Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 202 of 207
Found at i:60772137 original size:85 final size:85
Alignment explanation
Indices: 60771940--60772150 Score: 230
Period size: 85 Copynumber: 2.5 Consensus size: 85
60771930 GAAGACAAAA
* * *
60771940 AGATCTTGCCTTCCTACATTAACAGCGAAAGCAGATCGAAAACAAAGCCTTGCATCCATCGATTG
1 AGATCTTACCTCCCTGCATTAACAGCG-AAGCAGATC-AAAACAAAGCCTTGCATCCATCGATTG
60772005 CAGTGGAGCTAGTTAAAGAAGT
64 CAGTGGAGCTAGTTAAAGAAGT
* * * * *
60772027 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAGACAAAGCCTTGCCTCCATCGGTTGCA
1 AGATCTTACCTCCCTGCATTAACAGCGAAGCAGATCAAAACAAAGCCTTGCATCCATCGATTGCA
* * *
60772092 TTGGAGC-AGATTGAAGCCAG-
66 GTGGAGCTAG-TTAAAG-AAGT
* * *
60772112 AGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAA
1 AGATCTTACCTCCCTG-CATTAACAGCGAAGCAGATCAAA
60772151 GATAGTAATC
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
84 2 0.02
85 66 0.61
86 14 0.13
87 26 0.24
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (85 bp):
AGATCTTACCTCCCTGCATTAACAGCGAAGCAGATCAAAACAAAGCCTTGCATCCATCGATTGCA
GTGGAGCTAGTTAAAGAAGT
Found at i:60772306 original size:46 final size:45
Alignment explanation
Indices: 60772234--60772488 Score: 206
Period size: 46 Copynumber: 5.8 Consensus size: 45
60772224 GTAGATCGCA
* * *
60772234 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAT
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
* *
60772279 TGCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-AT
1 T-CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
* * * **
60772324 AT-A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AAT
1 -TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
** * * * * * *
60772366 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-
1 TCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
* * *
60772408 TCAGGTCTTATCTCTCTGA-GTTACAGTGGAGTAGACCGAAGAAT
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
*
60772452 TGCAGATCTTATCCCCCTGAGGTTACAGTGGAGCAGA
1 T-CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
60772489 TTGAAGCCAG
Statistics
Matches: 167, Mismatches: 29, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
40 16 0.10
41 15 0.09
42 6 0.04
43 31 0.19
44 29 0.17
45 18 0.11
46 52 0.31
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT
Found at i:60772387 original size:44 final size:44
Alignment explanation
Indices: 60772112--60772530 Score: 205
Period size: 44 Copynumber: 9.7 Consensus size: 44
60772102 TTGAAGCCAG
* *
60772112 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATC-AAAGATAGT
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAA-ATA-A
* * *
60772157 A-ATCCTATCTCCTTG-AGATTACAATGGAGC--A--G--AATAA
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAAATAA
* * * * *
60772194 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG--CAT-C
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
* * * **
60772236 AGGTCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAATTGC
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAA-AA-TAA
* * * *
60772282 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
* * *
60772326 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAA
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
* * * * *
60772368 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG--CAT-C
1 A-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
* * * * **
60772410 AGGTCTTATCTCTCTG-AGTTACAGTGGAGTAGACCGAAGAATTGC
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAA-AA-TAA
* * * *** *
60772455 AGATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
* *
60772499 AGGTCTTATCTCCCT-AAGATTACAGCGGAGCA
1 AGATCTTATCTCCCTGAAG-TTACAGTGGAGCA
60772531 AGTCGAAGAC
Statistics
Matches: 286, Mismatches: 63, Indels: 51
0.71 0.16 0.13
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 21 0.07
40 22 0.08
41 42 0.15
42 9 0.03
43 37 0.13
44 82 0.29
45 17 0.06
46 51 0.18
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATAA
Found at i:60772398 original size:174 final size:169
Alignment explanation
Indices: 60772112--60772494 Score: 590
Period size: 174 Copynumber: 2.2 Consensus size: 169
60772102 TTGAAGCCAG
* * *
60772112 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
*
60772177 ACAATGGAGCAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 ACAATGGAGCAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
60772242 TATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGC
131 TATCTCCCTGAG-TTACAGTGGAACAGACCGAAGAATTGC
60772282 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-T
*
60772345 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TACAATGGAGC-----AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* **
60772410 AGGTCTTATCTCTCTGAGTTACAGTGGAGTAGACCGAAGAATTGC
125 AGGTCTTATCTCCCTGAGTTACAGTGGAACAGACCGAAGAATTGC
* * *
60772455 AGATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
60772495 CCAGAGGTCT
Statistics
Matches: 196, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
168 1 0.01
169 27 0.14
170 41 0.21
173 62 0.32
174 65 0.33
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (169 bp):
AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATT
ACAATGGAGCAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
TATCTCCCTGAGTTACAGTGGAACAGACCGAAGAATTGC
Found at i:60772506 original size:130 final size:128
Alignment explanation
Indices: 60772285--60772523 Score: 279
Period size: 130 Copynumber: 1.9 Consensus size: 128
60772275 GAATTGCAGA
* *
60772285 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
* * *
60772350 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCT-AAGATTACAGTAGAGTAGATCGCATCAGG
* * * * *
60772413 TCTTATCTCTCTGA-GTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAGGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAGTT
** *
60772476 ACAGTGGAGCAGATTGAAGCCAGAGG-TCTTATCTCCCTAAGATTACAG
62 ACAGTGGAGCAGATT-AAAACAAAGGATCTTATCTCCCTAAGATTACAG
60772524 CGGAGCAAGT
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
126 1 0.01
127 21 0.23
128 13 0.14
129 4 0.04
130 47 0.51
131 6 0.07
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCTAAGATTACAGTAGAGTAGATCGCATCAGG
Found at i:60772544 original size:21 final size:21
Alignment explanation
Indices: 60772520--60772563 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
60772510 CCCTAAGATT
60772520 ACAGCGGAGCA-AGTCGAAGAC
1 ACAGCGGAGCAGA-TCGAAGAC
*
60772541 ACAGCGGAGCGGATCGAAGAC
1 ACAGCGGAGCAGATCGAAGAC
60772562 AC
1 AC
60772564 TATCCTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.25, G:0.34, T:0.05
Consensus pattern (21 bp):
ACAGCGGAGCAGATCGAAGAC
Found at i:60774245 original size:15 final size:15
Alignment explanation
Indices: 60774195--60774255 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
60774185 CCTTTTATTA
*
60774195 TTATTATTATTTA-G
1 TTATTATTATTAATG
* *
60774209 TTCATTGTT-TTATTG
1 TT-ATTATTATTAATG
*
60774224 CTATTATTATTAATG
1 TTATTATTATTAATG
*
60774239 TTATTATTATTATTG
1 TTATTATTATTAATG
60774254 TT
1 TT
60774256 TCTATATTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
14 9 0.25
15 27 0.75
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:60776437 original size:15 final size:15
Alignment explanation
Indices: 60776417--60776447 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60776407 TGAGAATGAC
60776417 TCTAAAAAGGCCAAA
1 TCTAAAAAGGCCAAA
*
60776432 TCTAAAAATGCCAAA
1 TCTAAAAAGGCCAAA
60776447 T
1 T
60776448 TAACATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (15 bp):
TCTAAAAAGGCCAAA
Found at i:60777366 original size:28 final size:30
Alignment explanation
Indices: 60777314--60777386 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
60777304 AAAATATTTT
*
60777314 TTTTATAATTTTT-TAAATAATTTTA-ATGA
1 TTTTA-AATTTTTAAAAATAATTTTATATGA
*
60777343 TTTTAAATTTTTAAAAATAA-TTTATATGT
1 TTTTAAATTTTTAAAAATAATTTTATATGA
*
60777372 TTTTAAA-ATTTAAAA
1 TTTTAAATTTTTAAAA
60777387 TATTAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 18 0.46
29 21 0.54
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (30 bp):
TTTTAAATTTTTAAAAATAATTTTATATGA
Found at i:60777951 original size:17 final size:16
Alignment explanation
Indices: 60777910--60777952 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
60777900 TTTTTACCAA
60777910 TTTTTTAA-TTTTAAT
1 TTTTTTAATTTTTAAT
*
60777925 TTGATTTAATTTTTAAT
1 TT-TTTTAATTTTTAAT
60777942 TTTTTATAATT
1 TTTTT-TAATT
60777953 ATTTGTTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTTTTTAATTTTTAAT
Found at i:60778234 original size:55 final size:55
Alignment explanation
Indices: 60778174--60778288 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
60778164 ACGTTCAAGA
60778174 TTAAATTTATTATTATATAAGAAAAGAAATAAAGAAAAAAATATTTTCAATTTAT
1 TTAAATTTATTATTATATAAGAAAAGAAATAAAGAAAAAAATATTTTCAATTTAT
60778229 TTAAATTTATTATTATATAAGAAAAGAAATAAAGAAAAAAATATTTTCAATTTAT
1 TTAAATTTATTATTATATAAGAAAAGAAATAAAGAAAAAAATATTTTCAATTTAT
60778284 TTAAA
1 TTAAA
60778289 ATAAATATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (55 bp):
TTAAATTTATTATTATATAAGAAAAGAAATAAAGAAAAAAATATTTTCAATTTAT
Found at i:60779114 original size:17 final size:16
Alignment explanation
Indices: 60779092--60779124 Score: 57
Period size: 16 Copynumber: 2.0 Consensus size: 16
60779082 AATATTTGGC
60779092 AATAATAATTAATTTAA
1 AATAATAA-TAATTTAA
60779109 AATAATAATAATTTAA
1 AATAATAATAATTTAA
60779125 TGAGCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATAATTTAA
Found at i:60780348 original size:22 final size:24
Alignment explanation
Indices: 60780321--60780364 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
60780311 CATTTTGTCA
60780321 ATTTTAACTT-TTAT-TCAAAAAT
1 ATTTTAACTTGTTATATCAAAAAT
*
60780343 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
60780365 CATACTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAT
Found at i:60783053 original size:17 final size:16
Alignment explanation
Indices: 60783009--60783067 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
60782999 ATTTAATGGA
60783009 AAAACTTTATTTTTTT
1 AAAACTTTATTTTTTT
* **
60783025 CAATTTTCTATTTTTTCT
1 AAAACTT-TATTTTTT-T
60783043 AAAACTTTATTTTTTT
1 AAAACTTTATTTTTTT
60783059 GAAAACTTT
1 -AAAACTTT
60783068 TATATATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (16 bp):
AAAACTTTATTTTTTT
Found at i:60788656 original size:17 final size:17
Alignment explanation
Indices: 60788631--60788663 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60788621 TAATTTTGTT
*
60788631 TTTATTTTGGGTTGGGG
1 TTTAATTTGGGTTGGGG
60788648 TTTAATTTGGGTTGGG
1 TTTAATTTGGGTTGGG
60788664 TTTTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (17 bp):
TTTAATTTGGGTTGGGG
Found at i:60808256 original size:20 final size:21
Alignment explanation
Indices: 60808224--60808263 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
60808214 CTTATTTTTA
60808224 AAAAATTATTAAAATTATAAG
1 AAAAATTATTAAAATTATAAG
60808245 AAAAATTA-TAAAATTATAA
1 AAAAATTATTAAAATTATAA
60808264 AAATTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAATTATTAAAATTATAAG
Found at i:60808518 original size:12 final size:12
Alignment explanation
Indices: 60808501--60808525 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60808491 ATGTTATTTC
60808501 AATTAAAATAAT
1 AATTAAAATAAT
60808513 AATTAAAATAAT
1 AATTAAAATAAT
60808525 A
1 A
60808526 TTATTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAATAAT
Found at i:60809064 original size:9 final size:9
Alignment explanation
Indices: 60809011--60809084 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
60809001 TAAATATATC
60809011 ATTTTTATA
1 ATTTTTATA
60809020 A-TTTTATTA
1 ATTTTTA-TA
*
60809029 ATATTTTGTA
1 AT-TTTTATA
*
60809039 TTTTTTAATA
1 ATTTTT-ATA
60809049 ATTTTTTTATA
1 A--TTTTTATA
*
60809060 ATTTTTAGA
1 ATTTTTATA
*
60809069 GATTTTTATG
1 -ATTTTTATA
60809079 ATTTTT
1 ATTTTT
60809085 TGGATGATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.10
9 21 0.41
10 12 0.24
11 8 0.16
12 5 0.10
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:60809886 original size:32 final size:32
Alignment explanation
Indices: 60809850--60809914 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
60809840 AGTTACGAGA
60809850 ACAAATACGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
60809882 ACAAATACGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
60809914 A
1 A
60809915 AAAACTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.66, C:0.15, G:0.06, T:0.12
Consensus pattern (32 bp):
ACAAATACGAGAATAAACATAAAAACAACAAT
Found at i:60822250 original size:15 final size:15
Alignment explanation
Indices: 60822226--60822281 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
60822216 CCCTTTTTTT
60822226 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
60822240 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
60822255 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
60822270 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
60822282 TTATTAGAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:60822250 original size:21 final size:21
Alignment explanation
Indices: 60822220--60822281 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
60822210 CCTCCTCCCT
*
60822220 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
60822241 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
60822263 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
60822282 TTATTAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:60828608 original size:37 final size:36
Alignment explanation
Indices: 60828552--60828693 Score: 140
Period size: 37 Copynumber: 3.8 Consensus size: 36
60828542 TATTTTTGGT
*
60828552 TGGACTAGCTCTTATGAGCATCTAGCGTGTTATCGAG
1 TGGACTAGCTCTTAAGAGCAT-TAGCGTGTTATCGAG
** * *
60828589 TGGACTAGCTCTTCGGAGCAATTGGCGTGTTATTGAG
1 TGGACTAGCTCTTAAGAGC-ATTAGCGTGTTATCGAG
* * * *
60828626 TGGACTAGCTCTTTAGAGTAATTAGTGTGTTATCGAA
1 TGGACTAGCTCTTAAGAG-CATTAGCGTGTTATCGAG
* **
60828663 TGGATTAGCTCTTACTAGCAATTAGCGTGTT
1 TGGACTAGCTCTTAAGAGC-ATTAGCGTGTT
60828694 TCAGTTGGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
37 83 0.98
38 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (36 bp):
TGGACTAGCTCTTAAGAGCATTAGCGTGTTATCGAG
Found at i:60828657 original size:74 final size:74
Alignment explanation
Indices: 60828552--60828693 Score: 182
Period size: 74 Copynumber: 1.9 Consensus size: 74
60828542 TATTTTTGGT
* * *
60828552 TGGACTAGCTCTTATGAGCATCTAGCGTGTTATCGAGTGGACTAGCTCTT-CGGAGCAATTGGCG
1 TGGACTAGCTCTTATGAGAATCTAGCGTGTTATCGAATGGACTAGCTCTTAC-GAGCAATTAGCG
60828616 TGTTATTGAG
65 TGTTATTGAG
* * *
60828626 TGGACTAGCTCTT-TAGAGTAAT-TAGTGTGTTATCGAATGGATTAGCTCTTACTAGCAATTAGC
1 TGGACTAGCTCTTAT-GAG-AATCTAGCGTGTTATCGAATGGACTAGCTCTTACGAGCAATTAGC
60828689 GTGTT
64 GTGTT
60828694 TCAGTTGGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
73 1 0.02
74 55 0.93
75 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (74 bp):
TGGACTAGCTCTTATGAGAATCTAGCGTGTTATCGAATGGACTAGCTCTTACGAGCAATTAGCGT
GTTATTGAG
Found at i:60841526 original size:130 final size:129
Alignment explanation
Indices: 60841260--60841526 Score: 419
Period size: 130 Copynumber: 2.1 Consensus size: 129
60841250 GACTGGATGT
* **
60841260 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGCTCTTCACTCTATTCCACTGTTGCCCG
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCG
*
60841325 AGAGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTC
66 AGAGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTC
* *
60841389 GACCTGCTCCACTATTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCA
1 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCC-
* ** *
60841454 GGGAGATAGAACTACTGGCTT-TAATGTACTCCACCGTAATCGGGGAGGTAAAATCCGCCATCGT
65 GAGAGATAGAACTACCAGCTTCT-ATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGT
60841518 C
129 C
60841519 GATCTGCT
1 GATCTGCT
60841527 TCGCTGCCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
129 60 0.48
130 65 0.52
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (129 bp):
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCG
AGAGATAGAACTACCAGCTTCTATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCGTC
Found at i:60841783 original size:132 final size:132
Alignment explanation
Indices: 60841590--60842347 Score: 1282
Period size: 132 Copynumber: 5.7 Consensus size: 132
60841580 CAAATACAGG
* * * * *
60841590 GACAATATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
60841655 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATATACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
60841720 AA
131 AA
*
60841722 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* * *
60841787 TCCACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATGCATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
60841852 AA
131 AA
** *
60841854 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTATATCTTGGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
60841919 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
60841984 AA
131 AA
* * *
60841986 GACAAAATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
* *
60842051 CCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
60842116 AA
131 AA
*
60842118 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATATTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
*
60842183 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACTTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
60842248 AA
131 AA
* *
60842250 GACAAGATCTGTTTTCTTCGATTTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
60842315 TCCACTTCCTACCAATATAGGAAGATAGGACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
60842348 ATTACGCCTA
Statistics
Matches: 586, Mismatches: 40, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 586 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:60842910 original size:108 final size:108
Alignment explanation
Indices: 60842721--60842916 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
60842711 GAAAAATGCT
*
60842721 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAC
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAC
60842786 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAAAAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAAAAAGA
* * * ** *
60842829 TGAAAAAGATTATCACAATGGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAC
*
60842894 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
60842917 AGAATACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.24
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAC
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAAAAAGA
Found at i:60853854 original size:109 final size:109
Alignment explanation
Indices: 60853658--60853858 Score: 294
Period size: 109 Copynumber: 1.8 Consensus size: 109
60853648 ACTTTGAAGA
* *
60853658 TTTAAGAGGATATTTGGCTATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
** * *
60853723 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* ** * *
60853767 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
*
60853832 TCTCGAACTTTCCAAACGCGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
60853859 GCTTTTTCGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:60854086 original size:15 final size:15
Alignment explanation
Indices: 60854066--60854095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60854056 AATAATAATT
60854066 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
60854081 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
60854096 GCTAAGTGGG
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:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:60854199 original size:15 final size:15
Alignment explanation
Indices: 60854179--60854209 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60854169 AAATATATTA
60854179 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
60854194 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
60854209 A
1 A
60854210 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:60854562 original size:19 final size:17
Alignment explanation
Indices: 60854527--60854583 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
60854517 AAAAATAGTG
60854527 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
* *
60854544 GTAATATAACAAG-AGA
1 ATAATATAACAAGAATA
* *
60854560 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
60854578 ATAATA
1 ATAATA
60854584 GTAATGGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.59
18 7 0.22
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:60854567 original size:3 final size:3
Alignment explanation
Indices: 60854559--60854625 Score: 71
Period size: 3 Copynumber: 21.3 Consensus size: 3
60854549 ATAACAAGAG
*
60854559 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT AAT AAT
* * *
60854607 AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
60854626 TAAATAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 49 0.92
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:60855559 original size:26 final size:26
Alignment explanation
Indices: 60855530--60855582 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
60855520 ATTCGCGAAG
*
60855530 AGAAAAAAAATAAA-AGAAAATACAAA
1 AGAAAAAAAATAAATA-AAAATAAAAA
*
60855556 AGAAAAAAACTAAATAAAAATAAAAA
1 AGAAAAAAAATAAATAAAAATAAAAA
60855582 A
1 A
60855583 AGAACCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (26 bp):
AGAAAAAAAATAAATAAAAATAAAAA
Found at i:60855564 original size:20 final size:19
Alignment explanation
Indices: 60855532--60855586 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
60855522 TCGCGAAGAG
60855532 AAAAA-AAATAAAAGAAAAT
1 AAAAAGAAA-AAAAGAAAAT
**
60855551 ACAAAAGAAAAAAACTAAAT
1 A-AAAAGAAAAAAAGAAAAT
*
60855571 AAAAATAAAAAAAGAA
1 AAAAAGAAAAAAAGAA
60855587 CCAAGAACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.82, C:0.04, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAAAAGAAAAT
Found at i:60855891 original size:21 final size:22
Alignment explanation
Indices: 60855856--60855906 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
60855846 GGTGTCAGAC
60855856 GGTATGGGACTGTTGTAGTAGA
1 GGTATGGGACTGTTGTAGTAGA
* *
60855878 GGTATGGG-CTGTTGTAGTGGG
1 GGTATGGGACTGTTGTAGTAGA
60855899 GGTATGGG
1 GGTATGGG
60855907 GTTTGGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.16, C:0.04, G:0.49, T:0.31
Consensus pattern (22 bp):
GGTATGGGACTGTTGTAGTAGA
Found at i:60856520 original size:45 final size:44
Alignment explanation
Indices: 60856393--60856761 Score: 258
Period size: 44 Copynumber: 8.3 Consensus size: 44
60856383 GAGTCTGTTT
* * * * *
60856393 TTCAATCCACTTCCTACCAATATAGGGAGGCAGGATCTGCTATC
1 TTCAATCTACTTCCTACCAATACAGGAAGACAAGATCTGCTATC
* * * * * *
60856437 TTCGATCTATTTCGTTGCCGAATACAGGAAGGCAAGATCTGCAATC
1 TTCAATCTACTTC-CTACC-AATACAGGAAGACAAGATCTGCTATC
* * *
60856483 TTCAATCTACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATC
1 TTCAATCTACTTCCTACC-AATACAGGAAGACAAGATCTGCTATC
* * * * * *
60856528 TTCAATCTATTTCAC-ATCAATATATGAAGATAAGATCTGCTTTC
1 TTCAATCTACTTC-CTACCAATACAGGAAGACAAGATCTGCTATC
* * * * ** *
60856572 TTCGATCTAATTCGCCACCAGTATGGGAAGACAAGATCTGC-GTC
1 TTCAATCTACTTC-CTACCAATACAGGAAGACAAGATCTGCTATC
* * * * ** * *
60856616 GTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGTTATC
1 TTCAATCTACTTCCTACCAATACAGGAAGACAAGATCTGCTATC
** * * * *
60856660 TTTGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTC
1 TTCAATCTACTTCCTACCAATACAGGAAGACAAGATCTGCTATC
* * * *
60856704 TTCAGTCTACTTCCTACCTAATACAAGAAGGCAAGATCTGCAATC
1 TTCAATCTACTTCCTACC-AATACAGGAAGACAAGATCTGCTATC
60856749 TTCAATCTA-TTCC
1 TTCAATCTACTTCC
60856762 ACTGCCCGAT
Statistics
Matches: 254, Mismatches: 65, Indels: 12
0.77 0.20 0.04
Matches are distributed among these distances:
43 20 0.08
44 105 0.41
45 95 0.37
46 34 0.13
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
TTCAATCTACTTCCTACCAATACAGGAAGACAAGATCTGCTATC
Found at i:60857559 original size:134 final size:134
Alignment explanation
Indices: 60856723--60857549 Score: 1582
Period size: 134 Copynumber: 6.2 Consensus size: 134
60856713 CTTCCTACCT
* *
60856723 AATACAAGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCCGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
60856788 ATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
66 ATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
*
60856853 CTGCCT
129 CTGCCA
60856859 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
60856924 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
60856989 GCCA
131 GCCA
60856993 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
60857058 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
*
60857123 GCCT
131 GCCA
60857127 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
60857192 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
60857257 GCCA
131 GCCA
60857261 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
*
60857326 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTACTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
*
60857391 GCCT
131 GCCA
60857395 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
1 AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
60857460 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
66 ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
60857525 GCCA
131 GCCA
60857529 AATACAGGAAGGCAAGATCTG
1 AATACAGGAAGGCAAGATCTG
60857550 ATAACTTCAA
Statistics
Matches: 682, Mismatches: 9, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
134 592 0.87
136 90 0.13
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (134 bp):
AATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTT
ATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
GCCA
Found at i:60863422 original size:109 final size:109
Alignment explanation
Indices: 60863226--60863426 Score: 294
Period size: 109 Copynumber: 1.8 Consensus size: 109
60863216 ACTTTGAAGA
* *
60863226 TTTAAGAGGATATTTGGCTATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
** * *
60863291 TCTCGATTTTTCTAAATACGAAATATTACCTTTATTATTGAAAG
66 TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
* ** * *
60863335 TTTAAAAGGGTATTTGGCCATTTGGTCGAACGAGGAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
*
60863400 TCTCGAACTTTCCAAACGCGAAATATT
66 TCTCGAACTTTCCAAACACGAAATATT
60863427 GCTTTTACGA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (109 bp):
TTTAAAAGGATATTTGGCCATTTAATCGAACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTT
TCTCGAACTTTCCAAACACGAAATATTACCTTTATTATTGAAAG
Found at i:60863654 original size:15 final size:15
Alignment explanation
Indices: 60863634--60863663 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
60863624 AATAATAATT
60863634 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
60863649 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
60863664 GCTAAGTGGG
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:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:60863766 original size:15 final size:15
Alignment explanation
Indices: 60863746--60863776 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60863736 AAATATATTA
60863746 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
60863761 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
60863776 A
1 A
60863777 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:60864128 original size:19 final size:17
Alignment explanation
Indices: 60864093--60864149 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
60864083 AAAAATAGTG
60864093 ATAATATAACAAGAATA
1 ATAATATAACAAGAATA
* *
60864110 GTAATATAACAAG-AGA
1 ATAATATAACAAGAATA
* *
60864126 ATAATAATAATAATAATA
1 ATAAT-ATAACAAGAATA
60864144 ATAATA
1 ATAATA
60864150 GTAATGGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 6 0.19
17 19 0.59
18 7 0.22
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (17 bp):
ATAATATAACAAGAATA
Found at i:60864133 original size:3 final size:3
Alignment explanation
Indices: 60864125--60864191 Score: 71
Period size: 3 Copynumber: 21.3 Consensus size: 3
60864115 ATAACAAGAG
*
60864125 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT GGAGAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --A-AT AAT AAT AAT AAT
* * *
60864173 AAT GAT ACT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
60864192 TAAATAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
3 49 0.92
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:60865131 original size:20 final size:19
Alignment explanation
Indices: 60865098--60865150 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
60865088 CGCGAAGAGA
* *
60865098 AAAAAAAAATAAAAGAAAAT
1 AAAAAGAAA-AAAACAAAAT
*
60865118 ACAAAAGAAAAAAACTAAAT
1 A-AAAAGAAAAAAACAAAAT
*
60865138 AAAAATAAAAAAA
1 AAAAAGAAAAAAA
60865151 AAGAACCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 11 0.39
20 10 0.36
21 7 0.25
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (19 bp):
AAAAAGAAAAAAACAAAAT
Found at i:60865136 original size:26 final size:24
Alignment explanation
Indices: 60865097--60865152 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
60865087 TCGCGAAGAG
60865097 AAAAAAAAAATAAA-AGAAAATACAA
1 AAAAAAAAAATAAATA-AAAATA-AA
*
60865122 AAGAAAAAAACTAAATAAAAATAAA
1 AA-AAAAAAAATAAATAAAAATAAA
60865147 AAAAAA
1 AAAAAA
60865153 GAACCAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 6 0.21
26 17 0.61
27 1 0.04
ACGTcount: A:0.84, C:0.04, G:0.04, T:0.09
Consensus pattern (24 bp):
AAAAAAAAAATAAATAAAAATAAA
Found at i:60865478 original size:22 final size:22
Alignment explanation
Indices: 60865426--60865478 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
60865416 GGTGTCAGAC
*
60865426 GGTATGGGACTGTTGTAGTGGA
1 GGTATGGGGCTGTTGTAGTGGA
*
60865448 GGTATGGGGCTGTTGTAGTGGG
1 GGTATGGGGCTGTTGTAGTGGA
60865470 GGTATGGGG
1 GGTATGGGG
60865479 TTTGGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.04, G:0.53, T:0.30
Consensus pattern (22 bp):
GGTATGGGGCTGTTGTAGTGGA
Found at i:60865831 original size:16 final size:15
Alignment explanation
Indices: 60865810--60865857 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
60865800 GATGGGAATA
60865810 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
60865826 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
60865841 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
60865857 A
1 A
60865858 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:60865840 original size:8 final size:8
Alignment explanation
Indices: 60865806--60865857 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
60865796 CAATGATGGG
*
60865806 AATAATAA
1 AATATTAA
60865814 AATATATAA
1 AATAT-TAA
60865823 AATA-TAA
1 AATATTAA
60865830 AATATTAA
1 AATATTAA
*
60865838 AATATCAA
1 AATATTAA
*
60865846 AATATTAG
1 AATATTAA
60865854 AATA
1 AATA
60865858 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:60865857 original size:24 final size:24
Alignment explanation
Indices: 60865805--60865861 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
60865795 ACAATGATGG
*
60865805 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
60865829 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
60865853 GAATAATAA
1 GAATAATAA
60865862 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:60866071 original size:22 final size:24
Alignment explanation
Indices: 60865986--60866072 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
60865976 TGTACATATA
* *
60865986 TAAAAATAAATACATGATAATA--T
1 TAAAAATATATACATAAT-ATAGGT
*
60866009 TAAAAATATGTACATAATATAGTGT
1 TAAAAATATATACATAATATAG-GT
*
60866034 TAAAAATACATACATAATATA-GT
1 TAAAAATATATACATAATATAGGT
*
60866057 T-AAGATATATACATAA
1 TAAAAATATATACATAA
60866073 GATAACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 18 0.33
25 20 0.37
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
TAAAAATATATACATAATATAGGT
Found at i:60866131 original size:25 final size:25
Alignment explanation
Indices: 60866097--60866230 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
60866087 AAAAATATAT
60866097 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
60866122 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
60866147 ATATATATACGTAATATAA-ATTTTAA-
1 ATATATA-A-ATAATATAATA-TTAAAG
** *
60866173 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
60866195 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
60866218 AAATAT-AATAATA
1 ATATATAAATAATA
60866231 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 3 0.04
27 9 0.11
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:60866794 original size:30 final size:30
Alignment explanation
Indices: 60866753--60866914 Score: 261
Period size: 30 Copynumber: 5.4 Consensus size: 30
60866743 AATGGAGCAA
*
60866753 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* *
60866783 GTGTCGCTAGTGGAGTTGGTGGTGGAAAAA
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
**
60866813 GAATGGCTAGTGGAGTTGGTGGTGGAAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGG-AAAAG
*
60866844 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
60866874 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
60866904 GTGTGGCTAGT
1 GTGTGGCTAGT
60866915 TGAGAAAAGT
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
30 94 0.77
31 28 0.23
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:60866867 original size:61 final size:60
Alignment explanation
Indices: 60866756--60866914 Score: 255
Period size: 61 Copynumber: 2.6 Consensus size: 60
60866746 GGAGCAAGTG
* *
60866756 TGGCTAGTGGATTTGGTGGTGGAAAAGGTGTCGCTAGTGGAGTTGGTGGTGGAAAAAGAA
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAA
* * **
60866816 TGGCTAGTGGAGTTGGTGGTGGAAAAAGGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGGTG
1 TGGCTAGTGGAGTTGGTGGTGG-AAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAA
60866877 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGT
60866915 TGAGAAAAGT
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 36 0.40
61 55 0.60
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (60 bp):
TGGCTAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAA
Found at i:60875742 original size:24 final size:22
Alignment explanation
Indices: 60875715--60875765 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 22
60875705 TTTATTATTT
60875715 ATAATATTTTATAATTAAATTTAA
1 ATAATATTTT-T-ATTAAATTTAA
*
60875739 ATAAAATATTTTTATTAATTTTAA
1 AT--AATATTTTTATTAAATTTAA
60875763 ATA
1 ATA
60875766 GCTAGGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
22 1 0.04
24 14 0.58
25 1 0.04
26 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAATATTTTTATTAAATTTAA
Found at i:60881541 original size:13 final size:14
Alignment explanation
Indices: 60881523--60881551 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60881513 CACAATTCAT
60881523 TTAATATTT-TATA
1 TTAATATTTATATA
60881536 TTAATATTTATATA
1 TTAATATTTATATA
60881550 TT
1 TT
60881552 TTTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATATTTATATA
Found at i:60881568 original size:23 final size:20
Alignment explanation
Indices: 60881521--60881569 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
60881511 TTCACAATTC
60881521 ATTTAATATTTTATATTAAT
1 ATTTAATATTTTATATTAAT
60881541 ATTTATATATTTTTATTATTAAT
1 ATTTA-ATA-TTTTA-TATTAAT
*
60881564 TTTTAA
1 ATTTAA
60881570 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 3 0.12
22 6 0.24
23 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTAATATTTTATATTAAT
Found at i:60882006 original size:17 final size:17
Alignment explanation
Indices: 60881984--60882017 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60881974 GTCAATCCTG
60881984 TGTTTATCATTAGAGAA
1 TGTTTATCATTAGAGAA
*
60882001 TGTTTATTATTAGAGAA
1 TGTTTATCATTAGAGAA
60882018 GAGATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (17 bp):
TGTTTATCATTAGAGAA
Found at i:60884068 original size:16 final size:16
Alignment explanation
Indices: 60884049--60884079 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60884039 TACACCCATA
*
60884049 TATATGTACATATTTT
1 TATATATACATATTTT
60884065 TATATATACATATTT
1 TATATATACATATTT
60884080 ATCGCTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:60885837 original size:18 final size:19
Alignment explanation
Indices: 60885801--60885842 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
60885791 ACCAAAAAAT
60885801 AAAATTACAAGCCTAAATA-
1 AAAATTACAAGCC-AAATAC
60885820 AAAATTACAAGTCC-AATAC
1 AAAATTACAAG-CCAAATAC
60885839 AAAA
1 AAAA
60885843 AACTAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 15 0.71
20 2 0.10
ACGTcount: A:0.60, C:0.17, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAATTACAAGCCAAATAC
Found at i:60885842 original size:19 final size:18
Alignment explanation
Indices: 60885797--60885835 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
60885787 CAAAACCAAA
60885797 AAAT-AAAATTACAAGCC
1 AAATAAAAATTACAAGCC
60885814 TAAATAAAAATTACAAGTCC
1 -AAATAAAAATTACAAG-CC
60885834 AA
1 AA
60885836 TACAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 13 0.68
20 2 0.11
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAATTACAAGCC
Found at i:60887527 original size:40 final size:39
Alignment explanation
Indices: 60887462--60887593 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 39
60887452 AGTTTGGCAT
* *
60887462 CCAGTGTCTCATCAGATAATTCGAAGTAATAAATTGACAC
1 CCAGTGTCTCATCGGATAATCCGAAGT-ATAAATTGACAC
* * *
60887502 CCAGTGTCTCATCGGCTAAACCGAAG--TAAATTGGCAC
1 CCAGTGTCTCATCGGATAATCCGAAGTATAAATTGACAC
* * *
60887539 CCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGACAC
1 CCAGTGTCTCATCGGA-TAATCCGAAGTA-TAAATTGACAC
60887580 CCAGTGTCTCATCG
1 CCAGTGTCTCATCG
60887594 ACTCGAAGTC
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 23 0.30
38 8 0.11
40 22 0.29
41 23 0.30
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (39 bp):
CCAGTGTCTCATCGGATAATCCGAAGTATAAATTGACAC
Found at i:60887581 original size:41 final size:41
Alignment explanation
Indices: 60887462--60887594 Score: 134
Period size: 41 Copynumber: 3.4 Consensus size: 41
60887452 AGTTTGGCAT
** *
60887462 CCAGTGTCTCATC-AGA-TAATTCGAAGTAATAAATTGACAC
1 CCAGTGTCTCATCGA-ACTAAACCGAAGTAGTAAATTGACAC
* *
60887502 CCAGTGTCTCATCG-GCTAAACCG-A--AGTAAATTGGCAC
1 CCAGTGTCTCATCGAACTAAACCGAAGTAGTAAATTGACAC
* * * *
60887539 CCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGACAC
1 CCAGTGTCTCATCGAACTAAACCGAAGTAGTAAATTGACAC
60887580 CCAGTGTCTCATCGA
1 CCAGTGTCTCATCGA
60887595 CTCGAAGTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
37 24 0.32
38 5 0.07
39 2 0.03
40 18 0.24
41 26 0.35
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
CCAGTGTCTCATCGAACTAAACCGAAGTAGTAAATTGACAC
Found at i:60888556 original size:35 final size:36
Alignment explanation
Indices: 60888510--60888600 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 36
60888500 TTTATCATTA
* *
60888510 TAATATAATAATATATATACT-TA-ACTTTTAAGTTT
1 TAATATTATAATATATATACTATATA-TTTTAACTTT
* *
60888545 TAATATTATAATGT-TATAATATATATTTTAACTTT
1 TAATATTATAATATATATACTATATATTTTAACTTT
*
60888580 AAATATTTATAATATATATAC
1 TAATA-TTATAATATATATAC
60888601 ACTTATGCTC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 5 0.11
35 27 0.60
36 9 0.20
37 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (36 bp):
TAATATTATAATATATATACTATATATTTTAACTTT
Found at i:60895187 original size:28 final size:28
Alignment explanation
Indices: 60895132--60895188 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
60895122 CTATTGGCTC
* * ***
60895132 ACATACCTATGCATGTTTCTTTTTTTCA
1 ACATACCTAGGCATGTTGCTTCAATTCA
60895160 ACATACCTAGGCATGTTGCTTCAATTCA
1 ACATACCTAGGCATGTTGCTTCAATTCA
60895188 A
1 A
60895189 TGATTGGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (28 bp):
ACATACCTAGGCATGTTGCTTCAATTCA
Found at i:60896114 original size:4 final size:4
Alignment explanation
Indices: 60896105--60896132 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
60896095 GTTCGTATCT
60896105 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA
60896133 AAGGAAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:60896983 original size:22 final size:22
Alignment explanation
Indices: 60896958--60897005 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
60896948 ACCTTGATTT
*
60896958 TATTAATTTTTTAAATATAAAA
1 TATTAATATTTTAAATATAAAA
* *
60896980 TATT--TATTTTATATATAAAT
1 TATTAATATTTTAAATATAAAA
60897000 TATTAA
1 TATTAA
60897006 AAAAATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
20 17 0.81
22 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTAATATTTTAAATATAAAA
Found at i:60896995 original size:20 final size:20
Alignment explanation
Indices: 60896966--60897003 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60896956 TTTATTAATT
60896966 TTTTAAATATAAAATATTTA
1 TTTTAAATATAAAATATTTA
* *
60896986 TTTTATATATAAATTATT
1 TTTTAAATATAAAATATT
60897004 AAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAATATAAAATATTTA
Found at i:60902255 original size:29 final size:30
Alignment explanation
Indices: 60902192--60902271 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
60902182 ATACTAAAAC
* *
60902192 TATACATGAACTATGATTTAATGTGCAATTG
1 TATATATGAACTTTGATTT-ATGTGCAATTG
* *
60902223 TATATATGAACTTTGATTT-TGTGTAATTT
1 TATATATGAACTTTGATTTATGTGCAATTG
*
60902252 TATATATAGAATTTTGATTT
1 TATATAT-GAACTTTGATTT
60902272 GATCTAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.35
30 11 0.26
31 17 0.40
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (30 bp):
TATATATGAACTTTGATTTATGTGCAATTG
Found at i:60902280 original size:30 final size:29
Alignment explanation
Indices: 60902192--60902280 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
60902182 ATACTAAAAC
* *
60902192 TATACATGAACTATGATTTAATGTGC-AATTG
1 TATATATGAACTTTGATTT--TGT-CTAATTG
* *
60902223 TATATATGAACTTTGATTTTGTGTAATTT
1 TATATATGAACTTTGATTTTGTCTAATTG
*
60902252 TATATATAGAATTTTGA-TTTGATCTAATT
1 TATATAT-GAACTTTGATTTTG-TCTAATT
60902281 CTTCATGAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 18 0.37
30 14 0.29
31 17 0.35
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (29 bp):
TATATATGAACTTTGATTTTGTCTAATTG
Found at i:60902489 original size:29 final size:30
Alignment explanation
Indices: 60902405--60902494 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 30
60902395 TGTATGATTA
* *
60902405 AATCAAAATTAAAGTTTAAAGTATATATTTG
1 AATC-AAATTAAAGTTTAATGTATATAATTG
* * * *
60902436 AATTACAATTAGAGTTTCATATATATAATTG
1 AATCA-AATTAAAGTTTAATGTATATAATTG
*
60902467 CATCAAATTAAAGTTT-ATGTATATAATT
1 AATCAAATTAAAGTTTAATGTATATAATT
60902495 ACACATTAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
29 11 0.23
30 11 0.23
31 26 0.54
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (30 bp):
AATCAAATTAAAGTTTAATGTATATAATTG
Found at i:60903502 original size:20 final size:20
Alignment explanation
Indices: 60903477--60903516 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60903467 TTGAATTGTA
*
60903477 AAAATTATCTTGAATTTTTT
1 AAAATTATCTTAAATTTTTT
*
60903497 AAAATTATTTTAAATTTTTT
1 AAAATTATCTTAAATTTTTT
60903517 GTTGAGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
AAAATTATCTTAAATTTTTT
Found at i:60906241 original size:15 final size:16
Alignment explanation
Indices: 60906209--60906247 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
60906199 TTAGTCACTT
60906209 AAAATTTATAAAATTA
1 AAAATTTATAAAATTA
* *
60906225 AAAATTTATATAATAA
1 AAAATTTATAAAATTA
60906241 AAAATTT
1 AAAATTT
60906248 CTATTTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTATAAAATTA
Found at i:60910391 original size:27 final size:27
Alignment explanation
Indices: 60910338--60910393 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
60910328 TATGTTGTTG
*
60910338 ATGATGAAGATGAGGAGGAAGAAGAAA
1 ATGATGAAGATGAGGAAGAAGAAGAAA
** * *
60910365 ATGATGAAGATTTGGAAGAGGAGGAAA
1 ATGATGAAGATGAGGAAGAAGAAGAAA
60910392 AT
1 AT
60910394 CGTAACCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (27 bp):
ATGATGAAGATGAGGAAGAAGAAGAAA
Found at i:60918887 original size:23 final size:24
Alignment explanation
Indices: 60918848--60918893 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
60918838 ATTATATATT
60918848 AAATATATATTTTTATTTTTAATC
1 AAATATATATTTTTATTTTTAATC
60918872 AAATATAT-TTTTTATTTTTAAT
1 AAATATATATTTTTATTTTTAAT
60918894 TTAGATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
AAATATATATTTTTATTTTTAATC
Found at i:60933133 original size:69 final size:69
Alignment explanation
Indices: 60933053--60933433 Score: 595
Period size: 69 Copynumber: 5.5 Consensus size: 69
60933043 GACTTTCAAG
* *
60933053 GGCAGATATATTTCCAGATAACTGATTAAAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
1 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
60933118 GAAT
66 GAAT
* * *
60933122 GGCAGATATATTTCCAGAAAATTGATTAAAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
1 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
60933187 GAAT
66 GAAT
* * * *
60933191 GGCAGATGTAGTTCCAGAGAACTTATTAGAAGAGAGGTCCAAAGATTCAAGCAATGTTAGGCTCT
1 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
60933256 GAAT
66 GAAT
60933260 GGCA-AGTATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTC
1 GGCAGA-TATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTC
60933324 TGAAT
65 TGAAT
* * *
60933329 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGATGTCCAAAGATTCAAGCAATGTTAAGCTCT
1 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
*
60933394 GAAG
66 GAAT
* *
60933398 GGCAGATATATTTCCGGAAAACTGATT-GTAAGAGAG
1 GGCAGATATATTTCCAGAGAACTGATTAG-AAGAGAG
60933434 AGATAACATT
Statistics
Matches: 289, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
68 2 0.01
69 286 0.99
70 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (69 bp):
GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATGCAAGCAATGTTAGGCTCT
GAAT
Found at i:60947500 original size:29 final size:29
Alignment explanation
Indices: 60947459--60947521 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
60947449 TAAATTTTGT
* *
60947459 TTAAAATTTATTAAATAACAATTAATTAA
1 TTAAAACTGATTAAATAACAATTAATTAA
** *
60947488 TTAAAACTGATTAAATATTAATTAATTAT
1 TTAAAACTGATTAAATAACAATTAATTAA
60947517 TTAAA
1 TTAAA
60947522 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAAACTGATTAAATAACAATTAATTAA
Found at i:60947778 original size:20 final size:21
Alignment explanation
Indices: 60947755--60947794 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
60947745 TATGAAATCA
60947755 AATTAAATAAT-AAAATATTT
1 AATTAAATAATAAAAATATTT
* *
60947775 AATTTAATTATAAAAATATT
1 AATTAAATAATAAAAATATT
60947795 AATATTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAAATAATAAAAATATTT
Found at i:60956940 original size:69 final size:68
Alignment explanation
Indices: 60956866--60957039 Score: 276
Period size: 69 Copynumber: 2.5 Consensus size: 68
60956856 GACTTTCAAG
60956866 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATGTTAGGCTCT
1 GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATGTTAGGCTCT
60956931 GAA
66 GAA
*
60956934 TGGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATTTTAGGCTC
1 -GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATGTTAGGCTC
*
60956999 TTAA
65 TGAA
* * * *
60957003 GGATAGATATATTTCCGGAAAACTGATTGGAAGAGAG
1 GG-CAGATATATTTCCAGAGAACTGATTAGAAGAGAG
60957040 AGATAACATT
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
68 2 0.02
69 96 0.98
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (68 bp):
GGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATGTTAGGCTCT
GAA
Found at i:60959108 original size:28 final size:29
Alignment explanation
Indices: 60959067--60959139 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 29
60959057 AAAAATGTTG
* *
60959067 AATCTAGTATTGTAAGAATTTTGATTTTA
1 AATCTAGAATTGTAAGAATTTTGATTTAA
*
60959096 AATCT-TAATTGTAAGAATTTTGATTTAA
1 AATCTAGAATTGTAAGAATTTTGATTTAA
60959124 AATCTAGAATTGTAAG
1 AATCTAGAATTGTAAG
60959140 GTTCTTAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (29 bp):
AATCTAGAATTGTAAGAATTTTGATTTAA
Found at i:60959767 original size:15 final size:15
Alignment explanation
Indices: 60959747--60959779 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
60959737 ACTATAGTTG
60959747 AAACCATTACCACTC
1 AAACCATTACCACTC
60959762 AAACCATTACCACTC
1 AAACCATTACCACTC
60959777 AAA
1 AAA
60959780 TCAAGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCATTACCACTC
Found at i:60963593 original size:16 final size:17
Alignment explanation
Indices: 60963561--60963593 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60963551 AATATTCAAC
*
60963561 ATTCAAATAGCATATAT
1 ATTCAAATAGCAAATAT
60963578 ATTCAAA-AGCAAATAT
1 ATTCAAATAGCAAATAT
60963594 TGAAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTCAAATAGCAAATAT
Found at i:60963818 original size:13 final size:13
Alignment explanation
Indices: 60963800--60963824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60963790 TACTTGTTTA
60963800 GATAAAAAATTTG
1 GATAAAAAATTTG
60963813 GATAAAAAATTT
1 GATAAAAAATTT
60963825 AAAATTTGTA
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:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
GATAAAAAATTTG
Found at i:60965188 original size:22 final size:22
Alignment explanation
Indices: 60965163--60965206 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
60965153 ACGGAGTGTC
60965163 ATTAAGGTGGTATTAAAGTTTT
1 ATTAAGGTGGTATTAAAGTTTT
60965185 ATTAAGGTGGTATTAAAGTTTT
1 ATTAAGGTGGTATTAAAGTTTT
60965207 GATAGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (22 bp):
ATTAAGGTGGTATTAAAGTTTT
Found at i:60965365 original size:5 final size:5
Alignment explanation
Indices: 60965355--60965381 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
60965345 AATCTAAAGT
60965355 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
60965382 ATATTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:60965418 original size:5 final size:5
Alignment explanation
Indices: 60965404--60965446 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
60965394 AGTTTAAGTG
60965404 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
60965447 AAAACAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:60966491 original size:22 final size:23
Alignment explanation
Indices: 60966443--60966499 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
60966433 CTAGCACGAC
*
60966443 AGTGCTCTCCGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCACATCT
* *
60966466 -GTGCTTTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATCT
60966487 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
60966500 CATTAGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATCT
Found at i:60968178 original size:22 final size:22
Alignment explanation
Indices: 60968135--60968178 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60968125 GATATACAAC
*
60968135 TAATAAAATAATAAAGTGTAAA
1 TAATAAAATAATAAAGTATAAA
*
60968157 TAATAAATATAA-AATGTATAAA
1 TAATAAA-ATAATAAAGTATAAA
60968179 AATTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATAAAATAATAAAGTATAAA
Found at i:60972734 original size:21 final size:21
Alignment explanation
Indices: 60972702--60972742 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
60972692 AGGCTCGAGG
60972702 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
60972723 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
60972743 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:60988596 original size:18 final size:18
Alignment explanation
Indices: 60988573--60988665 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
60988563 CCCAACTACT
*
60988573 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
60988591 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
60988609 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * *
60988627 GTATACATGAATAGTGCT
1 GTATACGTGAATAGTACC
* *
60988645 ATATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
60988663 GTA
1 GTA
60988666 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:60988625 original size:36 final size:36
Alignment explanation
Indices: 60988573--60988665 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
60988563 CCCAACTACT
* *
60988573 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
*
60988609 GTATACGTGAATAGTACCGTATACATGAATAGTGCT
1 GTATACGTGAATAGTACCGTATACATGAATAGTGCC
* *
60988645 ATATACGTGAATAGTATCGTA
1 GTATACGTGAATAGTACCGTA
60988666 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACATGAATAGTGCC
Found at i:60996010 original size:27 final size:27
Alignment explanation
Indices: 60995975--60996107 Score: 205
Period size: 27 Copynumber: 4.9 Consensus size: 27
60995965 TACATAGTAT
60995975 TGGTGCCTATCTGGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
*
60996002 TGGTGCCTATTTGGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
*
60996029 TGGTGCCTATTTGGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
*
60996056 TGGTGCCTATCTAGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
* *
60996083 TGGTGCCATAT-TAGAAGGCGCCAAT
1 TGGTGCC-TATCTGGGAGGCGCCAAT
60996108 ACTGTGATTT
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 98 0.97
28 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (27 bp):
TGGTGCCTATCTGGGAGGCGCCAATGG
Found at i:60996212 original size:18 final size:20
Alignment explanation
Indices: 60996170--60996216 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
60996160 AAAACGGAAG
60996170 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
60996190 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
60996208 AAAGAAGAA
1 AAAGAAGAA
60996217 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:60996219 original size:22 final size:23
Alignment explanation
Indices: 60996166--60996219 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
60996156 TACAAAAACG
*
60996166 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
60996190 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
60996211 GAAGAAAAA
1 GAAGAAAAA
60996220 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:60999573 original size:6 final size:6
Alignment explanation
Indices: 60999541--60999584 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
60999531 AGAATGTGGT
* * * *
60999541 TCTGGA TCTGGC TTTGCC TCCGGC TCTGGC TCTGGC TCTGGC TC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TC
60999585 CGGTGCATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.02, C:0.34, G:0.30, T:0.34
Consensus pattern (6 bp):
TCTGGC
Found at i:60999574 original size:24 final size:24
Alignment explanation
Indices: 60999541--60999587 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
60999531 AGAATGTGGT
*
60999541 TCTGGATCTGGCTTTGCCTCCGGC
1 TCTGGATCTGGCTCTGCCTCCGGC
* *
60999565 TCTGGCTCTGGCTCTGGCTCCGG
1 TCTGGATCTGGCTCTGCCTCCGG
60999588 TGCATGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.02, C:0.34, G:0.32, T:0.32
Consensus pattern (24 bp):
TCTGGATCTGGCTCTGCCTCCGGC
Found at i:61001333 original size:39 final size:38
Alignment explanation
Indices: 61001290--61001372 Score: 148
Period size: 39 Copynumber: 2.2 Consensus size: 38
61001280 AAAAAGTCAG
61001290 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTTT
*
61001329 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
61001367 TTATAA
1 TTATAA
61001373 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 11 0.26
39 32 0.74
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:61001604 original size:27 final size:26
Alignment explanation
Indices: 61001568--61001907 Score: 266
Period size: 27 Copynumber: 14.1 Consensus size: 26
61001558 ATATCCCCAC
61001568 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
61001595 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
61001617 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
61001644 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
61001671 ATT-C-ATA---A-A-AAAATTGTAAT
1 ATTACAATATTCATACAAAATT-AAAT
61001691 ATT-C-------ATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
61001710 ATTACAATATTCATACAAAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
61001733 A-TGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
61001759 ATTACAATATTCATACAAAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
61001783 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
*
61001807 ATTACAATATTCGTAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
61001829 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
61001856 ATTACAATATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
61001879 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
61001905 ATT
1 ATT
61001908 CATACAAAAA
Statistics
Matches: 260, Mismatches: 15, Indels: 76
0.74 0.04 0.22
Matches are distributed among these distances:
17 1 0.00
18 1 0.00
19 12 0.05
20 13 0.05
21 16 0.06
22 61 0.23
23 19 0.07
24 13 0.05
25 11 0.04
26 18 0.07
27 95 0.37
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:61001749 original size:49 final size:49
Alignment explanation
Indices: 61001657--61001907 Score: 366
Period size: 49 Copynumber: 5.2 Consensus size: 49
61001647 ACAATATTCA
* *
61001657 TACAACATTACAATATTCAT--AAAAAAATTGTAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
*
61001704 TACAATATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
*
61001753 TATAATATTACAATATTCATACAAAAAAATAT--AATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAAT-TGCAATATTCATACAAAAT
* * *
61001801 TACAAAATTACAATATTCGTACAAAAAAATTGCAATATTCATACAAAAC
1 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
* * **
61001850 TATAATATTACAATATTCATACAAAAAATTTATAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
61001899 TACAATATT
1 TACAATATT
61001908 CATACAAAAA
Statistics
Matches: 182, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 20 0.11
48 43 0.24
49 118 0.65
50 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.32
Consensus pattern (49 bp):
TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
Found at i:61001803 original size:97 final size:97
Alignment explanation
Indices: 61001663--61001907 Score: 420
Period size: 97 Copynumber: 2.5 Consensus size: 97
61001653 TTCATACAAC
*
61001663 ATTACAATATTCATA-AAAAAATTGTAATATTCATACAAAATTACAATATTACAATATTCATACA
1 ATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACA
*
61001727 AAAAAAATGCAATATTCATACAAAATTATAAT
66 AAAAAAATGCAATATTCATACAAAACTATAAT
* * *
61001759 ATTACAATATTCATACAAAAAAATATAATATTCATACAAAATTACAAAATTACAATATTCGTACA
1 ATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACA
*
61001824 AAAAAATTGCAATATTCATACAAAACTATAAT
66 AAAAAAATGCAATATTCATACAAAACTATAAT
61001856 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATT
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAATTACAATATT
61001908 CATACAAAAA
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
96 15 0.11
97 97 0.70
98 27 0.19
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (97 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACA
AAAAAAATGCAATATTCATACAAAACTATAAT
Found at i:61002030 original size:22 final size:21
Alignment explanation
Indices: 61001883--61002041 Score: 100
Period size: 21 Copynumber: 7.7 Consensus size: 21
61001873 AAAAATTTAT
*
61001883 AATATTCATAC--AAAATTAC
1 AATATTCATACAAAAAATTAA
*
61001902 AATATTCATACAAAAAATTAC
1 AATATTCATACAAAAAATTAA
* * * * *
61001923 TA-ATCCAAAACTATAAA-TACA
1 AATATTC-ATACAAAAAATTA-A
* * *
61001944 AAT-TTAATTATAAAATAATTAC
1 AATATTCA-TACAAAA-AATTAA
* *
61001966 AATATTCATAC--AACATTAC
1 AATATTCATACAAAAAATTAA
*
61001985 AATATTCATA-AAAAAATTAT
1 AATATTCATACAAAAAATTAA
61002005 AATATTCATACAAAAAATTTAA
1 AATATTCATACAAAAAA-TTAA
61002027 AATATTCATACAAAA
1 AATATTCATACAAAA
61002042 TTCTAATCTA
Statistics
Matches: 107, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
19 26 0.24
20 24 0.22
21 27 0.25
22 25 0.23
23 5 0.05
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
AATATTCATACAAAAAATTAA
Found at i:61002109 original size:122 final size:123
Alignment explanation
Indices: 61001856--61002112 Score: 296
Period size: 122 Copynumber: 2.1 Consensus size: 123
61001846 AAACTATAAT
*
61001856 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATT
1 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTAAAATATTCATAC-AAAAATT
* * * * * *
61001921 ACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTCATACAAC
65 ACTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAATAAAAA
61001980 ATTACAATATTCATA-AAAAAA-TTATAATATTCATACAAAAAATTTAAAATATTCATAC-AAAA
1 ATTACAATATTCATACAAAAAATTTATAATATTCATAC--AAAA-TTAAAATATTCATACAAAAA
* **
61002042 TT-CTAAT-CTAAACTATAAACACTAAATATAGATAAT-TTATAATT--AATAATTAATAAAAA
63 TTACTAATCCAAAACTATAAACAC-AAATATA-ATAATAAAATAATTACAAT-ATTAATAAAAA
61002101 ATTCACAATATT
1 ATT-ACAATATT
61002113 TTCTAAAATA
Statistics
Matches: 116, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
120 3 0.03
121 24 0.21
122 40 0.34
123 16 0.14
124 19 0.16
125 14 0.12
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (123 bp):
ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTAAAATATTCATACAAAAATTA
CTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAATAAAAA
Found at i:61002232 original size:14 final size:14
Alignment explanation
Indices: 61002210--61002246 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
61002200 TTCTTTCTTT
61002210 CTTCTTCTTCTTCTC
1 CTTC-TCTTCTTCTC
61002225 CTTCTCTTCTTCTC
1 CTTCTCTTCTTCTC
61002239 CTTTCTCT
1 C-TTCTCT
61002247 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTTCTCTTCTTCTC
Found at i:61002249 original size:14 final size:13
Alignment explanation
Indices: 61002208--61002249 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
61002198 TTTTCTTTCT
*
61002208 TTCTTCTTCT-TC
1 TTCTCCTTCTCTC
61002220 TTCTCCTTCTCTTC
1 TTCTCCTTCTC-TC
61002234 TTCTCCTTTCTCTC
1 TTCTCC-TTCTCTC
61002248 TT
1 TT
61002250 TTTTTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTCCTTCTCTC
Found at i:61002451 original size:13 final size:13
Alignment explanation
Indices: 61002433--61002458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61002423 CACCCGACCC
61002433 GACCCGTATTTTT
1 GACCCGTATTTTT
61002446 GACCCGTATTTTT
1 GACCCGTATTTTT
61002459 TTCAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GACCCGTATTTTT
Found at i:61002499 original size:16 final size:17
Alignment explanation
Indices: 61002480--61002514 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
61002470 ATTAAAAATA
61002480 TAAAATTATATT-TTAT
1 TAAAATTATATTATTAT
*
61002496 TAAAATTTTATTATTAT
1 TAAAATTATATTATTAT
61002513 TA
1 TA
61002515 TTTTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAATTATATTATTAT
Found at i:61007392 original size:18 final size:18
Alignment explanation
Indices: 61007369--61007461 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
61007359 CCCAACTACT
*
61007369 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
61007387 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
61007405 GTATATGTAAATAGTACT
1 GTATACGTGAATAGTACC
* *
61007423 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
61007441 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
61007459 GTA
1 GTA
61007462 AACGGTCATA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:61007421 original size:36 final size:36
Alignment explanation
Indices: 61007381--61007461 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
61007371 ATACGTGAAC
61007381 AGTACCGTATACGTGAATAGTGCCGTATATGTAAAT
1 AGTACCGTATACGTGAATAGTGCCGTATATGTAAAT
** *
61007417 AGTACTATATACGTGAATAGTGCCGTATATGTGAAT
1 AGTACCGTATACGTGAATAGTGCCGTATATGTAAAT
61007453 AGTACCGTA
1 AGTACCGTA
61007462 AACGGTCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (36 bp):
AGTACCGTATACGTGAATAGTGCCGTATATGTAAAT
Found at i:61010590 original size:15 final size:15
Alignment explanation
Indices: 61010549--61010590 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
61010539 AATCTAATAG
61010549 TAATTATTATT-AAT
1 TAATTATTATTAAAT
61010563 TAATTAGTT-TTAAAT
1 TAATTA-TTATTAAAT
*
61010578 TAATTTTTATTAA
1 TAATTATTATTAA
61010591 GATGACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATTATTATTAAAT
Found at i:61011167 original size:20 final size:21
Alignment explanation
Indices: 61011142--61011184 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
61011132 AATCATTTTA
* *
61011142 AATTTG-AATAAAAAATTCAT
1 AATTTGTAAAAAAAAAATCAT
61011162 AATTTGTAAAAAAAAAATCAT
1 AATTTGTAAAAAAAAAATCAT
61011183 AA
1 AA
61011185 AAGCTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
AATTTGTAAAAAAAAAATCAT
Found at i:61012636 original size:23 final size:23
Alignment explanation
Indices: 61012593--61012636 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
61012583 GTATGAATTC
*
61012593 ATATTAAATAATAAATTATTTAA
1 ATATTAAATAATAAATAATTTAA
*
61012616 ATATTAATATAA-AAGTAATTT
1 ATATTAA-ATAATAAATAATTT
61012637 TTATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTAAATAATAAATAATTTAA
Found at i:61013231 original size:24 final size:24
Alignment explanation
Indices: 61013204--61013255 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61013194 TTAGTAAGTC
*
61013204 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61013228 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61013252 AAAT
1 AAAT
61013256 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61015202 original size:24 final size:24
Alignment explanation
Indices: 61015175--61015226 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
61015165 TTAGTAAGTC
*
61015175 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
61015199 AAATATATTATACTAATACATACT
1 AAATAAACTATACTAATAAATACT
61015223 AAAT
1 AAAT
61015227 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61017672 original size:16 final size:16
Alignment explanation
Indices: 61017651--61017693 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
61017641 TATTATTATT
61017651 ATTTAT-TTAAATTGTA
1 ATTTATATT-AATTGTA
61017667 ATTTATATTAATTGTA
1 ATTTATATTAATTGTA
*
61017683 TTATTATATTA
1 AT-TTATATTA
61017694 TGGAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
ATTTATATTAATTGTA
Found at i:61017689 original size:17 final size:17
Alignment explanation
Indices: 61017647--61017693 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
61017637 TAATTATTAT
61017647 TATTATT-TATTTAAATTG
1 TATTATTATA-TT-AATTG
*
61017665 TAAT-TTATATTAATTG
1 TATTATTATATTAATTG
61017681 TATTATTATATTA
1 TATTATTATATTA
61017694 TGGAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.32
17 12 0.48
18 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTATTATATTAATTG
Found at i:61018828 original size:39 final size:40
Alignment explanation
Indices: 61018785--61018862 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
61018775 GGAATGCTGG
*
61018785 ATATTGTTTTG-ATTACTG-AGTGAATTGTGAAAATACTGA
1 ATATTGTTATGTA-TACTGCAGTGAATTGTGAAAATACTGA
* * *
61018824 ATATTGTTATGTATATTGCATTGAATTGTGAAATTACTG
1 ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTG
61018863 GAGTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (40 bp):
ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGA
Found at i:61025976 original size:21 final size:21
Alignment explanation
Indices: 61025930--61025976 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
61025920 AAAATAATAT
* * *
61025930 AACACAATAAAATTTTATACA
1 AACATAATAAAATATTATAAA
61025951 AACATAATAAAA-ATTATAAA
1 AACATAATAAAATATTATAAA
61025971 ATACAT
1 A-ACAT
61025977 TATTAATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (21 bp):
AACATAATAAAATATTATAAA
Found at i:61034629 original size:12 final size:12
Alignment explanation
Indices: 61034612--61034667 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
61034602 TGTTCATTCA
61034612 TTCATCAAGTTT
1 TTCATCAAGTTT
61034624 TTCATCAAGTGCTTT
1 TTCATCAA--G-TTT
**
61034639 TTCATCAAGTCA
1 TTCATCAAGTTT
*
61034651 TTAATCAAG-TT
1 TTCATCAAGTTT
61034662 TTCATC
1 TTCATC
61034668 TGTGGAATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
11 5 0.14
12 17 0.49
13 1 0.03
14 1 0.03
15 11 0.31
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.45
Consensus pattern (12 bp):
TTCATCAAGTTT
Found at i:61039784 original size:6 final size:6
Alignment explanation
Indices: 61039773--61039833 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
61039763 AAAAATAAAC
* * *
61039773 ATTTTA ATTTTA ATTTTTA TTTATTT ATTTTA ATTTTA ATTTTA ATTTTT
1 ATTTTA ATTTTA A-TTTTA ATT-TTA ATTTTA ATTTTA ATTTTA ATTTTA
*
61039823 ATTTTT ATTTT
1 ATTTTA ATTTT
61039834 GCAGGGAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 39 0.81
7 9 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTA
Found at i:61039814 original size:32 final size:30
Alignment explanation
Indices: 61039773--61039833 Score: 104
Period size: 32 Copynumber: 2.0 Consensus size: 30
61039763 AAAAATAAAC
61039773 ATTTTAATTTTAATTTTTATTTATTTATTTTA
1 ATTTTAATTTTAATTTTTA-TT-TTTATTTTA
61039805 ATTTTAATTTTAATTTTTATTTTTATTTT
1 ATTTTAATTTTAATTTTTATTTTTATTTT
61039834 GCAGGGAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 8 0.28
31 2 0.07
32 19 0.66
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (30 bp):
ATTTTAATTTTAATTTTTATTTTTATTTTA
Found at i:61043084 original size:12 final size:12
Alignment explanation
Indices: 61043067--61043091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61043057 TCGAATAAGC
61043067 ATGTATATATAT
1 ATGTATATATAT
61043079 ATGTATATATAT
1 ATGTATATATAT
61043091 A
1 A
61043092 ATGCTAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:61043765 original size:41 final size:41
Alignment explanation
Indices: 61043708--61043815 Score: 207
Period size: 41 Copynumber: 2.6 Consensus size: 41
61043698 TTGAGATTTT
61043708 CAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAG
1 CAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAG
61043749 CAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAG
1 CAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAG
*
61043790 CAGGCTACGTGCCGGTGATCTGAATC
1 CAGGCTACGTGCCGGTGATTTGAATC
61043816 AAGCTATAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (41 bp):
CAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAG
Found at i:61053926 original size:27 final size:28
Alignment explanation
Indices: 61053871--61053935 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
61053861 TTTTTTTGGT
**
61053871 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAATGGATA
61053899 ATATTTTGGTAAATAAAAAAAA-GGATA
1 ATATTTTGGTAAATAAAAAAAATGGATA
*
61053926 ACATTTTGGT
1 ATATTTTGGT
61053936 CATTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAATGGATA
Done.