Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 55 of 93
Found at i:20999791 original size:21 final size:21
Alignment explanation
Indices: 20999765--20999851 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
20999755 CATTTTTCTC
* *
20999765 TTAAAACCTCTGGGTATATTT
1 TTAAAACCTCCGGGTACATTT
20999786 TTAAAACCTCCGGGTACATTT
1 TTAAAACCTCCGGGTACATTT
** *
20999807 TATAAAGTCTCCCGGTACATTT
1 T-TAAAACCTCCGGGTACATTT
* *
20999829 TCAAAACCTCCGGGCACATTT
1 TTAAAACCTCCGGGTACATTT
20999850 TT
1 TT
20999852 CTCTCAAAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 36 0.67
22 18 0.33
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (21 bp):
TTAAAACCTCCGGGTACATTT
Found at i:21000517 original size:20 final size:20
Alignment explanation
Indices: 21000474--21000518 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
21000464 AGAGTGTGGG
21000474 TTTT-GATTTTTAGGGGTAGA
1 TTTTGGATTTTTAGGGG-AGA
21000494 -TTTGGATTTTTAGGAGG-GA
1 TTTTGGATTTTTAGG-GGAGA
21000513 TTTTGG
1 TTTTGG
21000519 GTAACCGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (20 bp):
TTTTGGATTTTTAGGGGAGA
Found at i:21006848 original size:23 final size:23
Alignment explanation
Indices: 21006822--21006898 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
21006812 TTTATATATA
21006822 TACATATTAGTATAATATAGAGG
1 TACATATTAGTATAATATAGAGG
* **
21006845 TACATAGATTCA-TCACAATCAT-G-TT
1 TACAT--ATT-AGT-ATAAT-ATAGAGG
21006870 TACATATTAGTATAATATAGAGG
1 TACATATTAGTATAATATAGAGG
21006893 TACATA
1 TACATA
21006899 GATTCATCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 16
0.65 0.10 0.26
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 15 0.38
25 9 0.22
26 6 0.15
27 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
TACATATTAGTATAATATAGAGG
Found at i:21006893 original size:48 final size:48
Alignment explanation
Indices: 21006822--21006917 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
21006812 TTTATATATA
21006822 TACATATTAGTATAATATAGAGGTACATAGATTCATCACAATCATGTT
1 TACATATTAGTATAATATAGAGGTACATAGATTCATCACAATCATGTT
21006870 TACATATTAGTATAATATAGAGGTACATAGATTCATCACAATCATGTT
1 TACATATTAGTATAATATAGAGGTACATAGATTCATCACAATCATGTT
21006918 CCATATCACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (48 bp):
TACATATTAGTATAATATAGAGGTACATAGATTCATCACAATCATGTT
Found at i:21015856 original size:34 final size:34
Alignment explanation
Indices: 21015813--21015882 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
21015803 TGTATGACTT
*
21015813 AGGTGTATGAGTTCTTATGATTCTCATTCATTAA
1 AGGTGTATGAGTGCTTATGATTCTCATTCATTAA
21015847 AGGTGTATGAGTGCTTATGATTCTCATTCATTAA
1 AGGTGTATGAGTGCTTATGATTCTCATTCATTAA
21015881 AG
1 AG
21015883 TCTAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (34 bp):
AGGTGTATGAGTGCTTATGATTCTCATTCATTAA
Found at i:21016942 original size:74 final size:74
Alignment explanation
Indices: 21016802--21016942 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
21016792 AGATTACAAA
** * * * *
21016802 ATAGAGAAGACTTAATCGGCTAAGAAGTATAGTTAGCCAGCTAAAAGCTCACTGCCAAAGATTTT
1 ATAGAGAAGACTTAATCAACTAAGAAGTATAGTTAGCAAACTAAAAGCTCACTACCAAAGAATTT
21016867 GATTGTGAG
66 GATTGTGAG
* * * *
21016876 ATAGGGAAGACTTAATCAACTAAGAAGTATGGTTAGTAAACTAAAAGCTCACTATCAGAA-AATT
1 ATAGAGAAGACTTAATCAACTAAGAAGTATAGTTAGCAAACTAAAAGCTCACTACCA-AAGAATT
21016940 TGA
65 TGA
21016943 AATTAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 54 0.96
75 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (74 bp):
ATAGAGAAGACTTAATCAACTAAGAAGTATAGTTAGCAAACTAAAAGCTCACTACCAAAGAATTT
GATTGTGAG
Found at i:21031110 original size:5 final size:5
Alignment explanation
Indices: 21031100--21031125 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21031090 GTGTGGCCCC
21031100 AAGTT AAGTT AAGTT AAGTT AAGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT A
21031126 TATCAGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
AAGTT
Found at i:21039238 original size:42 final size:43
Alignment explanation
Indices: 21039167--21039267 Score: 143
Period size: 42 Copynumber: 2.3 Consensus size: 43
21039157 TAAAATTAAT
*
21039167 TAAAATTATTAATATTTTAATCATATTAAT-ATTTAAATTATAAA
1 TAAAA-TATTAATATTTTAATAATATTAATGA-TTAAATTATAAA
*
21039211 TAAAATATTAATATTTTAA-AATGTTAATGATTAAATTATAAA
1 TAAAATATTAATATTTTAATAATATTAATGATTAAATTATAAA
*
21039253 TAAAAGATTAATATT
1 TAAAATATTAATATT
21039268 AATATTTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 33 0.62
43 15 0.28
44 5 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (43 bp):
TAAAATATTAATATTTTAATAATATTAATGATTAAATTATAAA
Found at i:21039356 original size:46 final size:46
Alignment explanation
Indices: 21039305--21039396 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
21039295 TATTTTAAAA
21039305 AAGAAAAAAGTTTAAAATTTTATTTATATATTAT-AAAAATAATAT
1 AAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATAT
21039350 NAAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATAT
1 -AAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATAT
21039397 TTAAAATTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 34 0.76
47 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.39
Consensus pattern (46 bp):
AAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATAT
Found at i:21039812 original size:18 final size:19
Alignment explanation
Indices: 21039779--21039814 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21039769 TATATTATAA
*
21039779 AAAATAATATTTCAAATTG
1 AAAATAATAATTCAAATTG
21039798 AAAAT-ATAATTCAAATT
1 AAAATAATAATTCAAATT
21039815 ATTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAATAATAATTCAAATTG
Found at i:21039860 original size:197 final size:191
Alignment explanation
Indices: 21039351--21040055 Score: 842
Period size: 197 Copynumber: 3.6 Consensus size: 191
21039341 AAATAATATN
* *
21039351 AAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATATTTAAAATTCAAAAATGAAT
1 AAGAAAAAA-TTTAAAATTTTAATTATATATTAT-AAAAATAATATTTAAAATT-AAAAATTAAT
* * * * * **
21039416 TCAAATTATTAATATTTTAATCTTAATAACATTTCAAGTATAAATAACATATTAATATTTTTAAA
63 TAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGAAAA
* * *
21039481 TATTAATGATTAAATTATAAATCAAATAATAATATTTAAATTATCAATAATTAATATTATTACAA
128 TGTTAATGATTAAATTATAAATAAAAT-ATAATATTTAAATTATCAATAA--AATATTATTATAA
21039546 AA
190 AA
* * * * * * *
21039548 AAGAAGAAAGTTCAAATTTTTAGTTGTATATTATAAATATAATATTTTAAATTAAAAATTAATTA
1 AAGAA-AAAATTTAAAATTTTAATTATATATTATAAAAATAATATTTAAAATTAAAAATTAATTA
** *
21039613 AAATTATTAATATTTTAATTTTAATAACATTTAAATTATAAATAAAATATTAATATTTGGAAA-G
65 AAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGAAAATG
* * * * *
21039677 TTAATTAATAAATTATAAATAAAATATCAATATTTAAATGATCAGCTACAAATATTATTGTAAAA
130 TTAATGATTAAATTATAAATAAAATAT-AATATTTAAATTATCA-ATA-AAATATTATTATAAAA
* * *
21039742 AAGAAAAAATTTAAAAAATTTAAATTATATATTATAAAAAATAATATTTCAAATTGAAAATATAA
1 AAGAAAAAATTT--AAAATTTTAATTATATATTAT-AAAAATAATATTTAAAATTAAAAAT-TAA
* * *
21039807 TTCAAATTATTAATATTTTAATCACAATAACATTTAAATTATAAATCAAATATTAATATTTGAAA
62 TTAAAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGAAA
* * *
21039872 ATGTTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTTATG
127 ATGTTAATGATTAAATTATAAATAAAATA-TAATATTTAAATTATCAA-TA-AAATATTATTATA
* *
21039937 GAG
189 AAA
* *
21039940 AAGAAAAAAATTTAAAATTTTAATTATATATTAT-AAAA-AA-ATTTAAAATTTAAAATTAATAA
1 AAG-AAAAAATTTAAAATTTTAATTATATATTATAAAAATAATATTTAAAATTAAAAATTAATTA
* *
21040002 AAATTATTAAGATTTTTATCATAATAACATTTAAATTATAAATAAAATATTAAT
65 AAATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAAT
21040056 GTATGGTGTT
Statistics
Matches: 438, Mismatches: 58, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
192 54 0.12
193 21 0.05
194 57 0.13
195 90 0.21
196 40 0.09
197 108 0.25
198 58 0.13
199 10 0.02
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (191 bp):
AAGAAAAAATTTAAAATTTTAATTATATATTATAAAAATAATATTTAAAATTAAAAATTAATTAA
AATTATTAATATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGAAAATGT
TAATGATTAAATTATAAATAAAATATAATATTTAAATTATCAATAAAATATTATTATAAAA
Found at i:21039866 original size:392 final size:388
Alignment explanation
Indices: 21039351--21040055 Score: 1038
Period size: 392 Copynumber: 1.8 Consensus size: 388
21039341 AAATAATATN
* *
21039351 AAGAAAAAAGTTTAAAATTTTATTTATATATTATAAAAAATAATATTTAAAATTCAAAAATGAAT
1 AAGAAAAAAGTTTAAAATTTAAATTATATATTATAAAAAATAATATTTAAAATTCAAAAATGAAT
** * **
21039416 TCAAATTATTAATATTTTAATCTTAATAACATTTCAAGTATAAATAACATATTAATATTTTTAAA
66 TCAAATTATTAATATTTTAATCACAATAACATTTAAAGTATAAATAACATATTAATATTTGAAAA
*
21039481 TATTAATGATTAAATTATAAATCAAATAATAATATTTAAATTATCAATAATTAATATTATTACAA
131 TATTAATGATTAAATTATAAATAAAATAATAATATTTAAATTATCAATAATTAATATTATTACAA
* * * * * *
21039546 AAAAGAAGAAAGTTCAAATTTTTAGTTGTATATTATAAATATAATATTTTAAATTAAAAATTAAT
196 AAAAGAAAAAAATTCAAAATTTTAATTATATATTATAAA-A-AA-ATTTAAAATTAAAAATTAAT
* * **
21039611 TAAAATTATTAATATTTTAATTTTAATAACATTTAAATTATAAATAAAATATTAATATTTGGAAA
258 AAAAATTATTAAGATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGGAAA
21039676 GTTAATTAATAAATTATAAATAAAATATCAATATTTAAATGATCAGCTACAAATATTATTGTAAA
323 GTTAATTAATAAATTATAAATAAAATATCAATATTTAAATGATCAGCTACAAATATTATTGTAAA
21039741 A
388 A
* *
21039742 AAGAAAAAA-TTTAAAAAATTTAAATTATATATTATAAAAAATAATATTTCAAATTGAAAATAT-
1 AAGAAAAAAGTTT--AAAATTTAAATTATATATTATAAAAAATAATATTTAAAATTCAAAA-ATG
*
21039805 AATTCAAATTATTAATATTTTAATCACAATAACATTTAAATTATAAATCAA-ATATTAATATTTG
63 AATTCAAATTATTAATATTTTAATCACAATAACATTTAAAGTATAAAT-AACATATTAATATTTG
* * * *
21039869 AAAATGTTAATGATTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATATTTTT
127 AAAATATTAATGATTAAATTATAAATAAAATAATAATATTTAAATTATCAATAATTAATATTATT
*** * * *
21039934 ATGGAGAAGAAAAAAATTTAAAATTTTAATTATATATTATAAAAAAATTTAAAATTTAAAATTAA
192 ACAAAAAAGAAAAAAATTCAAAATTTTAATTATATATTATAAAAAAATTTAAAATTAAAAATTAA
*
21039999 TAAAAATTATTAAGATTTTTATCATAATAACATTTAAATTATAAATAAAATATTAAT
257 TAAAAATTATTAAGATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAAT
21040056 GTATGGTGTT
Statistics
Matches: 278, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
389 69 0.25
390 5 0.02
391 10 0.04
392 190 0.68
393 4 0.01
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (388 bp):
AAGAAAAAAGTTTAAAATTTAAATTATATATTATAAAAAATAATATTTAAAATTCAAAAATGAAT
TCAAATTATTAATATTTTAATCACAATAACATTTAAAGTATAAATAACATATTAATATTTGAAAA
TATTAATGATTAAATTATAAATAAAATAATAATATTTAAATTATCAATAATTAATATTATTACAA
AAAAGAAAAAAATTCAAAATTTTAATTATATATTATAAAAAAATTTAAAATTAAAAATTAATAAA
AATTATTAAGATTTTAATCATAATAACATTTAAATTATAAATAAAATATTAATATTTGGAAAGTT
AATTAATAAATTATAAATAAAATATCAATATTTAAATGATCAGCTACAAATATTATTGTAAAA
Found at i:21042051 original size:42 final size:42
Alignment explanation
Indices: 21041955--21042083 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 42
21041945 AAAAAATTAT
* *
21041955 TAAAATTATTAATATTTTAATAAAAATAAT-ATTTAAATTATAAA
1 TAAAA-TATTAATATTTTAA-AATATTAATGA-TTAAATTATAAA
* * *
21041999 TAAAACATTAATATTTTAAAATGTTAATGATTAACTTATAAA
1 TAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAA
* * *
21042041 TAAAATATTAATA-TTTAAATTATGAATGATTAATATTTTAAA
1 TAAAATATTAATATTTTAAAATATTAATGATTAA-ATTATAAA
21042083 T
1 T
21042084 TATTTATAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 17 0.24
42 36 0.50
43 14 0.19
44 5 0.07
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (42 bp):
TAAAATATTAATATTTTAAAATATTAATGATTAAATTATAAA
Found at i:21044281 original size:68 final size:69
Alignment explanation
Indices: 21044202--21044439 Score: 186
Period size: 68 Copynumber: 3.5 Consensus size: 69
21044192 CATGTTTCAA
21044202 ATAG-TATGTGGGAACAACATCACATACATGGCAACATAACATATATC-AATTGCTCATTCTTAC
1 ATAGATATGTGGGAACAACATCACATACATGGCAACATAACATATATCTAA-TGCTCATTCTTAC
*
21044265 CTTAT
65 CTCAT
* * * * * * * * * * ** *
21044270 GTA-ATATGTGGGATCAACCTTACAGACATGTCATCATAGCATATTTCTCATGCTTGTTCTTATC
1 ATAGATATGTGGGAACAACATCACATACATGGCAACATAACATATATCTAATGCTCATTCTTACC
21044334 TCAT
66 TCAT
* * * *
21044338 ATAGA-ATGTGGAAACAACATCACATACATCGCAACATAACATCTAT-T-ATGCACTCATCCTTA
1 ATAGATATGTGGGAACAACATCACATACATGGCAACATAACATATATCTAATG--CTCATTCTTA
** *
21044400 TTTCAC
64 CCTCAT
* *
21044406 ATA-ACATGT-GGAACAACATCACATACATTGCAAC
1 ATAGATATGTGGGAACAACATCACATACATGGCAAC
21044440 TTGACAAATT
Statistics
Matches: 131, Mismatches: 33, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
66 3 0.02
67 25 0.19
68 101 0.77
69 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (69 bp):
ATAGATATGTGGGAACAACATCACATACATGGCAACATAACATATATCTAATGCTCATTCTTACC
TCAT
Found at i:21045826 original size:16 final size:16
Alignment explanation
Indices: 21045805--21045840 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21045795 TCTTTGCTTA
21045805 ATTAAGATTGAAACTC
1 ATTAAGATTGAAACTC
21045821 ATTAAGATTGAAACTC
1 ATTAAGATTGAAACTC
21045837 ATTA
1 ATTA
21045841 TCTCTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (16 bp):
ATTAAGATTGAAACTC
Found at i:21046063 original size:14 final size:14
Alignment explanation
Indices: 21046044--21046091 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21046034 ACTTTATTTA
21046044 TGTTTGATGTAATT
1 TGTTTGATGTAATT
* *
21046058 TGTTTGCT-TATTT
1 TGTTTGATGTAATT
21046071 ATGTTTGATGTAATT
1 -TGTTTGATGTAATT
*
21046086 TATTTG
1 TGTTTG
21046092 TTTGTACCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (14 bp):
TGTTTGATGTAATT
Found at i:21046095 original size:32 final size:28
Alignment explanation
Indices: 21046037--21046091 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
21046027 GATTGAAACT
21046037 TTATTTATGTTTGATGTAATTTGTTTGC
1 TTATTTATGTTTGATGTAATTTGTTTGC
*
21046065 TTATTTATGTTTGATGTAATTTATTTG
1 TTATTTATGTTTGATGTAATTTGTTTG
21046092 TTTGTACCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.62
Consensus pattern (28 bp):
TTATTTATGTTTGATGTAATTTGTTTGC
Found at i:21050495 original size:142 final size:143
Alignment explanation
Indices: 21050244--21050517 Score: 478
Period size: 142 Copynumber: 1.9 Consensus size: 143
21050234 TTTGTTAATA
21050244 GAATAACCCCCATTAACCATGGGCAATAACCAACATTTCACATCTTATCATCGAATACTCATTCT
1 GAATAACCCCCATTAACCATGGGCAATAACCAACATTTCACATCTTATCATCGAATACTCATTCT
* *
21050309 GTAATTCACCATCATTCATTAAACACAAAGTGTACATTTCACATTAAATTGT-CCCTCATACTCA
66 GTAATTCAACATCATTCATTAAACACAAAGTGTACATTTCACATTAAATTGTGCCCTAATACTCA
21050373 TAACATGTTAACG
131 TAACATGTTAACG
21050386 GAATAACCCCCATTAACCATGGGCAATAACCAACATTTCACATCTTATCATCGAATACTCATTCT
1 GAATAACCCCCATTAACCATGGGCAATAACCAACATTTCACATCTTATCATCGAATACTCATTCT
* * * * *
21050451 GTAATTCAACGTCTTTCATTAAACACATAGTGTACATTTGACATTATATTGTGCCCTAATACTCA
66 GTAATTCAACATCATTCATTAAACACAAAGTGTACATTTCACATTAAATTGTGCCCTAATACTCA
21050516 TA
131 TA
21050518 GTATGTGGTA
Statistics
Matches: 124, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
142 111 0.90
143 13 0.10
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (143 bp):
GAATAACCCCCATTAACCATGGGCAATAACCAACATTTCACATCTTATCATCGAATACTCATTCT
GTAATTCAACATCATTCATTAAACACAAAGTGTACATTTCACATTAAATTGTGCCCTAATACTCA
TAACATGTTAACG
Found at i:21051731 original size:27 final size:27
Alignment explanation
Indices: 21051701--21051757 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
21051691 TCGGAGTAAA
*
21051701 AGGGCAAAAT-AGTAATTTTTTCACCCC
1 AGGGC-AAATCAGTAAATTTTTCACCCC
*
21051728 AGGGGCAAATCGGTAAATTTTTCACCCC
1 A-GGGCAAATCAGTAAATTTTTCACCCC
21051756 AG
1 AG
21051758 CACTTGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (27 bp):
AGGGCAAATCAGTAAATTTTTCACCCC
Found at i:21053045 original size:42 final size:42
Alignment explanation
Indices: 21052986--21053108 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
21052976 GTTGATTTGA
21052986 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
21053028 ACCCGACTATGTGCGAGTAGGAGTGCATATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
* *
21053070 ACCCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
21053109 TTGCCCCCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:21053379 original size:26 final size:26
Alignment explanation
Indices: 21053343--21053404 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
21053333 TTGCATATGA
21053343 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
21053369 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
21053395 GTTGATGATG
1 GATGATGATG
21053405 GGTATATGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:21058451 original size:73 final size:72
Alignment explanation
Indices: 21058360--21058554 Score: 221
Period size: 73 Copynumber: 2.7 Consensus size: 72
21058350 ATCTTCAGAC
* * * *
21058360 AGAATGCTCTTAGTCGACTAACTAGGCTTCTTAATCGATTAAGTCATCTCAGTCTCTGAACCCAG
1 AGAA-GCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCAGTCTCTGAACCCAA
21058425 TTTCTAAGA
65 TTTCT-AGA
* * * * * * *
21058434 ATG-AGCTCTTAGTCGACTAACAATACTTCTTAGTTGATTAAGTCGTTTCTGTCTTTGAACCTAA
1 A-GAAGCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCAGTCTCTGAACCCAA
* *
21058498 TTTCTGGC
65 TTTCTAGA
*
21058506 AGCAAGCTCTTAGTCAACTAACAATGCTTCTTAGTCGATTAAGTCATCT
1 AG-AAGCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCT
21058555 TTGTTTCTGA
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
71 1 0.01
72 2 0.02
73 94 0.94
74 2 0.02
75 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (72 bp):
AGAAGCTCTTAGTCGACTAACAATGCTTCTTAGTCGATTAAGTCATCTCAGTCTCTGAACCCAAT
TTCTAGA
Found at i:21062005 original size:31 final size:32
Alignment explanation
Indices: 21061970--21062042 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
21061960 GGATATTTGA
** *
21061970 TACGCTTGGTTAAGTGGGA-TTGACTTGTGAT
1 TACGCTTGGACAAGTGGGAGTTGACTTATGAT
* * *
21062001 TACGCGTAGACAAGTGGGAGTTGATTTATGAT
1 TACGCTTGGACAAGTGGGAGTTGACTTATGAT
21062033 TACGCTTGGA
1 TACGCTTGGA
21062043 AAGGCAGGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (32 bp):
TACGCTTGGACAAGTGGGAGTTGACTTATGAT
Found at i:21063370 original size:13 final size:14
Alignment explanation
Indices: 21063342--21063382 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
21063332 TTTGAAATAA
*
21063342 AATAATATTTTATT
1 AATAATATTATATT
21063356 AATAA-ATTATATT
1 AATAATATTATATT
21063369 AA-AATATTAATATT
1 AATAATATT-ATATT
21063383 TTATCTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 12 0.50
14 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATAATATTATATT
Found at i:21081708 original size:20 final size:19
Alignment explanation
Indices: 21081667--21081708 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
21081657 GGGGTTTTAG
*
21081667 TGAGAAACCCTCGGCCAAT
1 TGAGAAACCCTCGACCAAT
*
21081686 TGAGAAAACCCTCGACCAGT
1 TGAG-AAACCCTCGACCAAT
21081706 TGA
1 TGA
21081709 TAAATTGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (19 bp):
TGAGAAACCCTCGACCAAT
Found at i:21095533 original size:43 final size:43
Alignment explanation
Indices: 21095424--21095542 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 43
21095414 TCACCAGCTC
* ** *
21095424 ATGCGCACTCCCTACTCGCACATGGTTGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
* * *
21095467 ATGCGCATTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
* * *
21095510 ATGCGCACTCCCTACTTGTACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAGCCGGGTCA
21095543 ACATAATTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAGCCGGGTCATCATCGGCTT
Found at i:21107764 original size:63 final size:63
Alignment explanation
Indices: 21107686--21107813 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
21107676 AAACCTTATT
* *
21107686 TTTCTTTGACATCTTTTA-AGAAGCTTTAAAGTCAATATTTTTAAATTGTTGTCTTAAAAATAC
1 TTTCTTCGACATCTTTTACA-AAGCTTTAAAGCCAATATTTTTAAATTGTTGTCTTAAAAATAC
* *
21107749 TTTCTTCGACATCTTTTACAAAGCTTTAAAGCCAATATTTTTAAATTGTTTTCTTGAAAATAC
1 TTTCTTCGACATCTTTTACAAAGCTTTAAAGCCAATATTTTTAAATTGTTGTCTTAAAAATAC
21107812 TT
1 TT
21107814 AAACGTTTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 59 0.98
64 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.46
Consensus pattern (63 bp):
TTTCTTCGACATCTTTTACAAAGCTTTAAAGCCAATATTTTTAAATTGTTGTCTTAAAAATAC
Found at i:21109065 original size:21 final size:23
Alignment explanation
Indices: 21109030--21109071 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
21109020 AATGACCAAA
*
21109030 AATATCTATAAACAAACAAAAGT
1 AATATCTATAAACAAAAAAAAGT
21109053 AATAT-TA-AAACAAAAAAAA
1 AATATCTATAAACAAAAAAAA
21109072 TAAAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (23 bp):
AATATCTATAAACAAAAAAAAGT
Found at i:21109720 original size:197 final size:196
Alignment explanation
Indices: 21109385--21109776 Score: 703
Period size: 197 Copynumber: 2.0 Consensus size: 196
21109375 TGATTAAACT
21109385 CAATAGATATAAGTCTAGGATTACAATATCCCTCACATTTCATCTAAATTTTATCTTTCTTCCTT
1 CAATAGATATAAGTCTAGGATTACAATATCCCTCACATTTCATCTAAATTTTATCTTTCTTCCTT
21109450 AACTTATTTCAATGGGTTGAATTGCTGACTTATAGTCCTCAATTATTTATAAAAGTATCTCGACT
66 AACTTATTTCAATGGGTTGAATTGCTGACTTATAGTCCTCAATTATTTATAAAAGTATCTCGACT
* * * *
21109515 TATCTTATAAAAATATCTACTTTAAACAAAACACTATATTCCAATGTGAATTGAAATTAAAATAG
131 CATCTTATAAAAATATATACTTTAAACAAAACACTATATCCCAATCTGAATTGAAATTAAAATAG
21109580 G
196 G
21109581 NCAATAGATATAAGTCTAGGATTACAATATCCCTCACATTTCATCTAAATTTTATCTTTCTTCCT
1 -CAATAGATATAAGTCTAGGATTACAATATCCCTCACATTTCATCTAAATTTTATCTTTCTTCCT
21109646 TAACTTATTTCAATGGGTTGAATTGCTGACTTATAGTCCTCAATTATTTATAAAAGTATCTCGAC
65 TAACTTATTTCAATGGGTTGAATTGCTGACTTATAGTCCTCAATTATTTATAAAAGTATCTCGAC
* * * *
21109711 TCATCTTATAAAAATATATATTTTAACCAAAACACTATATCCCTATCTTAATTGAAATTAAAATA
130 TCATCTTATAAAAATATATACTTTAAACAAAACACTATATCCCAATCTGAATTGAAATTAAAATA
21109776 G
195 G
21109777 ATTTATTAGG
Statistics
Matches: 187, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 187 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (196 bp):
CAATAGATATAAGTCTAGGATTACAATATCCCTCACATTTCATCTAAATTTTATCTTTCTTCCTT
AACTTATTTCAATGGGTTGAATTGCTGACTTATAGTCCTCAATTATTTATAAAAGTATCTCGACT
CATCTTATAAAAATATATACTTTAAACAAAACACTATATCCCAATCTGAATTGAAATTAAAATAG
G
Found at i:21124082 original size:16 final size:16
Alignment explanation
Indices: 21124061--21124093 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21124051 CACATTGGCA
21124061 TCAATTTATAC-CATTC
1 TCAATTTA-ACTCATTC
21124077 TCAATTTAACTCATTC
1 TCAATTTAACTCATTC
21124093 T
1 T
21124094 GCATTCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (16 bp):
TCAATTTAACTCATTC
Found at i:21134911 original size:47 final size:47
Alignment explanation
Indices: 21134850--21134970 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
21134840 TTTTTGCATA
*
21134850 AAATTTTACTTAACAAATAAGTAAAATAATTACATCATGCATTTTAT
1 AAATTTTACATAACAAATAAGTAAAATAATTACATCATGCATTTTAT
* *
21134897 AAATTTTACCTAACAAATAAGTAAAATAATTACGTCATGCATTTTAT
1 AAATTTTACATAACAAATAAGTAAAATAATTACATCATGCATTTTAT
*
21134944 AAATTTTACAAAACAAATAAGTAAAAT
1 AAATTTTACATAACAAATAAGTAAAAT
21134971 CATAAGAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.35
Consensus pattern (47 bp):
AAATTTTACATAACAAATAAGTAAAATAATTACATCATGCATTTTAT
Found at i:21138002 original size:21 final size:20
Alignment explanation
Indices: 21137978--21138024 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
21137968 ATCTTACCTT
*
21137978 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
21137999 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
21138020 TTTTT
1 TTTTT
21138025 TCACCTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:21138024 original size:22 final size:22
Alignment explanation
Indices: 21137983--21138023 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
21137973 ACCTTTTTTT
*
21137983 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
21138005 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
21138024 TTCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:21138309 original size:27 final size:28
Alignment explanation
Indices: 21138267--21138324 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
21138257 TGGACAAGTG
* *
21138267 TTGGGTGATGCAAAATTACAATTTTGCCC
1 TTGGGTGA-GCAAAATGACAATTTTACCC
*
21138296 TTGGGTG-GCAAAATGACTATTTTACCC
1 TTGGGTGAGCAAAATGACAATTTTACCC
21138323 TT
1 TT
21138325 ATGCTCGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 19 0.73
29 7 0.27
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (28 bp):
TTGGGTGAGCAAAATGACAATTTTACCC
Found at i:21141322 original size:25 final size:25
Alignment explanation
Indices: 21141265--21141327 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
21141255 CCCATTTATT
*
21141265 TTTATTTCCTATTGGGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
* *
21141290 CTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
*
21141315 TTTATTTTTTATT
1 TTTATTTTCTATT
21141328 TCTTTTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.51
Consensus pattern (25 bp):
TTTATTTTCTATTGGGCCATGCCCA
Found at i:21141348 original size:15 final size:15
Alignment explanation
Indices: 21141330--21141359 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21141320 TTTTTATTTC
*
21141330 TTTTCTTTTCTTTTT
1 TTTTCCTTTCTTTTT
21141345 TTTTCCTTTCTTTTT
1 TTTTCCTTTCTTTTT
21141360 CTCTCTTCCA
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:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCCTTTCTTTTT
Found at i:21141349 original size:20 final size:21
Alignment explanation
Indices: 21141319--21141358 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21141309 TGCCCATTTA
*
21141319 TTTTTTATTTCTTTTCTTTTC
1 TTTTTTATTTCCTTTCTTTTC
21141340 TTTTTT-TTTCCTTTCTTTT
1 TTTTTTATTTCCTTTCTTTT
21141359 TCTCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTATTTCCTTTCTTTTC
Found at i:21141592 original size:24 final size:25
Alignment explanation
Indices: 21141560--21141606 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
21141550 CTCAAATTTT
21141560 CAGCAACAAAACT-TCTCAATTTTGG
1 CAGCAACAAAACTATC-CAATTTTGG
*
21141585 CAGC-ACAAAGCTATCCAATTTT
1 CAGCAACAAAACTATCCAATTTT
21141607 CTTGCACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.28
Consensus pattern (25 bp):
CAGCAACAAAACTATCCAATTTTGG
Found at i:21143673 original size:136 final size:136
Alignment explanation
Indices: 21143443--21143731 Score: 350
Period size: 136 Copynumber: 2.1 Consensus size: 136
21143433 ATGACCTAGA
* ** * *
21143443 GGCAAATTGGTCATTTTGCCACCTGAGGTTAAAATTGGAATGTTGGAAGAAGTTTTTAATCAATA
1 GGCAAAATGGTCATTTTGCCACCTGAGGGCAAAATTGGAATGTTGGAAGAAGTTTTGAATAAATA
* * ** * *
21143508 TTGACTATTTAGAACATAATTTGAGTTTGAGAAGTGAAAAATTTTAATTTCGGTATTTTTCTGAG
66 TTGACTAATTAGAACATAATTTGAATTTGAGAAGTGAAAAATTTTAATTTCGACATTTTTCTAAA
21143573 CATAAG
131 CATAAG
* * *
21143579 GGCAAAATGGTCATTTTGGCACCCT-AGGGGCAAAATTGGAATGTTGGATGATA-TTTTGACTAA
1 GGCAAAATGGTCATTTTGCCA-CCTGA-GGGCAAAATTGGAATGTTGGAAGA-AGTTTTGAATAA
* * * *
21143642 AT-TTGATTAATTAGAGCATTATTTGAATTTGAGAAGTGAAAAATTTTAATTTTGACATTTTTCT
63 ATATTGACTAATTAGAACATAATTTGAATTTGAGAAGTGAAAAATTTTAATTTCGACATTTTTCT
*
21143706 AAACATAGG
128 AAACATAAG
*
21143715 GGCAAAACGGTCATTTT
1 GGCAAAATGGTCATTTT
21143732 AAGTGTCCAT
Statistics
Matches: 130, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
136 96 0.74
137 33 0.25
138 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (136 bp):
GGCAAAATGGTCATTTTGCCACCTGAGGGCAAAATTGGAATGTTGGAAGAAGTTTTGAATAAATA
TTGACTAATTAGAACATAATTTGAATTTGAGAAGTGAAAAATTTTAATTTCGACATTTTTCTAAA
CATAAG
Found at i:21155209 original size:18 final size:18
Alignment explanation
Indices: 21155188--21155230 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21155178 GGGAGAACAT
21155188 AATAGAAAGCTTAGGAGA
1 AATAGAAAGCTTAGGAGA
* *
21155206 AATAGGAAGCTTAGGGGA
1 AATAGAAAGCTTAGGAGA
*
21155224 GATAGAA
1 AATAGAA
21155231 GGTAAAAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.33, T:0.16
Consensus pattern (18 bp):
AATAGAAAGCTTAGGAGA
Found at i:21155535 original size:92 final size:92
Alignment explanation
Indices: 21155378--21155565 Score: 313
Period size: 92 Copynumber: 2.0 Consensus size: 92
21155368 CATTTAAATC
* *
21155378 TATTCTTGATATTTATGTTATTTTGACTGTTGCTGTTTAAAGATTGGGCACTGATATTGGGCTGT
1 TATTCTTGATATTTATGTTATTTTGACTGCTGCTGTTTAAAGATTGGGCACTGATATTGGACTGT
*
21155443 TATGCTAATAACTAATTTTTGTTATGA
66 TATGCTAATAACTAATTTTTCTTATGA
* * *
21155470 TATTCTTGATATTTATGTTATTTTGACTGCTGTTGTTTAAAGATTGGGTATTGATATTGGACTGT
1 TATTCTTGATATTTATGTTATTTTGACTGCTGCTGTTTAAAGATTGGGCACTGATATTGGACTGT
*
21155535 TATGCTGATAACTAATTTTTCTTATGA
66 TATGCTAATAACTAATTTTTCTTATGA
21155562 TATT
1 TATT
21155566 GTGAATGGAA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (92 bp):
TATTCTTGATATTTATGTTATTTTGACTGCTGCTGTTTAAAGATTGGGCACTGATATTGGACTGT
TATGCTAATAACTAATTTTTCTTATGA
Found at i:21160102 original size:19 final size:21
Alignment explanation
Indices: 21160055--21160103 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
21160045 TTTACCCTTA
21160055 ATTAATTTTTATAATTATTATT
1 ATTAA-TTTTATAATTATTATT
*
21160077 ATATAATTTTATTATT-TT-TT
1 AT-TAATTTTATAATTATTATT
21160097 ATTAATT
1 ATTAATT
21160104 AAAAAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 4 0.16
21 2 0.08
22 11 0.44
23 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTAATTTTATAATTATTATT
Found at i:21161916 original size:27 final size:27
Alignment explanation
Indices: 21161874--21161947 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
21161864 TCCAGACCCT
* *
21161874 CCACGTCCACCATATCCACCATAGCCA
1 CCACGCCCACCGTATCCACCATAGCCA
* * *
21161901 CCGCGCCCTCCGTATCCTCCATAGCCA
1 CCACGCCCACCGTATCCACCATAGCCA
* *
21161928 CTACGGCCACCGTATCCACC
1 CCACGCCCACCGTATCCACC
21161948 GTACCCTCCA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.50, G:0.12, T:0.16
Consensus pattern (27 bp):
CCACGCCCACCGTATCCACCATAGCCA
Found at i:21164149 original size:48 final size:48
Alignment explanation
Indices: 21164097--21164333 Score: 193
Period size: 48 Copynumber: 5.3 Consensus size: 48
21164087 CTGTTTATTT
* * *
21164097 GGCATTAGGTGCCTGAATATTTATTGAGCATTGCGTGAGTTCTTTCTA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
* *
21164145 GGCATTGCGTGACTGAATATATGTTGAGCATTGCGTGA-------C-A
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
* * * *
21164185 GGTAATACGTGACTGAATATTTGTTGAGCATTGTGTGAGTTCTTTATA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
* *
21164233 GGTATTACGTGACTGAATATTTGTT-AGCGTTGCGTGA-------C-A
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
* * ** * *
21164272 AGCATTACGCGACTGAATATTTGTTGAGCATTGCGTGACCTATTTGTA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
*
21164320 GGCATTGCGTGACT
1 GGCATTACGTGACT
21164334 TTAGCTACCT
Statistics
Matches: 149, Mismatches: 23, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
39 23 0.15
40 45 0.30
41 1 0.01
47 10 0.07
48 70 0.47
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (48 bp):
GGCATTACGTGACTGAATATTTGTTGAGCATTGCGTGAGTTCTTTCTA
Found at i:21164210 original size:40 final size:40
Alignment explanation
Indices: 21164152--21164310 Score: 176
Period size: 40 Copynumber: 3.8 Consensus size: 40
21164142 CTAGGCATTG
* *
21164152 CGTGACTGAATATATGTTGAGCATTGCGTGACAGGTAATA
1 CGTGACTGAATATTTGTTGAGCATTGCGTGACAGGTATTA
*
21164192 CGTGACTGAATATTTGTTGAGCATTGTGTGAGTTCTTTATAGGTATTA
1 CGTGACTGAATATTTGTTGAGCATTGCGTGA---C-----AGGTATTA
* * *
21164240 CGTGACTGAATATTTGTT-AGCGTTGCGTGACAAGCATTA
1 CGTGACTGAATATTTGTTGAGCATTGCGTGACAGGTATTA
*
21164279 CGCGACTGAATATTTGTTGAGCATTGCGTGAC
1 CGTGACTGAATATTTGTTGAGCATTGCGTGAC
21164311 CTATTTGTAG
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
39 23 0.23
40 41 0.41
43 1 0.01
44 1 0.01
47 10 0.10
48 25 0.25
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (40 bp):
CGTGACTGAATATTTGTTGAGCATTGCGTGACAGGTATTA
Found at i:21164327 original size:22 final size:23
Alignment explanation
Indices: 21164289--21164332 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
21164279 CGCGACTGAA
*
21164289 TATTTGTTGAGCATTGCGTGACC
1 TATTTGTAGAGCATTGCGTGACC
21164312 TATTTGTAG-GCATTGCGTGAC
1 TATTTGTAGAGCATTGCGTGAC
21164333 TTTAGCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (23 bp):
TATTTGTAGAGCATTGCGTGACC
Found at i:21164331 original size:87 final size:88
Alignment explanation
Indices: 21164109--21164333 Score: 308
Period size: 87 Copynumber: 2.6 Consensus size: 88
21164099 CATTAGGTGC
* *
21164109 CTGAATATTTATTGAGCATTGCGTGAGTTCTTTCTAGGCATTGCGTGACTGAATATATGTTGAGC
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTGCGTGACTGAATATATGTTGAGC
* * *
21164174 ATTGCGTGACAGGTAATACGTGA
66 ATTGCGTGACAAGCAATACGCGA
* * * *
21164197 CTGAATATTTGTTGAGCATTGTGTGAGTTCTTTATAGGTATTACGTGACTGAATATTTGTT-AGC
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTGCGTGACTGAATATATGTTGAGC
* *
21164261 GTTGCGTGACAAGCATTACGCGA
66 ATTGCGTGACAAGCAATACGCGA
** * *
21164284 CTGAATATTTGTTGAGCATTGCGTGACCTATTTGTAGGCATTGCGTGACT
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTGCGTGACT
21164334 TTAGCTACCT
Statistics
Matches: 119, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 64 0.54
88 55 0.46
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (88 bp):
CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTGCGTGACTGAATATATGTTGAGC
ATTGCGTGACAAGCAATACGCGA
Found at i:21164894 original size:30 final size:30
Alignment explanation
Indices: 21164858--21164917 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
21164848 GGAGGTGCCT
*
21164858 TTGAGTGTGAGGGACCAGTTGCACACATTC
1 TTGAGTGTGAAGGACCAGTTGCACACATTC
* * *
21164888 TTGAGTGTGAAGGATCTGTTGCACATATTC
1 TTGAGTGTGAAGGACCAGTTGCACACATTC
21164918 CAATAAGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (30 bp):
TTGAGTGTGAAGGACCAGTTGCACACATTC
Found at i:21165787 original size:111 final size:111
Alignment explanation
Indices: 21165556--21166211 Score: 837
Period size: 111 Copynumber: 5.8 Consensus size: 111
21165546 GGTGCGTGAC
*
21165556 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTT-AGCCAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAG-C-TTGCGTGA
* *
21165620 CTGGTTTTTATATATTGCATTACCTGTTGTAGCGAGAGTGGTGGCGCG
64 TTGGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* *
21165668 TAACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCCGTAGTTTTTTAAGCTTGCGTGATT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
* * * *
21165733 GGCTTTAATAAATTGTGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
66 GGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * *
21165779 TGACTTGTGCAATTCATGTGTTGTTTTGAGGATTTTGTTTAGTAGTTTTTTAGGCTTGCGTGATT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
* * *
21165844 GGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTAGTGGCACT
66 GGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * *
21165890 TGACTTGTGCAATTCATGTGTTATTTTGAAGCTTTTGCTCAGTAGTTTTTTAAGCTTGCATGACT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
* * * *
21165955 GGTTTTTATATATTGTGTTACCTGTTGTAGCGTGAGTGGTGGTGTG
66 GGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
* * * * * *
21166001 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAATAATTTTTTAGGGTTTCGTGATT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
* * * *
21166066 GATTTTTATATATTACGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACG
66 GGTTTTTATATATTGCGTTACC---TG-T-TGTA--GCGAGAGTGGTGGCGCG
* * * * * *
21166119 TGACTTGTGCAATTCATGTGTCGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGATTGCATTACT
1 TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
* * *
21166184 AGTTTTTATATATTACGTGACCTGTTGT
66 GGTTTTTATATATTGCGTTACCTGTTGT
21166212 TATATATTGC
Statistics
Matches: 470, Mismatches: 66, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
111 316 0.67
112 50 0.11
113 5 0.01
114 3 0.01
115 3 0.01
116 4 0.01
118 89 0.19
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.45
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGATT
GGTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCGCG
Found at i:21166239 original size:118 final size:118
Alignment explanation
Indices: 21165992--21166251 Score: 353
Period size: 118 Copynumber: 2.2 Consensus size: 118
21165982 TAGCGTGAGT
* * * *
21165992 GGTGGTGTGTGACTTGTGCAATTCATGTGTTGTTTTGAGGCTTTTGTTTAATAATTTTTTAGGGT
1 GGTGGTGCGTGACTTGTGCAATTCATGTGTCGTTTTGAGGCTTTTGTTCAATAATTTTTTAGGAT
* * * * *
21166057 TTCGTGATTGATTTTTATATATTACGTGACCTGTTGTTATGTATTGCGAGAGT
66 TGCATGATAGATTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGC
** * *
21166110 GGTGGCACGTGACTTGTGCAATTCATGTGTCGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGAT
1 GGTGGTGCGTGACTTGTGCAATTCATGTGTCGTTTTGAGGCTTTTGTTCAATAATTTTTTAGGAT
*
21166175 TGCATTACTAG-TTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGC
66 TGCATGA-TAGATTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGC
*
21166228 GAG-GGTGCGTGACTTGTGTAATTC
1 G-GTGGTGCGTGACTTGTGCAATTC
21166252 GCCTCTTGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
118 120 0.98
119 3 0.02
ACGTcount: A:0.18, C:0.10, G:0.27, T:0.45
Consensus pattern (118 bp):
GGTGGTGCGTGACTTGTGCAATTCATGTGTCGTTTTGAGGCTTTTGTTCAATAATTTTTTAGGAT
TGCATGATAGATTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGC
Found at i:21166274 original size:118 final size:118
Alignment explanation
Indices: 21166068--21166299 Score: 290
Period size: 118 Copynumber: 2.0 Consensus size: 118
21166058 TCGTGATTGA
* *
21166068 TTTTTATATATTACGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACGTGACTTGTGCAATT
1 TTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGCGGTGGCACGTGACTTGTGCAATT
** * * * *
21166133 CATGTGTCGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGG-ATTGCATTACTAG
66 CACCTCTCGTTTAGAGGCTTTTGTTCACTAG-TTATTAGGCATTGCATTACTAG
** *
21166186 TTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGCGAG-GGTGCGTGACTTGTGTAAT
1 TTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGCG-GTGGCACGTGACTTGTGCAAT
* * *
21166250 TCGCCTCTTGTTTAG-GGGTGTTTGTTCACTAGTTATTAGGCATTGCATTA
65 TCACCTCTCGTTTAGAGGCT-TTTGTTCACTAGTTATTAGGCATTGCATTA
21166300 ATGTGTACTA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
117 10 0.10
118 86 0.89
119 1 0.01
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.43
Consensus pattern (118 bp):
TTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGCGGTGGCACGTGACTTGTGCAATT
CACCTCTCGTTTAGAGGCTTTTGTTCACTAGTTATTAGGCATTGCATTACTAG
Found at i:21171533 original size:29 final size:29
Alignment explanation
Indices: 21171481--21171560 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
21171471 TAAAGGTAAT
*
21171481 AGAGAAG-AGGTGTACAAGAATAGGTACA
1 AGAGAAGAAGCTGTACAAGAATAGGTACA
* *
21171509 AGAGAAGAAGTTGTACGAGAATAGGTACA
1 AGAGAAGAAGCTGTACAAGAATAGGTACA
* *
21171538 AGAGAATAAGCTGTACATGAATA
1 AGAGAAGAAGCTGTACAAGAATA
21171561 AGTATACGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.17
Consensus pattern (29 bp):
AGAGAAGAAGCTGTACAAGAATAGGTACA
Found at i:21173227 original size:3 final size:3
Alignment explanation
Indices: 21173219--21173244 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21173209 TATTTATTCG
21173219 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
21173245 TAAAGCTGTT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:21183644 original size:29 final size:29
Alignment explanation
Indices: 21183592--21183671 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
21183582 TAAAGGTAAT
*
21183592 AGAGAAG-AGGTGTACAAGAATAGGTACA
1 AGAGAAGAAGCTGTACAAGAATAGGTACA
* *
21183620 AGAGAAGAAGTTGTACGAGAATAGGTACA
1 AGAGAAGAAGCTGTACAAGAATAGGTACA
* *
21183649 AGAGAATAAGCTGTACATGAATA
1 AGAGAAGAAGCTGTACAAGAATA
21183672 AGTATACGAG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.46, C:0.07, G:0.29, T:0.17
Consensus pattern (29 bp):
AGAGAAGAAGCTGTACAAGAATAGGTACA
Found at i:21183962 original size:26 final size:26
Alignment explanation
Indices: 21183932--21184008 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
21183922 TTCCTAATTG
* * *
21183932 TTCTGCTTTAAGTAGTACTTCACTTA
1 TTCTGCGTGAAGTAGCACTTCACTTA
* *
21183958 TTCTGCGTGAAGTAGCGCTTCACTTG
1 TTCTGCGTGAAGTAGCACTTCACTTA
* * *
21183984 TTCTGCATGAAGTAACGCTTCACTT
1 TTCTGCGTGAAGTAGCACTTCACTT
21184009 GTTTTAGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (26 bp):
TTCTGCGTGAAGTAGCACTTCACTTA
Found at i:21184009 original size:26 final size:26
Alignment explanation
Indices: 21183949--21184011 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
21183939 TTAAGTAGTA
* * *
21183949 CTTCACTTATTCTGCGTGAAGTAGCG
1 CTTCACTTGTTCTGCATGAAGTAACG
21183975 CTTCACTTGTTCTGCATGAAGTAACG
1 CTTCACTTGTTCTGCATGAAGTAACG
21184001 CTTCACTTGTT
1 CTTCACTTGTT
21184012 TTAGTTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (26 bp):
CTTCACTTGTTCTGCATGAAGTAACG
Found at i:21188517 original size:74 final size:74
Alignment explanation
Indices: 21188433--21188635 Score: 230
Period size: 74 Copynumber: 2.7 Consensus size: 74
21188423 ATTTTCAGAT
* *
21188433 AGTGTGCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTAAAATTGA-
1 AGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTAAAACTGAG
* *
21188497 ATTCTTTGGC
66 ATT-TCTAGC
* * * ***
21188507 AGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCTATTAAGTTTTCTCTATCTTGTGACTGAG
1 AGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTAAAACTGAG
21188572 ATTTCTAGC
66 ATTTCTAGC
* * * * * *
21188581 AGTGTA-CTCTAAGTTGACTAAACATACTTCTTGGTTGACTAAGTCTTCTCTGTCT
1 AGTG-AGCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCT
21188636 CACAATCTAC
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
74 104 0.96
75 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (74 bp):
AGTGAGCTCTTAGTTGACTAACCATGCTTCTTAGTCGATTAAGTCTTCTCTGTCTTAAAACTGAG
ATTTCTAGC
Found at i:21189636 original size:19 final size:21
Alignment explanation
Indices: 21189614--21189659 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
21189604 AAGTATCGTT
21189614 TCAGTTAAG-AA-GATGGTAA
1 TCAGTTAAGAAACGATGGTAA
*
21189633 TCAGTTAAGAAACTATGGTAA
1 TCAGTTAAGAAACGATGGTAA
21189654 TCAGTT
1 TCAGTT
21189660 TAGAGCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 13 0.54
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (21 bp):
TCAGTTAAGAAACGATGGTAA
Found at i:21199330 original size:12 final size:14
Alignment explanation
Indices: 21199310--21199346 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21199300 GTTACTTTTG
21199310 CTTTCAATTTTAG-T
1 CTTT-AATTTTAGTT
21199324 -TTTAATTTTAGTT
1 CTTTAATTTTAGTT
21199337 CTTTAATTTT
1 CTTTAATTTT
21199347 CAATAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 4 0.19
14 9 0.43
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (14 bp):
CTTTAATTTTAGTT
Found at i:21204126 original size:3 final size:3
Alignment explanation
Indices: 21204118--21204157 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
21204108 CTTGAAGATC
*
21204118 TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21204158 GTTACGACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:21206446 original size:26 final size:27
Alignment explanation
Indices: 21206417--21206484 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
21206407 AAGATATATA
21206417 ATATAAG-AATTAAAAATTAAAAAAAT
1 ATATAAGAAATTAAAAATTAAAAAAAT
* * *
21206443 ATATAAGAAATT-AAAATTTACATAAT
1 ATATAAGAAATTAAAAATTAAAAAAAT
*
21206469 ATAAAAGAAATTAAAA
1 ATATAAGAAATTAAAA
21206485 TAAAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 29 0.81
27 7 0.19
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
ATATAAGAAATTAAAAATTAAAAAAAT
Found at i:21206525 original size:6 final size:6
Alignment explanation
Indices: 21206514--21206561 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
21206504 TATTATATTA
* * *
21206514 AAAAAT AAAAAT AAAATAT ATAATAT TATAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA-AT A-AAAAT AAAAAT AAAAAT AAAAAT AAAA
21206562 TGACATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 27 0.79
7 5 0.15
8 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
AAAAAT
Found at i:21206539 original size:33 final size:32
Alignment explanation
Indices: 21206481--21206562 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 32
21206471 AAAAGAAATT
* *
21206481 AAAATAAAATATATAATATAAAATATTATATTAA
1 AAAATAAAA-ATAAAATATAAAATATTATAAT-A
*
21206515 AAAATAAAAATAAAATATATAATATTATAATA
1 AAAATAAAAATAAAATATAAAATATTATAATA
21206547 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
21206563 GACATTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 17 0.38
33 19 0.42
34 9 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (32 bp):
AAAATAAAAATAAAATATAAAATATTATAATA
Found at i:21206800 original size:15 final size:15
Alignment explanation
Indices: 21206780--21206842 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
21206770 TTTTCCCTGC
21206780 AATCACATTGCTTGT
1 AATCACATTGCTTGT
*
21206795 AATCACATTGCTTGA
1 AATCACATTGCTTGT
* * **
21206810 AATCACATTACCTAC
1 AATCACATTGCTTGT
21206825 AATCACATTGCATTGT
1 AATCACATTGC-TTGT
21206841 AA
1 AA
21206843 AGTACCAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 35 0.92
16 3 0.08
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (15 bp):
AATCACATTGCTTGT
Found at i:21220622 original size:42 final size:43
Alignment explanation
Indices: 21220576--21220658 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
21220566 TTTCCCTTAA
*
21220576 AGATTTTAAAGAAG-AGAAGAGA-AGGATTTGACCTTTTTTTAC
1 AGATTTTAAAGAAGAAAAAGAGAGA-GATTTGACCTTTTTTTAC
*
21220618 AGATTTTAAAGAAGAAAAAGAGAGAGATTTGACTTTTTTTT
1 AGATTTTAAAGAAGAAAAAGAGAGAGATTTGACCTTTTTTT
21220659 TATTGTGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 14 0.38
43 22 0.59
44 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (43 bp):
AGATTTTAAAGAAGAAAAAGAGAGAGATTTGACCTTTTTTTAC
Found at i:21220656 original size:43 final size:42
Alignment explanation
Indices: 21220576--21220658 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
21220566 TTTCCCTTAA
*
21220576 AGATTTTAAAGAAGAGAAGAGAAGGATTTGACCTTTTTTTAC
1 AGATTTTAAAGAAGAAAAGAGAAGGATTTGACCTTTTTTTAC
*
21220618 AGATTTTAAAGAAGAAAA-AGAGAGAGATTTGACTTTTTTTT
1 AGATTTTAAAGAAGAAAAGAGA-AG-GATTTGACCTTTTTTT
21220659 TATTGTGGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 3 0.08
42 19 0.51
43 15 0.41
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (42 bp):
AGATTTTAAAGAAGAAAAGAGAAGGATTTGACCTTTTTTTAC
Found at i:21224161 original size:51 final size:50
Alignment explanation
Indices: 21224104--21224233 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 50
21224094 AATAATCCTT
*
21224104 ACACAATCCACAAAGGGATTCTTTCTTTTTTACGGGATTAAGTGA-TAACTC
1 ACACAATCCACAAA-GGATTCTTTCTTTTTTACGGGATCAA-TGAGTAACTC
** * * *
21224155 TTACAATCCACAAAAGGATTCTTAC-CTTTTACGGGATCAATTAGTAACTC
1 ACACAATCCAC-AAAGGATTCTTTCTTTTTTACGGGATCAATGAGTAACTC
*
21224205 ACACAATCCACAAAGGATT-TTTGTTTTTT
1 ACACAATCCACAAAGGATTCTTTCTTTTTT
21224234 GGTAGGAAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
48 2 0.03
49 14 0.22
50 28 0.43
51 18 0.28
52 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (50 bp):
ACACAATCCACAAAGGATTCTTTCTTTTTTACGGGATCAATGAGTAACTC
Found at i:21226632 original size:20 final size:21
Alignment explanation
Indices: 21226588--21226632 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
21226578 AAACCCATCA
*
21226588 GACTATGCGTCTCTTATAGTC
1 GACTATGCGTCTCTTAAAGTC
* *
21226609 GACTATG-GTTTCTTAAAGTT
1 GACTATGCGTCTCTTAAAGTC
21226629 GACT
1 GACT
21226633 TTTTCTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (21 bp):
GACTATGCGTCTCTTAAAGTC
Found at i:21229890 original size:21 final size:21
Alignment explanation
Indices: 21229866--21229921 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
21229856 TGAGAGTTTC
*
21229866 TCACTGTAGCGAGATTCATTT
1 TCACTGTAGCGAGACTCATTT
*
21229887 TCACTGCAGCGAGACTCATTT
1 TCACTGTAGCGAGACTCATTT
* *
21229908 TCGCTGTAGTGAGA
1 TCACTGTAGCGAGA
21229922 ACCAATTCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (21 bp):
TCACTGTAGCGAGACTCATTT
Found at i:21230400 original size:2 final size:2
Alignment explanation
Indices: 21230389--21230431 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
21230379 GTTCATCACG
21230389 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
21230430 CA
1 CA
21230432 TATATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:21230436 original size:2 final size:2
Alignment explanation
Indices: 21230431--21230463 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21230421 ACACACACAC
21230431 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
21230464 CTANNNNNNN
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:21234932 original size:11 final size:11
Alignment explanation
Indices: 21234916--21234943 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
21234906 CACTGTAGTT
21234916 TTTAAAACAAC
1 TTTAAAACAAC
21234927 TTTAAAACAAC
1 TTTAAAACAAC
21234938 TTTAAA
1 TTTAAA
21234944 CCCAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:21234962 original size:22 final size:22
Alignment explanation
Indices: 21234937--21234999 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
21234927 TTTAAAACAA
*
21234937 CTTTAAACCCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTAAT
21234959 CTTTAAAACCAAAAGCTCTAAT
1 CTTTAAAACCAAAAGCTCTAAT
21234981 CTTTAAAACCAAAAGCTCT
1 CTTTAAAACCAAAAGCTCT
21235000 GATACCACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTAAT
Found at i:21240296 original size:350 final size:350
Alignment explanation
Indices: 21239655--21240356 Score: 1271
Period size: 350 Copynumber: 2.0 Consensus size: 350
21239645 CCCCTGTGAG
21239655 TGAAAAATTATTTTTCTATTGTTTTGATTTGGAAATAGTTTATAATCTCTCAAAACATGATACTT
1 TGAAAAATTATTTTTCTATTGTTTTGATTTGGAAATAGTTTATAATCTCTCAAAACATGATACTT
* *
21239720 AACAATTGTTGCTCACAGAGGAGGTGCGAAAACTGATATTAAAACCTTGTGGGGTTTCGGTTGGT
66 AACAACTGTTGCTCACAGAGGAGGTGCGAAAACTGATATTAAAACCTTGCGGGGTTTCGGTTGGT
*
21239785 ATTTTGGGTAATGAATGTCTATCGGAACATCGCGGCGGTTGTCACGGGCTCAAGGAGAGTACCAG
131 ATTTTGGGTAATGAATGTCTATCAGAACATCGCGGCGGTTGTCACGGGCTCAAGGAGAGTACCAG
* *
21239850 GTCGTGACAATCATCCTCACATTTTCTCTTAAAAAATTTGGCCATGGTGGTTGCATCAATACTAT
196 GTCGTGACAATCATCCTCACATTTTCTCTTAAAAAATTCGGCCATGGTGGGTGCATCAATACTAT
21239915 GATTTTTTCTACTTGATTCTCACACCATAAATCACTAATTCCTAACCAAATCACTTGAAATAAAA
261 GATTTTTTCTACTTGATTCTCACACCATAAATCACTAATTCCTAACCAAATCACTTGAAATAAAA
21239980 TCAAAATCATCATCAATATTCCACA
326 TCAAAATCATCATCAATATTCCACA
21240005 TGAAAAATTATTTTTCTATTGTTTTGATTTGGAAATAGTTTATAATCTCTCAAAACATGATACTT
1 TGAAAAATTATTTTTCTATTGTTTTGATTTGGAAATAGTTTATAATCTCTCAAAACATGATACTT
* * * *
21240070 AACAACTGTTGCTCATAGGGGAGGTGCGCAAACTGATATTAAAGCCTTGCGGGGTTTCGGTTGGT
66 AACAACTGTTGCTCACAGAGGAGGTGCGAAAACTGATATTAAAACCTTGCGGGGTTTCGGTTGGT
* *
21240135 ATTTTGGGTAATGAATGTCTATCAGAACATCGCGGCGGTTGTCACGGGCTCGAGGAGAGTACCGG
131 ATTTTGGGTAATGAATGTCTATCAGAACATCGCGGCGGTTGTCACGGGCTCAAGGAGAGTACCAG
* *
21240200 GTCGTGACAATCATCCTCACATTTTCTCTTGAAAAATTCGGCCATGGTGGGTGCATCAGTACTAT
196 GTCGTGACAATCATCCTCACATTTTCTCTTAAAAAATTCGGCCATGGTGGGTGCATCAATACTAT
21240265 GA-TTTTTCGTACTTGATTCTCACACCATAAATCACTAATTCCTAACCAAATCACTTGAAATAAA
261 GATTTTTTC-TACTTGATTCTCACACCATAAATCACTAATTCCTAACCAAATCACTTGAAATAAA
21240329 ATCAAAATCATCATCAATATTCCACA
325 ATCAAAATCATCATCAATATTCCACA
21240355 TG
1 TG
21240357 GAGAATTCAG
Statistics
Matches: 338, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
349 6 0.02
350 332 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (350 bp):
TGAAAAATTATTTTTCTATTGTTTTGATTTGGAAATAGTTTATAATCTCTCAAAACATGATACTT
AACAACTGTTGCTCACAGAGGAGGTGCGAAAACTGATATTAAAACCTTGCGGGGTTTCGGTTGGT
ATTTTGGGTAATGAATGTCTATCAGAACATCGCGGCGGTTGTCACGGGCTCAAGGAGAGTACCAG
GTCGTGACAATCATCCTCACATTTTCTCTTAAAAAATTCGGCCATGGTGGGTGCATCAATACTAT
GATTTTTTCTACTTGATTCTCACACCATAAATCACTAATTCCTAACCAAATCACTTGAAATAAAA
TCAAAATCATCATCAATATTCCACA
Found at i:21245580 original size:21 final size:21
Alignment explanation
Indices: 21245550--21245589 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21245540 GTGTGTGTAT
*
21245550 ATATATATATATGTACTTTAA
1 ATATAAATATATGTACTTTAA
*
21245571 ATATAAATATATTTACTTT
1 ATATAAATATATGTACTTT
21245590 TTATTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (21 bp):
ATATAAATATATGTACTTTAA
Found at i:21256252 original size:22 final size:23
Alignment explanation
Indices: 21256224--21256270 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
21256214 ATTTCTATGC
21256224 ATTATTATAAAAACTAAGC-CAA
1 ATTATTATAAAAACTAAGCTCAA
* *
21256246 ATTATTATCAAAATTAAGCTCAA
1 ATTATTATAAAAACTAAGCTCAA
21256269 AT
1 AT
21256271 AACTCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
ATTATTATAAAAACTAAGCTCAA
Found at i:21257084 original size:357 final size:357
Alignment explanation
Indices: 21256464--21257173 Score: 989
Period size: 357 Copynumber: 2.0 Consensus size: 357
21256454 CATTTCAAAT
* * *
21256464 AATTTTGTAACCTTAGGGTACTACAAGTGTAATTAAGACAATTTAAAATGTTTGACATCAAATTC
1 AATTTTGTAACCTTAGGGTACTAAAAATGTAATTAAGACAATTTAAAATGCTTGACATCAAATTC
* * * * *
21256529 CATAAGACATGTGATTTTTGTCAAATCCAAACATAATGTGATTTAAGTCTAACAATCTCTCCCTT
66 AAGAAGACATGTGATTTTTGTCAAATCAAAACATAATGTAATTCAAGTCTAACAATCTCTCCCTT
*
21256594 TTTGACATGACAAAAACATGAGCATATTGCATTTGAAATTTCTTGAAACCTCCTCCTAACTTAAT
131 TTTGACATGACAAAAACATGACCATATTGCATTTGAAATTTCTTGAAACCTCCTCCTAACTTAAT
* **
21256659 TAGTCTTTATACCTTTGAAAAAATTTAAAGATAAATGGGAAAAATTGAGTATGAAGTTTTAAAAA
196 TAGTCTCTATACCTTTGAAAAAATTTAAAGATAAAT-GGAAAAATTGAGTATGAACATTTAAAAA
* * * *
21256724 GATTCTCCCCCTCAATATATGCATAAAGTTCAAAGATGTTTTTAGAGCAATTCAGCTAATGTAAG
260 GATTCTCCCCCTCAATATATGCATAAAGTTCAAAGATGTTTTCAAAGCAATTCAACTAATGTAAA
** * *
21256789 AGCGGTTCAATGTGCTCA-TAAACCTTTAAACA
325 AGCAATTCAATCTGCTCACAAAACCTTTAAACA
* *
21256821 AATTTTGTAACCTTAAGGG-ACTAAAAATGTAATTGAGACAATTTCAAAA-GCTTGACATTAAAT
1 AATTTTGTAACCTT-AGGGTACTAAAAATGTAATTAAGACAATTT-AAAATGCTTGACATCAAAT
* * * *
21256884 TCAAGAAGACATGTGATTTTTGTCAAATCAAAATATGATGTAATTCAAGTCTAACAATCTTTCCT
64 TCAAGAAGACATGTGATTTTTGTCAAATCAAAACATAATGTAATTCAAGTCTAACAATCTCTCCC
** * *
21256949 TTTTTGATTTGACAAAAATATGCCCATATTGCATTTGAAATTTCTTGAAACCTCC-CCTAACTTA
129 TTTTTGACATGACAAAAACATGACCATATTGCATTTGAAATTTCTTGAAACCTCCTCCTAACTTA
* * * *
21257013 ATTAGTCTCTATGCCTTTGAAAACATTTAAAGATACAT-GAAAAGGTATTGAGTATGACCATTTA
194 ATTAGTCTCTATACCTTTGAAAAAATTTAAAGATAAATGGAAAA---ATTGAGTATGAACATTTA
* * * *
21257077 GAAAGATTCTCCCCTTCAATATATGTATGAAGTTCAAAGATGTTTTCAAAGCAATTCAACTAATG
256 AAAAGATTCTCCCCCTCAATATATGCATAAAGTTCAAAGATGTTTTCAAAGCAATTCAACTAATG
21257142 TAAAAGCAATTCAATCTGCTCACAAAACCTTT
321 TAAAAGCAATTCAATCTGCTCACAAAACCTTT
21257174 TCCCTTTTTT
Statistics
Matches: 309, Mismatches: 38, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
354 5 0.02
356 43 0.14
357 245 0.79
358 16 0.05
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (357 bp):
AATTTTGTAACCTTAGGGTACTAAAAATGTAATTAAGACAATTTAAAATGCTTGACATCAAATTC
AAGAAGACATGTGATTTTTGTCAAATCAAAACATAATGTAATTCAAGTCTAACAATCTCTCCCTT
TTTGACATGACAAAAACATGACCATATTGCATTTGAAATTTCTTGAAACCTCCTCCTAACTTAAT
TAGTCTCTATACCTTTGAAAAAATTTAAAGATAAATGGAAAAATTGAGTATGAACATTTAAAAAG
ATTCTCCCCCTCAATATATGCATAAAGTTCAAAGATGTTTTCAAAGCAATTCAACTAATGTAAAA
GCAATTCAATCTGCTCACAAAACCTTTAAACA
Found at i:21270735 original size:18 final size:17
Alignment explanation
Indices: 21270702--21270739 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
21270692 ATTTTAATTA
21270702 TTTTTTAATTAGTTTAT
1 TTTTTTAATTAGTTTAT
21270719 TTTTATTAAGTTA-TTTAT
1 TTTT-TTAA-TTAGTTTAT
21270737 TTT
1 TTT
21270740 ATGATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 12 0.63
19 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTTAATTAGTTTAT
Found at i:21272606 original size:26 final size:26
Alignment explanation
Indices: 21272574--21272626 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21272564 AAGTAAGTTT
21272574 TGATTTTGGAAAAATTTATGTTATGA
1 TGATTTTGGAAAAATTTATGTTATGA
21272600 TGATTTTGGAAAAATTTATGTTATGA
1 TGATTTTGGAAAAATTTATGTTATGA
21272626 T
1 T
21272627 ATATTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (26 bp):
TGATTTTGGAAAAATTTATGTTATGA
Found at i:21272810 original size:20 final size:20
Alignment explanation
Indices: 21272785--21272838 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
21272775 TATGAAGAAC
*
21272785 ATCTATGGATAGATGAG-TAG
1 ATCTAT-GATAGATGAGCTAA
*
21272805 ATCTATCCATAGAT-AGCTAA
1 ATCTAT-GATAGATGAGCTAA
21272825 ATCTATGATAGATG
1 ATCTATGATAGATG
21272839 GCTCCCATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
ATCTATGATAGATGAGCTAA
Found at i:21274074 original size:39 final size:40
Alignment explanation
Indices: 21273960--21274172 Score: 250
Period size: 40 Copynumber: 5.4 Consensus size: 40
21273950 CTCTATGGGA
* * *
21273960 CTCTACCATCAGCCCACTTAATAAACATATCAGGGGCATC
1 CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
* * * **
21274000 ATTTCCCATCAACCCACATAATAAACATAAATGGGGCATC
1 CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
21274040 CTCTCCCATCAGCCCACAT-ATAAACATATCTGGGGCATC
1 CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
* * *
21274079 CTCTCCCATCAACCCCCAT-ATAAACATATCTAGGGCATC
1 CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
* ** * *
21274118 CTTTCCCATCAGCCCATGTAATAAACATCTCTGGGCCATC
1 CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
* *
21274158 CGCTCCCATTAGCCC
1 CTCTCCCATCAGCCC
21274173 CCATGATAGA
Statistics
Matches: 145, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 68 0.47
40 77 0.53
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.23
Consensus pattern (40 bp):
CTCTCCCATCAGCCCACATAATAAACATATCTGGGGCATC
Found at i:21274174 original size:79 final size:79
Alignment explanation
Indices: 21273960--21274176 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 79
21273950 CTCTATGGGA
* * * * *
21273960 CTCTACCATCAGCCCACTTAATAAACATATCAGGGGCATCATTTCCCATCAACCCACATAATAAA
1 CTCTCCCATCAGCCCA-TTAATAAACATATCTGGGGCATCCTCTCCCATCAACCCCCATAATAAA
*
21274025 CATAAATGGGGCATC
65 CATAAATAGGGCATC
*
21274040 CTCTCCCATCAGCCCA-CATATAAACATATCTGGGGCATCCTCTCCCATCAACCCCCAT-ATAAA
1 CTCTCCCATCAGCCCATTA-ATAAACATATCTGGGGCATCCTCTCCCATCAACCCCCATAATAAA
**
21274103 CATATCTAGGGCATC
65 CATAAATAGGGCATC
* * * * * *
21274118 CTTTCCCATCAGCCCATGTAATAAACATCTCTGGGCCATCCGCTCCCATTAGCCCCCAT
1 CTCTCCCATCAGCCCAT-TAATAAACATATCTGGGGCATCCTCTCCCATCAACCCCCAT
21274177 GATAGATCCC
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 33 0.28
79 69 0.58
80 16 0.14
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (79 bp):
CTCTCCCATCAGCCCATTAATAAACATATCTGGGGCATCCTCTCCCATCAACCCCCATAATAAAC
ATAAATAGGGCATC
Found at i:21275101 original size:19 final size:20
Alignment explanation
Indices: 21275077--21275115 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21275067 CCTATAAATA
21275077 TCTTG-AATTTCCAGCAGCT
1 TCTTGAAATTTCCAGCAGCT
21275096 TCTTGAAATTTCCAGCAGCT
1 TCTTGAAATTTCCAGCAGCT
21275116 GGTCTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
TCTTGAAATTTCCAGCAGCT
Found at i:21276481 original size:60 final size:60
Alignment explanation
Indices: 21276404--21276567 Score: 188
Period size: 60 Copynumber: 2.7 Consensus size: 60
21276394 AGCTTCTCGT
*
21276404 TGCAGCGAAAAAAGAATCTCGCTGCAGCGAAAAA-CTCTCTGTTTCATCAGTGA-AATTTCAC
1 TGCAGCG-AGAAAGAATCTCGCTGCAGCGAAAAACCT-TCTGTTTC-TCAGTGACAATTTCAC
* * * ** * **
21276465 TGCAGCGAGAAAGAATCTCGTTGCAACGAGAAACCTTCTGTTTCTGGGTTACAATTTTGC
1 TGCAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTTCTCAGTGACAATTTCAC
* *
21276525 CGTAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTT
1 TGCAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTT
21276568 TGGTCTCCTA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
59 4 0.05
60 74 0.85
61 9 0.10
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (60 bp):
TGCAGCGAGAAAGAATCTCGCTGCAGCGAAAAACCTTCTGTTTCTCAGTGACAATTTCAC
Found at i:21277710 original size:20 final size:20
Alignment explanation
Indices: 21277667--21277711 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21277657 ATTGCTTTTG
*
21277667 AGCTTCAAATCACTTCCTTC
1 AGCTTCAAATCACTTCCTTA
*
21277687 AGCTTCAAAT-ATTTCCTTTA
1 AGCTTCAAATCACTTCC-TTA
21277707 AGCTT
1 AGCTT
21277712 TAACAGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (20 bp):
AGCTTCAAATCACTTCCTTA
Found at i:21283970 original size:35 final size:35
Alignment explanation
Indices: 21283925--21284133 Score: 292
Period size: 35 Copynumber: 6.0 Consensus size: 35
21283915 ACTCAGCCAA
* *** *
21283925 TGTGCACTCCCTACACGCACAAGGCAATATCATCA
1 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
* *
21283960 TGTGCACTCCCTACTCGCACATTTCTATATCATCG
1 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
* *
21283995 TGTGCACTCTCTACTCACACACTTCAATATCATCG
1 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
21284030 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
1 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
* *
21284065 TGTGCACTCCTTACTTGCACACTTCAATATCATCG
1 TGTGCACTCCCTACTCGCACACTTCAATATCATCG
* * *
21284100 TGTGCACTCCTTACTTGCACATTTCAATATCATC
1 TGTGCACTCCCTACTCGCACACTTCAATATCATC
21284134 ACACGAACTA
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 159 1.00
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.31
Consensus pattern (35 bp):
TGTGCACTCCCTACTCGCACACTTCAATATCATCG
Found at i:21285008 original size:3 final size:3
Alignment explanation
Indices: 21285000--21285024 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21284990 CGTGAAAAGG
21285000 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
21285025 TTGCTAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21293011 original size:15 final size:16
Alignment explanation
Indices: 21292982--21293014 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21292972 ACCTTTTCCC
21292982 CTTTTTGGGCTTTCTT
1 CTTTTTGGGCTTTCTT
*
21292998 CTTTTTTGGC-TTCTT
1 CTTTTTGGGCTTTCTT
21293013 CT
1 CT
21293015 AAGGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.00, C:0.21, G:0.15, T:0.64
Consensus pattern (16 bp):
CTTTTTGGGCTTTCTT
Found at i:21300636 original size:48 final size:51
Alignment explanation
Indices: 21300584--21300697 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 51
21300574 TAAAAAATTT
* * *
21300584 ATTTTGAGTGGGCCA-T-TAATA-ATATATAATAAATAAATATTTTCAAAA
1 ATTTTGAGGGGGCCATTATAAAATATATATAAAAAATAAATATTTTCAAAA
* *
21300632 ATTTTGGGGGGGCCATTGATAAAATATATATAAAAAATAAATATTTTTAAAA
1 ATTTTGAGGGGGCCATT-ATAAAATATATATAAAAAATAAATATTTTCAAAA
*
21300684 ATTTTGGGGGGGCC
1 ATTTTGAGGGGGCC
21300698 GTGGTTGGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 13 0.23
49 1 0.02
51 4 0.07
52 39 0.68
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (51 bp):
ATTTTGAGGGGGCCATTATAAAATATATATAAAAAATAAATATTTTCAAAA
Found at i:21300880 original size:92 final size:92
Alignment explanation
Indices: 21300723--21300903 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 92
21300713 TCCGCCCTTG
* * * **
21300723 TTGACAACCTTTCAAAGTGTACAGTTTATTAATGTAATTCATTCCCTCATCATACATCCTGGAAA
1 TTGACAACCTTTCAAAGTGTACAGTCTATCAATGTAATTCATTACCTCATCATACATCCAAGAAA
*
21300788 TGATA-AGAGTATGGTGCAGTGCTTTCT
66 TGATATA-AGCATGGTGCAGTGCTTTCT
* * *
21300815 TTGACAACCTTTCAAAGTGTACAGTCTATCAGTGTAATTCATTACCTTATCATATATCCAAGAAA
1 TTGACAACCTTTCAAAGTGTACAGTCTATCAATGTAATTCATTACCTCATCATACATCCAAGAAA
*
21300880 TGATATAAGCATGGTGCGGTGCTT
66 TGATATAAGCATGGTGCAGTGCTT
21300904 ACTCTTATTG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 77 0.99
93 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (92 bp):
TTGACAACCTTTCAAAGTGTACAGTCTATCAATGTAATTCATTACCTCATCATACATCCAAGAAA
TGATATAAGCATGGTGCAGTGCTTTCT
Found at i:21303467 original size:4 final size:4
Alignment explanation
Indices: 21303460--21303484 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
21303450 AAGTAAAAAA
21303460 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
21303485 GAAATCTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:21309018 original size:139 final size:138
Alignment explanation
Indices: 21308767--21309045 Score: 443
Period size: 139 Copynumber: 2.0 Consensus size: 138
21308757 TCATTGAGAA
* *
21308767 AAGAACCCCACTTAGCATGTTGATTACTAAGCTTTTTCTGCGAATGCAAATACCTTAAAGCTGGA
1 AAGAACCCCACTTAGCATGTCGATCACTAAGCTTTTTCTGCGAATGCAAATACCTTAAAGCTGGA
*
21308832 TGGTCAGAATAAACAGCAAACGCACGATAAGCCAAGTAGTGCTGCCAATGACGGATAACCCTTAC
66 TGGTCAGAATAAACAGCAAACGCACGATAAGCCAAGTAGTGCTGCCAATGACGAATAACCCTTAC
21308897 CAAAGCAT
131 CAAAGCAT
* * * *
21308905 ANAGAACTCCACTTGGCATGTCGATCACTAAGTTTTTTCTGCGAATGCAAGTACCTTAAAGCAT-
1 A-AGAACCCCACTTAGCATGTCGATCACTAAGCTTTTTCTGCGAATGCAAATACCTTAAAGC-TG
* **
21308969 GATGGTCAGAATAAACAGCAAACTCACGATAAGCCAAGTAGTGCTGCCAATGACGAATGGCCCTT
64 GATGGTCAGAATAAACAGCAAACGCACGATAAGCCAAGTAGTGCTGCCAATGACGAATAACCCTT
21309034 ACCAAAGCAT
129 ACCAAAGCAT
21309044 AA
1 AA
21309046 AACTCTAAGT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
138 2 0.02
139 126 0.98
140 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (138 bp):
AAGAACCCCACTTAGCATGTCGATCACTAAGCTTTTTCTGCGAATGCAAATACCTTAAAGCTGGA
TGGTCAGAATAAACAGCAAACGCACGATAAGCCAAGTAGTGCTGCCAATGACGAATAACCCTTAC
CAAAGCAT
Found at i:21313554 original size:517 final size:513
Alignment explanation
Indices: 21312585--21313608 Score: 1636
Period size: 517 Copynumber: 2.0 Consensus size: 513
21312575 GGATTCCACT
* * *
21312585 CCTAAGCCACTTCCTTAACCTACACCATAAACAAACCAGATCATTCCTTCAAACCTCTATATCTA
1 CCTAAGCCACTTCCTCAACCTACACCATAAACAAACCAGATCATTCCTCCAAACCTCTATATATA
* * * *
21312650 TGTCTGTTTCTATATGGTTTCAAAAATGTCTACAGCTGCAGTATTTTTTACCGTCTTTGTTTCTC
66 CGTCTGTTTCTATATGCTCTCAAAAATGTCTACAGCTGCACTATTTTTTACCGTCTTTGTTTCTC
* **
21312715 TCCTAGCAAGTTTTAAATTGTGTTATTTATTTGCTTCCTTGAAATTTCCACAACCCTTTAGTCAT
131 TCCTAGCAAGTTCTAAATTGTGTTATTTACCTGCTTCCTTGAAATTTCCACAACCCTTTAGTCAT
* * *
21312780 AAAAATTTTAACAAGTTGAGTCACAAAGTTATGGAAAAATACAACACCTTCAACTGCACATCTAT
196 AAAAATCTTAACAAGTTGAGTCACAAAGTTATGCAAAAATAAAACACCTTCAACTGCACATCTAT
* * ** *
21312845 TTCTTTAAATCTAAATCTGTTCTATCTTAATTGACATGAAAACCTTCTTTATAAATTTTGTGGAA
261 CTCTTTAAATCTAAATCTGTTCTATATTAACAGACATGAAAACCTTCTTTATAAATTTTGTAGAA
* * *
21312910 TCCATCTTATGTCAATAATTTTTGTGAAATATCTAGAAGGGTCCTTTTTTCTTAGCATGTTGTGG
326 TCCATCTTATGTCAATAATTTTTGTGAAATATCTAGAAGAGTCCTTTTTTCTTAGCATATTCTGG
*
21312975 TTGGGTTGACTGGTTTTACAACTGTTAAATCTTGATGCCTAGGAGTTATTAAAGATAATGAAAAT
391 TTGGGTTGACTGGTTCTACAACTGTTAAATCTTGATGCCTAGGAGTTATTAAAGATAATGAAAAT
** *
21313040 AAGAAGAGCAGGCGCAGGTATAGAGTTGAAAGGAAGTATGCAAGTTATCTTTGGGGAA
456 AAGAAGAGCAGGCAAAGGTATAGAGTTGAAAAGAAGTATGCAAGTTATCTTTGGGGAA
* * *
21313098 CCTAAGCCACTTCCTCAACCTACACCATAAACAAACCAGATTATTCCTCCGAACCTTTATATATA
1 CCTAAGCCACTTCCTCAACCTACACCATAAACAAACCAGATCATTCCTCCAAACCTCTATATATA
* * *
21313163 CGTCTGTTTCTATATGCTCTCAAAAATGTCTACAGCTTATTCACTATTTTTTACTGTCTTTTTTT
66 CGTCTGTTTCTATATGCTCTCAAAAATGTCTACAGC---TGCACTATTTTTTACCGTC-TTTGTT
* *
21313228 TCTCTCCTAGCAAGTTCTAAATTGTGTTATTTACCTGCTTCCTTGAAATTTCCATAATCCTTTAG
127 TCTCTCCTAGCAAGTTCTAAATTGTGTTATTTACCTGCTTCCTTGAAATTTCCACAACCCTTTAG
* *
21313293 TCATCAAAATCTTAACAAGTTGAGTCACAAAGTTCTGCAAAAATAAAACACCTTCAACTGCACAT
192 TCATAAAAATCTTAACAAGTTGAGTCACAAAGTTATGCAAAAATAAAACACCTTCAACTGCACAT
*
21313358 CTATCTCTTTAAATCTAAATCTGTTCTATATTAACAGACATGAAAATCTT-TTCTATAAATTTTG
257 CTATCTCTTTAAATCTAAATCTGTTCTATATTAACAGACATGAAAACCTTCTT-TATAAATTTTG
*
21313422 TAGAATCCATCTTATGTCAATAATTTTTGTGAGATATCTAGAAGAGTCCTTTTTTCTTAGCATAT
321 TAGAATCCATCTTATGTCAATAATTTTTGTGAAATATCTAGAAGAGTCCTTTTTTCTTAGCATAT
**
21313487 TCTGGTTGGGTTGACTGGTTCTATGACTGTTAAATCTTGATGCCTAGGAGTTATTAAAGATAATG
386 TCTGGTTGGGTTGACTGGTTCTACAACTGTTAAATCTTGATGCCTAGGAGTTATTAAAGATAATG
*
21313552 AAAATAAGAAGAGCAGGCAAAGGTATAGAGTTGAAAAGAAGTATGCAAGTTGTCTTT
451 AAAATAAGAAGAGCAGGCAAAGGTATAGAGTTGAAAAGAAGTATGCAAGTTATCTTT
21313609 TAGGAATCAT
Statistics
Matches: 466, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
513 92 0.20
516 18 0.04
517 356 0.76
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (513 bp):
CCTAAGCCACTTCCTCAACCTACACCATAAACAAACCAGATCATTCCTCCAAACCTCTATATATA
CGTCTGTTTCTATATGCTCTCAAAAATGTCTACAGCTGCACTATTTTTTACCGTCTTTGTTTCTC
TCCTAGCAAGTTCTAAATTGTGTTATTTACCTGCTTCCTTGAAATTTCCACAACCCTTTAGTCAT
AAAAATCTTAACAAGTTGAGTCACAAAGTTATGCAAAAATAAAACACCTTCAACTGCACATCTAT
CTCTTTAAATCTAAATCTGTTCTATATTAACAGACATGAAAACCTTCTTTATAAATTTTGTAGAA
TCCATCTTATGTCAATAATTTTTGTGAAATATCTAGAAGAGTCCTTTTTTCTTAGCATATTCTGG
TTGGGTTGACTGGTTCTACAACTGTTAAATCTTGATGCCTAGGAGTTATTAAAGATAATGAAAAT
AAGAAGAGCAGGCAAAGGTATAGAGTTGAAAAGAAGTATGCAAGTTATCTTTGGGGAA
Found at i:21314212 original size:40 final size:40
Alignment explanation
Indices: 21314095--21314215 Score: 197
Period size: 40 Copynumber: 3.0 Consensus size: 40
21314085 ACCTCCTGTG
* *
21314095 AATATATGGTTCATAAAGTTAGGTGTTTCATCTAATAGCA
1 AATATATGGTTCATAAAGTTAGGTGTTTCATCAAATGGCA
*
21314135 AATATATGGTTCATAAAGTTAGGTGTTTCATCGAATGGCA
1 AATATATGGTTCATAAAGTTAGGTGTTTCATCAAATGGCA
* *
21314175 GATATATGGTTCATAAAGTTAGGTGTTTCGTCAAATGGCA
1 AATATATGGTTCATAAAGTTAGGTGTTTCATCAAATGGCA
21314215 A
1 A
21314216 TAATCCAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (40 bp):
AATATATGGTTCATAAAGTTAGGTGTTTCATCAAATGGCA
Found at i:21315143 original size:2 final size:2
Alignment explanation
Indices: 21315136--21315167 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21315126 AGCTATCCTC
21315136 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
21315168 GAAATTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21315417 original size:2 final size:2
Alignment explanation
Indices: 21315410--21315435 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21315400 TGCTGGGGAT
21315410 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
21315436 CTTTTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21316548 original size:2 final size:2
Alignment explanation
Indices: 21316541--21316565 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21316531 TTTATTCAAT
21316541 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21316566 GATTTGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21320739 original size:40 final size:38
Alignment explanation
Indices: 21320693--21320842 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 38
21320683 ATTATTTAAA
* * *
21320693 AAATTATTAATATTTTAATATTTTAATCATAATAATGTTT
1 AAATTATTAA-ATATTAATATTTTAA-AATATTAATGTTT
*
21320733 AAATTATAAATAATATATTATTATTTTAAAAGTATTAATGTTT
1 AAATTAT---TAA-ATATTAATATTTTAAAA-TATTAATGTTT
*
21320776 AAATTATTAAATTATTATTATTTTAAAAATATTAATGTTT
1 AAATTATTAAA-TATTAATATTTT-AAAATATTAATGTTT
21320816 AAATTATTAAACTATTAATATTTTAAA
1 AAATTATTAAA-TATTAATATTTTAAA
21320843 TTTTATATGA
Statistics
Matches: 98, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
39 4 0.04
40 55 0.56
41 4 0.04
42 1 0.01
43 34 0.35
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (38 bp):
AAATTATTAAATATTAATATTTTAAAATATTAATGTTT
Found at i:21320787 original size:8 final size:8
Alignment explanation
Indices: 21320774--21320844 Score: 51
Period size: 8 Copynumber: 8.9 Consensus size: 8
21320764 GTATTAATGT
21320774 TTAAATTA
1 TTAAATTA
21320782 TTAAATTA
1 TTAAATTA
*
21320790 TTATTATT-
1 TTA-AATTA
*
21320798 TTAAAAATA
1 TT-AAATTA
21320807 TT-AATGT-
1 TTAAAT-TA
21320814 TTAAATTA
1 TTAAATTA
*
21320822 TTAAACTA
1 TTAAATTA
21320830 TTAATATT-
1 TTAA-ATTA
21320838 TTAAATT
1 TTAAATT
21320845 TTATATGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
7 8 0.16
8 34 0.68
9 8 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (8 bp):
TTAAATTA
Found at i:21322931 original size:38 final size:39
Alignment explanation
Indices: 21322837--21322939 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
21322827 ACCCGGCTCA
* *
21322837 TGTACATCCCCTCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCATCG
* * *
21322877 TGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCATTG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCATCG
*
21322915 TGTACATCCCCCCACATCTTGCACA
1 TGTACATCCCCCCACATCGTGCACA
21322940 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.51
39 3 0.05
40 24 0.44
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCATCG
Found at i:21335351 original size:180 final size:181
Alignment explanation
Indices: 21335136--21335479 Score: 548
Period size: 180 Copynumber: 1.9 Consensus size: 181
21335126 GCCATGAAAA
* *
21335136 TTTCCAGAAATAATCCTTATTGAACATTGTAATAAAGATAATTTTTCTGGAATTTTTCAGAATTA
1 TTTCCAAAAATAATCCTTATTGAACATTGTAATAAAGATAATTTTCCTGGAATTTTTCAGAATTA
* *
21335201 ATTTTCAAGAGTTTCTTGTCAATTAAAACTGAAATTCATGCCAAAACAGTGAGCTGGACAGATTT
66 ATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGCCAAAACAGTGAGCTGGACAGATTT
21335266 -A-TATTTGCACCAATTTTCTTGCTCAAAATCAGCATATTTGACCATGTTAT
131 CACTATTTGCACCAA-TTTCTTGCTCAAAATCAGCATATTTGACCATGTTAT
*
21335316 TTTCCAAAAATAATCCTTATTGAACATTTTAATAAAGATAATTTTCCTGGAATTTTTCAGAATTA
1 TTTCCAAAAATAATCCTTATTGAACATTGTAATAAAGATAATTTTCCTGGAATTTTTCAGAATTA
* * * * *
21335381 ATTTCCAAGACTTTCTTGTTAATTAAAACTGAAATTCATGTCAGAACAGTGAGCTGGACTGCTTT
66 ATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGCCAAAACAGTGAGCTGGACAGATTT
* * *
21335446 CACTTTTTGCTCCAATTTCTTGCTTAAAATCAGC
131 CACTATTTGCACCAATTTCTTGCTCAAAATCAGC
21335480 CTGAACATTT
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
180 120 0.81
181 19 0.13
182 10 0.07
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (181 bp):
TTTCCAAAAATAATCCTTATTGAACATTGTAATAAAGATAATTTTCCTGGAATTTTTCAGAATTA
ATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATGCCAAAACAGTGAGCTGGACAGATTT
CACTATTTGCACCAATTTCTTGCTCAAAATCAGCATATTTGACCATGTTAT
Found at i:21336592 original size:35 final size:35
Alignment explanation
Indices: 21336546--21336795 Score: 266
Period size: 35 Copynumber: 7.1 Consensus size: 35
21336536 TCCTTAAGAA
*** *
21336546 GCCCAATTAACTTAATTGTTTAATTTAATTGATTAG
1 GCCCAA-TAACTTAATTAAATAATTTAATTAATTAG
* *
21336582 GCCCAATAACTTAATTAAACAATTTAATTAATTAA
1 GCCCAATAACTTAATTAAATAATTTAATTAATTAG
* * ** * *
21336617 GTCCAACAGTTTAATTAAACAATTTTAATCAATTAG
1 GCCCAATAACTTAATTAAATAA-TTTAATTAATTAG
* * *
21336653 GCCCAATGACTTAATTAAACAAATTTAATCAATTAG
1 GCCCAATAACTTAATTAAA-TAATTTAATTAATTAG
***
21336689 GCCCAATAACTTAATTGTTTAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATTAATTAG
*
21336724 GCCCAATGACTTAATTAAATAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATTAATTAG
* * * *
21336759 GTCCAATGATTTAATTAAACAATTTAATTAATTAG
1 GCCCAATAACTTAATTAAATAATTTAATTAATTAG
21336794 GC
1 GC
21336796 ACACTTAATT
Statistics
Matches: 180, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
35 119 0.66
36 59 0.33
37 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAATAATTTAATTAATTAG
Found at i:21336657 original size:71 final size:69
Alignment explanation
Indices: 21336567--21336814 Score: 288
Period size: 71 Copynumber: 3.6 Consensus size: 69
21336557 TTAATTGTTT
* * *
21336567 AATTTAATTGATTAGGCCCAATAACTTAATTAAACAATTTAATTAATTAAGTCCAACAGTTTAAT
1 AATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGTCCAA-AGTTTAAT
21336632 TAAAC
65 TAAAC
* * * **
21336637 AATTTTAATCAATTAGGCCCAATGACTTAATTAAACAAATTTAATCAATTAGGCCCAATAACTTA
1 AA-TTTAATTAATTAGGCCCAATGACTTAATTAAAC-AATTTAATTAATTAGGTCCAA-AGTTTA
****
21336702 ATTGTTT
63 ATTAAAC
* *
21336709 AATTTAATTAATTAGGCCCAATGACTTAATTAAATAATTTAATTAATTAGGTCCAATGATTTAAT
1 AATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGTCCAAAG-TTTAAT
21336774 TAAAC
65 TAAAC
*
21336779 AATTTAATTAATTAGG--C-A-CACTTAATTAAACAATTT
1 AATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTT
21336815 TAATCAAGTG
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
66 16 0.11
67 1 0.01
68 1 0.01
70 43 0.29
71 61 0.41
72 27 0.18
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (69 bp):
AATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGGTCCAAAGTTTAATT
AAAC
Found at i:21336702 original size:142 final size:138
Alignment explanation
Indices: 21336546--21336821 Score: 412
Period size: 142 Copynumber: 2.0 Consensus size: 138
21336536 TCCTTAAGAA
*
21336546 GCCCAATTAACTTAATTGTTTAATTTAATTGATTAGGCCCAATAACTTAATTAAACAATTTAATT
1 GCCCAATTAACTTAATTGTTTAATTTAATTAATTAGGCCCAATAACTTAATTAAACAATTTAATT
*
21336611 AATTAAGTCCAACAG-TTTAATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAACAA
66 AATTAAGTCCAA-AGATTTAATTAAACAA-TTTAATCAATTAGG--C-A-CACTTAATTAAACAA
21336675 ATTTAATCAATTAG
125 ATTTAATCAATTAG
* *
21336689 GCCCAA-TAACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAATTAAATAATTTAATT
1 GCCCAATTAACTTAATTGTTTAATTTAATTAATTAGGCCCAATAACTTAATTAAACAATTTAATT
* * * *
21336753 AATTAGGTCCAATGATTTAATTAAACAATTTAATTAATTAGGCACACTTAATTAAACAATTTTAA
66 AATTAAGTCCAAAGATTTAATTAAACAATTTAATCAATTAGGCACACTTAATTAAACAAATTTAA
21336818 TCAA
131 TCAA
21336822 GTGCTTGAGA
Statistics
Matches: 124, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
137 23 0.19
138 1 0.01
139 1 0.01
141 14 0.11
142 79 0.64
143 6 0.05
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (138 bp):
GCCCAATTAACTTAATTGTTTAATTTAATTAATTAGGCCCAATAACTTAATTAAACAATTTAATT
AATTAAGTCCAAAGATTTAATTAAACAATTTAATCAATTAGGCACACTTAATTAAACAAATTTAA
TCAATTAG
Found at i:21339242 original size:11 final size:12
Alignment explanation
Indices: 21339203--21339243 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
21339193 TTTTCTCTTT
*
21339203 TCTTCATTTCCTC
1 TCTT-ATTTTCTC
21339216 TC-TATTTTCTC
1 TCTTATTTTCTC
21339227 TCTTATTTTCTC
1 TCTTATTTTCTC
21339239 -CTTAT
1 TCTTAT
21339244 GGCCAATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 10 0.38
13 2 0.08
ACGTcount: A:0.10, C:0.29, G:0.00, T:0.61
Consensus pattern (12 bp):
TCTTATTTTCTC
Found at i:21347638 original size:107 final size:105
Alignment explanation
Indices: 21347522--21347772 Score: 321
Period size: 107 Copynumber: 2.4 Consensus size: 105
21347512 CTTAATTGTT
*
21347522 CAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATTAAATAAGCT-CAATAATTTA
1 CAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAA-TAAATAAGCTCCAATAACTTA
21347586 ATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAA
65 ATTAAACAA-TTTAATCAATTAGGCCCAATGACTTAATTAAA
* * * *
21347628 CAAATTTAATCAATTAGGCCCAATAACTTAATTAAACAAATTTAATCAATTAGGTCCAATGACTT
1 C-AATTTAATCAATTAGGCCCAATAACTTAATTAAAC-AATTTAATAAATAAGCTCCAATAACTT
* * * ** *
21347693 AATTAAATAATTTAATTAATTTGGTTCAATGATTTAATTAAA
64 AATTAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAA
* *
21347735 CAATTTAATTAATTAGG--C-ACAACTTAATTAAACAATTT
1 CAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTT
21347773 TAATCAAGTG
Statistics
Matches: 129, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
102 5 0.04
103 14 0.11
104 1 0.01
106 16 0.12
107 70 0.54
108 23 0.18
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (105 bp):
CAATTTAATCAATTAGGCCCAATAACTTAATTAAACAATTTAATAAATAAGCTCCAATAACTTAA
TTAAACAATTTAATCAATTAGGCCCAATGACTTAATTAAA
Found at i:21347723 original size:35 final size:35
Alignment explanation
Indices: 21347503--21347779 Score: 308
Period size: 36 Copynumber: 7.9 Consensus size: 35
21347493 CTTTAAGAAA
***
21347503 CCCAATTAACTTAATTGTTCAATTTAATCAATTAGG
1 CCCAA-TAACTTAATTAAACAATTTAATCAATTAGG
* * *
21347539 CCCAATAACTTAATTAAACAATTTAATTAAATAAG
1 CCCAATAACTTAATTAAACAATTTAATCAATTAGG
* *
21347574 CTCAATAATTTAATTAAACAATTTTAATCAATTAGG
1 CCCAATAACTTAATTAAACAA-TTTAATCAATTAGG
*
21347610 CCCAATGACTTAATTAAACAAATTTAATCAATTAGG
1 CCCAATAACTTAATTAAAC-AATTTAATCAATTAGG
21347646 CCCAATAACTTAATTAAACAAATTTAATCAATTAGG
1 CCCAATAACTTAATTAAAC-AATTTAATCAATTAGG
* * * * *
21347682 TCCAATGACTTAATTAAATAATTTAATTAATTTGG
1 CCCAATAACTTAATTAAACAATTTAATCAATTAGG
** * * *
21347717 TTCAATGATTTAATTAAACAATTTAATTAATTAGG
1 CCCAATAACTTAATTAAACAATTTAATCAATTAGG
*
21347752 --C-ACAACTTAATTAAACAATTTTAATCAA
1 CCCAATAACTTAATTAAACAA-TTTAATCAA
21347780 GTGCTTGAGA
Statistics
Matches: 210, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
32 14 0.07
33 9 0.04
35 88 0.42
36 97 0.46
37 2 0.01
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.36
Consensus pattern (35 bp):
CCCAATAACTTAATTAAACAATTTAATCAATTAGG
Found at i:21356619 original size:18 final size:19
Alignment explanation
Indices: 21356598--21356637 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
21356588 TTTCAATTTG
*
21356598 ACTCCAAATCAGT-CTCGA
1 ACTCCAAATCAATCCTCGA
21356616 ACTCCAAATCAATCCTCGA
1 ACTCCAAATCAATCCTCGA
21356635 ACT
1 ACT
21356638 TCGAATCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (19 bp):
ACTCCAAATCAATCCTCGA
Found at i:21357786 original size:67 final size:67
Alignment explanation
Indices: 21357666--21357793 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
21357656 AAATTAGTTG
* ** * * *
21357666 TTGGGTTTTGGTTGATCCCGGTAAAAGCCATTGTTGTAGGTTGTAGTTTAGCCTTTGAAAAGCCA
1 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGTTAAAGGTTGTAGCTGAGCCTGTGAAAAGCCA
21357731 CT
66 CT
* *
21357733 TTGGGTTTTGGTTGATCCC-TTGAAAAACCATTGTTAAAGGTTGTGGCTGAGCCTGTGAAAA
1 TTGGGTTTTGGTTGATCCCGGT-AAAAACCATTGTTAAAGGTTGTAGCTGAGCCTGTGAAAA
21357794 TCCATTGTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 1 0.02
67 51 0.98
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGGTAAAAACCATTGTTAAAGGTTGTAGCTGAGCCTGTGAAAAGCCA
CT
Found at i:21360602 original size:42 final size:42
Alignment explanation
Indices: 21360547--21360645 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
21360537 TGTTGATGTG
*
21360547 GACCTAGCTATGTGCGAGTAGGAGTGCGCATACGCCGATGAT
1 GACCTAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* *
21360589 GACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGCT
1 GACCTAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
*
21360631 GACCTAGCCATGTGC
1 GACCTAGCTATGTGC
21360646 TAGTGGGGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.21
Consensus pattern (42 bp):
GACCTAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
Found at i:21360856 original size:2 final size:2
Alignment explanation
Indices: 21360849--21360894 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
21360839 NNNNNNNNNG
*
21360849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21360891 AT AT
1 AT AT
21360895 GTTTGCACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21369118 original size:67 final size:67
Alignment explanation
Indices: 21369042--21369173 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 67
21369032 AAGTTAGTTG
** *
21369042 TTGGGTTTTGGTTGATCTCG-GTAAAAATTATTATTATAGGTTGTGGTTGAGCCTT-TGAAAAGC
1 TTGGGTTTTGGTTGATCTCGTG-AAAAACCATTATTAAAGGTTGTGGTTGAG-CTTGTGAAAAGC
21369105 CACT
64 CACT
*
21369109 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTGTTAAAGGTTGTGGTTGAGCTTGTGAAAAGCCA
1 TTGGGTTTTGGTTGATCTCGTGAAAAACCATTATTAAAGGTTGTGGTTGAGCTTGTGAAAAGCCA
21369174 TTGTAACAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 3 0.05
67 55 0.93
68 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCTCGTGAAAAACCATTATTAAAGGTTGTGGTTGAGCTTGTGAAAAGCCA
CT
Found at i:21377684 original size:3 final size:3
Alignment explanation
Indices: 21377676--21377700 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21377666 AGGATTTCTA
21377676 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
21377701 TTCTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:21382866 original size:35 final size:35
Alignment explanation
Indices: 21382839--21383094 Score: 277
Period size: 35 Copynumber: 7.3 Consensus size: 35
21382829 TTAATTGTTT
*
21382839 AATTTAATCAATTAGGCCCAATAACTTAACTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
21382874 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
*
21382909 AATTTTAATCAATTAGGCCCAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
* ***
21382945 AAATTTAATCAATTAAGCCCAATAACTTAATTATTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
21382981 AATTTAATTAATTAGGTCCAATGACTTAGTTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
21383016 AATTTAATTAATTAGGCCCAATGA-TGTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACT-TAATTAAAC
* * *
21383051 AATTAAATTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
21383083 AATTTTAATCAA
1 AA-TTTAATCAA
21383095 GTGCTTGAGA
Statistics
Matches: 186, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
32 13 0.07
33 9 0.05
34 1 0.01
35 105 0.56
36 56 0.30
37 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:21382975 original size:142 final size:139
Alignment explanation
Indices: 21382816--21383094 Score: 380
Period size: 142 Copynumber: 2.0 Consensus size: 139
21382806 AGTCCTTAAG
* *
21382816 AAGCCTAATTAACTTAATTGTTTAATTTAATCAATTAGGCCCAATAACTTAACTAAACAATTTAA
1 AAGCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAACTAAACAATTTAA
* * *
21382881 TTAATTAAGCCCAACAATTTAATTAAACAATTTTAATCAATTAGGCCCAATGACTTAATTAAACA
66 TTAATTAAGCCCAACAATGTAATTAAACAA-TTAAATCAATTAGGCAC-A--ACTTAATTAAACA
21382946 AATTTAATCAATT
127 AATTTAATCAATT
* * * **
21382959 AAGCCCAA-TAACTTAATTATTTAATTTAATTAATTAGGTCCAATGACTTAGTTAAACAATTTAA
1 AAGCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAACTAAACAATTTAA
* ** * *
21383023 TTAATTAGGCCCAATGATGTAATTAAACAATTAAATTAATTAGGCACAACTTAATTAAACAATTT
66 TTAATTAAGCCCAACAATGTAATTAAACAATTAAATCAATTAGGCACAACTTAATTAAACAAATT
21383088 TAATCAA
131 TAATCAA
21383095 GTGCTTGAGA
Statistics
Matches: 121, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
138 23 0.19
140 1 0.01
141 14 0.12
142 76 0.63
143 7 0.06
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (139 bp):
AAGCCCAATTAACTTAATTATTTAATTTAATCAATTAGGCCCAATAACTTAACTAAACAATTTAA
TTAATTAAGCCCAACAATGTAATTAAACAATTAAATCAATTAGGCACAACTTAATTAAACAAATT
TAATCAATT
Found at i:21384199 original size:20 final size:20
Alignment explanation
Indices: 21384176--21384218 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21384166 ACTTCAAGAC
21384176 AGAAACAACTTAATCGACTA
1 AGAAACAACTTAATCGACTA
* * *
21384196 AGAAAGAAGTTAGTCGACTA
1 AGAAACAACTTAATCGACTA
21384216 AGA
1 AGA
21384219 GCTCATTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.19
Consensus pattern (20 bp):
AGAAACAACTTAATCGACTA
Found at i:21385375 original size:2 final size:2
Alignment explanation
Indices: 21385331--21385367 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21385321 ACATATTTAC
*
21385331 AT AT GT 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 AT AT A
21385368 CGTATATACC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21385437 original size:20 final size:20
Alignment explanation
Indices: 21385380--21385442 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
21385370 TATATACCCA
*
21385380 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
21385399 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
21385419 TCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
21385439 TCAT
1 TCAT
21385443 GCGCACTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.30, C:0.41, G:0.03, T:0.25
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:21385489 original size:43 final size:43
Alignment explanation
Indices: 21385441--21385550 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
21385431 TCACCAGCTC
** * *
21385441 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATC-CTCGGCTT
*
21385484 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
21385527 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
21385551 GCCGAGTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.20, C:0.38, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:21403366 original size:17 final size:17
Alignment explanation
Indices: 21403344--21403381 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
21403334 GTGGTGATTA
21403344 CTGCAGATTTGGGAAAT
1 CTGCAGATTTGGGAAAT
21403361 CTGCAGATTTGGGAAAT
1 CTGCAGATTTGGGAAAT
21403378 CTGC
1 CTGC
21403382 TTAAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (17 bp):
CTGCAGATTTGGGAAAT
Done.