Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015223.1 Kokia drynarioides strain JFW-HI SEQ_130267, whole genome shotgun sequence
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: 583935
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 856 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:10084 original size:31 final size:30
Alignment explanation
Indices: 10027--10149 Score: 94
Period size: 30 Copynumber: 4.1 Consensus size: 30
10017 TAAAATGAGG
*
10027 TTTTAGGTTCCTTAAAAGTTGGAAAAAAAA
1 TTTTAGGTCCCTTAAAAGTTGGAAAAAAAA
* *
10057 TTTTAGGTCCCTTTAAAA-TTAGTAAAAAAA
1 TTTTAGGTCCC-TTAAAAGTTGGAAAAAAAA
* * *
10087 TTGTT-GGACCTTTAAAAGCT--AAAAAAAA
1 TT-TTAGGTCCCTTAAAAGTTGGAAAAAAAA
* * *
10115 -ATTGGGACCCCTTAAAAGTTGGTAAAAAAAA
1 TTTTAGG-TCCCTTAAAAGTTGG-AAAAAAAA
10146 TTTT
1 TTTT
10150 CGCCTTCAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
26 2 0.03
27 2 0.03
28 17 0.24
29 6 0.08
30 27 0.38
31 16 0.22
32 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (30 bp):
TTTTAGGTCCCTTAAAAGTTGGAAAAAAAA
Found at i:15763 original size:21 final size:21
Alignment explanation
Indices: 15737--15781 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15727 AGTCAAAGTT
15737 AACGATCAACTATC-ACTAGTC
1 AACGATCAACTATCAACTA-TC
*
15758 AACGATCAACTGTCAACTATC
1 AACGATCAACTATCAACTATC
15779 AAC
1 AAC
15782 AGTCTACGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (21 bp):
AACGATCAACTATCAACTATC
Found at i:15780 original size:14 final size:15
Alignment explanation
Indices: 15742--15785 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
15732 AAGTTAACGA
15742 TCAACTATC-ACTAG
1 TCAACTATCAACTAG
*
15756 TCAACGATCAACT-G
1 TCAACTATCAACTAG
15770 TCAACTATCAAC-AG
1 TCAACTATCAACTAG
15784 TC
1 TC
15786 TACGGTCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 23 0.88
15 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (15 bp):
TCAACTATCAACTAG
Found at i:15843 original size:15 final size:16
Alignment explanation
Indices: 15825--15859 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15815 GGGTTTGGAC
15825 TTGGTTCA-ATTGGGT
1 TTGGTTCACATTGGGT
*
15840 TTGGTTCACTTTGGGT
1 TTGGTTCACATTGGGT
15856 TTGG
1 TTGG
15860 GTTATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.09, C:0.09, G:0.34, T:0.49
Consensus pattern (16 bp):
TTGGTTCACATTGGGT
Found at i:18090 original size:24 final size:24
Alignment explanation
Indices: 18057--18140 Score: 123
Period size: 24 Copynumber: 3.5 Consensus size: 24
18047 AATAATCTTC
*
18057 CAATTAAACTCTGTTTATTTGTTT
1 CAATTAAACTCTATTTATTTGTTT
* *
18081 TAATTAAACTCTATTTATTTATTT
1 CAATTAAACTCTATTTATTTGTTT
*
18105 CAATTAAATTCTATTTATTTGTTT
1 CAATTAAACTCTATTTATTTGTTT
*
18129 CAATCAAACTCT
1 CAATTAAACTCT
18141 TATTAGTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (24 bp):
CAATTAAACTCTATTTATTTGTTT
Found at i:22356 original size:24 final size:23
Alignment explanation
Indices: 22324--22376 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 23
22314 TATGTAAAAT
22324 AAAATTATAAATATTACGAATTTC
1 AAAATTATAAATATTAC-AATTTC
*
22348 AAATATATATAAATATTACATTTTC
1 AAA-AT-TATAAATATTACAATTTC
22373 AAAA
1 AAAA
22377 AAAATCGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 4 0.15
25 10 0.38
26 12 0.46
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
AAAATTATAAATATTACAATTTC
Found at i:22913 original size:27 final size:26
Alignment explanation
Indices: 22877--22928 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
22867 TATAACAAAT
*
22877 AAAAATTTTAAGTATCAAATTGAAAC
1 AAAAATTTTAAGTATCAAAGTGAAAC
*
22903 AAAAATATTTAAGTATGAAAGTGAAA
1 AAAAAT-TTTAAGTATCAAAGTGAAA
22929 AACGGGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAAATTTTAAGTATCAAAGTGAAAC
Found at i:33390 original size:96 final size:96
Alignment explanation
Indices: 33211--33395 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
33201 GCGAAAAGGA
* ** * *
33211 TATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCGGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCGAAACC
*
33276 GAAGATAAGGAAACATTGCCTCGACTAAGCG
66 GAAGATAAAGAAACATTGCCTCGACTAAGCG
* * *
33307 TATTCGATTATTTCGATTTGAAGAAAAATTGCACTTAGTGAGTTAAGGCGCAA-ATTTTCGAAAC
1 TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATA-TTTCGAAA-
*
33371 CCGAA-ATGAAAG-AATATTGCCTCGA
64 CCGAAGAT-AAAGAAACATTGCCTCGA
33396 TTTTAAAGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
95 1 0.01
96 68 0.89
97 7 0.09
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (96 bp):
TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAATATTTCGAAACC
GAAGATAAAGAAACATTGCCTCGACTAAGCG
Found at i:34223 original size:96 final size:96
Alignment explanation
Indices: 34044--34228 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
34034 GCGAAAAGGA
* ** * * *
34044 TATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAATATTTCGGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCGAAACC
*
34109 GAAGATAAGGAAACATTGCCTCGACTAAGCG
66 GAAGATAAAGAAACATTGCCTCGACTAAGCG
* *
34140 TATTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAA-ATTTTCGAAAC
1 TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATA-TTTCGAAA-
*
34204 CCGAA-ATGAAAG-AATATTGCCTCGA
64 CCGAAGAT-AAAGAAACATTGCCTCGA
34229 TTTTAAATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
95 1 0.01
96 68 0.89
97 7 0.09
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (96 bp):
TATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAATATTTCGAAACC
GAAGATAAAGAAACATTGCCTCGACTAAGCG
Found at i:34344 original size:833 final size:832
Alignment explanation
Indices: 32739--34403 Score: 3123
Period size: 833 Copynumber: 2.0 Consensus size: 832
32729 CTAGTGCGCT
*
32739 CCAGCTGTCGAAACCATCCCTTTTTGAAAGCGATTAGTCTCGGAAAAATCATTAAAATCGAAAAA
1 CCAGCTGTCGAAACCATCCCTTTTTGAAAGCGATTAGTCTCGAAAAAATCATTAAAATCGAAAAA
*
32804 TAATAGGAGTCACCACCAATCCTTTATTCAGTGTGATTGGATCACCGCAAAACATTTTTCTTCTT
66 TAATAGGAGTCACCACCAATCCTTTATTCAGTGTGATTGGATCACCGAAAAACATTTTTCTTCTT
32869 AAAACGTTTTGAAGACACATAGGTCTTCGAAATCCAGAAAAACAGGTTCGGGAGTCAATTACGCA
131 AAAACGTTTTGAAGACACATAGGTCTTCGAAATCCAGAAAAACAGGTTCGGGAGTCAATTACGCA
*
32934 TGAGGAAGGATTAGCACCCTCATACGCCCAAGATTGGTACCGTATTGATTATTTTCGGATCTTGA
196 TGAGAAAGGATTAGCACCCTCATACGCCCAAGATTGGTACCGTATTGATTATTTTCGGATCTTGA
*
32999 TTTGTAACATTTAAGAGCTCGAATAAAGTTTAAAATACGATCCCTGAATGCATGAGTTAAGTTTA
261 TTTGTAACATTTAAGAGCTCGAATAAAGTTTAAAATACGATCCCTGAATACATGAGTTAAGTTTA
* * * *
33064 CAAGAAATTGGGTTTGTTTGGAAATCTCGCTATTTCAAAGTGATCGAGGACGAAAAGTTATGTCC
326 CAAGAAATTGGGTTTGTTTGGAAATCCCGCTATTTCAAAATGATCGAGGAAGAAAAGTTACGTCC
33129 TGTGAGTTAGGACATAACATTTCAGGATCTAGACATAACGAGCTTTCCTTTGTAAAACCTTTTGA
391 TGTGAGTTAGGACATAACATTTCAGGATCTAGACATAACGAGCTTTCCTTTGTAAAACCTTTTGA
33194 AATCTTTGCGAAAAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGG
456 AATCTTTGCGAAAAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGG
33259 CGCAATATTTCGGAATCGAAGATAAGGAAACATTGCCTCGACTAAGCGTATTCGATTATTTCGAT
521 CGCAATATTTCGGAATCGAAGATAAGGAAACATTGCCTCGACTAAGCGTATTCGATTATTTCGAT
* *
33324 TTGAAGAAAAATTGCACTTAGTGAGTTAAGGCGCAAATTTTCGAAACCCGAAATGAAAGAATATT
586 TTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAAATTTTCGAAACCCGAAATGAAAGAATATT
33389 GCCTCGATTTTAAAGTTTTTATGAAAAAAGACAATTTCGAAAACAAGCATACGAGTTAAATGTGA
651 GCCTCGATTTTAAAGTTTTTATGAAAAAAGACAATTTCGAAAACAAGCATACGAGTTAAATGTGA
33454 ATACACAGTTAATAGTAGATATTAAACACAAAGTAAGATAAATAAAAAGATAAATTAATTACGAA
716 ATACACAGTTAATAGTAGATATTAAACACAAAGTAAGATAAATAAAAAGATAAATTAATTACGAA
*
33519 AAAGAATCAAAAATACAAAATACTAGCGCAAAAAAAGGTTAATGAGAGAGAAG
781 AAAGAATCAAAAATACAAAATACGAGCGC-AAAAAAGGTTAATGAGAGAGAAG
33572 CCAGCTGTCGAAACCATCCCTTTTTGAAAGCGATTAGTCTCGAAAAAATCATTAAAATCGAAAAA
1 CCAGCTGTCGAAACCATCCCTTTTTGAAAGCGATTAGTCTCGAAAAAATCATTAAAATCGAAAAA
* *
33637 TAATGGGAGTCGCCACCAATCCTTTATTCAGTGTGATTGGATCACCGAAAAACATTTTTCTTCTT
66 TAATAGGAGTCACCACCAATCCTTTATTCAGTGTGATTGGATCACCGAAAAACATTTTTCTTCTT
* **
33702 AAAACGTTTTGAAGACACGTAGGTCTTCGAAATCCAGAAAAACAGGTTCGGGAGTCGGTTACGCA
131 AAAACGTTTTGAAGACACATAGGTCTTCGAAATCCAGAAAAACAGGTTCGGGAGTCAATTACGCA
*
33767 TGAGAAAGGATTAGCACCCTCATACGCCCAAGATTGGTACCGTATTTATTATTTTCGGATCTTGA
196 TGAGAAAGGATTAGCACCCTCATACGCCCAAGATTGGTACCGTATTGATTATTTTCGGATCTTGA
*
33832 TTTGTAACATTTAAGAGCTCGAATTAAGTTTAAAATACGATCCCTGAATACATGAGTTAAGTTTA
261 TTTGTAACATTTAAGAGCTCGAATAAAGTTTAAAATACGATCCCTGAATACATGAGTTAAGTTTA
33897 CAAGAAATTGGGTTTGTTTGGAAATCCCGCTATTTCAAAATGATCGAGGAAGAAAAGTTACGTCC
326 CAAGAAATTGGGTTTGTTTGGAAATCCCGCTATTTCAAAATGATCGAGGAAGAAAAGTTACGTCC
33962 TGTGAGTTAGGACATAACATTTCAGGATCTAGACATAACGAGCTTTCCTTTGTAAAACCTTTTGA
391 TGTGAGTTAGGACATAACATTTCAGGATCTAGACATAACGAGCTTTCCTTTGTAAAACCTTTTGA
34027 AATCTTTGCGAAAAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGG
456 AATCTTTGCGAAAAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGG
34092 CGCAATATTTCGGAATCGAAGATAAGGAAACATTGCCTCGACTAAGCGTATTCGATTATTTCGAT
521 CGCAATATTTCGGAATCGAAGATAAGGAAACATTGCCTCGACTAAGCGTATTCGATTATTTCGAT
34157 TTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAAATTTTCGAAACCCGAAATGAAAGAATATT
586 TTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAAATTTTCGAAACCCGAAATGAAAGAATATT
* *
34222 GCCTCGATTTTAAATTTTTTATGAAAAAAGACAATTTCGAAAACAAGCATGCGAGTTAAATGTGA
651 GCCTCGATTTTAAAGTTTTTATGAAAAAAGACAATTTCGAAAACAAGCATACGAGTTAAATGTGA
* *
34287 ATACACAGTTAATAGTAGATATTAAACGCAAAGTAAGATAAATAAAAAGATAAATTAATTGCGAA
716 ATACACAGTTAATAGTAGATATTAAACACAAAGTAAGATAAATAAAAAGATAAATTAATTACGAA
34352 AAAGAATCAAAAATACAAAATACGAGCGCAAAAAAGGTTAATGAGAGAGAAG
781 AAAGAATCAAAAATACAAAATACGAGCGCAAAAAAGGTTAATGAGAGAGAAG
34404 AATGATGTAA
Statistics
Matches: 810, Mismatches: 22, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
832 23 0.03
833 787 0.97
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (832 bp):
CCAGCTGTCGAAACCATCCCTTTTTGAAAGCGATTAGTCTCGAAAAAATCATTAAAATCGAAAAA
TAATAGGAGTCACCACCAATCCTTTATTCAGTGTGATTGGATCACCGAAAAACATTTTTCTTCTT
AAAACGTTTTGAAGACACATAGGTCTTCGAAATCCAGAAAAACAGGTTCGGGAGTCAATTACGCA
TGAGAAAGGATTAGCACCCTCATACGCCCAAGATTGGTACCGTATTGATTATTTTCGGATCTTGA
TTTGTAACATTTAAGAGCTCGAATAAAGTTTAAAATACGATCCCTGAATACATGAGTTAAGTTTA
CAAGAAATTGGGTTTGTTTGGAAATCCCGCTATTTCAAAATGATCGAGGAAGAAAAGTTACGTCC
TGTGAGTTAGGACATAACATTTCAGGATCTAGACATAACGAGCTTTCCTTTGTAAAACCTTTTGA
AATCTTTGCGAAAAGGATATTTGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGG
CGCAATATTTCGGAATCGAAGATAAGGAAACATTGCCTCGACTAAGCGTATTCGATTATTTCGAT
TTGAAGAAAAATTGCACCTAGTGAGTTAAGGCACAAATTTTCGAAACCCGAAATGAAAGAATATT
GCCTCGATTTTAAAGTTTTTATGAAAAAAGACAATTTCGAAAACAAGCATACGAGTTAAATGTGA
ATACACAGTTAATAGTAGATATTAAACACAAAGTAAGATAAATAAAAAGATAAATTAATTACGAA
AAAGAATCAAAAATACAAAATACGAGCGCAAAAAAGGTTAATGAGAGAGAAG
Found at i:34488 original size:30 final size:30
Alignment explanation
Indices: 34452--34821 Score: 274
Period size: 29 Copynumber: 12.6 Consensus size: 30
34442 GCACGGGGGC
* * *
34452 AAAATGGTAGTTTTGGAAGGTTTGGAGTCA
1 AAAATGGTATTTTTGGAAGGTTCGGGGTCA
*
34482 AAAATGGGATTTTTGGAA-GTTCGAGGGT--
1 AAAATGGTATTTTTGGAAGGTTCG-GGGTCA
* *
34510 AAAATGGTAATTTTCGAAAGGTTCGGGGTCA
1 AAAATGGT-ATTTTTGGAAGGTTCGGGGTCA
34541 AAAATGAG-ATTTTTGGAA-GTTCGGGAGT--
1 AAAATG-GTATTTTTGGAAGGTTCGGG-GTCA
* *
34569 AAAATGATAATTTTTAGAAGGTTCGGGGTCA
1 AAAATGGT-ATTTTTGGAAGGTTCGGGGTCA
*
34600 AAAATGGGATTTTTGGAA-GTTCGAGGGT--
1 AAAATGGTATTTTTGGAAGGTTCG-GGGTCA
* *
34628 AAAATGGTAATTTTTAGAATGTTCGGGGTCA
1 AAAATGGT-ATTTTTGGAAGGTTCGGGGTCA
* * ** *
34659 AAAATGGGATTTTTTGAATTTTGGGGGT--
1 AAAATGGTATTTTTGGAAGGTTCGGGGTCA
* *
34687 AAAATGGTAATTTTTGAAAGGTTCGAGGTC-
1 AAAATGGT-ATTTTTGGAAGGTTCGGGGTCA
* * **
34717 AAAATGGGATTTTTGGAAGTTTTAGGGT--
1 AAAATGGTATTTTTGGAAGGTTCGGGGTCA
* *
34745 AAAATGGTAATTTTTAGAAGGTTCGGGGTTA
1 AAAATGGT-ATTTTTGGAAGGTTCGGGGTCA
*
34776 AAAATGAG-ATTTTTGGAA-ATTCGAGGGT--
1 AAAATG-GTATTTTTGGAAGGTTCG-GGGTCA
34804 AAAATGGTAATTTTTGGA
1 AAAATGGT-ATTTTTGGA
34822 TAGTTTAGGG
Statistics
Matches: 274, Mismatches: 40, Indels: 53
0.75 0.11 0.14
Matches are distributed among these distances:
27 1 0.00
28 40 0.15
29 110 0.40
30 96 0.35
31 25 0.09
32 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (30 bp):
AAAATGGTATTTTTGGAAGGTTCGGGGTCA
Found at i:34818 original size:59 final size:59
Alignment explanation
Indices: 34452--34818 Score: 510
Period size: 59 Copynumber: 6.3 Consensus size: 59
34442 GCACGGGGGC
* * * *
34452 AAAATGGT-AGTTTTGGAAGGTTTGGAGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
* *
34510 AAAATGGTAA-TTTTCGAAAGGTTCGGGGTCAAAAATGAGATTTTTGGAAGTTCG-GGAGT
1 AAAATGGTAATTTTTAG-AAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGG-GT
*
34569 AAAATGATAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
* * * * *
34628 AAAATGGTAATTTTTAGAATGTTCGGGGTCAAAAATGGGATTTTTTGAATTTTGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
* **
34687 AAAATGGTAATTTTT-GAAAGGTTCGAGGTC-AAAATGGGATTTTTGGAAGTTTTAGGGT
1 AAAATGGTAATTTTTAG-AAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
* * *
34745 AAAATGGTAATTTTTAGAAGGTTCGGGGTTAAAAATGAGATTTTTGGAAATTCGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
34804 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
34819 GGATAGTTTA
Statistics
Matches: 276, Mismatches: 25, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
58 66 0.24
59 203 0.74
60 7 0.03
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGT
Found at i:35960 original size:12 final size:13
Alignment explanation
Indices: 35943--35976 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
35933 TTATTAACCA
35943 TTAATAATATT-T
1 TTAATAATATTCT
35955 TTAATAATATTCT
1 TTAATAATATTCT
35968 TTAATAATA
1 TTAATAATA
35977 ATAAAATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATAATATTCT
Found at i:36641 original size:11 final size:11
Alignment explanation
Indices: 36610--36685 Score: 75
Period size: 11 Copynumber: 6.7 Consensus size: 11
36600 TTTGGACAAA
*
36610 AATAAATTTTAA
1 AATAAA-TTTAT
36622 AATTAAATTTAT
1 AA-TAAATTTAT
*
36634 GATAAATTT-T
1 AATAAATTTAT
36644 AATTAAATTTAT
1 AA-TAAATTTAT
*
36656 GATAAATTT-T
1 AATAAATTTAT
36666 AATTAAATTTAT
1 AA-TAAATTTAT
36678 AATAAATT
1 AATAAATT
36686 CAATTTTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
10 4 0.07
11 34 0.63
12 12 0.22
13 4 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
AATAAATTTAT
Found at i:36650 original size:22 final size:22
Alignment explanation
Indices: 36611--36685 Score: 123
Period size: 22 Copynumber: 3.3 Consensus size: 22
36601 TTGGACAAAA
36611 ATAAATTTTAAAATTAAATTTATG
1 ATAAATTTT--AATTAAATTTATG
36635 ATAAATTTTAATTAAATTTATG
1 ATAAATTTTAATTAAATTTATG
*
36657 ATAAATTTTAATTAAATTTATA
1 ATAAATTTTAATTAAATTTATG
36679 ATAAATT
1 ATAAATT
36686 CAATTTTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
22 41 0.82
24 9 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (22 bp):
ATAAATTTTAATTAAATTTATG
Found at i:38513 original size:19 final size:18
Alignment explanation
Indices: 38476--38524 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
38466 AAGGAGAAAC
38476 AAAAAAA-TT-AAAAATA
1 AAAAAAATTTAAAAAATA
*
38492 AAAAAATTTTAAAAACATA
1 AAAAAAATTTAAAAA-ATA
38511 AAAAAAATTTAAAA
1 AAAAAAATTTAAAA
38525 TGCTCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 4 0.14
19 16 0.57
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAATTTAAAAAATA
Found at i:49005 original size:7 final size:7
Alignment explanation
Indices: 48995--49036 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
48985 TTCTTTTTCT
48995 TTTTTAA
1 TTTTTAA
49002 TTTTTAA
1 TTTTTAA
49009 TTTTTAA
1 TTTTTAA
49016 -TTTT-A
1 TTTTTAA
49021 TATTTTATA
1 T-TTTTA-A
49030 TTTTTAA
1 TTTTTAA
49037 ATTTCAAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 1 0.03
6 4 0.13
7 19 0.61
8 5 0.16
9 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:49005 original size:14 final size:14
Alignment explanation
Indices: 48995--49036 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
48985 TTCTTTTTCT
48995 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
49009 TTTTTAA-TTTT-A
1 TTTTTAATTTTTAA
49021 TATTTTATATTTTTAA
1 T-TTTTA-ATTTTTAA
49037 ATTTCAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.08
13 9 0.38
14 8 0.33
15 4 0.17
16 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:51675 original size:48 final size:48
Alignment explanation
Indices: 51619--51719 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
51609 CGAGTGAAAA
**
51619 AATTTCGAGTTAATCGAGTTCACAAGTCTTATTTTATCATTTTAACTC
1 AATTTCGAGTTAATCGAGTTCACAAGTCTTATTTTATCATCCTAACTC
51667 AATTTCGAGTTAATCGAGTTCACAAGTCTTATTTTATCATCCTAACTC
1 AATTTCGAGTTAATCGAGTTCACAAGTCTTATTTTATCATCCTAACTC
51715 AATTT
1 AATTT
51720 GAAATTTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (48 bp):
AATTTCGAGTTAATCGAGTTCACAAGTCTTATTTTATCATCCTAACTC
Found at i:52240 original size:19 final size:20
Alignment explanation
Indices: 52209--52261 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
52199 AAAAATATAA
52209 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
52229 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
52249 ATTTTGAATTTTT
1 ATTTTGAATTTTT
52262 TTGTAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:53409 original size:20 final size:19
Alignment explanation
Indices: 53379--53442 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
53369 AATTATAGAA
53379 AAAAATATCAAAATAATTTT
1 AAAAAT-TCAAAATAATTTT
53399 CAAAAATTCAAAATAAATTTT
1 -AAAAATTCAAAAT-AATTTT
*
53420 -AAAGTTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
53438 AAAAA
1 AAAAA
53443 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 14 0.37
20 7 0.18
21 12 0.32
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:59664 original size:105 final size:105
Alignment explanation
Indices: 59543--59753 Score: 368
Period size: 105 Copynumber: 2.0 Consensus size: 105
59533 AGGGAATTAT
59543 TTTTTGGAGGAATTTTTTGGGGAATAAGATTCAAAGATTTTTTATACAACATTCAGGGAATTTTG
1 TTTTTGGAGGAATTTTTTGGGGAATAAGATTCAAAGATTTTTTATACAACATTCAGGGAATTTTG
59608 TAAAACGTACAGTCAAGAAAATTCAAAGCAAATATTGATG
66 TAAAACGTACAGTCAAGAAAATTCAAAGCAAATATTGATG
* *
59648 TTTTTGGAGGAATTTTTTGGGGAATAAGATTCAGAGATTTTTTATACAACATTCAGGGAATTTTT
1 TTTTTGGAGGAATTTTTTGGGGAATAAGATTCAAAGATTTTTTATACAACATTCAGGGAATTTTG
* * **
59713 TAAGACGTACATTCAAGAAAATTCAAAGTGAATATTGATG
66 TAAAACGTACAGTCAAGAAAATTCAAAGCAAATATTGATG
59753 T
1 T
59754 ATCGATTTGT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (105 bp):
TTTTTGGAGGAATTTTTTGGGGAATAAGATTCAAAGATTTTTTATACAACATTCAGGGAATTTTG
TAAAACGTACAGTCAAGAAAATTCAAAGCAAATATTGATG
Found at i:60095 original size:12 final size:13
Alignment explanation
Indices: 60070--60117 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
60060 GCATTTAATT
*
60070 TTTATTTTTATTTA
1 TTTATTTGT-TTTA
60084 TTTATTTG-TTTA
1 TTTATTTGTTTTA
60096 TTTATCTTGTTGTTA
1 TTTAT-TTGTT-TTA
60111 TTTATTT
1 TTTATTT
60118 TCATGTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 9 0.30
13 3 0.10
14 10 0.33
15 8 0.27
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (13 bp):
TTTATTTGTTTTA
Found at i:60095 original size:16 final size:15
Alignment explanation
Indices: 60076--60117 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
60066 AATTTTTATT
*
60076 TTTATTTATTTATTTG
1 TTTATTTATTT-GTTG
60092 TTTATTTATCTTGTTG
1 TTTATTTAT-TTGTTG
60108 -TTATTTATTT
1 TTTATTTATTT
60118 TCATGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 12 0.50
17 2 0.08
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTGTTG
Found at i:64020 original size:15 final size:13
Alignment explanation
Indices: 63996--64034 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
63986 TGCATATGTA
63996 TACATGCATTCAT
1 TACATGCATTCAT
64009 TAGCATTGCATTTCAT
1 TA-CA-TGCA-TTCAT
64025 TACATGCATT
1 TACATGCATT
64035 AAATTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (13 bp):
TACATGCATTCAT
Found at i:70189 original size:98 final size:98
Alignment explanation
Indices: 70013--70431 Score: 434
Period size: 98 Copynumber: 4.3 Consensus size: 98
70003 CCAAATCTTA
* * * ** * * *
70013 AAAATCGAAGAAGGAAAGATTAAAGCCATAACGGCGGATCTTACACCTTAAAACTAAAGAGGGAT
1 AAAATCGAAGAGGGAAAGATTGAAGTCGCAACGACGAATCTTACACCTTAAAACTGAAGAGGGAT
* * * *
70078 AGGTTGAATCCGTAACGACGGACCTAACGCTTT
66 AGGTTGAAGCCGCAACGACGGACCTAACACCTT
* * * *
70111 AAAA-CTGAAGAGGGAAAGATTAAAATTGCAACGACGAATCGTACACCTTAAAACTGAAGAGGGA
1 AAAATC-GAAGAGGGAAAGATTGAAGTCGCAACGACGAATCTTACACCTTAAAACTGAAGAGGGA
* * *
70175 TAGGTTGAAACCGTAAC-AGCGGACATAACACCTT
65 TAGGTTGAAGCCGCAACGA-CGGACCTAACACCTT
* * *
70209 AAAA-CTGAAGAGGGAAAGATTGAAGTCACAATGACAAATCTTACACCTTAAAA-TCGAAGAGGG
1 AAAATC-GAAGAGGGAAAGATTGAAGTCGCAACGACGAATCTTACACCTTAAAACT-GAAGAGGG
* * **
70272 ATAGGTTGAAGCCGCAATGGCAAACCTAACACCTT
64 ATAGGTTGAAGCCGCAACGACGGACCTAACACCTT
* * * ** * *
70307 AAAATCGAA-AGGGGAATGTTTGAAGCCGCAACGGTGGATCTTACACCTTAAAATTGAAGAGGGA
1 AAAATCGAAGA-GGGAAAGATTGAAGTCGCAACGACGAATCTTACACCTTAAAACTGAAGAGGGA
*
70371 TAGGTTGAAGCCGCAACGATGGACCTAACACCTT
65 TAGGTTGAAGCCGCAACGACGGACCTAACACCTT
* *
70405 AAAATCGAATAGGGATAGATTGAAGTC
1 AAAATCGAAGAGGGAAAGATTGAAGTC
70432 ATAATAATAG
Statistics
Matches: 267, Mismatches: 46, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
97 4 0.01
98 260 0.97
99 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (98 bp):
AAAATCGAAGAGGGAAAGATTGAAGTCGCAACGACGAATCTTACACCTTAAAACTGAAGAGGGAT
AGGTTGAAGCCGCAACGACGGACCTAACACCTT
Found at i:70255 original size:49 final size:49
Alignment explanation
Indices: 70009--70507 Score: 249
Period size: 49 Copynumber: 10.2 Consensus size: 49
69999 CATACCAAAT
* * * * * *
70009 CTTAAAAATCGAAGAAGGAAAGATTAAAGCCATAACGGCGGATCTTACAC
1 CTTAAAACT-GAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * * ** * * * *
70059 CTTAAAACTAAAGAGGGATAGGTTGAATCCGTAACGACGGACCTAACGC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * **** *
70108 TTTAAAACTGAAGAGGGAAAGATTAAAATTGCAACGACGAATCGTACAC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * ** * *
70157 CTTAAAACTGAAGAGGGATAGGTTGAAACCGTAAC-AGCGGA-CATAACAC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGA-CGAATC-TTACAC
* * *
70206 CTTAAAACTGAAGAGGGAAAGATTGAAGTCACAATGACAAATCTTACAC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * * * * * *
70255 CTTAAAA-TCGAAGAGGGATAGGTTGAAGCCGCAATGGCAAACCTAACAC
1 CTTAAAACT-GAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * ** *
70304 CTTAAAA-TCGAA-AGGGGAATGTTTGAAGCCGCAACGGTGGATCTTACAC
1 CTTAAAACT-GAAGA-GGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * * * * * *
70353 CTTAAAATTGAAGAGGGATAGGTTGAAGCCGCAACGATGGACCTAACAC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
* * * * * **
70402 CTTAAAA-TCGAATAGGGATAGATTGAAGTCATAA-TAATAGAT-TTAACAC
1 CTTAAAACT-GAAGAGGGAAAGATTGAAGCCACAACGACGA-ATCTT-ACAC
* * ** * *
70451 CCTAAAGCCAAAAAGGAAAAGATTGAAGCCACAACGACGAATCTTACAC
1 CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
70500 CTTAAAAC
1 CTTAAAAC
70508 AGTAACGACG
Statistics
Matches: 342, Mismatches: 93, Indels: 29
0.74 0.20 0.06
Matches are distributed among these distances:
48 7 0.02
49 319 0.93
50 16 0.05
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.19
Consensus pattern (49 bp):
CTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACGAATCTTACAC
Found at i:70304 original size:147 final size:147
Alignment explanation
Indices: 70046--70429 Score: 321
Period size: 147 Copynumber: 2.6 Consensus size: 147
70036 AGCCATAACG
* * * * * ** ** * *
70046 GCGGATCTTACACCTTAAAACTAAAGAGGGATAGGTTGAATCCGTAACGACGGACCTAACGCTTT
1 GCGGATCTAACACCTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACAAACCTAACACCTT
* * *** * * * *
70111 AAAA-CTGAAGAGGGAAAGATTAAAATTGCAACGACGAATCGT-ACACCTTAAAA-CTG-AAGAG
66 AAAATC-GAAGAGGGATAGATTGAAGCCGCAATGGC-AAACCTAACACCTTAAAATC-GAAAG-G
*
70172 GG-ATAGGTTGAAACCGTAACA
127 GGAAT-GGTTGAAACCGCAACA
* * * *
70193 GCGGA-CATAACACCTTAAAACTGAAGAGGGAAAGATTGAAGTCACAATGACAAATCTTACACCT
1 GCGGATC-TAACACCTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACAAACCTAACACCT
*
70257 TAAAATCGAAGAGGGATAGGTTGAAGCCGCAATGGCAAACCTAACACCTTAAAATCGAAAGGGGA
65 TAAAATCGAAGAGGGATAGATTGAAGCCGCAATGGCAAACCTAACACCTTAAAATCGAAAGGGGA
* * *
70322 ATGTTTGAAGCCGCAACG
130 ATGGTTGAAACCGCAACA
* * * * * * ***
70340 GTGGATCTTACACCTTAAAATTGAAGAGGGATAGGTTGAAGCCGCAACGATGGACCTAACACCTT
1 GCGGATCTAACACCTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACAAACCTAACACCTT
*
70405 AAAATCGAATAGGGATAGATTGAAG
66 AAAATCGAAGAGGGATAGATTGAAG
70430 TCATAATAAT
Statistics
Matches: 186, Mismatches: 44, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
146 5 0.03
147 173 0.93
148 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.20
Consensus pattern (147 bp):
GCGGATCTAACACCTTAAAACTGAAGAGGGAAAGATTGAAGCCACAACGACAAACCTAACACCTT
AAAATCGAAGAGGGATAGATTGAAGCCGCAATGGCAAACCTAACACCTTAAAATCGAAAGGGGAA
TGGTTGAAACCGCAACA
Found at i:70618 original size:46 final size:46
Alignment explanation
Indices: 70566--70688 Score: 115
Period size: 46 Copynumber: 2.7 Consensus size: 46
70556 CTGTTTAGTC
* *
70566 TTTTACCTCTAATCCAGAAGGGCAGATTAAAGCCACCATCTAGTTT
1 TTTTACCCCTAATCCAGAAGGGCAGATTAAAGCAACCATCTAGTTT
* * * * * * *
70612 TTTTACCCCTAATCTAGATGGGTAGATTGAAGCAACTATCTA-ATC
1 TTTTACCCCTAATCCAGAAGGGCAGATTAAAGCAACCATCTAGTTT
* * *
70657 TTTTACACCTAATCTAG-AGCTGCAGATTAAAG
1 TTTTACCCCTAATCCAGAAG-GGCAGATTAAAG
70689 TCATTAAATC
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
44 1 0.02
45 26 0.42
46 35 0.56
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (46 bp):
TTTTACCCCTAATCCAGAAGGGCAGATTAAAGCAACCATCTAGTTT
Found at i:71339 original size:3 final size:3
Alignment explanation
Indices: 71331--71371 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
71321 GAGTTCGTCT
71331 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71372 TAGTTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:71418 original size:15 final size:15
Alignment explanation
Indices: 71393--71434 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
71383 TTGACATTTA
71393 GTTTA-TTATTTTTT
1 GTTTATTTATTTTTT
71407 GTTTATTTATTTATTT
1 GTTTATTTATTT-TTT
*
71423 G-TCATTTATTTT
1 GTTTATTTATTTT
71435 CATGACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 15 0.60
16 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (15 bp):
GTTTATTTATTTTTT
Found at i:71430 original size:19 final size:19
Alignment explanation
Indices: 71377--71433 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
71367 TTATTTAGTT
*
71377 TTTATTTTGACATTTAGTTTA
1 TTTA-TTTGTCATTTA-TTTA
* **
71398 -TTATTTTTTGTTTATTTA
1 TTTATTTGTCATTTATTTA
71416 TTTATTTGTCATTTATTT
1 TTTATTTGTCATTTATTT
71434 TCATGACTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
18 4 0.14
19 21 0.75
20 3 0.11
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTATTTGTCATTTATTTA
Found at i:71724 original size:21 final size:21
Alignment explanation
Indices: 71700--71740 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71690 ATTATGTTAT
*
71700 ATATTTTTATT-ATTGCATTTA
1 ATATATTTATTCATTG-ATTTA
71721 ATATATTTATTCATTGATTT
1 ATATATTTATTCATTGATTT
71741 TTTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATATTTATTCATTGATTTA
Found at i:72672 original size:19 final size:19
Alignment explanation
Indices: 72648--72687 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
72638 TTTTTTCCTA
72648 TAATATTCATGATTGTTCT
1 TAATATTCATGATTGTTCT
72667 TAATATTCATGATTGTTCT
1 TAATATTCATGATTGTTCT
72686 TA
1 TA
72688 CTTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (19 bp):
TAATATTCATGATTGTTCT
Found at i:72971 original size:17 final size:17
Alignment explanation
Indices: 72933--72972 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
72923 CAATGCAAAT
72933 CTAAAAATTAAAAAACA
1 CTAAAAATTAAAAAACA
*
72950 TTAAAAATTAAATAAA-A
1 CTAAAAATTAAA-AAACA
72967 CTAAAA
1 CTAAAA
72973 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
CTAAAAATTAAAAAACA
Found at i:75487 original size:28 final size:29
Alignment explanation
Indices: 75455--75512 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
75445 AAAGTATCTT
75455 GTAAAAAATCCCAACGCA-CCGATCATAG
1 GTAAAAAATCCCAACGCACCCGATCATAG
*
75483 GTAAAAAATCCCAATGCACCCGATCATAG
1 GTAAAAAATCCCAACGCACCCGATCATAG
75512 G
1 G
75513 CCTTCTCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.41, C:0.28, G:0.16, T:0.16
Consensus pattern (29 bp):
GTAAAAAATCCCAACGCACCCGATCATAG
Found at i:80059 original size:16 final size:18
Alignment explanation
Indices: 80033--80066 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
80023 CTTTTTTTAC
80033 TTATATTTATA-TATTTT
1 TTATATTTATATTATTTT
80050 TTAT-TTTATATTATTTT
1 TTATATTTATATTATTTT
80067 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATATTTATATTATTTT
Found at i:80061 original size:14 final size:16
Alignment explanation
Indices: 80036--80067 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
80026 TTTTTACTTA
80036 TATTTATATATT-TTT
1 TATTTATATATTATTT
80051 TATTT-TATATTATTT
1 TATTTATATATTATTT
80066 TA
1 TA
80068 AATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTATATATTATTT
Found at i:83177 original size:24 final size:24
Alignment explanation
Indices: 83145--83190 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
83135 TTAATTATTT
83145 GATAATGGAATGGTAGGGAAGACG
1 GATAATGGAATGGTAGGGAAGACG
*
83169 GATAATGGAATGGTTGGGAAGA
1 GATAATGGAATGGTAGGGAAGA
83191 TGCCAACCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.41, T:0.20
Consensus pattern (24 bp):
GATAATGGAATGGTAGGGAAGACG
Found at i:89962 original size:48 final size:48
Alignment explanation
Indices: 89891--89988 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
89881 AAATGTGATT
89891 TTCATTTTCTTCTTCATTCTATTTTGTACGAAAACCCTAAAGAAGAGC
1 TTCATTTTCTTCTTCATTCTATTTTGTACGAAAACCCTAAAGAAGAGC
89939 TTCATTTTCTTCTTCATTCTATTTTGTACGAAAACCCTAAAGAAGAGC
1 TTCATTTTCTTCTTCATTCTATTTTGTACGAAAACCCTAAAGAAGAGC
89987 TT
1 TT
89989 GGACATTCGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (48 bp):
TTCATTTTCTTCTTCATTCTATTTTGTACGAAAACCCTAAAGAAGAGC
Found at i:91533 original size:21 final size:22
Alignment explanation
Indices: 91496--91546 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
91486 TTGTTGCTTT
*
91496 TTTCATTAGGTTTTCA-TTTAA
1 TTTCATTTGGTTTTCATTTTAA
91517 CTTTCATTTGG-TTTCATTTTAA
1 -TTTCATTTGGTTTTCATTTTAA
91539 TTTCATTT
1 TTTCATTT
91547 CGTGACACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.61
Consensus pattern (22 bp):
TTTCATTTGGTTTTCATTTTAA
Found at i:92426 original size:20 final size:20
Alignment explanation
Indices: 92401--92440 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
92391 AGATTATAGG
92401 CTTTATGATGGCTGAGATTT
1 CTTTATGATGGCTGAGATTT
92421 CTTTATGATGGCTGAGATTT
1 CTTTATGATGGCTGAGATTT
92441 ATGCTTGAAT
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:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (20 bp):
CTTTATGATGGCTGAGATTT
Found at i:97314 original size:194 final size:190
Alignment explanation
Indices: 96967--97409 Score: 486
Period size: 194 Copynumber: 2.3 Consensus size: 190
96957 GAAACCGATG
* * * *
96967 CGATGGCTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTATGAGTAGCATCGTGAGTCG
1 CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
* * ** *
97032 AAAATGAGCAATGAATCCAAGAATGGATTACCAGCCTTACGATGGTTGGGATTTATGGATAAGTG
66 AAAATGA-CAATGAATCCAAAAATGGATTACCAGCCCTACGATGACTGGGATTTATGCATAAGTG
* * *
97097 CACATTCTCGACAGCTTGTGTGAGCAGCATCGTTAGGGAAACAATTATATGCATAGATAC-CGTA
130 CACATTCTCGACAGCTCGTGTGAGCAGCATCGTTA-GGAAACAATT-TA--CAGACATACACGTA
* * *
97161 TCGATGGTTGAGGTACCACATATGTTTCGAGTCCTCGACAGCTCGTGTGAACAGCATCATGAGTT
1 -CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAG-T
* * *
97226 GGAAAAT-A-ATATGAAAT-CAAAAATGGATTA-TAGTCCCTACGATGACTGGGATTTATGCTTG
64 CGAAAATGACA-ATG-AATCCAAAAATGGATTACCAG-CCCTACGATGACTGGGATTTATGCAT-
* * * * *
97287 AA-TGCATATTCTCGATAGCTCGTGTGAGCAGCATTGTTAGGAGACAGTTTACAGACATACATCG
125 AAGTGCACATTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTTACAGACATACA-CG
97351 TA
189 TA
* * *
97353 CAAATGGTTG-GGTACCGCATATGTTGCGAGTCCTCGACAGCTCATGTGAGCAGCATC
1 C-GATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATC
97410 GAGTACTGGT
Statistics
Matches: 212, Mismatches: 28, Indels: 20
0.82 0.11 0.08
Matches are distributed among these distances:
190 7 0.03
191 44 0.21
192 13 0.06
193 11 0.05
194 69 0.33
195 61 0.29
196 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (190 bp):
CGATGGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
AAAATGACAATGAATCCAAAAATGGATTACCAGCCCTACGATGACTGGGATTTATGCATAAGTGC
ACATTCTCGACAGCTCGTGTGAGCAGCATCGTTAGGAAACAATTTACAGACATACACGTA
Found at i:100928 original size:37 final size:37
Alignment explanation
Indices: 100837--101093 Score: 289
Period size: 37 Copynumber: 6.9 Consensus size: 37
100827 GTTCTTGGAT
* * ** * * *
100837 CACCGGCACAAAGTCTGTTAGGCACATAGCCCGAATA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * * *
100874 CATCAGCACGAAGCCTACTAGGCATATAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * * * * *
100911 CGCCGGCACAAAACCTACTAGGCACATAGTCTGAATA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* * * *
100948 CATCGACACGAAGCCTACTAGGCACAAAGCCTAAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
100985 CACCGGCATGAAGCCTACTAGGCACACAGCTTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
101022 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
101059 TACCGGCACGAAGCCTACTAGGCACACAACCTGAA
1 CACCGGCACGAAGCCTACTAGGCACACAGCCTGAA
101094 TTTTAAATGT
Statistics
Matches: 184, Mismatches: 36, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 184 1.00
ACGTcount: A:0.36, C:0.31, G:0.20, T:0.13
Consensus pattern (37 bp):
CACCGGCACGAAGCCTACTAGGCACACAGCCTGAAAA
Found at i:107733 original size:37 final size:37
Alignment explanation
Indices: 107682--107938 Score: 277
Period size: 37 Copynumber: 6.9 Consensus size: 37
107672 GTTCTTGGAT
* * * * * *
107682 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATA
1 CACCGACACGAAGCCTACTAGGCACACAGCCTGAAAA
* * *
107719 CACCGACACGAAGCCTATTAGGCATATAGCCTGAAAA
1 CACCGACACGAAGCCTACTAGGCACACAGCCTGAAAA
* * * *
107756 TACC-AGCACAAAGCCTACTAGGCACACATCCTGAATA
1 CACCGA-CACGAAGCCTACTAGGCACACAGCCTGAAAA
* * *
107793 CACTGGCACGAAGCCTACTAGGCACAAAGCCTGAAAA
1 CACCGACACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
107830 CACCGGCACGAAGCCTACTAGGCACACAGCCTAAAAA
1 CACCGACACGAAGCCTACTAGGCACACAGCCTGAAAA
* *
107867 CA-CTAGCACGAAGCCTACTAGGCACACAGCTTGAAAA
1 CACCGA-CACGAAGCCTACTAGGCACACAGCCTGAAAA
*
107904 CACCAGA-ACGAAGCCTACTAGGCACATAGCCTGAA
1 CACC-GACACGAAGCCTACTAGGCACACAGCCTGAA
107939 TTTTAAATGT
Statistics
Matches: 184, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.01
37 180 0.98
38 1 0.01
39 1 0.01
ACGTcount: A:0.37, C:0.32, G:0.19, T:0.12
Consensus pattern (37 bp):
CACCGACACGAAGCCTACTAGGCACACAGCCTGAAAA
Found at i:107808 original size:74 final size:74
Alignment explanation
Indices: 107682--107939 Score: 327
Period size: 74 Copynumber: 3.5 Consensus size: 74
107672 GTTCTTGGAT
* * * * * * * * *
107682 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATACACCGACACGAAGCCTATTAGGCATATA
1 CACCAGCACAAAGCCTACTAGGCACACAGCCTGAATACACTGGCACGAAGCCTACTAGGCACAAA
107747 GCCTGAAAA
66 GCCTGAAAA
* *
107756 TACCAGCACAAAGCCTACTAGGCACACATCCTGAATACACTGGCACGAAGCCTACTAGGCACAAA
1 CACCAGCACAAAGCCTACTAGGCACACAGCCTGAATACACTGGCACGAAGCCTACTAGGCACAAA
107821 GCCTGAAAA
66 GCCTGAAAA
* * * * * *
107830 CACCGGCACGAAGCCTACTAGGCACACAGCCTAAAAACACTAGCACGAAGCCTACTAGGCACACA
1 CACCAGCACAAAGCCTACTAGGCACACAGCCTGAATACACTGGCACGAAGCCTACTAGGCACAAA
*
107895 GCTTGAAAA
66 GCCTGAAAA
* * *
107904 CACCAGAACGAAGCCTACTAGGCACATAGCCTGAAT
1 CACCAGCACAAAGCCTACTAGGCACACAGCCTGAAT
107940 TTTAAATGTA
Statistics
Matches: 159, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 159 1.00
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (74 bp):
CACCAGCACAAAGCCTACTAGGCACACAGCCTGAATACACTGGCACGAAGCCTACTAGGCACAAA
GCCTGAAAA
Found at i:107881 original size:111 final size:111
Alignment explanation
Indices: 107682--107938 Score: 343
Period size: 111 Copynumber: 2.3 Consensus size: 111
107672 GTTCTTGGAT
* * * * * * *
107682 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATACACCGACACGAAGCCTATTAGGCATATA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAACACCGACACGAAGCCTACTAGGCACACA
* * * *
107747 GCCTGAAAATACCAGCACAAAGCCTACTAGGCACACATCCTGAATA
66 GCCTAAAAACACCAGCACAAAGCCTACTAGGCACACAGCCTGAAAA
* * *
107793 CACTGGCACGAAGCCTACTAGGCACAAAGCCTGAAAACACCGGCACGAAGCCTACTAGGCACACA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAACACCGACACGAAGCCTACTAGGCACACA
* * *
107858 GCCTAAAAACACTAGCACGAAGCCTACTAGGCACACAGCTTGAAAA
66 GCCTAAAAACACCAGCACAAAGCCTACTAGGCACACAGCCTGAAAA
* *
107904 CACCAGAACGAAGCCTACTAGGCACATAGCCTGAA
1 CACCGGCACGAAGCCTACTAGGCACATAGCCTGAA
107939 TTTTAAATGT
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
111 125 1.00
ACGTcount: A:0.37, C:0.32, G:0.19, T:0.12
Consensus pattern (111 bp):
CACCGGCACGAAGCCTACTAGGCACATAGCCTGAAAACACCGACACGAAGCCTACTAGGCACACA
GCCTAAAAACACCAGCACAAAGCCTACTAGGCACACAGCCTGAAAA
Found at i:109638 original size:16 final size:17
Alignment explanation
Indices: 109610--109641 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
109600 TATTTTTATG
109610 TTATTTAAAATTTTTTT
1 TTATTTAAAATTTTTTT
109627 TTATTT-AAATTTTTT
1 TTATTTAAAATTTTTT
109642 AAACATGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTAAAATTTTTTT
Found at i:109815 original size:74 final size:72
Alignment explanation
Indices: 109697--109833 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 72
109687 TAAAAGCAAC
* * *
109697 ACAACATCAGTCCAAGTAAACAATGACAACACAATAAGAGTATAATAAAAAAAATATAAGCAAAA
1 ACAACATCAGTCCAAGTAAACAATAACAACACAACAAGA-T-T-ATAAAAAAAACATAAGCAAAA
109762 GTCCAAGTAA
63 GTCCAAGTAA
* *
109772 ACAACATGAGTCCAAGT-AACAATAATAACACAACAAGATTATAAAAAAAACATAAGCAAAAG
1 ACAACATCAGTCCAAGTAAACAATAACAACACAACAAGATTATAAAAAAAACATAAGCAAAAG
109834 ATCAAAATAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
71 21 0.37
72 1 0.02
73 1 0.02
74 18 0.32
75 16 0.28
ACGTcount: A:0.58, C:0.16, G:0.10, T:0.15
Consensus pattern (72 bp):
ACAACATCAGTCCAAGTAAACAATAACAACACAACAAGATTATAAAAAAAACATAAGCAAAAGTC
CAAGTAA
Found at i:113773 original size:156 final size:155
Alignment explanation
Indices: 113413--113873 Score: 558
Period size: 156 Copynumber: 3.0 Consensus size: 155
113403 AAATCATTAC
*
113413 TTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAAAAATCAAAACTTTGTTAAAAA
1 TTTACTTAAAAATCCAAACTTTTATTTCGAAATA-TT---AAAAAAATCAAAACTTTGTTAAAAA
* * * *
113478 TTTAAATTTTTTTT-T-AAAAATAACTAAAAAAACAAATTTTTATTTTTTAAAAATCTAA-----
62 TCT--ATTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTTAAAAATATAAGTTTT
* * * *
113536 AC-TTTCTCTTTTTTAAGAAAATCATTATTT
125 TCTTTTTTTTTTTTTAAGAAAATCACTATTT
* * *
113566 TTTACTTAAAAATTCAAACTTTTATTTCGAGATAATTAAAAAGAT-AAAACTTTGTTAAAAATCT
1 TTTACTTAAAAATCCAAACTTTTATTTCGAAAT-ATTAAAAAAATCAAAACTTTGTTAAAAATCT
113630 ATTTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTT-AAAATATAAGTTTTTTCT
65 A-TTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTTAAAAATATAAG-TTTTTCT
113694 TTTTTTTTTTATTAAGAAAATCACTA-TT
128 TTTTTTTTTT-TTAAGAAAATCACTATTT
*
113722 TTTACTTAAAAATCCAAACTTTTATTTCGAAATATTAAAAAAATCAGAACTTTGTTAAAAATCTA
1 TTTACTTAAAAATCCAAACTTTTATTTCGAAATATTAAAAAAATCAAAACTTTGTTAAAAATCTA
* * *
113787 ATATTTTTCTCTAAAATAACTAAGAAAACATATTTTTATTTTTTTAAAAATATAAG-----CTTT
66 TTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTA-TTTTTTAAAAATATAAGTTTTTCTTT
*
113847 TTTTTTTTTAAAGAAAATCACTATTT
130 TTTTTTTTTTAAGAAAATCACTATTT
113873 T
1 T
113874 ATTTAAAAAA
Statistics
Matches: 272, Mismatches: 20, Indels: 34
0.83 0.06 0.10
Matches are distributed among these distances:
147 1 0.00
148 8 0.03
149 27 0.10
150 52 0.19
151 15 0.06
153 32 0.12
154 1 0.00
155 46 0.17
156 66 0.24
157 24 0.09
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (155 bp):
TTTACTTAAAAATCCAAACTTTTATTTCGAAATATTAAAAAAATCAAAACTTTGTTAAAAATCTA
TTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTTAAAAATATAAGTTTTTCTTTT
TTTTTTTTTAAGAAAATCACTATTT
Found at i:113951 original size:155 final size:146
Alignment explanation
Indices: 113402--113905 Score: 496
Period size: 150 Copynumber: 3.3 Consensus size: 146
113392 TGATTAAACA
* * * * *
113402 AAAATCATTACTTTACTT-AAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAAAAAATCAAAA
1 AAAATCACTATTTTATTTAAAAAATACAAACTTTTATTTCGAAATA-TT---AAAAAAA-CAAAA
* * * *
113466 CTTTGTTAAAAATTTAA-ATTTTTTTTTAAAAATAACTAAAAAAACAAATTTTTATTTTTTAAAA
61 CTTTGTTAAAAA-TCAATATTTTTCTCT-AAAATAACTAAGAAAACAAATTTTTATTTTTTAAAA
* * * *
113530 ATCTAAACTTTCTCTTTTTTAAG
124 ATATAAGCTTTTTTTTTTTTAAG
* * * * * *
113553 AAAATCATTATTTT-TTACTTAAAAATTCAAACTTTTATTTCGAGATAATTAAAAAGATAAAACT
1 AAAATCACTATTTTATT--TAAAAAATACAAACTTTTATTTCGAAAT-ATTAAAAAAACAAAACT
* *
113617 TTGTTAAAAATCTATTTTTTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTT-AAAAT
63 TTGTTAAAAATC-A-ATATTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTTAAAAAT
113681 ATAAGTTTTTTCTTTTTTTTTTTATTAAG
126 ATAAG------C-TTTTTTTTTT-TTAAG
* * *
113710 AAAATCACTATTTTTACTT-AAAAATCCAAACTTTTATTTCGAAATATTAAAAAAATCAGAACTT
1 AAAATCACTA-TTTTATTTAAAAAATACAAACTTTTATTTCGAAATATTAAAAAAA-CAAAACTT
*
113774 TGTTAAAAATCTAATATTTTTCTCTAAAATAACTAAGAAAACATATTTTTATTTTTTTAAAAATA
64 TGTTAAAAATC-AATATTTTTCTCTAAAATAACTAAGAAAACAAATTTTTA-TTTTTTAAAAATA
113839 TAAGCTTTTTTTTTTTTAAAG
127 TAAGCTTTTTTTTTTTT-AAG
* *
113860 AAAATCACTATTTTATTTAAAAAAATAAAAAATTTTATTTCGAAAT
1 AAAATCACTATTTTATTT-AAAAAATACAAACTTTTATTTCGAAAT
113906 TGTTTAAAAG
Statistics
Matches: 299, Mismatches: 31, Indels: 46
0.80 0.08 0.12
Matches are distributed among these distances:
148 1 0.00
149 34 0.11
150 61 0.20
151 44 0.15
152 1 0.00
153 25 0.08
154 1 0.00
155 45 0.15
156 57 0.19
157 25 0.08
158 4 0.01
159 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (146 bp):
AAAATCACTATTTTATTTAAAAAATACAAACTTTTATTTCGAAATATTAAAAAAACAAAACTTTG
TTAAAAATCAATATTTTTCTCTAAAATAACTAAGAAAACAAATTTTTATTTTTTAAAAATATAAG
CTTTTTTTTTTTTAAG
Found at i:114356 original size:3 final size:3
Alignment explanation
Indices: 114350--114387 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
114340 AATAATAATA
114350 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
114388 AATTTGAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:114430 original size:11 final size:11
Alignment explanation
Indices: 114416--114440 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
114406 CCCAAAAAAG
114416 AAAGAAAAATA
1 AAAGAAAAATA
114427 AAAGAAAAATA
1 AAAGAAAAATA
114438 AAA
1 AAA
114441 ACCTCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAAATA
Found at i:114782 original size:42 final size:42
Alignment explanation
Indices: 114744--115620 Score: 1089
Period size: 42 Copynumber: 20.9 Consensus size: 42
114734 AAAAAAAATG
* * * *
114744 AATGGACCTCTACGCCTAGGCCTCTAAATGCAATAAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
114786 AAT-GAGCCTCCACACCTGAGCTTCTAAATGCAATGAAAAGTA
1 AATGGA-CCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
114828 AATGGACCTTCACACTTGGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
** *
114870 AATGGACCTCCACACCTAAGCCTCTGAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
114912 AAT-GAGCCTCCACACTTGAGCCTCTAAATGCAAAGAGAAGTA
1 AATGGA-CCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
114954 AATGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
114996 AATGGGCCTCCACACTTGGGCCTTTGAATGCAATGAAAAGGA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * ** * *
115038 AATGGGCCTCTACACCTGAACCTCTGAATGTGAA-GAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATG-CAATGAAAAGTA
* * * * * * *
115080 AATAGAACTCCACATCTGGGCCTTTGAATGCGATAAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
115122 AATGGGCCCCCACACCTGGGCCTTTGAATGCGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
115164 AATGGACCTCCACACTTGGGCCTCTAAATGCAATGTAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
115206 AATGGACCT-CAGCACTTGGGCCTCTAAATGCGATGAAAAGTA
1 AATGGACCTCCA-CACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
115248 AATGGACCTCCGCACCTGGGCTTCTAAATGTAATGAAAATTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
115290 AATGGACCTCCACACTTGGGCCTCTAAATGCAATGTAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * *
115332 AATGGACCTCAACACTTGGGCCTCTAAATGCGATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * *
115374 AATTGACCTCCGCACCTGGGCTTCTAAATGTAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
115416 AATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* *
115458 AATAGACCTCCACACCTGAGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
*
115500 AATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
* * * * *
115542 AATGGGCCTCCACACTTAGGG-CTCTGAATACGATGAAAAGTA
1 AATGGACCTCCACACCT-GGGCCTCTAAATGCAATGAAAAGTA
115584 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
115621 TGCTTTCCTT
Statistics
Matches: 719, Mismatches: 106, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
41 10 0.01
42 699 0.97
43 10 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
AATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTA
Found at i:122693 original size:20 final size:21
Alignment explanation
Indices: 122654--122703 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
122644 AAACATATTT
*
122654 TTATTTATTTTTAAATAAATGA
1 TTATTT-TTTTTAAATAAATAA
122676 TT-TTTTTTTTAAGA-AAATAA
1 TTATTTTTTTTAA-ATAAATAA
122696 TTATTTTT
1 TTATTTTT
122704 ACTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTTTTTTTAAATAAATAA
Found at i:122833 original size:148 final size:149
Alignment explanation
Indices: 122528--122897 Score: 455
Period size: 148 Copynumber: 2.4 Consensus size: 149
122518 AAACTTTATA
* * *
122528 TTTTTTCTGAAGAAAATCACTATTTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAA
1 TTTTTTTTAAAGAAAATCACTATTTTTACTTAAAAATC-AAACTTTTATTTTGAAATAGTT-AAA
* * *
122593 AAAATCAAAACTTTGTTAAAAATCTAAACTTTTTCTCTAAAATAACTAAGAAAACATATTTTTAT
64 AAAATCAAAACTTTGTTAAAAATCTAAACTTTTTCTCTAAAATAACAAAGAAAACAGATATTTAT
***
122658 TTATTTTTAAATAAATGA-TT
129 TTATTAAAAAATAAATGATTT
* *
122678 TTTTTTTT-AAGAAAATAATTATTTTTACTTAAAAATTCAAACTTTTATTTTGAAATAGTTAAAA
1 TTTTTTTTAAAGAAAATCACTATTTTTACTTAAAAA-TCAAACTTTTATTTTGAAATAGTTAAAA
*
122742 AAATCAAAACTTTGTTAAAAATCTAAACTTTTTCTCTAAAATAACAAAGAAAATAGA-ATTTATT
65 AAATCAAAACTTTGTTAAAAATCTAAACTTTTTCTCTAAAATAACAAAGAAAACAGATATTTATT
*
122806 T-TTAAAAAAATATAA-GCTTT
130 TATT-AAAAAATA-AATGATTT
* * *
122826 TTCTTTTTTAAAGAAAATCACTA-TTTTGCTTAAAAAAAATCAAAGTTTTTATTTTGAAATTGTT
1 TT-TTTTTTAAAGAAAATCACTATTTTTACTT---AAAAATCAAA-CTTTTATTTTGAAATAG-T
122890 TAAAAAAA
60 TAAAAAAA
122898 ACCAAAATAT
Statistics
Matches: 192, Mismatches: 17, Indels: 19
0.84 0.07 0.08
Matches are distributed among these distances:
146 2 0.01
147 13 0.07
148 64 0.33
149 59 0.31
150 20 0.10
151 5 0.03
152 20 0.10
153 9 0.05
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (149 bp):
TTTTTTTTAAAGAAAATCACTATTTTTACTTAAAAATCAAACTTTTATTTTGAAATAGTTAAAAA
AATCAAAACTTTGTTAAAAATCTAAACTTTTTCTCTAAAATAACAAAGAAAACAGATATTTATTT
ATTAAAAAATAAATGATTT
Found at i:126713 original size:48 final size:48
Alignment explanation
Indices: 126642--126739 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
126632 TGATACTGCC
126642 GCCAATGGTGGTTGGGATGTGGGTTAGGGTTTCTTTCGATTTGAGGCA
1 GCCAATGGTGGTTGGGATGTGGGTTAGGGTTTCTTTCGATTTGAGGCA
126690 GCCAATGGTGGTTGGGATGTGGGTTAGGGTTTCTTTCGATTTGAGGCA
1 GCCAATGGTGGTTGGGATGTGGGTTAGGGTTTCTTTCGATTTGAGGCA
126738 GC
1 GC
126740 TTAGTTATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.14, C:0.11, G:0.40, T:0.35
Consensus pattern (48 bp):
GCCAATGGTGGTTGGGATGTGGGTTAGGGTTTCTTTCGATTTGAGGCA
Found at i:132128 original size:21 final size:21
Alignment explanation
Indices: 132096--132151 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
132086 AATTGTGCAG
*
132096 ACTTCTACTGATACAAATGAT
1 ACTTCTATTGATACAAATGAT
* *
132117 AGTTCTATTGATACAAGTGAT
1 ACTTCTATTGATACAAATGAT
* *
132138 TCTTCTATCGATAC
1 ACTTCTATTGATAC
132152 TAAAAACTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (21 bp):
ACTTCTATTGATACAAATGAT
Found at i:133610 original size:39 final size:39
Alignment explanation
Indices: 133567--133646 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
133557 TTAATTTTTA
*
133567 TTAGTTTATTTACCTATTTGACCCTTCTAATTAAATAAT
1 TTAGTTTATTTACCTATTTGACCCTTCCAATTAAATAAT
133606 TTAGTTTATTTACCTATTTGACCCTTCCAATTAAATAAT
1 TTAGTTTATTTACCTATTTGACCCTTCCAATTAAATAAT
133645 TT
1 TT
133647 CACTTTTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (39 bp):
TTAGTTTATTTACCTATTTGACCCTTCCAATTAAATAAT
Found at i:138824 original size:226 final size:225
Alignment explanation
Indices: 138427--138878 Score: 841
Period size: 226 Copynumber: 2.0 Consensus size: 225
138417 AGCCTGATTA
138427 ATTAAAACATCCTTTCTTGGAATGAAGTATCGATAAAAAATAATATTTTGATTTAATCTTTTGTA
1 ATTAAAACATCCTTTCTTGGAATGAAGTATCGATAAAAAATAATATTTTGATTTAATCTTTTGTA
138492 GTTAATAATTTGATAATAATGAAAATTATTTGAAGATTTAGAGAGGTTTTGAGGATTTTGTGGAG
66 GTTAATAATTTGATAATAATGAAAATTATTTGAAGATTTAGAGAGGTTTTGAGGATTTTGTGGAG
* * *
138557 GGGTGATGGTGGGTTTTTTACAAAATTGCCCATGTTTTTTTACCATTTTGTCCTCTTGTTATTAG
131 AGGTGATGGTGGGTTTTTTACAAAATTGCCCATGCTTTTTTACCATTTTGTCCTCTTGTTACTAG
138622 TCTAAATAGAAGACTAGTTTTCTTATTTTT
196 TCTAAATAGAAGACTAGTTTTCTTATTTTT
*
138652 ATTAAAACATCTTTTCTTGGAATGAAGTATCGATAAAAAAATAATATTTTGATTTAATCTTTTGT
1 ATTAAAACATCCTTTCTTGGAATGAAGTATCGAT-AAAAAATAATATTTTGATTTAATCTTTTGT
*
138717 AGTTAATAATTTGATAATAATGCAAATTATTTGAAGATTTAGAGAGGTTTTGAGGATTTTGTGGA
65 AGTTAATAATTTGATAATAATGAAAATTATTTGAAGATTTAGAGAGGTTTTGAGGATTTTGTGGA
138782 GAGGTGATGGTGGGTTTTTTACAAAATTGCCCATGCTTTTTTACCATTTTGTCCTCTTGTTACTA
130 GAGGTGATGGTGGGTTTTTTACAAAATTGCCCATGCTTTTTTACCATTTTGTCCTCTTGTTACTA
*
138847 GTCTAAATAGAGGACTAGTTTTCTTATTTTT
195 GTCTAAATAGAAGACTAGTTTTCTTATTTTT
138878 A
1 A
138879 CACACCAAAA
Statistics
Matches: 220, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
225 33 0.15
226 187 0.85
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (225 bp):
ATTAAAACATCCTTTCTTGGAATGAAGTATCGATAAAAAATAATATTTTGATTTAATCTTTTGTA
GTTAATAATTTGATAATAATGAAAATTATTTGAAGATTTAGAGAGGTTTTGAGGATTTTGTGGAG
AGGTGATGGTGGGTTTTTTACAAAATTGCCCATGCTTTTTTACCATTTTGTCCTCTTGTTACTAG
TCTAAATAGAAGACTAGTTTTCTTATTTTT
Found at i:150022 original size:18 final size:20
Alignment explanation
Indices: 149985--150030 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
149975 TTCCAAAACA
*
149985 CCTTCACCATCAGATTCTAC
1 CCTTCAACATCAGATTCTAC
150005 CCTTCAACATC-G-TTCTAC
1 CCTTCAACATCAGATTCTAC
*
150023 CCATCAAC
1 CCTTCAAC
150031 TTTTACCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.54
19 1 0.04
20 10 0.42
ACGTcount: A:0.26, C:0.41, G:0.04, T:0.28
Consensus pattern (20 bp):
CCTTCAACATCAGATTCTAC
Found at i:150046 original size:33 final size:33
Alignment explanation
Indices: 149985--150152 Score: 178
Period size: 33 Copynumber: 5.1 Consensus size: 33
149975 TTCCAAAACA
**
149985 CCTTCACCATCAGA-TTCTA-CCCTTCAACATCGT
1 CCTTC-CCATCA-ACTTCTACCCCTTCAACATCAC
* * * *
150018 TCTACCCATCAACTTTTACCCCTTCAACATCAT
1 CCTTCCCATCAACTTCTACCCCTTCAACATCAC
*
150051 CCTTTCCATCAACTTCTACCCCTTCAACATCAC
1 CCTTCCCATCAACTTCTACCCCTTCAACATCAC
****
150084 CCTTCCCATCAACTTCTATTTATTCAACATCAC
1 CCTTCCCATCAACTTCTACCCCTTCAACATCAC
* * *
150117 CCTTCACATCAACTTTTACCCCTTCAACATTAC
1 CCTTCCCATCAACTTCTACCCCTTCAACATCAC
150150 CCT
1 CCT
150153 CCCTAGTAGT
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
31 1 0.01
32 10 0.09
33 101 0.90
ACGTcount: A:0.26, C:0.40, G:0.01, T:0.33
Consensus pattern (33 bp):
CCTTCCCATCAACTTCTACCCCTTCAACATCAC
Found at i:151189 original size:16 final size:16
Alignment explanation
Indices: 151170--151226 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
151160 AATGTTATGG
151170 ATTTGGGGATTTTACA
1 ATTTGGGGATTTTACA
* * * **
151186 ATTTGGGTATATCATG
1 ATTTGGGGATTTTACA
*
151202 ATTTGGGGATTTTAGA
1 ATTTGGGGATTTTACA
151218 ATTTAGGGG
1 ATTT-GGGG
151227 TTTGAGGGTT
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.25, C:0.04, G:0.30, T:0.42
Consensus pattern (16 bp):
ATTTGGGGATTTTACA
Found at i:159858 original size:24 final size:25
Alignment explanation
Indices: 159831--159879 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
159821 CCTTATGTGG
*
159831 CACCACTTGCTGAAGT-TATCCATC
1 CACCACTTGCTGAAGTCCATCCATC
159855 CACCACTTGCTGAAGTCCATCCATC
1 CACCACTTGCTGAAGTCCATCCATC
159880 AATGAGGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.24, C:0.37, G:0.12, T:0.27
Consensus pattern (25 bp):
CACCACTTGCTGAAGTCCATCCATC
Found at i:169553 original size:21 final size:21
Alignment explanation
Indices: 169521--169574 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
169511 GGAGTTTTTA
* *
169521 GTATCGGTAGAA-TTAAGACTT
1 GTATCAGTAGAAGTT-ACACTT
*
169542 GTTTCAGTAGAAGTTACACTT
1 GTATCAGTAGAAGTTACACTT
169563 GTATCAGTAGAA
1 GTATCAGTAGAA
169575 CTTTCCCAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (21 bp):
GTATCAGTAGAAGTTACACTT
Found at i:177575 original size:81 final size:81
Alignment explanation
Indices: 177440--177602 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
177430 GGGTAAAAAC
* *
177440 TAAGTTCGAAAAATGGACTTGAACAAAAAAATTTAAGCTCGTTTAAAATATGGGTTGAGCTCGAG
1 TAAGTTCGAAAAATGGACTTGAACAAAAAAAATTAAGCTCGTTTAAAATATGGGTCGAGCTCGAG
177505 CTTAAACATTGAATGT
66 CTTAAACATTGAATGT
177521 TAAGTTCGAAAAATGGACTTGAACAAAAAAAATTAAGCTCGTTTAAAATATGGGTCGAGCTCGAG
1 TAAGTTCGAAAAATGGACTTGAACAAAAAAAATTAAGCTCGTTTAAAATATGGGTCGAGCTCGAG
177586 CTTAAACATTGAATGT
66 CTTAAACATTGAATGT
177602 T
1 T
177603 TACGCCCAAC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.29
Consensus pattern (81 bp):
TAAGTTCGAAAAATGGACTTGAACAAAAAAAATTAAGCTCGTTTAAAATATGGGTCGAGCTCGAG
CTTAAACATTGAATGT
Found at i:177758 original size:14 final size:14
Alignment explanation
Indices: 177738--177772 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
177728 AAAATTTTCA
177738 ATAAATAAAA-AAT
1 ATAAATAAAATAAT
177751 ATTAAATAAAATAAT
1 A-TAAATAAAATAAT
177766 ATAAATA
1 ATAAATA
177773 TTTTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 15 0.75
15 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:177758 original size:39 final size:43
Alignment explanation
Indices: 177708--177787 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 43
177698 CTAAATGTAT
* *
177708 AATATTAAAAT-AACT-ATATAAA-AATTTTCAATAAATAAAA
1 AATATTAAAATAAAATAATATAAATAATTTTCAAAAAATAAAA
*
177748 AATATT-AAATAAAATAATATAAATATTTTTCAAAAAATAA
1 AATATTAAAATAAAATAATATAAATAATTTTCAAAAAATAA
177788 TATGGGCGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 4 0.12
40 9 0.26
41 7 0.21
42 14 0.41
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (43 bp):
AATATTAAAATAAAATAATATAAATAATTTTCAAAAAATAAAA
Found at i:183519 original size:2 final size:2
Alignment explanation
Indices: 183512--183542 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
183502 TAATACTTTA
183512 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 A
183543 AAGTAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:187599 original size:29 final size:29
Alignment explanation
Indices: 187522--187637 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
187512 AACAAAATTT
*
187522 ATCTCGTCAAAATTATTTTTTCAGAACAC
1 ATCTCGTTAAAATTATTTTTTCAGAACAC
* * * *
187551 ATCACGTCT-AATTTACTTTTTCAGAACTC
1 ATCTCGT-TAAAATTATTTTTTCAGAACAC
* *
187580 AACTTGTTAAAATTATTTTTT-AGAACAC
1 ATCTCGTTAAAATTATTTTTTCAGAACAC
*
187608 ATCTCGTCAAAATTATTTTTTTCCAGAACA
1 ATCTCGTTAAAATTA-TTTTTT-CAGAACA
187638 ATAATAAACA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
28 19 0.28
29 43 0.63
31 6 0.09
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (29 bp):
ATCTCGTTAAAATTATTTTTTCAGAACAC
Found at i:187619 original size:28 final size:28
Alignment explanation
Indices: 187522--187628 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
187512 AACAAAATTT
187522 ATCTCGTCAAAATTATTTTTTCAGAACAC
1 ATCTCGTCAAAATTATTTTTT-AGAACAC
* * * * *
187551 ATCACGTCTAATTTACTTTTTCAGAACTC
1 ATCTCGTCAAAATTA-TTTTTTAGAACAC
* * *
187580 AACTTGTTAAAATTATTTTTTAGAACAC
1 ATCTCGTCAAAATTATTTTTTAGAACAC
187608 ATCTCGTCAAAATTATTTTTT
1 ATCTCGTCAAAATTATTTTTT
187629 TCCAGAACAA
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
28 29 0.48
29 27 0.44
30 5 0.08
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.43
Consensus pattern (28 bp):
ATCTCGTCAAAATTATTTTTTAGAACAC
Found at i:189069 original size:464 final size:464
Alignment explanation
Indices: 188150--189077 Score: 1793
Period size: 464 Copynumber: 2.0 Consensus size: 464
188140 ATTTAGGAAA
* * *
188150 TTAATTTTTTTATTATACTGGTGTGATTATATGGTAGTATTTGTTCATACTTTCTTAACTCTTTG
1 TTAATTTTTTTATTATACTGGTGTGATTATATGATAGTATCTGTTCATACTTTCTTAACTCTTTA
188215 ACAACACACACACCTTGCACACATAGACACTCGAACCCGGGACTCCTAGGATGAATAACATCCTC
66 ACAACACACACACCTTGCACACATAGACACTCGAACCCGGGACTCCTAGGATGAATAACATCCTC
* *
188280 TTTTCCACTGGAGTCACTTGTTAGGAAATTAATTTAAAATCATAATATAATATGATTTTTGTAAA
131 TTTTCCACTGAAATCACTTGTTAGGAAATTAATTTAAAATCATAATATAATATGATTTTTGTAAA
188345 AGAAATTAATATTAAATATACTTTACTTAATTCATGCTAATTTAGGAAAATAAATTATTTAACAC
196 AGAAATTAATATTAAATATACTTTACTTAATTCATGCTAATTTAGGAAAATAAATTATTTAACAC
188410 ATTAACAATTTATAAAAAAAAAAAAAATTTAAAGATCATGTTATTGATTTTAGAACTAATTAAAA
261 ATTAACAATTTATAAAAAAAAAAAAAATTTAAAGATCATGTTATTGATTTTAGAACTAATTAAAA
188475 AAATTAAAGGGATTATTTACTTTATACTAATTGCTATTTGCTTATCATTACTGGTGTCACCATTA
326 AAATTAAAGGGATTATTTACTTTATACTAATTGCTATTTGCTTATCATTACTGGTGTCACCATTA
188540 CTATCATTTATATAAATCTCCTTTAATTTCGTTTTTCTTCTTCAAATTTACAATCAACTTTTTTT
391 CTATCATTTATATAAATCTCCTTTAATTTCGTTTTTCTTCTTCAAATTTACAATCAACTTTTTTT
188605 TATATAATT
456 TATATAATT
188614 TTAATTTTTTTATTATACTGGTGTGATTATATGATAGTATCTGTTCATACTTTCTTAACTCTTTA
1 TTAATTTTTTTATTATACTGGTGTGATTATATGATAGTATCTGTTCATACTTTCTTAACTCTTTA
188679 ACAACACACACACCTTGCACACATAGACACTCGAACCCGGGACTCCTAGGATGAATAACATCCTC
66 ACAACACACACACCTTGCACACATAGACACTCGAACCCGGGACTCCTAGGATGAATAACATCCTC
188744 TTTTCCACTGAAATCACTTGTTAGGAAATTAATTTAAAATCATAATATAATATGATTTTTGTAAA
131 TTTTCCACTGAAATCACTTGTTAGGAAATTAATTTAAAATCATAATATAATATGATTTTTGTAAA
188809 AGAAATTAATATTAAATATACTTTACTTAATTCATGCTAATTTAGGAAAATAAATTATTTAACAC
196 AGAAATTAATATTAAATATACTTTACTTAATTCATGCTAATTTAGGAAAATAAATTATTTAACAC
*
188874 ATTAACAATTTATAAAAAAAAATAAAATTTAAAGATCATGTTATTGATTTTAGAACTAATTAAAA
261 ATTAACAATTTATAAAAAAAAAAAAAATTTAAAGATCATGTTATTGATTTTAGAACTAATT-AAA
188939 AAAATTAAAGGGATTATTTACTTTATACTAATTGCTATTTGCTTATCATTACTGGTGTCACCATT
325 AAAATTAAAGGGATTATTTACTTTATACTAATTGCTATTTGCTTATCATTACTGGTGTCACCATT
189004 ACTATCATTTATATAAATCTCCTTTAATTTCGTTTTTCTTCTTCAAATTTACAATCAACTTTTTT
390 ACTATCATTTATATAAATCTCCTTTAATTTCGTTTTTCTTCTTCAAATTTACAATCAACTTTTTT
189069 TTATATAAT
455 TTATATAAT
189078 CTAAAATAAA
Statistics
Matches: 457, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
464 315 0.69
465 142 0.31
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (464 bp):
TTAATTTTTTTATTATACTGGTGTGATTATATGATAGTATCTGTTCATACTTTCTTAACTCTTTA
ACAACACACACACCTTGCACACATAGACACTCGAACCCGGGACTCCTAGGATGAATAACATCCTC
TTTTCCACTGAAATCACTTGTTAGGAAATTAATTTAAAATCATAATATAATATGATTTTTGTAAA
AGAAATTAATATTAAATATACTTTACTTAATTCATGCTAATTTAGGAAAATAAATTATTTAACAC
ATTAACAATTTATAAAAAAAAAAAAAATTTAAAGATCATGTTATTGATTTTAGAACTAATTAAAA
AAATTAAAGGGATTATTTACTTTATACTAATTGCTATTTGCTTATCATTACTGGTGTCACCATTA
CTATCATTTATATAAATCTCCTTTAATTTCGTTTTTCTTCTTCAAATTTACAATCAACTTTTTTT
TATATAATT
Found at i:189448 original size:10 final size:10
Alignment explanation
Indices: 189433--189458 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
189423 TAAAATTATT
189433 ATTTTAGAAA
1 ATTTTAGAAA
189443 ATTTTAGAAA
1 ATTTTAGAAA
189453 ATTTTA
1 ATTTTA
189459 AGTTTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (10 bp):
ATTTTAGAAA
Found at i:201031 original size:24 final size:24
Alignment explanation
Indices: 201004--201054 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
200994 AATTTCACTT
201004 AAATAAATAAACAGAATTTAATTA
1 AAATAAATAAACAGAATTTAATTA
*
201028 AAATAAATAAATAGAATTTAATTA
1 AAATAAATAAACAGAATTTAATTA
201052 AAA
1 AAA
201055 AATTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATAAATAAACAGAATTTAATTA
Found at i:206014 original size:39 final size:38
Alignment explanation
Indices: 205928--206014 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 38
205918 TAACAACTAC
* * *
205928 CAAAATTTATAACTATTACTAAAATTCTTGATGGAAAT
1 CAAACTTTGTAACTATTACTAAAATTCCTGATGGAAAT
* *
205966 CCAATTTTGTAACTATATACTAAAATTCCT-ATTGGAAA-
1 CAAACTTTGTAACTAT-TACTAAAATTCCTGA-TGGAAAT
206004 CTAAACTTTGT
1 C-AAACTTTGT
206015 CACCAAATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 15 0.38
39 25 0.62
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (38 bp):
CAAACTTTGTAACTATTACTAAAATTCCTGATGGAAAT
Found at i:206060 original size:13 final size:13
Alignment explanation
Indices: 206030--206054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206020 AATACTTTGT
206030 AAAAATTCTTAAA
1 AAAAATTCTTAAA
206043 AAAAATTCTTAA
1 AAAAATTCTTAA
206055 TTAAAAATGG
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATTCTTAAA
Found at i:207185 original size:96 final size:96
Alignment explanation
Indices: 207008--207192 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
206998 AAAAAGGATG
** *
207008 TTCGATTATTTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGTAAATTTTCATAATCGA
1 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCATAATCGA
* *
207073 AGATAAGGAAACATTGCCTTGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
207104 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCGA-AACTC
1 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTC-ATAA-TC
*
207168 GAA-ATAAA-AGAATATTGCCTCGATT
64 GAAGATAAAGA-AACATTGCCTCGATT
207193 TTAAAGTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
95 1 0.01
96 73 0.91
97 6 0.08
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (96 bp):
TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCATAATCGA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:207568 original size:29 final size:29
Alignment explanation
Indices: 207541--207759 Score: 237
Period size: 29 Copynumber: 7.4 Consensus size: 29
207531 ATCGGGGGTT
*
207541 AAATGGTAATTTTTGAAAGTTTCAGGGTCAA
1 AAAT-GTAATTTTTGGAAGTTTCAGGGT-AA
* *
207572 AAATGGAATTTTTGG-AGGTTCGAGGGTAA
1 AAATGTAATTTTTGGAAGTTTC-AGGGTAA
**
207601 AAATGTAATTTTTGGAAGTTTTGGGGTCAA
1 AAATGTAATTTTTGGAAGTTTCAGGGT-AA
* **
207631 AAATGGAATTTTTGGAAGTTTGGGGGTAA
1 AAATGTAATTTTTGGAAGTTTCAGGGTAA
*
207660 AAATGTAATTTTTGGAAGTTT-AGGGGTTA
1 AAATGTAATTTTTGGAAGTTTCA-GGGTAA
* * *
207689 AAATATAATTTTTGAAAGTTTTAGGGTCAA
1 AAATGTAATTTTTGGAAGTTTCAGGGT-AA
*
207719 AAATGGAATTTTTGGAAG-TTCGAGGGTAA
1 AAATGTAATTTTTGGAAGTTTC-AGGGTAA
207748 AAATGTAATTTT
1 AAATGTAATTTT
207760 CAAACAATTT
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
29 90 0.56
30 67 0.42
31 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
AAATGTAATTTTTGGAAGTTTCAGGGTAA
Found at i:207609 original size:59 final size:59
Alignment explanation
Indices: 207541--207759 Score: 259
Period size: 59 Copynumber: 3.7 Consensus size: 59
207531 ATCGGGGGTT
* * *
207541 AAATGGTAATTTTTGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAGGTTCGAGGGTAA
1 AAAT-GTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAA
** *
207601 AAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
1 AAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAA
* * *
207660 AAATGTAATTTTTGGAAGTTT-AGGGGTTAAAATAT--AATTTTTGAAAGTTTTAGGGTCAA
1 AAATGTAATTTTTGGAAGTTTCA-GGGTCAAAA-ATGGAATTTTTGGAAGTTTGAGGGT-AA
* *
207719 AAATGGAATTTTTGGAAG-TTCGAGGGT-AAAAATGTAATTTT
1 AAATGTAATTTTTGGAAGTTTC-AGGGTCAAAAATGGAATTTT
207760 CAAACAATTT
Statistics
Matches: 140, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
57 2 0.01
58 24 0.17
59 107 0.76
60 7 0.05
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (59 bp):
AAATGTAATTTTTGGAAGTTTCAGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAA
Found at i:207627 original size:88 final size:87
Alignment explanation
Indices: 207541--207759 Score: 280
Period size: 88 Copynumber: 2.5 Consensus size: 87
207531 ATCGGGGGTT
* * *
207541 AAATGGTAATTTTTGAAAGTTTCAGGGTCAAAAATGGAATTTTTGGAGGTTCGA-GGGTAAAAAT
1 AAATGG-AATTTTTGGAAGTTTCAGGGT-AAAAATGTAATTTTTGGAAGTT-GAGGGGTAAAAAT
* *
207605 GTAATTTTTGGAAGTTTTGGGGTCAA
63 ATAATTTTTGAAAGTTTTGGGGT-AA
** * *
207631 AAATGGAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTTAGGGGTTAAAATATA
1 AAATGGAATTTTTGGAAGTTTCAGGGTAAAAATGTAATTTTTGGAAGTTGAGGGGTAAAAATATA
*
207696 ATTTTTGAAAGTTTTAGGGTCAA
66 ATTTTTGAAAGTTTTGGGGT-AA
207719 AAATGGAATTTTTGGAAG-TTCGAGGGTAAAAATGTAATTTT
1 AAATGGAATTTTTGGAAGTTTC-AGGGTAAAAATGTAATTTT
207760 CAAACAATTT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
87 3 0.03
88 88 0.77
89 18 0.16
90 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (87 bp):
AAATGGAATTTTTGGAAGTTTCAGGGTAAAAATGTAATTTTTGGAAGTTGAGGGGTAAAAATATA
ATTTTTGAAAGTTTTGGGGTAA
Found at i:208862 original size:15 final size:15
Alignment explanation
Indices: 208844--208878 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
208834 AGTATCATGT
208844 TTATTATTATTAATA
1 TTATTATTATTAATA
*
208859 TTATTATTATTAATG
1 TTATTATTATTAATA
208874 TTATT
1 TTATT
208879 TATTGTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:209550 original size:6 final size:6
Alignment explanation
Indices: 209522--209574 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
209512 TGACTAGACT
* *
209522 TTTAAA TTTTAAA TTCAAA -TTAAA TTTAAA CTT-AA TTTAAA TTTAAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
209569 CTTAAA
1 TTTAAA
209575 CGAAAAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
5 8 0.21
6 25 0.64
7 6 0.15
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:209551 original size:17 final size:17
Alignment explanation
Indices: 209523--209605 Score: 87
Period size: 17 Copynumber: 4.7 Consensus size: 17
209513 GACTAGACTT
209523 TTAAATTTTAAA-TTCAAA
1 TTAAA-TTTAAACTT-AAA
*
209541 TTAAATTTAAACTTAAT
1 TTAAATTTAAACTTAAA
209558 TTAAATTTAAACTTAAA
1 TTAAATTTAAACTTAAA
**
209575 CGAAAAGTTTAAACTTAAA
1 -TTAAA-TTTAAACTTAAA
*
209594 CTAAATTTAAAC
1 TTAAATTTAAAC
209606 CCAAAATGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
17 31 0.55
18 13 0.23
19 12 0.21
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAAATTTAAACTTAAA
Found at i:210712 original size:201 final size:197
Alignment explanation
Indices: 210009--210799 Score: 871
Period size: 201 Copynumber: 3.9 Consensus size: 197
209999 CATTCGCATT
** * * * * * * *
210009 ACTTGTTTTGATCCACTTCTCTGTGTTTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTAGCT
1 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAGTATCT
* * *
210074 AATCAGGAAGCTAACCTTTTTATTGCTTTGCCCTGCTTCTAAGTATCTCATCAGGAAGCTCGGGG
66 CATCAGGAAGCTAA--TTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCATCAGGAAGCT-GGGG
* * *
210139 -TCAAAGATTTGTTCGCAT------TGAGTTGGTATACTTCTCTGTATCTCATCAGGATGATGAC
128 TTCAAAGATTTGCTCGCATCGAGCCTGAGTTGATATACTTCTCTGTATCTCATCAGGAAGATGAC
210197 CTCCTC
193 CT-CTC
* *
210203 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGATCCACTTCTCAGTATCT
1 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAGTATCT
*
210268 CATCAGGAAGCTAACCTTTTTATTGCTTCGCCCTACTTCTCAGTATCTCATCAGGAAGCTGGGGT
66 CATCAGGAAGCTAA--TTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGT
* * ** * * * * *
210333 TCAAAGATTTGTTCGCATTGAGTGTGGGTTTGATTTGGTCTTCTTCTCATTATCTTATCAGGAAG
129 TCAAAGATTTGCTCGCATCGAGCCTGAG-TTGATAT--ACTTC-TCT--GTATCTCATCAGGAAG
* *
210398 GTGACCGCATC
188 ATGACCTC-TC
* * * *
210409 GCTTGTTTCAATTCGCTTCTTTGTATCTCATCA-AGAAGACGAATTTGGTTCACTTCTCAGTATC
1 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGA-AAGACGAATTTGGTCCACTTCTCAGTATC
* * *
210473 TCATCAGGAAGCTAACCATTTTGTTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGG
65 TCATCAGGAAGCTAA--TTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCATCAGGAAGCTGGGG
*
210538 TTCGAAGATTTGCTCGCATCGAGCCCTGAGTTGATATACTTCTCTGTATCTCATCAGGAAGATGA
128 TTCAAAGATTTGCTCGCATCGAG-CCTGAGTTGATATACTTCTCTGTATCTCATCAGGAAGATGA
210603 CCATCTC
192 CC-TCTC
* *
210610 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTCGGTCCACTTCTCAGTGTCT
1 ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAGTATCT
* * * ** * *
210675 CATCAAGAAGCTGATTGCCTTACCGCTTTGCCCTGCTTCTCAGTATCTCATCAGGAAGCTGGGAT
66 CATCAGGAAGCTAATT--TTTATTGCTTCGCCCTGCTTCTCAGTATCTCATCAGGAAGCTGGG-G
* ** *
210740 TTGAAA-ATTTGCTTACATCGAGCCCTGAGTTGGTATACTTCTCTGTATCTCATCAGGAAG
128 TTCAAAGATTTGCTCGCATCGAG-CCTGAGTTGATATACTTCTCTGTATCTCATCAGGAAG
210800 CTAACCATTT
Statistics
Matches: 511, Mismatches: 65, Indels: 35
0.84 0.11 0.06
Matches are distributed among these distances:
193 4 0.01
194 130 0.25
199 1 0.00
200 3 0.01
201 185 0.36
202 6 0.01
203 7 0.01
204 7 0.01
205 1 0.00
206 164 0.32
207 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (197 bp):
ACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGAATTTGGTCCACTTCTCAGTATCT
CATCAGGAAGCTAATTTTTATTGCTTCGCCCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTC
AAAGATTTGCTCGCATCGAGCCTGAGTTGATATACTTCTCTGTATCTCATCAGGAAGATGACCTC
TC
Found at i:211776 original size:43 final size:43
Alignment explanation
Indices: 211691--211775 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
211681 TCCTTGGTTC
*
211691 CAAGACGCCTTTTGCGGGTTTTCATCTTGAACCCTTTTTTTTT
1 CAAGACGCCTTTTGCGGGTTTTCATCTTCAACCCTTTTTTTTT
* **
211734 CAAGACGCCCTTTT-CGGGTTTTCTTC-TCAATTCTTTTTTTTT
1 CAAGACG-CCTTTTGCGGGTTTTCATCTTCAACCCTTTTTTTTT
211776 TAGGCGAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 13 0.35
43 18 0.49
44 6 0.16
ACGTcount: A:0.13, C:0.24, G:0.14, T:0.49
Consensus pattern (43 bp):
CAAGACGCCTTTTGCGGGTTTTCATCTTCAACCCTTTTTTTTT
Found at i:221545 original size:96 final size:96
Alignment explanation
Indices: 221368--221552 Score: 268
Period size: 96 Copynumber: 1.9 Consensus size: 96
221358 AAAAAGGATG
* *
221368 TTCGATTATCTCGATTTGAAGAAAGATTGCACCTAGTAAGTTAAGGCGCAAATTTTTAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTGAGAATCGA
* *
221433 AGATAAGGAAACATTGCCTTGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
*
221464 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCGA-AACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTT-GAGAA-TC
*
221528 GAA-ATAAA-AGAATATTGCCTCGATT
64 GAAGATAAAGA-AACATTGCCTCGATT
221553 TTAAAGTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
95 1 0.01
96 73 0.91
97 6 0.08
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTGAGAATCGA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:221870 original size:58 final size:56
Alignment explanation
Indices: 221786--222179 Score: 235
Period size: 58 Copynumber: 6.8 Consensus size: 56
221776 ACCCGGGGGC
* * * *
221786 AAAATGGTAATTTTGGACTTTTGAGGGAAAAATGGTAATTTTGGGAAATTTTGGGGTTT
1 AAAATGG-AATTTTGGA-ATTCGAGGGAAAAAT-GTAATTTTTGGAAATTTTGGGGTTA
* ** * ***** * *
221845 AAAATGGAATTTTAGATATTCGAGGGTAAAACGGTAA--TTT-AAAAAAAACGAGATA
1 AAAATGGAATTTTGGA-ATTCGAGGG-AAAAATGTAATTTTTGGAAATTTTGGGGTTA
* * * *
221900 GAAAATGGAGTTTTTGGATATTCGGGGGTAAAATGGTAATTTTT-GAAAGTTTTGGGGTCA
1 -AAAATGGA-ATTTTGGA-ATTCGAGGGAAAAAT-GTAATTTTTGGAAA-TTTTGGGGTTA
* * * * * *
221960 AAAATGGAATTTTTAGAGGTTCGAGAGTAAAAATGTAATTTTTGGAAGTTTCGGGGCTA
1 AAAATGGAA-TTTTGGA-ATTCGAG-GGAAAAATGTAATTTTTGGAAATTTTGGGGTTA
* * *
222019 AAAATGGAATTTTGGAAGTTC-AGGGGTAAAAATGTATTTTTTGGAAGTTTAGGGGTT-
1 AAAATGGAATTTTGGAA-TTCGA-GGG-AAAAATGTAATTTTTGGAAATTTTGGGGTTA
* * * *
222076 AAAATGGAATTTTTGGAAGTTTG-GGGTAAAAATATATTTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAA-TTTTGGAA-TTCGAGGG-AAAAATGTAATTTTTGGAAATTTTGGGGTTA
* *
222134 AAAATGGAATTTTTAGAAGTTCAAGGGTAAAAATGTAATTTTTGGA
1 AAAATGGAA-TTTTGGAA-TTCGAGGG-AAAAATGTAATTTTTGGA
222180 TAGTTTAGGG
Statistics
Matches: 262, Mismatches: 56, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
55 6 0.02
56 13 0.05
57 62 0.24
58 87 0.33
59 82 0.31
60 12 0.05
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (56 bp):
AAAATGGAATTTTGGAATTCGAGGGAAAAATGTAATTTTTGGAAATTTTGGGGTTA
Found at i:221956 original size:29 final size:30
Alignment explanation
Indices: 221924--222189 Score: 259
Period size: 29 Copynumber: 9.1 Consensus size: 30
221914 TGGATATTCG
* *
221924 GGGGT-AAAATGGTAATTTTTGAAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTA
* * *
221953 GGGGTCAAAAATGG-AATTTTTAG-AGGTTC
1 GGGGT-AAAAATGGTAATTTTTGGAAGTTTA
* *
221982 GAGAGTAAAAAT-GTAATTTTTGGAAGTTTC
1 G-GGGTAAAAATGGTAATTTTTGGAAGTTTA
*
222012 GGGGCTAAAAATGG-AA-TTTTGGAAGTTCA
1 GGGG-TAAAAATGGTAATTTTTGGAAGTTTA
*
222041 GGGGTAAAAAT-GTATTTTTTGGAAGTTTA
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTA
*
222070 GGGGTTAAAATGG-AATTTTTGGAAGTTT-
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTA
* * *
222098 GGGGTAAAAAT-ATATTTTTTGGAAGTTTT
1 GGGGTAAAAATGGTAATTTTTGGAAGTTTA
* *
222127 GGGGTTAAAAATGG-AATTTTTAGAAGTTCA
1 GGGG-TAAAAATGGTAATTTTTGGAAGTTTA
*
222157 AGGGTAAAAAT-GTAATTTTTGGATAGTTTA
1 GGGGTAAAAATGGTAATTTTTGGA-AGTTTA
222187 GGG
1 GGG
222190 ACCTCCAAGA
Statistics
Matches: 195, Mismatches: 26, Indels: 31
0.77 0.10 0.12
Matches are distributed among these distances:
27 1 0.01
28 34 0.17
29 97 0.50
30 55 0.28
31 8 0.04
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (30 bp):
GGGGTAAAAATGGTAATTTTTGGAAGTTTA
Found at i:223951 original size:17 final size:17
Alignment explanation
Indices: 223923--223985 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
223913 GATTAAACTT
223923 TTAAATTTTAAATTCAAA
1 TTAAA-TTTAAATTCAAA
223941 TTAAATTTAAACTT-AAA
1 TTAAATTTAAA-TTCAAA
* * * *
223958 CTAATTTTATACTCAAA
1 TTAAATTTAAATTCAAA
*
223975 ATAAATTTAAA
1 TTAAATTTAAA
223986 AAATTAAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
16 1 0.03
17 28 0.78
18 7 0.19
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAATTCAAA
Found at i:228032 original size:21 final size:21
Alignment explanation
Indices: 228008--228052 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
227998 TTTTGAAGTG
*
228008 ATTTAATAAA-AAAAAATACAA
1 ATTTAA-AAACAAAAAAGACAA
228029 ATTTAAAAACTAAAAAAGACAA
1 ATTTAAAAAC-AAAAAAGACAA
228051 AT
1 AT
228053 AATTAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 6 0.29
22 12 0.57
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
ATTTAAAAACAAAAAAGACAA
Found at i:229990 original size:29 final size:29
Alignment explanation
Indices: 229887--230071 Score: 158
Period size: 29 Copynumber: 6.3 Consensus size: 29
229877 CATTAAAGCT
* *
229887 GGGTCAAATTTGAAATTTT-GAAAACTTTAG
1 GGGTCAAATTTGAATTTTTAG-AAA-TTTAA
** * * **
229917 GGGTCAAATCGGGATTTTT-GGAATGTTTG
1 GGGTCAAATTTGAATTTTTAGAAAT-TTAA
** *** *
229946 GGGTCAAATTCAAATTTCGCGAAAGTTAA
1 GGGTCAAATTTGAATTTTTAGAAATTTAA
* *
229975 GGGTCAAATTTGAATTTTTAAAAATTTGA
1 GGGTCAAATTTGAATTTTTAGAAATTTAA
230004 GGGTCAAATTTGAATTTTTAGAAATTTAA
1 GGGTCAAATTTGAATTTTTAGAAATTTAA
* * *
230033 GGGTTAAATTTGAATTTTTAAAAATTTAG
1 GGGTCAAATTTGAATTTTTAGAAATTTAA
230062 GGGTCAAATT
1 GGGTCAAATT
230072 CAAATTTTCA
Statistics
Matches: 123, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
28 1 0.01
29 103 0.84
30 19 0.15
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (29 bp):
GGGTCAAATTTGAATTTTTAGAAATTTAA
Found at i:230079 original size:58 final size:57
Alignment explanation
Indices: 229942--230088 Score: 195
Period size: 58 Copynumber: 2.5 Consensus size: 57
229932 TTTTGGAATG
* *
229942 TTTGGGGTCAAATTCAAATTTCGCGAAAGTTAAGGGTCAAATTTGAATTTTTAAAAA
1 TTTGGGGTCAAATTCAAATTTTGAGAAAGTTAAGGGTCAAATTTGAATTTTTAAAAA
** * * *
229999 TTTGAGGGTCAAATTTGAATTTTTAGAAATTTAAGGGTTAAATTTGAATTTTTAAAAA
1 TTTG-GGGTCAAATTCAAATTTTGAGAAAGTTAAGGGTCAAATTTGAATTTTTAAAAA
* *
230057 TTTAGGGGTCAAATTCAAATTTTCAAAAAGTT
1 TTT-GGGGTCAAATTCAAATTTTGAGAAAGTT
230089 TGAGAGTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
57 4 0.05
58 71 0.93
59 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (57 bp):
TTTGGGGTCAAATTCAAATTTTGAGAAAGTTAAGGGTCAAATTTGAATTTTTAAAAA
Found at i:231958 original size:39 final size:39
Alignment explanation
Indices: 231911--232100 Score: 172
Period size: 39 Copynumber: 4.8 Consensus size: 39
231901 TCGGTTGGTT
* *
231911 TTCAATTTGCCCTC-TAATTAGGGTCAAAGATTGGATTGC
1 TTCAATTTG-CCTCATAGTTAGGGTAAAAGATTGGATTGC
* * * ** ** *
231950 TTTAATTTGTCTCATGGTCGGGGTAAAAGATCAGATGGTC
1 TTCAATTTGCCTCATAGTTAGGGTAAAAGATTGGATTG-C
231990 TTCAATTTGCCCTC-TAGTTAGGGTAAAAGATTGGATTGC
1 TTCAATTTG-CCTCATAGTTAGGGTAAAAGATTGGATTGC
* * *
232029 TTCAATCTGCCTCATGGTTAGGGTAAAAGATTGGATGGTC
1 TTCAATTTGCCTCATAGTTAGGGTAAAAGATTGGATTG-C
*
232069 TTCAATCTAT-TCTC-TAGTTAGGGTAAAAGATT
1 TTCAAT-T-TGCCTCATAGTTAGGGTAAAAGATT
232101 TGGGGTTGTA
Statistics
Matches: 120, Mismatches: 24, Indels: 13
0.76 0.15 0.08
Matches are distributed among these distances:
38 7 0.06
39 55 0.46
40 51 0.43
41 6 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (39 bp):
TTCAATTTGCCTCATAGTTAGGGTAAAAGATTGGATTGC
Found at i:231998 original size:40 final size:40
Alignment explanation
Indices: 231891--232100 Score: 180
Period size: 40 Copynumber: 5.3 Consensus size: 40
231881 ATAGCCTTAG
* * * **
231891 GGGTAAAAGATCGGTTGGTTTTCAATTTGCCCTC-TAATTA
1 GGGTAAAAGATTGGATGGTCTTCAATTTG-CCTCATGGTTA
* * * * **
231931 GGGTCAAAGATTGGATTG-CTTTAATTTGTCTCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATTTGCCTCATGGTTA
** *
231970 GGGTAAAAGATCAGATGGTCTTCAATTTGCCCTC-TAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATTTG-CCTCATGGTTA
* *
232010 GGGTAAAAGATTGGATTG-CTTCAATCTGCCTCATGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATTTGCCTCATGGTTA
* *
232049 GGGTAAAAGATTGGATGGTCTTCAATCTAT-TCTC-TAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAAT-T-TGCCTCATGGTTA
232089 GGGTAAAAGATT
1 GGGTAAAAGATT
232101 TGGGGTTGTA
Statistics
Matches: 134, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
38 7 0.05
39 55 0.41
40 65 0.49
41 6 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATTTGCCTCATGGTTA
Found at i:232021 original size:79 final size:79
Alignment explanation
Indices: 231890--232100 Score: 287
Period size: 79 Copynumber: 2.7 Consensus size: 79
231880 TATAGCCTTA
* * * * *
231890 GGGGTAAAAGATCGGTTGGTTTTCAATTTGCCCTCTAATTAGGGTCAAAGATTGGATTGCTTTAA
1 GGGGTAAAAGATCGGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
* *
231955 TTTGTCTCATGGTC
66 TCTGCCTCATGGTC
*
231969 GGGGTAAAAGATCAGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
1 GGGGTAAAAGATCGGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
*
232034 TCTGCCTCATGGTT
66 TCTGCCTCATGGTC
* * * ***
232048 AGGGTAAAAGATTGGATGGTCTTCAATCTATTCTCTAGTTAGGGTAAAAGATT
1 GGGGTAAAAGATCGGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATT
232101 TGGGGTTGTA
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 116 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (79 bp):
GGGGTAAAAGATCGGATGGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAA
TCTGCCTCATGGTC
Found at i:232296 original size:50 final size:50
Alignment explanation
Indices: 232157--232289 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
232147 ATCCTTGTGA
* *
232157 CTTCAATCTGCCCCTCTACAACTTTAGGTGAATGAGATTTGCCAATGCGG
1 CTTCAATCTACCCCTCTACAACTTTAGGTGTATGAGATTTGCCAATGCGG
* ** *
232207 CTTCAATCTACCCCTTTACAACTTTAAATGTATGAGATTTGCCATTGCGG
1 CTTCAATCTACCCCTCTACAACTTTAGGTGTATGAGATTTGCCAATGCGG
* *
232257 CTTCAAT-T-CGCTCCTCTACAGCTTTAGGGGTAT
1 CTTCAATCTAC-C-CCTCTACAACTTTAGGTGTAT
232290 AGGATTTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 2 0.03
50 67 0.96
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (50 bp):
CTTCAATCTACCCCTCTACAACTTTAGGTGTATGAGATTTGCCAATGCGG
Found at i:233517 original size:37 final size:37
Alignment explanation
Indices: 233468--233563 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
233458 CAAAATAACA
** *
233468 TCCAAATTTGCGCCCAAAATTGTCGTCGCATGAGCACC
1 TCCAAA-TTGCGCCCAAAATTGTCACCACATGAGCACC
* * * *
233506 TCTAGATTGCGCCCAAAACTGTCACCACATGAGCACT
1 TCCAAATTGCGCCCAAAATTGTCACCACATGAGCACC
*
233543 TCCAAATTGC-ACCAAAATTGT
1 TCCAAATTGCGCCCAAAATTGT
233564 TGCCACAAGA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
36 9 0.19
37 34 0.72
38 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (37 bp):
TCCAAATTGCGCCCAAAATTGTCACCACATGAGCACC
Found at i:233707 original size:26 final size:26
Alignment explanation
Indices: 233677--233726 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
233667 CAAGAATGTT
*
233677 GCTGCATGAACATGTACAAAATTGTC
1 GCTGCATAAACATGTACAAAATTGTC
* *
233703 GCTGCATAAACGTGTCCAAAATTG
1 GCTGCATAAACATGTACAAAATTG
233727 AGCCTAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
GCTGCATAAACATGTACAAAATTGTC
Found at i:237234 original size:37 final size:37
Alignment explanation
Indices: 237182--237283 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
237172 AAAATAACAA
* *
237182 CCAAATTTGCGCCCAAAACTGTTGTCGCATGAGCACCT
1 CCAAA-TTGCACCCAAAACTGTCGTCGCATGAGCACCT
* * * * *
237220 CTAGATTGCACCCAAAACTGTCGCCACATGAGCACTT
1 CCAAATTGCACCCAAAACTGTCGTCGCATGAGCACCT
*
237257 CCAAATTGCA-CCAAAATTGTCGTCGCA
1 CCAAATTGCACCCAAAACTGTCGTCGCA
237284 AGAATATTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 14 0.27
37 35 0.67
38 3 0.06
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (37 bp):
CCAAATTGCACCCAAAACTGTCGTCGCATGAGCACCT
Found at i:249127 original size:30 final size:29
Alignment explanation
Indices: 249093--249296 Score: 146
Period size: 30 Copynumber: 6.8 Consensus size: 29
249083 CATTAAAATT
*
249093 GGGTCAAATTTGAATTTTTGAAAACTTTAA
1 GGGTCAAATTTAAATTTTTGAAAA-TTTAA
* * *
249123 GGGTCAAA-TCAAATTTTTTGGAAAGTTT-G
1 GGGTCAAATTTAAA-TTTTT-GAAAATTTAA
* * *
249152 GAGGTCAAATTGGAATTTTTTGGAAAATTT-G
1 G-GGTCAAATT-TAAATTTTT-GAAAATTTAA
* * *
249183 GGGTTCAAATTCAATTTTTTTGAAAGTTTAA
1 GGG-TCAAATTTAA-ATTTTTGAAAATTTAA
* * *
249214 GGGTTAAATTTAAAATTTTGGAAAATTTAG
1 GGGTCAAATTT-AAATTTTTGAAAATTTAA
*
249244 GGGTCAAATTCAAATTTTTGGAAAATTTAA
1 GGGTCAAATTTAAATTTTT-GAAAATTTAA
* *
249274 -GGTTAAATTTGAATTTTTGAAAA
1 GGGTCAAATTTAAATTTTTGAAAA
249297 GTTTGGGGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.04
29 26 0.18
30 70 0.50
31 38 0.27
32 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (29 bp):
GGGTCAAATTTAAATTTTTGAAAATTTAA
Found at i:249161 original size:60 final size:59
Alignment explanation
Indices: 249094--249305 Score: 236
Period size: 61 Copynumber: 3.5 Consensus size: 59
249084 ATTAAAATTG
* *
249094 GGTCAAATTTGAATTTTTGAAAACTTTAAGGGTCAAA-TCAAATTTTTTGGAAAGTTTGGA
1 GGTCAAATTTGAATTTTTGAAAA-TTTAGGGGTCAAATTCAAATTTTTTGGAAAGTTT-AA
* *
249154 GGTCAAATTGGAATTTTTTGGAAAATTT-GGGGTTCAAATTC-AATTTTTTTGAAAGTTTAA
1 GGTCAAATTTGAA-TTTTT-GAAAATTTAGGGG-TCAAATTCAAATTTTTTGGAAAGTTTAA
* * * *
249214 GGGTTAAATTTAAAATTTTGGAAAATTTAGGGGTCAAATTCAAA-TTTTTGGAAAATTTAA
1 -GGTCAAATTT-GAATTTTTGAAAATTTAGGGGTCAAATTCAAATTTTTTGGAAAGTTTAA
*
249274 GGTTAAATTTGAATTTTTGAAAAGTTT-GGGGT
1 GGTCAAATTTGAATTTTTGAAAA-TTTAGGGGT
249306 TAATTTTTTT
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
58 16 0.12
59 13 0.10
60 46 0.35
61 47 0.36
62 9 0.07
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (59 bp):
GGTCAAATTTGAATTTTTGAAAATTTAGGGGTCAAATTCAAATTTTTTGGAAAGTTTAA
Found at i:253695 original size:23 final size:23
Alignment explanation
Indices: 253666--253711 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
253656 ATACTACCAT
253666 TTTCTAAATAAAATAATAATAAA
1 TTTCTAAATAAAATAATAATAAA
* *
253689 TTTCTAAGTAAAATATTAATAAA
1 TTTCTAAATAAAATAATAATAAA
253712 ATAATATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
TTTCTAAATAAAATAATAATAAA
Found at i:254783 original size:19 final size:18
Alignment explanation
Indices: 254761--254818 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
254751 TTATTTGTTA
254761 TTTTTTATGCTATTTATAT
1 TTTTTTATGC-ATTTATAT
* *
254780 TTTTTTCTTCATTTA-AT
1 TTTTTTATGCATTTATAT
* *
254797 TTTATTTATTCATTGATAT
1 TTT-TTTATGCATTTATAT
254816 TTT
1 TTT
254819 ATTTGTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 15 0.45
19 13 0.39
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTATGCATTTATAT
Found at i:254793 original size:18 final size:19
Alignment explanation
Indices: 254772--254831 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
254762 TTTTTATGCT
*
254772 ATTTATATTTT-TTTCTTC
1 ATTTATATTTTATTTATTC
254790 ATTTA-ATTTTATTTATTC
1 ATTTATATTTTATTTATTC
* *
254808 ATTGATATTTTATTTGTT-
1 ATTTATATTTTATTTATTC
254826 ATTTAT
1 ATTTAT
254832 TTGTATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.14
18 20 0.56
19 11 0.31
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTATATTTTATTTATTC
Found at i:269707 original size:28 final size:29
Alignment explanation
Indices: 269633--269708 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
269623 ATTTTCGAGG
*
269633 AATTTGAGGGTCAAAATTGAAATTTTTGGAA
1 AATTTGA-GGTCAAAA-TGAAACTTTTGGAA
*
269664 AATTTG-GGATTAAAAT-AAACTTTTGGAA
1 AATTTGAGG-TCAAAATGAAACTTTTGGAA
*
269692 AATTTGAGGTCGAAATG
1 AATTTGAGGTCAAAATG
269709 TGATTTTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
28 22 0.58
29 5 0.13
30 5 0.13
31 6 0.16
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.34
Consensus pattern (29 bp):
AATTTGAGGTCAAAATGAAACTTTTGGAA
Found at i:269738 original size:30 final size:30
Alignment explanation
Indices: 269656--270035 Score: 377
Period size: 30 Copynumber: 12.9 Consensus size: 30
269646 AAATTGAAAT
*
269656 TTTTGGAAAA-TTT--GGGATTAAAAT-AAA
1 TTTTGGAAAAGTTTAAGGG-TTAAAATGTAA
* ** *
269683 CTTTTGGAAAA-TTTGA-GGTCGAAATGTGA
1 -TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* *
269712 TTTT-GAAGAACTTTAGGGGTTAAAATGTAA
1 TTTTGGAA-AAGTTTAAGGGTTAAAATGTAA
* *
269742 TTTTAGAGAAGTTT-AGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* *
269771 TTTTAGAGAAGTTTAAGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* * *
269801 TTTT-AAATAAGTTTAGGGGTTAAAATATAA
1 TTTTGGAA-AAGTTTAAGGGTTAAAATGTAA
* *
269831 TTTTGGAAAAGTTTAAGTGTTAAAATATAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
*
269861 TTTTGGAAAAGTTTAGGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
*
269891 TTTTGGAAAATTTTAAGGGTTAAAATGTAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* * *
269921 TTTTGGAAAATTTTAAAGGTTAACATGTAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* *
269951 TTTAGGAAAAGTTT-GGTGGTTAAAATGTAA
1 TTTTGGAAAAGTTTAAG-GGTTAAAATGTAA
* **
269981 TTTTGGAAAATTTTAAGGGTTAAAATACAA
1 TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
* * *
270011 TTTTGGAGAAGCTT-AGGGTCAAAAT
1 TTTTGGAAAAGTTTAAGGGTTAAAAT
270036 ATGATTTTTT
Statistics
Matches: 300, Mismatches: 40, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.01
28 24 0.08
29 45 0.15
30 223 0.74
31 5 0.02
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAAGTTTAAGGGTTAAAATGTAA
Found at i:278884 original size:116 final size:117
Alignment explanation
Indices: 278633--278899 Score: 299
Period size: 116 Copynumber: 2.3 Consensus size: 117
278623 GAGATTAGCT
* * * * *
278633 GATGGTGATCTGCCTCAAGCTCGAGGTAAAAGATCGGATGGCTACAATCTGCCTCAAGGTCGGGA
1 GATGGTAAGCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTACAATCTGCCTCAAGGTCAGGA
* * *
278698 TAAGAGATTGGCTGATGGTGATCTACCTCAAGCTCGGGGTAAGAGATTGGTC
66 TAAGAGATTGGCTGATGATGATCTACCTCAAGCTCGGGGTAAAAGATCGGTC
* * *** **
278750 GATGGTGATCTATACCAAGCTCGGGGTAAAAGATCGGATGGCTGTAATCTGCC-C-AGGCTCAAG
1 GATGGTAAGCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTACAATCTGCCTCAAGG-TC-AG
* * *
278813 G-TAAGAGATTGGCTGATGATGATCTGCCTCAAGCTTGGGGTAAAAGATCGGATG
64 GATAAGAGATTGGCTGATGATGATCTACCTCAAGCTCGGGGTAAAAGATCGG-TC
* *
278867 GCT-GTAAGCTGCCCCAAGCTCGGGGTAAGAGAT
1 GATGGTAAGCTGCCCCAAGCTCGGGGTAAAAGAT
278900 TGGCTAATGG
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
115 3 0.02
116 72 0.57
117 51 0.40
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (117 bp):
GATGGTAAGCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTACAATCTGCCTCAAGGTCAGGA
TAAGAGATTGGCTGATGATGATCTACCTCAAGCTCGGGGTAAAAGATCGGTC
Found at i:279004 original size:39 final size:39
Alignment explanation
Indices: 278500--279448 Score: 463
Period size: 39 Copynumber: 24.3 Consensus size: 39
278490 CCCATAATCA
* * * * * *
278500 GGGTAAAAGATCGAATGGTTGCAATTTGCCCCAAGCTTG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * *
278539 GGGTAAGAGATTGGCT-GATGGTGATCTGCCCCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * * * * *
278578 AGGTAAAAGATCGGATAGCTGCAATTTGCCCCAAGCTTG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * * *
278617 GGGTAAGAGATTAGCT-GATGGTGATCTGCCTCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * ** * *
278656 AGGTAAAAGATCGGATGGCTACAATCTGCCTCAAGGTCG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * * * *
278695 GGATAAGAGATTGGCT-GATGGTGATCTACCTCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * ***
278734 GGGTAAGAGATTGG-TCGATGGTGATCTATACCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * *
278773 GGGTAAAAGATCGGATGGCTGTAATCTG-CCCAGGCTCA
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * * * *
278811 AGGTAAGAGATTGGCT-GATGATGATCTGCCTCAAGCTTG
1 GGGTAAAAGATTGGATGGATG-TAATCTGCCCCAAGCTCG
* * *
278850 GGGTAAAAGATCGGATGGCTGTAAGCTGCCCCAAGCTCG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * *
278889 GGGTAAGAGATTGGCT-AATGGTGATCTGCCCCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * * *
278928 GGGTAAAAGATTGGATGGCTGCAATCTACCCTAAGCTCA
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * *
278967 GGGTAAAAGATCGGATGGATGTAATTTGCCTCAAGCTCA
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * * * * * * *
279006 AGGTAAGACACTAGCT-GATGGTGATCTGCCCTAGGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * * *
279045 GGGTAAAAGATCGGAT-GACTGTAATCTGCACTAGGCTCA
1 GGGTAAAAGATTGGATGGA-TGTAATCTGCCCCAAGCTCG
* ** * * * * * * *
279084 GAGTTTAAGAGTTTGATTGAGGGTGATCTTCCCTAGGCTCG
1 GGGTAAAAGA-TTGGATGGA-TGTAATCTGCCCCAAGCTCG
* * * * *
279125 GGGTAAAAGATAGGATGGTTGCAATCT-ACCCTAGTCTCG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAG-CTCG
* * * * * *** *
279164 GGATAAGAGATTAGCT-GATGGTGATCTGTTTCAGGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * *
279203 GGGTAAGAGATTGGCT-GATGGTGATCTACCCCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * *
279242 AGGTAAAAGATCGGATGGCTGTAATCTGCCCCAAGCTCA
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
* * * * * *
279281 GGGTAAGAGATTGGCT-GATGGTGATCTACCCCAGGATCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * *
279320 GGGT-AAAGATCGGATGGCT-TCAATCTACCCCAAGCTCA
1 GGGTAAAAGATTGGATGGATGT-AATCTGCCCCAAGCTCG
* * * *
279358 GGGTAAGAGATTAG-TTGATGGTGATCTGCCCCAAGCTCG
1 GGGTAAAAGATTGGATGGAT-GTAATCTGCCCCAAGCTCG
* * * *
279397 GGGTAAAAGATCGGATGGCTGCAATCTGCTCCAAGCTCG
1 GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
*
279436 GGGTAAGAGATTG
1 GGGTAAAAGATTG
279449 ACTAATGGTG
Statistics
Matches: 666, Mismatches: 217, Indels: 54
0.71 0.23 0.06
Matches are distributed among these distances:
37 4 0.01
38 71 0.11
39 538 0.81
40 29 0.04
41 24 0.04
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGATGTAATCTGCCCCAAGCTCG
Found at i:279540 original size:155 final size:154
Alignment explanation
Indices: 279203--279524 Score: 376
Period size: 155 Copynumber: 2.1 Consensus size: 154
279193 TTCAGGCTCG
* * * * *
279203 GGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGAGGTAAAAGATCGGATGGCTGTAATC
1 GGGTAAGAGATTAG-TGATCGTAATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGGCTGCAATC
* * * *
279268 TGCCCCAAGCTCAGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGATCGGGGTAAAGATCGG
65 TGCCCCAAGCTCAGGGTAAGAGATTGACTAATGGTGATCTACCCCAGGATCAGGGTAAAGATCGA
* *
279333 ATGGCTTCAATCTACCCCAAGCTCA
130 ATGACTTCAATCTACCCCAAGATCA
* * *
279358 GGGTAAGAGATTAGTTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTGCAATC
1 GGGTAAGAGATTAG-TGATCGTAATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGGCTGCAATC
* * * * * * *
279423 TGCTCCAAGCTCGGGGTAAGAGATTGACTAATGGTGATTTGCCCTAGGCTCAGGGTAAAAGTTCG
65 TGCCCCAAGCTCAGGGTAAGAGATTGACTAATGGTGATCTACCCCAGGATCAGGGT-AAAGATCG
* * **
279488 AATGACTGT-GATCTACCCCATGATTG
129 AATGACT-TCAATCTACCCCAAGATCA
279514 GGGTAAGAGAT
1 GGGTAAGAGAT
279525 CGGAATCTTC
Statistics
Matches: 143, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
155 107 0.75
156 35 0.24
157 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (154 bp):
GGGTAAGAGATTAGTGATCGTAATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGGCTGCAATCT
GCCCCAAGCTCAGGGTAAGAGATTGACTAATGGTGATCTACCCCAGGATCAGGGTAAAGATCGAA
TGACTTCAATCTACCCCAAGATCA
Found at i:279840 original size:48 final size:51
Alignment explanation
Indices: 279779--279898 Score: 133
Period size: 50 Copynumber: 2.4 Consensus size: 51
279769 CGTTGTAGCC
* **
279779 TCAATCTTTCCCATCATGT-TTTTAAGG-ATCGGATTCACCA-TTGCGG-CT
1 TCAACCTTTCCCATCACATCTTTTAAGGTATCGGATTC-CCAGTTGCGGCCT
* *
279827 TCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCAGTTGCGGCCT
1 TCAACCTTTCCCATCACATCTTTTAAGGTATCGGATTCCCAGTTGCGGCCT
* *
279878 T-AACCTTTCCCTTCAAATCTT
1 TCAACCTTTCCCATCACATCTT
279899 CATGGTACCG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
48 16 0.26
49 10 0.16
50 32 0.52
51 3 0.05
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (51 bp):
TCAACCTTTCCCATCACATCTTTTAAGGTATCGGATTCCCAGTTGCGGCCT
Found at i:291950 original size:30 final size:29
Alignment explanation
Indices: 291888--292201 Score: 255
Period size: 30 Copynumber: 10.6 Consensus size: 29
291878 AAAATCAAAC
* *
291888 TTTTGGAAAA-TTT-GAGGTCGAAAATATGA
1 TTTTGGAAAAGTTTAG-GGTC-AAAATGTAA
* *
291917 TTTTGGATAAGTTTAGGGATCAAAATGCAA
1 TTTTGGAAAAGTTTAGGG-TCAAAATGTAA
*
291947 TTTTGGAAAAGTTTAGGGGTAAAAAT-TCAA
1 TTTTGGAAAAGTTTA-GGGTCAAAATGT-AA
* * * *
291977 TTTAGAAAAAGTTTAAGGGTTAAAATATAA
1 TTTTGGAAAAGTTT-AGGGTCAAAATGTAA
* * *
292007 TTTTGGATAAGTTTAGGGTTAAAATATAA
1 TTTTGGAAAAGTTTAGGGTCAAAATGTAA
* * *
292036 TTTTGGAAATGTTTAGGGGTTAAAATGAAA
1 TTTTGGAAAAGTTTA-GGGTCAAAATGTAA
* *
292066 TTTTGGAAAATTTTAAGGGTCAACATGTAA
1 TTTTGGAAAAGTTT-AGGGTCAAAATGTAA
292096 TTTTGGAAAAGTTTAGGGGTCAAAATGTAA
1 TTTTGGAAAAGTTTA-GGGTCAAAATGTAA
*
292126 TTTTGGAAAA-TTGTAAGGGCCGAAAA-GTAA
1 TTTTGGAAAAGTT-T-AGGGTC-AAAATGTAA
* * * *
292156 TTTTGGAGAAGCTTA-GGTCAAAATATGAT
1 TTTTGGAAAAGTTTAGGGTCAAAATGT-AA
*
292185 TTTTGG-AATGTTTAGGG
1 TTTTGGAAAAGTTTAGGG
292202 ACCTTCAAGG
Statistics
Matches: 235, Mismatches: 33, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.02
28 9 0.04
29 50 0.21
30 157 0.67
31 15 0.06
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
TTTTGGAAAAGTTTAGGGTCAAAATGTAA
Found at i:292039 original size:119 final size:119
Alignment explanation
Indices: 291908--292132 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 119
291898 TTTGAGGTCG
* * *
291908 AAAATATGATTTTGGATAA-GTTTAGGGATCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAA
1 AAAATATAATTTTGGA-AATGTTTAGGGATCAAAATGAAATTTTGGAAAAGTTTAAGGGTAAAAA
*
291972 T-TCAATTTAGAAAAAGTTTAAGGGTTAAAATATAATTTTGGATAAGTTTAGGGTT
65 TGT-AATTTAGAAAAAGTTTAAGGGTCAAAATATAATTTTGGATAAGTTTAGGGTT
* * * * *
292027 AAAATATAATTTTGGAAATGTTTAGGGGTTAAAATGAAATTTTGGAAAATTTTAAGGGTCAACAT
1 AAAATATAATTTTGGAAATGTTTAGGGATCAAAATGAAATTTTGGAAAAGTTTAAGGGTAAAAAT
* * * *
292092 GTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTTTGGA
66 GTAATTTAGAAAAAGTTTAAGGGTCAAAATATAATTTTGGA
292133 AAATTGTAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 2 0.02
119 88 0.97
120 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.36
Consensus pattern (119 bp):
AAAATATAATTTTGGAAATGTTTAGGGATCAAAATGAAATTTTGGAAAAGTTTAAGGGTAAAAAT
GTAATTTAGAAAAAGTTTAAGGGTCAAAATATAATTTTGGATAAGTTTAGGGTT
Found at i:292100 original size:149 final size:148
Alignment explanation
Indices: 291916--292201 Score: 357
Period size: 149 Copynumber: 1.9 Consensus size: 148
291906 CGAAAATATG
*
291916 ATTTTGGATAAGTTTAGGGATCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAAT-TCAATTT
1 ATTTTGGAAAAGTTTAGGGATCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAATGT-AATTT
** * * *
291980 AGAAAAAGTT-TAAGGG-TTAAAATATAATTTTGGATAAGTTTAGGGTTAAAATAT-AATTTTGG
65 AGAAAAA-TTGTAAGGGCCGAAAA-ATAATTTTGGAGAAGCTTA-GGTCAAAATATGAATTTTGG
292042 AAATGTTTAGGGGTTAAAATGAA
127 -AATGTTTAGGGGTTAAAATGAA
* * * *
292065 ATTTTGGAAAATTTTAAGGG-TCAACATGTAATTTTGGAAAAGTTTAGGGGTCAAAATGTAATTT
1 ATTTTGGAAAAGTTT-AGGGATCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAATGTAATTT
* * * *
292129 TGGAAAATTGTAAGGGCCGAAAAGTAATTTTGGAGAAGCTTAGGTCAAAATATGATTTTTGGAAT
65 AGAAAAATTGTAAGGGCCGAAAAATAATTTTGGAGAAGCTTAGGTCAAAATATGAATTTTGGAAT
292194 GTTTAGGG
130 GTTTAGGG
292202 ACCTTCAAGG
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
148 23 0.19
149 86 0.73
150 9 0.08
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (148 bp):
ATTTTGGAAAAGTTTAGGGATCAAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAATGTAATTTA
GAAAAATTGTAAGGGCCGAAAAATAATTTTGGAGAAGCTTAGGTCAAAATATGAATTTTGGAATG
TTTAGGGGTTAAAATGAA
Found at i:292143 original size:60 final size:59
Alignment explanation
Indices: 291818--292179 Score: 272
Period size: 60 Copynumber: 6.1 Consensus size: 59
291808 ATTCAAGATG
* * * * * ** *
291818 AAAACGTAATTTTCGAGGAATTTGAGGGTCAAAATTGAAATTTTTGGAAAA-TTT-GGTATT
1 AAAATGTAATTTTGGA-AAATTTAAGGGTCAAAA-TGTAA-TTTTGGAAAAGTTTAGGGGTC
** * * * * *
291878 AAAATCAAACTTTTGGAAAATTTGA-GGTCGAAAATATGATTTTGGATAAGTTTAGGGATC
1 AAAATGTAA-TTTTGGAAAATTTAAGGGTC-AAAATGTAATTTTGGAAAAGTTTAGGGGTC
* * * * * * *
291938 AAAATGCAATTTTGGAAAAGTTTAGGGGTAAAAAT-TCAATTTAGAAAAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAAAA-TTTAAGGGTCAAAATGT-AATTTTGGAAAAGTTTAGGGGTC
* * * * * *
291998 AAAATATAATTTTGGATAAGTTT-AGGGTTAAAATATAATTTTGGAAATGTTTAGGGGTT
1 AAAATGTAATTTTGGA-AAATTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* *
292057 AAAATGAAATTTTGGAAAATTTTAAGGGTCAACATGTAATTTTGGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTGGAAAA-TTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* * *
292117 AAAATGTAATTTTGGAAAATTGTAAGGGCCGAAAA-GTAATTTTGGAGAAGCTTA--GGTC
1 AAAATGTAATTTTGGAAAATT-TAAGGGTC-AAAATGTAATTTTGGAAAAGTTTAGGGGTC
292175 AAAAT
1 AAAAT
292180 ATGATTTTTG
Statistics
Matches: 244, Mismatches: 45, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
58 20 0.08
59 67 0.27
60 143 0.59
61 14 0.06
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.34
Consensus pattern (59 bp):
AAAATGTAATTTTGGAAAATTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTC
Found at i:299022 original size:20 final size:21
Alignment explanation
Indices: 298999--299052 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 21
298989 GTTTGCTATT
298999 TTTGACCAATGTTTG-TAATC
1 TTTGACCAATGTTTGATAATC
* * *
299019 TTTGGCCGATG-TTGATACTC
1 TTTGACCAATGTTTGATAATC
299039 -TT-ACCAATGTTTGA
1 TTTGACCAATGTTTGA
299053 CATCTTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 5 0.19
19 9 0.33
20 13 0.48
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (21 bp):
TTTGACCAATGTTTGATAATC
Found at i:302012 original size:36 final size:36
Alignment explanation
Indices: 301959--302120 Score: 141
Period size: 36 Copynumber: 4.5 Consensus size: 36
301949 CTTACATCTT
* *
301959 GATTAGAGCGTAATGCTATGAGAGTGCATATGTCTC
1 GATTAGAGCGTAATGCTATGAGATTGCATACGTCTC
* * * * *
301995 GATTAGAGCATATTGCTATGTA-ATTGCTTACATATC
1 GATTAGAGCGTAATGCTATG-AGATTGCATACGTCTC
* *
302031 GGTTAGAGCGTAATGCTATGTGATTGCATACGTCTC
1 GATTAGAGCGTAATGCTATGAGATTGCATACGTCTC
* * *
302067 -AGTTAGAGCGTATTGCTATGTA-ATTGCTTACATCTC
1 GA-TTAGAGCGTAATGCTATG-AGATTGCATACGTCTC
** *
302103 GGCTAGAGAGTAATGCTA
1 GATTAGAGCGTAATGCTA
302121 AGTGACTACT
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
36 97 0.99
37 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (36 bp):
GATTAGAGCGTAATGCTATGAGATTGCATACGTCTC
Found at i:302066 original size:72 final size:72
Alignment explanation
Indices: 301961--302150 Score: 247
Period size: 72 Copynumber: 2.6 Consensus size: 72
301951 TACATCTTGA
* *
301961 TTAGAGCGTAATGCTATGAGAGTGCATATGTCTC-GATTAGAGCATATTGCTATGTAATTGCTTA
1 TTAGAGCGTAATGCTATGTGAGTGCATACGTCTCAG-TTAGAGCATATTGCTATGTAATTGCTTA
302025 CATATCGG
65 CATATCGG
* *
302033 TTAGAGCGTAATGCTATGTGATTGCATACGTCTCAGTTAGAGCGTATTGCTATGTAATTGCTTAC
1 TTAGAGCGTAATGCTATGTGAGTGCATACGTCTCAGTTAGAGCATATTGCTATGTAATTGCTTAC
*
302098 ATCTCGG
66 ATATCGG
* * * * * * * *
302105 CTAGAGAGTAATGCTAAGTGACTACTTATGTCTCAGTTAGGGCATA
1 TTAGAGCGTAATGCTATGTGAGTGCATACGTCTCAGTTAGAGCATA
302151 AGGTCATTTC
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
72 102 0.99
73 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (72 bp):
TTAGAGCGTAATGCTATGTGAGTGCATACGTCTCAGTTAGAGCATATTGCTATGTAATTGCTTAC
ATATCGG
Found at i:303330 original size:25 final size:22
Alignment explanation
Indices: 303300--303344 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 22
303290 CTTTTATTAT
303300 ATAAAAGATATATGTGTATATATCA
1 ATAAAA-A-ATATGTG-ATATATCA
303325 ATAAAAAATATGTGATATAT
1 ATAAAAAATATGTGATATAT
303345 GTAGGGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 1 0.05
25 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (22 bp):
ATAAAAAATATGTGATATATCA
Found at i:306822 original size:25 final size:25
Alignment explanation
Indices: 306794--306939 Score: 89
Period size: 25 Copynumber: 5.7 Consensus size: 25
306784 ATATTATGAA
*
306794 ATCTGGCTCATAAGAGCGTTATTCT
1 ATCTGGCTCATAAGAGCGATATTCT
* *
306819 ATCTGGCTCGA-AAGAGTGAAATTCT
1 ATCTGGCTC-ATAAGAGCGATATTCT
* * *
306844 GTTTGGCTCATATGAGCGATATTCT
1 ATCTGGCTCATAAGAGCGATATTCT
* * *
306869 GTCTGGATCGA-AAGAGCAATATTCT
1 ATCTGGCTC-ATAAGAGCGATATTCT
** * *
306894 GAATTCTGGCTTGTAAGAGTGCTATTCT
1 --A-TCTGGCTCATAAGAGCGATATTCT
* *
306922 GTCTAGGCTCATTAGAGC
1 ATCT-GGCTCATAAGAGC
306940 TAAATTCTGG
Statistics
Matches: 89, Mismatches: 24, Indels: 15
0.70 0.19 0.12
Matches are distributed among these distances:
24 1 0.01
25 60 0.67
26 11 0.12
28 17 0.19
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (25 bp):
ATCTGGCTCATAAGAGCGATATTCT
Found at i:306893 original size:50 final size:50
Alignment explanation
Indices: 306797--306894 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
306787 TTATGAAATC
* * *
306797 TGGCTCATAAGAGCGTTATTCTATCTGGCTCGAAAGAGTGAAATTCTGTT
1 TGGCTCATAAGAGCGATATTCTATCTGGATCGAAAGAGTCAAATTCTGTT
* *
306847 TGGCTCATATGAGCGATATTCTGTCTGGATCGAAAGAG-CAATATTCTG
1 TGGCTCATAAGAGCGATATTCTATCTGGATCGAAAGAGTCAA-ATTCTG
306895 AATTCTGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (50 bp):
TGGCTCATAAGAGCGATATTCTATCTGGATCGAAAGAGTCAAATTCTGTT
Done.