Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 71 of 378
Found at i:18585981 original size:54 final size:55
Alignment explanation
Indices: 18585912--18586058 Score: 185
Period size: 55 Copynumber: 2.7 Consensus size: 55
18585902 TAAATTACCA
* *
18585912 AAATACCTCTAATTTAGAAAATTATTGAAATACCCTTGA-TTT-AGAAAATTATAG
1 AAATACCTCTGATTTAGAAAATTACTGAAATACCCTTGACTTTCA-AAAATTATAG
* **
18585966 AAATACCTCTGATTTACAAAATTACAAAAATACCCTTGACTTTCAAAAATTATAG
1 AAATACCTCTGATTTAGAAAATTACTGAAATACCCTTGACTTTCAAAAATTATAG
*
18586021 AAATACCAT-TGGTTT-GAAAAATTACTGAAATACCCTTG
1 AAATACC-TCTGATTTAG-AAAATTACTGAAATACCCTTG
18586059 GTTTGTAGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
54 34 0.43
55 44 0.55
56 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (55 bp):
AAATACCTCTGATTTAGAAAATTACTGAAATACCCTTGACTTTCAAAAATTATAG
Found at i:18586063 original size:27 final size:27
Alignment explanation
Indices: 18585663--18586063 Score: 227
Period size: 27 Copynumber: 14.9 Consensus size: 27
18585653 TATAGGGTAG
18585663 AATTACTAAAATACCCTT-AGTTT-ACAA
1 AATTACTAAAATACCCTTGA-TTTGA-AA
* *
18585690 AATTACT-GAATACCCTTGGTTT-ACAA
1 AATTACTAAAATACCCTTGATTTGA-AA
* ** * *
18585716 AATTACCAAAATACCCTCAATTAGTAA
1 AATTACTAAAATACCCTTGATTTGAAA
* * *
18585743 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTTGA-TTTGAAA
* * * *
18585770 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGAAA
* * * *
18585797 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGAAA
* * * *
18585824 AATTACCAAAATACCCTCGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGAAA
** * *
18585851 AATTA-TCAAAATACCCTCAACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGAAA
* * **
18585878 AATTACTCAAATACCCTCGATTT-TTA
1 AATTACTAAAATACCCTTGATTTGAAA
* *
18585904 AATTACCAAAATA-CCTCTAATTT-AGAA
1 AATTACTAAAATACCCT-TGATTTGA-AA
* *
18585931 AATTATTGAAATACCCTTGATTT-AGAA
1 AATTACTAAAATACCCTTGATTTGA-AA
18585958 AATTA-TAGAAATA-CCTCTGATTT-ACAA
1 AATTACTA-AAATACCCT-TGATTTGA-AA
* *
18585985 AATTACAAAAATACCCTTGACTTTCAAA
1 AATTACTAAAATACCCTTGA-TTTGAAA
* *
18586013 AATTA-TAGAAATACCATTGGTTTGAAA
1 AATTACTA-AAATACCCTTGATTTGAAA
* *
18586040 AATTACTGAAATACCCTTGGTTTG
1 AATTACTAAAATACCCTTGATTTG
18586064 TAGATTTACC
Statistics
Matches: 316, Mismatches: 40, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
25 3 0.01
26 44 0.14
27 238 0.75
28 30 0.09
29 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGAAA
Found at i:18586834 original size:22 final size:22
Alignment explanation
Indices: 18586809--18586862 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
18586799 ATTGCTGTGA
18586809 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
* *
18586831 TGTTTATGGTTATGTGTTGTCC
1 TGTTTACGGCTATGTGTTGTCC
* *
18586853 TATCTACGGC
1 TGTTTACGGC
18586863 GTTGAGCCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.46
Consensus pattern (22 bp):
TGTTTACGGCTATGTGTTGTCC
Found at i:18590125 original size:46 final size:44
Alignment explanation
Indices: 18590071--18590247 Score: 169
Period size: 46 Copynumber: 3.9 Consensus size: 44
18590061 ATATTTGGGC
18590071 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
18590115 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
*
18590164 ATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 ATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GA
* * * *
18590209 CACCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18590248 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 67 0.63
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:18590227 original size:93 final size:93
Alignment explanation
Indices: 18590068--18590239 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
18590058 AGGATATTTG
* *** *
18590068 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAG
18590133 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
18590161 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCATTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGA
*
18590225 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
18590240 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:18594669 original size:24 final size:23
Alignment explanation
Indices: 18594642--18594686 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
18594632 TATTGGTTAG
18594642 ATGACTTAGGT-TATTTGAAATGGC
1 ATGA-TTAGGTGTATTT-AAATGGC
*
18594666 ATGATTATGTGTATTTAAATG
1 ATGATTAGGTGTATTTAAATG
18594687 ATGCTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (23 bp):
ATGATTAGGTGTATTTAAATGGC
Found at i:18596768 original size:17 final size:18
Alignment explanation
Indices: 18596746--18596779 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18596736 TCCTCCTGCT
*
18596746 CTCTTTT-TTTTTTTCTC
1 CTCTTTTCTTTCTTTCTC
18596763 CTCTTTTCTTTCTTTCT
1 CTCTTTTCTTTCTTTCT
18596780 TTGTTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
CTCTTTTCTTTCTTTCTC
Found at i:18596842 original size:28 final size:28
Alignment explanation
Indices: 18596802--18596856 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
18596792 AAATTTGGAC
18596802 CTGACTCTTATGATGAGATCTTATTAAT
1 CTGACTCTTATGATGAGATCTTATTAAT
18596830 CTGACTCTTATGATGAGATCTTATTAA
1 CTGACTCTTATGATGAGATCTTATTAA
18596857 CATAATTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (28 bp):
CTGACTCTTATGATGAGATCTTATTAAT
Found at i:18600310 original size:160 final size:162
Alignment explanation
Indices: 18600010--18600360 Score: 372
Period size: 160 Copynumber: 2.2 Consensus size: 162
18600000 CATTCAATTT
* * * * *
18600010 TATATCTATACTATTATTTAAACCCTTAACTGAGTTAGTGCCACGAGTCAACTAGACACCAACTT
1 TATACCTATACTATTATTTAAACCCTTGACTAAGTTAGTGCCACAAGTCAACTAGACACCAACTA
** * * * * *
18600075 GATTAGGTAAATTACATTTATGTCATTTCATATTTATTTTAGGTTATATTATTGATGGTACTGTA
66 GATTAGAAAAATTAAATTAATGTCATTTCATATTTATTTTAAGTTATATTATTGAGGGTACTATA
** ** *
18600140 GTTTTTTTTAT-TTTAAAAAT-GATAAAAAAA
131 GTACTTTTTATATAAAAAAATCAATAAAAAAA
* ** * * *
18600170 TGTACCTATACTATTATTTAAACCCTTGACTAAGTT-GATGTTACAAGTCAATTGGATACCAACT
1 TATACCTATACTATTATTTAAACCCTTGACTAAGTTAG-TGCCACAAGTCAACTAGACACCAACT
* *
18600234 CAG-TTAGAAAAATTAAATTAATGTTC-TTTCATATTTATTTTAAGTTATATTATTTGGGGGTGC
65 -AGATTAGAAAAATTAAATTAATG-TCATTTCATATTTATTTTAAGTTATATTA-TTGAGGGTAC
*
18600297 TATAG-ACTTTTTATATAAAAAAATCAATAAAAACA
127 TATAGTACTTTTTATATAAAAAAATCAATAAAAAAA
* *
18600332 TATATCTATATTATTATTTAAACCCTTGA
1 TATACCTATACTATTATTTAAACCCTTGA
18600361 GTCGTGACAC
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
159 1 0.01
160 100 0.64
161 21 0.13
162 34 0.22
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (162 bp):
TATACCTATACTATTATTTAAACCCTTGACTAAGTTAGTGCCACAAGTCAACTAGACACCAACTA
GATTAGAAAAATTAAATTAATGTCATTTCATATTTATTTTAAGTTATATTATTGAGGGTACTATA
GTACTTTTTATATAAAAAAATCAATAAAAAAA
Found at i:18601157 original size:27 final size:28
Alignment explanation
Indices: 18601113--18601165 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
18601103 TTTTTGATCC
* * *
18601113 TTTTAAAATTTAATTATTTAA-TTTATT
1 TTTTAAAAATAAAATATTTAACTTTATT
18601140 TTTTAAAAATAAAATATTTAACTTTA
1 TTTTAAAAATAAAATATTTAACTTTA
18601166 ACCCTATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTAAAAATAAAATATTTAACTTTATT
Found at i:18602306 original size:15 final size:15
Alignment explanation
Indices: 18602286--18602321 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
18602276 ACACACAACC
18602286 GTGTCACTTGACCGT
1 GTGTCACTTGACCGT
*
18602301 GTGTCACTTGACTGT
1 GTGTCACTTGACCGT
18602316 GTGTCA
1 GTGTCA
18602322 TACACGGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (15 bp):
GTGTCACTTGACCGT
Found at i:18612639 original size:3 final size:3
Alignment explanation
Indices: 18612631--18612765 Score: 100
Period size: 3 Copynumber: 45.3 Consensus size: 3
18612621 AACAAAATTG
* *
18612631 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA CCT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * * *
18612675 ATA CTA ATA ATA GTA ATA ATA AGA A-A ATTA ATA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
** * *
18612720 ATA ATGGA A-A ATA ATA ATA GCA ATG ATA AT- ATA GTA ATA ATA ATA
1 ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18612765 A
1 A
18612766 AAGTGAAATT
Statistics
Matches: 103, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
2 9 0.09
3 89 0.86
4 3 0.03
5 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18612869 original size:23 final size:23
Alignment explanation
Indices: 18612839--18612884 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
18612829 GATAGGAAAT
18612839 AATAATATGATAAAAAAAATAAC
1 AATAATATGATAAAAAAAATAAC
*
18612862 AATAATATGATAAGAAAAATAAC
1 AATAATATGATAAAAAAAATAAC
18612885 GGTGGTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (23 bp):
AATAATATGATAAAAAAAATAAC
Found at i:18613174 original size:3 final size:3
Alignment explanation
Indices: 18613166--18613195 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18613156 AGATTAGAAT
*
18613166 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18613196 GATATAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18613196 original size:12 final size:12
Alignment explanation
Indices: 18613166--18613216 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
18613156 AGATTAGAAT
*
18613166 ATAATAATAATA
1 ATAATAGTAATA
18613178 ATAATAGTAATA
1 ATAATAGTAATA
18613190 ATAATAG-ATATA
1 ATAATAGTA-ATA
**
18613202 GCAATAGTAATA
1 ATAATAGTAATA
18613214 ATA
1 ATA
18613217 GTAATGGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAGTAATA
Found at i:18613302 original size:27 final size:25
Alignment explanation
Indices: 18613234--18613303 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 25
18613224 TAATAGCATG
18613234 ATAATATTAGAAAT-AT-ACAATAT
1 ATAATATTAGAAATAATAACAATAT
* **
18613257 ATAGTATTAGAGGTAAATACACAATAT
1 ATAATATTAGAAAT-AATA-ACAATAT
18613284 ATACATATTAGAAATAATAA
1 ATA-ATATTAGAAATAATAA
18613304 TAATGTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
23 11 0.31
25 2 0.06
26 1 0.03
27 14 0.39
28 8 0.22
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (25 bp):
ATAATATTAGAAATAATAACAATAT
Found at i:18613365 original size:21 final size:21
Alignment explanation
Indices: 18613335--18613388 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
18613325 ATAATACTTC
* *
18613335 ATAAATATATACATATATATA
1 ATAAACATATACACATATATA
* * *
18613356 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
18613377 ATAAACATATAC
1 ATAAACATATAC
18613389 TAATATTAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:18613394 original size:21 final size:22
Alignment explanation
Indices: 18613339--18613394 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
18613329 TACTTCATAA
*
18613339 ATATA-TACATATATATATTAAAG
1 ATATACTACATATATA-A-TAAAC
18613362 ATATA-TACATATATAATAAAC
1 ATATACTACATATATAATAAAC
18613383 ATATACTA-ATAT
1 ATATACTACATAT
18613395 TAGTAACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 13 0.42
22 3 0.10
23 15 0.48
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATACTACATATATAATAAAC
Found at i:18613456 original size:22 final size:22
Alignment explanation
Indices: 18613431--18613475 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18613421 ATAGATATAA
*
18613431 TAATAGGTATATAACATGGTAT
1 TAATAGGTATATAACATAGTAT
* * *
18613453 TAATATGTGTATAATATAGTAT
1 TAATAGGTATATAACATAGTAT
18613475 T
1 T
18613476 TGAATGTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
TAATAGGTATATAACATAGTAT
Found at i:18615642 original size:43 final size:43
Alignment explanation
Indices: 18615502--18615642 Score: 112
Period size: 43 Copynumber: 3.3 Consensus size: 43
18615492 CTGTTCCACC
18615502 ACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCT
1 ACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCT
** ** ** * **
18615545 ACTGCTTAGGG-GTTTAAGGCCCT-T-CGTCTTCGATTGGCTCTA--CT
1 ACTGCTTAGGGAG-ACAA-GATCTATAAAT-TTAGCCT-G-T-TACCCT
18615589 ACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCT
1 ACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCT
18615632 ACTGCTTAGGG
1 ACTGCTTAGGG
18615643 GGTTAAGGCC
Statistics
Matches: 69, Mismatches: 18, Indels: 22
0.63 0.17 0.20
Matches are distributed among these distances:
41 2 0.03
42 3 0.04
43 35 0.51
44 24 0.35
45 3 0.04
46 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (43 bp):
ACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCT
Found at i:18615751 original size:173 final size:173
Alignment explanation
Indices: 18615228--18615902 Score: 707
Period size: 173 Copynumber: 3.9 Consensus size: 173
18615218 TAAATTCAGC
* * * *
18615228 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCATTAGCCTGTTACCCTACTACTTA-G
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGG
* * * * * ** * ** * *
18615292 GGGTTTAGGCTCATCGCTTTTGATCTATTTCC-CTACTAATTAGGGGGGTTAAGGTTTGTAAATT
64 GGGTTAAGGCCCATCGCCTTCGATCT-GTTCCACTACTGCTTA-GGGAGACAAGATCTGTAAATT
*
18615356 CAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGTCTTCGAT
127 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-ATCGTCTTCGAT
* * * * **
18615404 CTGTTTCCCTACTGATTAGGGGGTTAAAATCTGTAAATTCAGCTTGTTACCCTACTGCATATAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
** * * * *
18615469 GTTAAAGGCCCATAACCTTCAATCTGTTCCACCACTGCTTAGGGAGACAAGATCTATAAATTTAG
66 GTT-AAGGCCCATCGCCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAG
18615534 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCT-TCGTCTTCGAT
130 CCTGTTACCCTACTGCTTAGGGGTTTAAGG--CTATCGTCTTCGAT
** * * ** * *
18615579 -TGGCTCTACTACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTC-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
* ** * * *
18615643 GGTTAAGGCCCTTCGTTTTCGATCTGCTCCATTACTACTTAGGGAGACAAGATCTGT-AATTCAG
65 GGTTAAGGCCCATCGCCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAG
* *
18615707 CCTGTTACCCTACTGTTTAGGGGTTTAAGGTCTAT-GACCTTCGAT
130 CCTGTTACCCTACTGCTTAGGGGTTTAAGG-CTATCG-TCTTCGAT
* * *
18615752 CTATTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
* * * ** *
18615817 TTTAAGGCTCATCGCCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG
66 GTTAAGGCCCATCGCCTTCGATCTG-TTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAG
18615881 CCTGTTACCCTACTGCTTAGGG
130 CCTGTTACCCTACTGCTTAGGG
18615903 AGATAAGGCT
Statistics
Matches: 407, Mismatches: 81, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
172 3 0.01
173 134 0.33
174 98 0.24
175 115 0.28
176 55 0.14
177 2 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (173 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
GTTAAGGCCCATCGCCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTCAGC
CTGTTACCCTACTGCTTAGGGGTTTAAGGCTATCGTCTTCGAT
Found at i:18615811 original size:43 final size:43
Alignment explanation
Indices: 18615202--18615902 Score: 251
Period size: 44 Copynumber: 16.1 Consensus size: 43
18615192 CAGTGCCATT
*
18615202 TTAGGGGG--AAGATTTGTAAATTCAGCCTGTTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* * *
18615243 TTAGGGGGTTAAGGTCTGTAAATCATTAGCCTGTTACCCTACTAC
1 TTAGGGGGTTAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGC
* * * * * * * * **
18615288 TTAGGGGTTTAGGCTCATCGCT--TTTGA-TCTATTTCCCTACTAA
1 TTAGGGGGTTAAGATC-T-G-TAAATTCAGCCTGTTACCCTACTGC
* * *
18615331 TTAGGGGGGTTAAGGTTTGTAAATTCAACCTGTTACCCTACTGC
1 TTA-GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* * * * * *
18615375 TTAGGGGTTTAAGGCTCATCGT--CTTC-GATCTGTTTCCCTACTGA
1 TTAGGGGGTTAA-GATC-T-GTAAATTCAG-CCTGTTACCCTACTGC
* *
18615419 TTAGGGGGTTAAAATCTGTAAATTCAGCTTGTTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* ** ** ** * ** *
18615462 ATATAGGGTTAAAGGCCCATAACCTTCAATCTGTT-CCACCACTGC
1 TTAGGGGGTT-AAGATCTGTAA-ATTCAGCCTGTTACC-CTACTGC
* ** * *
18615507 TTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* ** * * *
18615550 TTAGGGGTTTAAGGCCCTTCGT--CTTCGATTGGCT-CTA--CTACTGC
1 TTAGGGGGTTAA-GATC-T-GTAAATTC-A--GCCTGTTACCCTACTGC
* ** * *
18615594 TTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
** * * * * *
18615637 TTAGGGGGTTAAGGCCCTTCGT--TTTC-GATCTGCT-CCATTACTAC
1 TTAGGGGGTTAA-GATC-T-GTAAATTCAG-CCTGTTACC-CTACTGC
* ** *
18615681 TTAGGGAGACAAGATCTGT-AATTCAGCCTGTTACCCTACTGT
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* * * ** * * * *
18615723 TTAGGGGTTTAAGGTCTATGACCTTC-GATCTATTTCCCTATTGC
1 TTAGGGGGTTAAGATCTGT-AAATTCAG-CCTGTTACCCTACTGC
*
18615767 TTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
* * ** * *
18615810 TTAGGGGTTTAAGGCTCATCG--CCTTC-GATCTGTTTCCCTACTGC
1 TTAGGGGGTTAA-GATC-T-GTAAATTCAG-CCTGTTACCCTACTGC
*
18615854 TTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGC
1 TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
18615897 TTAGGG
1 TTAGGG
18615903 AGATAAGGCT
Statistics
Matches: 461, Mismatches: 147, Indels: 102
0.65 0.21 0.14
Matches are distributed among these distances:
40 3 0.01
41 17 0.04
42 30 0.07
43 167 0.36
44 176 0.38
45 54 0.12
46 9 0.02
47 4 0.01
48 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (43 bp):
TTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC
Found at i:18615912 original size:87 final size:87
Alignment explanation
Indices: 18615228--18615902 Score: 718
Period size: 87 Copynumber: 7.7 Consensus size: 87
18615218 TAAATTCAGC
* * * *
18615228 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGTAAATCATTAGCCTGTTACCCTACTACTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT--TCAGCCTGTTACCCTACTGCTTAGG
* *
18615293 GGTTT-AGGCTCATCGCTTTTGAT
64 GGTTTAAGGCTCATCGCCTTCGAT
* ** * * *
18615316 CTATTTCCCTACTAATTAGGGGGGTTAAGGTTTGTAAATTCAACCTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTA-GGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
*
18615381 GTTTAAGGCTCATCGTCTTCGAT
65 GTTTAAGGCTCATCGCCTTCGAT
* * *
18615404 CTGTTTCCCTACTGATTAGGGGGTTAAAATCTGTAAATTCAGCTTGTTACCCTACTGCATATA-G
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGC-T-TAGG
* * ** *
18615468 GGTTAAAGGCCCATAACCTTCAAT
64 GGTTTAAGGCTCATCGCCTTCGAT
* * ** * *
18615492 CTG-TTCCACCACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
* * *
18615556 GTTTAAGGCCCTTCGTCTTCGAT
65 GTTTAAGGCTCATCGCCTTCGAT
** * * ** * *
18615579 -TGGCTCTACTACTGCTTAGGGAGACAAGATCTATAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTC-CCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
* * * **
18615643 GGTTAAGGCCCTTCGTTTTCGAT
65 GTTTAAGGCTCATCGCCTTCGAT
* * * * ** *
18615666 CTG-CTCCATTACTACTTAGGGAGACAAGATCTGT-AATTCAGCCTGTTACCCTACTGTTTAGGG
1 CTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
18615729 GTTTAAGG-TCTAT-GACCTTCGAT
65 GTTTAAGGCTC-ATCG-CCTTCGAT
* * *
18615752 CTATTTCCCTATTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
18615817 TTTAAGGCTCATCGCCTTCGAT
66 TTTAAGGCTCATCGCCTTCGAT
*
18615839 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG
18615903 AGATAAGGCT
Statistics
Matches: 502, Mismatches: 69, Indels: 33
0.83 0.11 0.05
Matches are distributed among these distances:
85 2 0.00
86 67 0.13
87 298 0.59
88 114 0.23
89 21 0.04
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGGCTCATCGCCTTCGAT
Found at i:18620609 original size:9 final size:10
Alignment explanation
Indices: 18620596--18620641 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
18620586 GGGAAAGTCT
18620596 AATGCAAAT-
1 AATGCAAATG
18620605 AATGC-AATG
1 AATGCAAATG
18620614 CAATGCAAATG
1 -AATGCAAATG
*
18620625 TATG-AAATG
1 AATGCAAATG
18620634 AATGCAAA
1 AATGCAAA
18620642 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:18620620 original size:19 final size:19
Alignment explanation
Indices: 18620596--18620641 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18620586 GGGAAAGTCT
*
18620596 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
18620614 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
18620634 AATGCAAA
1 AATGCAAA
18620642 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:18623488 original size:26 final size:26
Alignment explanation
Indices: 18623452--18623535 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
18623442 TGATACAAAT
*
18623452 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18623478 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
18623504 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18623530 TGATAA
1 TGATAA
18623536 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18624432 original size:35 final size:34
Alignment explanation
Indices: 18624375--18624442 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
18624365 TATGTGTACA
* * *
18624375 TGATATATATATGCATATAATAAAGTACATGTAT
1 TGATATATATATGCATAGAATAAAATAAATGTAT
18624409 TGATAATATATATG-ATAAGAATAAAATAAATGTA
1 TGAT-ATATATATGCAT-AGAATAAAATAAATGTA
18624443 ATAATATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 23 0.79
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (34 bp):
TGATATATATATGCATAGAATAAAATAAATGTAT
Found at i:18625139 original size:25 final size:25
Alignment explanation
Indices: 18625111--18625163 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
18625101 ATATTATGTG
*
18625111 AAATAATGTATAGAATACA-ATATTA
1 AAAT-ATGTACAGAATACACATATTA
* *
18625136 AAATATTTACATAATACACATATTA
1 AAATATGTACAGAATACACATATTA
18625161 AAA
1 AAA
18625164 ATAACTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
AAATATGTACAGAATACACATATTA
Found at i:18625174 original size:25 final size:24
Alignment explanation
Indices: 18625124--18625176 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
18625114 TAATGTATAG
**
18625124 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
18625148 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
18625173 AATA
1 AATA
18625177 ATATTCTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:18625937 original size:20 final size:19
Alignment explanation
Indices: 18625900--18625938 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
18625890 TTTTGTGTTA
* *
18625900 TTTATTTATTTATTTATAT
1 TTTATTTATTAATATATAT
18625919 TTTATGTTATTAATATATAT
1 TTTAT-TTATTAATATATAT
18625939 GCACTAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATTTATTAATATATAT
Found at i:18626404 original size:16 final size:16
Alignment explanation
Indices: 18626383--18626454 Score: 78
Period size: 16 Copynumber: 4.5 Consensus size: 16
18626373 GGTTTAGTTA
*
18626383 GGTTTAATGGGTTTTG
1 GGTTTAGTGGGTTTTG
18626399 GGTTTAGTGGGTTTT-
1 GGTTTAGTGGGTTTTG
18626414 GG-TTAGTTGGGGTTATTG
1 GGTTTAG-T-GGGTT-TTG
18626432 GG-TTAGTGGGTTTTG
1 GGTTTAGTGGGTTTTG
*
18626447 GGTCTAGT
1 GGTTTAGT
18626455 TGTTGGGCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 28 0.57
17 3 0.06
18 6 0.12
ACGTcount: A:0.10, C:0.01, G:0.42, T:0.47
Consensus pattern (16 bp):
GGTTTAGTGGGTTTTG
Found at i:18626438 original size:32 final size:34
Alignment explanation
Indices: 18626391--18626456 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
18626381 TAGGTTTAAT
18626391 GGGTTTTGGGTTTAGTGGGTTTT-GGT-TAGTTG
1 GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
18626423 GGGTTATTGGG-TTAGTGGGTTTTGGGTCTAGTTG
1 GGGTT-TTGGGTTTAGTGGGTTTTGGGTCTAGTTG
18626457 TTGGGCTCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 17 0.55
33 8 0.26
34 6 0.19
ACGTcount: A:0.08, C:0.02, G:0.44, T:0.47
Consensus pattern (34 bp):
GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
Found at i:18627372 original size:145 final size:146
Alignment explanation
Indices: 18627104--18627780 Score: 450
Period size: 160 Copynumber: 4.4 Consensus size: 146
18627094 TTAAAAACAA
* ** * **
18627104 AAATTGAAAATACCTCAGCAGGTGAACAGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCA--ACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*** * **
18627169 TTTTTTACAACGGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTC-ATA
64 AGATTTACAACGGAAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCG-CAATA
18627233 TGAGTTGA-AATGAAAAAT
128 TGAGTTGATAATGAAAAAT
**
18627251 GAAAATTGAAAATACCTCGTCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
18627316 AGATTTA-ATA-GG-AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATA
64 AGATTTACA-ACGGAAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATA
** *
18627378 TGAGTTGATTTTTTGAAACAT
128 TGAGTTGA--TAATGAAAAAT
* * ** *
18627399 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-T
* * * * * * *
18627464 TGGAAAACATGAATTAAAAGGCAGAAATTGAAAATACCTCAGCGT-ACCCGAGGCTCAACTCACT
63 T-------A-GATTTACAA--CGGAAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACC
* * ** *
18627528 TCTCGTAATACGAGTTGATTTTTGAAACAT
118 TCTCGCAATATGAGTTGA-TAATGAAAAAT
* * ** *
18627558 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-T
* * * * * *
18627623 TGGAAAACATGAATTA-AAAGGCAAAAATTGAAAATACCCCAGCGTACCCCGAGGCTCAACTCAC
63 T-------A-GATTTACAACGG---AAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCAC
* * * ** *
18627687 TTCTCGTAATACGAGTTGATTTTTGAAACAT
117 CTCTCGCAATATGAGTTGA-TAATGAAAAAT
* * ** *
18627718 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
18627781 CTTGGAAAAC
Statistics
Matches: 465, Mismatches: 38, Indels: 42
0.85 0.07 0.08
Matches are distributed among these distances:
144 1 0.00
145 51 0.11
146 55 0.12
147 44 0.09
148 9 0.02
149 18 0.04
156 2 0.00
157 8 0.02
158 5 0.01
159 113 0.24
160 140 0.30
161 19 0.04
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (146 bp):
AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAG
ATTTACAACGGAAATTGAAATTACCTCAGCGTGCCCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATAATGAAAAAT
Found at i:18627651 original size:159 final size:159
Alignment explanation
Indices: 18627328--18627871 Score: 926
Period size: 160 Copynumber: 3.4 Consensus size: 159
18627318 ATTTAATAGG
* * * * *
18627328 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGT-ACCCGAGGCTCAACTCACTTCTCGCAATACGAGTTGA-TTTTTG
18627393 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
64 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
18627458 TTTTCTTGGAAAACATGAATTAAAAGGCAGA
129 TTTTCTTGGAAAACATGAATTAAAAGGCAAA
*
18627489 AATTGAAAATACCTCAGCGTACCCGAGGCTCAACTCACTTCTCGTAATACGAGTTGATTTTTGAA
1 AATTGAAAATACCTCAGCGTACCCGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGAA
18627554 ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
66 ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
18627619 TTCTTGGAAAACATGAATTAAAAGGCAAA
131 TTCTTGGAAAACATGAATTAAAAGGCAAA
* *
18627648 AATTGAAAATACCCCAGCGTACCCCGAGGCTCAACTCACTTCTCGTAATACGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTA-CCCGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
18627713 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
65 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
18627778 TTTCTTGGAAAACATGAATTAAAAAGCAAA
130 TTTCTTGGAAAACATGAATTAAAAGGCAAA
* * **
18627808 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTACCC-GAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTG
18627872 GAAAAAACAA
Statistics
Matches: 366, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
159 124 0.34
160 223 0.61
161 19 0.05
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (159 bp):
AATTGAAAATACCTCAGCGTACCCGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGAA
ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTCTTGGAAAACATGAATTAAAAGGCAAA
Found at i:18639310 original size:51 final size:52
Alignment explanation
Indices: 18639255--18639363 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
18639245 TGATACAAAT
18639255 TGATAATAGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
* * *
18639306 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
18639358 TGATAA
1 TGATAA
18639364 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:18639324 original size:26 final size:26
Alignment explanation
Indices: 18639255--18639363 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18639245 TGATACAAAT
*
18639255 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18639281 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18639306 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18639332 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18639358 TGATAA
1 TGATAA
18639364 GAATTTCATG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 25 0.31
26 56 0.69
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18645049 original size:26 final size:26
Alignment explanation
Indices: 18645012--18645120 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
18645002 TGATACAAAT
18645012 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18645037 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18645063 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
18645089 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
18645115 TGATAA
1 TGATAA
18645121 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.07
26 75 0.93
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:18652770 original size:25 final size:25
Alignment explanation
Indices: 18652742--18652806 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
18652732 CACACCACAA
18652742 CTCGCATGAGCTTCCCGTTATTCAG
1 CTCGCATGAGCTTCCCGTTATTCAG
* *
18652767 CTCGCATGAACTTCCCGTTATTTAG
1 CTCGCATGAGCTTCCCGTTATTCAG
*
18652792 CTCACATGAGCTTCC
1 CTCGCATGAGCTTCC
18652807 TATTTACAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.32
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCGTTATTCAG
Found at i:18656291 original size:16 final size:14
Alignment explanation
Indices: 18656267--18656303 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
18656257 AAAACAAGAA
18656267 AAAGAAATAGAGAAG
1 AAAGAAATAGA-AAG
18656282 AAACGAAATAGAAAG
1 AAA-GAAATAGAAAG
18656297 AAAGAAA
1 AAAGAAA
18656304 GAAGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (14 bp):
AAAGAAATAGAAAG
Found at i:18656329 original size:26 final size:26
Alignment explanation
Indices: 18656267--18656319 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18656257 AAAACAAGAA
* * *
18656267 AAAGAAATAGAGAAGAAACGAAATAG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
18656293 AAAGAAAGAAAGAAGAAAAGAAA-AG
1 AAAGAAAGAAAGAAGAAAAGAAATAG
18656318 AA
1 AA
18656320 GAAGGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.72, C:0.02, G:0.23, T:0.04
Consensus pattern (26 bp):
AAAGAAAGAAAGAAGAAAAGAAATAG
Found at i:18658280 original size:40 final size:39
Alignment explanation
Indices: 18658244--18658459 Score: 144
Period size: 39 Copynumber: 5.5 Consensus size: 39
18658234 AAAGCCTACG
* *
18658244 GGACTTTAAGCCCAGATATAGTACCAGTACGAAGCCTGT
1 GGACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
* * *
18658283 GGACCTTAAGTCCGGATATAGTACCAGCACGAAGCCTGC
1 GGACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
* ** * * * * *
18658322 GGATCTTAAGTTCGGATACAATTCCAGCACGAAGCCTGC
1 GGACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
* * * * * * ** *
18658361 GAGTCTTTAAGCCCGGATACAATTCCAGCATAAAGCCTGC
1 G-GACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
* * * * * * *
18658401 GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGC
1 GGACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
* *
18658440 GGACCTTAAGTCCGGATATA
1 GGACCTTAAGCCCAGATATA
18658460 CATCAAATAT
Statistics
Matches: 152, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
39 120 0.79
40 32 0.21
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (39 bp):
GGACCTTAAGCCCAGATATAGTACCAGCACGAAGCCTGT
Found at i:18658301 original size:39 final size:39
Alignment explanation
Indices: 18658267--18658457 Score: 256
Period size: 39 Copynumber: 4.9 Consensus size: 39
18658257 AGATATAGTA
* * * * *
18658267 CCAGTACGAAGCCTGTGGACCTTAAGTCCGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
18658306 CCAGCACGAAGCCTGCGGATCTTAAGTTCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
18658345 CCAGCACGAAGCCTGCGAGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCG-GACCTTAAGTCCGGATACAATT
**
18658385 CCAGCATAAAGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
18658424 CCAGCACGAAGCCAGCGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
18658458 TACATCAAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 99 0.76
40 32 0.24
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:18658377 original size:79 final size:78
Alignment explanation
Indices: 18658226--18658459 Score: 252
Period size: 79 Copynumber: 3.0 Consensus size: 78
18658216 GAATTCAATC
* * * * * * * * * * *
18658226 ACCAACACAAAGCCTACGGGACTTTAAGCCCAGATATAGTACCAGTACGAAGCCTGTGGACCTTA
1 ACCAGCACAAAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGCGGACCTTA
*
18658291 AGTCCGGATATAGT
65 AGTCCGGATATAAT
* * * * * *
18658305 ACCAGCACGAAGCCTGCGGATCTTAAGTTCGGATACAATTCCAGCACGAAGCCTGCGAGTCTTTA
1 ACCAGCACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGCG-GACCTTA
* *
18658370 AGCCCGGATACAAT
65 AGTCCGGATATAAT
* *
18658384 TCCAGCATAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGCGGACCTTAA
1 ACCAGCACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGCGGACCTTAA
18658449 GTCCGGATATA
66 GTCCGGATATA
18658460 CATCAAATAT
Statistics
Matches: 126, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
78 45 0.36
79 81 0.64
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCAGCGGACCTTAA
GTCCGGATATAAT
Found at i:18659198 original size:24 final size:24
Alignment explanation
Indices: 18659141--18659277 Score: 166
Period size: 24 Copynumber: 5.7 Consensus size: 24
18659131 CCATGTTAAC
* **
18659141 CCGCACACATAGTGCCTTAGTAAT
1 CCGCACACATAGTGCCATACAAAT
* * * * * *
18659165 TCACATACATATTGCCATTCCAAT
1 CCGCACACATAGTGCCATACAAAT
18659189 CCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAAT
18659213 CCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAAT
* *
18659237 TCGCACACATAGTGCCATTCAAAT
1 CCGCACACATAGTGCCATACAAAT
*
18659261 TCGCACACATAGTGCCA
1 CCGCACACATAGTGCCA
18659278 AAATCATTTC
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 97 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (24 bp):
CCGCACACATAGTGCCATACAAAT
Found at i:18659247 original size:72 final size:72
Alignment explanation
Indices: 18659141--18659277 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
18659131 CCATGTTAAC
* ** * * *
18659141 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGCCATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATCCGCACACATAGTGCCA
18659206 TACAAAT
66 TACAAAT
* *
18659213 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATCCGCACACATAGTGCCA
18659278 AAATCATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.34, C:0.31, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:18660476 original size:17 final size:17
Alignment explanation
Indices: 18660454--18660487 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18660444 CCCCGCTTAA
*
18660454 TATATTATAACTTATTT
1 TATATTATAACATATTT
18660471 TATATTATAACATATTT
1 TATATTATAACATATTT
18660488 CAATTATATA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:18661709 original size:2 final size:2
Alignment explanation
Indices: 18661702--18661757 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
18661692 TTAGCATCAC
* *
18661702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
18661744 AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT
18661758 TTGATTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18664285 original size:39 final size:39
Alignment explanation
Indices: 18664251--18664441 Score: 265
Period size: 39 Copynumber: 4.9 Consensus size: 39
18664241 AGATATAGTA
* * * * *
18664251 CCAGTACGAAGCCTGCGGACCTTAAGTCTGGATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
18664290 CCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * *
18664329 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* *
18664369 CCAGCATGAAGCCTGCGGGCCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
18664408 CCAGCACGAAGCCTGAGGACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
18664442 TACATCAAAT
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 100 0.75
40 34 0.25
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:18664432 original size:118 final size:118
Alignment explanation
Indices: 18664219--18664441 Score: 311
Period size: 118 Copynumber: 1.9 Consensus size: 118
18664209 CACCAACACA
* * * *
18664219 AAGCCTACGGGACTTTAAGCCCAGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCTGGAT
1 AAGCCTACGGGACTTTAAGCCCAGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * *
18664284 ATAGTACCAGCACGAAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
66 ACAATACCAGCACGAAGCCTGAGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * * *
18664337 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGGCCTTAAGTCCGGAT
1 AAGCCTACGGGACTTTAAGCCCAGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
*
18664402 ACAATTCCAGCACGAAGCCTGAGGACCTTAAGTCCGGATA
66 ACAATACCAGCACGAAGCCTGAGGACCTTAAGTCCGGATA
18664442 TACATCAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
118 90 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (118 bp):
AAGCCTACGGGACTTTAAGCCCAGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
ACAATACCAGCACGAAGCCTGAGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:18665180 original size:48 final size:48
Alignment explanation
Indices: 18665128--18665236 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 48
18665118 GTTAACCCGT
* ** * * * *
18665128 ACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATTCGC
1 ACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAATTCGC
* *
18665176 ACACATAGTGCCATACAAATCCGCACACATAGTGCCATTCAAATTCGC
1 ACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAATTCGC
18665224 ACACATAGTGCCA
1 ACACATAGTGCCA
18665237 AAATCATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (48 bp):
ACACATAGTGCCATACAAATCCACACACATAGTGACATTCAAATTCGC
Found at i:18665200 original size:24 final size:24
Alignment explanation
Indices: 18665173--18665236 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
18665163 CATTCCAATT
18665173 CGCACACATAGTGCCATACAAATC
1 CGCACACATAGTGCCATACAAATC
* *
18665197 CGCACACATAGTGCCATTCAAATT
1 CGCACACATAGTGCCATACAAATC
18665221 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
18665237 AAATCATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.34, C:0.33, G:0.14, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATC
Found at i:18666435 original size:17 final size:17
Alignment explanation
Indices: 18666413--18666446 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18666403 CCCCATTTAA
18666413 TATATTATAACATATTT
1 TATATTATAACATATTT
18666430 TATATTATAACATATTT
1 TATATTATAACATATTT
18666447 CAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:18672786 original size:25 final size:25
Alignment explanation
Indices: 18672725--18672792 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
18672715 GGACACACCA
18672725 CAACTTGTATGAGCTTCCAGTTATT
1 CAACTTGTATGAGCTTCCAGTTATT
* * * * *
18672750 GAGCTCGCATGAGCTTCCTGTTATT
1 CAACTTGTATGAGCTTCCAGTTATT
*
18672775 CAACTTATATGAGCTTCC
1 CAACTTGTATGAGCTTCC
18672793 CATTTACAGC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
CAACTTGTATGAGCTTCCAGTTATT
Found at i:18677951 original size:31 final size:29
Alignment explanation
Indices: 18677924--18678002 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
18677914 ATTTTTTAAA
*
18677924 AATTTTAAAATATTAAAAATATGTTTTTTAT
1 AATTTTAAAAT-TTAAAAATAT-CTTTTTAT
* *
18677955 AATTTTAATGATTTTAAAATATCTTTTTAT
1 AATTTTAA-AATTTAAAAATATCTTTTTAT
*
18677985 AATTTTTAAATTTAAAAA
1 AATTTTAAAATTTAAAAA
18678003 ATTAATTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 8 0.20
30 14 0.34
31 17 0.41
32 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (29 bp):
AATTTTAAAATTTAAAAATATCTTTTTAT
Found at i:18682034 original size:20 final size:20
Alignment explanation
Indices: 18681997--18682035 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18681987 TAAATTGGAA
*
18681997 TGAAATTGTGATATTGAATG
1 TGAAATTATGATATTGAATG
18682017 TGAAATTAT-ATATATGAAT
1 TGAAATTATGATAT-TGAAT
18682036 TGGATTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGAAATTATGATATTGAATG
Found at i:18685179 original size:14 final size:14
Alignment explanation
Indices: 18685160--18685192 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18685150 ACGAAGTTGG
*
18685160 TGATTTCTTTTTGT
1 TGATTTCCTTTTGT
18685174 TGATTTCCTTTTGT
1 TGATTTCCTTTTGT
18685188 TGATT
1 TGATT
18685193 AAATGACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (14 bp):
TGATTTCCTTTTGT
Found at i:18686599 original size:26 final size:26
Alignment explanation
Indices: 18686563--18686646 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
18686553 TGATACAAAT
*
18686563 TGATAAAAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18686589 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18686615 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18686641 TGATAA
1 TGATAA
18686647 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18688159 original size:26 final size:26
Alignment explanation
Indices: 18688130--18688182 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
18688120 TTTACAGTTT
18688130 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
18688156 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
18688182 T
1 T
18688183 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:18690096 original size:13 final size:13
Alignment explanation
Indices: 18690078--18690124 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
18690068 TATAGTATAA
18690078 AAATTTTGTTAGG
1 AAATTTTGTTAGG
* **
18690091 AAATTTTATTATAA
1 AAATTTTGTTA-GG
18690105 AAATTTTGTTAGG
1 AAATTTTGTTAGG
18690118 AAATTTT
1 AAATTTT
18690125 ACCATTTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (13 bp):
AAATTTTGTTAGG
Found at i:18690103 original size:27 final size:27
Alignment explanation
Indices: 18690073--18690125 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
18690063 AGAATTATAG
18690073 TATAAAAATTTTGTTAGGAAATTTTAT
1 TATAAAAATTTTGTTAGGAAATTTTAT
18690100 TATAAAAATTTTGTTAGGAAATTTTA
1 TATAAAAATTTTGTTAGGAAATTTTA
18690126 CCATTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (27 bp):
TATAAAAATTTTGTTAGGAAATTTTAT
Found at i:18692758 original size:16 final size:16
Alignment explanation
Indices: 18692737--18692775 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18692727 TATGAATGTT
*
18692737 TTTGAATGATTTTTGA
1 TTTGAATGATATTTGA
*
18692753 TTTGAATGGTATTTGA
1 TTTGAATGATATTTGA
18692769 TTATGAA
1 TT-TGAA
18692776 ATGTTTGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTGAATGATATTTGA
Found at i:18695711 original size:25 final size:23
Alignment explanation
Indices: 18695679--18695736 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
18695669 TTATTTCTTT
18695679 TATTATTATAACATATATATTATTA
1 TATTATTATAA-ATAT-TATTATTA
*
18695704 TATTATTA-AATTATTATTATTA
1 TATTATTATAAATATTATTATTA
18695726 T-TTACTTATAA
1 TATTA-TTATAA
18695737 TATAAGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.10
22 12 0.40
23 5 0.17
24 2 0.07
25 8 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATTATAAATATTATTATTA
Found at i:18702482 original size:6 final size:6
Alignment explanation
Indices: 18702462--18702514 Score: 90
Period size: 6 Copynumber: 9.0 Consensus size: 6
18702452 ATGGAATTTT
*
18702462 AAAT-A AAATAG AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
18702509 AAATAA
1 AAATAA
18702515 TAGTAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:18710548 original size:17 final size:16
Alignment explanation
Indices: 18710508--18710548 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
18710498 TATTTTTCTT
18710508 TTATTTTTTAGATTCA
1 TTATTTTTTAGATTCA
*
18710524 TTAGTTTTTAAGATTCA
1 TTA-TTTTTTAGATTCA
18710541 TT-TTTTTT
1 TTATTTTTT
18710549 CCTTTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 3 0.14
17 14 0.64
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (16 bp):
TTATTTTTTAGATTCA
Found at i:18736832 original size:40 final size:40
Alignment explanation
Indices: 18736758--18736903 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
18736748 CCGCACCAAG
* * * * * *
18736758 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
18736798 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
18736838 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
18736878 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
18736904 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:18736918 original size:40 final size:40
Alignment explanation
Indices: 18736790--18736941 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
18736780 ATCACGATTT
* * * **
18736790 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
18736830 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
18736870 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
18736910 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
18736942 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:18744944 original size:40 final size:40
Alignment explanation
Indices: 18744870--18745015 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
18744860 CCGCACCAAG
* * * * * *
18744870 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
18744910 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
18744950 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
18744990 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
18745016 TTTCCAGCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:18745030 original size:40 final size:40
Alignment explanation
Indices: 18744902--18745053 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
18744892 ATCACGATTT
* * * **
18744902 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
18744942 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * * *
18744982 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
18745022 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
18745054 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:18756487 original size:31 final size:31
Alignment explanation
Indices: 18756447--18756509 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
18756437 TGTCAAAGGG
18756447 TAGGAAACTTAAGCTAGAAAAATGAAATGCC
1 TAGGAAACTTAAGCTAGAAAAATGAAATGCC
*
18756478 TAGGCAACTTAAGCTAGAAAAATGAAATGCC
1 TAGGAAACTTAAGCTAGAAAAATGAAATGCC
18756509 T
1 T
18756510 CTAACCCCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (31 bp):
TAGGAAACTTAAGCTAGAAAAATGAAATGCC
Found at i:18758139 original size:6 final size:7
Alignment explanation
Indices: 18758122--18758152 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
18758112 TACTTTAGCC
18758122 TTTTTTA
1 TTTTTTA
18758129 TTTTTTA
1 TTTTTTA
18758136 TTTTTTTA
1 -TTTTTTA
18758144 TTTTTTA
1 TTTTTTA
18758151 TT
1 TT
18758153 GCATTTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:18758142 original size:15 final size:15
Alignment explanation
Indices: 18758122--18758152 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18758112 TACTTTAGCC
18758122 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
18758137 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAT
18758152 T
1 T
18758153 GCATTTTGTT
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:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:18768267 original size:4 final size:4
Alignment explanation
Indices: 18768258--18768306 Score: 73
Period size: 4 Copynumber: 12.2 Consensus size: 4
18768248 TTTCTTGTAC
*
18768258 ATAA ATAA ATAA ATAA ATAAA ATTA A-AA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
18768306 A
1 A
18768307 GGATCAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 2 0.05
4 35 0.85
5 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:18768922 original size:12 final size:12
Alignment explanation
Indices: 18768905--18768929 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18768895 ACTTCTCTAC
18768905 TCTTTTTGCTTT
1 TCTTTTTGCTTT
18768917 TCTTTTTGCTTT
1 TCTTTTTGCTTT
18768929 T
1 T
18768930 GATAAAATTA
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:0.00, C:0.16, G:0.08, T:0.76
Consensus pattern (12 bp):
TCTTTTTGCTTT
Found at i:18773572 original size:40 final size:39
Alignment explanation
Indices: 18773528--18773611 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
18773518 TATATACATA
*
18773528 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCAAAGCTATCTCAAACTGCACACCAAGTGCCA-TTT
* * * *
18773568 TAGCCGAAGCTATTTCGAACTGCACACTAAGTGCCATTT
1 TAGCCAAAGCTATCTCAAACTGCACACCAAGTGCCATTT
18773607 TAGCC
1 TAGCC
18773612 GATAAGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 8 0.21
40 31 0.79
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (39 bp):
TAGCCAAAGCTATCTCAAACTGCACACCAAGTGCCATTT
Found at i:18783325 original size:15 final size:15
Alignment explanation
Indices: 18783305--18783334 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18783295 TTCACTATTA
*
18783305 TGTCTTTTATGTTTT
1 TGTCTTTCATGTTTT
18783320 TGTCTTTCATGTTTT
1 TGTCTTTCATGTTTT
18783335 GCATGCATAC
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:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (15 bp):
TGTCTTTCATGTTTT
Found at i:18796728 original size:14 final size:14
Alignment explanation
Indices: 18796709--18796735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18796699 AATATAATTA
18796709 TTACTATTATTATT
1 TTACTATTATTATT
18796723 TTACTATTATTAT
1 TTACTATTATTAT
18796736 CTAATATGTT
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:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTACTATTATTATT
Found at i:18796807 original size:3 final size:3
Alignment explanation
Indices: 18796793--18797060 Score: 101
Period size: 3 Copynumber: 88.3 Consensus size: 3
18796783 TTAACGTGTC
* * * ** *
18796793 ATT ATT ACT ATT ATT TTT ATT TTT ATT ACC ATT ATT ATT ATC A-T ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * *
18796841 -GT ATT -TAT ATT -TT -TT TTT ATT -TT AAT ATT ATT ATT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
18796882 ACT ACT ACTT CCATT ATT TTT ATT -TCT AACT ATT ATT ATT TTT ATGT
1 ATT ATT A-TT --ATT ATT ATT ATT AT-T -ATT ATT ATT ATT ATT AT-T
* * *
18796929 ATAT ATT ATT AATT A-T ATT ATT GTT ATT ATT ACT ATT ATT AAAT ATT
1 AT-T ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
* * * * *
18796976 CTT ATT ATT ACT ATT ATT -TT CATT CCTT -TT ATT ATT GTTT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT -ATT ATT ATT
* *
18797022 ATT -GT ATT ATT ATT ATT ACTT -CT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A
18797061 CTTTCTTTGT
Statistics
Matches: 196, Mismatches: 45, Indels: 48
0.68 0.16 0.17
Matches are distributed among these distances:
2 18 0.09
3 151 0.77
4 24 0.12
5 2 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:18801330 original size:2 final size:2
Alignment explanation
Indices: 18801325--18801367 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
18801315 TTCTCTCTTT
18801325 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18801366 TA
1 TA
18801368 ATACTTAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18806396 original size:17 final size:18
Alignment explanation
Indices: 18806357--18806397 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
18806347 TTTCAAAAAT
* *
18806357 GATTGTTTTTTCGTGTAC
1 GATTGTTTTTTCATGCAC
18806375 GATTGTTTTTTCATGCAC
1 GATTGTTTTTTCATGCAC
18806393 -ATTGT
1 GATTGT
18806398 GGGTATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.54
Consensus pattern (18 bp):
GATTGTTTTTTCATGCAC
Found at i:18808209 original size:35 final size:34
Alignment explanation
Indices: 18808164--18808229 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
18808154 TTATATATAC
18808164 TTTTATTATATATT-TATTATATAAATATATTTAAT
1 TTTTATTATATATTATA-TATATAAATA-ATTTAAT
* *
18808199 TTTTTTTATATATTATATATATTAATAATTT
1 TTTTATTATATATTATATATATAAATAATTT
18808230 TACCATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.14
35 22 0.79
36 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (34 bp):
TTTTATTATATATTATATATATAAATAATTTAAT
Found at i:18808291 original size:15 final size:15
Alignment explanation
Indices: 18808258--18808300 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
18808248 AAAATACTTA
18808258 TTATATTATTATTATT
1 TTATATTA-TATTATT
18808274 TTATATTATATT-TCT
1 TTATATTATATTAT-T
*
18808289 TTATATTTTATT
1 TTATATTATATT
18808301 CATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 16 0.64
16 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATATTATATTATT
Found at i:18814464 original size:5 final size:5
Alignment explanation
Indices: 18814442--18814482 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
18814432 CCATTTCAAA
18814442 AAAAG AAAAAG AACAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG -AAAAG AA-AAG AAAAG AAAAG AAAAG AAAAG AAAA
18814483 AGAGAAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:18815505 original size:45 final size:45
Alignment explanation
Indices: 18815445--18815883 Score: 524
Period size: 45 Copynumber: 9.9 Consensus size: 45
18815435 TTGAAGATAG
* * *
18815445 CAGATCTTATTTCTCTGTAATAGATGGGGAGCAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* * * *
18815490 CAAATCTTATCTCTCTGTATTCGACGGGGAGCAGATCGAAGACAT-A
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAG--ATGA
* * *
18815536 GCAGATCTGA---C-CT-TCAT---C-GGG-GCAGATCCAAGATGG
1 -CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
*
18815572 CGGATCTTATCTCTCTGTAATGGACAGGGG-GCAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGAC-GGGGAGCAGATCCAAGATGA
*
18815617 CAGATCTTATCTCTCTGTAATGGACGGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* * *
18815662 CAGATCCTATCTCTCCGTAATGGACGGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* * *
18815707 CAGATCTTATCTCTCTATAATGGACAGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* *
18815752 CAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* *
18815797 CAGATCTTATCTCTCTATAATGGACGGGGAGTAGATCCAAGATGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
* * * *
18815842 CAGATCTTATCTCTCTGTATTCGACGGGGAGCAAATCGAAGA
1 CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGA
18815884 CATAACAGAT
Statistics
Matches: 348, Mismatches: 31, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
35 9 0.03
37 10 0.03
38 4 0.01
39 3 0.01
40 3 0.01
42 2 0.01
43 3 0.01
44 5 0.01
45 299 0.86
46 1 0.00
47 9 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (45 bp):
CAGATCTTATCTCTCTGTAATGGACGGGGAGCAGATCCAAGATGA
Found at i:18817808 original size:36 final size:35
Alignment explanation
Indices: 18817759--18817826 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
18817749 GTATCTTTCT
* *
18817759 TATATATACTTTTTATTATATATTTTATTATATAAA
1 TATATATAATTTTTATTATATATTATA-TATATAAA
* *
18817795 TATATTTAATTTTTTTTATATATTATATATAT
1 TATATATAATTTTTATTATATATTATATATAT
18817827 TAATCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (35 bp):
TATATATAATTTTTATTATATATTATATATATAAA
Found at i:18817836 original size:26 final size:24
Alignment explanation
Indices: 18817786--18817836 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
18817776 ATATATTTTA
**
18817786 TTATATAAATATATTTAATTTTTT
1 TTATATAAATATATTTAATCATTT
*
18817810 TTATATATTATATATATTAATCATTT
1 TTATATA-AATATAT-TTAATCATTT
18817836 T
1 T
18817837 ACCATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
TTATATAAATATATTTAATCATTT
Found at i:18818110 original size:3 final size:3
Alignment explanation
Indices: 18818102--18818167 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
18818092 ATGTTACTAC
18818102 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18818150 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
18818168 TTGTATATAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18821859 original size:84 final size:83
Alignment explanation
Indices: 18821735--18822057 Score: 313
Period size: 84 Copynumber: 4.0 Consensus size: 83
18821725 TGAACGAGTG
* * * * * *
18821735 AGGCATAGTCTTGACAGAC-AAGTGGTAGGGGTGCTAAGAACCATAAATGATAACTTGTATTACA
1 AGGCATAGTCTTGACAGACAAAG-GGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACA
*
18821799 CGTATGAGCATGAGCAAGCA
65 CG-ATGAGCATAAGCAAGCA
* *
18821819 AGGCATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGGTAACTCGTATT--AC
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
* *
18821882 -AT--GCATAAGGATG-A
66 GATGAGCATAAGCAAGCA
* * * *
18821896 A--AATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAT
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
* * *
18821959 GCATGAGCACAAGCCAGCG
66 G-ATGAGCATAAGCAAGCA
* * * * * *
18821978 AGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAAGAGCCTTGAATGGTAACTTGTACTACAT
1 AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACA-
* *
18822043 GGATGAGCATGAGCA
65 CGATGAGCATAAGCA
18822058 TGAACTTGCC
Statistics
Matches: 197, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
75 53 0.27
77 3 0.02
78 8 0.04
79 2 0.01
80 2 0.01
81 7 0.04
82 3 0.02
84 115 0.58
85 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (83 bp):
AGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACAC
GATGAGCATAAGCAAGCA
Found at i:18821923 original size:75 final size:75
Alignment explanation
Indices: 18821823--18821962 Score: 244
Period size: 75 Copynumber: 1.9 Consensus size: 75
18821813 CAAGCAAGGC
* * *
18821823 ATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
18821888 AAGGATGAAA
66 AAGGATGAAA
*
18821898 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
18821963 GAGCACAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (75 bp):
ATAGTCTTGACAGACAAAGGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
AAGGATGAAA
Found at i:18822028 original size:159 final size:159
Alignment explanation
Indices: 18821739--18822043 Score: 414
Period size: 159 Copynumber: 1.9 Consensus size: 159
18821729 CGAGTGAGGC
* * * * * * *
18821739 ATAGTCTTGACAGACAAGTGGTAGGGGTGCTAAGAACCATAAATGATAACTTGTATTACACGTAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACACGCAT
** *
18821804 GAGCATGAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGGTGCCAAGAACCTTACATGG
66 GAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTACATGG
*
18821869 TAACTCGTATTACATGCATAAGGATGAAA
131 TAACTCGTACTACATGCATAAGGATGAAA
* * *
18821898 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCTTAAATGGTAACTCGTATTACATGCAT
1 ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACACGCAT
* * * * *
18821963 GAGCACAAGCCAGCGAGGCATAGTGTTGACAGACAAATGGTAGAGATGCCAAGAGCCTTGA-ATG
66 GAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTT-ACATG
*
18822027 GTAACTTGTACTACATG
130 GTAACTCGTACTACATG
18822044 GATGAGCATG
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
159 124 0.99
160 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (159 bp):
ATAGTCTTGACAGACAAATGATAGAGATGCCAAGAACCATAAATGATAACTCGTATTACACGCAT
GAGCACAAGCAAGCAAGGCATAGTCTTGACAGACAAAGGGTAGAGATGCCAAGAACCTTACATGG
TAACTCGTACTACATGCATAAGGATGAAA
Found at i:18822693 original size:21 final size:22
Alignment explanation
Indices: 18822650--18822694 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18822640 ATTTTTATGG
18822650 TTTACTCATAAAAAATAATTTT
1 TTTACTCATAAAAAATAATTTT
18822672 TTTACTCATAAAAAATAATTTT
1 TTTACTCATAAAAAATAATTTT
18822694 T
1 T
18822695 CATCATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTACTCATAAAAAATAATTTT
Found at i:18823153 original size:78 final size:78
Alignment explanation
Indices: 18823024--18823184 Score: 286
Period size: 78 Copynumber: 2.1 Consensus size: 78
18823014 GTATCCATGT
* *
18823024 AAGCATGCAACTTGTTTAGATGTAGTCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAGC
1 AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAAC
*
18823089 ATCGAGTAAAGCA
66 ATCAAGTAAAGCA
*
18823102 AAGCATGCAACTTGTTTAGATGTAATCATTAATCATATGAATTTAGAATTAGTTAGGCACTAAAC
1 AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAAC
18823167 ATCAAGTAAAGCA
66 ATCAAGTAAAGCA
18823180 AAGCA
1 AAGCA
18823185 ACCAAAGATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (78 bp):
AAGCATGCAACTTGTTTAGATGTAATCAATAATCATATGAATTTAGAATTAGTTAGGCACTAAAC
ATCAAGTAAAGCA
Found at i:18823701 original size:75 final size:75
Alignment explanation
Indices: 18823566--18823710 Score: 209
Period size: 75 Copynumber: 1.9 Consensus size: 75
18823556 CGCTGGCTTG
** * * * * *
18823566 TGCTCATGCATGTAATACGTGTTACCATTTAAGGTTCTTGGCATCTCTATCATTTTTCTGTCAAG
1 TGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
18823631 ACTATTTTCA
66 ACTATTTTCA
* *
18823641 TGCTCATGCATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
1 TGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
18823706 ACTAT
66 ACTAT
18823711 GCCTCACTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (75 bp):
TGCTCATGCATGTAATACAAGTTACCATTTAAGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
ACTATTTTCA
Found at i:18823800 original size:93 final size:93
Alignment explanation
Indices: 18823641--18823809 Score: 257
Period size: 93 Copynumber: 1.8 Consensus size: 93
18823631 ACTATTTTCA
* * * * * *
18823641 TGCTCATGCATGTAATACAAGTTATCATTTATGGTTCTTGGCACCCCTACCACTTGTCTGTCAAG
1 TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGTCTGTCAAG
*
18823706 ACTATGCCTCACTTCATGCTCATGCTTG
66 ACCATGCCTCACTTCATGCTCATGCTTG
* *
18823734 TGCTCATGCATGTAAGGCAAGTTACCATTCAAGGTTCTCGGCACCTCTACCAATTGTCTGTCAAG
1 TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGTCTGTCAAG
18823799 ACCATGCCTCA
66 ACCATGCCTCA
18823810 AGCTTCCTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (93 bp):
TGCTCATGCATGTAAGACAAGTTACCATTCAAGGTTCTCGGCACCCCTACCAATTGTCTGTCAAG
ACCATGCCTCACTTCATGCTCATGCTTG
Found at i:18833854 original size:42 final size:42
Alignment explanation
Indices: 18833797--18833944 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
18833787 TAGGGTTATG
*
18833797 TGTGATTTTGTGTAAGACCATATCTGGGATATGGAATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * *
18833839 TGTGATTTCATGTAAGACCATGTCTGGGACATGGCATCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
* * * * * *
18833881 TTTGATTTTGTGTAAGACCATGTCTAGGACATGGAGTCGATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
*** *
18833923 CAAGATATCGTGTAAGACCATA
1 TGTGATTTCGTGTAAGACCATA
18833945 GTTGGGCTAT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:18835425 original size:39 final size:39
Alignment explanation
Indices: 18835371--18835449 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
18835361 GTCCCAAGCC
18835371 ACACGGGCGTGTGACCCCTGTTTTTATGAAAAATTTACT
1 ACACGGGCGTGTGACCCCTGTTTTTATGAAAAATTTACT
18835410 ACACGGGCGTGTGACCCCTGTTTTTATGAAAAATTTACT
1 ACACGGGCGTGTGACCCCTGTTTTTATGAAAAATTTACT
18835449 A
1 A
18835450 AGTGTTGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (39 bp):
ACACGGGCGTGTGACCCCTGTTTTTATGAAAAATTTACT
Found at i:18841244 original size:42 final size:42
Alignment explanation
Indices: 18841196--18841308 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
18841186 TCATTTTCTC
** * *
18841196 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
18841238 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
18841280 GATGCCATAGCCCAGCTATGGTCTTACAC
1 GATGCCATAGCCCAGCTATGGTCTTACAC
18841309 GAATCACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:18841386 original size:47 final size:46
Alignment explanation
Indices: 18841277--18841402 Score: 162
Period size: 47 Copynumber: 2.7 Consensus size: 46
18841267 ATATTCATAT
* * * * *
18841277 ATTGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTC
1 ATTGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCAC
* * * *
18841323 ACTGATGCCATGTCCCAGATATGGTCTTATACAGTAGCATATATCAC
1 ATTGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCAC
18841370 ATTGATGCCATATCCCAGATATGGTCTTATACG
1 ATTGATGCCATATCCCAGATATGGTCTTATACG
18841403 GAAATCACTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.41
47 40 0.59
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (46 bp):
ATTGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCAC
Found at i:18841455 original size:31 final size:31
Alignment explanation
Indices: 18841420--18841568 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
18841410 CTTGTCACTT
* *
18841420 GTAGCCGAAGCTACCACTATTCACTGACCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
18841451 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
18841482 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
18841513 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
18841544 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
18841569 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:18841642 original size:50 final size:50
Alignment explanation
Indices: 18841544--18841720 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
18841534 CACTGATCAG
* *
18841544 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
18841595 GTAGTCGAAGCTGTCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
18841645 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
18841695 GTAGTCGAAGCTATCATTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
18841721 GTTGCCATGG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 92 0.81
51 22 0.19
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:18843935 original size:29 final size:29
Alignment explanation
Indices: 18843893--18843950 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
18843883 CTATTAGAAA
18843893 AAAGGGATAATCTATGTTTCATACAATCC
1 AAAGGGATAATCTATGTTTCATACAATCC
18843922 AAAGGGATAATCTATGTTTCATACAATCC
1 AAAGGGATAATCTATGTTTCATACAATCC
18843951 TTTCTCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAGGGATAATCTATGTTTCATACAATCC
Found at i:18844033 original size:5 final size:5
Alignment explanation
Indices: 18844023--18844054 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
18844013 AAGGCTGTGA
18844023 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
18844055 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:18844048 original size:9 final size:9
Alignment explanation
Indices: 18844024--18844054 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
18844014 AGGCTGTGAA
18844024 AAATAAAAT
1 AAATAAAAT
18844033 AAAATAAAAT
1 -AAATAAAAT
18844043 AAATAAAAT
1 AAATAAAAT
18844052 AAA
1 AAA
18844055 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:18848476 original size:5 final size:5
Alignment explanation
Indices: 18848466--18848497 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
18848456 CAATTTGTGA
18848466 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
18848498 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:18848491 original size:9 final size:9
Alignment explanation
Indices: 18848467--18848497 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
18848457 AATTTGTGAA
18848467 AAATAAAAT
1 AAATAAAAT
18848476 AAAATAAAAT
1 -AAATAAAAT
18848486 AAATAAAAT
1 AAATAAAAT
18848495 AAA
1 AAA
18848498 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:18849245 original size:21 final size:21
Alignment explanation
Indices: 18849216--18849256 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18849206 GGGTTTACCT
* *
18849216 AAAATTAAAGGAAAAAGAAGA
1 AAAACTAAAAGAAAAAGAAGA
*
18849237 AAAACTAAAAGAAAATGAAG
1 AAAACTAAAAGAAAAAGAAG
18849257 CGCCTTTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (21 bp):
AAAACTAAAAGAAAAAGAAGA
Found at i:18853714 original size:3 final size:3
Alignment explanation
Indices: 18853706--18853760 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
18853696 GAGGTAGACG
18853706 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18853754 ATA ATA A
1 ATA ATA A
18853761 AAGCGGGTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18853972 original size:14 final size:15
Alignment explanation
Indices: 18853949--18853978 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18853939 ACATAAAATT
18853949 AAAATAATTTATAAA
1 AAAATAATTTATAAA
18853964 AAAAT-ATTTATAAA
1 AAAATAATTTATAAA
18853978 A
1 A
18853979 TTAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAATTTATAAA
Found at i:18859847 original size:5 final size:5
Alignment explanation
Indices: 18859837--18859869 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
18859827 CTGCGTGTTC
18859837 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
18859870 TTACAGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:18865526 original size:23 final size:23
Alignment explanation
Indices: 18865467--18865530 Score: 103
Period size: 22 Copynumber: 2.8 Consensus size: 23
18865457 TAGGGTAGGA
*
18865467 AAAAGGAAAAGAAGAAAATGAGGG
1 AAAATGAAAA-AAGAAAATGAGGG
18865491 AAAAT-AAAAAAGAAAATGAGGG
1 AAAATGAAAAAAGAAAATGAGGG
18865513 AAAATGAAAAAAGAAAAT
1 AAAATGAAAAAAGAAAAT
18865531 AAAAAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 18 0.47
23 16 0.42
24 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (23 bp):
AAAATGAAAAAAGAAAATGAGGG
Found at i:18872529 original size:27 final size:27
Alignment explanation
Indices: 18872489--18872615 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
18872479 AGGAAGCGTC
* *
18872489 CTGGTGGCTATGCCATAAATATTTGAT
1 CTGGTGGCTCTGCCACAAATATTTGAT
* * *
18872516 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATTTGAT
* * *
18872543 CTGGTGGCTCTGCCACGATTATTTATAT
1 CTGGTGGCTCTGCCACAAATATTT-GAT
* * *
18872571 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATTTG-AT
* *
18872599 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
18872616 TTATCTGTTC
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
27 42 0.51
28 40 0.49
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATTTGAT
Found at i:18872582 original size:28 final size:27
Alignment explanation
Indices: 18872514--18872629 Score: 155
Period size: 28 Copynumber: 4.3 Consensus size: 27
18872504 TAAATATTTG
18872514 ATCTGGTGGCTCTGCCACATATATCTGT
1 ATCTGGTGGCTCTGCCACAT-TATCTGT
* *
18872542 -TCTGGTGGCTCTGCCACGATTATTTAT
1 ATCTGGTGGCTCTGCCAC-ATTATCTGT
18872569 ATCTGGTGGCTCTGCCACGATTATCTGT
1 ATCTGGTGGCTCTGCCAC-ATTATCTGT
* *
18872597 ATCTGGTGACTCTGTCACATTATCTGT
1 ATCTGGTGGCTCTGCCACATTATCTGT
18872624 -TCTGGT
1 ATCTGGT
18872630 AGCCATGCTG
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
26 6 0.08
27 31 0.39
28 43 0.54
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
ATCTGGTGGCTCTGCCACATTATCTGT
Found at i:18872594 original size:55 final size:55
Alignment explanation
Indices: 18872514--18872619 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 55
18872504 TAAATATTTG
*
18872514 ATCTGGTGGCTCTGCCACATATATCTGT-TCTGGTGGCTCTGCCACGATTATTTAT
1 ATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTCTGCCAC-ATTATTTAT
*
18872569 ATCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACTCTGTCACATTAT
1 ATCTGGTGGCTCTGCCAC-ATATATCTGTATCTGGTGACTCTGCCACATTAT
18872620 CTGTTCTGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
55 30 0.64
56 17 0.36
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (55 bp):
ATCTGGTGGCTCTGCCACATATATCTGTATCTGGTGACTCTGCCACATTATTTAT
Found at i:18879064 original size:8 final size:8
Alignment explanation
Indices: 18879051--18879080 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18879041 AGATCGGCAC
18879051 AAGCCGAA
1 AAGCCGAA
18879059 AAGCCGAA
1 AAGCCGAA
*
18879067 ATGCCGAA
1 AAGCCGAA
18879075 AAGCCG
1 AAGCCG
18879081 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:18879570 original size:27 final size:26
Alignment explanation
Indices: 18879469--18879580 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
18879459 AGGAAGCGTC
* * **
18879469 CTGGTGGCTATGCCACAAATATCTAAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
18879496 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
18879523 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
18879551 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
18879577 CTGG
1 CTGG
18879581 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:18879573 original size:54 final size:54
Alignment explanation
Indices: 18879469--18879580 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
18879459 AGGAAGCGTC
*
18879469 CTGGTGGCTATGCCACAAATATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * * * *
18879523 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCT-AATCTGGTGACTCTGCCACATATATCTGTT
18879577 CTGG
1 CTGG
18879581 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTAATCTGGTGACTCTGCCACATATATCTGTT
Found at i:18885156 original size:22 final size:23
Alignment explanation
Indices: 18885103--18885163 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
18885093 TAAAGCTATC
*
18885103 ACCCACCAAACACAACCAATCAT
1 ACCCTCCAAACACAACCAATCAT
* *
18885126 AGCCTCCAAACACAACCAAT-TT
1 ACCCTCCAAACACAACCAATCAT
18885148 ACCCTCCAAACACAAC
1 ACCCTCCAAACACAAC
18885164 TATAAGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.44, C:0.43, G:0.02, T:0.11
Consensus pattern (23 bp):
ACCCTCCAAACACAACCAATCAT
Found at i:18887866 original size:23 final size:23
Alignment explanation
Indices: 18887840--18887920 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
18887830 TGTACCTTCT
*
18887840 AAACACAACCAAATTTACCCTCC
1 AAACACAACCAAATATACCCTCC
* * *
18887863 AAACACAACCATATATGTAACATCC
1 AAACACAACCA-A-ATATACCCTCC
* *
18887888 GAACACAACCAAGTATACCCTCC
1 AAACACAACCAAATATACCCTCC
18887911 AAACACAACC
1 AAACACAACC
18887921 TTCAACATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
23 27 0.57
24 2 0.04
25 18 0.38
ACGTcount: A:0.46, C:0.36, G:0.04, T:0.15
Consensus pattern (23 bp):
AAACACAACCAAATATACCCTCC
Found at i:18890464 original size:3 final size:3
Alignment explanation
Indices: 18890443--18890483 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
18890433 TTATCTCAAT
*
18890443 TAA TAGA TAA -AA T-A TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18890484 GTAAATATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:18895412 original size:22 final size:22
Alignment explanation
Indices: 18895386--18895440 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
18895376 CAATAGGCTA
*
18895386 GTCTCAAGACAATTTG-CCATAT
1 GTCTCGAGACAATTTGTCCAT-T
* *
18895408 GTCTCGAGATAATTTGTCGATT
1 GTCTCGAGACAATTTGTCCATT
18895430 GTCTCGAGACA
1 GTCTCGAGACA
18895441 GGGCTCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (22 bp):
GTCTCGAGACAATTTGTCCATT
Found at i:18906300 original size:25 final size:26
Alignment explanation
Indices: 18906272--18906323 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
18906262 TCAAGGATCA
* * *
18906272 TATATATCTTTATTTCCATT-CCATT
1 TATATACCCTTATTTCAATTCCCATT
18906297 TATATACCCTTATTTCAATTCCCATT
1 TATATACCCTTATTTCAATTCCCATT
18906323 T
1 T
18906324 TTATTTCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATACCCTTATTTCAATTCCCATT
Done.