Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 25 of 290
Found at i:8422792 original size:20 final size:21
Alignment explanation
Indices: 8422760--8422813 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
8422750 TTAAAAAATT
8422760 TAAATTAAATGAT-T-ATATAA
1 TAAATT-AATGATGTAATATAA
8422780 -AATATTTAATGATGTAATATAA
1 TAA-A-TTAATGATGTAATATAA
8422802 TAAATTAATGAT
1 TAAATTAATGAT
8422814 ATGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 11 0.38
22 7 0.24
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATGATGTAATATAA
Found at i:8423946 original size:16 final size:18
Alignment explanation
Indices: 8423918--8423953 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8423908 GTTTATGAAT
8423918 AAAATTTTCATTTA-TTA
1 AAAATTTTCATTTAGTTA
8423935 AAAATTTT-ATTTAGTTA
1 AAAATTTTCATTTAGTTA
8423952 AA
1 AA
8423954 GATTAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATTTTCATTTAGTTA
Found at i:8431641 original size:10 final size:10
Alignment explanation
Indices: 8431621--8431656 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
8431611 GTTCACTCTT
8431621 TTTTCTTTTTC
1 TTTT-TTTTTC
8431632 TTTTTTTTTCC
1 TTTTTTTTT-C
8431643 TTTTTTTTTC
1 TTTTTTTTTC
8431653 TTTT
1 TTTT
8431657 AATCGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:8443338 original size:11 final size:11
Alignment explanation
Indices: 8443322--8443351 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
8443312 GAAAATTAGT
8443322 AAATTAGAATA
1 AAATTAGAATA
*
8443333 AAATTAAAATA
1 AAATTAGAATA
8443344 AAATTAGA
1 AAATTAGA
8443352 TTGTAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (11 bp):
AAATTAGAATA
Found at i:8444627 original size:54 final size:54
Alignment explanation
Indices: 8444560--8444697 Score: 249
Period size: 54 Copynumber: 2.6 Consensus size: 54
8444550 ATCCTTACAG
* *
8444560 CGGGATTACCAGTCCAGGTTAAATCCCCTGTAATATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGT
*
8444614 TGGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGT
8444668 CGGGATTACCAGTCCAGGCTAAATCCCCTG
1 CGGGATTACCAGTCCAGGCTAAATCCCCTG
8444698 CAACGACAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGAGTATTGT
Found at i:8445134 original size:15 final size:15
Alignment explanation
Indices: 8445116--8445155 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
8445106 TGCTGCTGTC
8445116 CAAACTGTTTTTGTG
1 CAAACTGTTTTTGTG
8445131 CAAACTGTTTTTGTG
1 CAAACTGTTTTTGTG
*
8445146 CAAGCTGTTT
1 CAAACTGTTT
8445156 ATTACCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (15 bp):
CAAACTGTTTTTGTG
Found at i:8455718 original size:70 final size:70
Alignment explanation
Indices: 8455639--8455779 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
8455629 ATCCATTCAC
8455639 TGCATTATTACCCTAAAATTTACAAACTCAACATTTAAGTTAGTACAATAATTTCCATGTACAAA
1 TGCATTATTACCCTAAAATTTACAAACTCAACATTTAAGTTAGTACAATAATTTCCATGTACAAA
8455704 TAATA
66 TAATA
* *
8455709 TGCATTATTACCCTAACATTTACAAACTCAACATTTAAGTTAGTACAATAATTTCCATGTACCAA
1 TGCATTATTACCCTAAAATTTACAAACTCAACATTTAAGTTAGTACAATAATTTCCATGTACAAA
8455774 TAATA
66 TAATA
8455779 T
1 T
8455780 ATACTATGAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (70 bp):
TGCATTATTACCCTAAAATTTACAAACTCAACATTTAAGTTAGTACAATAATTTCCATGTACAAA
TAATA
Found at i:8459061 original size:442 final size:440
Alignment explanation
Indices: 8457997--8459314 Score: 2321
Period size: 442 Copynumber: 3.0 Consensus size: 440
8457987 GGCACGGGAT
* * *
8457997 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGGCTGCCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* *
8458062 TGTTAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCTATTTTCTCCATTTTCGACCCGTTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCC-ATTTTCTCCGTTTTCGACCCGTTT
8458127 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
130 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
8458192 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
195 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
8458257 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
260 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
8458322 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATACAAGTCTTCAATTTTGAGTCTTACAGGTT
325 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATACAAGTCTTCAATTTTGAGTCTTACAGGTT
8458387 GAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
390 GAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
* * * * *
8458438 TGTGTTCTGCCCATGTAAGTCATGCTTTGATTCTGCCAAATTGACATGGCCGAGTGGGATGTCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* * * *
8458503 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGACCCATTTTCTCCGTTTTTGACTCATTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTG-GCCATTTTCTCCGTTTTCGACCCGTTT
*
8458568 CTCGTTCCTTTCTCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
130 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
8458633 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
195 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
8458698 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
260 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
* * * *
8458763 GAGAGTGCCTTATTTAATGAGCAAGATAGGTTTATTACTAGTCTTCAATTTTAAGTCTTACAGGT
325 GAGAGTGCCTTATTTAATGAACAAGATAGGTATA-TACAAGTCTTCAATTTTGAGTCTTACAGGT
8458828 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
389 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
* * * *
8458880 TGTGTTCTTCCCGTGTGAGTCGTGCTTCGATTTTTCAAAATTGACACGGCCGAGTGGGATGTCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* *
8458945 TGTGAGGAAGTCCAGGCCATGTTAATTTCGTACTTTGGCTCATTTTCTCCGTTTTCGACCCGTTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGC-CATTTTCTCCGTTTTCGACCCGTTT
8459010 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
130 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
* * * *
8459075 TGAATTTACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGAGGTAAAAATATGTA
195 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
* *
8459140 TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
260 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
8459205 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATACAAGTCTTCAATTTTGAGTCTTACAGGTT
325 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATACAAGTCTTCAATTTTGAGTCTTACAGGTT
8459270 GAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGA
390 GAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGA
8459315 GCTTCCTCCC
Statistics
Matches: 829, Mismatches: 45, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
441 414 0.50
442 415 0.50
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (440 bp):
TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCATTTTCTCCGTTTTCGACCCGTTTC
TCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCATC
GAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTAT
AAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGGG
AGAGTGCCTTATTTAATGAACAAGATAGGTATATACAAGTCTTCAATTTTGAGTCTTACAGGTTG
AGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
Found at i:8460770 original size:16 final size:17
Alignment explanation
Indices: 8460749--8460780 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8460739 GAATTTACTT
8460749 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
8460765 ATTATATAAAGTAAAT
1 ATTATATAAAGTAAAT
8460781 TATATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:8460972 original size:24 final size:24
Alignment explanation
Indices: 8460940--8460987 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
8460930 GAAACAGAGC
*
8460940 AGGGAAAGAAAGAA-AGAAGGAAAA
1 AGGGAAAGAAA-AAGAAAAGGAAAA
8460964 AGGGAAAGAAAAAGAAAAGGAAAA
1 AGGGAAAGAAAAAGAAAAGGAAAA
8460988 TTTAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (24 bp):
AGGGAAAGAAAAAGAAAAGGAAAA
Found at i:8461147 original size:27 final size:27
Alignment explanation
Indices: 8461109--8461164 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
8461099 TTTAGGAAGA
8461109 TAGTGAATTTTTAGATGTTGATTAAGT
1 TAGTGAATTTTTAGATGTTGATTAAGT
8461136 TAGTGAATTTTTAGATGTTGATTAAGT
1 TAGTGAATTTTTAGATGTTGATTAAGT
8461163 TA
1 TA
8461165 AATTAATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (27 bp):
TAGTGAATTTTTAGATGTTGATTAAGT
Found at i:8466849 original size:2 final size:2
Alignment explanation
Indices: 8466844--8466869 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8466834 TTCACACATT
8466844 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
8466870 TATATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:8469215 original size:16 final size:18
Alignment explanation
Indices: 8469181--8469216 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8469171 ATCCTTATTT
8469181 AAATAAAATATAGAAGTA
1 AAATAAAATATAGAAGTA
8469199 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
8469215 AA
1 AA
8469217 TAAGGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:8469283 original size:5 final size:5
Alignment explanation
Indices: 8469273--8469305 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469263 ACGACGGTGA
8469273 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469306 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8469361 original size:79 final size:79
Alignment explanation
Indices: 8469258--8469769 Score: 1024
Period size: 79 Copynumber: 6.5 Consensus size: 79
8469248 ATGGAAAAAG
8469258 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469323 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469337 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469402 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469416 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469481 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469495 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469560 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469574 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469639 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469653 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
8469718 CGTGGAAACCCTTT
66 CGTGGAAACCCTTT
8469732 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAA
1 GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAA
8469770 GAACACAAAA
Statistics
Matches: 433, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 433 1.00
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (79 bp):
GAATAACGACGGTGAAAAATAAAATAAAATAAAATAAAATAAAATAAAGAACACACAAATTTTTA
CGTGGAAACCCTTT
Found at i:8469362 original size:5 final size:5
Alignment explanation
Indices: 8469352--8469384 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469342 ACGACGGTGA
8469352 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469385 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8469441 original size:5 final size:5
Alignment explanation
Indices: 8469431--8469463 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469421 ACGACGGTGA
8469431 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469464 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8469520 original size:5 final size:5
Alignment explanation
Indices: 8469510--8469542 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469500 ACGACGGTGA
8469510 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469543 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8469599 original size:5 final size:5
Alignment explanation
Indices: 8469589--8469621 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469579 ACGACGGTGA
8469589 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469622 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8469678 original size:5 final size:5
Alignment explanation
Indices: 8469668--8469700 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8469658 ACGACGGTGA
8469668 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8469701 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8472480 original size:21 final size:21
Alignment explanation
Indices: 8472469--8472518 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
8472459 TTTAAGGGTT
8472469 GGGGTTAATGGTTAGGGATTA
1 GGGGTTAATGGTTAGGGATTA
8472490 GGGGTTAA-GTGTTAAGGGGA-TA
1 GGGGTTAATG-GTT-A-GGGATTA
8472512 GGGGTTA
1 GGGGTTA
8472519 GGCGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 10 0.38
23 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (21 bp):
GGGGTTAATGGTTAGGGATTA
Found at i:8472513 original size:22 final size:22
Alignment explanation
Indices: 8472483--8472540 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8472473 TTAATGGTTA
*
8472483 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
8472506 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
* *
8472528 GGGACATGGGTTA
1 GGGATAGGGGTTA
8472541 GGGGTTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.26
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:8472541 original size:22 final size:22
Alignment explanation
Indices: 8472489--8472542 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
8472479 GTTAGGGATT
* * *
8472489 AGGGGTTAAGTGTTAAGGGGAT
1 AGGGGTTAGGCGTTAAGGGGAC
8472511 AGGGGTTAGGCGTTAAGGGGAC
1 AGGGGTTAGGCGTTAAGGGGAC
*
8472533 ATGGGTTAGG
1 AGGGGTTAGG
8472543 GGTTTATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.24
Consensus pattern (22 bp):
AGGGGTTAGGCGTTAAGGGGAC
Found at i:8472591 original size:14 final size:14
Alignment explanation
Indices: 8472572--8472622 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
8472562 AATATTTTAA
*
8472572 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
8472586 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
* * *
8472600 -GTGTTGGGGTTTAA
1 GGT-TTAGGGATTAT
8472614 GGTTTAGGG
1 GGTTTAGGG
8472623 GTTAAGTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:8473183 original size:18 final size:19
Alignment explanation
Indices: 8473137--8473183 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
8473127 AACCCTAAAA
*
8473137 TAGATTT-CCCTAATTCTC
1 TAGATTTCCCCTAATTCCC
*
8473155 TACATTTCCCCTAA-TCCC
1 TAGATTTCCCCTAATTCCC
8473173 TAGATTTCCCC
1 TAGATTTCCCC
8473184 CAAAATCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.38
Consensus pattern (19 bp):
TAGATTTCCCCTAATTCCC
Found at i:8476027 original size:27 final size:27
Alignment explanation
Indices: 8475997--8476049 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
8475987 GTATCAAATA
*
8475997 TTTGATTTTGT-TTTGTCGAAAAAAAAG
1 TTTGATTTTGTATTGGT-GAAAAAAAAG
8476024 TTTGATTTTGTATTGGTGAAAAAAAA
1 TTTGATTTTGTATTGGTGAAAAAAAA
8476050 ATTAAGCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTGATTTTGTATTGGTGAAAAAAAAG
Found at i:8478166 original size:15 final size:15
Alignment explanation
Indices: 8478146--8478179 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8478136 TAATTTGATG
*
8478146 TTTGGATGTTCCATT
1 TTTGGATGTACCATT
8478161 TTTGGATGTACCATT
1 TTTGGATGTACCATT
8478176 TTTG
1 TTTG
8478180 TTCATCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTGGATGTACCATT
Found at i:8479541 original size:43 final size:43
Alignment explanation
Indices: 8479452--8479549 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
8479442 TTTTATGACT
* * *
8479452 TTTAGCGACGTTTTTGGAAAAAGCGCAGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
* *
8479495 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
*
8479538 TTTAGTGGCGTT
1 TTTAGCGGCGTT
8479550 ATCTATAGCG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
Found at i:8482017 original size:31 final size:31
Alignment explanation
Indices: 8481982--8482044 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
8481972 CTATCAACAT
*
8481982 GTCATCAACATAAAAAAGTAGATACATAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
*
8482013 GTCATCAACATAAAGAAGTAGATACACAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
8482044 G
1 G
8482045 AACCATCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.13, T:0.17
Consensus pattern (31 bp):
GTCATCAACATAAAAAAGTAGATACACAAAA
Found at i:8487923 original size:7 final size:7
Alignment explanation
Indices: 8487911--8487945 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
8487901 AATCTGTCTC
8487911 AATATAT
1 AATATAT
8487918 AATATAT
1 AATATAT
8487925 AATATAT
1 AATATAT
*
8487932 AACATAT
1 AATATAT
8487939 AATATAT
1 AATATAT
8487946 GATTCGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:8500779 original size:13 final size:13
Alignment explanation
Indices: 8500761--8500787 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8500751 TGAATTGATA
8500761 TGTGTGAAAATTT
1 TGTGTGAAAATTT
8500774 TGTGTGAAAATTT
1 TGTGTGAAAATTT
8500787 T
1 T
8500788 ATTGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:8501890 original size:43 final size:44
Alignment explanation
Indices: 8501842--8501925 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
8501832 GAATTTTATA
*
8501842 TGTGATTT-CGTGTAAGACCACG-CATGGGACATTGGCATCGATT
1 TGTGATTTACGTGGAAGACCACGTC-TGGGACATTGGCATCGATT
* * *
8501885 TGTGATTTATGTGGAATACCATGTCTGGGACATTGGCATCG
1 TGTGATTTACGTGGAAGACCACGTCTGGGACATTGGCATCG
8501926 TATATGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 8 0.23
44 26 0.74
45 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (44 bp):
TGTGATTTACGTGGAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:8504201 original size:23 final size:23
Alignment explanation
Indices: 8504149--8504211 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
8504139 TTTTATGCCC
*
8504149 GCAAGTGATAGTGGCAGTACAAT
1 GCAAGTGATAGTGGCACTACAAT
* * **
8504172 ACGAGTGATAGTGGCACTTTAAT
1 GCAAGTGATAGTGGCACTACAAT
* *
8504195 GCAAGTGACAGTAGCAC
1 GCAAGTGATAGTGGCAC
8504212 ACCCGTACAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACAAT
Found at i:8509702 original size:43 final size:43
Alignment explanation
Indices: 8509635--8509758 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
8509625 TCTGAACTCA
* * *
8509635 TTCACTGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
8509677 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * ** *
8509720 CTCATCGGCATTATAGTTTGCTAGGCCCGAAGCTCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
8509759 ATATTATTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 11 0.15
43 61 0.85
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:8520063 original size:30 final size:31
Alignment explanation
Indices: 8520027--8520095 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
8520017 CACGGCTGAG
*
8520027 ACACATGGCCGTATCTTTGCCCGTGTGGCT-
1 ACACATGGCCGTATCTTTGCCCGTGCGGCTA
*
8520057 ACACATGGCCGTATCTTTTCCCGTGCGGCTA
1 ACACATGGCCGTATCTTTGCCCGTGCGGCTA
8520088 ACACATGG
1 ACACATGG
8520096 GCTATTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (31 bp):
ACACATGGCCGTATCTTTGCCCGTGCGGCTA
Found at i:8529425 original size:10 final size:9
Alignment explanation
Indices: 8529407--8529431 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8529397 GAACATCTCG
8529407 AAGAAAAAA
1 AAGAAAAAA
8529416 AAGAAAAAA
1 AAGAAAAAA
8529425 AAGAAAA
1 AAGAAAA
8529432 GCAAAGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:8529602 original size:32 final size:32
Alignment explanation
Indices: 8529561--8529626 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
8529551 AGAAAGGTGT
*
8529561 AAGAAGTGGATATAATGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
8529593 AAGAAGTGGATATAACGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
8529625 AA
1 AA
8529627 ATTGAGGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (32 bp):
AAGAAGTGGATATAACGTGGAGATGTTATTTA
Found at i:8530075 original size:11 final size:12
Alignment explanation
Indices: 8530050--8530084 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8530040 TTGATTTTAG
8530050 TTTGTTTTGTTT
1 TTTGTTTTGTTT
8530062 TTTGTTTT-TTT
1 TTTGTTTTGTTT
*
8530073 TTTGTTTAGTTT
1 TTTGTTTTGTTT
8530085 GCTTGAATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:8541421 original size:18 final size:18
Alignment explanation
Indices: 8541382--8541424 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
8541372 ATATTTTTTC
*
8541382 ATTCTTTTACCTATAAAT
1 ATTCTTTTACCTATAAAG
*
8541400 ATTCTTTTGACCT-TTAAG
1 ATTCTTTT-ACCTATAAAG
8541418 ATTCTTT
1 ATTCTTT
8541425 CTAAATTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTCTTTTACCTATAAAG
Found at i:8544533 original size:176 final size:175
Alignment explanation
Indices: 8544296--8544682 Score: 542
Period size: 176 Copynumber: 2.2 Consensus size: 175
8544286 ACCTTTGACG
* * * *
8544296 AGAAGCAAATCGAAGACATAGCAGATCTGAATTTCAGATGTTTTCACATCAAAGCAGATCCAAGA
1 AGAA-CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
* * * * *
8544361 TAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAATCTTCAGATG-T
65 TAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGAT
* *
8544425 TTATACTGAAGCAGATCCAAGATGATTTGGACATTCTTGTGTTTACAA
130 TT-TACTGAAGCAGATCCAAGATGATTTGG-CATCCTTGTGTTCACAA
* * *
8544473 GGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGTAGATCCAAGAT
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
* *
8544538 AACAGATCTGGCATCTCCATTTCGATAGAGAGCAGATACATAGCAGATCTAACCTTTAGATGATT
66 AACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
*
8544603 TTACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
131 TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
* * * * *
8544648 AGAGCAAATCAAAGACACAGCATATTTGGCTTTCA
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCA
8544683 CGTGTTTACG
Statistics
Matches: 185, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
175 43 0.23
176 136 0.74
177 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
AACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
Found at i:8548485 original size:14 final size:14
Alignment explanation
Indices: 8548468--8548512 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
8548458 TAAGAAGTGG
8548468 AGAAGAAGAAGAAA
1 AGAAGAAGAAGAAA
8548482 AGAAGAAGATGAGAATA
1 AGAAGAAGA--AGAA-A
8548499 AGAAGAAG-AGAAA
1 AGAAGAAGAAGAAA
8548512 A
1 A
8548513 TGGAAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
16 4 0.14
17 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
AGAAGAAGAAGAAA
Found at i:8548488 original size:17 final size:17
Alignment explanation
Indices: 8548468--8548507 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
8548458 TAAGAAGTGG
8548468 AGAAGAAGAAGAA-AAGA
1 AGAAGAAG-AGAATAAGA
*
8548485 AGAAGATGAGAATAAGA
1 AGAAGAAGAGAATAAGA
8548502 AGAAGA
1 AGAAGA
8548508 GAAAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (17 bp):
AGAAGAAGAGAATAAGA
Found at i:8550614 original size:20 final size:20
Alignment explanation
Indices: 8550591--8550633 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8550581 AGGCACAGTT
*
8550591 GTGCAAACAAGAACACCGAA
1 GTGCAAACAAGAACACCAAA
* *
8550611 GTGCAATCAAGGACACCAAA
1 GTGCAAACAAGAACACCAAA
8550631 GTG
1 GTG
8550634 TATACAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.09
Consensus pattern (20 bp):
GTGCAAACAAGAACACCAAA
Found at i:8566494 original size:29 final size:28
Alignment explanation
Indices: 8566461--8566515 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8566451 TACAAGGTTT
* *
8566461 TCACATGGCCAAGAACACGCCTGTGTCCC
1 TCACACGGCCAA-AACACGCCCGTGTCCC
*
8566490 TCACACGGCCTAAACACGCCCGTGTC
1 TCACACGGCCAAAACACGCCCGTGTC
8566516 ATCGCCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (28 bp):
TCACACGGCCAAAACACGCCCGTGTCCC
Found at i:8572057 original size:206 final size:206
Alignment explanation
Indices: 8571696--8572103 Score: 563
Period size: 206 Copynumber: 2.0 Consensus size: 206
8571686 AAATTGCTTC
* * *
8571696 TAGAATCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTATACTTA
1 TAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACATA
* * *
8571761 GAATTTCTTCATGGAACTTTAACACATGCATATACTCATATTCTAAGCCTCATAATAATCATAAA
66 GAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAATCATAAA
* * *
8571826 ATAAATATTTTAATGTCATATTTGTGGTCCCAAAACCACTATT-TCGACTAGGCCCTATTTTGGG
131 ATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCT-GACTAGGCCCTATTTCGGG
8571890 ATGTTACACTTT
195 ATGTTACACTTT
**
8571902 TAGAACCCAAGTTTTGT-AATTTATTCAATTTAGTCCTTAATTTCCAATTGGACACCTTACACAT
1 TAGAACCCAAGTTTT-TCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACAT
* * ** * *
8571966 AGAATTTCTTCATGAAAATTTAACATATGGATATTTTAATA-TCTTATA-CCTTATAATGATCAT
65 AGAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTC-TA-AGCCTCATAATAATCAT
* * * *
8572029 GAAATAATTATTTTAACGTCAGATTTGTGGTCTCGAAACCACTATTCTGACTAGGCCCTATTTCG
128 AAAATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCTGACTAGGCCCTATTTCG
8572094 GGATGTTACA
193 GGATGTTACA
8572104 ACAAACCTTT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
205 2 0.01
206 172 0.97
207 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (206 bp):
TAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACATA
GAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAATCATAAA
ATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCTGACTAGGCCCTATTTCGGGA
TGTTACACTTT
Found at i:8572892 original size:20 final size:20
Alignment explanation
Indices: 8572833--8572892 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
8572823 TGCATGCCCT
*
8572833 TGTTTGTGCTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
** * *
8572853 TGAATGTACATAC-GTGCCCC
1 TGTTTGTAC-TTCGGTACCCC
8572873 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
8572893 CTGAATGCAT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.13, C:0.30, G:0.22, T:0.35
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCC
Found at i:8577846 original size:41 final size:40
Alignment explanation
Indices: 8577789--8577875 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 40
8577779 GAAGAAAAAG
8577789 TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
1 TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
8577829 TTTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
1 -TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
8577870 TTAGAA
1 TTAGAA
8577876 ATCTTACGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 6 0.13
41 40 0.87
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (40 bp):
TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
Found at i:8580923 original size:22 final size:24
Alignment explanation
Indices: 8580888--8580931 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
8580878 TACTTTAGTC
8580888 TTTTTAATTATTATTTT-TTTATG
1 TTTTTAATTATTATTTTCTTTATG
*
8580911 TTTTT-ATTGTTATTTTCTTTA
1 TTTTTAATTATTATTTTCTTTA
8580932 GATTTCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTAATTATTATTTTCTTTATG
Found at i:8583368 original size:17 final size:18
Alignment explanation
Indices: 8583346--8583386 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
8583336 TAATAAATGA
8583346 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
8583363 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
8583380 TAATATA
1 AAATATA
8583387 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:8592870 original size:30 final size:30
Alignment explanation
Indices: 8592834--8592894 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
8592824 AATTACTTTT
8592834 TACATAGAAAAAATATCTTATATATTAAAA
1 TACATAGAAAAAATATCTTATATATTAAAA
8592864 TACATAGAAAAAATATCTTATATATTAAAA
1 TACATAGAAAAAATATCTTATATATTAAAA
8592894 T
1 T
8592895 TTTATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (30 bp):
TACATAGAAAAAATATCTTATATATTAAAA
Found at i:8599951 original size:69 final size:69
Alignment explanation
Indices: 8599835--8599971 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
8599825 GGTCGCTACA
*
8599835 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGGCATACTTGA
1 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGACATACTTGA
8599900 GAAG
66 GAAG
* * *
8599904 GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAA-TAAGAGATAAAAGATATACTTG
1 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGC-AAACAAAGAGATAAAAGACATACTTG
8599968 AGAA
65 AGAA
8599972 AGTAGTTTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 60 0.95
70 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (69 bp):
GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGACATACTTGA
GAAG
Found at i:8613227 original size:46 final size:48
Alignment explanation
Indices: 8613171--8613260 Score: 148
Period size: 46 Copynumber: 1.9 Consensus size: 48
8613161 TTTAGGTCAC
* *
8613171 TTATGTGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA
1 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA
8613217 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
8613261 TAAGACCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 19 0.47
47 13 0.32
48 8 0.20
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA
Found at i:8613274 original size:29 final size:29
Alignment explanation
Indices: 8613232--8613289 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8613222 AGAGCTAGTG
8613232 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTAGGACATGGCATCGGC
8613261 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTAGGACATGGCATCGGC
8613290 ATTGAGACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (29 bp):
TAAGACCATGTCTAGGACATGGCATCGGC
Found at i:8620510 original size:30 final size:30
Alignment explanation
Indices: 8620453--8620510 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
8620443 TTTTCGAACA
* * **
8620453 TAGGGGTAAAATGGTCATTTTGTCAAAGCC
1 TAGGGGCAAAATGATCATTTTACCAAAGCC
*
8620483 TAGGGGCAAAATGATTATTTTACCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
8620511 ATGTAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGCC
Found at i:8620902 original size:46 final size:45
Alignment explanation
Indices: 8620849--8620974 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 45
8620839 TCACTTATTT
8620849 GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATT-ATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATT--CCACATTGA-GAC
**
8620895 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTCCACATTGAGAC
*
8620941 GAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCAT
8620975 CGGCCTCGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
45 7 0.10
46 20 0.29
47 29 0.41
48 14 0.20
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTCCACATTGAGAC
Found at i:8620998 original size:46 final size:46
Alignment explanation
Indices: 8620854--8621024 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
8620844 TATTTGAGCC
** * * * *
8620854 AGTGTAAGACATGTCTGGGACATGCATTAGCCACAT--TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACAT-A-AGCA
* * * *
8620900 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGAC-A-TAAGCA
8620948 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
*
8620994 AGTGTAAGACATGTCTGGGAAATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
8621025 TAAGAGTTGT
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 54 0.52
47 28 0.27
48 17 0.17
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
Found at i:8621067 original size:46 final size:43
Alignment explanation
Indices: 8620900--8621067 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 43
8620890 TATGAGAGCC
*
8620900 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TGAGA-GTGTGCT
* * ** *
8620948 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CT-GAGA-GTGTGCT
* * *
8620994 AGTGTAAGACATGTCTGGGAAATGCATCGGCTAAGAGTTGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAG-TGTGCT
*
8621038 AGTGTAAGACCAAGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
8621068 ACACGGATAG
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 13 0.13
45 15 0.15
46 47 0.47
47 15 0.15
48 9 0.09
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAGTGTGCT
Found at i:8624616 original size:42 final size:41
Alignment explanation
Indices: 8624557--8624670 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 41
8624547 ATGTTTGATA
*
8624557 CGTGTAAGACCATGTCTGGAACATGGCATCGATATGAGATTT
1 CGTGTAAGACCATGTCTGG-ACATGGCATCGATATGAGACTT
**
8624599 CGTGTAAGACCATGTCTGGGACATGTAATCGATATGAGACTT
1 CGTGTAAGACCATGTCT-GGACATGGCATCGATATGAGACTT
8624641 CGTGTAAGACCATAGT-TGGACTATGGCATC
1 CGTGTAAGACCAT-GTCTGGAC-ATGGCATC
8624671 AAGTAAACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 4 0.06
42 56 0.88
43 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGACATGGCATCGATATGAGACTT
Found at i:8637091 original size:43 final size:42
Alignment explanation
Indices: 8636987--8637104 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
8636977 GATTTGAGAT
* *
8636987 TTACATGTAAGACCATGTTTGGGACA-TCGGCATCGTATATGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCATATATGA
* * * *
8637029 TTTCGTG-AGAGACCCTGTCTGGGACAGTGGCATCAATATTTGA
1 TTACATGTA-AGACCATGTCTGGGACAGTGGCATC-ATATATGA
*
8637072 TTACATGTAAGACCATGTCTAGGAC-GTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCAT
8637105 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCATATATGA
Found at i:8638865 original size:14 final size:14
Alignment explanation
Indices: 8638842--8638885 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
8638832 CCTAGATCCC
*
8638842 TAAACACTAAATCT
1 TAAACTCTAAATCT
*
8638856 TAAACTCTAAATAT
1 TAAACTCTAAATCT
*
8638870 TAAATTCTAAATCT
1 TAAACTCTAAATCT
8638884 TA
1 TA
8638886 TTCATCCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACTCTAAATCT
Found at i:8641284 original size:44 final size:44
Alignment explanation
Indices: 8641234--8641317 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
8641224 GTCAGATACT
*
8641234 CACCAAGTCCAAGCAATACTCAAACTTTGAAATTGAAAGATTCA
1 CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGATTCA
* *
8641278 CACCAAGTCCAAGCAATGCTCGAACTTTGAAACTGAAAGA
1 CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGA
8641318 CTCTTTGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (44 bp):
CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGATTCA
Found at i:8648066 original size:12 final size:12
Alignment explanation
Indices: 8648049--8648073 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8648039 AAATTAAACT
8648049 TATTCAATCAAA
1 TATTCAATCAAA
8648061 TATTCAATCAAA
1 TATTCAATCAAA
8648073 T
1 T
8648074 TCATCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTCAATCAAA
Found at i:8648873 original size:14 final size:15
Alignment explanation
Indices: 8648856--8648884 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8648846 TCACGAAAAT
8648856 TTCACACAT-ATAAA
1 TTCACACATAATAAA
8648870 TTCACACATAATAAA
1 TTCACACATAATAAA
8648885 CAAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:8653058 original size:18 final size:18
Alignment explanation
Indices: 8653032--8653066 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8653022 GACTTATGCA
*
8653032 CATATAAATATATATACT
1 CATACAAATATATATACT
8653050 CATACAAATATATATAC
1 CATACAAATATATATAC
8653067 ATATCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
CATACAAATATATATACT
Found at i:8653069 original size:16 final size:16
Alignment explanation
Indices: 8653031--8653069 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
8653021 TGACTTATGC
*
8653031 ACATATAAATATATAT
1 ACATACAAATATATAT
8653047 ACTCATACAAATATATAT
1 A--CATACAAATATATAT
8653065 ACATA
1 ACATA
8653070 TCATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATACAAATATATAT
Found at i:8655081 original size:24 final size:25
Alignment explanation
Indices: 8655029--8655189 Score: 84
Period size: 24 Copynumber: 6.6 Consensus size: 25
8655019 AATGACATTG
* * *
8655029 GCACTAAGTGTGCGGATTTTGAATG
1 GCACTATGTGTGCGGATATTGAATA
8655054 GCACTATGTGTGCGGA-ATTGAATA
1 GCACTATGTGTGCGGATATTGAATA
* **
8655078 GCACTATTTGTGCTAAT-TTGAAT-
1 GCACTATGTGTGCGGATATTGAATA
* * * * * *
8655101 GTCAATACGAGCGTGTGGAT-TTCTAA-G
1 G-CACTA--TGTGTGCGGATATT-GAATA
* * * *
8655128 GCACTATGTGTGCGGGT-TAGCATG
1 GCACTATGTGTGCGGATATTGAATA
*
8655152 GCACTAAGTGTGCGGAT-TTGAATA
1 GCACTATGTGTGCGGATATTGAATA
8655176 GCACTATGTGTGCG
1 GCACTATGTGTGCG
8655190 AAATCGATTG
Statistics
Matches: 101, Mismatches: 28, Indels: 15
0.70 0.19 0.10
Matches are distributed among these distances:
23 2 0.02
24 70 0.69
25 15 0.15
26 11 0.11
27 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (25 bp):
GCACTATGTGTGCGGATATTGAATA
Found at i:8662499 original size:49 final size:48
Alignment explanation
Indices: 8662414--8662572 Score: 158
Period size: 49 Copynumber: 3.3 Consensus size: 48
8662404 AATGACATTG
* * *
8662414 GCACTAAGTGTGCAGATTTTGAATGGCACTATGTGTGTGGAATTGAATA
1 GCACTATGTGTGCAGA-TTTGAATGGCACTAAGTGTGTGGATTTGAATA
* * * * *
8662463 GCACTATGTGTGCTGATTTGAATGTCAATAGAGTGTGTGGATTTCTAA-G
1 GCACTATGTGTGCAGATTTGAATGGCACTA-AGTGTGTGGATTT-GAATA
* * * * * *
8662512 GCACTATGTGTGCGGGTTAGCATGGCACTAAATGTGCGGATTTGAATA
1 GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGTGGATTTGAATA
8662560 GCACTATGTGTGC
1 GCACTATGTGTGC
8662573 GAAATCGATT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.02
48 36 0.40
49 49 0.55
50 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGTGGATTTGAATA
Found at i:8662573 original size:24 final size:24
Alignment explanation
Indices: 8662412--8662573 Score: 137
Period size: 24 Copynumber: 6.7 Consensus size: 24
8662402 GAAATGACAT
* *
8662412 TGGCACTAAGTGTGCAGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
* *
8662437 TGGCACTATGTGTGTGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
8662461 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
8662485 TGTCAATAGAGTGTGTGGATTTCTAA
1 TGGCACTA-TGTGTGCGGATTT-GAA
* * *
8662511 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
**
8662534 TGGCACTAAATGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
8662558 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
8662574 AAATCGATTG
Statistics
Matches: 103, Mismatches: 31, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
23 1 0.01
24 70 0.68
25 30 0.29
26 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:8663965 original size:27 final size:27
Alignment explanation
Indices: 8663935--8664075 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
8663925 GTGACGAAGT
*
8663935 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
8663962 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
8663989 CACCAAAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8664016 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8664043 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8664070 CACCAG
1 CACCAG
8664076 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8664017 original size:54 final size:54
Alignment explanation
Indices: 8663953--8664075 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
8663943 ACAGATATTA
*
8663953 TGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
* *
8664007 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
8664061 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
8664076 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
Found at i:8664229 original size:28 final size:25
Alignment explanation
Indices: 8664167--8664241 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 25
8664157 CAAAATTAAC
*
8664167 CATAGGGGTATAAGGTAATTTTACA
1 CATAGGGGTATAAAGTAATTTTACA
* *
8664192 CCTAGGGGTATAACAGTAATTTTCCATA
1 CATAGGGGTATAA-AGTAATTTT--ACA
*
8664220 CATAGGGGTATTATAGTAATTT
1 CATAGGGGTA-TAAAGTAATTT
8664242 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.29
26 8 0.20
28 19 0.46
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (25 bp):
CATAGGGGTATAAAGTAATTTTACA
Found at i:8664500 original size:8 final size:8
Alignment explanation
Indices: 8664479--8664515 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
8664469 AAAATACAGA
8664479 CTTTTCGG
1 CTTTTCGG
* *
8664487 CATTTCAG
1 CTTTTCGG
8664495 CTTTTCGG
1 CTTTTCGG
8664503 CTTTTCGG
1 CTTTTCGG
8664511 CTTTT
1 CTTTT
8664516 GCCAATCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:8665457 original size:31 final size:31
Alignment explanation
Indices: 8665422--8665484 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8665412 CTCACAACAC
8665422 AACTAAAAACCAAAATATGCTTCAAGAGTTA
1 AACTAAAAACCAAAATATGCTTCAAGAGTTA
*
8665453 AACTAAAAACCAAAATGTGCTTCAAGAGTTA
1 AACTAAAAACCAAAATATGCTTCAAGAGTTA
8665484 A
1 A
8665485 GGTAGAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (31 bp):
AACTAAAAACCAAAATATGCTTCAAGAGTTA
Found at i:8665755 original size:26 final size:26
Alignment explanation
Indices: 8665724--8665915 Score: 267
Period size: 26 Copynumber: 7.2 Consensus size: 26
8665714 TGAAATGCCC
* *
8665724 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8665750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8665776 ATCATGGAATATTTACCTAATCCATTATCATC
1 ATCATGGAACATTTACCTAA-CC-----CATT
*
8665808 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8665834 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8665860 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8665886 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8665912 ATCA
1 ATCA
8665916 ATGTGTACCA
Statistics
Matches: 148, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 123 0.83
27 2 0.01
31 1 0.01
32 22 0.15
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8665828 original size:84 final size:84
Alignment explanation
Indices: 8665723--8665890 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
8665713 ATGAAATGCC
*
8665723 CATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATAT
1 CATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATAT
8665788 TTACCTAATCCATTATCAT
66 TTACCTAATCCATTATCAT
8665807 CATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATAT
1 CATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATAT
8665872 TTACCTAATCCATTATCAT
66 TTACCTAATCCATTATCAT
8665891 GGAACATTTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (84 bp):
CATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCATGGAATAT
TTACCTAATCCATTATCAT
Found at i:8671200 original size:27 final size:27
Alignment explanation
Indices: 8671162--8671320 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
8671152 GCGAGGCTGC
* *
8671162 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
8671189 CAGATATTGTGACAGAGTCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
8671215 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
8671242 CAGATAATCGTGGCATAGCCACCAG-TA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
8671269 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
8671296 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
8671321 GACGCTTCTT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.86
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:8671239 original size:54 final size:54
Alignment explanation
Indices: 8671180--8671320 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
8671170 GTGACGAAGT
* *
8671180 CACCAGATACAGAT-ATTGTGACAGAGTCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
8671234 CACCAGATCAGATAATCGTGGCATAGCCACCAGTACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
8671288 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGACAGAGCCACCAG
8671321 GACGCTTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:8673005 original size:52 final size:52
Alignment explanation
Indices: 8672944--8673779 Score: 1654
Period size: 52 Copynumber: 16.1 Consensus size: 52
8672934 TGAAATGCCC
*
8672944 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
8672996 ATCTTGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673048 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673100 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673152 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673204 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673256 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673308 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673360 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673412 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673464 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673516 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673568 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673620 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673672 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673724 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
8673776 ATCA
1 ATCA
8673780 ATTTGTACCA
Statistics
Matches: 781, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 781 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:8676652 original size:13 final size:13
Alignment explanation
Indices: 8676634--8676663 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8676624 GAAATGGGAA
8676634 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
8676647 AAAAACTAAAGAG
1 AAAAACTAAAGAC
8676660 AAAA
1 AAAA
8676664 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Found at i:8686961 original size:46 final size:45
Alignment explanation
Indices: 8686911--8687086 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
8686901 TGGTTGAGCA
* *
8686911 TCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
8686957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
8687004 TCTGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
8687050 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8687087 GTGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:8687067 original size:93 final size:93
Alignment explanation
Indices: 8686908--8687078 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
8686898 GGATGGTTGA
* *
8686908 GCATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8686973 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * * * *
8687001 GCATCTGAGCTCGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
8687066 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
8687079 ACTTATGGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:8690068 original size:15 final size:15
Alignment explanation
Indices: 8690030--8690073 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8690020 CATAGTATCG
* *
8690030 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
8690045 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
8690060 TATCTTGGATTTCT
1 TATCTTGGATTTCT
8690074 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:8692536 original size:46 final size:45
Alignment explanation
Indices: 8692483--8692655 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
8692473 TTGAGCATCC
8692483 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT-TCT
* * *** * *
8692529 GAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-TCT
1 GAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATTCT
* * * * *
8692576 GAGCTTGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACTCCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TTCT
8692622 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
8692656 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 60 0.61
47 28 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.32
Consensus pattern (45 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATTCT
Found at i:8692636 original size:93 final size:93
Alignment explanation
Indices: 8692477--8692647 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
8692467 GGATGGTTGA
* *
8692477 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
8692542 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * * *
8692570 GCATCTGAGCTTGTTGAGTTGATTCTGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
8692634 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
8692648 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:8697845 original size:13 final size:13
Alignment explanation
Indices: 8697826--8697856 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8697816 GGGTTTGTTT
8697826 ACTAAACTAATTA
1 ACTAAACTAATTA
*
8697839 TCTAAACTAATTA
1 ACTAAACTAATTA
8697852 ACTAA
1 ACTAA
8697857 TTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:8706216 original size:13 final size:13
Alignment explanation
Indices: 8706197--8706227 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8706187 GGGTTTGTTT
8706197 ACTAAACTAATTA
1 ACTAAACTAATTA
*
8706210 TCTAAACTAATTA
1 ACTAAACTAATTA
8706223 ACTAA
1 ACTAA
8706228 TTTAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:8711856 original size:37 final size:37
Alignment explanation
Indices: 8711806--8711884 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
8711796 TTATTACGAA
* * *
8711806 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
8711843 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
8711880 GTCTT
1 GTCTT
8711885 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:8712110 original size:47 final size:47
Alignment explanation
Indices: 8712005--8712131 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 47
8711995 CTTCGGGACT
* * * *
8712005 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
8712052 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * *
8712099 TATCTCGTATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
8712132 AGAATCCTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 1 0.02
47 65 0.98
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:8715721 original size:50 final size:50
Alignment explanation
Indices: 8715592--8716024 Score: 336
Period size: 50 Copynumber: 8.6 Consensus size: 50
8715582 ATTGTGAGAA
* * * * *** *
8715592 CACATGTGTTGTACTATGTGCAAGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * * *
8715644 CACGTGTATAGTACAAAGTGCACGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * * * * * * *
8715694 CGTATGTGTAGTACTACGTCCAGGCTACTATGTGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * * * * * *
8715745 CACGTATGTAGTACTAAGTGCAAGATACTATGTTTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
8715795 CACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
8715845 CACATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCCGAGA-ACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGATAGTT-AGGT
* * *
8715896 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
8715946 CACGTGTGTAGTACTAAGTACATGCTACTACGTGTACC-GAATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTTAGGT
** *
8715995 TGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
8716025 TGCGTGCCAA
Statistics
Matches: 298, Mismatches: 74, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
49 33 0.11
50 156 0.52
51 71 0.24
52 38 0.13
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:8715774 original size:101 final size:101
Alignment explanation
Indices: 8715643--8715832 Score: 227
Period size: 101 Copynumber: 1.9 Consensus size: 101
8715633 TGGTTTTAGG
* * * * ** *
8715643 TCACGTGTATAGTACAAAGTGCACGCTACTACGTGTACCAGATAGTTAGGTCGTATGTGTAGTAC
1 TCACGTATATAGTACAAAGTGCAAGATACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
* *
8715708 TACGTCCAGGCTACTATGTGTACCCGACAACTTCAA
66 TAAGTCCAGGCTACTACGTGTACCCGACAACTTCAA
* * * * * * *
8715744 TCACGTATGTAGTACTAAGTGCAAGATACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGCAC
1 TCACGTATATAGTACAAAGTGCAAGATACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
*
8715809 TAAGTGCAGGCTACTACGTGTACC
66 TAAGTCCAGGCTACTACGTGTACC
8715833 AGATAGTTAG
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (101 bp):
TCACGTATATAGTACAAAGTGCAAGATACTACGTGTACCAAATAGTTAGGTCACATGTGTAGCAC
TAAGTCCAGGCTACTACGTGTACCCGACAACTTCAA
Found at i:8715882 original size:151 final size:151
Alignment explanation
Indices: 8715602--8716029 Score: 576
Period size: 151 Copynumber: 2.8 Consensus size: 151
8715592 CACATGTGTT
* * *
8715602 GTACTATGTGCAAGCTACTATGTGTT-T-AAGATGGTTTTAGGTCACGTGTATAGTACAAAGTGC
1 GTACTAAGTGCAAGCTACTATGT-TTATCAA-ATGG--TTAGGTCACGTGTGTAGTACTAAGTGC
* * * *
8715665 ACGCTACTACGTGTACCAGATAGTTAGGTCGTATGTGTAGTACTACGTCCAGGCTACTATGTGTA
62 ACGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
8715730 CCCGACAACTTCAATCACGTATGTA
127 CCCGACAACTTCAATCACGTATGTA
* * *
8715755 GTACTAAGTGCAAGATACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGCACTAAGTGCAGGC
1 GTACTAAGTGCAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCACGC
* *
8715820 TACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACCAAGTGCAGGCTACTATGCGTACCCG
66 TACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG
* *
8715885 AGAACTTCAATCACGTGTGTA
131 ACAACTTCAATCACGTATGTA
* * * * * *
8715906 GTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTACATGC
1 GTACTAAGTGCAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCACGC
* * *
8715971 TACTACGTGTACC-GAATTGTT-GGTTGCATGTGTAGTACTAAGTGTAGGCTACTATGCGT
66 TACTACGTGTACCAG-ATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
8716030 GCCAAATAGC
Statistics
Matches: 245, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
150 35 0.14
151 180 0.73
152 2 0.01
153 26 0.11
154 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
GTACTAAGTGCAAGCTACTATGTTTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCACGC
TACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG
ACAACTTCAATCACGTATGTA
Found at i:8715899 original size:101 final size:101
Alignment explanation
Indices: 8715794--8715975 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
8715784 AATGGTTAGG
8715794 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
8715859 CAAGTGCAGGCTACTATGCGTACCCGAGAACTTCAA
66 CAAGTACAGGCTACTATGCGTACCCGAGAACTTCAA
* * * *
8715895 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
* *
8715960 TAAGTACATGCTACTA
66 CAAGTACAGGCTACTA
8715976 CGTGTACCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (101 bp):
TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
CAAGTACAGGCTACTATGCGTACCCGAGAACTTCAA
Found at i:8716266 original size:15 final size:16
Alignment explanation
Indices: 8716236--8716267 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8716226 GAATGGAGTA
8716236 AGTGAAATTATGTAAT
1 AGTGAAATTATGTAAT
8716252 AGTGAAATT-TGTAAT
1 AGTGAAATTATGTAAT
8716267 A
1 A
8716268 ATATAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (16 bp):
AGTGAAATTATGTAAT
Found at i:8718398 original size:20 final size:20
Alignment explanation
Indices: 8718373--8718446 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
8718363 GGATGCGAAT
8718373 GTCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCGTTGAGTTGA
* *
8718393 GTCCGAGTTCGTGAGATGTAACTAGGA
1 GTCCGAGCTCGT-TGA-GT---T--GA
*
8718420 ATCCGAGCTCGTTGAGTTGA
1 GTCCGAGCTCGTTGAGTTGA
8718440 GTCCGAG
1 GTCCGAG
8718447 TTCACTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 19 0.46
21 2 0.05
22 3 0.07
25 3 0.07
26 2 0.05
27 12 0.29
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (20 bp):
GTCCGAGCTCGTTGAGTTGA
Found at i:8722233 original size:43 final size:43
Alignment explanation
Indices: 8722167--8722324 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
8722157 AGCTCGTGCA
* *
8722167 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAAAATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCAAAAATCG
* ** * * *
8722210 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAATCATATA-CA
1 ATGCCAAC-GTCCCAAACAGGGTCTTACACGTAATCAAAAATCG
* * **
8722252 ATGCCAATGTCCCAAAACATGGTCTTACACGTAAATCACGAATCG
1 ATGCCAACGTCCC-AAACAGGGTCTTACACGT-AATCAAAAATCG
* *
8722297 ATGCCAACGACCCAGAC-GTGGTCTTACA
1 ATGCCAACGTCCCAAACAG-GGTCTTACA
8722325 AAATAACACA
Statistics
Matches: 88, Mismatches: 21, Indels: 11
0.73 0.17 0.09
Matches are distributed among these distances:
42 13 0.15
43 45 0.51
44 18 0.20
45 12 0.14
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACAGGGTCTTACACGTAATCAAAAATCG
Found at i:8722311 original size:87 final size:85
Alignment explanation
Indices: 8722165--8722324 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 85
8722155 TAAGCTCGTG
* *
8722165 CAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAAAATCGATGCCACTGTCCCAGACAG-
1 CAATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAAAATCGATGCCACTGACCCAGAC-GT
8722229 GGTCTTACACAAAATCATATA
65 GGTCTTACACAAAATCATATA
* **
8722250 CAATGCCAATGTCCCAAAACATGGTCTTACACGTAAATCACGAATCGATGCCAAC-GACCCAGAC
1 CAATGCCAACGTCCC-AAACATGGTCTTACACGT-AATCAAAAATCGATGCC-ACTGACCCAGAC
8722314 GTGGTCTTACA
63 GTGGTCTTACA
8722325 AAATAACACA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
85 14 0.21
86 18 0.27
87 32 0.48
88 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (85 bp):
CAATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAAAATCGATGCCACTGACCCAGACGTG
GTCTTACACAAAATCATATA
Found at i:8723331 original size:26 final size:26
Alignment explanation
Indices: 8723289--8723341 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
8723279 TTATTTTTAT
8723289 TATCATTAATAACATAAT-TACTAAAC
1 TATCATTAATAACATAATATA-TAAAC
*
8723315 TATCCTTAATGAA-ATAATATATAAAC
1 TATCATTAAT-AACATAATATATAAAC
8723341 T
1 T
8723342 TAATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (26 bp):
TATCATTAATAACATAATATATAAAC
Found at i:8728990 original size:42 final size:42
Alignment explanation
Indices: 8728878--8729039 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 42
8728868 CATAAGCTCG
* * * *
8728878 TACAATGCCAATGTCCCGGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
* * * * *
8728920 TATCGATGCCACTGTTCCAGACAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
*
8728963 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA--AA
* ** *
8729008 T-CGATGCCAACATCCCAGACGTGGTCTTACAC
1 TACAATGCCAATGTCCCAGACATGGTCTTACAC
8729040 AATAATACAT
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.30
43 39 0.41
44 26 0.27
45 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAA
Found at i:8729035 original size:86 final size:85
Alignment explanation
Indices: 8728878--8729039 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
8728868 CATAAGCTCG
** * * * *
8728878 TACAATGCCAATGTCCCGGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTTCCAGACA
1 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACA
8728943 GGGTCTTACACGAAATCATA
66 GGGTCTTACACGAAATCATA
*
8728963 TACAATGCCAATGTCCCAAACATGGTCTTACACGTAAATCACGA-ATCGATGCCAAC-ATCCCAG
1 TACAATGCCAATGTCCCAAACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCCAG
8729026 AC-GTGGTCTTACAC
63 ACAG-GGTCTTACAC
8729040 AATAATACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 32 0.48
86 31 0.47
87 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
TACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACA
GGGTCTTACACGAAATCATA
Found at i:8730010 original size:26 final size:26
Alignment explanation
Indices: 8729968--8730020 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
8729958 TTATTTTTAT
8729968 TATCATTAATAACATAAT-TAGTAAAC
1 TATCATTAATAACATAATATA-TAAAC
*
8729994 TATCCTTAATGAA-ATAATATATAAAC
1 TATCATTAAT-AACATAATATATAAAC
8730020 T
1 T
8730021 TAATAATGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (26 bp):
TATCATTAATAACATAATATATAAAC
Found at i:8734656 original size:20 final size:20
Alignment explanation
Indices: 8734631--8734668 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8734621 ACTAGGCTCA
*
8734631 TTCAACTAGTAGTTGGGTGG
1 TTCAACTAGTAATTGGGTGG
8734651 TTCAACTAGTAATTGGGT
1 TTCAACTAGTAATTGGGT
8734669 CTTAGTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (20 bp):
TTCAACTAGTAATTGGGTGG
Found at i:8734727 original size:13 final size:13
Alignment explanation
Indices: 8734709--8734733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8734699 ATTTACAATC
8734709 TCAAGTTCAATTT
1 TCAAGTTCAATTT
8734722 TCAAGTTCAATT
1 TCAAGTTCAATT
8734734 AGCCATTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:8735362 original size:20 final size:21
Alignment explanation
Indices: 8735328--8735366 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8735318 TTATAATATC
*
8735328 ATAAACAATATGAATAAAAAA
1 ATAAACAATAGGAATAAAAAA
8735349 ATAAA-AATAGGAATAAAA
1 ATAAACAATAGGAATAAAA
8735367 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
ATAAACAATAGGAATAAAAAA
Found at i:8736666 original size:24 final size:24
Alignment explanation
Indices: 8736634--8736703 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
8736624 GGATAAGAAA
* *
8736634 ATACAGCACTATGTGTGCAAGGCT
1 ATACGGCACTATGTGTGCAAGACT
*
8736658 ATACGGCACTATGTGTGCAAGATT
1 ATACGGCACTATGTGTGCAAGACT
* *
8736682 ACATGGCACTATGTGTGCAAGA
1 ATACGGCACTATGTGTGCAAGA
8736704 AAACGTAGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (24 bp):
ATACGGCACTATGTGTGCAAGACT
Found at i:8736714 original size:24 final size:24
Alignment explanation
Indices: 8736638--8736749 Score: 88
Period size: 24 Copynumber: 4.6 Consensus size: 24
8736628 AAGAAAATAC
*
8736638 AGCACTATGTGTGCAAGGCTATACG-
1 AGCACTATGTGTGCAA-G-AATACGT
* *
8736663 -GCACTATGTGTGCAAGATTACAT
1 AGCACTATGTGTGCAAGAATACGT
* *
8736686 GGCACTATGTGTGCAAGAAAACGT
1 AGCACTATGTGTGCAAGAATACGT
* *
8736710 AGCACTAAGTGTGC--GAATAAGT
1 AGCACTATGTGTGCAAGAATACGT
8736732 AAGACTACTATGTGTGCA
1 -AG-C-ACTATGTGTGCA
8736750 GACTTTCAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
22 9 0.13
23 3 0.04
24 48 0.69
25 10 0.14
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (24 bp):
AGCACTATGTGTGCAAGAATACGT
Found at i:8743151 original size:20 final size:21
Alignment explanation
Indices: 8743117--8743155 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8743107 TTATAATATC
*
8743117 ATAAACAATATGAATAAAAAA
1 ATAAACAATAGGAATAAAAAA
8743138 ATAAA-AATAGGAATAAAA
1 ATAAACAATAGGAATAAAA
8743156 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (21 bp):
ATAAACAATAGGAATAAAAAA
Found at i:8744743 original size:72 final size:72
Alignment explanation
Indices: 8744667--8744809 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
8744657 ATATATAATG
* *
8744667 CTTGGGGAGAGAGAAAGAAGGGAAAGGTAATCGGCTCAATTAGTATATAATTGAACAAAGATATA
1 CTTGGGAAGAGAGAAAGAAGAGAAAGGTAATCGGCTCAATTAGTATATAATTGAACAAAGATATA
8744732 AATTAGA
66 AATTAGA
8744739 CTTGGGAAGAGAGAAAGAAGAGAAAGGTAATCGGCTCAATTAGTATATAATTGAACAAAGATATA
1 CTTGGGAAGAGAGAAAGAAGAGAAAGGTAATCGGCTCAATTAGTATATAATTGAACAAAGATATA
8744804 AATTAG
66 AATTAG
8744810 TGATAAATGA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.45, C:0.07, G:0.25, T:0.22
Consensus pattern (72 bp):
CTTGGGAAGAGAGAAAGAAGAGAAAGGTAATCGGCTCAATTAGTATATAATTGAACAAAGATATA
AATTAGA
Found at i:8745475 original size:144 final size:144
Alignment explanation
Indices: 8745215--8745503 Score: 569
Period size: 144 Copynumber: 2.0 Consensus size: 144
8745205 AGTTACGAAT
8745215 TCATCGCATCTTTTGACAAACTTTTTGGTACTTTTGTTTAAAACTCTAGTAGACATTATGGCATG
1 TCATCGCATCTTTTGACAAACTTTTTGGTACTTTTGTTTAAAACTCTAGTAGACATTATGGCATG
8745280 TATAGAATAATATTTTGGGAGGTTTGCTATTTTGATAGTATTGTATATAAAGCCATGCGAATATG
66 TATAGAATAATATTTTGGGAGGTTTGCTATTTTGATAGTATTGTATATAAAGCCATGCGAATATG
8745345 GCTAAAGTTCTATG
131 GCTAAAGTTCTATG
*
8745359 TCATCGCATCTTTTGACAACCTTTTTGGTACTTTTGTTTAAAACTCTAGTAGACATTATGGCATG
1 TCATCGCATCTTTTGACAAACTTTTTGGTACTTTTGTTTAAAACTCTAGTAGACATTATGGCATG
8745424 TATAGAATAATATTTTGGGAGGTTTGCTATTTTGATAGTATTGTATATAAAGCCATGCGAATATG
66 TATAGAATAATATTTTGGGAGGTTTGCTATTTTGATAGTATTGTATATAAAGCCATGCGAATATG
8745489 GCTAAAGTTCTATG
131 GCTAAAGTTCTATG
8745503 T
1 T
8745504 ATGGAATTGA
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (144 bp):
TCATCGCATCTTTTGACAAACTTTTTGGTACTTTTGTTTAAAACTCTAGTAGACATTATGGCATG
TATAGAATAATATTTTGGGAGGTTTGCTATTTTGATAGTATTGTATATAAAGCCATGCGAATATG
GCTAAAGTTCTATG
Found at i:8745781 original size:136 final size:136
Alignment explanation
Indices: 8745537--8745807 Score: 515
Period size: 136 Copynumber: 2.0 Consensus size: 136
8745527 ATAAATCTTT
*
8745537 AAGTGTAATCAACTTGACATATAAGTTCGTATCGTGATATGAGTGTGATTATGTTATACTTGAAC
1 AAGTGTAATCAACTTCACATATAAGTTCGTATCGTGATATGAGTGTGATTATGTTATACTTGAAC
8745602 TAACATGTTAAGCATTTGAGATATATATTATGTATGTGTATTCGATCAAGAGGAGAAAAATGACC
66 TAACATGTTAAGCATTTGAGATATATATTATGTATGTGTATTCGATCAAGAGGAGAAAAATGACC
8745667 AAATGG
131 AAATGG
* *
8745673 AAGTGTAATCAACTTCACATATAAGTTCGTATTGTGATATGAGTGTGATTATGTTATGCTTGAAC
1 AAGTGTAATCAACTTCACATATAAGTTCGTATCGTGATATGAGTGTGATTATGTTATACTTGAAC
8745738 TAACATGTTAAGCATTTGAGATATATATTATGTATGTGTATTCGATCAAGAGGAGAAAAATGACC
66 TAACATGTTAAGCATTTGAGATATATATTATGTATGTGTATTCGATCAAGAGGAGAAAAATGACC
8745803 AAATG
131 AAATG
8745808 AATATAAAAG
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (136 bp):
AAGTGTAATCAACTTCACATATAAGTTCGTATCGTGATATGAGTGTGATTATGTTATACTTGAAC
TAACATGTTAAGCATTTGAGATATATATTATGTATGTGTATTCGATCAAGAGGAGAAAAATGACC
AAATGG
Found at i:8754849 original size:45 final size:45
Alignment explanation
Indices: 8754719--8754933 Score: 280
Period size: 45 Copynumber: 4.9 Consensus size: 45
8754709 TTTTATCAAA
* * * **
8754719 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* * *
8754761 TCACTGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
8754804 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
8754849 TCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
8754894 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
8754934 GTACTGCACA
Statistics
Matches: 153, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
41 8 0.05
42 23 0.15
43 12 0.08
44 14 0.09
45 96 0.63
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:8760968 original size:46 final size:46
Alignment explanation
Indices: 8760901--8761121 Score: 271
Period size: 46 Copynumber: 4.8 Consensus size: 46
8760891 GTGTGCTCTC
* *
8760901 TGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
8760947 TGATATGAAATGAATAAGACCATGGTAGAAAGATATCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
8760993 TGATATGAAATGAGTAAGACCGTGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * * *
8761039 TGACGGGAAAATGAATAAGACAATGGTTGAAAGGTACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* ** * *
8761086 TGACAAAAAATGAGTAAAACCATAGTTGAAAGATAC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
8761122 TATGACATCA
Statistics
Matches: 148, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
46 109 0.74
47 39 0.26
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:8761097 original size:93 final size:92
Alignment explanation
Indices: 8760909--8761121 Score: 282
Period size: 93 Copynumber: 2.3 Consensus size: 92
8760899 TCTGATATGG
* * * *
8760909 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTA
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACAATGGTA
* * * **
8760974 GAAAGATATCATGGCAACCTGATATGA
66 GAAAGATACCATGGCAACATGACAAAA
* *
8761001 AATGAGTAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGACAATGGT
1 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGACAATGGT
* *
8761066 TGAAAGGTACCATGGCAACATGACAAAA
65 AGAAAGATACCATGGCAACATGACAAAA
* *
8761094 AATGAGTAAAACCATAGTTGAAAGATAC
1 AATGAGTAAGACCATGGTTGAAAGATAC
8761122 TATGACATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
92 40 0.38
93 64 0.62
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (92 bp):
AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACAATGGTA
GAAAGATACCATGGCAACATGACAAAA
Found at i:8764161 original size:25 final size:25
Alignment explanation
Indices: 8764132--8764181 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8764122 TTGCTCATAA
*
8764132 CTCGAGCCTCTCTCTTAGCTTGTTT
1 CTCGAGCATCTCTCTTAGCTTGTTT
8764157 CTCGAGCATCTCTCTTAGCTTGTTT
1 CTCGAGCATCTCTCTTAGCTTGTTT
8764182 TCTTTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.10, C:0.30, G:0.16, T:0.44
Consensus pattern (25 bp):
CTCGAGCATCTCTCTTAGCTTGTTT
Found at i:8771401 original size:44 final size:43
Alignment explanation
Indices: 8771256--8771422 Score: 142
Period size: 44 Copynumber: 3.9 Consensus size: 43
8771246 GAACATATAT
* * * * **
8771256 AATGCCAACGTCCCAGACGTGGTCTTTCATGT-AGTCAAACATC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAA-ATC
* * * * * *
8771299 GATGCCACTGTCCCAGACAGGGTCTTACATG-AAATC-AGATAC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAAT-C
*
8771341 AATGCCGATGTCCCAGACATGGTCTTACACGTAAAACAAAAGTC
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAA-TC
** *
8771385 AATGCCAATGTCCCAGATGTGGTCTTACACGCAAAACA
1 AATGCCAATGTCCCAGACATGGTCTTACACGTAAAACA
8771423 GGTATTGAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 28 0.28
43 32 0.32
44 37 0.37
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAATC
Found at i:8774310 original size:73 final size:73
Alignment explanation
Indices: 8774198--8774489 Score: 575
Period size: 73 Copynumber: 4.0 Consensus size: 73
8774188 CAGTTTATTA
8774198 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
1 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
8774263 CATTAAAG
66 CATTAAAG
8774271 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
1 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
8774336 CATTAAAG
66 CATTAAAG
8774344 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
1 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
8774409 CATTAAAG
66 CATTAAAG
*
8774417 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTAAAAAAAATCAATA
1 AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
8774482 CATTAAAG
66 CATTAAAG
8774490 CTAAACATCT
Statistics
Matches: 218, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 218 1.00
ACGTcount: A:0.63, C:0.08, G:0.07, T:0.22
Consensus pattern (73 bp):
AACAAAGGAAATGAAATAACTAATAGAAATTTAAAACAACAAAATTAAATTTAAAAAAATCAATA
CATTAAAG
Found at i:8781603 original size:13 final size:13
Alignment explanation
Indices: 8781585--8781618 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
8781575 TAAACAGAAG
8781585 GTGAAAGTGATCC
1 GTGAAAGTGATCC
8781598 GTGAAAGTGATCC
1 GTGAAAGTGATCC
8781611 GTGAAAGT
1 GTGAAAGT
8781619 TTAAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (13 bp):
GTGAAAGTGATCC
Found at i:8789784 original size:40 final size:39
Alignment explanation
Indices: 8789740--8789911 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 39
8789730 TACCATTTCA
* * * * *
8789740 CACACTTAATGCTATTTATAGACAAAGATGTTTTGAATTG
1 CACACTTAGTGCTACTTATAGCCAAA-ATATTTTGAATCG
* *
8789780 CACACTTAGTGCTATTTATAGCCAAATCTATTTTGAATCG
1 CACACTTAGTGCTACTTATAGCCAAA-ATATTTTGAATCG
*
8789820 CACACTTAGTGCTACTTATAGCAAAAATTATTTTGAATCG
1 CACACTTAGTGCTACTTATAGCCAAAA-TATTTTGAATCG
* *
8789860 CACACTTAGTGTTACTTATAGCCGAAATTATTTTGAATCG
1 CACACTTAGTGCTACTTATAGCC-AAAATATTTTGAATCG
8789900 CACACTTAGTGC
1 CACACTTAGTGC
8789912 CAAATGCAGT
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 114 0.97
41 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (39 bp):
CACACTTAGTGCTACTTATAGCCAAAATATTTTGAATCG
Found at i:8789908 original size:80 final size:80
Alignment explanation
Indices: 8789740--8789911 Score: 249
Period size: 80 Copynumber: 2.1 Consensus size: 80
8789730 TACCATTTCA
* * * * * *
8789740 CACACTTAATGCTATTTATAGACAAAGATGTTTTGAATTGCACACTTAGTGCTATTTATAGCCAA
1 CACACTTAGTGCTACTTATAGACAAAAATATTTTGAATCGCACACTTAGTGCTACTTATAGCCAA
8789805 ATCTATTTTGAATCG
66 ATCTATTTTGAATCG
*
8789820 CACACTTAGTGCTACTTATAG-CAAAAATTATTTTGAATCGCACACTTAGTGTTACTTATAGCCG
1 CACACTTAGTGCTACTTATAGACAAAAA-TATTTTGAATCGCACACTTAGTGCTACTTATAGCC-
8789884 AAAT-TATTTTGAATCG
64 AAATCTATTTTGAATCG
8789900 CACACTTAGTGC
1 CACACTTAGTGC
8789912 CAAATGCAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
79 5 0.06
80 74 0.89
81 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (80 bp):
CACACTTAGTGCTACTTATAGACAAAAATATTTTGAATCGCACACTTAGTGCTACTTATAGCCAA
ATCTATTTTGAATCG
Found at i:8792212 original size:22 final size:22
Alignment explanation
Indices: 8792185--8792228 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8792175 TAAATTGTGA
*
8792185 TAGATTTGAAAGTTTCAGGTTT
1 TAGATTTGAAAATTTCAGGTTT
*
8792207 TAGATTTGAAAATTTCGGGTTT
1 TAGATTTGAAAATTTCAGGTTT
8792229 AGGGACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (22 bp):
TAGATTTGAAAATTTCAGGTTT
Found at i:8793153 original size:21 final size:22
Alignment explanation
Indices: 8793108--8793162 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
8793098 TGTAGGGCTC
*
8793108 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
8793130 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
*
8793151 ACACGCTCGTGT
1 ACACGCCCGTGT
8793163 TGGAGGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Done.