AAGATAAATACAA-ATAAATT
1 AAGATAAATA-AAGATAAATG
*
10190223 AAGATAATTAAAGATAAATG
1 AAGATAAATAAAGATAAATG
*
10190243 AAAATAAAT
1 AAGATAAAT
10190252 CCTAGAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (20 bp):
AAGATAAATAAAGATAAATG
Found at i:10190891 original size:12 final size:12
Alignment explanation
Indices: 10190870--10190905 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
10190860 TAATACCTCA
*
10190870 TTCTTCTTTTTT
1 TTCTTTTTTTTT
10190882 TTCTTTTTTTTT
1 TTCTTTTTTTTT
10190894 TTCTCTTTTTTT
1 TTCT-TTTTTTT
10190906 AAATTCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:10190895 original size:14 final size:14
Alignment explanation
Indices: 10190876--10190905 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10190866 CTCATTCTTC
10190876 TTTTTTT-TCTTTT
1 TTTTTTTCTCTTTT
10190889 TTTTTTTCTCTTTT
1 TTTTTTTCTCTTTT
10190903 TTT
1 TTT
10190906 AAATTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTCTCTTTT
Found at i:10191884 original size:6 final size:6
Alignment explanation
Indices: 10191850--10191895 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
10191840 ATCTGAAAAT
10191850 AATAAA TAAT-AA AATAATA AGAT-AA AATAAA AATAAA AATAAA AAT
1 AATAAA -AATAAA AATAA-A A-ATAAA AATAAA AATAAA AATAAA AAT
10191896 TGGGTTGCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
6 22 0.63
7 6 0.17
8 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:10195641 original size:10 final size:10
Alignment explanation
Indices: 10195622--10195691 Score: 83
Period size: 10 Copynumber: 7.0 Consensus size: 10
10195612 TGAAATTCTA
10195622 AAAGATAAAT
1 AAAGATAAAT
10195632 ACAA-ATAAAT
1 A-AAGATAAAT
10195642 ACAA-ATAAAT
1 A-AAGATAAAT
*
10195652 AAAGATAATT
1 AAAGATAAAT
10195662 AAAGATAAAT
1 AAAGATAAAT
10195672 AAAGATAAAT
1 AAAGATAAAT
10195682 GAAA-ATAAAT
1 -AAAGATAAAT
10195692 CCTAGAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:10196235 original size:8 final size:9
Alignment explanation
Indices: 10196217--10196430 Score: 60
Period size: 9 Copynumber: 22.0 Consensus size: 9
10196207 TTTTGGTACG
10196217 ATAATTTTT
1 ATAATTTTT
10196226 ATAATTTTATT
1 ATAA-TTT-TT
*
10196237 ATAAGTTTT
1 ATAATTTTT
10196246 AT-ATTTCTT
1 ATAATTT-TT
10196255 -TAGATTTTCT
1 ATA-ATTTT-T
10196265 ATAATTTTCTT
1 ATAA-TTT-TT
* *
10196276 ATGA-CTTT
1 ATAATTTTT
*
10196284 ATAAACTTTT
1 AT-AATTTTT
10196294 ATAATTTTTTT
1 ATAA--TTTTT
* *
10196305 CTATATTTCT
1 ATA-ATTTTT
10196315 AT-ATATTTT
1 ATAAT-TTTT
10196324 ATAATTTTTTTT
1 ATAA---TTTTT
*
10196336 ATGATTTTT
1 ATAATTTTT
* *
10196345 GTAAAATTTT
1 AT-AATTTTT
10196355 ATAAATTTTT
1 AT-AATTTTT
10196365 -TATATTTTT
1 ATA-ATTTTT
*
10196374 ATATTTTTT
1 ATAATTTTT
* *
10196383 ATTAAAATTTA
1 A-T-AATTTTT
10196394 ATAATTTTT
1 ATAATTTTT
* *
10196403 AAAAATTTT
1 ATAATTTTT
*
10196412 ATTGATTTTT
1 A-TAATTTTT
*
10196422 ATTATTTTT
1 ATAATTTTT
10196431 TTGCCACATG
Statistics
Matches: 151, Mismatches: 29, Indels: 50
0.66 0.13 0.22
Matches are distributed among these distances:
8 11 0.07
9 59 0.39
10 45 0.30
11 26 0.17
12 9 0.06
13 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:10196303 original size:10 final size:10
Alignment explanation
Indices: 10196217--10196384 Score: 63
Period size: 10 Copynumber: 17.2 Consensus size: 10
10196207 TTTTGGTACG
10196217 ATAA-TTTTT
1 ATAATTTTTT
10196226 ATAATTTTATT
1 ATAATTTT-TT
*
10196237 ATAA-GTTTT
1 ATAATTTTTT
10196246 AT-ATTTCTTT
1 ATAATTT-TTT
* *
10196256 A-GATTTTCT
1 ATAATTTTTT
10196265 ATAATTTTCTT
1 ATAATTTT-TT
* *
10196276 ATGA--CTTT
1 ATAATTTTTT
**
10196284 ATAAACTTTT
1 ATAATTTTTT
10196294 ATAATTTTTT
1 ATAATTTTTT
* *
10196304 -TCTATATTTCT
1 AT-AAT-TTTTT
*
10196315 AT-ATATTTT
1 ATAATTTTTT
10196324 ATAATTTTTTTT
1 ATAA--TTTTTT
*
10196336 ATGATTTTTGT
1 ATAATTTTT-T
* *
10196347 AAAATTTTAT
1 ATAATTTTTT
10196357 A-AATTTTTT
1 ATAATTTTTT
10196366 AT-A-TTTTT
1 ATAATTTTTT
10196374 AT-ATTTTTT
1 ATAATTTTTT
10196383 AT
1 AT
10196385 TAAAATTTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
8 14 0.12
9 35 0.29
10 41 0.34
11 21 0.17
12 9 0.08
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:10196312 original size:61 final size:61
Alignment explanation
Indices: 10196245--10196365 Score: 147
Period size: 61 Copynumber: 2.0 Consensus size: 61
10196235 TTATAAGTTT
* * *
10196245 TATATTTCTTTAGATTTTCTATAA-TTTTCTTATGA-CTTTATAAACTTTTATAATTTTTTTC
1 TATATTTCTATAGA-TTT-TATAATTTTTCTTATGATCTTTATAAAATTTTATAAATTTTTTC
* * * *
10196306 TATATTTCTATATATTTTATAATTTTTTTTATGATTTTTGTAAAATTTTATAAATTTTTT
1 TATATTTCTATAGATTTTATAATTTTTCTTATGATCTTTATAAAATTTTATAAATTTTTT
10196366 ATATTTTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
59 5 0.10
60 13 0.25
61 33 0.65
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (61 bp):
TATATTTCTATAGATTTTATAATTTTTCTTATGATCTTTATAAAATTTTATAAATTTTTTC
Found at i:10196326 original size:30 final size:29
Alignment explanation
Indices: 10196281--10196384 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 29
10196271 TTCTTATGAC
*
10196281 TTTATAAACTTTTATAATTTTTTTCTATATT
1 TTTATATA-TTTTATAATTTTTTT-TATATT
*
10196312 TCTATATATTTTATAATTTTTTTTATGATT
1 TTTATATATTTTATAATTTTTTTTAT-ATT
* * *
10196342 TTTGTAAAATTTTATAA-ATTTTTTATATT
1 TTTAT-ATATTTTATAATTTTTTTTATATT
*
10196371 TTTATATTTTTTAT
1 TTTATATATTTTAT
10196385 TAAAATTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 7 0.11
29 10 0.16
30 29 0.47
31 16 0.26
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (29 bp):
TTTATATATTTTATAATTTTTTTTATATT
Found at i:10196354 original size:31 final size:29
Alignment explanation
Indices: 10196242--10196376 Score: 105
Period size: 30 Copynumber: 4.5 Consensus size: 29
10196232 TTATTATAAG
* *
10196242 TTTTATATTTCTT-TAGATTTTCTATAATTT
1 TTTTATATTT-TTATAAAATTT-TATAATTT
* * *
10196272 TCTTATGA-CTTTATAAACTTTTATAATTTT
1 TTTTAT-ATTTTTATAAAATTTTATAA-TTT
* *
10196302 TTTCTATATTTCTAT-ATATTTTATAATTTT
1 TTT-TATATTTTTATAAAATTTTATAA-TTT
* *
10196332 TTTTATGATTTTTGTAAAATTTTATAAATT
1 TTTTAT-ATTTTTATAAAATTTTATAATTT
10196362 TTTTATATTTTTATA
1 TTTTATATTTTTATA
10196377 TTTTTTATTA
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
29 18 0.21
30 48 0.57
31 18 0.21
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTATATTTTTATAAAATTTTATAATTT
Found at i:10196356 original size:19 final size:18
Alignment explanation
Indices: 10196332--10196413 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
10196322 TTATAATTTT
*
10196332 TTTTATGATTTTTGTAAAA
1 TTTTATAATTTTT-TAAAA
* *
10196351 TTTTATAAATTTTTTATAT
1 TTTTAT-AATTTTTTAAAA
*
10196370 TTTTATATTTTTTATTAAAA
1 TTTTATA-ATTTT-TTAAAA
* *
10196390 TTTAATAATTTTTAAAAA
1 TTTTATAATTTTTTAAAA
10196408 TTTTAT
1 TTTTAT
10196414 TGATTTTTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
18 11 0.22
19 23 0.46
20 16 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTTAAAA
Found at i:10196421 original size:39 final size:39
Alignment explanation
Indices: 10196332--10196425 Score: 104
Period size: 38 Copynumber: 2.4 Consensus size: 39
10196322 TTATAATTTT
* * * * *
10196332 TTTTATGATTTTT-GTAAAATTTTATAAATTTTTTATAT
1 TTTTATGATTTTTATTAAAATTTAATAAATTTTTAAAAA
10196370 TTTTAT-ATTTTTTATTAAAATTTAAT-AATTTTTAAAAA
1 TTTTATGA-TTTTTATTAAAATTTAATAAATTTTTAAAAA
10196408 TTTTATTGATTTTTATTA
1 TTTTA-TGATTTTTATTA
10196426 TTTTTTTGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.02
38 25 0.53
39 20 0.43
40 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (39 bp):
TTTTATGATTTTTATTAAAATTTAATAAATTTTTAAAAA
Found at i:10199184 original size:30 final size:30
Alignment explanation
Indices: 10199149--10199222 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
10199139 CTTAGCGACA
* *
10199149 TAAATAAAAACTTTT-GAATAATTCAGTATT
1 TAAATAAAAA-TTTTCGAATAATTCAATAAT
10199179 TAAATAAAAATTTTCGAATAATTCAATAAT
1 TAAATAAAAATTTTCGAATAATTCAATAAT
* *
10199209 TAAATTATAATTTT
1 TAAATAAAAATTTT
10199223 TTAATTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (30 bp):
TAAATAAAAATTTTCGAATAATTCAATAAT
Found at i:10202919 original size:101 final size:101
Alignment explanation
Indices: 10202744--10202948 Score: 356
Period size: 101 Copynumber: 2.0 Consensus size: 101
10202734 TGATCTTATT
*
10202744 CTTAGTTCTAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
1 CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
10202809 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
66 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
* * *
10202845 CTTAGTTCAAGTTTCATGCATTATGTTGGGAAGAGTATCTTGCATCCTAGATAAGTCTTTTTTCT
1 CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
* *
10202910 ACTTTAGGATTGAGCATATCCTGCAGGCATGCAATC
66 ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
10202946 CTT
1 CTT
10202949 CTGTTGCTGT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (101 bp):
CTTAGTTCAAGTTTCATCCATTATGTTGAGAAGAGTATCTTGCATCCTAGATAAATCTTTTTTCT
ACTTTAGGATTGAGCATATCCTACAGACATGCAATC
Found at i:10204228 original size:29 final size:29
Alignment explanation
Indices: 10204195--10204291 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
10204185 ATAGGTTAGA
*
10204195 GGCTTATTTAACTACAAAAATCGTATAAG
1 GGCTTATTTAACTACAAAAATAGTATAAG
* ** *
10204224 GGCTTCTTTAA--A-AAAATTATAGGCTAGG
1 GGCTTATTTAACTACAAAA--ATAGTATAAG
*
10204252 GGCTTATTTAACTACGAAAATAGTATAAG
1 GGCTTATTTAACTACAAAAATAGTATAAG
*
10204281 GGCTTCTTTAA
1 GGCTTATTTAA
10204292 ACAAAGAGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
26 4 0.08
27 1 0.02
28 16 0.31
29 27 0.52
30 1 0.02
31 3 0.06
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (29 bp):
GGCTTATTTAACTACAAAAATAGTATAAG
Found at i:10204245 original size:57 final size:57
Alignment explanation
Indices: 10204182--10204292 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
10204172 ATGGGTAAAC
* *
10204182 ATTATAGGTTAGAGGCTTATTTAACTACAAAAATCGTATAAGGGCTTCTTTAAAAAA
1 ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAAAAA
* *
10204239 ATTATAGGCTAGGGGCTTATTTAACTACGAAAATAGTATAAGGGCTTCTTTAAA
1 ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAA
10204293 CAAAGAGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (57 bp):
ATTATAGGCTAGAGGCTTATTTAACTACAAAAATAGTATAAGGGCTTCTTTAAAAAA
Found at i:10214858 original size:51 final size:50
Alignment explanation
Indices: 10214796--10214922 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 50
10214786 CATACCTTAA
*
10214796 TTCACACATAGAACTTTACATAATTAGTA-CACGTATATCTTGCATTCACTG
1 TTCACACATAGAACTTTACATAATTAGTAGCAC--ATATCTTGCATTCACAG
* *
10214847 TTTACACATAGAACTTTACATAATCAGTATGCACATATCTTGCATTCACAG
1 TTCACACATAGAACTTTACATAATTAGTA-GCACATATCTTGCATTCACAG
*
10214898 TTCATACATAGAACTTTACATAATT
1 TTCACACATAGAACTTTACATAATT
10214923 GACCGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
51 65 0.96
53 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (50 bp):
TTCACACATAGAACTTTACATAATTAGTAGCACATATCTTGCATTCACAG
Found at i:10227183 original size:51 final size:51
Alignment explanation
Indices: 10227088--10227194 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
10227078 CAAACATCTA
* * * *
10227088 TTCATATGAAATAACAGTTCTTACCAAATGATAGCTCATGCAAAATAATAG
1 TTCATATGAAATAACAGTTCATACCAAATAACAGCTCATGCAAAATAACAG
* * * * *
10227139 TTCATATGAAATATCAGTTCATATCGAATAACAGTTCATTCAAAATAACAG
1 TTCATATGAAATAACAGTTCATACCAAATAACAGCTCATGCAAAATAACAG
10227190 TTCAT
1 TTCAT
10227195 GCTCCATCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (51 bp):
TTCATATGAAATAACAGTTCATACCAAATAACAGCTCATGCAAAATAACAG
Found at i:10227185 original size:17 final size:17
Alignment explanation
Indices: 10227096--10227194 Score: 69
Period size: 17 Copynumber: 5.8 Consensus size: 17
10227086 TATTCATATG
*
10227096 AAATAACAGTTC-TTACC
1 AAATAACAGTTCATT-CA
* * * *
10227113 AAATGATAGCTCATGCA
1 AAATAACAGTTCATTCA
* *
10227130 AAATAATAGTTCATAT-G
1 AAATAACAGTTCAT-TCA
*
10227147 AAATATCAGTTCATATC-
1 AAATAACAGTTCAT-TCA
*
10227164 GAATAACAGTTCATTCA
1 AAATAACAGTTCATTCA
10227181 AAATAACAGTTCAT
1 AAATAACAGTTCAT
10227195 GCTCCATCAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
16 2 0.03
17 61 0.95
18 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATTCA
Done.