Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 157 of 427
Found at i:43281438 original size:36 final size:36
Alignment explanation
Indices: 43281365--43281438 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
43281355 ATAATCAATC
* * * *
43281365 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGATACCGAATAACTGACTATTACTAAAT
**
43281401 AATTGATTTTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGATACCGAATAACTGACTATTACTAAAT
43281437 AA
1 AA
43281439 ATAATTGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (36 bp):
AATTGATTGATACCGAATAACTGACTATTACTAAAT
Found at i:43291578 original size:40 final size:40
Alignment explanation
Indices: 43291523--43291704 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
43291513 TATTCGGATG
* *
43291523 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43291563 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
43291603 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
43291643 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
43291683 ATATCC-GGCTAATTGCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
43291705 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:43296817 original size:16 final size:16
Alignment explanation
Indices: 43296796--43296829 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43296786 ATATATAGTT
43296796 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
43296812 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
43296828 AA
1 AA
43296830 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:43297073 original size:53 final size:51
Alignment explanation
Indices: 43297012--43297131 Score: 143
Period size: 53 Copynumber: 2.3 Consensus size: 51
43297002 ACTGTTACCG
* * * *
43297012 TTACTGTTACTGTTTTGGATTT-GTTCTGATGAGGTACTTTGTGTACCGTACAA
1 TTACTGTTACTGTTCTGGATTTATTTC-GATGAGATACTCTGTGTACCGT--AA
*
43297065 TTACTGTTACTGTTCTGGATTTATTTCGATGAGATACTCTGTGTACTGTAA
1 TTACTGTTACTGTTCTGGATTTATTTCGATGAGATACTCTGTGTACCGTAA
43297116 TGCTACTGTTACTGTT
1 T--TACTGTTACTGTT
43297132 ACTGTTACTG
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 3 0.05
53 53 0.90
54 3 0.05
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (51 bp):
TTACTGTTACTGTTCTGGATTTATTTCGATGAGATACTCTGTGTACCGTAA
Found at i:43297130 original size:6 final size:6
Alignment explanation
Indices: 43297119--43297146 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43297109 ACTGTAATGC
43297119 TACTGT TACTGT TACTGT TACTGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACT
43297147 ATTTCGGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:43297291 original size:19 final size:19
Alignment explanation
Indices: 43297267--43297316 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
43297257 AGATCGACTG
43297267 TTACTGAATAATTTAATTA
1 TTACTGAATAATTTAATTA
* * * *
43297286 TTACTGTAT-ATCTGATTT
1 TTACTGAATAATTTAATTA
43297304 TTACTGAATAATT
1 TTACTGAATAATT
43297317 GACTGTTACT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
TTACTGAATAATTTAATTA
Found at i:43297325 original size:18 final size:18
Alignment explanation
Indices: 43297262--43297332 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
43297252 TGGAAAGATC
43297262 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * * *
43297281 AATTATTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
43297299 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
43297317 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
43297333 CCAATCAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.68
19 12 0.30
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:43297373 original size:18 final size:18
Alignment explanation
Indices: 43297349--43297412 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
43297339 AATTGATTGA
43297349 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
43297367 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
43297385 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
43297403 TACTAAATAA
1 TACTGAATAA
43297413 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:43297412 original size:36 final size:36
Alignment explanation
Indices: 43297339--43297421 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
43297329 ATAACCAATC
* * * * *
43297339 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
43297375 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTAAAT
* *
43297411 AAATAATTGTT
1 AATTGATTGTT
43297422 CTGATTGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTAAAT
Found at i:43304720 original size:10 final size:10
Alignment explanation
Indices: 43304705--43304729 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43304695 GTGTGATACA
43304705 ATCTCTGACG
1 ATCTCTGACG
43304715 ATCTCTGACG
1 ATCTCTGACG
43304725 ATCTC
1 ATCTC
43304730 CAGTCCGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (10 bp):
ATCTCTGACG
Found at i:43311305 original size:40 final size:39
Alignment explanation
Indices: 43311137--43311307 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
43311127 AGAAATTGAA
* *
43311137 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
43311177 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
43311217 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
43311257 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
43311297 TGATATCCGGG
1 TGATATCCGGG
43311308 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:43323748 original size:39 final size:40
Alignment explanation
Indices: 43323685--43323840 Score: 151
Period size: 40 Copynumber: 3.9 Consensus size: 40
43323675 CATGGAAATT
* * *
43323685 GAATGATATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-
1 GAATTATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGA
*
43323724 GAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCT-A
1 GAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGA
*** *
43323763 GTGGCTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GA
1 G-AATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTGA
* *
43323803 GACATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GA-ATTATATCCGGGCTAAGACCCGAAGGCAATTGTGC
43323841 ACGTGATTAT
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
39 36 0.38
40 57 0.60
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
GAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGA
Found at i:43323854 original size:40 final size:40
Alignment explanation
Indices: 43323726--43323856 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
43323716 TTATGCTGGA
* * *
43323726 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
43323766 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
43323806 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
43323846 ATTATATCCGG
1 ATTATATCCGG
43323857 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:43328007 original size:48 final size:48
Alignment explanation
Indices: 43327935--43328223 Score: 454
Period size: 48 Copynumber: 6.0 Consensus size: 48
43327925 CAAGATAAAT
* * *
43327935 ATATATATGTGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
43327983 ATATGTATATGTTGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43328031 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
43328079 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
43328127 ATATATATATGTGGT-AATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
43328174 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43328222 AT
1 AT
43328224 GTGTGTATAT
Statistics
Matches: 220, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 42 0.19
48 178 0.81
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:43328193 original size:143 final size:144
Alignment explanation
Indices: 43327935--43328223 Score: 454
Period size: 143 Copynumber: 2.0 Consensus size: 144
43327925 CAAGATAAAT
* * *** * *
43327935 ATATATATGTGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTTGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
43328000 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
*
43328065 GAAATATGTATGAG
131 GAAATATGTAGGAG
*
43328079 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGT-A
1 ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
* * * *
43328143 ATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
43328208 GAAATATGTAGGAG
131 GAAATATGTAGGAG
43328222 AT
1 AT
43328224 GTGTGTATAT
Statistics
Matches: 132, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
143 77 0.58
144 55 0.42
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (144 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATGTAGGAG
Found at i:43328407 original size:37 final size:37
Alignment explanation
Indices: 43328366--43328509 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
43328356 CATATATTCT
43328366 GGGTAAGACCCGATGAATACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGAATACGTGTGGAGATTATGTCC
*
43328403 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGAATACGTGTGGAGATTATGTCC
* * *
43328440 GGGTAAGACCCGATGACTACGTGTGGAGATTTTTTCC
1 GGGTAAGACCCGATGAATACGTGTGGAGATTATGTCC
* *
43328477 GGGTAAGACCCAAT-AACTACGTGTGGGGATTAT
1 GGGTAAGACCCGATGAA-TACGTGTGGAGATTAT
43328510 TCGAGCTAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
36 1 0.01
37 98 0.99
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGAATACGTGTGGAGATTATGTCC
Found at i:43330252 original size:43 final size:43
Alignment explanation
Indices: 43330203--43330378 Score: 307
Period size: 43 Copynumber: 4.1 Consensus size: 43
43330193 TGAAACTCGA
43330203 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
43330246 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* *
43330289 TGATATGTATTCGGGCCTTCCTGCCTAGCAGGCTTCGTGCTGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* **
43330332 TGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
43330375 TGAT
1 TGAT
43330379 TCGAGCAAGG
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.13, C:0.24, G:0.31, T:0.32
Consensus pattern (43 bp):
TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
Found at i:43330568 original size:29 final size:29
Alignment explanation
Indices: 43330535--43330634 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 29
43330525 ATAATTAGAG
*
43330535 GCACTGTGTGTGCAAATTCCGTTAACCGA
1 GCACTATGTGTGCAAATTCCGTTAACCGA
* * **
43330564 GCACTATGTGTGCGAGA-TCAG-TAATTGA
1 GCACTATGTGTGC-AAATTCCGTTAACCGA
* *
43330592 GGCACTGTGTGTGCAAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATTCCGTTAACCGA
*
43330622 GCATTATGTGTGC
1 GCACTATGTGTGC
43330635 GAGATTGGTA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 7 0.13
29 40 0.74
30 7 0.13
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCGTTAACCGA
Found at i:43330660 original size:29 final size:29
Alignment explanation
Indices: 43330564--43330666 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
43330554 CGTTAACCGA
*
43330564 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
* * ** **
43330593 GCACTGTGTGTGC-AAATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGATT--AGTAATTGAG
* *
43330622 GCATTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
*
43330651 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
43330667 TTCTTCAACC
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
28 8 0.15
29 37 0.69
30 9 0.17
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:43330720 original size:58 final size:58
Alignment explanation
Indices: 43330526--43330700 Score: 255
Period size: 58 Copynumber: 3.0 Consensus size: 58
43330516 TGTGTGCCAA
*
43330526 TAATTAGAGGCACTGTGTGTGCAAATTCCGTT-AACCGAGCACTATGTGTGCGAGATCAG
1 TAATT-GAGGCACTGTGTGTGCAAATTCC-TTCAACCGAGCACTATGTGTGCGAGATCGG
* * *
43330585 TAATTGAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCATTATGTGTGCGAGATTGG
1 TAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGG
* * *
43330643 TAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACCAAGCACTATGTGTGCGAGATCGG
1 TAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGG
43330700 T
1 T
43330701 CAGTGGGCAC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 30 0.28
58 71 0.67
59 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (58 bp):
TAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCACTATGTGTGCGAGATCGG
Found at i:43334232 original size:48 final size:48
Alignment explanation
Indices: 43334161--43334450 Score: 481
Period size: 48 Copynumber: 6.0 Consensus size: 48
43334151 CAAGATAAAT
* *
43334161 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
43334209 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43334257 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
43334305 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
43334353 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
43334401 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43334449 AT
1 AT
43334451 GTGTGTATAT
Statistics
Matches: 225, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 225 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:43334650 original size:36 final size:37
Alignment explanation
Indices: 43334591--43334698 Score: 175
Period size: 36 Copynumber: 3.0 Consensus size: 37
43334581 GGAAATATAT
43334591 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43334628 TCCGGGTAAGA-CCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
43334664 TCC-GGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
43334699 TCGAGCTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
35 7 0.11
36 48 0.73
37 11 0.17
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:43336508 original size:42 final size:43
Alignment explanation
Indices: 43336389--43336605 Score: 366
Period size: 43 Copynumber: 5.1 Consensus size: 43
43336379 TGAAACTCGA
43336389 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
43336432 TGATATGTATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
43336475 TGATATGTATTC-GGCCTTCGTGCCTAGTAGGCTTCGTGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
*
43336517 TGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCTGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
* **
43336559 TGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCGG
1 TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
43336602 TGAT
1 TGAT
43336606 TCGAGCAAGG
Statistics
Matches: 164, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 80 0.49
43 84 0.51
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.33
Consensus pattern (43 bp):
TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGG
Found at i:43336795 original size:29 final size:29
Alignment explanation
Indices: 43336762--43336860 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
43336752 ATGATTAGAG
* *
43336762 GCACTGTGTGTGCAAATTCCGTTAACCGA
1 GCACTATGTGTGCAAATTCCGTTAATCGA
* * *
43336791 GCACTATGTGTGCGAGA-TCAG-TAATTGA
1 GCACTATGTGTGC-AAATTCCGTTAATCGA
* *
43336819 GGCACTGTGTGTGCAAATTCCTTTAATCGA
1 -GCACTATGTGTGCAAATTCCGTTAATCGA
*
43336849 GCATTATGTGTG
1 GCACTATGTGTG
43336861 TGAGATTGGT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 7 0.13
29 39 0.72
30 8 0.15
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (29 bp):
GCACTATGTGTGCAAATTCCGTTAATCGA
Found at i:43336827 original size:58 final size:57
Alignment explanation
Indices: 43336759--43336924 Score: 217
Period size: 58 Copynumber: 2.9 Consensus size: 57
43336749 CGAATGATTA
43336759 GAGGCACTGTGTGTGCAAATTCCGTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCAAATTCC-TTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* * * **
43336817 GAGGCACTGTGTGTGCAAATTCCTTTAATCGAGCATTATGTGTGTGAGATTGGTAATT
1 GAGGCACTGTGTGTGCAAATTCC-TTAACCGAGCACTATGTGTGCGAGATCAGTAATT
* * * *
43336875 GAGGCACTATGTGTGCGAGTT-CTTCAACCAAGCACTATGTGTGCGAGATC
1 GAGGCACTGTGTGTGCAAATTCCTT-AACCGAGCACTATGTGTGCGAGATC
43336925 GGTCAGTGGG
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
56 2 0.02
57 21 0.23
58 70 0.75
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCCTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
Found at i:43336885 original size:29 final size:29
Alignment explanation
Indices: 43336791--43336889 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
43336781 CGTTAACCGA
* *
43336791 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGTGAGATTAGTAATTGAG
* ** *
43336820 GCAC--TGTGTGTGCAAATTCCTTTAATCGA-
1 GCACTATGTGTGTG-AGATT--AGTAATTGAG
* *
43336849 GCATTATGTGTGTGAGATTGGTAATTGAG
1 GCACTATGTGTGTGAGATTAGTAATTGAG
43336878 GCACTATGTGTG
1 GCACTATGTGTG
43336890 CGAGTTCTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
27 7 0.13
28 9 0.17
29 18 0.35
30 10 0.19
31 8 0.15
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (29 bp):
GCACTATGTGTGTGAGATTAGTAATTGAG
Found at i:43341453 original size:48 final size:48
Alignment explanation
Indices: 43341389--43341677 Score: 445
Period size: 48 Copynumber: 6.0 Consensus size: 48
43341379 CAAGATAAAT
* * * *
43341389 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGGAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
43341437 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43341485 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
43341533 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
43341581 ATATATATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
43341629 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTG-AATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
43341676 AT
1 AT
43341678 GTGTGTATAT
Statistics
Matches: 220, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
47 13 0.06
48 207 0.94
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:43341544 original size:96 final size:96
Alignment explanation
Indices: 43341389--43341677 Score: 490
Period size: 96 Copynumber: 3.0 Consensus size: 96
43341379 CAAGATAAAT
* * *
43341389 ATATATATGTGTGGTAAAGCTGAATGGCTAGTGTGGAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
43341454 AGCCGAATGGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAATATGAAATATGTATGAG
*
43341485 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
43341550 AGCCGAATGGCTAACATGAAATATGTATGAG
66 AGCCGAATGGCTAATATGAAATATGTATGAG
* *
43341581 ATATATATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATTTGGTAA
1 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
43341646 AGCCGAATGGCTAATGTG-AATATGTAGGAG
66 AGCCGAATGGCTAATATGAAATATGTATGAG
43341676 AT
1 AT
43341678 GTGTGTATAT
Statistics
Matches: 182, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
95 13 0.07
96 169 0.93
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (96 bp):
ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:43341868 original size:37 final size:37
Alignment explanation
Indices: 43341818--43341927 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
43341808 GGAAATATAT
43341818 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43341855 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
43341892 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
43341928 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:43344490 original size:43 final size:42
Alignment explanation
Indices: 43344420--43344569 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 42
43344410 CATAAGCTCG
* * *
43344420 TACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAAA
* * * *
43344462 TATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
* * *
43344505 TACAATGCCAATGTCCTAGACATGGTCTTACACATAAATCACAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACAC-GAAATCA-AA
*
43344549 -ATCAATGCCAACGTCCCAGAC
1 TA-CAATGCCAATGTCCCAGAC
43344570 TTCGTCTTAC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
42 28 0.32
43 40 0.46
44 19 0.22
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAAA
Found at i:43351835 original size:40 final size:40
Alignment explanation
Indices: 43351776--43351983 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
43351766 CAATTGAATG
* * * *
43351776 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
43351816 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43351856 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
43351896 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
43351936 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
43351976 ATATCCGG
1 ATATCCGG
43351984 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:43351914 original size:80 final size:80
Alignment explanation
Indices: 43351777--43351983 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
43351767 AATTGAATGA
* * ** * * *
43351777 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
43351842 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
43351855 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
43351920 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
43351937 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
43351984 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:43353788 original size:46 final size:46
Alignment explanation
Indices: 43353721--43353873 Score: 161
Period size: 46 Copynumber: 3.3 Consensus size: 46
43353711 TGTAACCCGC
43353721 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
* * *
43353767 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GAC--GTTCGCAT
* * * *
43353817 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
*
43353860 CCATAAGTGAACTC
1 CCATAAGCGAACTC
43353874 TCCCCCCCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 39 0.45
47 25 0.29
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGACGTTCGCAT
Found at i:43358173 original size:40 final size:40
Alignment explanation
Indices: 43358114--43358255 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
43358104 AAATTGAATG
* * *
43358114 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
43358154 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
43358194 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
43358234 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
43358256 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:43358256 original size:40 final size:39
Alignment explanation
Indices: 43358153--43358281 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
43358143 TGCTGGAAAT
* * *
43358153 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
43358193 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
43358233 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
43358273 TATATCCGG
1 TATATCCGG
43358282 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:43363325 original size:93 final size:93
Alignment explanation
Indices: 43363213--43363384 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
43363203 CGCCCATAAG
*
43363213 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
43363277 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
43363306 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43363371 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
43363385 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:43363376 original size:46 final size:46
Alignment explanation
Indices: 43363206--43363381 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
43363196 TGTAACCCGC
*
43363206 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
43363252 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
43363302 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
43363345 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
43363382 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 62 0.56
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43365481 original size:27 final size:27
Alignment explanation
Indices: 43365441--43365516 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
43365431 GGGCAAACAA
* *
43365441 TCATTTTACCCTACAGGGGTATGTCGG
1 TCATTTTACACTACAAGGGTATGTCGG
*
43365468 TCATTTTACACTACAAGGGTATTTCGG
1 TCATTTTACACTACAAGGGTATGTCGG
*
43365495 TAATTTTACACTACAAGGGTAT
1 TCATTTTACACTACAAGGGTAT
43365517 TTTGATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
TCATTTTACACTACAAGGGTATGTCGG
Found at i:43365517 original size:27 final size:27
Alignment explanation
Indices: 43365457--43365902 Score: 463
Period size: 27 Copynumber: 16.6 Consensus size: 27
43365447 TACCCTACAG
* * * *
43365457 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
43365484 GGGTATTTCGGTAATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* * * *
43365511 GGGTATTTTGATAA-TTTACAAATTGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365537 GGGTGTTTCGTTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
43365564 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365591 GGGTATTTTGGTAATTTTACAAATAGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
43365618 AGGTATTTTGGTAATTTTACAAATCAA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
43365645 GGGTGTTTCAGTAATTTTAAAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365672 GGGTGTTTCGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
43365699 GGGTGTTTCGGTAATTTCACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
43365726 GGGTATTTAGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* ** * *
43365753 TGGTATTTTAGTAATTTCAC-AATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365779 GGGTATTTTGGCAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365806 GGGTATTTCAGTAATTTTAC-AATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
43365832 GGGTATTTTGGTAATTTTACAAAT-TA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
43365858 GGGGTATTTCGATAATTTTACAAATCGA
1 -GGGTATTTCGGTAATTTTACAAATCGA
*
43365886 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
43365903 CTCTTTATTA
Statistics
Matches: 353, Mismatches: 60, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 61 0.17
27 291 0.82
28 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:43366263 original size:28 final size:28
Alignment explanation
Indices: 43366222--43366282 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
43366212 CCCCTTTAGG
* * *
43366222 CCCAATCTCGTTCACGTGGCCCATCAGA
1 CCCAATCACATTCACATGGCCCATCAGA
* *
43366250 CCCAATCACATTCATATGGCCCATCAGG
1 CCCAATCACATTCACATGGCCCATCAGA
43366278 CCCAA
1 CCCAA
43366283 CTACTTTCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.20
Consensus pattern (28 bp):
CCCAATCACATTCACATGGCCCATCAGA
Found at i:43371287 original size:22 final size:21
Alignment explanation
Indices: 43371257--43371339 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 21
43371247 TACAAATTAA
*
43371257 ATCTCCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
43371279 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
*
43371300 ATC-T-AAGATT--ATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
43371317 ATC-T-AAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
43371336 ATCT
1 ATCT
43371340 AAGATTGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
17 17 0.31
19 16 0.29
20 1 0.02
21 9 0.16
22 12 0.22
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:43371309 original size:19 final size:19
Alignment explanation
Indices: 43371274--43371352 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
43371264 AGATTACAAG
43371274 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
43371295 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
43371312 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
43371331 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
43371350 ATC
1 ATC
43371353 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:43371330 original size:36 final size:38
Alignment explanation
Indices: 43371274--43371345 Score: 130
Period size: 36 Copynumber: 1.9 Consensus size: 38
43371264 AGATTACAAG
43371274 ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
43371312 ATCATATC-T-AAGATTGCATATCATATCTAAGATT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATT
43371346 GCATATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTAT
Found at i:43371361 original size:36 final size:35
Alignment explanation
Indices: 43371271--43371362 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 35
43371261 CCAAGATTAC
*
43371271 AAGA-TCATAT-CTTCAAGATTGCATATCATATCT
1 AAGATTCATATCCTTAAAGATTGCATATCATATCT
* *
43371304 AAGATT-ATATCATATCTAAGATTGCATATCATATCT
1 AAGATTCATATCCT-T-AAAGATTGCATATCATATCT
43371340 AAGATTGCATATCCTTAAAGATT
1 AAGATT-CATATCCTTAAAGATT
43371363 ATATTTCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
33 8 0.16
34 2 0.04
35 1 0.02
36 31 0.63
37 1 0.02
38 6 0.12
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
AAGATTCATATCCTTAAAGATTGCATATCATATCT
Found at i:43372105 original size:206 final size:206
Alignment explanation
Indices: 43371761--43372898 Score: 1862
Period size: 206 Copynumber: 5.5 Consensus size: 206
43371751 CTATTTTCTA
* * *
43371761 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCAAC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* * * *
43371826 TATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCTA
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
* * * * * *
43371891 ATCATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCATCAAATATGGAGATGCCAAACTTCGA
131 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
43371956 TTTGTTCTCTG
196 TTTGTTCTCTG
* *
43371967 ACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGTCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* *
43372032 TATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATA
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
*
43372097 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCTAAACTTCGA
131 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
43372162 TTTGTTCTCTG
196 TTTGTTCTCTG
43372173 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* * * * *
43372238 TATGCCTTCTATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCTA
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
* * * * * *
43372303 ATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCAAATATGGAGATGACAAACTTCGA
131 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
*
43372368 TTTGTTCTCTA
196 TTTGTTCTCTG
* *
43372379 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACATGAAAGTCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* *
43372444 TATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTATA
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
*
43372509 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCTAAACTTCGA
131 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
43372574 TTTGTTCTCTG
196 TTTGTTCTCTG
*
43372585 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
* * *
43372650 TATGCCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTCGGATCTGCTTCAGTATA
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
* ** * * *
43372715 AACATATGAAGGCCAGATCTGCTATGTGCCTGCTCTCTGTCGAATATGGAGACGCCAAACTTTGA
131 AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
43372780 TTTGTTCTCTG
196 TTTGTTCTCTG
43372791 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
*
43372856 TATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
43372899 TTCTATCTTC
Statistics
Matches: 862, Mismatches: 70, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 862 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGC
TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTATA
AACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGA
TTTGTTCTCTG
Found at i:43372935 original size:44 final size:43
Alignment explanation
Indices: 43372860--43373202 Score: 273
Period size: 44 Copynumber: 7.8 Consensus size: 43
43372850 ATCAGCTATG
* * * * * *
43372860 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTTCTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
**
43372904 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* * ** * * * * *
43372947 TCTTTGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTA
1 TC-TTCAACTTGTTCCCTATAAACACAGGGATGCCA-ATCTGCTA
* *
43372992 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTA
**
43373036 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
**
43373079 TCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTA
* * * * *
43373122 TCTTCGA-TCTGCTTCACTGTAAGCACA-GGAGTGTCAGATCTGCTA
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGCTA
* * *
43373167 TCTTCGATTTGTTCCCTATAAATACAGGGATGCCAA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
43373203 ATCTTATTTC
Statistics
Matches: 240, Mismatches: 46, Indels: 27
0.77 0.15 0.09
Matches are distributed among these distances:
42 5 0.02
43 64 0.27
44 143 0.60
45 23 0.10
46 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (43 bp):
TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGCTA
Found at i:43373025 original size:88 final size:88
Alignment explanation
Indices: 43372876--43373201 Score: 365
Period size: 88 Copynumber: 3.7 Consensus size: 88
43372866 ATTTGTTCCT
* * *
43372876 TGTAAGCACAAGG-ATGCCAAATCTTCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
1 TGTAAGCAC-AGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
43372940 GCTGAAATCTTTGATCTACTTCAC
65 GCTGAAATCTTTGATCTACTTCAC
* *
43372964 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAA
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC--A
** * * ** *
43373029 T-CTGCTATC-TTCAACTTGTTCCC
64 TGCTGAAATCTTTGATCTACTTCAC
* * * * **
43373052 TATAAACACAGGGATG-C-CATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
1 TGTAAGCACAGGAATGTCAGAT-CTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAT
* *
43373115 GCTGAAATCTTCGATCTGCTTCAC
65 GCTGAAATCTTTGATCTACTTCAC
* * * *
43373139 TGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAATACAGGGATGCCA
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
43373202 AATCTTATTT
Statistics
Matches: 192, Mismatches: 38, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
85 2 0.01
86 8 0.04
87 60 0.31
88 112 0.58
89 8 0.04
90 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (88 bp):
TGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATG
CTGAAATCTTTGATCTACTTCAC
Found at i:43374083 original size:23 final size:23
Alignment explanation
Indices: 43374053--43374112 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
43374043 GGCCTCTCCA
43374053 TTTTTCTTTTTTCATTTGTCTC-T
1 TTTTTCTTTTTT-ATTTGTCTCTT
* *
43374076 TTTTTCTTTTTATTTTTTTCTCTT
1 TTTTTCTTTTT-TATTTGTCTCTT
43374100 TTTTTCCTTTTTT
1 TTTTT-CTTTTTT
43374113 TTGAAATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 18 0.56
24 8 0.25
25 6 0.19
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTTTATTTGTCTCTT
Found at i:43378535 original size:48 final size:48
Alignment explanation
Indices: 43378310--43378825 Score: 468
Period size: 48 Copynumber: 11.0 Consensus size: 48
43378300 GACCATGACA
* *
43378310 ATATGTGATATGTGATTTCTGTATAAGACCATAGCTGGGCTATGGCATCGG
1 ATATGTGATATGTGA--TCCGTGTAAGACCATAGCTGGGCTATGGCATC-G
* * * * * *
43378361 AAAGATGTGATTATGTGCTTGCGTATAAGACCATATCTGGGATATGGCATCG
1 --ATATGTGA-TATGTG-ATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * * * * ** * *
43378413 --GTGTGATATATGCTACTGTATAAGACCATATTTGGGATATGACATC-
1 ATATGTGATATGTGAT-CCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * *
43378459 A-GTGAGATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
43378506 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
*
43378554 ATATGTGATATGTGATCCGTGTAAGACCATAGTTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
43378602 ATATGTGATATGTTATCTGTGTAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
43378650 ATATGTGATATGTGATTACGTGTAAGACCATAGCTTGGCTATGGCATCG
1 ATATGTGATATGTGA-TCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * *
43378699 ATATATGA-A--T-AT--GTGTAAGACCATAGTTGGACTATGGCATC-
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
43378740 ATTATGTGA-A---GAT--GTGTAAGGCCATAGCTGGACTATGGCATC-
1 A-TATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* **
43378782 ATTATGTGA-A---GAT--GTGTAAGACCATAGTTGAACTATGGCATCG
1 A-TATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
43378825 A
1 A
43378826 GAAAACGAAG
Statistics
Matches: 409, Mismatches: 44, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.00
42 101 0.25
43 1 0.00
44 1 0.00
45 1 0.00
46 26 0.06
47 44 0.11
48 155 0.38
49 37 0.09
52 1 0.00
53 35 0.09
54 6 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
Found at i:43378715 original size:42 final size:42
Alignment explanation
Indices: 43378669--43378823 Score: 233
Period size: 42 Copynumber: 3.7 Consensus size: 42
43378659 ATGTGATTAC
* *
43378669 GTGTAAGACCATAGCTTGG-CTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAG-TTGGACTATGGCATC-ATTATGTGAAGAT
43378711 GTGTAAGACCATAGTTGGACTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGACTATGGCATCATTATGTGAAGAT
* *
43378753 GTGTAAGGCCATAGCTGGACTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGACTATGGCATCATTATGTGAAGAT
*
43378795 GTGTAAGACCATAGTTGAACTATGGCATC
1 GTGTAAGACCATAGTTGGACTATGGCATC
43378824 GAGAAAACGA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
41 5 0.05
42 99 0.95
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGACTATGGCATCATTATGTGAAGAT
Found at i:43379547 original size:22 final size:26
Alignment explanation
Indices: 43379503--43379554 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
43379493 AAATTGATTC
43379503 ATAAATGTATTAAAATGTTGGTG-GAA
1 ATAAATGTATTAAAATG-TGGTGAGAA
43379529 ATAAATG-ATT-AAATG-GGTGAGAA
1 ATAAATGTATTAAAATGTGGTGAGAA
43379552 ATA
1 ATA
43379555 TGGCTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.16
23 6 0.24
24 5 0.20
25 3 0.12
26 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
ATAAATGTATTAAAATGTGGTGAGAA
Found at i:43392996 original size:30 final size:28
Alignment explanation
Indices: 43392941--43393002 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
43392931 ATTACTTAAT
43392941 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
43392969 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCT-TTTACTT-AATAATAAA
43392999 TAAT
1 TAAT
43393003 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:43399029 original size:39 final size:39
Alignment explanation
Indices: 43398981--43399127 Score: 195
Period size: 39 Copynumber: 3.8 Consensus size: 39
43398971 ATTTAATCAA
* *
43398981 TAACAATCAATTATTCAGTACAGTAATTTAGTCATTTAG
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTTAG
* * * * * *
43399020 TAACTATCAAATATTCAGTGCAGTAGTTTATTTATTCAA
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTTAG
* *
43399059 TAACTATCAATTATTTAATACAGTAATTTAGTTATTTAG
1 TAACTATCAATTATTCAGTACAGTAATTTAGTTATTTAG
*
43399098 TAACTATCAATTATTCAGTACAGTAGTTTA
1 TAACTATCAATTATTCAGTACAGTAATTTA
43399128 CCCCGATTAA
Statistics
Matches: 89, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (39 bp):
TAACTATCAATTATTCAGTACAGTAATTTAGTTATTTAG
Found at i:43399068 original size:78 final size:78
Alignment explanation
Indices: 43398970--43399127 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 78
43398960 ATTCTAATCA
*
43398970 TATTTAATCAATAACAATCAATTATTCAGTACAGTAATTTAGTCATTTAGTAACTATCAAATATT
1 TATTTAATCAATAACAATCAATTATTCAATACAGTAATTTAGTCATTTAGTAACTATCAAATATT
*
43399035 CAGTGCAGTAGTT
66 CAGTACAGTAGTT
* * * * *
43399048 TATTTATTCAATAACTATCAATTATTTAATACAGTAATTTAGTTATTTAGTAACTATCAATTATT
1 TATTTAATCAATAACAATCAATTATTCAATACAGTAATTTAGTCATTTAGTAACTATCAAATATT
43399113 CAGTACAGTAGTT
66 CAGTACAGTAGTT
43399126 TA
1 TA
43399128 CCCCGATTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (78 bp):
TATTTAATCAATAACAATCAATTATTCAATACAGTAATTTAGTCATTTAGTAACTATCAAATATT
CAGTACAGTAGTT
Found at i:43399078 original size:18 final size:18
Alignment explanation
Indices: 43399051--43399112 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
43399041 AGTAGTTTAT
*
43399051 TTATTCAATAACTATCAA
1 TTATTTAATAACTATCAA
* * *
43399069 TTATTTAATACAGTAATTTAG
1 TTATTTAATA-ACT-A-TCAA
*
43399090 TTATTTAGTAACTATCAA
1 TTATTTAATAACTATCAA
43399108 TTATT
1 TTATT
43399113 CAGTACAGTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 16 0.48
19 3 0.09
20 3 0.09
21 11 0.33
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (18 bp):
TTATTTAATAACTATCAA
Found at i:43400662 original size:37 final size:37
Alignment explanation
Indices: 43400612--43400702 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
43400602 TTATTACGAA
43400612 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
43400649 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43400686 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43400703 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43400800 original size:48 final size:48
Alignment explanation
Indices: 43400742--43400845 Score: 199
Period size: 48 Copynumber: 2.2 Consensus size: 48
43400732 TGTTACAACA
43400742 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
*
43400790 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
43400838 TTCACATT
1 TTCACATT
43400846 CATCACATCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
Found at i:43400894 original size:49 final size:49
Alignment explanation
Indices: 43400837--43401219 Score: 648
Period size: 49 Copynumber: 7.9 Consensus size: 49
43400827 CACACATATA
*
43400837 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
43400886 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43400933 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43400982 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43401029 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43401078 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43401127 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
43401176 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
43401220 CATCTCATAC
Statistics
Matches: 318, Mismatches: 12, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
47 89 0.28
49 229 0.72
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:43400938 original size:96 final size:96
Alignment explanation
Indices: 43400837--43401220 Score: 696
Period size: 96 Copynumber: 4.0 Consensus size: 96
43400827 CACACATATA
* * *
43400837 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
43400902 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
43400933 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
43400998 TTGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACTC
43401029 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
43401094 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA--TATATACTC
43401127 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
*
43401192 TTGGCCATTAGGCCGTATCACATATATAC
66 TTGGCCATTAGGCCTTATCACATATATAC
43401221 ATCTCATACA
Statistics
Matches: 280, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
96 186 0.66
98 94 0.34
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACTC
Found at i:43400991 original size:145 final size:145
Alignment explanation
Indices: 43400837--43401221 Score: 675
Period size: 145 Copynumber: 2.7 Consensus size: 145
43400827 CACACATATA
* *
43400837 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
43400902 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
43400967 CACATGTATATACAC
131 CACATGTATATACAC
*
43400982 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
43401045 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
43401110 ATCACATGTATATACAC
129 ATCACATGTATATACAC
*
43401127 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
43401192 TTGGCCATTAGGCCGTATCACATATATACA
66 TTGGCCATTAGGCCTTATCACATATATACA
43401222 TCTCATACAT
Statistics
Matches: 228, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
143 45 0.20
145 138 0.61
147 45 0.20
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (145 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATGTATATACAC
Found at i:43404857 original size:30 final size:28
Alignment explanation
Indices: 43404802--43404863 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
43404792 ATTATTTAAT
43404802 TAATAAATATCTTTTACTTAATAATAAA
1 TAATAAATATCTTTTACTTAATAATAAA
*
43404830 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCT-TTTACTT-AATAATAAA
43404860 TAAT
1 TAAT
43404864 TTAAATCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATAAATATCTTTTACTTAATAATAAA
Found at i:43404978 original size:19 final size:19
Alignment explanation
Indices: 43404956--43405019 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
43404946 ATATTTCATT
*
43404956 AATTTAATAAGATAATATC
1 AATTAAATAAGATAATATC
*
43404975 AATTAAAT-A-ATAAT-TT
1 AATTAAATAAGATAATATC
*
43404991 ATACT-AATAAGATAATATC
1 A-ATTAAATAAGATAATATC
43405010 AATTAAATAA
1 AATTAAATAA
43405020 TAATTTATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
16 5 0.14
17 8 0.23
18 8 0.23
19 14 0.40
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (19 bp):
AATTAAATAAGATAATATC
Found at i:43405006 original size:35 final size:35
Alignment explanation
Indices: 43404960--43405031 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
43404950 TTCATTAATT
43404960 TAATAAGATAATATCAATTAAATAATAATTTATAC
1 TAATAAGATAATATCAATTAAATAATAATTTATAC
43404995 TAATAAGATAATATCAATTAAATAATAATTTATAC
1 TAATAAGATAATATCAATTAAATAATAATTTATAC
43405030 TA
1 TA
43405032 TTATATTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (35 bp):
TAATAAGATAATATCAATTAAATAATAATTTATAC
Found at i:43406415 original size:21 final size:23
Alignment explanation
Indices: 43406382--43406445 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 23
43406372 GTGGGGGTCT
*
43406382 ACACGCCCATGT-GA-AGGCCAC
1 ACACGCCCATGTGGAGAGGACAC
* *
43406403 ACACTCCCGTGTGGAGAGGACAC
1 ACACGCCCATGTGGAGAGGACAC
* *
43406426 ACA--CCCATATAGAGAGGACA
1 ACACGCCCATGTGGAGAGGACA
43406446 TATGCCCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 24 0.69
22 2 0.06
23 9 0.26
ACGTcount: A:0.33, C:0.31, G:0.25, T:0.11
Consensus pattern (23 bp):
ACACGCCCATGTGGAGAGGACAC
Found at i:43412813 original size:93 final size:93
Alignment explanation
Indices: 43412701--43412873 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
43412691 CGCCCATAAG
* *
43412701 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43412766 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
43412794 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43412859 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
43412874 CAAATATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:43412869 original size:46 final size:46
Alignment explanation
Indices: 43412694--43412869 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
43412684 TGTAACCCGC
* * *
43412694 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43412740 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
43412786 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43412833 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43412870 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43412888 original size:46 final size:44
Alignment explanation
Indices: 43412702--43412888 Score: 121
Period size: 46 Copynumber: 4.0 Consensus size: 44
43412692 GCCCATAAGC
* ** ** **
43412702 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T-AGT
* * *
43412748 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CTAGT
* *
43412795 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T-AGT
43412841 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCTAGT
43412887 GA
1 GA
43412889 CATGTCATTT
Statistics
Matches: 111, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 62 0.56
47 28 0.25
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCTAGT
Found at i:43415924 original size:40 final size:40
Alignment explanation
Indices: 43415866--43416033 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
43415856 CAATTGAATG
* *
43415866 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
43415907 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
43415946 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
43415986 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
43416026 ATATCCGG
1 ATATCCGG
43416034 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:43416004 original size:80 final size:79
Alignment explanation
Indices: 43415866--43416033 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
43415856 CAATTGAATG
* * *
43415866 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
43415931 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
43415946 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
43416010 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
43416026 ATATCCGG
1 ATATCCGG
43416034 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:43423934 original size:40 final size:40
Alignment explanation
Indices: 43423876--43424043 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
43423866 CAATTGAATG
* *
43423876 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
43423917 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
43423956 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
43423996 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
43424036 ATATCCGG
1 ATATCCGG
43424044 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:43424014 original size:80 final size:79
Alignment explanation
Indices: 43423876--43424043 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
43423866 CAATTGAATG
* * *
43423876 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
43423941 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
43423956 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
43424020 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
43424036 ATATCCGG
1 ATATCCGG
43424044 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:43426523 original size:9 final size:8
Alignment explanation
Indices: 43426504--43426573 Score: 50
Period size: 9 Copynumber: 8.1 Consensus size: 8
43426494 TTATGTATTC
43426504 TTTTAAAT
1 TTTTAAAT
43426512 TTTTATAAT
1 TTTTA-AAT
43426521 TTTTAAAAT
1 TTTT-AAAT
* * *
43426530 ATATAAGT
1 TTTTAAAT
*
43426538 TTTGAAATT
1 TTTTAAA-T
43426547 TTTATAAAT
1 TTT-TAAAT
43426556 ATTTTAAAT
1 -TTTTAAAT
*
43426565 TTTAAAAT
1 TTTTAAAT
43426573 T
1 T
43426574 ATTTCAAAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
8 19 0.40
9 22 0.46
10 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (8 bp):
TTTTAAAT
Found at i:43426567 original size:18 final size:17
Alignment explanation
Indices: 43426504--43426573 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
43426494 TTATGTATTC
43426504 TTTTAAATTTT-TATAAT
1 TTTTAAATTTTATA-AAT
* * *
43426521 TTTTAAAATATATAAGT
1 TTTTAAATTTTATAAAT
*
43426538 TTTGAAATTTTTATAAAT
1 TTTTAAA-TTTTATAAAT
43426556 ATTTTAAATTTTA-AAAT
1 -TTTTAAATTTTATAAAT
43426573 T
1 T
43426574 ATTTCAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 21 0.50
18 14 0.33
19 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTAAATTTTATAAAT
Found at i:43428104 original size:9 final size:9
Alignment explanation
Indices: 43428090--43428135 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
43428080 TATAGTTTGA
43428090 TATTCGAAT
1 TATTCGAAT
43428099 TATTCGAAT
1 TATTCGAAT
*
43428108 TATTCGAGT
1 TATTCGAAT
*
43428117 TATTCGAGT
1 TATTCGAAT
43428126 TATTCGAAT
1 TATTCGAAT
43428135 T
1 T
43428136 TGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:43428201 original size:9 final size:9
Alignment explanation
Indices: 43428187--43428219 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
43428177 ATTCGAGTTG
43428187 ACTCGAATA
1 ACTCGAATA
43428196 ACTCGAATA
1 ACTCGAATA
43428205 ACTCGAATA
1 ACTCGAATA
43428214 ACTCGA
1 ACTCGA
43428220 TTCGTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.21
Consensus pattern (9 bp):
ACTCGAATA
Found at i:43433205 original size:33 final size:33
Alignment explanation
Indices: 43433163--43433230 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
43433153 TCAGTTGACA
43433163 AATCCTCCTTATTTATTAAGTAATGGCTACTGG
1 AATCCTCCTTATTTATTAAGTAATGGCTACTGG
43433196 AATCCTCCTTATTTATTAAGTAATGGCTACTGG
1 AATCCTCCTTATTTATTAAGTAATGGCTACTGG
43433229 AA
1 AA
43433231 ATGCTAAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (33 bp):
AATCCTCCTTATTTATTAAGTAATGGCTACTGG
Found at i:43437748 original size:51 final size:50
Alignment explanation
Indices: 43437660--43437758 Score: 112
Period size: 51 Copynumber: 2.0 Consensus size: 50
43437650 ATATTCTTTG
* * * **
43437660 AATTTTTTAGAATTTGATCAAATTGATAACATTTGTAAATTTTGAGGGTT
1 AATTTTTTAAAATTTGATCAAATCGATAACATATGTAAAAGTTGAGGGTT
43437710 AATTTTTTAAAATTATGA-CTAAATCGATATA-ATATGTAAAAGTTGAGGG
1 AATTTTTTAAAATT-TGATC-AAATCGATA-ACATATGTAAAAGTTGAGGG
43437759 CTAAATTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
50 14 0.34
51 26 0.63
52 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.41
Consensus pattern (50 bp):
AATTTTTTAAAATTTGATCAAATCGATAACATATGTAAAAGTTGAGGGTT
Found at i:43449968 original size:19 final size:19
Alignment explanation
Indices: 43449944--43449987 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
43449934 ATAATCATAC
43449944 TAAAGCAATTAAAAATAAT
1 TAAAGCAATTAAAAATAAT
43449963 TAAAGCAATTAAAAATAAT
1 TAAAGCAATTAAAAATAAT
43449982 TAAAGC
1 TAAAGC
43449988 GGCCTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (19 bp):
TAAAGCAATTAAAAATAAT
Found at i:43450400 original size:20 final size:20
Alignment explanation
Indices: 43450375--43450420 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
43450365 ATTGGGTCTT
43450375 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
43450395 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
43450414 GCCCATA
1 GCCCATA
43450421 ACAAAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:43453354 original size:16 final size:17
Alignment explanation
Indices: 43453324--43453374 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
43453314 ATCAAACTTT
**
43453324 TTTTTTTTCACTTTTC-
1 TTTTTTTTCTTTTTTCA
43453340 TTTTTTTTCTTTTTTCGAA
1 TTTTTTTTCTTTTTTC--A
43453359 TTATTTTTTCTTTTTT
1 TT-TTTTTTCTTTTTT
43453375 TTGTGCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.48
19 2 0.07
20 13 0.45
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTCA
Found at i:43453383 original size:12 final size:11
Alignment explanation
Indices: 43453362--43453400 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
43453352 TTTCGAATTA
43453362 TTTTT-TCTTT
1 TTTTTGTCTTT
43453372 TTTTTGTGCTTT
1 TTTTTGT-CTTT
43453384 TTTTTGTCTCTT
1 TTTTTGTCT-TT
43453396 TTTTT
1 TTTTT
43453401 TTTTGAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.19
11 3 0.12
12 18 0.69
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTTTTGTCTTT
Found at i:43460801 original size:35 final size:35
Alignment explanation
Indices: 43460762--43460832 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
43460752 TGTCGTGCCC
* *
43460762 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGCGACAGAATA
43460797 AGCGTCGTGCCCACGACTCCAACCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGCGACAGAATA
43460832 A
1 A
43460833 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.35, G:0.24, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGCGACAGAATA
Found at i:43464411 original size:26 final size:26
Alignment explanation
Indices: 43464363--43464412 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
43464353 TACATTTAAT
43464363 TTTTAAAATAATTTATATATAATTCA
1 TTTTAAAATAATTTATATATAATTCA
43464389 TTTTACAAATAATTTATAT-TAATT
1 TTTTA-AAATAATTTATATATAATT
43464413 ACTCAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTAAAATAATTTATATATAATTCA
Found at i:43469022 original size:23 final size:24
Alignment explanation
Indices: 43468996--43469070 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 24
43468986 ATCATTTTAT
43468996 ATTACA-TGAAATAAAAATAATTA
1 ATTACATTGAAATAAAAATAATTA
* *
43469019 ATTACATTAAAATAAAGTTACATAATCA
1 ATTACATTGAAATAAA---A-ATAATTA
*
43469047 ATTAAATTGAAAT-AAAATAATTA
1 ATTACATTGAAATAAAAATAATTA
43469070 A
1 A
43469071 AGACAATTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
23 13 0.31
24 9 0.21
27 3 0.07
28 17 0.40
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (24 bp):
ATTACATTGAAATAAAAATAATTA
Found at i:43484556 original size:22 final size:22
Alignment explanation
Indices: 43484526--43484574 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
43484516 AAGTGGGGGG
*
43484526 TTGAAATGGTAAGTATGCATGA
1 TTGATATGGTAAGTATGCATGA
43484548 TTGATATGGTAAGTATGCATGA
1 TTGATATGGTAAGTATGCATGA
43484570 TTGAT
1 TTGAT
43484575 CGATTTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.37
Consensus pattern (22 bp):
TTGATATGGTAAGTATGCATGA
Found at i:43484807 original size:4 final size:4
Alignment explanation
Indices: 43484798--43484842 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
43484788 TTGCTTATAC
*
43484798 ATAA ATAA ATCA ATATA A-AA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
43484843 GACTCAAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 33 0.89
5 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:43486136 original size:13 final size:13
Alignment explanation
Indices: 43486103--43486143 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
43486093 TTTTATACTA
*
43486103 TTTCAATTTTT-T
1 TTTCCATTTTTCT
43486115 TTTCC-TTTTTCT
1 TTTCCATTTTTCT
*
43486127 TTTCCATTTTTCC
1 TTTCCATTTTTCT
43486140 TTTC
1 TTTC
43486144 TTCTTCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 10 0.40
13 10 0.40
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCCATTTTTCT
Found at i:43486136 original size:19 final size:19
Alignment explanation
Indices: 43486113--43486162 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
43486103 TTTCAATTTT
*
43486113 TTTTTCCTTTTTCTTTTCCA
1 TTTTTCCTTTTTCTTCT-CA
43486133 TTTTTCCTTTCTTCTTCTCA
1 TTTTTCCTTT-TTCTTCTCA
*
43486153 -ATTTCCTTTT
1 TTTTTCCTTTT
43486163 CTTGCTCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 8 0.30
20 12 0.44
21 6 0.22
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTCCTTTTTCTTCTCA
Found at i:43486156 original size:21 final size:20
Alignment explanation
Indices: 43486113--43486156 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
43486103 TTTCAATTTT
* *
43486113 TTTTTCCTTTTTCTTTTCCA
1 TTTTTCCTTTTTCTTCTCAA
43486133 TTTTTCCTTTCTTCTTCTCAA
1 TTTTTCCTTT-TTCTTCTCAA
43486154 TTT
1 TTT
43486157 CCTTTTCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCCTTTTTCTTCTCAA
Found at i:43494347 original size:40 final size:40
Alignment explanation
Indices: 43494269--43494347 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
43494259 ACCTTTAAAC
* * *
43494269 ATCAGTTGGTAGCATAGGTCCACGAGCTGTGTCGGAGTTT
1 ATCAGTTGGGAGCATAGGTCCACGAGCTATGTCAGAGTTT
* ** *
43494309 ATCAGTTGGGAGCGTAGGTCCGTGAGCTATTTCAGAGTT
1 ATCAGTTGGGAGCATAGGTCCACGAGCTATGTCAGAGTT
43494348 GTGAGCTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.30
Consensus pattern (40 bp):
ATCAGTTGGGAGCATAGGTCCACGAGCTATGTCAGAGTTT
Found at i:43494492 original size:144 final size:143
Alignment explanation
Indices: 43494224--43494719 Score: 534
Period size: 144 Copynumber: 3.5 Consensus size: 143
43494214 CAAGCTTAAT
* * * *
43494224 TCAAATAAATGAAGGCTGTAAACATAACTCAACTAACCTTTAAACATC-AGTTGGTAGCATAGGT
1 TCAAATAAATGAAGGCTGTGAGCATAACTCAACTAACCTTTAAACATCAACTAGG-AGCATAGGT
* * * *
43494288 CCACGAGCTGTGTCGGAGTTTATCAGTTGGGAGCGTAGGTCCGTGAGCTATTTCAGAGTTGTGAG
65 CCACGAGCTGTGTCGAAGTTTATCAG-TAGGAGCGTAGGTCTGTGAGCTGTTTCAGAGTTGTGAG
**
43494353 CTTAACTCAACTCCC
129 CTTAACTCAACTAAC
* * * *
43494368 TCAAATAAATGAAGGTTGTGAGCATAACTCAACTAACCTTTAAACATGAACTAGAAGTATAGGTC
1 TCAAATAAATGAAGGCTGTGAGCATAACTCAACTAACCTTTAAACATCAACTAGGAGCATAGGTC
* * * * * *
43494433 CATGAGCTGTGTCGAAGTTTATTAGCTAGGAGTGTAAGTCTGTAAGCTGTTTC-GAAGTTGTGAA
66 CACGAGCTGTGTCGAAGTTTATCAG-TAGGAGCGTAGGTCTGTGAGCTGTTTCAG-AGTTGTGAG
*
43494497 CTTAAC-CTAGCTAAC
129 CTTAACTC-AACTAAC
* * * * *
43494512 TAAAATAAATGAAGGTTGTGAGCATAACTTAGCTAACCTTTAAACATCAACTAGGACCATAGGT-
1 TCAAATAAATGAAGGCTGTGAGCATAACTCAACTAACCTTTAAACATCAACTAGGAGCATAGGTC
* * * ** ***
43494576 CACGAGCTTTGT-TAGAGTTTATCAGTTGGTAGCGTAGGTCTACGAGCTGTTTCAGAGTTACAAG
66 CACGAGCTGTGTCGA-AGTTTATCAGTAGG-AGCGTAGGTCTGTGAGCTGTTTCAGAGTTGTGAG
* *
43494640 CTTAAATTAACTAAC
129 CTTAACTCAACTAAC
* * * *
43494655 TCAAATAAATAAAGGCTGTGAGCATAACTCAGCTAACCTTTAAACATTAGCTAGGAGCATAGGTC
1 TCAAATAAATGAAGGCTGTGAGCATAACTCAACTAACCTTTAAACATCAACTAGGAGCATAGGTC
43494720 TGCAAGCTAT
Statistics
Matches: 291, Mismatches: 53, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
142 4 0.01
143 112 0.38
144 172 0.59
145 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (143 bp):
TCAAATAAATGAAGGCTGTGAGCATAACTCAACTAACCTTTAAACATCAACTAGGAGCATAGGTC
CACGAGCTGTGTCGAAGTTTATCAGTAGGAGCGTAGGTCTGTGAGCTGTTTCAGAGTTGTGAGCT
TAACTCAACTAAC
Found at i:43498261 original size:26 final size:27
Alignment explanation
Indices: 43498225--43498277 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43498215 TGTCAGCTAG
* *
43498225 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
43498251 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
43498278 CAGAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:43499603 original size:48 final size:47
Alignment explanation
Indices: 43499539--43499685 Score: 213
Period size: 48 Copynumber: 3.1 Consensus size: 47
43499529 TTGATGTACA
43499539 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGT-AAATATGTATG
*
43499587 AGATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGT-AAATATGTATG
** ** * *
43499635 AGCCATGCATATGTGGTAAAGCCAAATGGTTAATGTAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAATATGTATG
43499682 AGAT
1 AGAT
43499686 GTGTATATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 13 0.15
48 75 0.85
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (47 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAATATGTATG
Found at i:43505397 original size:24 final size:24
Alignment explanation
Indices: 43505365--43505414 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
43505355 TGGAGTTTGT
43505365 CAAATTTTCTTTTATACAATTGAG
1 CAAATTTTCTTTTATACAATTGAG
*
43505389 CAAATTTTCTTTTATCCAATTGAG
1 CAAATTTTCTTTTATACAATTGAG
43505413 CA
1 CA
43505415 TCCTCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (24 bp):
CAAATTTTCTTTTATACAATTGAG
Found at i:43507887 original size:46 final size:46
Alignment explanation
Indices: 43507741--43507910 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
43507731 GGTTGAGCAT
* *
43507741 CCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
43507786 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
43507831 ATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
43507878 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43507911 GGGGGGTTAC
Statistics
Matches: 105, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 32 0.30
46 54 0.51
47 6 0.06
49 4 0.04
50 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:43507894 original size:92 final size:92
Alignment explanation
Indices: 43507737--43507905 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
43507727 GGATGGTTGA
* *
43507737 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
43507802 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
43507829 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
43507893 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
43507906 ACTTAGGGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 27 0.37
92 46 0.63
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43508808 original size:20 final size:20
Alignment explanation
Indices: 43508771--43508813 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
43508761 CTGTTCTGAC
* *
43508771 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
43508791 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
43508811 TTT
1 TTT
43508814 CTTTATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:43512592 original size:40 final size:39
Alignment explanation
Indices: 43512506--43512689 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
43512496 AAATTGAATG
* * * * *
43512506 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
43512546 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
43512586 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
43512626 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
43512665 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43512690 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:43518238 original size:28 final size:28
Alignment explanation
Indices: 43518207--43518271 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
43518197 TCCAAAGTTC
*
43518207 GTATTAAATGCTGTTTTGATGAATGTAT
1 GTATTAAATGCTATTTTGATGAATGTAT
43518235 GTATTAAATGCTATTTTGATGAATGTAT
1 GTATTAAATGCTATTTTGATGAATGTAT
43518263 GTATTAAAT
1 GTATTAAAT
43518272 AAGATTAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.46
Consensus pattern (28 bp):
GTATTAAATGCTATTTTGATGAATGTAT
Found at i:43532062 original size:12 final size:13
Alignment explanation
Indices: 43532045--43532094 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
43532035 ATCAAAGAAA
43532045 AATAA-AATAAAT
1 AATAATAATAAAT
*
43532057 AATAA-AGTAAAT
1 AATAATAATAAAT
43532069 AATAATAATGATAAT
1 AATAATAAT-A-AAT
43532084 AATAATAATAA
1 AATAATAATAA
43532095 TGACAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 16 0.48
13 3 0.09
14 2 0.06
15 12 0.36
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:43532072 original size:3 final size:3
Alignment explanation
Indices: 43532045--43532095 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
43532035 ATCAAAGAAA
* *
43532045 AAT AA- AAT AAAT AAT AA- AGT AAAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
43532090 AAT AAT
1 AAT AAT
43532096 GACAAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 3 0.08
3 32 0.80
4 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:43532161 original size:4 final size:4
Alignment explanation
Indices: 43532152--43532188 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
43532142 AAAGACAAAG
* *
43532152 AAAT AAAT AAAT AAAT AAAT AAAT ACAT AAAT GAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
43532189 TTGAGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:43532360 original size:3 final size:3
Alignment explanation
Indices: 43532352--43532394 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
43532342 GACAGTTTTA
43532352 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
43532395 TAAGCTAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:43533288 original size:32 final size:30
Alignment explanation
Indices: 43533231--43533295 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
43533221 TGTCTTCCTC
** *
43533231 TTTTGATTTTTTTTTCGTCTTTATTTCTCTAT
1 TTTTGATTGCTTTTTCGTCTCTATTT-TCT-T
*
43533263 TTTTGATTGCTTTTTCGTGTCTATTTTCTT
1 TTTTGATTGCTTTTTCGTCTCTATTTTCTT
43533293 TTT
1 TTT
43533296 AAAAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.14
31 3 0.10
32 22 0.76
ACGTcount: A:0.08, C:0.12, G:0.09, T:0.71
Consensus pattern (30 bp):
TTTTGATTGCTTTTTCGTCTCTATTTTCTT
Found at i:43534054 original size:44 final size:44
Alignment explanation
Indices: 43533959--43534071 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 44
43533949 GAATTAGTGT
* * *
43533959 TTCAATCTACTCCACTGTAACTTCAGGGAGATTAGACTTATAGC
1 TTCAATCTACTCCATTGTAACTTCAGGGAGATGAGACTCATAGC
* * * * * *
43534003 TTTAATCTGCTCCATTGCAACTTTAGGGAGATGAGACTCGTATC
1 TTCAATCTACTCCATTGTAACTTCAGGGAGATGAGACTCATAGC
* *
43534047 TTCAATCTTCTTCATTGTAACTTCA
1 TTCAATCTACTCCATTGTAACTTCA
43534072 AGAAGATAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (44 bp):
TTCAATCTACTCCATTGTAACTTCAGGGAGATGAGACTCATAGC
Found at i:43534235 original size:43 final size:44
Alignment explanation
Indices: 43534170--43534268 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 44
43534160 CAATTTCAGG
* *
43534170 GAGATAAGATTTTTAACCTCAACCTACTCCACTAAAAATTC-AA
1 GAGATAAGGTTTGTAACCTCAACCTACTCCACTAAAAATTCAAA
* * * *
43534213 GAGATAAGGTTTGTAACTTCAACCTGCTCCACTACAACTTCAAA
1 GAGATAAGGTTTGTAACCTCAACCTACTCCACTAAAAATTCAAA
43534257 GAGATAAGGTTT
1 GAGATAAGGTTT
43534269 ATAGCTTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 35 0.71
44 14 0.29
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.28
Consensus pattern (44 bp):
GAGATAAGGTTTGTAACCTCAACCTACTCCACTAAAAATTCAAA
Found at i:43534284 original size:44 final size:44
Alignment explanation
Indices: 43534170--43534400 Score: 196
Period size: 44 Copynumber: 5.2 Consensus size: 44
43534160 CAATTTCAGG
* * * * * * *
43534170 GAGATAAGATTTTTAACCTCAACCTACTCCACTAAAAATTC-AA
1 GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAA
* * *
43534213 GAGATAAGGTTTGTAACTTCAACCTGCTCCACTACAACTTCAAA
1 GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAA
* * * * ** * *
43534257 GAGATAAGGTTTATAGCTTTAATCTGCTCTACCGCAACTTTAGA
1 GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAA
* * *
43534301 GAGATAAGATTTGCTATCTTCAATCTGCTCCACTATAACTTCAAG
1 GAGATAAGATTTG-TAGCTTCAATCTGCTCCACTACAACTTCAAA
* * * **
43534346 GAGATAAGATTTGTGGCCTT-AATCTGTTCCACTACAACTTTAGG
1 GAGATAAGATTTGTAG-CTTCAATCTGCTCCACTACAACTTCAAA
43534390 GAGATAAGATT
1 GAGATAAGATT
43534401 CACCACGATG
Statistics
Matches: 153, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
43 35 0.23
44 80 0.52
45 38 0.25
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (44 bp):
GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAA
Found at i:43534331 original size:89 final size:88
Alignment explanation
Indices: 43534212--43534400 Score: 243
Period size: 89 Copynumber: 2.1 Consensus size: 88
43534202 TAAAAATTCA
* * *
43534212 AGAGATAAGGTTTGTAACTTCAACCTGCTCCACTACAACTTCAAAGAGATAAGGTTTATAGCTTT
1 AGAGATAAGATTTGTAACTTCAACCTGCTCCACTACAACTTCAAAGAGATAAGATTTATAGCCTT
* *
43534277 AATCTGCTCTACCGCAACTTTAG
66 AATCTGCTCCACCACAACTTTAG
* * * * * *
43534300 AGAGATAAGATTTGCTATCTTCAATCTGCTCCACTATAACTTCAAGGAGATAAGATTTGTGGCCT
1 AGAGATAAGATTTG-TAACTTCAACCTGCTCCACTACAACTTCAAAGAGATAAGATTTATAGCCT
* *
43534365 TAATCTGTTCCACTACAACTTTAG
65 TAATCTGCTCCACCACAACTTTAG
*
43534389 GGAGATAAGATT
1 AGAGATAAGATT
43534401 CACCACGATG
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
88 13 0.15
89 73 0.85
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (88 bp):
AGAGATAAGATTTGTAACTTCAACCTGCTCCACTACAACTTCAAAGAGATAAGATTTATAGCCTT
AATCTGCTCCACCACAACTTTAG
Found at i:43542467 original size:19 final size:20
Alignment explanation
Indices: 43542443--43542487 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
43542433 TTTATGAACT
*
43542443 TAATGCATAT-GATAAAATG
1 TAATGCAGATGGATAAAATG
*
43542462 TAATGCAGATGGATGAAATG
1 TAATGCAGATGGATAAAATG
43542482 -AATGCA
1 TAATGCA
43542488 AAAAAGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGGATAAAATG
Found at i:43543674 original size:42 final size:42
Alignment explanation
Indices: 43543638--43543796 Score: 176
Period size: 42 Copynumber: 3.6 Consensus size: 42
43543628 CATAGTTCAA
* *
43543638 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGAAGCCATAGCCCAG
*
43543680 CTATGGTCTCACACATATTCACATATCGAAGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGAAGCCATAGCCCAG
* * *
43543722 CTATGGTCTTACGCGTAATCACTATCACATATCGATGCCATAGCCTAG
1 CTATGGTCTTACAC---AT-A-T-TCACATATCGAAGCCATAGCCCAG
* *
43543770 CTATGGTCTTACACGTAATCACATATC
1 CTATGGTCTTACACATATTCACATATC
43543797 TCACTAATGC
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 57 0.57
44 1 0.01
45 3 0.03
46 1 0.01
47 1 0.01
48 35 0.35
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGAAGCCATAGCCCAG
Found at i:43543772 original size:48 final size:49
Alignment explanation
Indices: 43543691--43543948 Score: 179
Period size: 47 Copynumber: 5.2 Consensus size: 49
43543681 TATGGTCTCA
*
43543691 CACATATTCACATATCGAAGCCATAGCCCAGCTATGGTCTTACGCGTAAT
1 CACATA-TCACATATCGAAGCCATAGCCCAGCTATGGTCTTACACGTAAT
* *
43543741 CAC-TATCACATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGAAGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
43543789 CACATATCTCACTA---ATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACA-TATCGAAGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * * * * * * *
43543836 CATATATCAC--ACCGATGCCATATCCCAGATATGGTATTATACGGAAG
1 CACATATCACATATCGAAGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
43543883 CACATAATTACATCTCTCCGATGCCATAGCCCAGCTATAGTCTTATACGGAAAT
1 CACAT-ATCACA--TAT-CGAAGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
43543937 CACATATCACAT
1 CACATATCACAT
43543949 GTTACCATGG
Statistics
Matches: 170, Mismatches: 24, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
46 1 0.01
47 66 0.39
48 49 0.29
49 8 0.05
50 5 0.03
51 1 0.01
53 31 0.18
54 8 0.05
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGAAGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:43547321 original size:12 final size:13
Alignment explanation
Indices: 43547304--43547350 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
43547294 ATCAAAGAAA
43547304 AATAA-AATAAAT
1 AATAATAATAAAT
*
43547316 AATAA-AGTAAAT
1 AATAATAATAAAT
*
43547328 AATAATGATAAA-
1 AATAATAATAAAT
43547340 AATAATAATAA
1 AATAATAATAA
43547351 TGACAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 26 0.87
13 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:43547644 original size:15 final size:15
Alignment explanation
Indices: 43547624--43547654 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43547614 GGCTAACAAG
43547624 TAAATACATAAAGAA
1 TAAATACATAAAGAA
43547639 TAAATACATAAAGAA
1 TAAATACATAAAGAA
43547654 T
1 T
43547655 TAAAATGAAT
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:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
TAAATACATAAAGAA
Found at i:43549952 original size:10 final size:10
Alignment explanation
Indices: 43549937--43549961 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43549927 CAATATATCT
43549937 AATTTGGTTA
1 AATTTGGTTA
43549947 AATTTGGTTA
1 AATTTGGTTA
43549957 AATTT
1 AATTT
43549962 TAGAGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
AATTTGGTTA
Found at i:43558173 original size:47 final size:47
Alignment explanation
Indices: 43558067--43558256 Score: 202
Period size: 47 Copynumber: 3.9 Consensus size: 47
43558057 ATGTGATTTT
* * * *
43558067 CGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTC
1 CGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTAC
*
43558119 CGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTAC
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
* * *
43558166 TGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-C
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
** * *
43558212 CGTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
43558257 ACTATGTGCA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
46 27 0.22
47 55 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 26 0.21
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (47 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTAC
Found at i:43558244 original size:93 final size:97
Alignment explanation
Indices: 43558050--43558275 Score: 237
Period size: 93 Copynumber: 2.3 Consensus size: 97
43558040 CCATGGCAGC
* * * * *
43558050 ATGTGAAATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTG
1 ATGTGATATGTGACTAT-GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTG
* *
43558115 CTTCCGTATAAGACCATATCCGGGATATGGCATCGG
62 CATCCGTATAAGACCATAGCCGGGATATGGCATCGG
*
43558151 -TGTGATATGTG-CTACTGTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-AT
1 ATGTGATATGTGACTA-TGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCAT
* * * *
43558211 CCGTATAAGACCATGGCTGGGCTATGGCCTCGG
65 CCGTATAAGACCATAGCCGGGATATGGCATCGG
**
43558244 TATGTGATATGTGACTATGTGCAAGACCATAG
1 -ATGTGATATGTGACTATGTATAAGACCATAG
43558276 TTTTACTATG
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
93 29 0.27
94 11 0.10
95 23 0.22
96 3 0.03
97 2 0.02
99 27 0.25
100 11 0.10
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (97 bp):
ATGTGATATGTGACTATGTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATC
CGTATAAGACCATAGCCGGGATATGGCATCGG
Found at i:43564402 original size:40 final size:40
Alignment explanation
Indices: 43564275--43564404 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
43564265 ATGCTGGAAA
* * * * *
43564275 TTATATCCGGGTTAATACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
43564315 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
43564355 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
43564395 TTATATCCGG
1 TTATATCCGG
43564405 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:43575174 original size:40 final size:40
Alignment explanation
Indices: 43575047--43575176 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
43575037 ATGCTGGAAA
* * * * *
43575047 TTATATCCGGGTTAATACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
43575087 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
43575127 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
43575167 TTATATCCGG
1 TTATATCCGG
43575177 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:43598309 original size:3 final size:3
Alignment explanation
Indices: 43598301--43598369 Score: 67
Period size: 3 Copynumber: 24.7 Consensus size: 3
43598291 ATATTTAAGA
* *
43598301 AAT AAT AAT TAT AAT -GT AA- AAT -AT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
43598346 AAT -AT AAT -AT AAT AGT TAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
43598370 ATAAAAGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 9 0.17
3 44 0.83
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:43602205 original size:37 final size:37
Alignment explanation
Indices: 43602152--43602225 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
43602142 ATGAAAAGTC
*
43602152 AAGCTGAAATTAGGAGAAGAATGAACTAGAGGCAGTT
1 AAGCTGAAATTAGGAGAAGAATGAACCAGAGGCAGTT
* *
43602189 AAGCTGAAATTGGGAGAAGAATGAGCCAGAGGCAGTT
1 AAGCTGAAATTAGGAGAAGAATGAACCAGAGGCAGTT
43602226 TCTGAAGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.32, T:0.18
Consensus pattern (37 bp):
AAGCTGAAATTAGGAGAAGAATGAACCAGAGGCAGTT
Done.