Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold370
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: 857924
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:310088 original size:16 final size:17
Alignment explanation
Indices: 310067--310099 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
310057 GTAAATATTT
*
310067 TAAAATT-TTTAAAATG
1 TAAAATTATATAAAATG
310083 TAAAATTATATAAAATG
1 TAAAATTATATAAAATG
310100 AATTTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TAAAATTATATAAAATG
Found at i:311273 original size:6 final size:6
Alignment explanation
Indices: 311262--311289 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
311252 AAAATAATTT
311262 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
311290 TATTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:311688 original size:31 final size:31
Alignment explanation
Indices: 311583--311692 Score: 166
Period size: 32 Copynumber: 3.5 Consensus size: 31
311573 AGACTGTTTC
* * *
311583 TTTCATGTTTCATATTTTTGAATAATTATTTC
1 TTTCATTTTTC-TTTTTTTGAATAATTATTTA
311615 TTTCATTTTTCCTTTTTTTGAATAATTATTTA
1 TTTCATTTTT-CTTTTTTTGAATAATTATTTA
311647 TTTCATTTTTTCTTTTTTTGAATAATTATTTA
1 TTTCA-TTTTTCTTTTTTTGAATAATTATTTA
311679 TTTCATTTTTCTTT
1 TTTCATTTTTCTTT
311693 ATAGACTGAT
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
31 9 0.12
32 58 0.79
33 6 0.08
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (31 bp):
TTTCATTTTTCTTTTTTTGAATAATTATTTA
Found at i:311944 original size:6 final size:5
Alignment explanation
Indices: 311932--312127 Score: 62
Period size: 5 Copynumber: 40.2 Consensus size: 5
311922 TGATAATTTA
* * *
311932 TATAT TAATAT TATAT T-TA- TATAT TTTAT TAAAT TATAAT TATAT T-TAA
1 TATAT T-ATAT TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT
* * * *
311981 GATAT TTTA- TAT-T TATA- TAAAT TTTGA- TATAT TA-AT TATTAT TATTAT
1 TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT TATAT TA-TAT TA-TAT
* *
312029 TATTAT TATTAT TATAT AAT-T TATAT AATAT T-TA- TATAT TCATAT
1 TA-TAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT
* * * * * *
312074 AATAT CATAT TTTAGT TATGTT TAAAT TATCT T-T-T TATAT TATA- TA-AT
1 TATAT TATAT TATA-T TAT-AT TATAT TATAT TATAT TATAT TATAT TATAT
312122 TATAT T
1 TATAT T
312128 GTGTCTAATA
Statistics
Matches: 141, Mismatches: 28, Indels: 44
0.66 0.13 0.21
Matches are distributed among these distances:
3 5 0.04
4 32 0.23
5 61 0.43
6 43 0.30
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:311965 original size:45 final size:42
Alignment explanation
Indices: 311914--312034 Score: 110
Period size: 42 Copynumber: 2.9 Consensus size: 42
311904 GATAATCAAT
*
311914 TATAAATTTGATAATTTATATATTAATATTATATTTATATATTT
1 TATAAATTTGATAATTTATATATTAATATTAT-TTTATAT-TTA
*
311958 TATTAAA-TT-ATAA-TTATAT-TTAAGA-TATTTTATATTTA
1 TA-TAAATTTGATAATTTATATATTAATATTATTTTATATTTA
* *
311996 TATAAATTTTGATATATTAAT-TATTATTATTATTATTAT
1 TATAAA-TTTGATA-ATTTATATATTAATATTATT-TTAT
312035 TATTATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
37 4 0.06
38 4 0.06
39 9 0.14
40 6 0.10
41 7 0.11
42 13 0.21
43 8 0.13
44 8 0.13
45 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (42 bp):
TATAAATTTGATAATTTATATATTAATATTATTTTATATTTA
Found at i:312023 original size:3 final size:3
Alignment explanation
Indices: 312010--312043 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
312000 AATTTTGATA
312010 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
312044 ATAATTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:312078 original size:11 final size:10
Alignment explanation
Indices: 312020--312083 Score: 57
Period size: 9 Copynumber: 6.8 Consensus size: 10
312010 TATTAATTAT
*
312020 TATTAT-TAT
1 TATTATATAA
*
312029 TATTAT-TAT
1 TATTATATAA
312038 TATTATATAA
1 TATTATATAA
312048 T-TTATATAA
1 TATTATATAA
312057 TATT-TAT-A
1 TATTATATAA
312065 TATTCATATAA
1 TATT-ATATAA
*
312076 TATCATAT
1 TATTATAT
312084 TTTAGTTATG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
8 5 0.10
9 27 0.56
10 12 0.25
11 4 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTATATAA
Found at i:312539 original size:2 final size:2
Alignment explanation
Indices: 312499--312525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
312489 AAGATAAATA
312499 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
312526 CACACACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:314503 original size:27 final size:27
Alignment explanation
Indices: 314434--314504 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 27
314424 CAAGTTTAAA
* * *
314434 AATGAGATTAGAGTATCCCTTCGAAAG
1 AATGAGGTTGGAGTATCCCCTCGAAAG
* * * *
314461 AATG-GGGTGAAATATCCCCTCGGAAG
1 AATGAGGTTGGAGTATCCCCTCGAAAG
314487 AATGAGGTTGGAGTATCC
1 AATGAGGTTGGAGTATCC
314505 TCGTGAATAA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (27 bp):
AATGAGGTTGGAGTATCCCCTCGAAAG
Found at i:316936 original size:52 final size:52
Alignment explanation
Indices: 316856--317000 Score: 165
Period size: 52 Copynumber: 2.9 Consensus size: 52
316846 GTATCGATAG
**
316856 ATTTAGGTC-AAAACCCAGAATGTATCGATATAATGAATTATGTAACAATAC
1 ATTTAGGTCAAAAACCCAGAATGTATCGATATAATGAAAAATGTAACAATAC
* * * *
316907 ATTTAGGTCAAAAACCGAGAATTTATCGATATAATGAAAAATGTATCGATAC
1 ATTTAGGTCAAAAACCCAGAATGTATCGATATAATGAAAAATGTAACAATAC
** *
316959 ATTT-GGATC--AAACTTAGAATGTATCAATATAAT-AAAAATGTA
1 ATTTAGG-TCAAAAACCCAGAATGTATCGATATAATGAAAAATGTA
317001 TTGATACATT
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 9 0.11
50 20 0.24
51 11 0.13
52 42 0.51
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (52 bp):
ATTTAGGTCAAAAACCCAGAATGTATCGATATAATGAAAAATGTAACAATAC
Found at i:318007 original size:78 final size:80
Alignment explanation
Indices: 317877--318036 Score: 211
Period size: 78 Copynumber: 2.0 Consensus size: 80
317867 AACCCTAAAG
* * *
317877 ATATGTTTCAACACGAAGGTTTCCACATGATCCTAAGGACTCAATTTTAAGGTAGTATTACTTAA
1 ATATGTTTCAACACGAAAGTTTCCACATGATCCTAAGGACTCAATTTTAAGGTAATATTACCTAA
*
317942 ATA-CCATTAATGGAC
66 ATAGCC-CTAATGGAC
* * *
317957 ATAT-TTT-AACATGAAAGTTTCCTACATGATCCTAAGGATTC-GTTTTAAGGTAATATTACCTA
1 ATATGTTTCAACACGAAAGTTTCC-ACATGATCCTAAGGACTCAATTTTAAGGTAATATTACCTA
318019 AATAGCCCTAATGGAC
65 AATAGCCCTAATGGAC
318035 AT
1 AT
318037 GTTTCGACAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
78 45 0.63
79 22 0.31
80 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (80 bp):
ATATGTTTCAACACGAAAGTTTCCACATGATCCTAAGGACTCAATTTTAAGGTAATATTACCTAA
ATAGCCCTAATGGAC
Found at i:321795 original size:18 final size:19
Alignment explanation
Indices: 321763--321803 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
321753 TAAGTATCGG
321763 GGCAGGCCAAAAACAATTA
1 GGCAGGCCAAAAACAATTA
321782 GGCAGGCC-AAAACAATTA
1 GGCAGGCCAAAAACAATTA
321800 GGCA
1 GGCA
321804 CTATTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (19 bp):
GGCAGGCCAAAAACAATTA
Found at i:322716 original size:20 final size:20
Alignment explanation
Indices: 322691--322729 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
322681 CTGTTGGACT
*
322691 TAATGTATCGATATAATTAA
1 TAATGTATCAATATAATTAA
322711 TAATGTATCAATATAATTA
1 TAATGTATCAATATAATTA
322730 TAGTCGTTAG
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:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (20 bp):
TAATGTATCAATATAATTAA
Found at i:322884 original size:33 final size:32
Alignment explanation
Indices: 322828--322891 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
322818 CATTTTATGG
* *
322828 TGTATCGATACAAAGAACATGTATTGATACAA
1 TGTATCAATACAAAGAACATGTATCGATACAA
* *
322860 TGTATCAATACTAAGCAATATGTATCGATACA
1 TGTATCAATACAAAG-AACATGTATCGATACA
322892 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCGATACAA
Found at i:323041 original size:24 final size:23
Alignment explanation
Indices: 322997--323041 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
322987 ATTATTTTTA
* *
322997 CTTGAAAAATATTTGATTTATTG
1 CTTGAAAAACATTTGACTTATTG
323020 CTTGAAAAACATTTGAACTTAT
1 CTTGAAAAACATTTG-ACTTAT
323042 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
CTTGAAAAACATTTGACTTATTG
Found at i:323503 original size:100 final size:100
Alignment explanation
Indices: 323232--323822 Score: 280
Period size: 102 Copynumber: 5.8 Consensus size: 100
323222 ATTTAATGTG
* * * *
323232 GACTTAAGATT-TATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGAACTTTGACTCTA
1 GACTT-AGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTG--GTTAGATTTTA
* *
323296 AAAGGCTCGACCTCCTTATACAAGTGCCAACTAATATA
63 TAAGGCTTGACCTCCTTATACAAGTGCCAACTAATATA
* * * * * * * * *** *
323334 TACTTTGACTCTATA-AGCTTAACCTCCTTATAC-ACTGCTAGCTAACATGGATTTAGGTTTTAT
1 GACTTAGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGG--TTAGATTTTAT
* * * *
323397 AGGGCTTGACCTCTTTATAGAGGTGCCAACTAATATA
64 AAGGCTTGACCTCCTTATACAAGTGCCAACTAATATA
* * *
323434 GACTTAGATTCTTTAGGGCTTGACCTCCCTATACAAGTGCCAACTAGTGTGGTTAGATTTTTTAA
1 GACTTAGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGGTTAGATTTTATAA
* * ** *** * **
323499 GGCTTGACCTCCCTATACAGGTTTCGGTTAGTACG
66 GGCTTGACCTCCTTATACAAGTGCCAACTAATATA
* * * * * * * *
323534 GACTTGGATTTTATAGGG-TTAACCTCCATATGCAGGTGCCAAATAATGTGGACTTTAGGTTTTA
1 GACTTAGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGG---TTAGATTTTA
* * * * * *
323598 TGAA-GCTTGATCTCCCTATACAGGTG-GAAGCTAATGTG
63 T-AAGGCTTGACCTCCTTATACAAGTGCCAA-CTAATATA
* * * * * * *
323636 GACTTCGAGTTCTATA-AGCTTGACCTCCTTATA-AAGGTGCTAGCTAGTGTGGACTTGGATTTT
1 GACTTAGA-TTCTATAGGGCTTAACCTCCCTATACAA-GTGCCAACTAGTGTGG--TTAGATTTT
** * * * * * *
323699 ATAAGGCTAAACCTCCCTATACAAGTGCTAGCTAGTGTG
62 ATAAGGCTTGACCTCCTTATACAAGTGCCAACTAATATA
* * ** * * * * * * *
323738 GACTTGGATTTTATAATGCTTAACCTCCTTATATAAGTGCTAATTAATGTGGAATTTGGGTTTTA
1 GACTTAGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGG---TTAGATTTTA
* *
323803 TCAGGCTTGACCTCCCTATA
63 TAAGGCTTGACCTCCTTATA
323823 TAGATCGCAG
Statistics
Matches: 368, Mismatches: 103, Indels: 35
0.73 0.20 0.07
Matches are distributed among these distances:
99 27 0.07
100 108 0.29
101 42 0.11
102 130 0.35
103 61 0.17
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (100 bp):
GACTTAGATTCTATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGGTTAGATTTTATAA
GGCTTGACCTCCTTATACAAGTGCCAACTAATATA
Found at i:323623 original size:52 final size:49
Alignment explanation
Indices: 323345--324112 Score: 267
Period size: 51 Copynumber: 15.1 Consensus size: 49
323335 ACTTTGACTC
* * * * ** *
323345 TATAAGCTTAACCTCCTTATACA-CTGCTAGCTAACATGGATTTAGGTTT
1 TATAAGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTT-GGTTT
* ** * * * * *
323394 TATAGGGCTTGACCTCTTTATAGAGGTGCCAACTAATATAGACTTAGATTCT
1 TATA-AGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTT-GGTT-T
* * * * *
323446 T-TAGGGCTTGACCTCCCTATACAAGTGCCAACTAGTGTGG--TTAGATTT
1 TATA-AGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTT-GGTTT
* * *** *
323494 TTTAAGGCTTGACCTCCCTATACAGGT-TTCGGTTA-GTACGGACTTGGATTT
1 TATAA-GCTTGACCTCCCTATACAGGTGCTAACTAATGT--GGACTTGG-TTT
* * * * * * *
323545 TATAGGGTTAACCTCCATATGCAGGTGCCAAATAATGTGGACTTTAGGTTT
1 TATAAGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGAC-TT-GGTTT
* * *
323596 TATGAAGCTTGATCTCCCTATACAGGTG-GAAGCTAATGTGGACTTCGAGTTC
1 TAT-AAGCTTGACCTCCCTATACAGGTGCTAA-CTAATGTGGACTT-G-GTTT
* * * *
323648 TATAAGCTTGACCTCCTTATAAAGGTGCTAGCTAGTGTGGACTTGGATTT
1 TATAAGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTTGG-TTT
** * * *
323698 TATAAGGCTAAACCTCCCTATACAAGTGCTAGCTAGTGTGGACTTGGATTT
1 TATAA-GCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTTGG-TTT
* * * * * *
323749 TATAATGCTTAACCTCCTTATATAAGTGCTAATTAATGTGGAATTTGGGTTT
1 TATAA-GCTTGACCTCCCTATACAGGTGCTAACTAATGTGG-ACTT-GGTTT
* * * * ** *
323801 TATCAGGCTTGACCTCCCTATATAGATCGC-AGCTAATGTAAACTTTGGGTTC
1 TAT-AAGCTTGACCTCCCTATACAGGT-GCTAACTAATGTGGAC-TT-GGTTT
* * * * ** * ***
323853 TATAGGGCTTGACCTTCCTATATA-GTTCTAGTTAATATGGACTTTAACTT
1 TATA-AGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGAC-TTGGTTT
* * * *
323903 TATAGGGCTTGACCTCCCTATATAGGTGCTAGCTAATGTGGATTTGGGGTTT
1 TATA-AGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTT--GGTTT
* *** * * * *
323955 TATAAGGCTTGATCTTGTTATATAGGTGCCAACTAATGTGGATTTTGGATTC
1 TATAA-GCTTGACCTCCCTATACAGGTGCTAACTAATGTGGA-CTTGG-TTT
* * * * * * * ** *
324007 TATTAGGCTCGACCTCCCTATATAGTTGCTAGCCAATGTGGATTTTGACTC
1 TA-TAAGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGA-CTTGGTTT
* * * * *
324058 TATAGGGCTTGACCTCCTTATATAGGTGCCAGCTAATGTGGACCTTGGGTTT
1 TATA-AGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGA-CTT-GGTTT
324110 TAT
1 TAT
324113 CGGGCTTGGC
Statistics
Matches: 553, Mismatches: 130, Indels: 69
0.74 0.17 0.09
Matches are distributed among these distances:
47 2 0.00
48 3 0.01
49 36 0.07
50 74 0.13
51 249 0.45
52 179 0.32
53 10 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.36
Consensus pattern (49 bp):
TATAAGCTTGACCTCCCTATACAGGTGCTAACTAATGTGGACTTGGTTT
Found at i:323835 original size:154 final size:152
Alignment explanation
Indices: 323602--324798 Score: 589
Period size: 155 Copynumber: 7.8 Consensus size: 152
323592 GTTTTATGAA
* * * ** * * * * *
323602 GCTTGATCTCCCTATACAGGTGGAAGCTAATGTGGACTTCGAGTTCTAT-AAGCTTGACCTCCTT
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTCCTT
* * * * *
323666 ATAAAGGTGCTAGCTAGTGTGGACTTGGATTTTATAAGGCTAAACCTCCCTATACAAGTGCTAGC
66 ATATAGGTGC-AGCTAATGTGGACTTGGATTCTATAAGGCTAGACCTCCCTATA-TAGTGCTAGC
* * * **
323731 TAGTGTGGACTTGGATTTTATAAT
129 TAATGTGGACTTTGACTTTATAGG
* * ** *
323755 GCTTAACCTCCTTATATAAGTGCTAATTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTCCCT
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTCCTT
* ** * * * * * *
323820 ATATAGATCGCAGCTAATGTAAACTTTGGGTTCTATAGGGCTTGACCTTCCTATATAGTTCTAGT
66 ATATAGGT-GCAGCTAATGTGGAC-TTGGATTCTATAAGGCTAGACCTCCCTATATAGTGCTAGC
* *
323885 TAATATGGACTTTAACTTTATAGG
129 TAATGTGGACTTTGACTTTATAGG
* * * **
323909 GCTTGACCTCCCTATATAGGTGCTAGCTAATGTGG-ATTTGGGGTTTTATAAGGCTTGATCTTGT
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAATTT-GGGTTTTATCAGGCTTGACCTCCT
* * * *
323973 TATATAGGTGCCAACTAATGTGGATTTTGGATTCTATTAGGCTCGACCTCCCTATATAGTTGCTA
65 TATATAGGTG-CAGCTAATGTGGA-CTTGGATTCTATAAGGCTAGACCTCCCTATATAG-TGCTA
* * *
324038 GCCAATGTGGATTTTGACTCTATAGG
127 GCTAATGTGGACTTTGACTTTATAGG
* ** * * *
324064 GCTTGACCTCCTTATATAGGTGCCAGCTAATGTGGACCTTGGGTTTTATCGGGCTTGGCCTTC-T
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTCCTT
* * * * * * * *
324128 ATATA-ATGCCA-CTTAATGTGGACTTTGACTCTATAGGGCTTGACCTCCCTATATGGGTGCCAA
66 ATATAGGTG-CAGC-TAATGTGGACTTGGATTCTATAAGGCTAGACCTCCCTATAT-AGTGCTAG
* ** *
324191 CTAATGTAGA-TTTAGGGTTCTATAAG
128 CTAATGTGGACTTT-GACTT-TATAGG
* * * * * ** *
324217 GCTTGA--T-CTTCT-TA-GTGCCAGCTAA-GATGGATTTTGGATTTAATTGGGCTTGACCTCCC
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATG-TGGAATTTGGGTTTTATCAGGCTTGACCTCCT
* * * * * * * * *
324276 TATACAAGTGCCAGCTAATGTGGATTTTGACTCTATAGGGCTTGACCTCCCTATACATGTGCCAG
65 TATATAGGTG-CAGCTAATGTGGACTTGGATTCTATAAGGCTAGACCTCCCTATATA-GTGCTAG
* ** *
324341 CTAATGTGGACTTGGGGTTCCATAGG
128 CTAATGTGGACTTTGACTT-TATAGG
* * ** * * * * * * * *
324367 GCTTAACCT-CTATATACAATTGTTAGTTAATTTAGACTTTAGATTCTAT-AGGACTTGACCTCC
1 GCTTGACCTCCT-TATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGG-CTTGACCTCC
* ** * * * * * * *
324430 CTATATAGGTGTCAGCTTGTGTGGACCTT-AACTCTATAGGGCTTGATCTCCTTATAGAAGTGCT
64 TTATATAGGTG-CAGCTAATGTGGA-CTTGGATTCTATAAGGCTAGACCTCCCTATA-TAGTGCT
* ** * *
324494 AACTAATACGGACTTAGAGTTCTATAGG
126 AGCTAATGTGGACTTTGACTT-TATAGG
* * * * * * * *
324522 GCTTAACCTCCTTATACAGGTGCTAGCTAATGT-CAACTTTGGATTCTATAAGTCTTGATCTTCC
1 GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAA-TTTGGGTTTTATCAGGCTTGA-CCTCC
* * * * * * **
324586 -TATATAGGTGTTAGGTAATATGGACTTTAGG-TTTTATAGGGCTTGACCTCTATATATAAGTGC
64 TTATATAGGTG-CAGCTAATGTGGAC-TT-GGATTCTATAAGGCTAGACCTCCCTATAT-AGTGC
* * * * *
324649 CAGCTAGTATGGACTTGGAGTTCTATAGG
125 TAGCTAATGTGGACTTTGACTT-TATAGG
** * * * * * *
324678 AATTAACCTCCTCCCTATATAGGTGCTAGCTAGTGTGG-ACTTGGATTCTATAAGGCTTGACCTC
1 GCTTGACCTCCT---TATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTC
* * * * * * *
324742 CCTATACAGGTGCCAACTAATATGGACATGGGTTCTATAAGGCTTA-ACCTCCTTATA
63 CTTATATAGGTG-CAGCTAATGTGGACTTGGATTCTATAAGGC-TAGACCTCCCTATA
324799 GAGGTGCCCA
Statistics
Matches: 819, Mismatches: 183, Indels: 80
0.76 0.17 0.07
Matches are distributed among these distances:
147 1 0.00
148 35 0.04
149 7 0.01
150 78 0.10
151 7 0.01
152 44 0.05
153 69 0.08
154 159 0.19
155 262 0.32
156 74 0.09
157 23 0.03
158 40 0.05
159 20 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (152 bp):
GCTTGACCTCCTTATATAGGTGCTAGCTAATGTGGAATTTGGGTTTTATCAGGCTTGACCTCCTT
ATATAGGTGCAGCTAATGTGGACTTGGATTCTATAAGGCTAGACCTCCCTATATAGTGCTAGCTA
ATGTGGACTTTGACTTTATAGG
Found at i:324220 original size:52 final size:51
Alignment explanation
Indices: 323381--324806 Score: 628
Period size: 52 Copynumber: 27.8 Consensus size: 51
323371 CTAGCTAACA
* * * ** * * *
323381 TGGATTTAGGTTTTATAGGGCTTGACCTCTTTATAGAGGTGCCAACTAATA
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * * * * * *
323432 TAGACTTAGATTCTTTAGGGCTTGACCTCCCTATACAAGTGCCAACTAGTG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * ** * * * *
323483 TGG--TTAGATTTTTTAAGGCTTGACCTCCCTATACAGGTTTCGGTTAGTA
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * * * ** **
323532 CGGACTTGGATTTTAT-AGGGTTAACCTCCATATGCAGGTGCCAAATAATG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * **
323582 TGGACTTTAGGTTTTATGAA-GCTTGATCTCCCTATACAGGTGGAAGCTAATG
1 TGGA-TTTGGGTTCTAT-AAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * *
323634 TGGACTTCGAGTTCTATAA-GCTTGACCTCCTTATAAAGGTGCTAGCTAGTG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * ** * * * *
323685 TGGACTTGGATTTTATAAGGCTAAACCTCCCTATACAAGTGCTAGCTAGTG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * * * * **
323736 TGGACTTGGATTTTATAATGCTTAACCTCCTTATATAAGTGCTAATTAATG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * *
323787 TGGAATTTGGGTTTTATCAGGCTTGACCTCCCTATATAGAT-CGCAGCTAATG
1 TGG-ATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGC-CAGCTAATG
** * * * * * *
323839 TAAACTTTGGGTTCTATAGGGCTTGACCTTCCTATATA-GTTCTAGTTAATA
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
*** * *
323890 TGGACTTTAACTT-TATAGGGCTTGACCTCCCTATATAGGTGCTAGCTAATG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * *** *
323941 TGGATTTGGGGTTTTATAAGGCTTGATCTTGTTATATAGGTGCCAACTAATG
1 TGGATTT-GGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * *
323993 TGGATTTTGGATTCTATTAGGCTCGACCTCCCTATATAGTTGCTAGCCAATG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* ** * *
324045 TGGATTTTGACTCTATAGGGCTTGACCTCCTTATATAGGTGCCAGCTAATG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * ** * * *
324096 TGGACCTTGGGTTTTATCGGGCTTGGCCT-TCTATATA-ATGCCA-CTTAATG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGC-TAATG
** * * *
324146 TGGACTTT-GACTCTATAGGGCTTGACCTCCCTATATGGGTGCCAACTAATG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * *
324197 TAGATTTAGGGTTCTATAAGGCTTGA--T-CTTCT-TA-GTGCCAGCTAA-G
1 TGGATTT-GGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* ** * *
324243 ATGGATTTTGGATT-TAATTGGGCTTGACCTCCCTATACAAGTGCCAGCTAATG
1 -TGGA-TTTGGGTTCT-ATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* ** * * *
324296 TGGATTTTGACTCTATAGGGCTTGACCTCCCTATACATGTGCCAGCTAATG
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * ** * ** ** * *
324347 TGGACTTGGGGTTCCATAGGGCTTAACCTCTATATACAATTGTTAGTTAATT
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * **
324399 TAGACTTTAGATTCTAT-AGGACTTGACCTCCCTATATAGGTGTCAGCTTGTG
1 TGGA-TTTGGGTTCTATAAGG-CTTGACCTCCCTATATAGGTGCCAGCTAATG
* *** * * * * * * * *
324451 TGGACCTT-AACTCTATAGGGCTTGATCTCCTTATAGAAGTGCTAACTAATA
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * * * * *
324502 CGGACTTAGAGTTCTATAGGGCTTAACCTCCTTATACAGGTGCTAGCTAATG
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
** * * * * ** * *
324554 TCAACTTTGGATTCTATAAGTCTTGATCTTCCTATATAGGTGTTAGGTAATA
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * ** * * *
324606 TGGACTTTAGGTTTTATAGGGCTTGACCTCTATATATAAGTGCCAGCTAGTA
1 TGGA-TTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
* * * * *
324658 TGGACTTGGAGTTCTAT-AGGAATTAACCTCCTCCCTATATAGGTGCTAGCTAGTG
1 TGGATTTGG-GTTCTATAAGG-CTTGA---CCTCCCTATATAGGTGCCAGCTAATG
* * * * *
324713 TGGACTTGGATTCTATAAGGCTTGACCTCCCTATACAGGTGCCAACTAATA
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
** * * *
324764 TGGACATGGGTTCTATAAGGCTTAACCTCCTTATAGAGGTGCC
1 TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCC
324807 CAGTAGTGTG
Statistics
Matches: 1047, Mismatches: 287, Indels: 82
0.74 0.20 0.06
Matches are distributed among these distances:
46 2 0.00
47 26 0.02
48 4 0.00
49 59 0.06
50 91 0.09
51 404 0.39
52 414 0.40
53 5 0.00
54 9 0.01
55 33 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (51 bp):
TGGATTTGGGTTCTATAAGGCTTGACCTCCCTATATAGGTGCCAGCTAATG
Found at i:324383 original size:103 final size:102
Alignment explanation
Indices: 323225--324798 Score: 719
Period size: 103 Copynumber: 15.4 Consensus size: 102
323215 AGGTGTTATT
** * * * * * *
323225 TAATGTGGACTTAAGATT-TATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGAACTTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGA-TTT
* * * * * * *
323289 -GACTCTAAAAGGCTCGACCTCCTTATACAAGTGCCAAC
65 GGATTCTATAGGGCTTGACCTCCCTATA-TAGTGCCAGC
* ** * * * * * * **
323327 TAATATATACTTT-GACTCTATA-AGCTTAACCTCCTTATA-CACTGCTAGCTAACATGGATTTA
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATTT-
* ** * *
323389 GG-TTTTATAGGGCTTGACCTCTTTATAGAGGTGCCAAC
65 GGATTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
* * * * * * * * *
323427 TAATATAGAC-TTAGATTCTTTAGGGCTTGACCTCCCTATACAAGTGCCAACTAGTGTGG--TTA
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATTTG
* * * * ** * *
323489 GATTTTTTAAGGCTTGACCTCCCTATACAGGTTTCGGT
66 GATTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
* ** * * * ** * **
323527 TAGTACGGAC-TTGGATTTTATAGGG-TTAACCTCCATATGCAGGTGCCAAATAATGTGGACTTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGA-TTT
* * * * **
323590 AGG-TTTTAT-GAAGCTTGATCTCCCTATACAGGTGGAAGC
65 -GGATTCTATAG-GGCTTGACCTCCCTATATA-GTGCCAGC
* * * * *
323629 TAATGTGGAC-TTCGAGTTCTATA-AGCTTGACCTCCTTATA-AAGGTGCTAGCTAGTGTGGACT
1 TAATGTGGACTTTGGA-TTCTATAGGGCTTGACCTCCTTATATAA-GTGCCAGCTAATGTGGATT
* * ** * *
323691 TGGATTTTATAAGGCTAAACCTCCCTATACAAGTGCTAGC
64 TGGATTCTATAGGGCTTGACCTCCCTATA-TAGTGCCAGC
* * ** * * **
323731 TAGTGTGGAC-TTGGATTTTATAATGCTTAACCTCCTTATATAAGTGCTAATTAATGTGGAATTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGG-ATTT
* *
323795 GGGTTTTATCA-GGCTTGACCTCCCTATATAGAT-CGCAGC
65 GGATTCTAT-AGGGCTTGACCTCCCTATATAG-TGC-CAGC
** * * * * *
323834 TAATGTAAACTTTGGGTTCTATAGGGCTTGACCTTCC-TATAT-AGTTCTAGTTAATATGGACTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACC-TCCTTATATAAGTGCCAGCTAATGTGGA-TT
* *
323897 T-AACTT-TATAGGGCTTGACCTCCCTATATAGGTGCTAGC
64 TGGA-TTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
* * * * ** * *
323936 TAATGTGGA-TTTGGGGTTTTATAAGGCTTGATCTTGTTATATAGGTGCCAACTAATGTGGATTT
1 TAATGTGGACTTT-GGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGA-TT
* *
324000 TGGATTCTATTA-GGCTCGACCTCCCTATATAGTTGCTAGC
64 TGGATTCTA-TAGGGCTTGACCTCCCTATATAG-TGCCAGC
* * * * *
324040 CAATGTGGA-TTTTGACTCTATAGGGCTTGACCTCCTTATATAGGTGCCAGCTAATGTGGACCTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGA-TTT
* * * * * *
324104 GGGTTTTATCGGGCTTGGCCT-TCTATATAATGCCA-C
65 GGATTCTATAGGGCTTGACCTCCCTATATAGTGCCAGC
* * ** * *
324140 TTAATGTGGACTTT-GACTCTATAGGGCTTGACCTCCCTATATGGGTGCCAACTAATGTAGATTT
1 -TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATTT
* * * *
324204 AGGGTTCTATAAGGCTTGA--T-CTTCT-TAGTGCCAGC
65 -GGATTCTATAGGGCTTGACCTCCCTATATAGTGCCAGC
* * * *
324239 TAA-GATGGATTTTGGATT-TAATTGGGCTTGACCTCCCTATACAAGTGCCAGCTAATGTGGATT
1 TAATG-TGGACTTTGGATTCT-ATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATT
* * *
324302 TTGACTCTATAGGGCTTGACCTCCCTATACATGTGCCAGC
64 TGGATTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
* * * * * * ** * * *
324342 TAATGTGGACTTGGGGTTCCATAGGGCTTAACCT-CTATATACAATTGTTAGTTAATTTAGACTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCT-TATATAAGTGCCAGCTAATGTGGA-TT
* * *
324406 TAGATTCTATAGGACTTGACCTCCCTATATAGGTGTCAGC
64 TGGATTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
** * * * * * * * ** * *
324446 TTGTGTGGACCTT-AACTCTATAGGGCTTGATCTCCTTATAGAAGTGCTAACTAATACGGACTTA
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATTTG
* * * *
324510 GAGTTCTATAGGGCTTAACCTCCTTATACAGGTGCTAGC
66 GA-TTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
** * * * * ** * *
324549 TAATGTCAACTTTGGATTCTATAAGTCTTGATCTTCC-TATATAGGTGTTAGGTAATATGGACTT
1 TAATGTGGACTTTGGATTCTATAGGGCTTGA-CCTCCTTATATAAGTGCCAGCTAATGTGGA-TT
* **
324613 TAGG-TTTTATAGGGCTTGACCTCTATATATAAGTGCCAGC
64 T-GGATTCTATAGGGCTTGACCTCCCTATAT-AGTGCCAGC
* * ** * * * *
324653 TAGTATGGAC-TTGGAGTTCTATAGGAATTAACCTCCTCCCTATATAGGTGCTAGCTAGTGTGGA
1 TAATGTGGACTTTGGA-TTCTATAGGGCTTGACCTCCT---TATATAAGTGCCAGCTAATGTGGA
* * * *
324717 CTTGGATTCTATAAGGCTTGACCTCCCTATACAGGTGCCAAC
62 TTTGGATTCTATAGGGCTTGACCTCCCTATATA-GTGCCAGC
* * * * *
324759 TAATATGGAC-ATGGGTTCTATAAGGCTTAACCTCCTTATA
1 TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATA
324799 GAGGTGCCCA
Statistics
Matches: 1123, Mismatches: 279, Indels: 140
0.73 0.18 0.09
Matches are distributed among these distances:
97 1 0.00
98 32 0.03
99 79 0.07
100 105 0.09
101 118 0.11
102 214 0.19
103 293 0.26
104 186 0.17
105 32 0.03
106 43 0.04
107 20 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (102 bp):
TAATGTGGACTTTGGATTCTATAGGGCTTGACCTCCTTATATAAGTGCCAGCTAATGTGGATTTG
GATTCTATAGGGCTTGACCTCCCTATATAGTGCCAGC
Found at i:324766 original size:106 final size:106
Alignment explanation
Indices: 324584--324794 Score: 248
Period size: 106 Copynumber: 2.0 Consensus size: 106
324574 TCTTGATCTT
* * * * * *
324584 CCTATATAGGTGTTAGGTAATATGGACTTTAGGTTTTATAGGGCTTGACCTCTATATATAAGTGC
1 CCTATATAGGTGCTAGCTAATATGGACTTTAGGTTCTATAAGGCTTGACCTCCATATACAAGTGC
* * *
324649 CAGCTAGTATGGACTTGGAGTTCTAT-AGGAATTAACCTCCTC
66 CAACTAATATGGACATGG-GTTCTATAAGG-ATTAACCTCCTC
* * * *
324691 CCTATATAGGTGCTAGCTAGTGTGGAC-TT-GGATTCTATAAGGCTTGACCTCCCTATACAGGTG
1 CCTATATAGGTGCTAGCTAATATGGACTTTAGG-TTCTATAAGGCTTGACCTCCATATACAAGTG
*
324754 CCAACTAATATGGACATGGGTTCTATAAGGCTTAACCTCCT
65 CCAACTAATATGGACATGGGTTCTATAAGGATTAACCTCCT
324795 TATAGAGGTG
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
105 19 0.22
106 46 0.52
107 23 0.26
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (106 bp):
CCTATATAGGTGCTAGCTAATATGGACTTTAGGTTCTATAAGGCTTGACCTCCATATACAAGTGC
CAACTAATATGGACATGGGTTCTATAAGGATTAACCTCCTC
Found at i:324819 original size:51 final size:51
Alignment explanation
Indices: 323239--324819 Score: 185
Period size: 51 Copynumber: 30.9 Consensus size: 51
323229 GTGGACTTAA
* * * * *
323239 GATT-TATAGGGCTTAACCTCCCTATACAAGTGCCAACTAGTGTGAACTTT
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * ** * * * * ** * *
323289 GACTCTAAAAGGCTCGACCTCCTTATACAAGTGCCAACTAATATATACTTT
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * *** **
323340 GACTCTATAA-GCTTAACCTCCTTATACA-CTGCTAGCTAACATGGATTTAG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACAT-G
* * * ** * * * * * *
323390 G-TTTTATAGGGCTTGACCTCTTTATAGAGGTGCCAACTAATATAGACTTA
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * *
323440 GATTCTTTAGGGCTTGACCTCCCTATACAAGTGCCAACTAGTGTGG--TTA
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * ** *** ** *
323489 GATTTTTTAAGGCTTGACCTCCCTATACAGGTTTCGGTTAGTACGGACTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * *
323540 GATTTTAT-AGGGTTAACCTCCATATGCAGGTGCCAAATAATGTGGACTTTAG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGAC-AT-G
* * * * * * *
323592 G-TTTTATGAA-GCTTGATCTCCCTATACAGGTG-GAAGCTAATGTGGACTTC
1 GATTCTAT-AAGGCTTAACCTCCCTATACAGGTGCCAA-CTAGTGTGGACATG
* * * * * *
323642 GAGTTCTATAA-GCTTGACCTCCTTATAAAGGTGCTAGCTAGTGTGGACTTG
1 GA-TTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * *
323693 GATTTTATAAGGCTAAACCTCCCTATACAAGTGCTAGCTAGTGTGGACTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * * *
323744 GATTTTATAATGCTTAACCTCCTTATATAAGTGCTAATTAATGTGGA-ATTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACA--TG
* * * * * * * * ** *
323796 GGTTTTATCAGGCTTGACCTCCCTATATAGAT-CGCAGCTAATGTAAACTTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGC-CAACTAGTGTGGAC-ATG
* * * * * * * ** * * * *
323848 GGTTCTATAGGGCTTGACCTTCCTATATA-GTTCTAGTTAATATGGACTTT
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * * **
323898 AACTT-TATAGGGCTTGACCTCCCTATATAGGTGCTAGCTAATGTGGATTTGG
1 GA-TTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACAT-G
* * * * *** * * **
323950 GGTTTTATAAGGCTTGATCTTGTTATATAGGTGCCAACTAATGTGGATTTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGA-CATG
* ** * * * * * * ** *
324002 GATTCTATTAGGCTCGACCTCCCTATATAGTTGCTAGCCAATGTGGATTTT
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * * *
324053 GACTCTATAGGGCTTGACCTCCTTATATAGGTGCCAGCTAATGTGGACCTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGA-CATG
* * ** ** * * * * * *
324105 GGTTTTATCGGGCTTGGCCT-TCTATATA-ATGCC-ACTTAATGTGGACTTT
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAAC-TAGTGTGGACATG
* * * ** * * **
324154 GACTCTATAGGGCTTGACCTCCCTATATGGGTGCCAACTAATGTAGATTTAG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACAT-G
* * * * * * **
324206 GGTTCTATAAGGCTTGATCT-TCT-T--A-GTGCCAGCTAAG-ATGGATTTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACT-AGTGTGGA-CATG
** * * * * ** *
324253 GATT-TAATTGGGCTTGACCTCCCTATACAAGTGCCAGCTAATGTGGATTTT
1 GATTCT-ATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * *
324304 GACTCTATAGGGCTTGACCTCCCTATACATGTGCCAGCTAATGTGGACTTGG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACAT-G
* * * ** ** ** ** * * * * *
324356 GGTTCCATAGGGCTTAACCTCTATATACAATTGTTAGTTAATTTAGACTTTA
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGAC-ATG
* * * * * * *
324408 GATTCTAT-AGGACTTGACCTCCCTATATAGGTGTCAGCTTGTGTGGACCTT
1 GATTCTATAAGG-CTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * * * * * * ** * *
324459 AACTCTATAGGGCTTGATCTCCTTATAGAAGTGCTAACTAATACGGACTTA
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * * ** *
324510 GAGTTCTATAGGGCTTAACCTCCTTATACAGGTGCTAGCTAATGTCAACTTTG
1 GA-TTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGAC-ATG
* * * * * ** ** * * *
324563 GATTCTATAAGTCTTGATCTTCCTATATAGGTGTTAGGTAATATGGACTTTAG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGAC-AT-G
* * * ** * * * * *
324616 G-TTTTATAGGGCTTGACCTCTATATATAAGTGCCAGCTAGTATGGACTTG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * *
324666 GAGTTCTAT-AGGAATTAACCTCCTCCCTATATAGGTGCTAGCTAGTGTGGACTTG
1 GA-TTCTATAAGG-CTTAA---CCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * *
324721 GATTCTATAAGGCTTGACCTCCCTATACAGGTGCCAACTAATATGGACATG
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
* * * * *
324772 GGTTCTATAAGGCTTAACCTCCTTATAGAGGTGCCCAGTAGTGTGGAC
1 GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGAC
324820 CTAGATTCAG
Statistics
Matches: 1161, Mismatches: 313, Indels: 113
0.73 0.20 0.07
Matches are distributed among these distances:
46 1 0.00
47 26 0.02
48 6 0.01
49 77 0.07
50 118 0.10
51 478 0.41
52 400 0.34
53 12 0.01
54 9 0.01
55 34 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (51 bp):
GATTCTATAAGGCTTAACCTCCCTATACAGGTGCCAACTAGTGTGGACATG
Found at i:325838 original size:32 final size:32
Alignment explanation
Indices: 325802--325862 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
325792 ATATGAATAA
325802 ACATGAATGCAAAAT-CATGTGAATGAGAACGC
1 ACATGAATGC-AAATGCATGTGAATGAGAACGC
* *
325834 ACATGAGTGCAAATGCTTGTGAATGAGAA
1 ACATGAATGCAAATGCATGTGAATGAGAA
325863 TGCATATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (32 bp):
ACATGAATGCAAATGCATGTGAATGAGAACGC
Found at i:325888 original size:144 final size:144
Alignment explanation
Indices: 325688--325994 Score: 346
Period size: 144 Copynumber: 2.1 Consensus size: 144
325678 AAGTAGCAAT
* * * * *
325688 GCACATGAATGCAAATGTTTATGAATAAGAATGTATATGAGTGCAGATACAAATGAGTGCAATTA
1 GCACATGAGTGCAAATGCTTATGAATAAGAATGCATATAAGTGCAAATACAAATGAGTGCAATTA
* * * * ** * *
325753 CACGTGAGTACGAATGCCTAT-ATTTGTGAATGGACATGAATATGAATAAACATGAATGCAAAAT
66 CACATGAGAACGAATGCCCATGA-ATGCAAATGGACATGAATAGGAATAAACATGAATGCAAAAG
**
325817 CATGTGAATGAGAAC
130 CACATGAATGAGAAC
* * * * * * *
325832 GCACATGAGTGCAAATGCTTGTGAATGAGAATGCATATAAGTGTAAATATAGATGAGTGCGATTG
1 GCACATGAGTGCAAATGCTTATGAATAAGAATGCATATAAGTGCAAATACAAATGAGTGCAATTA
* * *
325897 CACATGAGAACGAATGCCCATGAATGCAAATGGACATGAATAGGAATACACATGATTGCAAAGGC
66 CACATGAGAACGAATGCCCATGAATGCAAATGGACATGAATAGGAATAAACATGAATGCAAAAGC
*
325962 ACATGAATGAGAAT
131 ACATGAATGAGAAC
* *
325976 GCACGTGAGTGCAATTGCT
1 GCACATGAGTGCAAATGCT
325995 CATAAGCATG
Statistics
Matches: 134, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
144 133 0.99
145 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (144 bp):
GCACATGAGTGCAAATGCTTATGAATAAGAATGCATATAAGTGCAAATACAAATGAGTGCAATTA
CACATGAGAACGAATGCCCATGAATGCAAATGGACATGAATAGGAATAAACATGAATGCAAAAGC
ACATGAATGAGAAC
Found at i:325979 original size:16 final size:17
Alignment explanation
Indices: 325908--325979 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 17
325898 ACATGAGAAC
*
325908 GAATGCCCATGAATGCA
1 GAATGCACATGAATGCA
*
325925 -AATGGACATGAAT--A
1 GAATGCACATGAATGCA
* *
325939 GGAATACACATGATTGCA
1 -GAATGCACATGAATGCA
*
325957 -AAGGCACATGAATG-A
1 GAATGCACATGAATGCA
325972 GAATGCAC
1 GAATGCAC
325980 GTGAGTGCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 38 0.93
18 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.18
Consensus pattern (17 bp):
GAATGCACATGAATGCA
Found at i:325989 original size:32 final size:32
Alignment explanation
Indices: 325915--325989 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
325905 AACGAATGCC
*
325915 CATGAATGCAAATGGACATGAATAGGAATACA
1 CATGAGTGCAAATGGACATGAATAGGAATACA
* *
325947 CATGATTGCAAA-GGCACATGAAT-GAGAATGCA
1 CATGAGTGCAAATGG-ACATGAATAG-GAATACA
*
325979 CGTGAGTGCAA
1 CATGAGTGCAA
325990 TTGCTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (32 bp):
CATGAGTGCAAATGGACATGAATAGGAATACA
Found at i:339000 original size:32 final size:34
Alignment explanation
Indices: 338941--339003 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
338931 CAAGCCAACG
338941 TATCGATACAATTTGGTCATGTATCGATACATTA
1 TATCGATACAATTTGGTCATGTATCGATACATTA
338975 TATCGATAC-ATCTT-GT-ATGTATCGATACA
1 TATCGATACAAT-TTGGTCATGTATCGATACA
339004 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.46
33 4 0.14
34 11 0.39
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (34 bp):
TATCGATACAATTTGGTCATGTATCGATACATTA
Found at i:339103 original size:13 final size:13
Alignment explanation
Indices: 339085--339109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
339075 ACATTTAGTC
339085 ATGTATCGATATA
1 ATGTATCGATATA
339098 ATGTATCGATAT
1 ATGTATCGATAT
339110 TGTGCGTTAT
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:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:339142 original size:20 final size:19
Alignment explanation
Indices: 339119--339157 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
339109 TTGTGCGTTA
*
339119 TGTATTGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
339139 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
339158 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:341108 original size:23 final size:21
Alignment explanation
Indices: 341073--341115 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
341063 ATCATAAACC
341073 AACAACAAAAAAATTAAAAAGGA
1 AACAACAAAAAAA--AAAAAGGA
341096 AACAA-AAAGAAAAAAAAAGG
1 AACAACAAA-AAAAAAAAAGG
341116 GGGAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.77, C:0.07, G:0.12, T:0.05
Consensus pattern (21 bp):
AACAACAAAAAAAAAAAAGGA
Found at i:344586 original size:21 final size:21
Alignment explanation
Indices: 344557--344597 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
344547 TGTGAGTGTG
*
344557 GGGGCTGCCCGGTTGCGACCTA
1 GGGGCTG-CCGGTCGCGACCTA
344579 GGGG-TGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
344598 GGTAAGTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.07, C:0.32, G:0.44, T:0.17
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCTA
Found at i:344906 original size:20 final size:19
Alignment explanation
Indices: 344868--344907 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
344858 CTATTTTTGT
*
344868 TGATGATTTTGATGAAAAA
1 TGATGATTTTGAAGAAAAA
344887 TGATGTATTTTGAAGTAAAAA
1 TGATG-ATTTTGAAG-AAAAA
344908 ACAAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TGATGATTTTGAAGAAAAA
Found at i:345049 original size:13 final size:13
Alignment explanation
Indices: 345031--345068 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
345021 ATAAACCCTT
*
345031 TGTATCGATACAC
1 TGTATCGATACAA
*
345044 TGTATCAATACAA
1 TGTATCGATACAA
345057 TGTATCGATACA
1 TGTATCGATACA
345069 GAGAATGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:345284 original size:8 final size:8
Alignment explanation
Indices: 345266--345296 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
345256 TTTTCAACAT
345266 CAAACATCA
1 CAAA-ATCA
345275 CAAAATCA
1 CAAAATCA
345283 CAAAATCA
1 CAAAATCA
345291 CAAAAT
1 CAAAAT
345297 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:347442 original size:21 final size:21
Alignment explanation
Indices: 347409--347449 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
347399 CTAAGTAAAA
347409 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
347430 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
347450 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:347514 original size:20 final size:19
Alignment explanation
Indices: 347489--347559 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
347479 ACCCTGAAAA
347489 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
347509 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
347528 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
347549 GTATCGATACA
1 GTATCGATACA
347560 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:347612 original size:53 final size:53
Alignment explanation
Indices: 347529--347665 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
347519 AGATTGCATA
347529 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
347583 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
* *
347636 GTATCGATACACAAAATATATATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
347666 TTGGAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:347741 original size:21 final size:22
Alignment explanation
Indices: 347711--347762 Score: 97
Period size: 21 Copynumber: 2.4 Consensus size: 22
347701 ACTATTCATT
347711 ACTGTTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
347733 ACT-TTCATGTATCGATACATC
1 ACTGTTCATGTATCGATACATC
347754 ACTGTTCAT
1 ACTGTTCAT
347763 AGATCACTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (22 bp):
ACTGTTCATGTATCGATACATC
Found at i:347851 original size:48 final size:47
Alignment explanation
Indices: 347765--347858 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 47
347755 CTGTTCATAG
* *
347765 ATCACTGTTCACACTGTTCACGTATCACTATTCATGTATCGTTAAAAA
1 ATCACTGTTCACACTATTCACGTATCACTA-TCATGTATCGATAAAAA
*
347813 ATCACTGTTCATCACTATTCATGTATCGA-TA-CATTGTATCGATAAA
1 ATCACTGTTCA-CACTATTCACGTATC-ACTATCA-TGTATCGATAAA
347859 GTGTATCGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 2 0.05
48 22 0.55
49 15 0.38
50 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (47 bp):
ATCACTGTTCACACTATTCACGTATCACTATCATGTATCGATAAAAA
Found at i:347852 original size:13 final size:13
Alignment explanation
Indices: 347834--347872 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
347824 TCACTATTCA
347834 TGTATCGATACAT
1 TGTATCGATACAT
* *
347847 TGTATCGATAAAG
1 TGTATCGATACAT
347860 TGTATCGATACAT
1 TGTATCGATACAT
347873 CACTGTTCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:352701 original size:15 final size:13
Alignment explanation
Indices: 352669--352694 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
352659 AATTTGGTCA
352669 TGTATCGATACAT
1 TGTATCGATACAT
352682 TGTATCGATACAT
1 TGTATCGATACAT
352695 CTTGTATGTA
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:356900 original size:13 final size:13
Alignment explanation
Indices: 356882--356914 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
356872 GGATATGCTC
356882 AAACTTATGGGGT
1 AAACTTATGGGGT
356895 AAACTTATGGGGT
1 AAACTTATGGGGT
356908 AAA-TTAT
1 AAACTTAT
356915 TCTGAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (13 bp):
AAACTTATGGGGT
Found at i:358658 original size:13 final size:13
Alignment explanation
Indices: 358640--358666 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
358630 CTCAGCACTT
358640 TAGAGCTTCAATC
1 TAGAGCTTCAATC
358653 TAGAGCTTCAATC
1 TAGAGCTTCAATC
358666 T
1 T
358667 TAATCTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TAGAGCTTCAATC
Found at i:360849 original size:21 final size:22
Alignment explanation
Indices: 360791--360874 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
360781 ATGTAATAAC
*
360791 ATTAAATATATATTCAATTA-T
1 ATTAAGTATATATTCAATTAGT
* *
360812 ACT-AGTA-ATAATCAATTAGT
1 ATTAAGTATATATTCAATTAGT
360832 -TTAAGTATATATTCAATT-GT
1 ATTAAGTATATATTCAATTAGT
*
360852 ATTAA-TGATAAATTTCAATTAGT
1 ATTAAGT-ATATA-TTCAATTAGT
360875 CTAAATACAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
19 11 0.22
20 11 0.22
21 19 0.38
22 7 0.14
23 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTAAGTATATATTCAATTAGT
Found at i:360908 original size:104 final size:104
Alignment explanation
Indices: 360758--361497 Score: 302
Period size: 119 Copynumber: 6.5 Consensus size: 104
360748 AATACTGACC
* * * *
360758 AATTTCAATAAATCTAAATACGAATGTAATAACATTAAATATATATTCAATTATACTAGTAATAA
1 AATTTCAATTAGTCTAAATACAAATATAATAACATT-AATATATATTCAATT-TACTAGTAATAA
* * *
360823 TCAATTAGTTTAAGTATATATTCAATTGT-ATTAATGA-TA
64 TCAATTAGTTTAAGTATATATTCAATTGTCAATAATAACCA
* *
360862 AATTTCAATTAGTCTAAATACAAATAAAATAACGTTGAATATATATTCAATTTCACTAGTAATCA
1 AATTTCAATTAGTCTAAATACAAATATAATAACATT-AATATATATTCAATTT-ACTAGT-A--A
*
360927 TCAATTTCAATTAGTTTAAGTATATATTTAATTGTACCAATAATAACCA
61 T-AA--TCAATTAGTTTAAGTATATATTCAATTGT--CAATAATAACCA
* * *
360976 ATTTCTATTTCAATTAGCCTAAAAACAAATATAATAACATTAAGTATATATTCAATTGTATTAGT
1 A-----ATTTCAATTAGTCTAAATACAAATATAATAACATTAA-TATATATTCAATT-TACTAGT
*
361041 AATAATCAATTTCACTTAGTTTAA-T-TATATTCAATTGTACTAATGCTAACTAATTTC-
59 AATAATC-A----A-TTAGTTTAAGTATATATTCAATTGT-C-AA---TAA-TAA--CCA
* * **
361098 AATTTCAATTAGTCTAAATACAAATGA-ACTAACA--AAGTATATATACAATTGTAAAAGTAATG
1 AATTTCAATTAGTCTAAATACAAAT-ATAATAACATTAA-TATATATTCAATT-TACTAGT-A--
* * *
361160 ATCAATGTCAATTAGTTTAAGTATATATTTAACTG-CACCAGTAATTACCA
60 AT-AA--TCAATTAGTTTAAGTATATATTCAATTGTCA--A-TAATAACCA
* * * * *
361210 ATTTCTATTTCAATTAG-CTTAAACACGAATGTAATAATATTAAGTATCTATTCAATTGTACTAG
1 A-----ATTTCAATTAGTC-TAAATACAAATATAATAACATTAA-TATATATTCAATT-TACTAG
* **
361274 TAATAATCAATTTATTAGTTT-AGT-TATATTCAATTGTACTATTGCTAACCAA
58 TAATAATC-A---ATTAGTTTAAGTATATATTCAATTGT-C-AATAATAACC-A
* * * * *
361326 TTTCAATTTCACTTAGTCTAAATACAAATGTACTAATATTAAGTATATATTCAACTGTGACAATA
1 ----AATTTCAATTAGTCTAAATACAAATATAATAACATTAA-TATATATTCAA-T-TTAC--TA
* * *
361391 GTAATCAATTTCAATTAGTTTGAGTATATATTTAATTGTACTAATAATAATC-
57 GTAAT-AA--TCAATTAGTTTAAGTATATATTCAATTGT-C-AATAATAACCA
* *
361443 AATTTCAACTTTAATTAGTCT-AATACAAATGTAATAACATTAAGTACATATTCAA
1 AATTT---C---AATTAGTCTAAATACAAATATAATAACATTAA-TATATATTCAA
361498 ATGTAATAGA
Statistics
Matches: 496, Mismatches: 60, Indels: 146
0.71 0.09 0.21
Matches are distributed among these distances:
103 1 0.00
104 51 0.10
105 1 0.00
107 2 0.00
108 2 0.00
110 28 0.06
111 1 0.00
112 1 0.00
113 17 0.03
114 8 0.02
115 92 0.19
116 19 0.04
117 95 0.19
118 51 0.10
119 111 0.22
120 7 0.01
121 7 0.01
122 1 0.00
123 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (104 bp):
AATTTCAATTAGTCTAAATACAAATATAATAACATTAATATATATTCAATTTACTAGTAATAATC
AATTAGTTTAAGTATATATTCAATTGTCAATAATAACCA
Found at i:361012 original size:119 final size:119
Alignment explanation
Indices: 360862--361645 Score: 719
Period size: 119 Copynumber: 6.6 Consensus size: 119
360852 ATTAATGATA
* *
360862 AATTTCAATTAGTCTAAATACAAATAAAATAACGTTGAA-TATATATTCAATT-TCACTAGTAAT
1 AATTTCAATTAGTCTAAATACAAATATAATAACATT-AAGTATATATTCAATTGT-ACTAGTAAT
* *
360925 CATCAATTTCAATTAGTTTAAGTATATATTTAATTGTACCAATAATAACCAATTTC
64 AATCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
* * * *
360981 TATTTCAATTAGCCTAAAAACAAATATAATAACATTAAGTATATATTCAATTGTATTAGTAATAA
1 AATTTCAATTAGTCTAAATACAAATATAATAACATTAAGTATATATTCAATTGTACTAGTAATAA
* * ** *
361046 TCAATTTCACTTAGTTTAA-T-TATATTCAATTGTACTAATGCTAACTAATTTC
66 TCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
* * ** *
361098 AATTTCAATTAGTCTAAATACAAATGA-ACTAACA--AAGTATATATACAATTGTAAAAGTAATG
1 AATTTCAATTAGTCTAAATACAAAT-ATAATAACATTAAGTATATATTCAATTGTACTAGTAATA
* * * * * *
361160 ATCAATGTCAATTAGTTTAAGTATATATTTAACTGCACCAGTAATTACCAATTTC
65 ATCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
* * * * * *
361215 TATTTCAATTAG-CTTAAACACGAATGTAATAATATTAAGTATCTATTCAATTGTACTAGTAATA
1 AATTTCAATTAGTC-TAAATACAAATATAATAACATTAAGTATATATTCAATTGTACTAGTAATA
* * **
361279 ATCAATTT--ATTAGTTT-AGT-TATATTCAATTGTACTATTGCTAACCAATTTC
65 ATCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
* * * * * * *
361330 AATTTCACTTAGTCTAAATACAAATGTACTAATATTAAGTATATATTCAACTGTGAC-AATAGTA
1 AATTTCAATTAGTCTAAATACAAATATAATAACATTAAGTATATATTCAATTGT-ACTAGTAATA
* *
361394 ATCAATTTCAATTAGTTTGAGTATATATTTAATTGTACTAATAATAATCAATTTC
65 ATCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
* * * *
361449 AACTTT-AATTAGTCT-AATACAAATGTAATAACATTAAGTACATATTCAAATGTAATAGAGTGG
1 AA-TTTCAATTAGTCTAAATACAAATATAATAACATTAAGTATATATTCAATTGTACT--A---G
** * * * *
361512 TGACCAATTTCAATTTCAATTACTTTAAGCATATATTCAATTGTA-T--TAATAA-TAA--TC
60 T-AATAA--TCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
** * * * * * ** *
361569 AATTTCAATCGGTCAAAATATAAATGTAATAACATTAAGTGTAAATTCAATTAAATTAGTAATAA
1 AATTTCAATTAGTCTAAATACAAATATAATAACATTAAGTATATATTCAATTGTACTAGTAATAA
*
361634 CCAATTTCAATT
66 TCAATTTCAATT
361646 TTAATTGGTG
Statistics
Matches: 544, Mismatches: 94, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
113 11 0.02
115 127 0.23
116 10 0.02
117 120 0.22
118 41 0.08
119 142 0.26
120 15 0.03
121 33 0.06
122 2 0.00
123 7 0.01
124 3 0.01
125 1 0.00
126 32 0.06
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (119 bp):
AATTTCAATTAGTCTAAATACAAATATAATAACATTAAGTATATATTCAATTGTACTAGTAATAA
TCAATTTCAATTAGTTTAAGTATATATTTAATTGTACTAATAATAACCAATTTC
Found at i:361213 original size:234 final size:233
Alignment explanation
Indices: 360771--361502 Score: 854
Period size: 234 Copynumber: 3.2 Consensus size: 233
360761 TTCAATAAAT
* * * *
360771 CTAAATACGAATGTAATAACATTAAATATATATTCAATTATACTAGTAATAATC-A---ATTAGT
1 CTAAAAACAAATGTAATAACATTAAGTATATATTCAATTGTACTAGTAATAATCAATTTATTAGT
* * *
360832 TTAAGTATATATTCAATTGTATTAATG-------A--TAAATTTCAATTAGTCTAAATACAAATA
66 TTAA-T-TATATTCAATTGTACTAATGCTAACCAATTTCAATTTCAATTAGTCTAAATACAAATG
* * * *
360888 AAATAACGTTGAA-TATATATTCAATT-TCACTAGTAATCATCAATTTCAATTAGTTTAAGTATA
129 AACTAAC---AAAGTATATATTCAATTGTCACAAGTAATAATCAATTTCAATTAGTTTAAGTATA
360951 TATTTAATTGTACCAATAATAACCAATTTCTATTTCAATTAGC
191 TATTTAATTGTACCAATAATAACCAATTTCTATTTCAATTAGC
* *
360994 CTAAAAACAAATATAATAACATTAAGTATATATTCAATTGTATTAGTAATAATCAATTTCACTTA
1 CTAAAAACAAATGTAATAACATTAAGTATATATTCAATTGTACTAGTAATAATCAATTT-A-TTA
*
361059 GTTTAATTATATTCAATTGTACTAATGCTAACTAATTTCAATTTCAATTAGTCTAAATACAAATG
64 GTTTAATTATATTCAATTGTACTAATGCTAACCAATTTCAATTTCAATTAGTCTAAATACAAATG
* * * *
361124 AACTAACAAAGTATATATACAATTGT-AAAAGTAATGATCAATGTCAATTAGTTTAAGTATATAT
129 AACTAACAAAGTATATATTCAATTGTCACAAGTAATAATCAATTTCAATTAGTTTAAGTATATAT
* * * *
361188 TTAACTGCACCAGTAATTACCAATTTCTATTTCAATTAGC
194 TTAATTGTACCAATAATAACCAATTTCTATTTCAATTAGC
* * * * *
361228 TTAAACACGAATGTAATAATATTAAGTATCTATTCAATTGTACTAGTAATAATCAATTTATTAGT
1 CTAAAAACAAATGTAATAACATTAAGTATATATTCAATTGTACTAGTAATAATCAATTTATTAGT
* * * *
361293 TTAGTTATATTCAATTGTACTATTGCTAACCAATTTCAATTTCACTTAGTCTAAATACAAATGTA
66 TTAATTATATTCAATTGTACTAATGCTAACCAATTTCAATTTCAATTAGTCTAAATACAAATGAA
* * * * *
361358 CTAATATTAAGTATATATTCAACTGTGACAA-TAGTAATCAATTTCAATTAGTTTGAGTATATAT
131 CTAACA--AAGTATATATTCAATTGTCACAAGTAATAATCAATTTCAATTAGTTTAAGTATATAT
* * * *
361422 TTAATTGTACTAATAATAATCAATTTCAACTTT-AATTAGT
194 TTAATTGTACCAATAATAACCAATTTCTA-TTTCAATTAGC
* * *
361462 CT-AATACAAATGTAATAACATTAAGTACATATTCAAATGTA
1 CTAAAAACAAATGTAATAACATTAAGTATATATTCAATTGTA
361503 ATAGAGTGGT
Statistics
Matches: 433, Mismatches: 55, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
223 48 0.11
224 1 0.00
227 19 0.04
228 2 0.00
229 9 0.02
232 70 0.16
233 36 0.08
234 209 0.48
235 7 0.02
236 32 0.07
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (233 bp):
CTAAAAACAAATGTAATAACATTAAGTATATATTCAATTGTACTAGTAATAATCAATTTATTAGT
TTAATTATATTCAATTGTACTAATGCTAACCAATTTCAATTTCAATTAGTCTAAATACAAATGAA
CTAACAAAGTATATATTCAATTGTCACAAGTAATAATCAATTTCAATTAGTTTAAGTATATATTT
AATTGTACCAATAATAACCAATTTCTATTTCAATTAGC
Found at i:363233 original size:21 final size:22
Alignment explanation
Indices: 363199--363239 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
363189 AATTTTTTTA
363199 TATATTCCGAATA-TCATATTC
1 TATATTCCGAATATTCATATTC
363220 TATATTCC-ACATATTCATAT
1 TATATTCCGA-ATATTCATAT
363240 CCAATGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 11 0.61
22 6 0.33
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATTCCGAATATTCATATTC
Found at i:368669 original size:13 final size:13
Alignment explanation
Indices: 368651--368676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
368641 CAATTTTTTG
368651 TGTATCGATACAT
1 TGTATCGATACAT
368664 TGTATCGATACAT
1 TGTATCGATACAT
368677 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:369424 original size:21 final size:21
Alignment explanation
Indices: 369383--369426 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
369373 CTCCCCTTTA
* *
369383 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
369404 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
369425 TC
1 TC
369427 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:371249 original size:13 final size:13
Alignment explanation
Indices: 371231--371256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
371221 ATAATCACCC
371231 TGTATCGATACAA
1 TGTATCGATACAA
371244 TGTATCGATACAA
1 TGTATCGATACAA
371257 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:371267 original size:20 final size:20
Alignment explanation
Indices: 371242--371320 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
371232 GTATCGATAC
371242 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
371262 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
371287 AATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
371307 CATGTATCGATACA
1 AATGTATCGATACA
371321 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:373355 original size:15 final size:15
Alignment explanation
Indices: 373335--373365 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
373325 ATTTCGTTTG
*
373335 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
373350 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
373365 G
1 G
373366 CACATTTTTA
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:375197 original size:21 final size:21
Alignment explanation
Indices: 375168--375212 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
375158 AAGTTTTCAT
*
375168 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
375188 TTTTCTTTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
375210 TTT
1 TTT
375213 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:0.20, C:0.20, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:377456 original size:13 final size:13
Alignment explanation
Indices: 377438--377463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
377428 CAATTTTTTG
377438 TGTATCGATACAT
1 TGTATCGATACAT
377451 TGTATCGATACAT
1 TGTATCGATACAT
377464 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:380648 original size:2 final size:2
Alignment explanation
Indices: 380641--380666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
380631 CTTCAGTTGA
380641 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
380667 GCTTATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:382861 original size:20 final size:20
Alignment explanation
Indices: 382836--382875 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
382826 TGCCAGACAA
382836 TATCAAAGGATTCTCCTTCC
1 TATCAAAGGATTCTCCTTCC
382856 TATCAAAGGATTCTCCTTCC
1 TATCAAAGGATTCTCCTTCC
382876 ATGTGATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCAAAGGATTCTCCTTCC
Found at i:383629 original size:2 final size:2
Alignment explanation
Indices: 383617--383657 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
383607 TGGTTAAGGT
383617 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
383658 AGAATGTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:392350 original size:52 final size:52
Alignment explanation
Indices: 392272--392400 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
392262 CAAAATATGA
* *
392272 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
392324 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
392376 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
392401 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:392413 original size:52 final size:51
Alignment explanation
Indices: 392272--392420 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
392262 CAAAATATGA
*
392272 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
392324 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
392376 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
392421 AAGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:392501 original size:20 final size:20
Alignment explanation
Indices: 392472--392529 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
392462 GCAGTAGCTT
392472 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
392491 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
392511 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
392530 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:393049 original size:22 final size:21
Alignment explanation
Indices: 393021--393070 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
393011 CTAAAAAGCT
393021 TGAAAAAAAAAATAAGTGCTAG
1 TGAAAAAAAAAA-AAGTGCTAG
393043 TG--AAAAAAAAAAGTGCTAG
1 TGAAAAAAAAAAAAGTGCTAG
393062 T-AAAAAAAA
1 TGAAAAAAAA
393071 GATGTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 10 0.38
20 14 0.54
22 2 0.08
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (21 bp):
TGAAAAAAAAAAAAGTGCTAG
Found at i:393050 original size:19 final size:18
Alignment explanation
Indices: 393025--393070 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 18
393015 AAAGCTTGAA
393025 AAAAAAAATAAGTGCTAGT
1 AAAAAAAA-AAGTGCTAGT
393044 GAAAAAAAAAAGTGCTAGT
1 -AAAAAAAAAAGTGCTAGT
393063 AAAAAAAA
1 AAAAAAAA
393071 GATGTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 8 0.31
19 10 0.38
20 8 0.31
ACGTcount: A:0.65, C:0.04, G:0.15, T:0.15
Consensus pattern (18 bp):
AAAAAAAAAAGTGCTAGT
Found at i:397969 original size:17 final size:16
Alignment explanation
Indices: 397944--397991 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
397934 ATTTCATATG
*
397944 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTATCTT
397960 TTTTTCTTCTTTATCTT
1 TTTTT-TTCTTTATCTT
*
397977 CTTTCTTTC-TTATCT
1 -TTTTTTTCTTTATCT
397992 ATAACCAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 11 0.39
17 13 0.46
18 4 0.14
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTTCTTTATCTT
Found at i:397976 original size:9 final size:9
Alignment explanation
Indices: 397944--397980 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
397934 ATTTCATATG
397944 TTTTT-TTC
1 TTTTTCTTC
397952 TTTTTCTT-
1 TTTTTCTTC
397960 TTTTTCTTC
1 TTTTTCTTC
*
397969 TTTATCTTC
1 TTTTTCTTC
397978 TTT
1 TTT
397981 CTTTCTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 13 0.50
9 13 0.50
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:401306 original size:35 final size:34
Alignment explanation
Indices: 401267--401358 Score: 86
Period size: 35 Copynumber: 2.8 Consensus size: 34
401257 AATATAATTA
*
401267 AATATAATATTAAATATTATTATTAAAATATGTTC
1 AATATAATATTAAATATTATTATTAAAATAT-ATC
* *
401302 AATATATTAATAAATA--ATT-TT-AAATATATC
1 AATATAATATTAAATATTATTATTAAAATATATC
* *
401332 ATTAAAATATTAAA-ATATATTATTAAA
1 AATATAATATTAAATAT-TATTATTAAA
401359 TATTATTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
29 1 0.02
30 12 0.27
31 6 0.13
32 5 0.11
33 5 0.11
34 2 0.04
35 14 0.31
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (34 bp):
AATATAATATTAAATATTATTATTAAAATATATC
Found at i:401309 original size:22 final size:21
Alignment explanation
Indices: 401235--401362 Score: 93
Period size: 22 Copynumber: 6.0 Consensus size: 21
401225 AATAATTAAA
* * * *
401235 AAATATTTTATTTATATTTTT
1 AAATATATTATTAAAATATTT
401256 AAATATA--ATTAAATATAATATT
1 AAATATATTATTAAA-AT-AT-TT
401278 AAATATTATTATTAAAATATGTT
1 AAATA-TATTATTAAAATAT-TT
* *
401301 CAATATATTAAT-AAATAATTTT
1 AAATATATTATTAAAAT-A-TTT
* *
401323 AAATATATCATTAAAATATTA
1 AAATATATTATTAAAATATTT
401344 AAATATATTATT-AAATATT
1 AAATATATTATTAAAATATT
401363 ATTCAAATCA
Statistics
Matches: 86, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.05
20 9 0.10
21 24 0.28
22 26 0.30
23 15 0.17
24 2 0.02
25 6 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (21 bp):
AAATATATTATTAAAATATTT
Found at i:401358 original size:33 final size:33
Alignment explanation
Indices: 401272--401369 Score: 100
Period size: 33 Copynumber: 3.0 Consensus size: 33
401262 AATTAAATAT
*
401272 AATATT-AAATATTATTATTAAA-ATATGTTCAA
1 AATATTAAAATA-TATTATTAAATATATATTCAA
*
401304 TATATTAATAA-ATAATT-TTAAATATATCATT-AA
1 AATATTAA-AATAT-ATTATTAAATATAT-ATTCAA
401337 AATATTAAAATATATTATTAAATAT-TATTCAA
1 AATATTAAAATATATTATTAAATATATATTCAA
401369 A
1 A
401370 TCATTAGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
31 3 0.05
32 20 0.36
33 28 0.51
34 4 0.07
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (33 bp):
AATATTAAAATATATTATTAAATATATATTCAA
Found at i:401361 original size:10 final size:10
Alignment explanation
Indices: 401248--401375 Score: 62
Period size: 10 Copynumber: 11.6 Consensus size: 10
401238 TATTTTATTT
*
401248 ATATTTTTAA
1 ATATTATTAA
*
401258 ATATAATTAA
1 ATATTATTAA
401268 ATATAATATTAA
1 ATAT--TATTAA
401280 ATATTATTATTA
1 ATATTATTA--A
* *
401292 AAATATGTTCAA
1 ATAT-TATT-AA
*
401304 TATATTAATAA
1 -ATATTATTAA
401315 ATAATT-TTAA
1 AT-ATTATTAA
401325 ATATATCATTAAA
1 ATAT-T-ATT-AA
*
401338 ATATTA-AAA
1 ATATTATTAA
401347 TATATTATTAA
1 -ATATTATTAA
401358 ATATTATTCAA
1 ATATTATT-AA
401369 ATCATTA
1 AT-ATTA
401376 GTTATAATAC
Statistics
Matches: 91, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
9 4 0.04
10 39 0.43
11 12 0.13
12 23 0.25
13 12 0.13
14 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (10 bp):
ATATTATTAA
Found at i:401485 original size:29 final size:29
Alignment explanation
Indices: 401449--401505 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
401439 ATTTAAATAA
* *
401449 ATTATTAAAATCTAAATATGTTATTAAAT
1 ATTATTAAAATCTAAATATATCATTAAAT
*
401478 ATTATTAAAATTTAAATATATCATTAAA
1 ATTATTAAAATCTAAATATATCATTAAA
401506 ATACTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTATTAAAATCTAAATATATCATTAAAT
Found at i:401494 original size:17 final size:19
Alignment explanation
Indices: 401472--401507 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
401462 AAATATGTTA
401472 TTAAATAT-T-ATTAAAAT
1 TTAAATATATCATTAAAAT
401489 TTAAATATATCATTAAAAT
1 TTAAATATATCATTAAAAT
401508 ACTATTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAATATATCATTAAAAT
Found at i:403730 original size:16 final size:16
Alignment explanation
Indices: 403673--403732 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 16
403663 TAGATAGCAC
*
403673 TTAATAAAAAATATAA
1 TTAATAAAAAATTTAA
403689 TT-A-AAAAAATTT-A
1 TTAATAAAAAATTTAA
**
403702 --AATAACTAA-TTAA
1 TTAATAAAAAATTTAA
403715 TTAATAAAAAATTTAA
1 TTAATAAAAAATTTAA
403731 TT
1 TT
403733 TAGTTTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 8 0.24
15 8 0.24
16 8 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAATAAAAAATTTAA
Found at i:407000 original size:21 final size:22
Alignment explanation
Indices: 406983--407026 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
406973 AAAATATATA
*
406983 AATATATTTATTTTATATTTAAT
1 AATAT-TTTATTTTATATTAAAT
407006 AATATTTTATTTTA-ATTAAAT
1 AATATTTTATTTTATATTAAAT
407027 TTATATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATTTTATTTTATATTAAAT
Found at i:407402 original size:31 final size:31
Alignment explanation
Indices: 407364--407475 Score: 106
Period size: 31 Copynumber: 3.7 Consensus size: 31
407354 TTAAATTATT
407364 TTTAAATTTTAATTATTTTAATATTAA-TCA
1 TTTAAATTTTAATTATTTTAATATTAAGTCA
* *
407394 CTTTAAATTTAAATTATTTTAATTTTAAGTCA
1 -TTTAAATTTTAATTATTTTAATATTAAGTCA
** * * *
407426 TTTTGATTTTAA-T-TTTAAAT-TTAAATTA
1 TTTAAATTTTAATTATTTTAATATTAAGTCA
*
407454 TTTTAATTTTAAATTATTTTAA
1 TTTAAATTTT-AATTATTTTAA
407476 ATTTAGATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 15 0.22
29 8 0.12
30 2 0.03
31 39 0.58
32 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
TTTAAATTTTAATTATTTTAATATTAAGTCA
Found at i:407420 original size:22 final size:22
Alignment explanation
Indices: 407395--407468 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
407385 TATTAATCAC
407395 TTTAAATTTAAATTATTTTAAT
1 TTTAAATTTAAATTATTTTAAT
* * **
407417 TTT-AAGTCATTTTGATTTTAAT
1 TTTAAATTTAAATT-ATTTTAAT
407439 TTTAAATTTAAATTATTTTAAT
1 TTTAAATTTAAATTATTTTAAT
407461 TTTAAATT
1 TTTAAATT
407469 ATTTTAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 6 0.14
22 30 0.71
23 6 0.14
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (22 bp):
TTTAAATTTAAATTATTTTAAT
Found at i:407448 original size:28 final size:28
Alignment explanation
Indices: 407409--407465 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
407399 AATTTAAATT
* * *
407409 ATTTTAATTTTAAGTCATTTTGATTTTA
1 ATTTTAAATTTAAATCATTTTAATTTTA
*
407437 ATTTTAAATTTAAATTATTTTAATTTTA
1 ATTTTAAATTTAAATCATTTTAATTTTA
407465 A
1 A
407466 ATTATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (28 bp):
ATTTTAAATTTAAATCATTTTAATTTTA
Found at i:407480 original size:16 final size:16
Alignment explanation
Indices: 407353--407480 Score: 115
Period size: 16 Copynumber: 8.2 Consensus size: 16
407343 CTTTTAAATT
407353 TTTAAATTATTTTTAAA
1 TTTAAATTA-TTTTAAA
*
407370 TTTTAATTATTTT-AA
1 TTTAAATTATTTTAAA
* *
407385 TATT-AATCACTTTAAA
1 T-TTAAATTATTTTAAA
*
407401 TTTAAATTATTTTAAT
1 TTTAAATTATTTTAAA
* * *
407417 TTTAAGTCATTTT-GA
1 TTTAAATTATTTTAAA
*
407432 TTT---TAATTTTAAA
1 TTTAAATTATTTTAAA
*
407445 TTTAAATTATTTTAAT
1 TTTAAATTATTTTAAA
407461 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
407477 TTTA
1 TTTA
407481 GATCAATTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
12 6 0.07
13 4 0.04
15 15 0.17
16 56 0.63
17 8 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:407480 original size:22 final size:21
Alignment explanation
Indices: 407352--407474 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 21
407342 GCTTTTAAAT
*
407352 TTTTAAATTA--TT-TTTAAA
1 TTTTAAATTATTTTATTTTAA
*
407370 TTTT-AATTATTTTAATATTAA
1 TTTTAAATTATTTT-ATTTTAA
**
407391 TCACTTTAAATTTAAATTATTTTAA
1 T---TTTAAA-TTATTTTATTTTAA
* *
407416 TTTTAAGTCATTTTGATTTTAA
1 TTTTAAATTATTTT-ATTTTAA
**
407438 TTTTAAATTTAAATTATTTTAA
1 TTTTAAA-TTATTTTATTTTAA
407460 TTTTAAATTATTTTA
1 TTTTAAATTATTTTA
407475 AATTTAGATC
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.06
18 4 0.05
19 2 0.03
21 15 0.19
22 32 0.41
23 4 0.05
24 3 0.04
25 9 0.11
26 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATTATTTTATTTTAA
Found at i:407529 original size:16 final size:16
Alignment explanation
Indices: 407508--407541 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
407498 ACCGAAAGTA
407508 TTTAAATTTAAATCAT
1 TTTAAATTTAAATCAT
*
407524 TTTAAATTTAAATGAT
1 TTTAAATTTAAATCAT
407540 TT
1 TT
407542 CAGATTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTAAATCAT
Found at i:408117 original size:21 final size:19
Alignment explanation
Indices: 408093--408135 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
408083 TGTTAACTTT
*
408093 TTTAATTAAGTTAAACTTAAA
1 TTTAATTAAATT-AA-TTAAA
408114 TTTAATTAAATTAATTAAA
1 TTTAATTAAATTAATTAAA
408133 TTT
1 TTT
408136 TTTGAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 11 0.52
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTAATTAAATTAATTAAA
Found at i:411248 original size:13 final size:13
Alignment explanation
Indices: 411230--411259 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
411220 AACAACAAGG
*
411230 TTTCTTACTTTTT
1 TTTCTTAATTTTT
411243 TTTCTTAATTTTT
1 TTTCTTAATTTTT
411256 TTTC
1 TTTC
411260 ACTATATGGG
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:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTAATTTTT
Found at i:412228 original size:12 final size:13
Alignment explanation
Indices: 412196--412225 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
412186 AATTTTTGTA
412196 AATATTAAATTAT
1 AATATTAAATTAT
412209 AA-ATTAAATTAT
1 AATATTAAATTAT
412221 AATAT
1 AATAT
412226 AAAAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATATTAAATTAT
Found at i:413775 original size:27 final size:27
Alignment explanation
Indices: 413731--413791 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
413721 TATAACAATA
*
413731 TTTT-AATACTAAAGTATAATA-TTAT
1 TTTTAAATACTAAAATATAATATTTAT
413756 TTTTAAATACCTAAAATATAATATTTAT
1 TTTTAAATA-CTAAAATATAATATTTAT
413784 TATTTAAA
1 T-TTTAAA
413792 AAATAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 4 0.13
26 4 0.13
27 12 0.39
28 5 0.16
29 6 0.19
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTAAATACTAAAATATAATATTTAT
Found at i:414306 original size:17 final size:18
Alignment explanation
Indices: 414273--414315 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
414263 TTAAATTATT
*
414273 TATTTAA-ATTTATAAAA
1 TATTTAATAATTATAAAA
414290 TATTTAATAATTA-AAAA
1 TATTTAATAATTATAAAA
414307 -ATTTAATAA
1 TATTTAATAA
414316 AAATATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 11 0.46
18 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTTAATAATTATAAAA
Found at i:414310 original size:16 final size:16
Alignment explanation
Indices: 414285--414315 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
414275 TTTAAATTTA
*
414285 TAAAATATTTAATAAT
1 TAAAAAATTTAATAAT
414301 TAAAAAATTTAATAA
1 TAAAAAATTTAATAA
414316 AAATATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAAAATTTAATAAT
Found at i:414336 original size:28 final size:27
Alignment explanation
Indices: 414278--414334 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
414268 TTATTTATTT
414278 AAATTTATAAAATATTTAATAATTAAA
1 AAATTTATAAAATATTTAATAATTAAA
*
414305 AAATTTAATAAAA-ATATT-ATATTTAAA
1 AAATTT-ATAAAATAT-TTAATAATTAAA
414332 AAA
1 AAA
414335 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AAATTTATAAAATATTTAATAATTAAA
Found at i:414562 original size:15 final size:16
Alignment explanation
Indices: 414518--414555 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
414508 TTTTAAAATT
414518 TATTAAA-TAA-AAAA
1 TATTAAATTAATAAAA
414532 TATTAAATTAATAAAA
1 TATTAAATTAATAAAA
414548 T-TTAAATT
1 TATTAAATT
414556 TTTAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 10 0.45
16 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAATTAATAAAA
Found at i:414624 original size:23 final size:23
Alignment explanation
Indices: 414564--414625 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
414554 TTTTTAAAAC
*
414564 ATATATTTTTTTAAAAAATTATA
1 ATATATATTTTTAAAAAATTATA
**
414587 ATATATATAAGTTAAAAGAATTA-A
1 ATATATAT-TTTTAAAA-AATTATA
*
414611 TTATATATTTTTAAA
1 ATATATATTTTTAAA
414626 TATAAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
23 12 0.39
24 14 0.45
25 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
ATATATATTTTTAAAAAATTATA
Found at i:415084 original size:34 final size:33
Alignment explanation
Indices: 415030--415178 Score: 163
Period size: 34 Copynumber: 4.4 Consensus size: 33
415020 GGTTTGGTAA
* *
415030 AAACCACTAAATCACCCATTTAATCAACAATGGC
1 AAACCACCAAATC-TCCATTTAATCAACAATGGC
* * *
415064 AAACTACCAAATCTCTCATTTAGTCAACAATGGT
1 AAACCACCAAATCTC-CATTTAATCAACAATGGC
*
415098 AAACCACCAAATCATCCATTTAATCAATAATGGC
1 AAACCACCAAATC-TCCATTTAATCAACAATGGC
* * * * *
415132 ATACTACCAAATCTCCCATTTAGTCAATAATGAC
1 AAACCACCAAATCT-CCATTTAATCAACAATGGC
415166 AAACCACCAAATC
1 AAACCACCAAATC
415179 AATGGTAAAC
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
33 2 0.02
34 93 0.96
35 2 0.02
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.24
Consensus pattern (33 bp):
AAACCACCAAATCTCCATTTAATCAACAATGGC
Found at i:415102 original size:68 final size:68
Alignment explanation
Indices: 415030--415179 Score: 228
Period size: 68 Copynumber: 2.2 Consensus size: 68
415020 GGTTTGGTAA
* *
415030 AAACCACTAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCTCATTTAGTCAACAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAGTCAACAAT
**
415095 GGT
66 GAC
* * * *
415098 AAACCACCAAATCATCCATTTAATCAATAATGGCATACTACCAAATCTCCCATTTAGTCAATAAT
1 AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAGTCAACAAT
415163 GAC
66 GAC
415166 AAACCACCAAATCA
1 AAACCACCAAATCA
415180 ATGGTAAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (68 bp):
AAACCACCAAATCACCCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAGTCAACAAT
GAC
Found at i:419340 original size:19 final size:19
Alignment explanation
Indices: 419282--419332 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
419272 TTATGTGCAC
**
419282 AGTA-CCGTATACGTGAAT
1 AGTACCCGTATATATGAAT
419300 AGTACCCGTATATATGAAT
1 AGTACCCGTATATATGAAT
419319 AGTA-CC-TATATATG
1 AGTACCCGTATATATG
419333 TAAATAGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 16 0.53
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (19 bp):
AGTACCCGTATATATGAAT
Found at i:419712 original size:34 final size:34
Alignment explanation
Indices: 419660--419780 Score: 120
Period size: 34 Copynumber: 3.6 Consensus size: 34
419650 CTAAATCACC
* *
419660 AATGACAAACTA-CAAAATCTCTCATTTAGTCAAT
1 AATGACAAACCATC-AAATCTCTCATTTAATCAAT
* * *
419694 AATGATAAACCATCAAATCATC-CATTCAATTAAT
1 AATGACAAACCATCAAATC-TCTCATTTAATCAAT
* **
419728 AATGACATATTATCAAATCTCTCATTTAATCAAT
1 AATGACAAACCATCAAATCTCTCATTTAATCAAT
* *
419762 AATAACAAACCACCAAATC
1 AATGACAAACCATCAAATC
419781 AATGATAAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
33 2 0.03
34 63 0.93
35 3 0.04
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.29
Consensus pattern (34 bp):
AATGACAAACCATCAAATCTCTCATTTAATCAAT
Found at i:419803 original size:23 final size:22
Alignment explanation
Indices: 419750--419810 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
419740 TCAAATCTCT
419750 CATTTAATCAATA-ATAACAAAC
1 CATTTAATCAATATA-AACAAAC
*** *
419772 CACCAAATCAATGATAAACTAAC
1 CATTTAATCAAT-ATAAACAAAC
419795 CATTTAATCAATATAA
1 CATTTAATCAATATAA
419811 CTTTTATCGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 13 0.43
23 16 0.53
24 1 0.03
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (22 bp):
CATTTAATCAATATAAACAAAC
Found at i:425709 original size:20 final size:21
Alignment explanation
Indices: 425681--425723 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
425671 CTTAAAAATA
425681 TAAATTTATTTAT-TAAAATTT
1 TAAATTTA-TTATCTAAAATTT
425702 TAAA-TTATTATCGTAAAATTT
1 TAAATTTATTATC-TAAAATTT
425723 T
1 T
425724 TTTATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TAAATTTATTATCTAAAATTT
Found at i:426395 original size:31 final size:31
Alignment explanation
Indices: 426342--426407 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
426332 ATTTTGAGTA
*
426342 TAAATTTTTTTTAGTTTAAATCATTTTAAATT
1 TAAATTTTTTTTA-TTTAAATCAATTTAAATT
*
426374 TAAATTTTTTATT-TTTTAATCAATTTAAATT
1 TAAATTTTTT-TTATTTAAATCAATTTAAATT
426405 TAA
1 TAA
426408 TCAAACTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 19 0.61
32 10 0.32
33 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (31 bp):
TAAATTTTTTTTATTTAAATCAATTTAAATT
Found at i:427389 original size:2 final size:2
Alignment explanation
Indices: 427382--427420 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
427372 TTAAAAGATA
427382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
427421 AAGCCACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:428352 original size:108 final size:107
Alignment explanation
Indices: 427858--428723 Score: 1171
Period size: 108 Copynumber: 8.0 Consensus size: 107
427848 TTTACAAAAG
* * * *
427858 AGTTATTTTATATAAAGGGCGTTCGTACGCCGTTTTACGACTCTA-ATTGATGACCTATTTCAGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGA-CGATGACCTATTTC-GG
* *
427922 GCCAATCTTTTGGTGCACGAATTTACGTAATTAACGCAACAAATA
64 GCCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAA-AAATA
* * *
427967 AGTTATCTTATGTAAAGGGCGTTTGTACGCCGCTTTACGACTCTAGTCGATGACTTATTTCGGGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTC-GGG
* * * *** *
428032 CTAATATTTTAGTGTTTGAATTTATGTAATTAATGCAAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGC-AAAAATA
* * * *
428076 AGTTATCTTATGCAAAGGGCATTCGTACGCTGCTTTACGACTCTAAACGATGACCTATTTCGAGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCG-GG
*
428141 CCAATCTTTTGGTG-CCTACATTTACGTAATTAATGCAAAAAATA
65 CCAATCTTTTGGTGCCCGA-ATTTACGTAATTAATGC-AAAAATA
* * * ** * *
428185 AGTTATCTTATGTAAAAGACATTCGTACGCTACTTTACGACTCTAAATGATGACCTATTTCAGGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTC-GGG
*
428250 CCAATCTTTTGGTGCCCGAATTTACATAATTAATGCAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
* * * * *
428293 AGTTTTCTTATGTAAAGGGCGTTCGTACACCACTTTAGGACTCTAGACGATGACTTATTTCGGAG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCGG-G
* *
428358 CCAATCTTTTGGTGTCTGAATTTACGTAATTAATGCAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
* * *
428401 AGTTGT-TTATGTAAAGGGCATTCGTACGCCACTTTACGACTCTAGACGATGACCTATTTCGAGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCG-GG
* * *
428465 CCAATCTCTTGGTGCCCGAATTTACGTAATTAGTACAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
*
428508 AGTTGTCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCGGGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTC-GGG
*
428573 CCAATCTTTTGGTGCCCGAATTTACGTAATTAGTGCAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
* *
428616 AGTTGTCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTTTAGACGATGACCTATTTCGGGG
1 AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTC-GGG
*
428681 CCAATCTTTTGGTGCTCGAATTTACGTAATTAATGCAAAAATA
65 CCAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
428724 CATTCTAAAT
Statistics
Matches: 680, Mismatches: 67, Indels: 21
0.89 0.09 0.03
Matches are distributed among these distances:
107 98 0.14
108 307 0.45
109 269 0.40
110 6 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (107 bp):
AGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCGGGC
CAATCTTTTGGTGCCCGAATTTACGTAATTAATGCAAAAATA
Found at i:428589 original size:323 final size:321
Alignment explanation
Indices: 427808--428723 Score: 1295
Period size: 323 Copynumber: 2.8 Consensus size: 321
427798 TGGAGAGACT
** * *
427808 TATTTCG-GAGCCAATCTCTTGGTGCCCAAGTATTGTGTAATT-TAC-AAAA-GAGTTATTTTAT
1 TATTTCGAG-GCCAATCTCTTGGTGCCCAA-T-TTACGTAATTATACAAAAATAAGTTATCTTAT
* *
427869 ATAAAGGGCGTTCGTACGCCGTTTTACGACTCTAATTGATGACCTATTTCAGGGCCAATCTTTTG
63 GTAAAGGGCGTTCGTACGCCGCTTTACGACTCTAA-TGATGACCTATTTCAGGGCCAATCTTTTG
* * *
427934 GTGCACGAATTTACGTAATTAACGCAACAAATAAGTTATCTTATGTAAAGGGCGTTTGTACGCCG
127 GTGCCCGAATTTACGTAATTAATGCAA-AAATAAGTTATCTTATGTAAAGGGCGTTCGTACGCCG
* * * * * *
427999 CTTTACGACTCTAGTCGATGACTTATTTCGGGGCTAATATTTTAGTGTTTGAATTTATGTAATTA
191 CTTTACGACTCTAGACGATGACTTATTTCGGGGCCAATCTTTTGGTGTCTGAATTTACGTAATTA
**
428064 ATGCAAAAAATAAGTTATCTTATGCAAAGGGCATTCGTACGCTGCTTTACGACTCTAAACGATGA
256 ATGC-AAAAATAAGTTATCTTATGCAAAGGGCATTCGTACGCCACTTTACGACTCTAAACGATGA
428129 CC
320 CC
* * *
428131 TATTTCGAGGCCAATCTTTTGGTGCCTACATTTACGTAATTAATGCAAAAAATAAGTTATCTTAT
1 TATTTCGAGGCCAATCTCTTGGTGCCCA-ATTTACGTAATT-ATAC-AAAAATAAGTTATCTTAT
* * * **
428196 GTAAAAGACATTCGTACGCTACTTTACGACTCTAAATGATGACCTATTTCAGGGCCAATCTTTTG
63 GTAAAGGGCGTTCGTACGCCGCTTTACGACTCT-AATGATGACCTATTTCAGGGCCAATCTTTTG
* * * *
428261 GTGCCCGAATTTACATAATTAATGCAAAAATAAGTTTTCTTATGTAAAGGGCGTTCGTACACCAC
127 GTGCCCGAATTTACGTAATTAATGCAAAAATAAGTTATCTTATGTAAAGGGCGTTCGTACGCCGC
* *
428326 TTTAGGACTCTAGACGATGACTTATTTCGGAGCCAATCTTTTGGTGTCTGAATTTACGTAATTAA
192 TTTACGACTCTAGACGATGACTTATTTCGGGGCCAATCTTTTGGTGTCTGAATTTACGTAATTAA
* * *
428391 TGCAAAAATAAGTTGT-TTATGTAAAGGGCATTCGTACGCCACTTTACGACTCTAGACGATGACC
257 TGCAAAAATAAGTTATCTTATGCAAAGGGCATTCGTACGCCACTTTACGACTCTAAACGATGACC
*
428455 TATTTCGAGGCCAATCTCTTGGTGCCCGAATTTACGTAATTAGTACAAAAATAAGTTGTCTTATG
1 TATTTCGAGGCCAATCTCTTGGTGCCC-AATTTACGTAATTA-TACAAAAATAAGTTATCTTATG
* *
428520 TAAAGGGCGTTCGTACGCCGCTTTACGACTCTAGACGATGACCTATTTCGGGGCCAATCTTTTGG
64 TAAAGGGCGTTCGTACGCCGCTTTACGACTCTA-ATGATGACCTATTTCAGGGCCAATCTTTTGG
* *
428585 TGCCCGAATTTACGTAATTAGTGCAAAAATAAGTTGTCTTATGTAAAGGGCGTTCGTACGCCGCT
128 TGCCCGAATTTACGTAATTAATGCAAAAATAAGTTATCTTATGTAAAGGGCGTTCGTACGCCGCT
* *
428650 TTACGACTTTAGACGATGACCTATTTCGGGGCCAATCTTTTGGTG-CTCGAATTTACGTAATTAA
193 TTACGACTCTAGACGATGACTTATTTCGGGGCCAATCTTTTGGTGTCT-GAATTTACGTAATTAA
428714 TGCAAAAATA
257 TGCAAAAATA
428724 CATTCTAAAT
Statistics
Matches: 527, Mismatches: 54, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
322 11 0.02
323 227 0.43
324 87 0.17
325 13 0.02
326 98 0.19
327 89 0.17
328 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (321 bp):
TATTTCGAGGCCAATCTCTTGGTGCCCAATTTACGTAATTATACAAAAATAAGTTATCTTATGTA
AAGGGCGTTCGTACGCCGCTTTACGACTCTAATGATGACCTATTTCAGGGCCAATCTTTTGGTGC
CCGAATTTACGTAATTAATGCAAAAATAAGTTATCTTATGTAAAGGGCGTTCGTACGCCGCTTTA
CGACTCTAGACGATGACTTATTTCGGGGCCAATCTTTTGGTGTCTGAATTTACGTAATTAATGCA
AAAATAAGTTATCTTATGCAAAGGGCATTCGTACGCCACTTTACGACTCTAAACGATGACC
Found at i:429429 original size:23 final size:22
Alignment explanation
Indices: 429402--429452 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
429392 CTTTTTTTTT
*
429402 TCTTTCCTTTTTCTTTCCTTCTC
1 TCTTTCCTTTTTCATT-CTTCTC
**
429425 TCTTTTTTTTTTCATTCTTCTC
1 TCTTTCCTTTTTCATTCTTCTC
*
429447 CCTTTC
1 TCTTTC
429453 TTCCTCGGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (22 bp):
TCTTTCCTTTTTCATTCTTCTC
Found at i:429444 original size:22 final size:23
Alignment explanation
Indices: 429409--429451 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
429399 TTTTCTTTCC
* *
429409 TTTTTCTTTCCTTCTCTCTTTTT
1 TTTTTCATTCCTTCTCCCTTTTT
429432 TTTTTCATT-CTTCTCCCTTT
1 TTTTTCATTCCTTCTCCCTTT
429452 CTTCCTCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTCATTCCTTCTCCCTTTTT
Found at i:430504 original size:28 final size:28
Alignment explanation
Indices: 430473--430876 Score: 248
Period size: 28 Copynumber: 15.2 Consensus size: 28
430463 TGCCAGTTAG
* *
430473 TGTGGGCTTTGACTCATGTGCCAATGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
*
430501 TGTGAGCTTTGACTTATGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* *
430529 TGTGGGC-TT-ACTTGTGTGCCAATGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* *
430555 TGTGGGCTTTGAC---T-TGCCAATGAT
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* * * * *
430579 TGCGAGCTTAGACTTA----CCATCGAT
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* ***
430603 TATGGG-TTTAGA-TTCATGTGCCATTTAA
1 TGTGGGCTTT-GACTT-ATGTGCCAACGAA
* *
430631 TGTGGGCTTTAACTTATGTGCCAACAAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* *
430659 TGTGGGC-TT-ACTTGTATGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
*
430685 TGTGGGCTTTGACTTGTGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* * * * *
430713 TGTGGGC-TT-ACTTGTGTGCTAGCTAG
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* *
430739 TATGGGCTTTGACTTA----CCAACGAT
1 TGTGGGCTTTGACTTATGTGCCAACGAA
***
430763 TGTGGG-TTTAGA-TTCATGTGCCATTTAA
1 TGTGGGCTTT-GACTT-ATGTGCCAACGAA
**
430791 TGTGATCTTTGACTTATGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
*
430819 TGTGGGCTTT---TTGTGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
* ** *
430844 TGTGGGCTTT-AATCGTGTGCCGACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAA
430871 TGTGGG
1 TGTGGG
430877 TTTCCTTTTG
Statistics
Matches: 296, Mismatches: 53, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
23 9 0.03
24 43 0.15
25 25 0.08
26 62 0.21
27 31 0.10
28 116 0.39
29 10 0.03
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (28 bp):
TGTGGGCTTTGACTTATGTGCCAACGAA
Found at i:430587 original size:24 final size:24
Alignment explanation
Indices: 430545--430593 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
430535 CTTACTTGTG
* * *
430545 TGCCAATGAATGTGGGCTTTGACT
1 TGCCAATGAATGCGAGCTTAGACT
*
430569 TGCCAATGATTGCGAGCTTAGACT
1 TGCCAATGAATGCGAGCTTAGACT
430593 T
1 T
430594 ACCATCGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (24 bp):
TGCCAATGAATGCGAGCTTAGACT
Found at i:430688 original size:54 final size:54
Alignment explanation
Indices: 430473--430876 Score: 237
Period size: 54 Copynumber: 7.6 Consensus size: 54
430463 TGCCAGTTAG
* * * *
430473 TGTGGGCTTTGACTCATGTGCCAATGAATGTGAGCTTTGACTTATGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGC-TT-ACTTGTGTGCCAACGAA
* * * *
430529 TGTGGGC-TT-ACTTGTGTGCCAATGAATGTGGGC-T--TTGACT-TGCCAATGAT
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTACTTG--TGTGCCAACGAA
* * * * * * * * * ***
430579 TGCGAGCTTAGACTTA----CCATCGATTATGGGTTTAGATTCATGTGCCATTTAA
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTA-CTT-GTGTGCCAACGAA
* * *
430631 TGTGGGCTTTAACTTATGTGCCAACAAATGTGGGCTTACTTGTATGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTACTTGTGTGCCAACGAA
* * * * *
430685 TGTGGGCTTTGACTTGTGTGCCAACGAATGTGGGCTTACTTGTGTGCTAGCTAG
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTACTTGTGTGCCAACGAA
* * * * * ***
430739 TATGGGCTTTGACTTA----CCAACGATTGTGGGTTTAGATTCATGTGCCATTTAA
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTA-CTT-GTGTGCCAACGAA
** *
430791 TGTGATCTTTGACTTATGTGCCAACGAATGTGGGCTT-TTTGTGTGCCAACGAA
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTACTTGTGTGCCAACGAA
* ** *
430844 TGTGGGCTTT-AATCGTGTGCCGACGAATGTGGG
1 TGTGGGCTTTGACTTATGTGCCAACGAATGTGGG
430877 TTTCCTTTTG
Statistics
Matches: 260, Mismatches: 68, Indels: 44
0.70 0.18 0.12
Matches are distributed among these distances:
48 10 0.04
49 3 0.01
50 29 0.11
51 5 0.02
52 66 0.25
53 17 0.07
54 91 0.35
55 4 0.02
56 35 0.13
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (54 bp):
TGTGGGCTTTGACTTATGTGCCAACGAATGTGGGCTTACTTGTGTGCCAACGAA
Found at i:430841 original size:25 final size:26
Alignment explanation
Indices: 430807--430876 Score: 106
Period size: 25 Copynumber: 2.7 Consensus size: 26
430797 CTTTGACTTA
*
430807 TGTGCCAACGAATGTGGGCTTT-TTG
1 TGTGCCAACGAATGTGGGCTTTATCG
430832 TGTGCCAACGAATGTGGGCTTTAATCG
1 TGTGCCAACGAATGTGGGCTTT-ATCG
*
430859 TGTGCCGACGAATGTGGG
1 TGTGCCAACGAATGTGGG
430877 TTTCCTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 22 0.54
27 19 0.46
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (26 bp):
TGTGCCAACGAATGTGGGCTTTATCG
Found at i:430873 original size:80 final size:77
Alignment explanation
Indices: 430629--430874 Score: 190
Period size: 80 Copynumber: 3.1 Consensus size: 77
430619 TGTGCCATTT
* *
430629 AATGTGGGCTTTAACTTATGTGCCAACAAATGTGGGCTTACTTGTATGCCAACGAATGTGGGCTT
1 AATGTGAGCTTT-ACTTATGTGCCAACAAATGTGGGCTT-TTTGT-TGCCAACGAATGTGGGCTT
* *
430694 TGACTTGTGTGCCAACG
63 T-AATCGTGTGCC-ACG
* * * * * * * *** * *
430711 AATGTGGGC-TTACTTGTGTGCTAGCTAGTATGGGCTTTGACTTACCAACGATTGTGGG-TTTAG
1 AATGTGAGCTTTACTTATGTGCCAACAAATGTGGGCTTTTTGTTGCCAACGAATGTGGGCTTTA-
* **
430774 ATTCATGTGCCATTT
65 A-TCGTGTGCCA-CG
* *
430789 AATGTGATCTTTGACTTATGTGCCAACGAATGTGGGCTTTTTGTGTGCCAACGAATGTGGGCTTT
1 AATGTGAGCTTT-ACTTATGTGCCAACAAATGTGGGCTTTTTGT-TGCCAACGAATGTGGGCTTT
430854 AATCGTGTGCCGACG
64 AATCGTGTGCC-ACG
430869 AATGTG
1 AATGTG
430875 GGTTTCCTTT
Statistics
Matches: 123, Mismatches: 33, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
76 1 0.01
77 4 0.03
78 28 0.23
79 3 0.02
80 56 0.46
81 18 0.15
82 13 0.11
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (77 bp):
AATGTGAGCTTTACTTATGTGCCAACAAATGTGGGCTTTTTGTTGCCAACGAATGTGGGCTTTAA
TCGTGTGCCACG
Found at i:431763 original size:5 final size:5
Alignment explanation
Indices: 431747--431780 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
431737 ATGCAAAAAT
431747 AATAA TAATAA AATAA AATAA AATAAA AATAA AA
1 AATAA -AATAA AATAA AATAA AAT-AA AATAA AA
431781 AATAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:431769 original size:24 final size:23
Alignment explanation
Indices: 431742--431786 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
431732 AGATTATGCA
*
431742 AAAATAATAATAATAAAATAAAAT
1 AAAATAAAAATAA-AAAATAAAAT
431766 AAAATAAAAATAAAAAATAAA
1 AAAATAAAAATAAAAAATAAA
431787 TAAGTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAATAAAAATAAAAAATAAAAT
Found at i:431775 original size:11 final size:11
Alignment explanation
Indices: 431747--431789 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
431737 ATGCAAAAAT
*
431747 AATAATAATAA
1 AATAAAAATAA
431758 AAT-AAAATAA
1 AATAAAAATAA
431768 AATAAAAATAA
1 AATAAAAATAA
431779 AA-AATAAATAA
1 AATAA-AAATAA
431790 GTAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.38
11 18 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:431775 original size:16 final size:16
Alignment explanation
Indices: 431747--431806 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
431737 ATGCAAAAAT
431747 AATAATAAT-AAAATAA
1 AATAA-AATAAAAATAA
431763 AATAAAATAAAAATAA
1 AATAAAATAAAAATAA
*
431779 AAAATAAATAAGTAAAT-A
1 AATA-AAATAA--AAATAA
431797 AAT-AAATAAA
1 AATAAAATAAA
431807 GGGTAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 1 0.03
15 3 0.08
16 21 0.55
17 6 0.16
18 3 0.08
19 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AATAAAATAAAAATAA
Found at i:431787 original size:27 final size:23
Alignment explanation
Indices: 431747--431798 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
431737 ATGCAAAAAT
* *
431747 AATAATAATAAAATA-AAAT-AA
1 AATAAAAATAAAAAATAAATAAA
431768 AATAAAAATAAAAAATAAATAAGTA
1 AATAAAAATAAAAAATAAATAA--A
431793 AATAAA
1 AATAAA
431799 TAAATAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 13 0.52
22 4 0.16
23 1 0.04
25 7 0.28
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AATAAAAATAAAAAATAAATAAA
Found at i:431789 original size:4 final size:4
Alignment explanation
Indices: 431773--431806 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
431763 AATAAAATAA
*
431773 AAAT AAA- AAAT AAAT AAGT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
431807 GGGTAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:432734 original size:56 final size:56
Alignment explanation
Indices: 432671--432784 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
432661 ATAGCCTCCA
* * *
432671 TACCATAGACTAAAGAGAATGGGGTAGCTCTCGTGGAGGTTCGAACTGAGGTCCGG
1 TACCATAGACTAAAGAGAATGAGGTAGCTCCCGTGGAGGTTCGAACTGAGCTCCGG
432727 TACCATAGACTAAAGAGAATGAGGTAGCTCCCGTGGAGGTTCGAACTGAGCTCCGG
1 TACCATAGACTAAAGAGAATGAGGTAGCTCCCGTGGAGGTTCGAACTGAGCTCCGG
432783 TA
1 TA
432785 TGCATGGAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (56 bp):
TACCATAGACTAAAGAGAATGAGGTAGCTCCCGTGGAGGTTCGAACTGAGCTCCGG
Found at i:445133 original size:21 final size:21
Alignment explanation
Indices: 445107--445152 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
445097 CATTTTTCTT
*
445107 ATTTCTCCCCCCTAATCAAAC
1 ATTTCTCCCCCCTAATCAAAA
* *
445128 ATTTCTCCCCCTTAATTAAAA
1 ATTTCTCCCCCCTAATCAAAA
445149 ATTT
1 ATTT
445153 ATTTGCACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTTCTCCCCCCTAATCAAAA
Found at i:446921 original size:13 final size:13
Alignment explanation
Indices: 446903--446941 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
446893 ATAATCCCCC
*
446903 TGTATCGATACAG
1 TGTATCGATACAA
*
446916 TGTATCAATACAA
1 TGTATCGATACAA
446929 TGTATCGATACAA
1 TGTATCGATACAA
446942 AGAATACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:450513 original size:13 final size:13
Alignment explanation
Indices: 450495--450520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
450485 TACACAAAAT
450495 ATGTATCGATACA
1 ATGTATCGATACA
450508 ATGTATCGATACA
1 ATGTATCGATACA
450521 CAAAAAATAT
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:450520 original size:32 final size:33
Alignment explanation
Indices: 450477--450541 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
450467 TAGCCAAACT
450477 TGTATCAATACAC-AAAATATGTATCGATACAA
1 TGTATCAATACACAAAAATATGTATCGATACAA
*
450509 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCAATACAC-AAAAATATGTATCGATACA
450542 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCAATACACAAAAATATGTATCGATACAA
Found at i:454607 original size:15 final size:15
Alignment explanation
Indices: 454587--454617 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
454577 TAAAAATATC
*
454587 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
454602 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
454617 C
1 C
454618 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:456718 original size:13 final size:13
Alignment explanation
Indices: 456700--456763 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
456690 CATTTTTCTT
456700 TGTATCGATACAA
1 TGTATCGATACAA
456713 TGTATCGATA-AA
1 TGTATCGATACAA
456725 CTGTATCGATACAA
1 -TGTATCGATACAA
* *
456739 TTTATCGATACAC
1 TGTATCGATACAA
*
456752 TATATCGATACA
1 TGTATCGATACA
456764 GGGGGATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
12 2 0.04
13 42 0.91
14 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:456736 original size:26 final size:26
Alignment explanation
Indices: 456700--456763 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
456690 CATTTTTCTT
456700 TGTATCGATACAATGTATCGATAAAC
1 TGTATCGATACAATGTATCGATAAAC
* *
456726 TGTATCGATACAATTTATCGATACAC
1 TGTATCGATACAATGTATCGATAAAC
*
456752 TATATCGATACA
1 TGTATCGATACA
456764 GGGGGATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (26 bp):
TGTATCGATACAATGTATCGATAAAC
Found at i:456918 original size:20 final size:20
Alignment explanation
Indices: 456875--456920 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
456865 AAATCTTTTG
456875 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
456896 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
456916 CAAAA
1 CAAAA
456921 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Done.