Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold111
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: 1194829
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 272571 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:605373 original size:15 final size:15
Alignment explanation
Indices: 605353--605383 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
605343 ATTTCGTTTG
*
605353 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
605368 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
605383 G
1 G
605384 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:607215 original size:21 final size:21
Alignment explanation
Indices: 607186--607230 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
607176 AAGTTTTCAT
*
607186 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
607206 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
607228 TTT
1 TTT
607231 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:610345 original size:3 final size:3
Alignment explanation
Indices: 610337--610361 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
610327 TCCGAGTCAC
610337 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
610362 TTCCTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:612692 original size:13 final size:13
Alignment explanation
Indices: 612674--612699 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
612664 CAATTTTTTG
612674 TGTATCGATACAT
1 TGTATCGATACAT
612687 TGTATCGATACAT
1 TGTATCGATACAT
612700 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613119 original size:13 final size:13
Alignment explanation
Indices: 613082--613126 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
613072 GATCCTAACA
613082 GTATCGATACAAT
1 GTATCGATACAAT
613095 -T-TC-AT-C-AT
1 GTATCGATACAAT
613103 GTATCGATACAAT
1 GTATCGATACAAT
613116 GTATCGATACA
1 GTATCGATACA
613127 TTGTCCCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.15
11 4 0.15
12 2 0.07
13 13 0.48
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:613142 original size:33 final size:34
Alignment explanation
Indices: 613082--613147 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
613072 GATCCTAACA
*
613082 GTATCGATACAATTTCATCATGTATCGATACAAT
1 GTATCGATACAATTTCACCATGTATCGATACAAT
613116 GTATCGATAC-ATTGTC-CCATGTATCGATACAA
1 GTATCGATACAATT-TCACCATGTATCGATACAA
613148 ATAGTGATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (34 bp):
GTATCGATACAATTTCACCATGTATCGATACAAT
Found at i:613220 original size:19 final size:19
Alignment explanation
Indices: 613176--613231 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
613166 CTGCCAGTTT
*
613176 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
613196 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
613215 CATGTATCGATACAATG
1 CATGTATCGATACAATG
613232 TATTGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:623789 original size:101 final size:101
Alignment explanation
Indices: 623614--623806 Score: 386
Period size: 101 Copynumber: 1.9 Consensus size: 101
623604 TTACGGGTTT
623614 AAACTCAAGTCATGGACATCTGAATGTCCGTGACAAAAGAAAAAGAGTGGTCTGAGCATCACGAA
1 AAACTCAAGTCATGGACATCTGAATGTCCGTGACAAAAGAAAAAGAGTGGTCTGAGCATCACGAA
623679 CTCATTTACACAGTCCCGGAGTAGTTTGGGATGATG
66 CTCATTTACACAGTCCCGGAGTAGTTTGGGATGATG
623715 AAACTCAAGTCATGGACATCTGAATGTCCGTGACAAAAGAAAAAGAGTGGTCTGAGCATCACGAA
1 AAACTCAAGTCATGGACATCTGAATGTCCGTGACAAAAGAAAAAGAGTGGTCTGAGCATCACGAA
623780 CTCATTTACACAGTCCCGGAGTAGTTT
66 CTCATTTACACAGTCCCGGAGTAGTTT
623807 CGATTTCCTA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (101 bp):
AAACTCAAGTCATGGACATCTGAATGTCCGTGACAAAAGAAAAAGAGTGGTCTGAGCATCACGAA
CTCATTTACACAGTCCCGGAGTAGTTTGGGATGATG
Found at i:625205 original size:20 final size:20
Alignment explanation
Indices: 625179--625250 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
625169 AAGATAGAAA
625179 GTATCGATACATTGAAAAAT
1 GTATCGATACATTGAAAAAT
* * ***
625199 TTATCGATACATTCATGCAT
1 GTATCGATACATTGAAAAAT
*
625219 GTATCAATACATTGAAAAAT
1 GTATCGATACATTGAAAAAT
625239 GTATCGATACAT
1 GTATCGATACAT
625251 CTAGGTAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
GTATCGATACATTGAAAAAT
Found at i:630756 original size:13 final size:13
Alignment explanation
Indices: 630748--630773 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
630738 TCATATCATA
630748 CATATATATATAT
1 CATATATATATAT
630761 CATATATATATAT
1 CATATATATATAT
630774 ACAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CATATATATATAT
Found at i:630762 original size:17 final size:17
Alignment explanation
Indices: 630740--630774 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
630730 GTGTACATTC
630740 ATATCATACATATATAT
1 ATATCATACATATATAT
*
630757 ATATCATATATATATAT
1 ATATCATACATATATAT
630774 A
1 A
630775 CAAAATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATCATACATATATAT
Found at i:633524 original size:15 final size:15
Alignment explanation
Indices: 633501--633534 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
633491 AAATAAAATC
*
633501 AAAACCAAAACCAAA
1 AAAACCAAAAACAAA
*
633516 AAAATCAAAAACAAA
1 AAAACCAAAAACAAA
633531 AAAA
1 AAAA
633535 AAAGAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAACCAAAAACAAA
Found at i:633537 original size:21 final size:21
Alignment explanation
Indices: 633488--633537 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
633478 AAAGGAAAAG
* *
633488 AAAAAATAAAATCAAAACCAA
1 AAAAAAAAAAATCAAAAACAA
**
633509 AACCAAAAAAATCAAAAACAA
1 AAAAAAAAAAATCAAAAACAA
633530 AAAAAAAA
1 AAAAAAAA
633538 GAAAAAAGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAAATCAAAAACAA
Found at i:633542 original size:17 final size:17
Alignment explanation
Indices: 633513--633568 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
633503 AACCAAAACC
*
633513 AAAAAAATCAAAAACAA
1 AAAAAAAACAAAAACAA
*
633530 AAAAAAAAGAAAAA-AGA
1 AAAAAAAACAAAAACA-A
* *
633547 AAAGAAACACAAAAAGAA
1 AAA-AAAAACAAAAACAA
633565 AAAA
1 AAAA
633569 TCATACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.53
18 13 0.41
19 1 0.03
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (17 bp):
AAAAAAAACAAAAACAA
Found at i:635188 original size:17 final size:18
Alignment explanation
Indices: 635166--635199 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
635156 AGATATTGCC
635166 TTAATTTT-TTAAAAATT
1 TTAATTTTATTAAAAATT
635183 TTAATTTTATTAAAAAT
1 TTAATTTTATTAAAAAT
635200 ACGTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTTTATTAAAAATT
Found at i:635646 original size:467 final size:467
Alignment explanation
Indices: 634773--635676 Score: 1799
Period size: 467 Copynumber: 1.9 Consensus size: 467
634763 TTACATGTTA
634773 ACTTAAATTTTAATTTTTATTCAATGTCAATATTTGGTATTTAATTATAATTCCAATTTAATATT
1 ACTTAAATTTTAATTTTTATTCAATGTCAATATTTGGTATTTAATTATAATTCCAATTTAATATT
634838 CCCTGATAGGAAAATTAGTTTTTAACATTTTTGAAAGTAAAAACATCCTTCATACCATCTAGACG
66 CCCTGATAGGAAAATTAGTTTTTAACATTTTTGAAAGTAAAAACATCCTTCATACCATCTAGACG
634903 ACTAGAAGAACACGAAAATTTTCTTTATTATTCTTTTTCATACCCTATTGGAGAGTCAGAGGAAT
131 ACTAGAAGAACACGAAAATTTTCTTTATTATTCTTTTTCATACCCTATTGGAGAGTCAGAGGAAT
634968 ACGAAAAGTTTCAAAAATTAAAATATCTGTTATTAGCCACTAGATGTTTGGAGGAATACAAAAGG
196 ACGAAAAGTTTCAAAAATTAAAATATCTGTTATTAGCCACTAGATGTTTGGAGGAATACAAAAGG
635033 TTTTATTTTTTCAAAATTTGAAAAATCTTGATTTTTATTTTAAAAAGGATATCTTGTTATTAAAA
261 TTTTATTTTTTCAAAATTTGAAAAATCTTGATTTTTATTTTAAAAAGGATATCTTGTTATTAAAA
635098 TAATCTGTAAAACCCCTCTCATATTTTAGAAGAAACTCCATGTATTATTTTAACTTGGAGATATT
326 TAATCTGTAAAACCCCTCTCATATTTTAGAAGAAACTCCATGTATTATTTTAACTTGGAGATATT
635163 GCCTTAATTTTTTAAAAATTTTAATTTTATTAAAAATACGTATTAAAATTTTTAATAATAAAAAT
391 GCCTTAATTTTTTAAAAATTTTAATTTTATTAAAAATACGTATTAAAATTTTTAATAATAAAAAT
635228 TTTATTAAAAAT
456 TTTATTAAAAAT
635240 ACTTAAATTTTAATTTTTATTCAATGTCAATATTTGGTATTTAATTATAATTCCAATTTAATATT
1 ACTTAAATTTTAATTTTTATTCAATGTCAATATTTGGTATTTAATTATAATTCCAATTTAATATT
635305 CCCTGATAGGAAAATTAGTTTTTAACATTTTTGAAAGTAAAAACATCCTTCATACCATCTAGACG
66 CCCTGATAGGAAAATTAGTTTTTAACATTTTTGAAAGTAAAAACATCCTTCATACCATCTAGACG
635370 ACTAGAAGAACACGAAAATTTTCTTTATTATTCTTTTTCATACCCTATTGGAGAGTCAGAGGAAT
131 ACTAGAAGAACACGAAAATTTTCTTTATTATTCTTTTTCATACCCTATTGGAGAGTCAGAGGAAT
635435 ACGAAAAGTTTCAAAAATTAAAATATCTGTTATTAGCCACTAGATGTTTGGAGGAATACAAAAGG
196 ACGAAAAGTTTCAAAAATTAAAATATCTGTTATTAGCCACTAGATGTTTGGAGGAATACAAAAGG
635500 TTTTATTTTTTCAAAATTTGAAAAATCTTGATTTTTATTTTAAAAAGGATATCTTGTTATTAAAA
261 TTTTATTTTTTCAAAATTTGAAAAATCTTGATTTTTATTTTAAAAAGGATATCTTGTTATTAAAA
635565 TAATCTGTAAAACCCCTCTCATATTTTAGAAGAAACTCCATGTATTATTTTAACTTGGAGATATT
326 TAATCTGTAAAACCCCTCTCATATTTTAGAAGAAACTCCATGTATTATTTTAACTTGGAGATATT
*
635630 GTCTTAATTTTTTAAAAATTTTAATTTTATTAAAAATACGTATTAAA
391 GCCTTAATTTTTTAAAAATTTTAATTTTATTAAAAATACGTATTAAA
635677 GTATCCTAAA
Statistics
Matches: 436, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
467 436 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (467 bp):
ACTTAAATTTTAATTTTTATTCAATGTCAATATTTGGTATTTAATTATAATTCCAATTTAATATT
CCCTGATAGGAAAATTAGTTTTTAACATTTTTGAAAGTAAAAACATCCTTCATACCATCTAGACG
ACTAGAAGAACACGAAAATTTTCTTTATTATTCTTTTTCATACCCTATTGGAGAGTCAGAGGAAT
ACGAAAAGTTTCAAAAATTAAAATATCTGTTATTAGCCACTAGATGTTTGGAGGAATACAAAAGG
TTTTATTTTTTCAAAATTTGAAAAATCTTGATTTTTATTTTAAAAAGGATATCTTGTTATTAAAA
TAATCTGTAAAACCCCTCTCATATTTTAGAAGAAACTCCATGTATTATTTTAACTTGGAGATATT
GCCTTAATTTTTTAAAAATTTTAATTTTATTAAAAATACGTATTAAAATTTTTAATAATAAAAAT
TTTATTAAAAAT
Found at i:635655 original size:17 final size:18
Alignment explanation
Indices: 635633--635666 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
635623 AGATATTGTC
635633 TTAATTTT-TTAAAAATT
1 TTAATTTTATTAAAAATT
635650 TTAATTTTATTAAAAAT
1 TTAATTTTATTAAAAAT
635667 ACGTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTTTATTAAAAATT
Found at i:637835 original size:21 final size:21
Alignment explanation
Indices: 637809--637863 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
637799 GTTACAAGCA
**
637809 ATGTATCGATACAATT-TCATT
1 ATGTATCGATACAATTGTC-CC
*
637830 ATGTATTGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
637850 ATGTATCGATACAA
1 ATGTATCGATACAA
637864 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Found at i:638589 original size:52 final size:52
Alignment explanation
Indices: 638491--638592 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
638481 GTTTTCATTT
* * *
638491 TTCTCCCCCTTAATTAAAGATTTTCTCCTCTTTAAGAAAATCAAAAAAAAAA
1 TTCTCCCCCTTAATCAAAGATTTTCTCCCCTTTAACAAAATCAAAAAAAAAA
*
638543 TTCTCCCCCTTAATCAAAGCATTTCTCTCCCCTTT-TCAAAAT-AAAAAAAA
1 TTCTCCCCCTTAATCAAAG-ATTT-TCTCCCCTTTAACAAAATCAAAAAAAA
638593 TTATTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 26 0.59
53 9 0.20
54 9 0.20
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.32
Consensus pattern (52 bp):
TTCTCCCCCTTAATCAAAGATTTTCTCCCCTTTAACAAAATCAAAAAAAAAA
Found at i:640455 original size:13 final size:13
Alignment explanation
Indices: 640437--640465 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
640427 AAATAGTACC
640437 CAATGTATCGATA
1 CAATGTATCGATA
640450 CAATGTATCGATA
1 CAATGTATCGATA
640463 CAA
1 CAA
640466 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:641615 original size:13 final size:13
Alignment explanation
Indices: 641597--641622 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
641587 TACAGCAAGT
641597 ATGTATCGATACA
1 ATGTATCGATACA
641610 ATGTATCGATACA
1 ATGTATCGATACA
641623 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:643881 original size:21 final size:21
Alignment explanation
Indices: 643848--643892 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
643838 TTGCAAGTTG
*
643848 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
643870 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
643890 AAA
1 AAA
643893 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:647823 original size:13 final size:13
Alignment explanation
Indices: 647805--647830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
647795 ACATTTTTCT
647805 TTGTATCGATACA
1 TTGTATCGATACA
647818 TTGTATCGATACA
1 TTGTATCGATACA
647831 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:650391 original size:13 final size:13
Alignment explanation
Indices: 650373--650398 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
650363 TACAGCAAGT
650373 ATGTATCGATACA
1 ATGTATCGATACA
650386 ATGTATCGATACA
1 ATGTATCGATACA
650399 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:657846 original size:107 final size:106
Alignment explanation
Indices: 657703--657934 Score: 259
Period size: 107 Copynumber: 2.2 Consensus size: 106
657693 AATAAAGTCG
** * * * *** *
657703 GGGTTGGAGTATCCCCTTTGAAATAACGGGGTTGGAGTATCCC-CGATTGTGAGAAATTGGTGTT
1 GGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTA-CCCTCGATTATGAAAAATCAATATT
* *
657767 TTGGAAATAAAATCGAGGTTGAAGTATCCCCTCGGAAATAAC
65 TTAGAAATAAAACCGAGGTTGAAGTATCCCCTCGGAAATAAC
*
657809 GGGATTGGAGTATCCCCGATGACATAACAGGGTTGGAGTACCCTCGATTATGAAAAATCAATATT
1 GGG-TTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACCCTCGATTATGAAAAATCAATATT
* * * * ** *
657874 TTAGATATAAAGCCGGGGTTGGAGTATCTTCTCGGAAATAAA
65 TTAGAAATAAAACCGAGGTTGAAGTATCCCCTCGGAAATAAC
*
657916 GGGTTGGAGTACCCCCGAT
1 GGGTTGGAGTATCCCCGAT
657935 TATGAAAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
106 21 0.20
107 83 0.80
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (106 bp):
GGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACCCTCGATTATGAAAAATCAATATTT
TAGAAATAAAACCGAGGTTGAAGTATCCCCTCGGAAATAAC
Found at i:657943 original size:78 final size:81
Alignment explanation
Indices: 657813--658009 Score: 231
Period size: 82 Copynumber: 2.4 Consensus size: 81
657803 AATAACGGGA
* * * * *
657813 TTGGAGTATCCCC-GATGACATAACAGGGTTGGAGTACCCTCGATTATG-AAAAATCAATA-TTT
1 TTGGAGTATCCCCTCA-GAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAAAACAACATTTT
**
657875 TAGATATAAAGCCGGGG
65 TAGATATAAAGCCAAGG
** *
657892 TTGGAGTATCTTCTCGGAAATAA-AGGGTTGGAGTACCCCCGATTATGAAAAAAAAACAACATTT
1 TTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTACCCCCGATTATG--AAAAAAACAACATTT
657956 TTAGATATAAAGCCAAGG
64 TTAGATATAAAGCCAAGG
**
657974 TTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTA
1 TTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTA
658010 TCCTCGATGA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
78 23 0.23
79 17 0.17
81 9 0.09
82 38 0.39
83 11 0.11
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (81 bp):
TTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAAAACAACATTTTT
AGATATAAAGCCAAGG
Found at i:658012 original size:28 final size:30
Alignment explanation
Indices: 657972--658042 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
657962 ATAAAGCCAA
*
657972 GGTTGGAGTATCCCCTC-A-GAAATAATGG
1 GGTTGGAGTATCCCCTCGATGAAATAACGG
658000 GGTTGGAGTAT--CCTCGATGAAATAACGG
1 GGTTGGAGTATCCCCTCGATGAAATAACGG
*
658028 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
658043 AATTGTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 4 0.11
27 1 0.03
28 30 0.81
30 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (30 bp):
GGTTGGAGTATCCCCTCGATGAAATAACGG
Found at i:659914 original size:20 final size:20
Alignment explanation
Indices: 659891--659963 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
659881 ACAATTCAAA
*
659891 GTATCAATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
659911 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
659932 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
659952 GTATCGATACAT
1 GTATCGATACAT
659964 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:659935 original size:21 final size:21
Alignment explanation
Indices: 659909--659984 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
659899 ACATGTTGCA
659909 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
659930 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
659950 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
659971 ATGTATCGATACAT
1 ATGTATCGATACAT
659985 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:659943 original size:41 final size:41
Alignment explanation
Indices: 659891--659984 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
659881 ACAATTCAAA
* *
659891 GTATCAATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
659932 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
659973 GTATCGATACAT
1 GTATCGATACAT
659985 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:660041 original size:13 final size:13
Alignment explanation
Indices: 660023--660048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
660013 TACAGCAAGT
660023 ATGTATCGATACA
1 ATGTATCGATACA
660036 ATGTATCGATACA
1 ATGTATCGATACA
660049 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:664130 original size:15 final size:15
Alignment explanation
Indices: 664110--664140 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
664100 TAAAAATGTC
*
664110 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
664125 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
664140 C
1 C
664141 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:666219 original size:13 final size:13
Alignment explanation
Indices: 666201--666239 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
666191 ACATTTTTCC
666201 TTGTATCGATACA
1 TTGTATCGATACA
666214 TTGTATCGATACA
1 TTGTATCGATACA
*
666227 CTGTATCGATACA
1 TTGTATCGATACA
666240 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:668636 original size:20 final size:20
Alignment explanation
Indices: 668613--668685 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
668603 ACAATTCAAA
668613 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
668633 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
668654 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
668674 GTATCGATACAT
1 GTATCGATACAT
668686 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:668657 original size:21 final size:21
Alignment explanation
Indices: 668631--668706 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
668621 ACATGTTGCA
668631 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
668652 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
668672 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
668693 ATGTATCGATACAT
1 ATGTATCGATACAT
668707 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:668664 original size:41 final size:41
Alignment explanation
Indices: 668613--668706 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
668603 ACAATTCAAA
*
668613 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
668654 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
668695 GTATCGATACAT
1 GTATCGATACAT
668707 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:668763 original size:13 final size:13
Alignment explanation
Indices: 668745--668770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
668735 TACAGCAAGT
668745 ATGTATCGATACA
1 ATGTATCGATACA
668758 ATGTATCGATACA
1 ATGTATCGATACA
668771 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:670345 original size:20 final size:19
Alignment explanation
Indices: 670320--670394 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
670310 AAAAATGCCT
*
670320 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATG-A
670340 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
670359 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
*
670380 AAATTTATCGATACA
1 AAATGTATCGATACA
670395 TCTGGGCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:670428 original size:13 final size:13
Alignment explanation
Indices: 670410--670439 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
670400 GCAAACCTAG
670410 AATGTATCGATAT
1 AATGTATCGATAT
670423 AATGTATCGATAT
1 AATGTATCGATAT
670436 AATG
1 AATG
670440 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:670789 original size:55 final size:55
Alignment explanation
Indices: 670637--670833 Score: 268
Period size: 55 Copynumber: 3.5 Consensus size: 55
670627 AATCCAAAAG
* ** *
670637 AAAAGGCATCCTGCTCTTTAAGGACTGGAAGTTGCCAACAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
670692 AAAATGAGAAGGCATCCTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 ---A--A-AAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
*
670753 AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
670808 AAAAGGCATCCTGCTCTTTGAGGACT
1 AAAAGGCATCCTGCTCTTTGAGGACT
670834 AAAGGGTGAA
Statistics
Matches: 125, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
55 74 0.59
56 1 0.01
58 2 0.02
60 1 0.01
61 47 0.38
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (55 bp):
AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:670811 original size:27 final size:27
Alignment explanation
Indices: 670730--670811 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 27
670720 GATTGGGAAG
670730 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA
* ** ** * * * **
670757 GGCGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACT-TGTGTGGGCTTTAAAA
670785 TGCCACCAACTTGTGTGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA
670812 GGCATCCTGC
Statistics
Matches: 34, Mismatches: 20, Indels: 2
0.61 0.36 0.04
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (27 bp):
TGCCACCAACTTGTGTGGGCTTTAAAA
Found at i:670935 original size:61 final size:61
Alignment explanation
Indices: 670840--671029 Score: 283
Period size: 61 Copynumber: 3.1 Consensus size: 61
670830 GACTAAAGGG
* * * * * *
670840 TGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGGGAAGTGCAACCAACCTGTGTGGGCTT
1 TGAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
*
670901 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
1 TGAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
*
670962 TGAAAAGA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
1 TGAAAGGAGAAA-GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
*
671023 TAAAAGG
1 TGAAAGG
671030 CGTCCTGCTC
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 3 0.03
61 114 0.97
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (61 bp):
TGAAAGGAGAAAGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTT
Found at i:671030 original size:216 final size:215
Alignment explanation
Indices: 670645--671243 Score: 910
Period size: 216 Copynumber: 2.8 Consensus size: 215
670635 AGAAAAGGCA
* * * * *
670645 TCCTGCTCTTTAAGGACT-GGAAGTTGCCAA-CAACTTGTGTGGGCTTTAAAATGAGAAGGCATC
1 TCCTACTCTTTGAGGACTGGGAAG-TG-CAACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATC
* * *
670708 CTGCTCTTTGAGGATTGGGAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCCTGCT
64 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTGCT
*
670768 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
129 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGAC
*
670833 TAAAGGGTGAAAGGAGAGAGCG
194 TAAAGGGCGAAAGGAGAGAGCG
*
670855 TCCTACTCTTTGAGGACTGGGAAGTGCAACCAACCTGTGTGGGCTTTGAAAGGAGAAAGCATCCT
1 TCCTACTCTTTGAGGACTGGGAAGTGCAACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCT
670920 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTGCTC
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAGGCGTCCTGCTC
*
670985 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAAGACT
130 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACT
*
671050 AAAGGGCGAAAGGAGAGAGTG
195 AAAGGGCGAAAGGAGAGAGCG
* * *
671071 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAAGCATCCT
1 TCCTACTCTTTGAGGACTGGGAAGTGCAACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCT
* * * *
671136 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAATGCATCCTGTTC
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGGCGTCCTGCTC
671201 TTTGAGGACTGGAAAATGCCACCAA-TT-TGTGGGCTTTGAAAAG
130 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG
671244 AAAAGGCGTC
Statistics
Matches: 358, Mismatches: 21, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
209 3 0.01
210 89 0.25
211 5 0.01
214 10 0.03
215 10 0.03
216 241 0.67
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (215 bp):
TCCTACTCTTTGAGGACTGGGAAGTGCAACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTGCTCT
TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTA
AAGGGCGAAAGGAGAGAGCG
Found at i:671061 original size:155 final size:155
Alignment explanation
Indices: 670902--671184 Score: 467
Period size: 155 Copynumber: 1.8 Consensus size: 155
670892 TGTGGGCTTT
*
670902 GAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 GAAAGGAGAAAGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
* *
670967 AGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
66 AGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
671032 TCCTGCTCTTTGAAGACTAAAGGGC
131 TCCTGCTCTTTGAAGACTAAAGGGC
* ** * * *
671057 GAAAGGAGAGAGTGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTGAAA
1 GAAAGGAGAAAGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
* *
671122 GGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
66 AGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
671185 AGAATGCATC
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 117 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (155 bp):
GAAAGGAGAAAGCATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
AGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
TCCTGCTCTTTGAAGACTAAAGGGC
Found at i:671160 original size:61 final size:61
Alignment explanation
Indices: 671071--671304 Score: 328
Period size: 61 Copynumber: 3.9 Consensus size: 61
671061 GGAGAGAGTG
* * *
671071 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAAGCA
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
* * *
671132 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAATGCA
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
** * * *
671193 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAA-TT-TGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
* * *
671252 TCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
671305 CGTCCTGCTC
Statistics
Matches: 154, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
59 49 0.32
60 4 0.03
61 101 0.66
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (61 bp):
TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCA
Found at i:671272 original size:120 final size:121
Alignment explanation
Indices: 671077--671304 Score: 359
Period size: 120 Copynumber: 1.9 Consensus size: 121
671067 AGTGTCCTAC
* * * *
671077 TCTTTGAGGACTGGGAAGTGCCACCAACTTTTGTGGGCTTTGAAAGGAAAAAGCATCCTGCTCTT
1 TCTTTGAGGACTGGAAAATGCCACCAAC-TTTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTT
* * *
671142 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAATGCATCCTGT
65 TAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCATCCTGT
* *
671199 TCTTTGAGGACTGGAAAATGCCACCAA-TTTGTGGGCTTTGAAAAGAAAAGGCGTCCTACTCTTT
1 TCTTTGAGGACTGGAAAATGCCACCAACTTTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTTT
671263 AAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
66 AAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
671305 CGTCCTGCTC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 72 0.74
122 25 0.26
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (121 bp):
TCTTTGAGGACTGGAAAATGCCACCAACTTTGTGGGCTTTGAAAAGAAAAAGCATCCTACTCTTT
AAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAATGCATCCTGT
Found at i:671333 original size:275 final size:277
Alignment explanation
Indices: 670840--671767 Score: 1251
Period size: 275 Copynumber: 3.3 Consensus size: 277
670830 GACTAAAGGG
* * * * *
670840 TGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGGGAAGTGCAACCAACCTGTGTGGGCTTTGAA
1 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAA
670905 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
66 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
*
670970 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
131 AAAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* * *
671035 TGCTCTTTGAAGACTAAAGGGCGAAAGGAGAGAGTGTCCTACTCTTTGAGGACTGGGAAGTGCCA
196 TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGAGAAGTGCCA
*
671100 CCAACTTTTGTGGGCTT
261 CCAACTTGTGTGGGCTT
* * *
671117 TGAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA
1 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAA
* *
671182 AGGAGAATGCATCCTGTTCTTTGAGGACTGGAAAATGCCACCAA-TT-TGTGGGCTTTGAAAAGA
66 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
* *
671245 AAAGGCGTCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
131 AAAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
*
671310 TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAGAAGTGCCA
196 TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGAGAAGTGCCA
671375 CCAACTTGTGTGGGCTT
261 CCAACTTGTGTGGGCTT
671392 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAA
1 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAA
*
671457 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGG-TTT----TG-
66 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * *
671516 AAAGGCATCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAATGGCGTCC
131 AAAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* ** * * * * *
671581 TGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
196 TGCTCTTTGAGGACT--AAAGGGCGA--AA--------GG---AGAGA-GCGTCCTACTCTTTGA
*
671646 GGATTGA-AAGGTGCCACCAACTTGTGTGGGCTT
245 GGACTGAGAA-GTGCCACCAACTTGTGTGGGCTT
* * * *
671679 TG-AA--AG---CCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCGCCAACTTGTGTGGGCTTTGA
1 TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTGA
671737 AAGGA-AAAGGCATCCTGCTCTTTGAGGACTG
65 AAGGAGAAA-GCATCCTGCTCTTTGAGGACTG
671768 AAAGGTGAGA
Statistics
Matches: 589, Mismatches: 41, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
271 74 0.13
272 1 0.00
273 6 0.01
275 262 0.44
276 7 0.01
277 105 0.18
280 6 0.01
281 71 0.12
283 2 0.00
284 2 0.00
286 7 0.01
287 46 0.08
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (277 bp):
TGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAA
AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
AAAGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGAGAAGTGCCA
CCAACTTGTGTGGGCTT
Found at i:671396 original size:214 final size:216
Alignment explanation
Indices: 671118--671683 Score: 650
Period size: 214 Copynumber: 2.6 Consensus size: 216
671108 TGTGGGCTTT
671118 GAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 GAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
* *
671183 GGAGAATGCATCCTGTTCTTTGAGGACTGGAAAATGCCACCAA-TT-TGTGGGCTTTGAAAAGA-
66 GGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAG
* *
671245 AAAGGCGTCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
131 AAA-GCATCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC
*
671310 TGCTCTTTGAGGACTAAAGGGC
195 TGCTCTTTAAGGACTAAAGGGC
* * * *
671332 GAAAGGAGAGAGCGTCCTGCTCTTTGAGGACT-GAGAAGTGCCACCAACTTGTGTGGGCTTTGAA
1 GAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGA-AAATGCCACCAACTTGTGTGGGCTTTGAA
* * *
671396 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGA
65 AGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
* * * * *
671461 GAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTGAAAGGCATCC
130 GAAAGCATCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC
**
671526 TGCTCTTTAAGGACTAGAAAATGC
195 TGCTCTTTAAGGACT--AAAGGGC
* ** * *
671550 CACCAACTTGTGTGGGCTTTAAATGGCGTCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTG
1 GA--AA--------GG----AAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG
* *
671615 TGTGGGCTTTG-AA--AG---GCATCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGT
52 TGTGGGCTTTGAAAGGAGAAAGCATCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGT
671673 GGGCTTTGAAA
116 GGGCTTTGAAA
671684 GCCGTCCTGC
Statistics
Matches: 303, Mismatches: 27, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
213 2 0.01
214 97 0.32
215 2 0.01
216 84 0.28
217 3 0.01
218 6 0.02
220 2 0.01
225 4 0.01
226 47 0.16
228 2 0.01
229 2 0.01
231 2 0.01
232 48 0.16
233 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (216 bp):
GAAAGGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
GGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAG
AAAGCATCCTACTCTTTAAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCT
GCTCTTTAAGGACTAAAGGGC
Found at i:671431 original size:61 final size:56
Alignment explanation
Indices: 671346--671771 Score: 508
Period size: 55 Copynumber: 7.4 Consensus size: 56
671336 GGAGAGAGCG
671346 TCCTGCTCTTTGAGGACT-GAGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTTGAAA--AG---GCA
*
671407 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA--AG---GCA
* *
671468 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGTTTTG-AAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
* * * * *
671523 TCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAATGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
* *
671578 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
* * *
671633 TCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAGCCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
*
671688 TCCTGCTCTTTGAGGACT-GAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-----GAAAAGGCA
671749 TCCTGCTCTTTGAGGACT-GAAAG
1 TCCTGCTCTTTGAGGACTGGAAAG
671772 GTGAGAAGAG
Statistics
Matches: 334, Mismatches: 20, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
54 5 0.01
55 191 0.57
56 1 0.00
58 2 0.01
60 4 0.01
61 130 0.39
62 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGCA
Found at i:671738 original size:29 final size:29
Alignment explanation
Indices: 671649--671740 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
671639 TCTTTGAGGA
*
671649 TTGAAAGGTGCCACCAACTTGTGTGGGCT
1 TTGAAAGGTGCCGCCAACTTGTGTGGGCT
* * *
671678 TTGAAAGCCGT-CCTG-C-TCTT-TGAGGAC-
1 TTGAAAG--GTGCC-GCCAACTTGTGTGGGCT
671705 -TGAAAGGTGCCGCCAACTTGTGTGGGCT
1 TTGAAAGGTGCCGCCAACTTGTGTGGGCT
671733 TTGAAAGG
1 TTGAAAGG
671741 AAAAGGCATC
Statistics
Matches: 47, Mismatches: 7, Indels: 18
0.65 0.10 0.25
Matches are distributed among these distances:
24 3 0.06
25 3 0.06
26 9 0.19
27 5 0.11
28 5 0.11
29 17 0.36
30 3 0.06
31 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.27
Consensus pattern (29 bp):
TTGAAAGGTGCCGCCAACTTGTGTGGGCT
Found at i:672768 original size:12 final size:11
Alignment explanation
Indices: 672759--672841 Score: 98
Period size: 11 Copynumber: 7.5 Consensus size: 11
672749 TCTTTTTTCC
*
672759 TTTTTGTTTTG
1 TTTTTTTTTTG
672770 TTTTGTTTTTTG
1 TTTT-TTTTTTG
*
672782 -TTTTTTTGT-
1 TTTTTTTTTTG
672791 TTTTTTTTTTG
1 TTTTTTTTTTG
672802 TTTTGTTTTTTG
1 TTTT-TTTTTTG
672814 TTTTTTTTTTG
1 TTTTTTTTTTG
* *
672825 TTGTTTTTTCG
1 TTTTTTTTTTG
672836 TTTTTT
1 TTTTTT
672842 GAAAAAGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
10 13 0.21
11 32 0.52
12 17 0.27
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:672780 original size:7 final size:7
Alignment explanation
Indices: 672770--672842 Score: 84
Period size: 7 Copynumber: 10.7 Consensus size: 7
672760 TTTTGTTTTG
672770 TTTTGTT
1 TTTTGTT
672777 TTTTGTT
1 TTTTGTT
672784 TTTT-TGT
1 TTTTGT-T
672791 TTTT-TT
1 TTTTGTT
672797 TTTTG--
1 TTTTGTT
672802 TTTTGTT
1 TTTTGTT
672809 TTTTGTT
1 TTTTGTT
672816 TTTT-TT
1 TTTTGTT
672822 TTGTTGTT
1 TT-TTGTT
672830 TTTTCGTT
1 TTTT-GTT
672838 TTTTG
1 TTTTG
672843 AAAAAGAATG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.08
6 10 0.17
7 33 0.56
8 11 0.19
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:672788 original size:32 final size:32
Alignment explanation
Indices: 672751--672820 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
672741 CTTTTCTTTC
672751 TTTTTTCCTTTTTGTTTTGTTTTGTTTTTTGT
1 TTTTTTCCTTTTTGTTTTGTTTTGTTTTTTGT
** *
672783 TTTTTTGTTTTTTTTTTTGTTTTGTTTTTTGT
1 TTTTTTCCTTTTTGTTTTGTTTTGTTTTTTGT
672815 TTTTTT
1 TTTTTT
672821 TTTGTTGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (32 bp):
TTTTTTCCTTTTTGTTTTGTTTTGTTTTTTGT
Found at i:672790 original size:20 final size:20
Alignment explanation
Indices: 672767--672831 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
672757 CCTTTTTGTT
*
672767 TTGTTTTGTTTTTTGTTTTT
1 TTGTTTTGTTTTTTGTTTTG
*
672787 TTGTTTTTTTTTTTGTTTTG
1 TTGTTTTGTTTTTTGTTTTG
672807 TT-TTTTGTTTTTT-TTTTG
1 TTGTTTTGTTTTTTGTTTTG
672825 TTGTTTT
1 TTGTTTT
672832 TTCGTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
18 7 0.17
19 14 0.34
20 20 0.49
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (20 bp):
TTGTTTTGTTTTTTGTTTTG
Found at i:672832 original size:32 final size:32
Alignment explanation
Indices: 672759--672832 Score: 116
Period size: 32 Copynumber: 2.3 Consensus size: 32
672749 TCTTTTTTCC
672759 TTTTTG-TTTTGTTTTGTTTTTTGTTTTTTTG
1 TTTTTGTTTTTGTTTTGTTTTTTGTTTTTTTG
*
672790 TTTTTTTTTTTGTTTTGTTTTTTGTTTTTTT-
1 TTTTTGTTTTTGTTTTGTTTTTTGTTTTTTTG
672821 TTTGTTGTTTTT
1 TTT-TTGTTTTT
672833 TCGTTTTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 8 0.21
32 31 0.79
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (32 bp):
TTTTTGTTTTTGTTTTGTTTTTTGTTTTTTTG
Found at i:672841 original size:1 final size:1
Alignment explanation
Indices: 672759--672833 Score: 60
Period size: 1 Copynumber: 75.0 Consensus size: 1
672749 TCTTTTTTCC
* * * * * * * *
672759 TTTTTGTTTTGTTTTGTTTTTTGTTTTTTTGTTTTTTTTTTTGTTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
672824 GTTGTTTTTT
1 TTTTTTTTTT
672834 CGTTTTTTGA
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:681753 original size:19 final size:19
Alignment explanation
Indices: 681729--681796 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
681719 AATTCAACGA
681729 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
681748 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
681763 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
681780 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
681797 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:681767 original size:32 final size:32
Alignment explanation
Indices: 681731--681793 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
681721 TTCAACGATT
*
681731 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
681763 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
681794 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:681768 original size:13 final size:13
Alignment explanation
Indices: 681750--681774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
681740 ACATAAGTTT
681750 TGTATCGATACAA
1 TGTATCGATACAA
681763 TGTATCGATACA
1 TGTATCGATACA
681775 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:684398 original size:28 final size:27
Alignment explanation
Indices: 684331--684399 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
684321 CTTCACAATC
**
684331 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
684358 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
684386 GGGGATACTCCAAC
1 GGGGATACTCCAAC
684400 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:684459 original size:52 final size:51
Alignment explanation
Indices: 684217--684555 Score: 176
Period size: 52 Copynumber: 6.5 Consensus size: 51
684207 TTCTCAATTC
* * * ** *
684217 TCCACAATCAGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTT
1 TCCACAATCGGGGATACTCCAACTCCGGTTTTATCCT-AAAACACCAATTTT
* * * *
684268 TCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCT
1 TCCACAATCGGGGATACTCCAACTCCGGTTTTA--TCC-TAAAACACCAATTT-T
* * *** * *
684323 T-CACAATCGGGGATACTCCAAC-CCCGTTAATCATCGGGGATACTCCAACCCCGTTATT
1 TCCACAATCGGGGATACTCCAACTCCGGTT--TTATC-CTAAAACACCAA-----TT-TT
* *
684381 T-C-CGA--GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTT
1 TCCACAATCGGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTT
** *
684429 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTT
1 TCCACAATCGGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTT
** * * *
684480 TCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTT
1 TCC-ACAATCGGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTT
*
684534 T-CACAATCGAGGATACTCCAAC
1 TCCACAATCGGGGATACTCCAAC
684556 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 43, Indels: 51
0.70 0.14 0.16
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 2 0.01
51 39 0.18
52 69 0.32
53 35 0.16
54 37 0.17
55 18 0.08
56 5 0.02
57 2 0.01
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
TCCACAATCGGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTT
Found at i:684575 original size:28 final size:28
Alignment explanation
Indices: 684539--684615 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
684529 ATTTTTCACA
* * *
684539 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
684567 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
684595 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
684616 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:684584 original size:212 final size:212
Alignment explanation
Indices: 684217--684622 Score: 647
Period size: 212 Copynumber: 1.9 Consensus size: 212
684207 TTCTCAATTC
* *
684217 TCCACAATCAGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
684282 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
684347 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
684412 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
684429 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCAGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
684493 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
684556 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
684621 AT
193 AT
684623 TCCCAAAATA
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.17
212 111 0.62
213 36 0.20
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCAGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:684682 original size:107 final size:107
Alignment explanation
Indices: 684277--684694 Score: 314
Period size: 107 Copynumber: 3.9 Consensus size: 107
684267 TTCTATAATC
* * * *
684277 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * *
684342 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * * *
684386 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
684449 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
684490 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
684555 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
684598 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
684662 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
684695 ATTTTTTTTT
Statistics
Matches: 240, Mismatches: 55, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
104 45 0.19
105 24 0.10
106 25 0.10
107 98 0.41
108 30 0.12
109 18 0.08
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:697102 original size:11 final size:11
Alignment explanation
Indices: 697084--697144 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
697074 ACCTTCTCTT
697084 CAAAAAAAAAA
1 CAAAAAAAAAA
697095 GCAAAAAAAAAA
1 -CAAAAAAAAAA
*
697107 CAAAACAAAGAA
1 CAAAA-AAAAAA
* *
697119 -AAAGAGAAAA
1 CAAAAAAAAAA
697129 -AAAAAAAAAA
1 CAAAAAAAAAA
*
697139 GAAAAA
1 CAAAAA
697145 TCTGCTTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
10 12 0.29
11 13 0.32
12 16 0.39
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:698190 original size:55 final size:54
Alignment explanation
Indices: 698107--698989 Score: 1249
Period size: 55 Copynumber: 16.0 Consensus size: 54
698097 CTCCGTCCGC
*
698107 TTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
698161 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
698216 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
*
698271 TTTTCCAGTCCTCAGAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
*
698326 TTTTCCAGTCCTCAAAGAACAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
*
698381 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCG
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
** * *
698436 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCGCAAAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
* * *
698491 CCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
698546 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
* * *
698601 CCTTT-CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCG
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
* *
698656 TCTTCCAGTCCTCAAAGAG-AGGACACCTCTTAAAGCCCACACAAGTTGGTGGCG
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
** *
698710 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA
* *
698765 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA
* * *
698820 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTT-AAAGCCCACACAAGTTGGTGGCA
*
698881 CCTTT-CAGTCCTCAAAGAGCAAGG-CACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGC-AGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
*
698936 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA
698990 AACCTTCCCA
Statistics
Matches: 763, Mismatches: 42, Indels: 48
0.89 0.05 0.06
Matches are distributed among these distances:
53 6 0.01
54 107 0.14
55 588 0.77
56 13 0.02
57 1 0.00
59 1 0.00
60 3 0.00
61 38 0.05
62 6 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (54 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:698192 original size:27 final size:27
Alignment explanation
Indices: 698162--698247 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
698152 TTGGTGGCAT
698162 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
698189 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
698217 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
698244 TTTC
1 TTTC
698248 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:699629 original size:13 final size:13
Alignment explanation
Indices: 699611--699636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
699601 CATTTTTCTG
699611 TGTATCGATACAT
1 TGTATCGATACAT
699624 TGTATCGATACAT
1 TGTATCGATACAT
699637 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:699633 original size:33 final size:33
Alignment explanation
Indices: 699591--699657 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
699581 GCCAAGGAAA
***
699591 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
699624 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
699657 T
1 T
699658 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:702055 original size:51 final size:53
Alignment explanation
Indices: 701987--702328 Score: 223
Period size: 52 Copynumber: 6.5 Consensus size: 53
701977 AGTTTCTCAA
* * * *
701987 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
702038 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
702092 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * * *
702150 TAT-TTC-CGA--GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
702199 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
702252 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
702304 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
702329 CTCGTTATTT
Statistics
Matches: 228, Mismatches: 34, Indels: 57
0.71 0.11 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 37 0.16
52 79 0.35
53 33 0.14
54 34 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:702171 original size:28 final size:27
Alignment explanation
Indices: 702104--702172 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
702094 CTTCACAATC
**
702104 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
702131 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
702159 GGGGATACTCCAAC
1 GGGGATACTCCAAC
702173 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:702348 original size:28 final size:28
Alignment explanation
Indices: 702312--702388 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
702302 ATTTTTCACA
* * *
702312 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
702340 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
702368 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
702389 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:702357 original size:212 final size:212
Alignment explanation
Indices: 701990--702395 Score: 656
Period size: 212 Copynumber: 1.9 Consensus size: 212
701980 TTCTCAATTC
* *
701990 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
702055 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
702120 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
702185 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
702202 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
702266 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
702329 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
702394 AT
193 AT
702396 TCCCAAAATA
Statistics
Matches: 179, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
211 31 0.17
212 112 0.63
213 36 0.20
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:702455 original size:107 final size:107
Alignment explanation
Indices: 702050--702467 Score: 314
Period size: 107 Copynumber: 3.9 Consensus size: 107
702040 TTCTATAATC
* * * *
702050 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * *
702115 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * * *
702159 GGGGATACTCCAACTCCG-GTTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
702222 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
702263 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
702328 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
702371 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
702435 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
702468 ATTTTTTTTT
Statistics
Matches: 240, Mismatches: 55, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
104 45 0.19
105 24 0.10
106 25 0.10
107 98 0.41
108 30 0.12
109 18 0.08
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:714170 original size:1 final size:1
Alignment explanation
Indices: 714164--714250 Score: 93
Period size: 1 Copynumber: 87.0 Consensus size: 1
714154 CCTTCTCTTC
** * * * * * *
714164 AAAAAAAAAGCAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACAAAGAAAAGAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
714229 AAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
714251 TCTGCTTAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.90, C:0.05, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:714206 original size:34 final size:37
Alignment explanation
Indices: 714165--714244 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
714155 CTTCTCTTCA
**
714165 AAAAAAAAGCAAA-AAAAACAAA-AAAA-A-AAAAAA
1 AAAAAAAAAAAAACAAAAACAAAGAAAAGAGAAAAAA
714198 AAAAAAAAAAAAACAAAAACAAAGAAAAGAGAAAAAA
1 AAAAAAAAAAAAACAAAAACAAAGAAAAGAGAAAAAA
714235 AAAAAAAAAA
1 AAAAAAAAAA
714245 GAAAAATCTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 11 0.27
34 9 0.22
35 4 0.10
36 1 0.02
37 16 0.39
ACGTcount: A:0.90, C:0.05, G:0.05, T:0.00
Consensus pattern (37 bp):
AAAAAAAAAAAAACAAAAACAAAGAAAAGAGAAAAAA
Found at i:714250 original size:34 final size:33
Alignment explanation
Indices: 714164--714250 Score: 111
Period size: 35 Copynumber: 2.6 Consensus size: 33
714154 CCTTCTCTTC
**
714164 AAAAAAAAAGCAAAAAAAACAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAA
* *
714197 AAAAAAAAAAAAAACAAAAACAAAGAAAAGAGAAA
1 AAAAAAAAAAAAAA-AAAAACAAA-AAAAAAAAAA
*
714232 AAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAA
714251 TCTGCTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
33 12 0.26
34 14 0.30
35 21 0.45
ACGTcount: A:0.90, C:0.05, G:0.06, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAA
Found at i:987693 original size:13 final size:13
Alignment explanation
Indices: 987675--987700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
987665 CCATTTGTTG
987675 TGTATCGATACAT
1 TGTATCGATACAT
987688 TGTATCGATACAT
1 TGTATCGATACAT
987701 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:987784 original size:20 final size:20
Alignment explanation
Indices: 987759--987830 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
987749 ACATCTTTTT
987759 TGTATCGATACATTGCAACA
1 TGTATCGATACATTGCAACA
****
987779 TGTATCGATACATCTTTTTCA
1 TGTATCGATACAT-TGCAACA
987800 TGTATCGATACATTGCAACA
1 TGTATCGATACATTGCAACA
987820 TGTATCGATAC
1 TGTATCGATAC
987831 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTGCAACA
Found at i:987793 original size:39 final size:40
Alignment explanation
Indices: 987739--987830 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 40
987729 CTGCCAAGAA
987739 ATGTATCGATACATCTTTTT-TGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
987778 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTT-ATGTATCGATACATTGCAAC
987819 ATGTATCGATAC
1 ATGTATCGATAC
987831 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 20 0.39
41 31 0.61
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
Found at i:988466 original size:16 final size:16
Alignment explanation
Indices: 988445--988477 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
988435 CCCCCGTTTT
988445 AAAAAT-CTCCCCCTTA
1 AAAAATCCT-CCCCTTA
988461 AAAAATCCTCCCCTTA
1 AAAAATCCTCCCCTTA
988477 A
1 A
988478 TCAAGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATCCTCCCCTTA
Found at i:990294 original size:13 final size:13
Alignment explanation
Indices: 990276--990314 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
990266 ATAATCACCC
*
990276 TGTATCGATACAG
1 TGTATCGATACAA
990289 TGTATCGATACAA
1 TGTATCGATACAA
990302 TGTATCGATACAA
1 TGTATCGATACAA
990315 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:990325 original size:20 final size:20
Alignment explanation
Indices: 990300--990338 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
990290 GTATCGATAC
990300 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
990320 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
990339 TTTCCAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:992417 original size:15 final size:15
Alignment explanation
Indices: 992397--992427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
992387 ATTTCGTTTG
*
992397 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
992412 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
992427 G
1 G
992428 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:996507 original size:13 final size:13
Alignment explanation
Indices: 996489--996514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
996479 CAATTTTTTG
996489 TGTATCGATACAT
1 TGTATCGATACAT
996502 TGTATCGATACAT
1 TGTATCGATACAT
996515 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:996579 original size:21 final size:21
Alignment explanation
Indices: 996553--996628 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
996543 CTGCCAAGAA
*
996553 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
996574 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
996594 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
996615 ATGTATCGATACAT
1 ATGTATCGATACAT
996629 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:996599 original size:20 final size:20
Alignment explanation
Indices: 996574--996646 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
996564 CATCTTTTTT
996574 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
996594 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
996615 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
996635 ATGTATCGATAC
1 ATGTATCGATAC
996647 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:996610 original size:41 final size:41
Alignment explanation
Indices: 996553--996646 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
996543 CTGCCAAGAA
*
996553 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
996594 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
996635 ATGTATCGATAC
1 ATGTATCGATAC
996647 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1003049 original size:18 final size:18
Alignment explanation
Indices: 1003025--1003077 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
1003015 ACCTTCTCTT
1003025 CAAAAAAAAAAAAAGCAAA
1 CAAAAAAAAAAAAAG-AAA
*
1003044 -AAAAAAAATAAAAGAAA
1 CAAAAAAAAAAAAAGAAA
*
1003061 CAAAACAAAGAAAAAGA
1 CAAAA-AAAAAAAAAGA
1003078 GAGAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 17 0.59
19 9 0.31
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAAAAAAGAAA
Found at i:1004155 original size:61 final size:57
Alignment explanation
Indices: 1004060--1004538 Score: 523
Period size: 55 Copynumber: 8.3 Consensus size: 57
1004050 TCCGCTTTTT
* * * * *
1004060 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTCGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC--TT-CTCTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
1004121 AGTCCTCAAAGAGCGGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCT-C--TTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
1004181 AGTTCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCC--TTCTCTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
1004240 AGTCCTCAAAGAGTAGGAC-CC--CTCTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCACTT-TC
* *
1004295 AGTCCTCAAAGAGTAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTCT-C--TTAAAGCCCACACAAGTTGGTGGCACTTT-C
*
1004356 AGTCCTCAAAGAGCAGGAC-AC--CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
*
1004411 AGTCCTCAAAAAGCAGGACGCCTT-TC--AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
1004466 AGTCCTCAAAAAGCAGGATGCCTT-TC--AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
1004521 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1004539 TACACTTTAT
Statistics
Matches: 372, Mismatches: 28, Indels: 42
0.84 0.06 0.10
Matches are distributed among these distances:
54 30 0.08
55 160 0.43
56 6 0.02
57 3 0.01
58 8 0.02
59 48 0.13
60 22 0.06
61 91 0.24
62 4 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (57 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:1005415 original size:13 final size:13
Alignment explanation
Indices: 1005397--1005422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1005387 CATTTTTCTA
1005397 TGTATCGATACAT
1 TGTATCGATACAT
1005410 TGTATCGATACAT
1 TGTATCGATACAT
1005423 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1007905 original size:53 final size:51
Alignment explanation
Indices: 1007787--1008175 Score: 297
Period size: 51 Copynumber: 7.4 Consensus size: 51
1007777 CTCAATTCTC
* * * *
1007787 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACCAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT
* * *
1007837 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTT
* * ** * *
1007891 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * * * ***
1007949 C-CGA--GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT
* * * * *
1007997 CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT
* *
1008048 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTT
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT
* * *
1008100 C-CTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTT
1 CAC---AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTT
*
1008154 CACAATCGTGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
1008176 TCGTTATCTC
Statistics
Matches: 268, Mismatches: 47, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
48 4 0.01
49 3 0.01
50 2 0.01
51 73 0.27
52 72 0.27
53 60 0.22
54 23 0.09
55 18 0.07
56 2 0.01
57 7 0.03
58 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT
Found at i:1007925 original size:27 final size:28
Alignment explanation
Indices: 1007895--1007969 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
1007885 AATTTTCACA
1007895 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1007922 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1007950 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
1007970 AACTTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1008078 original size:52 final size:50
Alignment explanation
Indices: 1007787--1008175 Score: 234
Period size: 52 Copynumber: 7.4 Consensus size: 50
1007777 CTCAATTCTC
* * * *
1007787 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACCAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * * *
1007837 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTTTT
* ** **
1007891 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * * ***
1007949 C-CGA--GGGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * *
1007997 CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* *
1008048 CCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTT
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * * *
1008100 C-CTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTT
1 CAC---AATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
*
1008154 CACAATCGTGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
1008176 TCGTTATCTC
Statistics
Matches: 263, Mismatches: 46, Indels: 58
0.72 0.13 0.16
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 4 0.02
51 64 0.24
52 68 0.26
53 56 0.21
54 24 0.09
55 18 0.07
56 2 0.01
57 5 0.02
58 7 0.03
59 1 0.00
60 1 0.00
61 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:1008194 original size:28 final size:28
Alignment explanation
Indices: 1008158--1008234 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1008148 ATTTTTCACA
* *
1008158 ATCGTGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
1008186 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*
1008214 -TGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
1008235 GCTTTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:1008253 original size:264 final size:262
Alignment explanation
Indices: 1007785--1008285 Score: 788
Period size: 264 Copynumber: 1.9 Consensus size: 262
1007775 TTCTCAATTC
* * *
1007785 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACCAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
1007850 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCC
* *
1007915 GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTT
131 GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATTC
*
1007980 CCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
196 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
1008045 TT
261 TT
* *
1008047 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* * * *
1008112 GATACTCCAACTCTGATTTTATTTCC-AAAAATACCAATTTTTCACAATCGTGGATACTCCAACC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACC
* * * **
1008176 TCGTTATCTCATCGGGGATACTCCAACCCCGTTACTTCTGAGGGGATACTCCAACCCCGGCTTTA
129 CCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTA
* * *
1008241 TTCCCAAAATATTTATTTCTCATAATTGGGGATACTCGAACCCCG
193 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1008286 TTATTTTTGA
Statistics
Matches: 216, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 44 0.20
263 44 0.20
264 128 0.59
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (262 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATTC
CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
TT
Found at i:1012915 original size:22 final size:21
Alignment explanation
Indices: 1012866--1012920 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 21
1012856 AAAACCCAGA
1012866 ATGTATCGATACAATGATAAG
1 ATGTATCGATACAATGATAAG
1012887 -TGTATCGATACAATTG-TAAG
1 ATGTATCGATACAA-TGATAAG
1012907 CATGTATCGATACA
1 -ATGTATCGATACA
1012921 TTTAGTAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTATCGATACAATGATAAG
Found at i:1012933 original size:20 final size:20
Alignment explanation
Indices: 1012865--1012943 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
1012855 AAAAACCCAG
* *
1012865 AATGTATCGATACAATGA-T
1 AATGTATCGATACATTTAGT
1012884 AAGTGTATCGATACAATTGTAAG-
1 AA-TGTATCGATAC-ATT-T-AGT
*
1012907 CATGTATCGATACATTTAGT
1 AATGTATCGATACATTTAGT
*
1012927 AATGTATCCATACATTT
1 AATGTATCGATACATTT
1012944 CCTTGGCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.08
20 27 0.55
21 5 0.10
22 11 0.22
23 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTTAGT
Found at i:1017425 original size:15 final size:15
Alignment explanation
Indices: 1017405--1017440 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1017395 GAATAAATAA
* *
1017405 AAAATTGTTGAAAAT
1 AAAATTCTTGAAAAG
1017420 AAAATTCTTGAAAAG
1 AAAATTCTTGAAAAG
1017435 AAAATT
1 AAAATT
1017441 ATCAAATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (15 bp):
AAAATTCTTGAAAAG
Found at i:1019353 original size:10 final size:10
Alignment explanation
Indices: 1019338--1019371 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
1019328 CAATCCTCTT
1019338 TCAAATTTCA
1 TCAAATTTCA
1019348 TCAAATTTCA
1 TCAAATTTCA
1019358 TCAAATTTACA
1 TCAAATTT-CA
1019369 TCA
1 TCA
1019372 TTTTCTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (10 bp):
TCAAATTTCA
Found at i:1021780 original size:19 final size:20
Alignment explanation
Indices: 1021734--1021785 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1021724 AGGCCCAGAA
* *
1021734 GTATCGATACATATTTCTTT
1 GTATCGATACATGTTTCATT
*
1021754 GAATCGATACATGTTT-ATT
1 GTATCGATACATGTTTCATT
1021773 GTATCGATACATG
1 GTATCGATACATG
1021786 AAGAATTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACATGTTTCATT
Found at i:1021858 original size:20 final size:20
Alignment explanation
Indices: 1021833--1021919 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
1021823 CTACCACTGT
*
1021833 TTGTATCGATATATGGGACA
1 TTGTATCGATACATGGGACA
1021853 TTGTATC----CAT---ACA
1 TTGTATCGATACATGGGACA
1021866 TTGTATCGATACATGGGACA
1 TTGTATCGATACATGGGACA
* * *
1021886 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATGGGACA
*
1021906 ATGTATCGATACAT
1 TTGTATCGATACAT
1021920 TATGCCCAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.18
16 2 0.04
17 3 0.05
20 40 0.73
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGGGACA
Found at i:1021868 original size:13 final size:13
Alignment explanation
Indices: 1021850--1021879 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1021840 GATATATGGG
1021850 ACATTGTATCCAT
1 ACATTGTATCCAT
*
1021863 ACATTGTATCGAT
1 ACATTGTATCCAT
1021876 ACAT
1 ACAT
1021880 GGGACATTGT
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:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (13 bp):
ACATTGTATCCAT
Found at i:1021875 original size:33 final size:33
Alignment explanation
Indices: 1021833--1021899 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1021823 CTACCACTGT
*
1021833 TTGTATCGATATATGGGACATTGTATCCATACA
1 TTGTATCGATACATGGGACATTGTATCCATACA
*
1021866 TTGTATCGATACATGGGACATTGTATCGATACA
1 TTGTATCGATACATGGGACATTGTATCCATACA
1021899 T
1 T
1021900 AGTAAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGGGACATTGTATCCATACA
Found at i:1023205 original size:20 final size:20
Alignment explanation
Indices: 1023177--1023252 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
1023167 AAAACCCATA
1023177 ATGTATCGATACAATAAGTG
1 ATGTATCGATACAATAAGTG
* * *
1023197 ATGTGTCGATACATTACCAG-C
1 ATGTATCGATACAATA--AGTG
1023218 ATGTATCGATAC-ATAAGTG
1 ATGTATCGATACAATAAGTG
1023237 AATGTATCGATACAAT
1 -ATGTATCGATACAAT
1023253 TTTTTCAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.04
20 28 0.62
21 13 0.29
22 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATAAGTG
Found at i:1023328 original size:20 final size:21
Alignment explanation
Indices: 1023290--1023341 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1023280 ACATGTTCCA
* **
1023290 GTATCGAGACATTTGCTTA-T
1 GTATCGATACATTAACTTATT
1023310 GTATCGATACATTAACTTATT
1 GTATCGATACATTAACTTATT
*
1023331 GTATTGATACA
1 GTATCGATACA
1023342 AATGATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTAACTTATT
Found at i:1024801 original size:78 final size:78
Alignment explanation
Indices: 1024431--1024854 Score: 398
Period size: 79 Copynumber: 5.4 Consensus size: 78
1024421 TGGTGAAAAT
* * * * *
1024431 TGGGGTTGTAGTATCCTTTAGATGAAAAATTTAATA-TTTTAAAAGTGAAAACGAGGTTGGAGTA
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAA-T-AAAAAGGGGTTGGAGTA
**
1024495 TCCCC-TCAAAAGTGA
64 TCCCCTTGGAAA-TGA
* ** * * * *
1024510 TGGGGTTAGAGTATCCCCGATGGTAAAAAAATTAATATTTTGGAAATAAAAA----TT-GAGTAT
1 TGGGGTTGGAGTATCCTTGA-GATGAAAAATTTAATATTTTTGAAATAAAAAGGGGTTGGAGTAT
* *
1024570 CCCCTTAGAAATAA
65 CCCCTTGGAAATGA
* * ** *
1024584 CGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTAGAAATAAAAATGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAA-GGGGTTGGAGTAT
* *
1024649 CCCCTTGAAAATAA
65 CCCCTTGGAAATGA
* * ** ** * *
1024663 CGAGGTTAAAGTATTGTTGTGATGAAAAATTTAATA-TTTTGAAAATAAAAAAGGGATTGGAGTA
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTG-AAAT-AAAAAGGGGTTGGAGTA
*
1024727 TCCCCTTGGAATTGA
64 TCCCCTTGGAAATGA
*
1024742 TGGGGTTGGAGTAT-CTTGAGATTAAAAATTTAATATTTTTGAAATAAAAAGGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAA-GGGGTTGGAGTAT
*
1024806 CCCCTTGGAATTGA
65 CCCCTTGGAAATGA
*
1024820 TGGGGTTGGAGTATCCTTAAGATGAAAAATTTAAT
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAAT
1024855 GCTTTTGGAA
Statistics
Matches: 286, Mismatches: 45, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
73 27 0.09
74 29 0.10
75 6 0.02
77 5 0.02
78 68 0.24
79 126 0.44
80 19 0.07
81 6 0.02
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (78 bp):
TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAAGGGGTTGGAGTATC
CCCTTGGAAATGA
Found at i:1024833 original size:157 final size:152
Alignment explanation
Indices: 1024431--1024854 Score: 440
Period size: 157 Copynumber: 2.8 Consensus size: 152
1024421 TGGTGAAAAT
* * * * *
1024431 TGGGGTTGTAGTATCCTTTAGATGAAAAATTTAATA-TTTTAAAAGTGAAAACGAGGTTGGAGTA
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAA-TAAAAACGGGGTTGGAGTA
* ** * * * *
1024495 TCCCC-TCAAAAGTGATGGGGTTAGAGTATCCCCGATGGTAAAAAAATTAATATTTTGGAAATAA
65 TCCCCTTGAAAA-TGATGGGGTTAGAGTATCCTTG-TGATGAAAAATTTAATATTTTGAAAATAA
1024559 AAATTGAGTATCCCCTTAGAAATAA
128 AAATTGAGTATCCCCTTAGAAATAA
* * ** * *
1024584 CGAGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTAGAAATAAAAATGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTAT
* * * * **
1024649 CCCCTTGAAAATAACGAGGTTAAAGTATTGTTGTGATGAAAAATTTAATATTTTGAAAATAAAAA
66 CCCCTTGAAAATGATGGGGTTAGAGTATCCTTGTGATGAAAAATTTAATATTTTGAAAAT--AAA
* * *
1024714 AGGGATTGGAGTATCCCCTTGGAATTGA
129 A---ATT-GAGTATCCCCTTAGAAATAA
* *
1024742 TGGGGTTGGAGTAT-CTTGAGATTAAAAATTTAATATTTTTGAAATAAAAAGGGGGTTGGAGTAT
1 TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTAT
* * * **
1024806 CCCCTTGGAATTGATGGGGTTGGAGTATCCTTAAGATGAAAAATTTAAT
66 CCCCTTGAAAATGATGGGGTTAGAGTATCCTTGTGATGAAAAATTTAAT
1024855 GCTTTTGGAA
Statistics
Matches: 218, Mismatches: 45, Indels: 12
0.79 0.16 0.04
Matches are distributed among these distances:
152 23 0.11
153 65 0.30
154 15 0.07
157 86 0.39
158 29 0.13
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (152 bp):
TGGGGTTGGAGTATCCTTGAGATGAAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTAT
CCCCTTGAAAATGATGGGGTTAGAGTATCCTTGTGATGAAAAATTTAATATTTTGAAAATAAAAA
TTGAGTATCCCCTTAGAAATAA
Found at i:1027250 original size:34 final size:34
Alignment explanation
Indices: 1027206--1027270 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
1027196 AGTCAAAAAT
*
1027206 CTAGATTGTATCGATACAATGAAAAATGTATGAC
1 CTAGAATGTATCGATACAATGAAAAATGTATGAC
* *
1027240 CTAGAATGTATTGATATAATGAAAAATGTAT
1 CTAGAATGTATCGATACAATGAAAAATGTAT
1027271 CGATACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (34 bp):
CTAGAATGTATCGATACAATGAAAAATGTATGAC
Found at i:1037910 original size:13 final size:13
Alignment explanation
Indices: 1037892--1037917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1037882 ACAATATTCT
1037892 TTGTATCGATACA
1 TTGTATCGATACA
1037905 TTGTATCGATACA
1 TTGTATCGATACA
1037918 AGGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1039767 original size:22 final size:21
Alignment explanation
Indices: 1039736--1039810 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 21
1039726 GTTTGAAAAT
1039736 AAAT-TTTTATCAAGGGGCAGA
1 AAATCTTTTATCAAGGGG-AGA
1039757 AAATCTTTTATCAAGGTGGAGA
1 AAATCTTTTATCAAGG-GGAGA
1039779 AAATCTTTTATCAAGGGGGAGA
1 AAATCTTTTATCAA-GGGGAGA
1039801 AAATCTTTTA
1 AAATCTTTTA
1039811 AACGATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.08
22 43 0.84
23 4 0.08
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (21 bp):
AAATCTTTTATCAAGGGGAGA
Found at i:1039829 original size:52 final size:52
Alignment explanation
Indices: 1039764--1039915 Score: 211
Period size: 52 Copynumber: 2.9 Consensus size: 52
1039754 AGAAAATCTT
* *
1039764 TTATCAAGGTGGAGAAAATCTTTTATCAAGGGGGAGAAAATCTTTTAAACGA
1 TTATTAAGGTGGAGAAAATCTTTTATCAAGGGGGAGAAAATCTTTTAAACAA
*
1039816 TTATTAAGGTGGAGAAAATCTTTTATCAAGGGAGAGAAAATCTTTTAAACAA
1 TTATTAAGGTGGAGAAAATCTTTTATCAAGGGGGAGAAAATCTTTTAAACAA
* * *
1039868 TTATTAATG-GGAGAAAATTTTGTTAATCAA-GGGGAG-AAATTTTTTAAA
1 TTATTAAGGTGGAGAAAATCTT-TT-ATCAAGGGGGAGAAAATCTTTTAAA
1039916 TGAGAGCCTT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
51 22 0.24
52 64 0.70
53 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (52 bp):
TTATTAAGGTGGAGAAAATCTTTTATCAAGGGGGAGAAAATCTTTTAAACAA
Found at i:1040771 original size:20 final size:20
Alignment explanation
Indices: 1040746--1040801 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1040736 CTGCCAAGGA
*
1040746 AATGTATCGATACATTATTC
1 AATGTATCGATACATTACTC
*
1040766 AATGTATCGATACATTGCTC
1 AATGTATCGATACATTACTC
*
1040786 ATTGTATCGATACATT
1 AATGTATCGATACATT
1040802 CTATCGATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:1040826 original size:20 final size:20
Alignment explanation
Indices: 1040748--1040831 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
1040738 GCCAAGGAAA
* ** *
1040748 TGTATCGATACATTATTCAA
1 TGTATCGATATATTGCTCAT
*
1040768 TGTATCGATACATTGCTCAT
1 TGTATCGATATATTGCTCAT
1040788 TGTATCG--ATA-----CAT
1 TGTATCGATATATTGCTCAT
*
1040801 TCTATCGATATATTGCTCAT
1 TGTATCGATATATTGCTCAT
1040821 TGTATCGATAT
1 TGTATCGATAT
1040832 GTTTTATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 9 0.18
15 3 0.06
18 2 0.04
20 37 0.73
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATATATTGCTCAT
Found at i:1043252 original size:52 final size:51
Alignment explanation
Indices: 1043134--1043267 Score: 171
Period size: 52 Copynumber: 2.6 Consensus size: 51
1043124 TTAAGTTTCT
* * * * *
1043134 CAATTTTTCATAATCGGGGGTCCTCCAACCCTGGTTTTATTTCTAAAACAC
1 CAATTTTTCATAATCGAGGATACTCCAACCCTGATTTTATTTCAAAAACAC
* *
1043185 TAATTTTCCATAATCGAGGATACTCCAACTCC-GATTTTATTTCCAAAAACAC
1 CAATTTTTCATAATCGAGGATACTCCAAC-CCTGATTTTATTT-CAAAAACAC
*
1043237 CAATTTTTCACAATCGAGGATACTCCAACCC
1 CAATTTTTCATAATCGAGGATACTCCAACCC
1043268 CGTTAATCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
51 35 0.49
52 36 0.51
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
CAATTTTTCATAATCGAGGATACTCCAACCCTGATTTTATTTCAAAAACAC
Found at i:1043362 original size:79 final size:79
Alignment explanation
Indices: 1043276--1044044 Score: 1042
Period size: 79 Copynumber: 9.7 Consensus size: 79
1043266 CCCGTTAATC
* ** * * * *
1043276 ATCGGGGACACTCCAACCTTGTTATTTCTGAGGGAATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*
1043341 ATTGATTTCTCATA
66 ATTGATTTCTCACA
* * * * *
1043355 ATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCAGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
**
1043420 ATTGATTTCTCGTA
66 ATTGATTTCTCACA
* *
1043434 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1043499 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* *
1043513 ATCGGGAATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1043578 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * * *
1043592 ATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCTAACCCCAGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*
1043657 ATTGATTTATCACA
66 ATTGATTTCTCACA
* * *
1043671 ATCGGGGATACTCTAACCCCGTTATTTTCACGA--GGATACTCCAACCCCAGCTTTATTTCTAAA
1 ATCGGGGATACTCCAACCCCGTTA-TTTC-CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAA
1043734 ATATTGATTTCTCACA
64 ATATTGATTTCTCACA
*
1043750 ATCGGGAATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTA-TTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1043814 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * * *
1043828 ATCGGGGATACTCTAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGATTTTATTGCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
1043893 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* ** * * * *
1043907 ATCGGGGATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*** *
1043972 ACCAATTTACT-ATA
66 ATTGATTT-CTCACA
** * *
1043986 ATTAGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTC
1044045 CAGAACACCG
Statistics
Matches: 620, Mismatches: 64, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
77 3 0.00
78 77 0.12
79 531 0.86
80 6 0.01
81 3 0.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
ATTGATTTCTCACA
Found at i:1056493 original size:23 final size:22
Alignment explanation
Indices: 1056467--1056516 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1056457 TTCTCTTCTA
1056467 AAAAAAACAAACACAAAAAAAA-
1 AAAAAAACAAA-ACAAAAAAAAG
* * *
1056489 TAAAAAATAAAACAAAACAAAG
1 AAAAAAACAAAACAAAAAAAAG
1056511 AAAAAA
1 AAAAAA
1056517 GAGAGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.84, C:0.10, G:0.02, T:0.04
Consensus pattern (22 bp):
AAAAAAACAAAACAAAAAAAAG
Found at i:1056503 original size:21 final size:22
Alignment explanation
Indices: 1056468--1056516 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
1056458 TCTCTTCTAA
*
1056468 AAAAAACAAACACAAAAAAAAT
1 AAAAAACAAACACAAAAAAAAG
* *
1056490 AAAAAATAAA-ACAAAACAAAG
1 AAAAAACAAACACAAAAAAAAG
1056511 AAAAAA
1 AAAAAA
1056517 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.84, C:0.10, G:0.02, T:0.04
Consensus pattern (22 bp):
AAAAAACAAACACAAAAAAAAG
Found at i:1057639 original size:61 final size:59
Alignment explanation
Indices: 1057488--1057642 Score: 213
Period size: 60 Copynumber: 2.6 Consensus size: 59
1057478 CCTTTCACTT
* * *
1057488 TTCAGTCCTTAAAGAGCAAGACGCCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTCAGTCCTCAAAGAGCAGGACGCCTCTCC-TTTTAAAGCCCACACAAGTTGGTGGCACC
* *
1057548 TTCAGTCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-T
1 TTCAGTCCTCAAAGAGCAGGACGCC-TCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1057607 TTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
1 TT-C-AGTCCTCAAAGAGCAGGACGC-CTCTCCTTT
1057643 CGCCTTTTTG
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
59 2 0.02
60 50 0.59
61 32 0.38
62 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (59 bp):
TTCAGTCCTCAAAGAGCAGGACGCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:1057734 original size:55 final size:56
Alignment explanation
Indices: 1057652--1058067 Score: 547
Period size: 55 Copynumber: 7.4 Consensus size: 56
1057642 TCGCCTTTTT
* * * *
1057652 GTCCTCAAAGAGCAGGATG-CTTTTTAAAGCCCACACAAGTTGGTGGCAATGTCCA
1 GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
1057707 GTCCTCAAACAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1057762 GTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
1057817 GTCCTCAAAGAGCAGGACGGCTCTT-AAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
**
1057872 GTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTTA
1 GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
**
1057927 GTCCTCAAAGAGCAGGATGCTTTCTCTTTACAAAGCCCACACAAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGATGC---CTC-TT-CAAAGCCCACACAAGTTGGTGGCATTTTCCA
** * **
1057988 GTCCTCAAAGAGCAGGACACCTTTCTTTTCAAAGCCCACACGAGTTGGTGGC-TCTTTTTA
1 GTCCTCAAAGAGCAGGATGCC--TC--TTCAAAGCCCACACAAGTTGGTGGCAT-TTTCCA
1058048 GTCCTCAAAGAGCAGGATGC
1 GTCCTCAAAGAGCAGGATGC
1058068 ACTTTATTTT
Statistics
Matches: 321, Mismatches: 26, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
54 4 0.01
55 213 0.66
56 6 0.02
58 3 0.01
60 47 0.15
61 48 0.15
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (56 bp):
GTCCTCAAAGAGCAGGATGCCTCTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
Done.