Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 111 of 185
Found at i:34799221 original size:17 final size:18
Alignment explanation
Indices: 34799178--34799223 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
34799168 ATCACTTTCT
*
34799178 CCACATATACAAATCTCA
1 CCACATATACAAATCACA
*
34799196 CCCCATATACAAAT-ACA
1 CCACATATACAAATCACA
*
34799213 TCACATATACA
1 CCACATATACA
34799224 GATATAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (18 bp):
CCACATATACAAATCACA
Found at i:34799463 original size:16 final size:16
Alignment explanation
Indices: 34799442--34799484 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
34799432 TTTAGAATTT
* *
34799442 TGGGCCCACATGCTTG
1 TGGGCCCACACGCGTG
*
34799458 TGGGCCCATACGCGTG
1 TGGGCCCACACGCGTG
34799474 TGTGGCCCACA
1 TG-GGCCCACA
34799485 AGCCCATGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.14, C:0.33, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGGCCCACACGCGTG
Found at i:34813093 original size:63 final size:63
Alignment explanation
Indices: 34812973--34813096 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 63
34812963 AGAATATTAG
**
34812973 TATGTATATATATTTTAAAATTATGAAATATAAAAATATATGTAAGTATGTATATATACATATA
1 TATGTATATATA-TTTAAAATTATGAAATATAAAAATATATAAAAGTATGTATATATACATATA
*
34813037 TATGTATATA-A-TTAAGAATTATGAAATATAAAAAATATATAAAAGTATGTGTATATACAT
1 TATGTATATATATTTAA-AATTATGAAATAT-AAAAATATATAAAAGTATGTATATATACAT
34813097 GTTTATAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 4 0.07
62 13 0.24
63 28 0.51
64 10 0.18
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.40
Consensus pattern (63 bp):
TATGTATATATATTTAAAATTATGAAATATAAAAATATATAAAAGTATGTATATATACATATA
Found at i:34814802 original size:45 final size:45
Alignment explanation
Indices: 34814718--34814805 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
34814708 GGATCAGTAG
* * ** *
34814718 CTTCAGTCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTATT
1 CTTCAGTCTGCTCCACTGCAACTTCAGAAAAATAAGACTTGTATT
* *
34814763 CTTCAGTCTGCTCCACTGTAACTTCAGAAAAATATGACTTGTA
1 CTTCAGTCTGCTCCACTGCAACTTCAGAAAAATAAGACTTGTA
34814806 GCTTCAATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (45 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGAAAAATAAGACTTGTATT
Found at i:34814847 original size:40 final size:40
Alignment explanation
Indices: 34814794--34814869 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
34814784 CTTCAGAAAA
34814794 ATATGACTTGTAGCTTCAATCCACTCTGCTGCAACTTCAG
1 ATATGACTTGTAGCTTCAATCCACTCTGCTGCAACTTCAG
*
34814834 ATATGACTTGTAGCTTCAATCTACTCTGCTGCAACT
1 ATATGACTTGTAGCTTCAATCCACTCTGCTGCAACT
34814870 GCTCTACTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (40 bp):
ATATGACTTGTAGCTTCAATCCACTCTGCTGCAACTTCAG
Found at i:34815407 original size:133 final size:132
Alignment explanation
Indices: 34815172--34815672 Score: 747
Period size: 132 Copynumber: 3.8 Consensus size: 132
34815162 TGCAAAACCA
* * * **
34815172 GGGAA-ATAAGATTCG--GTTCTTTGATATGCTCTACTACTTCTTAGGGAGACAGGATCTGTAAT
1 GGGAAGATAAGATTCGCCG-TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAAT
* * * *
34815234 CTTCAACCTACTCCACTTCTACTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAT
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
34815299 CTT
130 CTT
*
34815302 GGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAAAT
1 GGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAC-AAT
34815367 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
65 CTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTAC
34815432 CTT
130 CTT
* ** *
34815435 GGGAAGATAAGATCCGCCGTCTTTGATCTGCTCCACTACTGCTTAGAAAGACAGGATCTGCAATC
1 GGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATC
* * * *
34815500 TTCAACCTACTCTACTGCTGCTTAGGGAGATAGGATTGGTGGCTTAAATCTGCTGCCCTACTACC
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
34815565 TT
131 TT
* * *
34815567 GGGAAAATAAGATTCGCTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAGAATC
1 GGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATC
* **
34815632 TTCAACTTACTCCACCACTGCTCAGGGAGATAGGACTGGTG
66 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTG
34815673 CTTTCGATCT
Statistics
Matches: 335, Mismatches: 32, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
130 5 0.01
131 9 0.03
132 197 0.59
133 124 0.37
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (132 bp):
GGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATC
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TT
Found at i:34822477 original size:44 final size:44
Alignment explanation
Indices: 34822392--34822475 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 44
34822382 TGTATGTACA
*
34822392 TAAAATTATAAAAATAAGAAGAGTATATGTATGTATATATATTT
1 TAAAATTATAAAAATAAGAAGAGTATATGTAAGTATATATATTT
* *
34822436 TAAAATTATGAAATATAA-AA-A-TATATGTAAGTATGTATAT
1 TAAAATTAT-AAAAATAAGAAGAGTATATGTAAGTATATATAT
34822476 ATACATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 17 0.47
43 1 0.03
44 11 0.31
45 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (44 bp):
TAAAATTATAAAAATAAGAAGAGTATATGTAAGTATATATATTT
Found at i:34822518 original size:26 final size:26
Alignment explanation
Indices: 34822439--34822521 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
34822429 TATATTTTAA
34822439 AATTATGAAATATAAAAATATATGTAAG
1 AATTATGAAATATAAAAATATA--TAAG
* * * **
34822467 TATGTATATATACATATATATGTATATAAG
1 AAT-TAT-GA-A-ATATAAAAATATATAAG
34822497 AATTATGAAATATAAAAATATATAA
1 AATTATGAAATATAAAAATATATAA
34822522 AAGTATGTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 10
0.67 0.16 0.16
Matches are distributed among these distances:
26 13 0.32
27 1 0.02
28 3 0.07
29 6 0.15
30 7 0.17
31 1 0.02
32 10 0.24
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.36
Consensus pattern (26 bp):
AATTATGAAATATAAAAATATATAAG
Found at i:34822878 original size:20 final size:17
Alignment explanation
Indices: 34822838--34822875 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
34822828 AAAGGTATAC
34822838 ATAAGTACCTGGTAATA
1 ATAAGTACCTGGTAATA
34822855 ATAAGTACCTGGTAATA
1 ATAAGTACCTGGTAATA
34822872 ATAA
1 ATAA
34822876 TAATAATACA
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:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (17 bp):
ATAAGTACCTGGTAATA
Found at i:34824140 original size:9 final size:9
Alignment explanation
Indices: 34824128--34824153 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34824118 TTAGTTGGGT
34824128 TTGGGCCTA
1 TTGGGCCTA
34824137 TTGGGCCTA
1 TTGGGCCTA
34824146 TTGGGCCT
1 TTGGGCCT
34824154 GGGCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.35, T:0.35
Consensus pattern (9 bp):
TTGGGCCTA
Found at i:34824355 original size:24 final size:24
Alignment explanation
Indices: 34824328--34824395 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
34824318 AAACTGTAGG
* *
34824328 GAGCCAATAGCGGGAAGCTCATAC
1 GAGCCAATAACGGGAAGCTCAGAC
* *
34824352 GAGCCAATAACGGGAAGTTCAGGC
1 GAGCCAATAACGGGAAGCTCAGAC
* * *
34824376 GACCCAATATCCGGAAGCTC
1 GAGCCAATAACGGGAAGCTC
34824396 CGGAGAGCCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.28, T:0.13
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTCAGAC
Found at i:34826899 original size:25 final size:25
Alignment explanation
Indices: 34826865--34826914 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
34826855 CAAAGTCTAT
*
34826865 AGTAACTCTTTCTCATTTCCATTCC
1 AGTAACTCTTTCCCATTTCCATTCC
*
34826890 AGTATCTCTTTCCCATTTCCATTCC
1 AGTAACTCTTTCCCATTTCCATTCC
34826915 GATATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.34, G:0.04, T:0.44
Consensus pattern (25 bp):
AGTAACTCTTTCCCATTTCCATTCC
Found at i:34832155 original size:25 final size:25
Alignment explanation
Indices: 34832115--34832208 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 25
34832105 GCCCTCTTTC
34832115 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGGGAAGCTCATTT
* * **
34832140 GAGCCATGTAATGGGAAGCTCATAC
1 GAGCCATATAACGGGAAGCTCATTT
* * **
34832165 AAGCCA-ATAACGGGAAGTTCAAGT
1 GAGCCATATAACGGGAAGCTCATTT
* *
34832189 GAACCA-ATATCGGGAAGCTC
1 GAGCCATATAACGGGAAGCTC
34832209 CGAAGAGCCA
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
24 28 0.52
25 26 0.48
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATTT
Found at i:34834059 original size:19 final size:17
Alignment explanation
Indices: 34834015--34834063 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
34834005 GTATCTTTCG
*
34834015 TTTCCAAAACATTATTCA
1 TTTCC-AAACGTTATTCA
*
34834033 TTTACAAATCGTTATTCAA
1 TTTCCAAA-CGTTATTC-A
34834052 TTTCCAAACGTT
1 TTTCCAAACGTT
34834064 TTTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 15 0.58
19 8 0.31
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (17 bp):
TTTCCAAACGTTATTCA
Found at i:34835034 original size:17 final size:18
Alignment explanation
Indices: 34835002--34835038 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
34834992 CCATGATGTT
*
34835002 TGCCCTTGTAGGCCCACA
1 TGCCCGTGTAGGCCCACA
34835020 TGCCCGTGT-GGCCCACA
1 TGCCCGTGTAGGCCCACA
34835037 TG
1 TG
34835039 GCCCAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.38, G:0.27, T:0.22
Consensus pattern (18 bp):
TGCCCGTGTAGGCCCACA
Found at i:34844739 original size:48 final size:46
Alignment explanation
Indices: 34844683--34844799 Score: 171
Period size: 48 Copynumber: 2.5 Consensus size: 46
34844673 ATAGTTCCTA
34844683 GTTACCCGTTTGGGTTAAACCTACATGAATAATGAATAATAGTGTCTG
1 GTTACCCGTTTGGGTTAAACCTACATGAATAATGAAT-A-AGTGTCTG
*
34844731 GTTACCCGTTTGGGTTAAACCTACATGATTAATGAATAAGTGTCTG
1 GTTACCCGTTTGGGTTAAACCTACATGAATAATGAATAAGTGTCTG
* ** *
34844777 GTGACTTGTTTAGGTTAAACCTA
1 GTTACCCGTTTGGGTTAAACCTA
34844800 AACCCTAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 27 0.42
47 1 0.02
48 36 0.56
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (46 bp):
GTTACCCGTTTGGGTTAAACCTACATGAATAATGAATAAGTGTCTG
Found at i:34847244 original size:22 final size:23
Alignment explanation
Indices: 34847205--34847249 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34847195 ATGGGGTTGA
* *
34847205 ATTTTTTTTGTTTATTTTATTTT
1 ATTTTTGTTATTTATTTTATTTT
34847228 ATTTTTGTTATTT-TTTTATTTT
1 ATTTTTGTTATTTATTTTATTTT
34847250 GAAATTCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.82
Consensus pattern (23 bp):
ATTTTTGTTATTTATTTTATTTT
Found at i:34855846 original size:23 final size:23
Alignment explanation
Indices: 34855814--34855860 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
34855804 TAAGAGTGAT
34855814 CATATGGTTTTTGACCGGAATGC
1 CATATGGTTTTTGACCGGAATGC
* *
34855837 CATATTGTTTTTGATCGGAATGC
1 CATATGGTTTTTGACCGGAATGC
34855860 C
1 C
34855861 GAGCTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (23 bp):
CATATGGTTTTTGACCGGAATGC
Found at i:34862714 original size:54 final size:54
Alignment explanation
Indices: 34862598--34862720 Score: 131
Period size: 54 Copynumber: 2.3 Consensus size: 54
34862588 GTATCAAGTT
* ** * * *
34862598 AGTGTGTTACACGACCTAGCACACAGCTTGTGACACAATCATGTGTCACAAGTC
1 AGTGAGTTACACGGTCTAGCACACAGCTTGTGACACAACCATGTGACACAACTC
** * * *
34862652 AGACAGTTACACGGTCTAGCACACGGCTTGTGAGACGACCATGTGAC-CTAACTC
1 AGTGAGTTACACGGTCTAGCACACAGCTTGTGACACAACCATGTGACAC-AACTC
34862706 AGTGAGTTACACGGT
1 AGTGAGTTACACGGT
34862721 TTGAGACACA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
53 1 0.02
54 54 0.98
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (54 bp):
AGTGAGTTACACGGTCTAGCACACAGCTTGTGACACAACCATGTGACACAACTC
Found at i:34864698 original size:7 final size:7
Alignment explanation
Indices: 34864686--34864739 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
34864676 GTTTGAAAAT
34864686 TTTATTA
1 TTTATTA
34864693 TTTATTA
1 TTTATTA
34864700 TTTATTA
1 TTTATTA
*
34864707 TTTATAA
1 TTTATTA
*
34864714 TTTATAA
1 TTTATTA
34864721 TTTATTA
1 TTTATTA
34864728 TTTATTA
1 TTTATTA
34864735 TTTAT
1 TTTAT
34864740 GAGTTAAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTATTA
Found at i:34867266 original size:22 final size:21
Alignment explanation
Indices: 34867223--34867268 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
34867213 GCATGTCTCC
34867223 AATTTTGGAGATTTTGGGAAA
1 AATTTTGGAGATTTTGGGAAA
*
34867244 AATTTTTGAGATTTTGGGAAA
1 AATTTTGGAGATTTTGGGAAA
34867265 AATT
1 AATT
34867269 CCCTGAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (21 bp):
AATTTTGGAGATTTTGGGAAA
Found at i:34867275 original size:22 final size:21
Alignment explanation
Indices: 34867230--34867275 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
34867220 TCCAATTTTG
**
34867230 GAGATTTTGGGAAAAATTTTT
1 GAGATTTTGGGAAAAATTCCT
34867251 GAGATTTTGGGAAAAATTCCCT
1 GAGATTTTGGGAAAAATT-CCT
34867273 GAG
1 GAG
34867276 TATCCAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.35
Consensus pattern (21 bp):
GAGATTTTGGGAAAAATTCCT
Found at i:34873084 original size:92 final size:92
Alignment explanation
Indices: 34872927--34873203 Score: 511
Period size: 92 Copynumber: 3.0 Consensus size: 92
34872917 ACCAAAGAAC
*
34872927 ACTTCCATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
34872992 ACACATATTCAAGTCATACATTAAAAT
66 ACACATATTCAAGTCATACATTAAAAT
34873019 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
1 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
34873084 ACACATATTCAAGTCATACATTAAAAT
66 ACACATATTCAAGTCATACATTAAAAT
* *
34873111 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAACAATCCA
1 ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
34873176 ACACATACTT-AAGTCATACATTAAAAT
66 ACACATA-TTCAAGTCATACATTAAAAT
34873203 A
1 A
34873204 AGCACAATAG
Statistics
Matches: 181, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 179 0.99
93 2 0.01
ACGTcount: A:0.42, C:0.26, G:0.04, T:0.28
Consensus pattern (92 bp):
ACTTCTATCAACCAACCACCATAAATTTAGTTACCAATCATCATTTTCATGCAAATAGCAACCCA
ACACATATTCAAGTCATACATTAAAAT
Found at i:34874729 original size:8 final size:8
Alignment explanation
Indices: 34874716--34874744 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
34874706 TTTTAAATGA
34874716 TATTTTAT
1 TATTTTAT
34874724 TATTTTAT
1 TATTTTAT
34874732 TATTTTAT
1 TATTTTAT
34874740 TATTT
1 TATTT
34874745 AGTATACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:34878010 original size:45 final size:45
Alignment explanation
Indices: 34877955--34878044 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
34877945 AACGCGCTGA
*
34877955 CGTGGAAGCGCTTTTGGCCGTGTAATCCCCAATGGGTTATTTGCT
1 CGTGAAAGCGCTTTTGGCCGTGTAATCCCCAATGGGTTATTTGCT
34878000 CGTGAAAGCGCTTTTGGCCGTGTAATCCCCAATGGGTTATTTGCT
1 CGTGAAAGCGCTTTTGGCCGTGTAATCCCCAATGGGTTATTTGCT
34878045 AATTAAGGCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (45 bp):
CGTGAAAGCGCTTTTGGCCGTGTAATCCCCAATGGGTTATTTGCT
Found at i:34878226 original size:19 final size:19
Alignment explanation
Indices: 34878187--34878233 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34878177 TAAAAAATTA
*
34878187 TAAAAAATATTAATTAAAT
1 TAAAAAATATTAAATAAAT
*
34878206 TATAAAAT-TTAAATAATAT
1 TAAAAAATATTAAATAA-AT
34878225 TAAAAAATA
1 TAAAAAATA
34878234 AAATTAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATATTAAATAAAT
Found at i:34881049 original size:159 final size:159
Alignment explanation
Indices: 34880739--34881051 Score: 500
Period size: 159 Copynumber: 2.0 Consensus size: 159
34880729 CGACTGAGAT
* * * *
34880739 TGTAACGCCCCAAAACCCTGCTTAGAAGTTTAGACCGAATTTCGAAGGTCACATTGATCACCGAA
1 TGTAACGCCCCAAAACCCGGCCTAAAAGTTTAAACCGAATTTCGAAGGTCACATTGATCACCGAA
* * * *
34880804 GTGACCGATGGCAAATTTTACAAATCAAGTTGTCACTTCGAACCGAACACATTTAATCGTTTAGA
66 GTGACCGATGGAAAACTTTACAAATCAAGTTGTCACTTCAAACCGAAAACATTTAATCGTTTAGA
34880869 ATTCAGTCAAAAGAAGAAAAAAAACTAAA
131 ATTCAGTCAAAAGAAGAAAAAAAACTAAA
*
34880898 TGTAACGCCCCAAAACCCGGCCTAAAAGTTTAAACCGAATTTCGGAGGTCACATTGATCACCGAA
1 TGTAACGCCCCAAAACCCGGCCTAAAAGTTTAAACCGAATTTCGAAGGTCACATTGATCACCGAA
* * *
34880963 GTGATCGATGGAAAAGCTTTACAAATCAAGTTGTCACTTCAAACTGAAAATATTTAATCGTTTAG
66 GTGACCGATGGAAAA-CTTTACAAATCAAGTTGTCACTTCAAACCGAAAACATTTAATCGTTTAG
*
34881028 AATTCAGTCAGAAGAAGAAAAAAA
130 AATTCAGTCAAAAGAAGAAAAAAA
34881052 TACAGTTAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
159 73 0.52
160 67 0.48
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (159 bp):
TGTAACGCCCCAAAACCCGGCCTAAAAGTTTAAACCGAATTTCGAAGGTCACATTGATCACCGAA
GTGACCGATGGAAAACTTTACAAATCAAGTTGTCACTTCAAACCGAAAACATTTAATCGTTTAGA
ATTCAGTCAAAAGAAGAAAAAAAACTAAA
Found at i:34882446 original size:22 final size:22
Alignment explanation
Indices: 34882412--34882464 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
34882402 GGCCACACGA
*
34882412 TCCCAATCGTTAAATCACTAAT
1 TCCCAATCATTAAATCACTAAT
*
34882434 TCTCAATCATTAAATCACTAAT
1 TCCCAATCATTAAATCACTAAT
34882456 TCCCAATCA
1 TCCCAATCA
34882465 CACACGCCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.02, T:0.32
Consensus pattern (22 bp):
TCCCAATCATTAAATCACTAAT
Found at i:34882489 original size:29 final size:29
Alignment explanation
Indices: 34882447--34882506 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
34882437 CAATCATTAA
34882447 ATCACTAATTCCCAATCACACACGCCCGT
1 ATCACTAATTCCCAATCACACACGCCCGT
34882476 ATCACTAATTCCCAATCACACACGCCCGT
1 ATCACTAATTCCCAATCACACACGCCCGT
34882505 AT
1 AT
34882507 ACCTAGTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.40, G:0.07, T:0.22
Consensus pattern (29 bp):
ATCACTAATTCCCAATCACACACGCCCGT
Found at i:34887321 original size:19 final size:19
Alignment explanation
Indices: 34887299--34887336 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34887289 TCACTTTCAC
34887299 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
* *
34887318 CCACTGTATTCAAATTTGT
1 CCACCGTAATCAAATTTGT
34887337 TATTAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:34889054 original size:17 final size:17
Alignment explanation
Indices: 34889015--34889057 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34889005 CCAAATAGGA
*
34889015 ATTTCTTTCTTTTTTCT
1 ATTTCTTTCTCTTTTCT
*
34889032 ACTTCTTCTCTCTTTTCT
1 ATTTCTT-TCTCTTTTCT
34889050 -TTTCTTTC
1 ATTTCTTTC
34889058 CTCAGTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTCTTTCTCTTTTCT
Found at i:34892980 original size:17 final size:16
Alignment explanation
Indices: 34892955--34893007 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
34892945 TTTTAATACC
*
34892955 ATAATTATAT-AAATA
1 ATAAATATATAAAATA
34892970 ATAAATATATAAAATTA
1 ATAAATATATAAAA-TA
*
34892987 ATAATTAT-TAAAATA
1 ATAAATATATAAAATA
34893002 TATAAA
1 -ATAAA
34893008 ATACATAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.34
16 12 0.38
17 9 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATATATAAAATA
Found at i:34892986 original size:25 final size:25
Alignment explanation
Indices: 34892957--34893009 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
34892947 TTAATACCAT
34892957 AATTATATAAATAAT-AAATATATAA
1 AATTA-ATAAATAATAAAATATATAA
* *
34892982 AATTAATAATTATTAAAATATATAA
1 AATTAATAAATAATAAAATATATAA
34893007 AAT
1 AAT
34893010 ACATAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTAATAAATAATAAAATATATAA
Found at i:34893191 original size:17 final size:17
Alignment explanation
Indices: 34893171--34893209 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
34893161 TTATTAACGT
34893171 TTAATTTTTCATTAATA
1 TTAATTTTTCATTAATA
* *
34893188 TTAAATTTTGATTAATA
1 TTAATTTTTCATTAATA
34893205 -TAATT
1 TTAATT
34893210 ATCTTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAATTTTTCATTAATA
Found at i:34893322 original size:22 final size:22
Alignment explanation
Indices: 34893279--34893337 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
34893269 TAAGTTTTAA
*
34893279 ATTGGGATTAGGTTTGGGTGGT
1 ATTGGGTTTAGGTTTGGGTGGT
* *
34893301 ATTGGGTTTAGGTTTTGTTGGT
1 ATTGGGTTTAGGTTTGGGTGGT
* *
34893323 ACTGGGTTTGGGTTT
1 ATTGGGTTTAGGTTT
34893338 AAATATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.10, C:0.02, G:0.41, T:0.47
Consensus pattern (22 bp):
ATTGGGTTTAGGTTTGGGTGGT
Found at i:34893809 original size:31 final size:30
Alignment explanation
Indices: 34893774--34893856 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
34893764 TATTTAGGTC
34893774 AGGACTAAATTGTCAAATTTCAAAAAATACA
1 AGGACTAAATTGTCAAATTT-AAAAAATACA
** * *
34893805 AGGACTAAAATTAACTAATTTGAAAAATACA
1 AGGACT-AAATTGTCAAATTTAAAAAATACA
*
34893836 AGAACTAAATTGGGTCAAATT
1 AGGACTAAATT--GTCAAATT
34893857 AAAGTATTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
30 5 0.12
31 20 0.49
32 16 0.39
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.27
Consensus pattern (30 bp):
AGGACTAAATTGTCAAATTTAAAAAATACA
Found at i:34895481 original size:61 final size:61
Alignment explanation
Indices: 34895403--34895523 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
34895393 TAAAAAACTC
*
34895403 TATTATATATAAATTTTACATACATATATATTATTTATCTTTTTTATAAGACAAATTTAAT
1 TATTATATATAAATTTTACATACATATATAATATTTATCTTTTTTATAAGACAAATTTAAT
* * *
34895464 TATTGTATATAACTTTTACATACATATATAATATTTATCTTTTTTATAAGATAAATTTAA
1 TATTATATATAAATTTTACATACATATATAATATTTATCTTTTTTATAAGACAAATTTAA
34895524 ATTAAGTTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (61 bp):
TATTATATATAAATTTTACATACATATATAATATTTATCTTTTTTATAAGACAAATTTAAT
Found at i:34896721 original size:14 final size:14
Alignment explanation
Indices: 34896702--34896728 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34896692 TTATATTAGT
34896702 AATAAATTTTTTAA
1 AATAAATTTTTTAA
34896716 AATAAATTTTTTA
1 AATAAATTTTTTA
34896729 TTTTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
AATAAATTTTTTAA
Found at i:34899608 original size:29 final size:30
Alignment explanation
Indices: 34899575--34899632 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
34899565 TCAAATCATT
*
34899575 TTATTTTCTCTC-AAAATTTTTACTCCCTC
1 TTATTTTCTCCCTAAAATTTTTACTCCCTC
* *
34899604 TTATTTTTTCCCTAAAATTTTTATTCCCT
1 TTATTTTCTCCCTAAAATTTTTACTCCCT
34899633 TCCCATCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (30 bp):
TTATTTTCTCCCTAAAATTTTTACTCCCTC
Found at i:34905409 original size:39 final size:39
Alignment explanation
Indices: 34905366--34905459 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
34905356 ATTAACTTAG
* *
34905366 AAAAATATATATATATATA-AAATTTATGAACAATAATAT
1 AAAAATATATATATATATACAAATTTATCAA-AAAAATAT
* * ** *
34905405 AAAAAAACATACGTATATACATATTTATCAAAAAAATAT
1 AAAAATATATATATATATACAAATTTATCAAAAAAATAT
*
34905444 AAAAATGTATATATAT
1 AAAAATATATATATAT
34905460 GCATATAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
39 33 0.79
40 9 0.21
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (39 bp):
AAAAATATATATATATATACAAATTTATCAAAAAAATAT
Found at i:34905504 original size:17 final size:17
Alignment explanation
Indices: 34905482--34905525 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
34905472 TAGGAAATAA
34905482 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
34905499 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
34905516 -ATATGTATAT
1 AAAATGTATAT
34905526 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:34905654 original size:3 final size:3
Alignment explanation
Indices: 34905646--34905696 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
34905636 GTATATATAG
* * * *
34905646 TAA TAA TAA TAA CAA TAA TGA TAA TAA TAA CAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34905694 TAA
1 TAA
34905697 CTTAATAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:34905671 original size:18 final size:18
Alignment explanation
Indices: 34905646--34905693 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
34905636 GTATATATAG
*
34905646 TAATAATAATAACAATAA
1 TAATAATAATAACAACAA
*
34905664 TGATAATAATAACAACAA
1 TAATAATAATAACAACAA
34905682 TAATAATAATAA
1 TAATAATAATAA
34905694 TAACTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (18 bp):
TAATAATAATAACAACAA
Found at i:34905672 original size:21 final size:21
Alignment explanation
Indices: 34905646--34905697 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
34905636 GTATATATAG
* *
34905646 TAATAATAATAACAATAATGA
1 TAATAATAACAACAATAATAA
34905667 TAATAATAACAACAATAATAA
1 TAATAATAACAACAATAATAA
34905688 TAATAATAAC
1 TAATAATAAC
34905698 TTAATAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (21 bp):
TAATAATAACAACAATAATAA
Found at i:34905739 original size:7 final size:7
Alignment explanation
Indices: 34905720--34905749 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
34905710 AAATCAAATT
34905720 TAATAAA
1 TAATAAA
34905727 -AATAAA
1 TAATAAA
34905733 TAATAAA
1 TAATAAA
34905740 TAATAAA
1 TAATAAA
34905747 TAA
1 TAA
34905750 AAAAAGACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAATAAA
Found at i:34906318 original size:3 final size:3
Alignment explanation
Indices: 34906310--34906341 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
34906300 ATTGTTTCCT
34906310 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34906342 TCTATTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34922037 original size:74 final size:74
Alignment explanation
Indices: 34921916--34922209 Score: 588
Period size: 74 Copynumber: 4.0 Consensus size: 74
34921906 GATAAACTTG
34921916 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
1 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
34921981 ATAAGTCCA
66 ATAAGTCCA
34921990 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
1 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
34922055 ATAAGTCCA
66 ATAAGTCCA
34922064 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
1 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
34922129 ATAAGTCCA
66 ATAAGTCCA
34922138 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
1 ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
34922203 ATAAGTC
66 ATAAGTC
34922210 TAATTTTATC
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 220 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (74 bp):
ACAAGTCAGGTAGTTCATCATTCTCAACCTCAGCCATTAATGCCAACTCCGTGGGCATCACTGCT
ATAAGTCCA
Found at i:34922285 original size:56 final size:56
Alignment explanation
Indices: 34922199--34922310 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
34922189 TGGGCATCAC
* *
34922199 TGCTATAAGTCTAATTTTATCACTTCCAATAAAAGGAGCAGCCCTGAATAAAGTCA
1 TGCTATAAGTCCAATTTTATCACTTCCAATAAAAGGAGCAGCCCTGAACAAAGTCA
34922255 TGCTATAAGTCCAATTTTATCACTTCCAATAAAAGGAGCAGCCCTGAACAAAGTCA
1 TGCTATAAGTCCAATTTTATCACTTCCAATAAAAGGAGCAGCCCTGAACAAAGTCA
34922311 CTATGGTTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (56 bp):
TGCTATAAGTCCAATTTTATCACTTCCAATAAAAGGAGCAGCCCTGAACAAAGTCA
Found at i:34925640 original size:23 final size:23
Alignment explanation
Indices: 34925580--34925667 Score: 56
Period size: 23 Copynumber: 3.7 Consensus size: 23
34925570 AGAAAAAGTA
34925580 AAATTTTAATATCTATTATAGTT--T
1 AAATTTTAAT-T-T-TTATAGTTGGT
*
34925604 TAATTTTAATATTTT-TCAAGTTGGT
1 AAATTTTAAT-TTTTAT--AGTTGGT
* * *
34925629 AAATTTTAATTTCTATATTTGTT
1 AAATTTTAATTTTTATAGTTGGT
34925652 AAATTTTAATATTTTA
1 AAATTTTAAT-TTTTA
34925668 GTCTTGACTC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.02
22 2 0.04
23 20 0.38
24 18 0.35
25 11 0.21
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (23 bp):
AAATTTTAATTTTTATAGTTGGT
Found at i:34925868 original size:29 final size:30
Alignment explanation
Indices: 34925822--34925893 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
34925812 ACTCTTTAAA
* *
34925822 ATTTTGAAATTTAGTTCATGTATTTTT-AT
1 ATTTTAAAATTTAATTCATGTATTTTTGAT
* *
34925851 -TTTTAAAACTTTAATTCATTTCTTTTTGAT
1 ATTTTAAAA-TTTAATTCATGTATTTTTGAT
34925881 ATTTTAAAATTTA
1 ATTTTAAAATTTA
34925894 GGTCCAATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 7 0.19
29 15 0.42
30 6 0.17
31 8 0.22
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (30 bp):
ATTTTAAAATTTAATTCATGTATTTTTGAT
Found at i:34926808 original size:21 final size:23
Alignment explanation
Indices: 34926777--34926818 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34926767 GTTCTGTTTT
34926777 TTTTCCTTTTAC-CGTTTCTTTG
1 TTTTCCTTTTACTCGTTTCTTTG
*
34926799 TTTT-CTTTTACTTGTTTCTT
1 TTTTCCTTTTACTCGTTTCTT
34926819 AAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.05, C:0.19, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTTCCTTTTACTCGTTTCTTTG
Found at i:34927431 original size:8 final size:8
Alignment explanation
Indices: 34927391--34927442 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
34927381 TTCAGTTTTT
34927391 TTATATTA
1 TTATATTA
* *
34927399 TTAATTTTG
1 TT-ATATTA
34927408 TTATATTA
1 TTATATTA
*
34927416 AT-TATTA
1 TTATATTA
34927423 TTATATTA
1 TTATATTA
*
34927431 TTTTATTA
1 TTATATTA
34927439 TTAT
1 TTAT
34927443 GCCTATAGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
7 6 0.18
8 22 0.65
9 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TTATATTA
Found at i:34927438 original size:16 final size:15
Alignment explanation
Indices: 34927397--34927442 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
34927387 TTTTTTATAT
*
34927397 TATTAATT-TTGTTA
1 TATTAATTATTATTA
34927411 TATTAATTATTATTA
1 TATTAATTATTATTA
*
34927426 TATTATTTTATTATTA
1 TATTA-ATTATTATTA
34927442 T
1 T
34927443 GCCTATAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 8 0.29
15 10 0.36
16 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTAATTATTATTA
Found at i:34931750 original size:18 final size:17
Alignment explanation
Indices: 34931694--34931751 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 17
34931684 GAAAGAAAAG
34931694 AAAACAAAAACAAAAACA
1 AAAACAAAAA-AAAAACA
34931712 AAAACAAAAACAAAAACA
1 AAAACAAAAA-AAAAACA
*
34931730 AAAA-ACAAAAAGAAACA
1 AAAACA-AAAAAAAAACA
34931747 AAAAC
1 AAAAC
34931752 CTCTACCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 11 0.30
18 26 0.70
ACGTcount: A:0.83, C:0.16, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAAAAAACA
Found at i:34931751 original size:6 final size:6
Alignment explanation
Indices: 34931694--34931740 Score: 85
Period size: 6 Copynumber: 7.7 Consensus size: 6
34931684 GAAAGAAAAG
34931694 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACAA AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAAC-A AAAACA AAAA
34931741 GAAACAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACA
Found at i:34932246 original size:18 final size:18
Alignment explanation
Indices: 34932223--34932263 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
34932213 TTCGAGTCGT
**
34932223 AAAAAAAATGATGAAATG
1 AAAAAAAATGAAAAAATG
34932241 AAAAAAAATGAAAAAATG
1 AAAAAAAATGAAAAAATG
34932259 AAAAA
1 AAAAA
34932264 GAAAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (18 bp):
AAAAAAAATGAAAAAATG
Found at i:34932268 original size:21 final size:22
Alignment explanation
Indices: 34932244--34932292 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
34932234 TGAAATGAAA
34932244 AAAAATGAAAAAAT-GAAAAAG-
1 AAAAATG-AAAAATGGAAAAAGT
34932265 AAAAATGAAAAATGGAAAAAGT
1 AAAAATGAAAAATGGAAAAAGT
34932287 AAAAAT
1 AAAAAT
34932293 TGAGAGGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.23
21 14 0.54
22 6 0.23
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.12
Consensus pattern (22 bp):
AAAAATGAAAAATGGAAAAAGT
Found at i:34932270 original size:13 final size:13
Alignment explanation
Indices: 34932252--34932276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34932242 AAAAAAATGA
34932252 AAAAATGAAAAAG
1 AAAAATGAAAAAG
34932265 AAAAATGAAAAA
1 AAAAATGAAAAA
34932277 TGGAAAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAATGAAAAAG
Found at i:34932282 original size:8 final size:7
Alignment explanation
Indices: 34932244--34932284 Score: 57
Period size: 8 Copynumber: 5.7 Consensus size: 7
34932234 TGAAATGAAA
34932244 AAAAATG
1 AAAAATG
34932251 AAAAAATG
1 -AAAAATG
34932259 AAAAA-G
1 AAAAATG
34932265 AAAAATG
1 AAAAATG
34932272 AAAAATGG
1 AAAAAT-G
34932280 AAAAA
1 AAAAA
34932285 GTAAAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 12 0.39
8 13 0.42
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:34933766 original size:88 final size:88
Alignment explanation
Indices: 34933614--34933783 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 88
34933604 AACCATAAAC
* * * *
34933614 CCTTATCTCCCTGAACAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCA
1 CCTTATCTCCATGAACAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGGCA
*
34933679 GCAAAGTAGATCGAAGATACCAG
66 GCAAAGCAGATCGAAGATACCAG
*
34933702 CCTTATCTCCATGAGCAGCAGTGGAGTAGGTTGAAAATGAG-AGATCTTGCCTTCCTGTACTGGC
1 CCTTATCTCCATGAACAGCAGTGGAGTAGGTTGAAAAT-AGCAGATCTTGCCTTCCTGTACTGGC
*
34933766 AGCGAAGCAGATCGAAGA
65 AGCAAAGCAGATCGAAGA
34933784 CACTAGTCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
88 72 0.97
89 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (88 bp):
CCTTATCTCCATGAACAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGGCA
GCAAAGCAGATCGAAGATACCAG
Found at i:34934103 original size:50 final size:50
Alignment explanation
Indices: 34934049--34934406 Score: 176
Period size: 50 Copynumber: 7.2 Consensus size: 50
34934039 TAAAGCTACG
*
34934049 ACGGTGGATCTTGTTTCCCAGACATTGCAGTTAAATAGATTGAAGCCACA
1 ACGGTGGATCTTGTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
** ** ** * * * **
34934099 ACGGT-GAGTCTTACTT---AG-CGGTGCAGTGGAACATATTGAAGCTATG
1 ACGGTGGA-TCTTGTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
* * * *
34934145 ACAGCGGATCTTGTTTCCCAGGCATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGTGGATCTTGTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
** * ** * ** * * *
34934195 ACGGT-GAGTCTTACTTCCTTAG-CGGTGCAATGGAATAGATTGAAGCTACG
1 ACGGTGGA-TCTTGTTTCC-CAGACATTGCAGTTAAAAAGATTGAAGCCACA
* * *
34934245 ACGGTGAATC-TGATTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
1 ACGGTGGATCTTG-TTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
* ** * * * * * ** * * * *
34934295 ACAGCAGATCTTACTTT-TCTGGCAGTGCAGTGGAACAGATTGAAACTACG
1 ACGGTGGATCTT-GTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
* * * *
34934345 ACGGTGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGTAGCCACA
1 ACGGTGGATCTTGTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
34934395 ACGGTGGATCTT
1 ACGGTGGATCTT
34934407 ACTTCCCTGG
Statistics
Matches: 211, Mismatches: 83, Indels: 28
0.66 0.26 0.09
Matches are distributed among these distances:
46 28 0.13
47 4 0.02
49 11 0.05
50 161 0.76
51 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
ACGGTGGATCTTGTTTCCCAGACATTGCAGTTAAAAAGATTGAAGCCACA
Found at i:34934271 original size:100 final size:100
Alignment explanation
Indices: 34933987--34934489 Score: 540
Period size: 100 Copynumber: 5.1 Consensus size: 100
34933977 AGTGGAACAA
* * * * * * * * *
34933987 ATTGAAGCCACTACGGCGAATCTTGCTTCCCTGGCGATGTAGTGGAACAGGTTAAAGCTACGACG
1 ATTGAAGCCACAACGGTGAGTCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACG
* * *
34934052 GTGGATCTTGTTTCCCAGACATTGCAGTTAAATAG
66 GTGGATCTTGTTTCCCCGACATTGCAATTAAAAAG
* * * *
34934087 ATTGAAGCCACAACGGTGAGTCTTA----CTTAGCGGTGCAGTGGAACATATTGAAGCTATGACA
1 ATTGAAGCCACAACGGTGAGTCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACG
* * *
34934148 GCGGATCTTGTTTCCCAGGCATTGCAATTAAAAAG
66 GTGGATCTTGTTTCCCCGACATTGCAATTAAAAAG
* * *
34934183 ATTGAAGCCACAACGGTGAGTCTTACTTCCTTAGCGGTGCAATGGAATAGATTGAAGCTACGACG
1 ATTGAAGCCACAACGGTGAGTCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACG
*
34934248 GTGAATC-TGATTTCCCCGACATTGCAATTAAAAAG
66 GTGGATCTTG-TTTCCCCGACATTGCAATTAAAAAG
* * * * *
34934283 ATTGAAGCCACAACAG-CAGATCTTACTT-TTCTGGCAGTGCAGTGGAACAGATTGAAACTACGA
1 ATTGAAGCCACAACGGTGAG-TCTTACTTCCT-TGGCGGTGCAGTGGAACAGATTGAAGCTACGA
*
34934346 CGGTGGATCTGGTTTCCCCGACATTGCAATTAAAAAG
64 CGGTGGATCTTGTTTCCCCGACATTGCAATTAAAAAG
* * * * *
34934383 ATTGTAGCCACAACGGTG-GATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAG-TCGCGA
1 ATTGAAGCCACAACGGTGAG-TCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCT-ACGA
* * * *
34934446 CAGCGAATCTTGTTTCCCCGACATTGCAGTTAAACAA-
64 CGGTGGATCTTGTTTCCCCGACATTGCAATTAAA-AAG
34934483 ATTGAAG
1 ATTGAAG
34934490 TAAATAATAC
Statistics
Matches: 339, Mismatches: 52, Indels: 24
0.82 0.13 0.06
Matches are distributed among these distances:
96 83 0.24
99 6 0.02
100 247 0.73
101 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
ATTGAAGCCACAACGGTGAGTCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGCTACGACG
GTGGATCTTGTTTCCCCGACATTGCAATTAAAAAG
Found at i:34934413 original size:50 final size:50
Alignment explanation
Indices: 34934167--34934413 Score: 183
Period size: 50 Copynumber: 4.9 Consensus size: 50
34934157 GTTTCCCAGG
**
34934167 CATTGCAATTAAAAAGATTGAAGCCACAACGGT-GAGTCTTACTT-CCTTA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGA-TCTTACTTCCCCGA
** ** * * * * * *
34934216 GCGGTGCAATGGAATAGATTGAAGCTACGACGGTGAATCTGATTTCCCCGA
1 -CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCCGA
* ** ** * *
34934267 CATTGCAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTTTCTGG
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCCGA
* * ** * * * * ***
34934317 CAGTGCAGTGGAACAGATTGAAACTACGACGGTGGATCTGGTTTCCCCGA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCCGA
*
34934367 CATTGCAATTAAAAAGATTGTAGCCACAACGGTGGATCTTACTTCCC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCC
34934414 TGGCGGTGTA
Statistics
Matches: 136, Mismatches: 59, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
50 132 0.97
51 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (50 bp):
CATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCCGA
Found at i:34939623 original size:4 final size:4
Alignment explanation
Indices: 34939614--34939638 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34939604 AAATATTCAA
34939614 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
34939639 TATCATTCTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:34943159 original size:14 final size:14
Alignment explanation
Indices: 34943140--34943166 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34943130 ACCTCAGTAC
34943140 TTGAATTTGGATTT
1 TTGAATTTGGATTT
34943154 TTGAATTTGGATT
1 TTGAATTTGGATT
34943167 CTATCACGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
TTGAATTTGGATTT
Found at i:34949178 original size:7 final size:7
Alignment explanation
Indices: 34949156--34949194 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
34949146 ATTGAAAAAT
34949156 AATTAAA
1 AATTAAA
*
34949163 ATTTTAAA
1 A-ATTAAA
34949171 AATTAAA
1 AATTAAA
34949178 AATTAAA
1 AATTAAA
34949185 AATTAAA
1 AATTAAA
34949192 AAT
1 AAT
34949195 AATAAGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
AATTAAA
Found at i:34955824 original size:32 final size:29
Alignment explanation
Indices: 34955759--34955828 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
34955749 ATACTTTATC
*
34955759 TTGAATTTTGTCACTTTATTTTTGTTTGA
1 TTGAATTTTGTCACTTTATATTTGTTTGA
34955788 TTGAATTTTGTCACTAAAATTATATTT-TTTGA
1 TTGAATTTTGTCACT----TTATATTTGTTTGA
34955820 TTGAATTTT
1 TTGAATTTT
34955829 AATATTAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 15 0.42
32 14 0.39
33 7 0.19
ACGTcount: A:0.24, C:0.06, G:0.11, T:0.59
Consensus pattern (29 bp):
TTGAATTTTGTCACTTTATATTTGTTTGA
Found at i:34955902 original size:17 final size:17
Alignment explanation
Indices: 34955860--34955902 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34955850 TAAATTCTAG
34955860 AAAAATTTAATAATAAAT
1 AAAAA-TTAATAATAAAT
* * *
34955878 TAATATTAATAATTAAT
1 AAAAATTAATAATAAAT
34955895 AAAAATTA
1 AAAAATTA
34955903 TCAATAAAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATTAATAATAAAT
Found at i:34960080 original size:26 final size:26
Alignment explanation
Indices: 34960051--34960107 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
34960041 ACGCAAAAAG
* *
34960051 AAAATTAAGGTTATAAAAAAAT-TTAT
1 AAAAATAAGATTAT-AAAAAATGTTAT
*
34960077 AAAAATAATATTATAAAAAATGTTAT
1 AAAAATAAGATTATAAAAAATGTTAT
34960103 AAAAA
1 AAAAA
34960108 ATAATAGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAATAAGATTATAAAAAATGTTAT
Found at i:34960095 original size:27 final size:27
Alignment explanation
Indices: 34960061--34960113 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
34960051 AAAATTAAGG
34960061 TTATAAAAAAAT-TTAT-AAAAATAATA
1 TTAT-AAAAAATGTTATAAAAAATAATA
34960087 TTATAAAAAATGTTATAAAAAATAATA
1 TTATAAAAAATGTTATAAAAAATAATA
34960114 GCATATTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
27 10 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
TTATAAAAAATGTTATAAAAAATAATA
Found at i:34960109 original size:12 final size:13
Alignment explanation
Indices: 34960060--34960108 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
34960050 GAAAATTAAG
34960060 GTTATAAAAAAAT
1 GTTATAAAAAAAT
34960073 -TTATAAAAATAAT
1 GTTATAAAAA-AAT
*
34960086 ATTAT-AAAAAAT
1 GTTATAAAAAAAT
34960098 GTTATAAAAAA
1 GTTATAAAAAA
34960109 TAATAGCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
GTTATAAAAAAAT
Found at i:34964715 original size:3 final size:3
Alignment explanation
Indices: 34964709--34964769 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
34964699 GAGAGAAAGG
* *
34964709 AGA AGA AG- AGA AGG AGA AGA AG- AGA AGG AGA AGA AGA AGA AGA AG-
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
34964754 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
34964770 AGAGAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 6 0.12
3 45 0.88
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:34964722 original size:14 final size:14
Alignment explanation
Indices: 34964700--34964767 Score: 91
Period size: 14 Copynumber: 4.5 Consensus size: 14
34964690 AAAAAAAAAG
34964700 AGAGAAAGGAGAAGA
1 AGAG-AAGGAGAAGA
34964715 AGAGAAGGAGAAGA
1 AGAGAAGGAGAAGA
34964729 AGAGAAGGAGAAGA
1 AGAGAAGGAGAAGA
34964743 AGAAGAAGAAGAGAAGA
1 AG-AGAAG--GAGAAGA
34964760 AGAAGAAG
1 AG-AGAAG
34964768 AAAGAGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
14 26 0.52
15 9 0.18
17 15 0.30
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (14 bp):
AGAGAAGGAGAAGA
Found at i:34964727 original size:6 final size:6
Alignment explanation
Indices: 34964705--34964775 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
34964695 AAAAGAGAGA
* *
34964705 AAGGAG AAGAAGAG AAGGAG AAGAAGAG AAGGAG AAGAAG AAGAAG AA-GAG
1 AAGGAG AAG--GAG AAGGAG AAG--GAG AAGGAG AAGGAG AAGGAG AAGGAG
* * *
34964756 AAGAAG AAGAAG AAAGAG AA
1 AAGGAG AAGGAG AAGGAG AA
34964776 AAAAAAGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 4 0.07
6 39 0.71
8 12 0.22
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:34964983 original size:41 final size:38
Alignment explanation
Indices: 34964932--34965019 Score: 104
Period size: 41 Copynumber: 2.2 Consensus size: 38
34964922 TATAGTTTAG
* * *
34964932 ATTAGAATTTTGTATGAATATTTTAAATTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGT-AA--TGTTGTATGAAT
*
34964973 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
*
34965011 ATTGTAATT
1 ATTATAATT
34965020 ATTTTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 19 0.45
40 2 0.05
41 21 0.50
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:34964988 original size:19 final size:19
Alignment explanation
Indices: 34964932--34965026 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
34964922 TATAGTTTAG
* *
34964932 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
34964951 ATTTTAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
34964973 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
34964992 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
34965011 ATTGTAATTATTTTAT
1 ATTATAATT-TTTTAT
34965027 AATTAAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 34 0.54
20 12 0.19
21 6 0.10
22 11 0.17
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:34965016 original size:49 final size:47
Alignment explanation
Indices: 34964961--34965226 Score: 177
Period size: 49 Copynumber: 5.4 Consensus size: 47
34964951 ATTTTAAATT
34964961 TTTTGTATGAATATTATAATTTTTTATGAATATTGTAATGTTGTATGAA
1 TTTTGTATGAATATTATAATTTTTTATGAATATTGTAAT-TTGTAT-AA
* * * ** * *
34965010 TATTGTAAT-TATTTTATAATTAAATT-TGTAT-TTATAATTTTGGATTAGTAA
1 TTTTGT-ATGAATATTATAATT-TTTTATGAATATTGTAA-TTT-G--TA-TAA
* * * * *
34965061 TTTTTTGTATGAATATTGTAATTTTGTATGAACATTGTAATAT-TATAG
1 --TTTTGTATGAATATTATAATTTTTTATGAATATTGTAATTTGTATAA
** *
34965109 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATAT-TATAA
1 TTTTGTATGAATATTATAA--TTTTT-TATGAATATTGTAATTTGTATAA
34965158 TTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTG--TAA
1 TTTTGTATGAATATTATAA--TTTTT-TATGAATATTGTAAT-TTGTATAA
*
34965207 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
34965227 GTGGGGATAT
Statistics
Matches: 173, Mismatches: 27, Indels: 36
0.73 0.11 0.15
Matches are distributed among these distances:
46 18 0.10
47 1 0.01
48 13 0.08
49 104 0.60
50 5 0.03
51 4 0.02
52 4 0.02
53 19 0.11
54 5 0.03
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.54
Consensus pattern (47 bp):
TTTTGTATGAATATTATAATTTTTTATGAATATTGTAATTTGTATAA
Found at i:34965087 original size:19 final size:19
Alignment explanation
Indices: 34965063--34965226 Score: 72
Period size: 19 Copynumber: 9.1 Consensus size: 19
34965053 ATTAGTAATT
34965063 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
34965082 TTTTGTATGAACATTGTAATATTATA
1 TTTTGTATGAATATTG------TA-A
*
34965108 GTTTTGTATGAATATTGCAA
1 -TTTTGTATGAATATTGTAA
*
34965128 TTTT-TTTG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
* *
34965142 TATTG--T-AATATTATAA
1 TTTTGTATGAATATTGTAA
*
34965158 TTTTGTATGAATATTATAA
1 TTTTGTATGAATATTGTAA
*
34965177 TTTT-TTTG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
*
34965191 TATTG--T-AATATTGTAA
1 TTTTGTATGAATATTGTAA
34965207 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
34965226 T
1 T
34965227 GTGGGGATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 48
0.65 0.07 0.28
Matches are distributed among these distances:
13 2 0.02
14 14 0.13
15 6 0.05
16 16 0.15
18 8 0.07
19 44 0.40
20 1 0.01
21 1 0.01
25 2 0.02
26 1 0.01
27 15 0.14
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:34965112 original size:27 final size:26
Alignment explanation
Indices: 34965072--34965226 Score: 182
Period size: 27 Copynumber: 6.1 Consensus size: 26
34965062 TTTTTGTATG
*
34965072 AATATTGTAATTTTGTATGAACATTGT
1 AATATT-TAATTTTGTATGAATATTGT
*
34965099 AATATTATAGTTTTGTATGAATATTG-
1 AATATT-TAATTTTGTATGAATATTGT
*
34965125 CA-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
*
34965148 AATATTATAATTTTGTATGAATATTAT
1 AATATT-TAATTTTGTATGAATATTGT
34965175 -A-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
34965197 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
34965224 AAT
1 AAT
34965227 GTGGGGATAT
Statistics
Matches: 111, Mismatches: 7, Indels: 20
0.80 0.05 0.14
Matches are distributed among these distances:
22 32 0.29
23 2 0.02
24 8 0.07
25 8 0.07
26 2 0.02
27 59 0.53
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (26 bp):
AATATTTAATTTTGTATGAATATTGT
Found at i:34965152 original size:76 final size:75
Alignment explanation
Indices: 34965072--34965226 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 75
34965062 TTTTTGTATG
* * *
34965072 AATATTGTAATTTTGTATGAACATTGTAATATTATAGTTTTGTATGAATATTG-CA-ATT-T-TT
1 AATATTATAATTTTGTATGAACATTAT-A-ATT-T--TTTTGTATGAATATTGTAATATTGTATT
34965133 TTGTATGAATATTGT
61 TTGTATGAATATTGT
*
34965148 AATATTATAATTTTGTATGAATATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGT
1 AATATTATAATTTTGTATGAACATTATAATTTTTTTGTATGAATATTGTAATATTGT-ATTTTGT
34965213 ATGAATATTGT
65 ATGAATATTGT
34965224 AAT
1 AAT
34965227 GTGGGGATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
71 16 0.23
72 1 0.01
73 4 0.06
74 4 0.06
75 1 0.01
76 44 0.63
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (75 bp):
AATATTATAATTTTGTATGAACATTATAATTTTTTTGTATGAATATTGTAATATTGTATTTTGTA
TGAATATTGT
Found at i:34965467 original size:38 final size:38
Alignment explanation
Indices: 34965422--34965503 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
34965412 CATATAAAGT
34965422 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
34965460 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
34965498 TTATAA
1 TTATAA
34965504 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:34965581 original size:15 final size:15
Alignment explanation
Indices: 34965540--34965581 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
34965530 GTTAACTCAT
*
34965540 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
34965555 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
34965571 TTAAATTTTAT
1 TTAAATTTTAT
34965582 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:34967211 original size:6 final size:6
Alignment explanation
Indices: 34967200--34967252 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
34967190 GCATCATGCA
* *
34967200 CCAGAG CCAGAG CCAGAG CCAAAG CCAGAG CCAGAG CCAGAG CGAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
*
34967248 GCAGA
1 CCAGA
34967253 ACTACATTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.36, C:0.30, G:0.34, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:34970603 original size:18 final size:19
Alignment explanation
Indices: 34970580--34970634 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 19
34970570 ACCTAATTTT
34970580 TTTTCTT-TTCCTTCATTC
1 TTTTCTTCTTCCTTCATTC
34970598 TTTTCTTCTGCTTCCTTCATTC
1 TTTTC-T-T-CTTCCTTCATTC
*
34970620 TTTTCTTCTTTCTTC
1 TTTTCTTCTTCCTTC
34970635 TGTTTCTGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 2 0.06
21 1 0.03
22 16 0.50
ACGTcount: A:0.04, C:0.29, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTCTTCTTCCTTCATTC
Found at i:34970612 original size:22 final size:22
Alignment explanation
Indices: 34970587--34970628 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
34970577 TTTTTTTCTT
34970587 TTCCTTCATTCTTTTCTTCTGC
1 TTCCTTCATTCTTTTCTTCTGC
34970609 TTCCTTCATTCTTTTCTTCT
1 TTCCTTCATTCTTTTCTTCT
34970629 TTCTTCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.05, C:0.31, G:0.02, T:0.62
Consensus pattern (22 bp):
TTCCTTCATTCTTTTCTTCTGC
Found at i:34970760 original size:27 final size:27
Alignment explanation
Indices: 34970689--34970764 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
34970679 AGAAAAATCA
*
34970689 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
34970716 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
* *
34970743 CATTGGCGCCTTCTAGATAGGC
1 CATTGGCGCCTCCCAGATAGGC
34970765 GCCAATACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.18
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:34978327 original size:19 final size:19
Alignment explanation
Indices: 34978303--34978375 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
34978293 AATCTTCAGG
34978303 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34978322 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
34978341 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34978360 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34978376 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34978401 original size:22 final size:21
Alignment explanation
Indices: 34978303--34978401 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
34978293 AATCTTCAGG
*
34978303 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34978322 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34978341 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
34978360 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
34978382 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
34978402 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:34981291 original size:24 final size:24
Alignment explanation
Indices: 34981264--34981309 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34981254 AGAACAATCC
* *
34981264 CAAAAGGAAATGCAGGAGTAGCTT
1 CAAAAGCAAATGAAGGAGTAGCTT
*
34981288 CAAAAGCAAATGAATGAGTAGC
1 CAAAAGCAAATGAAGGAGTAGC
34981310 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.26, T:0.15
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGTAGCTT
Found at i:34983526 original size:9 final size:9
Alignment explanation
Indices: 34983512--34983550 Score: 60
Period size: 9 Copynumber: 4.1 Consensus size: 9
34983502 AAAGGGGATG
34983512 ACAAAAAAA
1 ACAAAAAAA
34983521 ACAAAAAAA
1 ACAAAAAAA
34983530 ACAAAAAAAA
1 AC-AAAAAAA
34983540 ACAAAACAAA
1 ACAAAA-AAA
34983550 A
1 A
34983551 TCTACCAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:34983529 original size:10 final size:10
Alignment explanation
Indices: 34983514--34983550 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
34983504 AGGGGATGAC
34983514 AAAAAAAAC-
1 AAAAAAAACA
34983523 AAAAAAAACA
1 AAAAAAAACA
34983533 AAAAAAAACA
1 AAAAAAAACA
34983543 AAACAAAA
1 AAA-AAAA
34983551 TCTACCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 13 0.50
11 4 0.15
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:34983535 original size:15 final size:15
Alignment explanation
Indices: 34983512--34983550 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
34983502 AAAGGGGATG
*
34983512 ACAAAA-AAAACAAA
1 ACAAAACAAAAAAAA
34983526 A-AAAACAAAAAAAA
1 ACAAAACAAAAAAAA
34983540 ACAAAACAAAA
1 ACAAAACAAAA
34983551 TCTACCAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 9 0.41
15 9 0.41
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
ACAAAACAAAAAAAA
Found at i:34985405 original size:132 final size:132
Alignment explanation
Indices: 34985229--34986270 Score: 1685
Period size: 132 Copynumber: 7.9 Consensus size: 132
34985219 TTGACAGCGA
*
34985229 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
34985294 TCTACTTCCCTGGACAACAGTGAAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
34985359 AG
131 GG
* *
34985361 AGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* *
34985426 TTTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34985491 GG
131 GG
* * *
34985493 AACAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTATT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
34985558 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34985623 GG
131 GG
* *
34985625 AGCAGATCGAAGATGGCGAATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
34985690 TCTACTTCCCTGGAAAACAGTGGAATAGATTGAAGATTTCAGGTCTTATGTCCCTAAGAAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34985755 GG
131 GG
* * * *
34985757 AGTAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACACTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * *
34985822 TCTACTTCCCTGGACAACAGTGGAATAGATTAAATATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34985887 GG
131 GG
* * *
34985889 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGGAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
*
34985954 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34986019 GG
131 GG
*
34986021 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
34986086 TCTACTTCCTTGTACAACAGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
34986151 GG
131 GG
*
34986153 AACAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
* * * *
34986217 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCC
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCC
34986271 TTGATATTAC
Statistics
Matches: 843, Mismatches: 64, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 3 0.00
132 837 0.99
133 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:34985492 original size:44 final size:44
Alignment explanation
Indices: 34985444--34985625 Score: 117
Period size: 44 Copynumber: 4.1 Consensus size: 44
34985434 CCTGGGCAAC
34985444 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
* * ** * * * **
34985488 AGTGGAACAGATCGAAGATGGCGGATTTTACCTCCCT--GTGGTT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG-T
* * * * **
34985531 ACAGTGGAGTACATTGAAG---CCAGTAT-TTCTACTTCCCTGAA-CAAC
1 --AGTGGAATAGATTGAAGATTTCAG-ATCTTAT-C-TCCCT-AAGCAGT
34985576 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
34985620 AGTGGA
1 AGTGGA
34985626 GCAGATCGAA
Statistics
Matches: 97, Mismatches: 27, Indels: 28
0.64 0.18 0.18
Matches are distributed among these distances:
42 6 0.06
43 21 0.22
44 48 0.49
45 16 0.16
46 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
Found at i:34985919 original size:44 final size:43
Alignment explanation
Indices: 34985871--34986050 Score: 103
Period size: 44 Copynumber: 4.1 Consensus size: 43
34985861 CAGGTCTTAT
34985871 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTAC
1 CTCCCT-AGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTAC
** * * * ** * *
34985915 CTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAG-GAATTCTAC
1 CTCCCTAGCAG-T--AGTGGAGCAGATCGAAGATAGCGGATTTTAC
* * * ** * ** * * *
34985959 TTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTAT
1 CTCCCTAG-CAGTAGTGGAGCAGATCGAAGATAGCGGATTTTAC
*
34986003 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAC
1 CTCCCT-AGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTAC
34986047 CTCC
1 CTCC
34986051 TTGTGGTTAT
Statistics
Matches: 94, Mismatches: 35, Indels: 14
0.66 0.24 0.10
Matches are distributed among these distances:
42 2 0.02
43 16 0.17
44 57 0.61
45 19 0.20
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
CTCCCTAGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTAC
Found at i:34986607 original size:19 final size:19
Alignment explanation
Indices: 34986583--34986693 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
34986573 AATCTTCAGG
34986583 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34986602 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
34986621 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34986640 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
34986659 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34986678 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34986694 GGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34986633 original size:38 final size:38
Alignment explanation
Indices: 34986590--34986693 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
34986580 AGGGATATGC
34986590 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
34986628 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
34986666 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
34986694 GGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:34986729 original size:21 final size:23
Alignment explanation
Indices: 34986685--34986729 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
34986675 TATGATATGC
*
34986685 AATCTTAGAGGATATGATTTTGT
1 AATCTTAGAGGATATGAATTTGT
*
34986708 AATCTTAGA-GAT-TTAATTTGT
1 AATCTTAGAGGATATGAATTTGT
34986729 A
1 A
34986730 GATACCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
AATCTTAGAGGATATGAATTTGT
Found at i:34988893 original size:35 final size:35
Alignment explanation
Indices: 34988854--34988925 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
34988844 TAACATAATT
34988854 ATTATTAAATATAATTTAATAAAATAAT-ATATATA
1 ATTATTAAATA-AATTTAATAAAATAATAATATATA
* * *
34988889 ATTATTATATAAATTTACTAAAATCATAATATATA
1 ATTATTAAATAAATTTAATAAAATAATAATATATA
34988924 AT
1 AT
34988926 ACTATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 14 0.42
35 19 0.58
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (35 bp):
ATTATTAAATAAATTTAATAAAATAATAATATATA
Found at i:34988940 original size:32 final size:34
Alignment explanation
Indices: 34988873--34988940 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
34988863 TATAATTTAA
* *
34988873 TAAAATAATATATATAATTATTATATAAATTTAC
1 TAAAATAATATATATAATTACTATATAAATATAC
*
34988907 TAAAATCATAATATATAA-TACTATA-AAA-ATAC
1 TAAAATAAT-ATATATAATTACTATATAAATATAC
34988939 TA
1 TA
34988941 TATAATCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.17
33 3 0.10
34 14 0.47
35 8 0.27
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (34 bp):
TAAAATAATATATATAATTACTATATAAATATAC
Found at i:34993997 original size:15 final size:16
Alignment explanation
Indices: 34993970--34994000 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
34993960 TAATTTAATT
34993970 AATTAATAAAAATTAA
1 AATTAATAAAAATTAA
34993986 AATTAA-AAAAATTAA
1 AATTAATAAAAATTAA
34994001 CTCCAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAATAAAAATTAA
Found at i:34994531 original size:4 final size:4
Alignment explanation
Indices: 34994522--34994546 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34994512 ATATATGCAT
34994522 ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC A
34994547 CATATATAAA
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:34998876 original size:9 final size:9
Alignment explanation
Indices: 34998860--34998971 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
34998850 TTTGGTTAAA
34998860 AATTAACCG
1 AATTAACCG
*
34998869 ACTTAACCG
1 AATTAACCG
* *
34998878 GATTACCCG
1 AATTAACCG
34998887 AATTAACCG
1 AATTAACCG
34998896 AATTAACCG
1 AATTAACCG
* *
34998905 GATTACCCG
1 AATTAACCG
34998914 AATTAACCG
1 AATTAACCG
*
34998923 AATTACCCG
1 AATTAACCG
*
34998932 AATTACCCG
1 AATTAACCG
34998941 AATTAACCG
1 AATTAACCG
34998950 AATTAACCG
1 AATTAACCG
34998959 AATTAACCG
1 AATTAACCG
34998968 AATT
1 AATT
34998972 GAATCACTAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 91 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:34998901 original size:27 final size:27
Alignment explanation
Indices: 34998860--34998971 Score: 179
Period size: 27 Copynumber: 4.1 Consensus size: 27
34998850 TTTGGTTAAA
* *
34998860 AATTAACCGACTTAACCGGATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
34998887 AATTAACCGAATTAACCGGATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
34998914 AATTAACCGAATTACCCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
34998941 AATTAACCGAATTAACCGAATTAACCG
1 AATTAACCGAATTAACCGAATTACCCG
34998968 AATT
1 AATT
34998972 GAATCACTAC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.23
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:34999063 original size:20 final size:20
Alignment explanation
Indices: 34998995--34999052 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 20
34998985 ATTAAATTAT
* * *
34998995 TTTTAGACTTTTAGACTTTAG
1 TTTTAGAATTTTAG-TTTTAA
34999016 TTTTAG--TTTTAGTTTTAA
1 TTTTAGAATTTTAGTTTTAA
*
34999034 TTTTAGAATTTTATTTTTA
1 TTTTAGAATTTTAGTTTTA
34999053 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 10 0.31
21 6 0.19
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTTAGAATTTTAGTTTTAA
Found at i:35009442 original size:101 final size:101
Alignment explanation
Indices: 35009257--35009562 Score: 398
Period size: 101 Copynumber: 3.0 Consensus size: 101
35009247 AATTGACGGA
* * * *
35009257 TAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGAGCTATTGAATTTTAA
1 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGGCATTTTAA
* *
35009322 TGAAAAGACCATAACTGGGTTATGACACTATGAACG
66 TGATAAGACCATAACTGGGTTATGGCACTATGAACG
* * * * * *
35009358 TAAGGCCATTGTTGGACCATGGCAGTGTTTATATGTGAGACCATAG-TTAGGCTGTGGCATTCTA
1 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGA-GCTATGGCATTTTA
*
35009422 ATGATAAGACCATAATTGGGTTATGGCACTATGAACG
65 ATGATAAGACCATAACTGGGTTATGGCACTATGAACG
* * * * * *
35009459 TAAAACCATGGCTGGACCGTGGCTGTGTTTATATGTAAGACCATAGCTGCGCTATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGGCATTTTAA
* * *
35009524 TGATAATACCATAACTGGGTTATGGCACTACGAATG
66 TGATAAGACCATAACTGGGTTATGGCACTATGAACG
35009560 TAA
1 TAA
35009563 ATGATGAATT
Statistics
Matches: 174, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 2 0.01
101 171 0.98
102 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGGCATTTTAA
TGATAAGACCATAACTGGGTTATGGCACTATGAACG
Found at i:35009592 original size:24 final size:24
Alignment explanation
Indices: 35009556--35009606 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
35009546 TGGCACTACG
* *
35009556 AATGTAAATGATGAATTGACGGAA
1 AATGTAAAGGATGAATTGACGAAA
35009580 AATGTAAAGGATGAATTGACGAAA
1 AATGTAAAGGATGAATTGACGAAA
35009604 AAT
1 AAT
35009607 TACCCAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.24
Consensus pattern (24 bp):
AATGTAAAGGATGAATTGACGAAA
Found at i:35016479 original size:19 final size:18
Alignment explanation
Indices: 35016455--35016500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
35016445 CGTTTCTTTT
* *
35016455 TGCATTCATTTCATGCATC
1 TGCATTCATGTCAT-CATA
35016474 TGCATTACATGTCATCATA
1 TGCATT-CATGTCATCATA
35016493 TGCATTCA
1 TGCATTCA
35016501 AGATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (18 bp):
TGCATTCATGTCATCATA
Found at i:35025081 original size:44 final size:44
Alignment explanation
Indices: 35025032--35025455 Score: 150
Period size: 44 Copynumber: 9.2 Consensus size: 44
35025022 AGTGTAAAGA
*
35025032 AGCAGATTGAAGACAGAAATTTTATCTCCCTGAGATTATAGCGG
1 AGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATTATAGCGG
* * * *
35025076 AGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGAC-AGAAATCTTATCTCCCTGAGATTATAGCGG
* * * * *
35025120 AGCATATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAG
1 AGCAGATTGAAGACAGAA--ATCTTATCTCCCTGAGA-TT--A-TAGCG--G
*
35025169 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGG
1 A--G---CAGATTGAAGACAGAAATCTTATCTCCCTGAGATTATAGCGG
* * * *
35025218 AGCAGATTGAAG-CTA-ATAATCCTATCTCCCTAAGATTACAGTGG
1 AGCAGATTGAAGAC-AGA-AATCTTATCTCCCTGAGATTATAGCGG
* * * * * * *
35025262 AGCGGATT-AAAATA-AAGGATCTTATATCTCT-AAAGTTACAGTAGAGTAG
1 AGCAGATTGAAGACAGAA--ATCTTATCTCCCTGAGA-TT--A-TAGCG--G
* * *
35025311 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAG
1 A--G---CAGATTGAAGACAGAAATCTTATCTCCCTGAGATTATAGCGG
* * * * * ***
35025360 AGCAAATTGAA-CCTAGTAATCCTATCTCCCTGAGATTACAGTAA
1 AGCAGATTGAAGAC-AGAAATCTTATCTCCCTGAGATTATAGCGG
* * * *
35025404 AGCAGATTGAAG-CTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGAC-AGAAATCTTATCTCCCTGAGATTATAGCGG
*
35025448 AGCGGATT
1 AGCAGATT
35025456 AAAATAAAGG
Statistics
Matches: 290, Mismatches: 51, Indels: 78
0.69 0.12 0.19
Matches are distributed among these distances:
42 2 0.01
43 15 0.05
44 193 0.67
46 2 0.01
47 8 0.03
49 8 0.03
51 8 0.03
52 2 0.01
54 39 0.13
55 9 0.03
56 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
AGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATTATAGCGG
Found at i:35025257 original size:98 final size:97
Alignment explanation
Indices: 35025078--35025259 Score: 224
Period size: 98 Copynumber: 1.9 Consensus size: 97
35025068 TATAGCGGAG
* * * * *
35025078 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCATATTAAAATAAAGGATCTT
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAA-GATCCT
*
35025143 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 ATCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
* * **
35025176 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAATA-ATCC
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAA-AGATCC
35025240 TATCTCCCT-AAGATTACAGT
64 TATCTCCCTGAAG-TTACAGT
35025260 GGAGCGGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
97 3 0.04
98 62 0.87
99 5 0.07
100 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (97 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAAGATCCTA
TCTCCCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:35025292 original size:142 final size:142
Alignment explanation
Indices: 35025034--35025411 Score: 630
Period size: 142 Copynumber: 2.7 Consensus size: 142
35025024 TGTAAAGAAG
* *
35025034 CAGATTGAAGACAGAAATTTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
35025099 ATCTCCCTGAGATTACAGTGGAGCATATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATATCTCTAAAGTTACAGTAG
35025164 AGTAGATCGCAT
131 AGTAGATCGCAT
*
35025176 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAATAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
35025241 ATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATATCTCTAAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATATCTCTAAAGTTACAGTAG
35025306 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
35025318 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAACCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
**
35025383 ATCTCCCTGAGATTACAGTAAAGCAGATT
66 ATCTCCCTGAGATTACAGTGGAGCAGATT
35025412 GAAGCTAGTA
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 219 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATATCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:35025411 original size:186 final size:186
Alignment explanation
Indices: 35025179--35025587 Score: 649
Period size: 186 Copynumber: 2.2 Consensus size: 186
35025169 ATCGCATCAG
* * * ***
35025179 ATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCTAATAATCCTATC
1 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTAAAGCAGATTGAAGCTAATAATCCTATC
*
35025244 TCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATATCTCTAAAGTTACAGTAGAGT
66 TCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATATCTCTAAAGTTACAGTAGAGT
* * *
35025309 AGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAA
131 AGATCGCATCAGATTGAAGCCAGAAATCTTATCCCCCTGAGATTACAACAGAACAA
*
35025365 ATTGAA-CCTAGTAATCCTATCTCCCTGAGATTACAGTAAAGCAGATTGAAGCTAGTAATCCTAT
1 ATTGAAGCC-AGTAATCCTATCTCCCTGAGATTACAGTAAAGCAGATTGAAGCTAATAATCCTAT
* * *
35025429 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAG
65 CTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATATCTCTAAAGTTACAGTAGAG
* **
35025494 TAGATCGCATCATATTGAAGCCAGAAATCTTATCCCCCTGAGATTACAATGGAACAA
130 TAGATCGCATCAGATTGAAGCCAGAAATCTTATCCCCCTGAGATTACAACAGAACAA
35025551 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGT
1 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGT
35025588 GGAGCGGGTT
Statistics
Matches: 204, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
185 2 0.01
186 200 0.98
187 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (186 bp):
ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTAAAGCAGATTGAAGCTAATAATCCTATC
TCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATATTATATCTCTAAAGTTACAGTAGAGT
AGATCGCATCAGATTGAAGCCAGAAATCTTATCCCCCTGAGATTACAACAGAACAA
Found at i:35025577 original size:44 final size:44
Alignment explanation
Indices: 35025507--35025590 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
35025497 ATCGCATCAT
*
35025507 ATTGAAGCCAGAAATCTTATCCCCCTGAGATTACAATGGAACAA
1 ATTGAAGCCAGAAATCCTATCCCCCTGAGATTACAATGGAACAA
* * *
35025551 ATTGAAGCCAGTAATCCTATCTCCCTGAGATTACAGTGGA
1 ATTGAAGCCAGAAATCCTATCCCCCTGAGATTACAATGGA
35025591 GCGGGTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (44 bp):
ATTGAAGCCAGAAATCCTATCCCCCTGAGATTACAATGGAACAA
Found at i:35025585 original size:142 final size:142
Alignment explanation
Indices: 35025377--35025647 Score: 409
Period size: 142 Copynumber: 1.9 Consensus size: 142
35025367 TGAACCTAGT
* * * *
35025377 AATCCTATCTCCCTGAGATTACAGTAAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCCTATCCCCCTGAGATTACAATAAAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTA
* *
35025442 CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAT
66 CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAAATCGCATCAT
35025507 ATTGAAGCCAGA
131 ATTGAAGCCAGA
* *
35025519 AATCTTATCCCCCTGAGATTACAATGGAA-CAAATTGAAGCCAGTAATCCTATCTCCCTGAGATT
1 AATCCTATCCCCCTGAGATTACAAT-AAAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATT
* * * * *
35025583 ACAGTGGAGCGGGTTAAAGTAAAGGATCTTATCTTTCTGAAATTACAGTTGAGTAAATCGCATCA
65 ACAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAAATCGCATCA
35025648 AGTCTTATCT
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
142 113 0.98
143 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (142 bp):
AATCCTATCCCCCTGAGATTACAATAAAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTA
CAGTGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAAATCGCATCAT
ATTGAAGCCAGA
Found at i:35025778 original size:50 final size:50
Alignment explanation
Indices: 35025724--35025906 Score: 242
Period size: 50 Copynumber: 3.7 Consensus size: 50
35025714 GCAGTGGAGC
** * * * *
35025724 AGATTAAAGCCACATCGGTGAATCTTACTTTCCTGATACTGCAGTTAAAA
1 AGATTAAAGCCACAAAGGCGAATCTTACTTCCCTGACAGTGCAGTTAAAA
* *
35025774 AGATTAAAGCCACAAAGGC-AATTTTTACTTCCCTGACAGTGCAATTAAAA
1 AGATTAAAGCCACAAAGGCGAA-TCTTACTTCCCTGACAGTGCAGTTAAAA
*
35025824 AGATTAAAGCCACAAAGGCGAATCTTACTTCCCTGACGGTGCAGTTAAAA
1 AGATTAAAGCCACAAAGGCGAATCTTACTTCCCTGACAGTGCAGTTAAAA
* * *
35025874 AGATTGAAGCTACAATGGCGAATCTTACTTCCC
1 AGATTAAAGCCACAAAGGCGAATCTTACTTCCC
35025907 AAAAGTTACG
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 2 0.02
50 113 0.97
51 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAAAGGCGAATCTTACTTCCCTGACAGTGCAGTTAAAA
Found at i:35030500 original size:24 final size:25
Alignment explanation
Indices: 35030472--35030535 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
35030462 CTTTCCATTA
35030472 ATGGCTCTTCA-GAGCTACCTG-TT
1 ATGGCTCTTCATGAGCTACCTGATT
* *
35030495 ATTGGCTC-GCATGAGCTTCCTGATT
1 A-TGGCTCTTCATGAGCTACCTGATT
35030520 ATGGCTCTT-ATGAGCT
1 ATGGCTCTTCATGAGCT
35030536 TTCCGTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 3 0.09
24 28 0.82
25 3 0.09
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTCATGAGCTACCTGATT
Found at i:35030536 original size:24 final size:23
Alignment explanation
Indices: 35030472--35030544 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
35030462 CTTTCCATTA
*
35030472 ATGGCTCTTCA-GAGCTACCTGTT
1 ATGGCTCTT-ATGAGCTTCCTGTT
**
35030495 ATTGGCTCGCATGAGCTTCCTGATT
1 A-TGGCTCTTATGAGCTTCCTG-TT
35030520 ATGGCTCTTATGAGCTTTCC-GTT
1 ATGGCTCTTATGAGC-TTCCTGTT
35030543 AT
1 AT
35030545 AAAACTCGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.15
24 28 0.68
25 7 0.17
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCTGTT
Found at i:35041707 original size:18 final size:18
Alignment explanation
Indices: 35041663--35041708 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
35041653 ATACGAGTGT
*
35041663 ATATTTAAAAATAACATA
1 ATATTTAAAAAAAACATA
** *
35041681 ATAAATAAAAAAAACGTA
1 ATATTTAAAAAAAACATA
35041699 ATATTTAAAA
1 ATATTTAAAA
35041709 TTAATAATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
ATATTTAAAAAAAACATA
Found at i:35056517 original size:39 final size:39
Alignment explanation
Indices: 35056389--35056524 Score: 114
Period size: 40 Copynumber: 3.4 Consensus size: 39
35056379 CGTTTGAATT
* * *
35056389 AAAAACGCCACTAAAAATCAAGCATTAGCGGCG-CTTTTAC
1 AAAAACGCCGCAAAAAAT-AAGCATTAGCGGCGAATTTT-C
* * ** * *
35056429 AAAAACGCAGCTAAAGCTCGAGCATTAGCGGCGAATTTTG
1 AAAAACGCCGCAAAAAAT-AAGCATTAGCGGCGAATTTTC
* * *
35056469 GAAAACGCCGCCAAAAATAAGCATTAGCGGC-ATTTTTC
1 AAAAACGCCGCAAAAAATAAGCATTAGCGGCGAATTTTC
35056507 AAAAAGCGCCGCAAAAAA
1 AAAAA-CGCCGCAAAAAA
35056525 CCTAAGCGGA
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
38 9 0.12
39 23 0.30
40 41 0.53
41 4 0.05
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCAAAAAATAAGCATTAGCGGCGAATTTTC
Found at i:35056592 original size:41 final size:41
Alignment explanation
Indices: 35056547--35056700 Score: 233
Period size: 41 Copynumber: 3.8 Consensus size: 41
35056537 TTTTGGGGCA
*
35056547 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGACC
*
35056588 TTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCTTG-CC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-TGACC
*
35056629 TTTAGCGGCGTTTCTGGAAAAAGCGCCGCTAATG--CTGACC
1 TTTAGCGGCGTTT-TTGAAAAAGCGCCGCTAATGCTCTGACC
*
35056669 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
35056701 AATAAAATCT
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 20 0.19
40 15 0.14
41 49 0.47
42 20 0.19
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGACC
Done.