Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 78 of 100
Found at i:14014309 original size:12 final size:12
Alignment explanation
Indices: 14014292--14014316 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14014282 TAGATTAGAT
14014292 TTACATTTTGAA
1 TTACATTTTGAA
14014304 TTACATTTTGAA
1 TTACATTTTGAA
14014316 T
1 T
14014317 CATATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTACATTTTGAA
Found at i:14018663 original size:3 final size:3
Alignment explanation
Indices: 14018655--14018688 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
14018645 TATTTTAGTT
14018655 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14018689 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:14019673 original size:16 final size:15
Alignment explanation
Indices: 14019652--14019681 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14019642 TAAATCGATC
14019652 CGAACCGTTGGATTGT
1 CGAACCGTT-GATTGT
14019668 CGAACCGTTGATTG
1 CGAACCGTTGATTG
14019682 AACCGTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (15 bp):
CGAACCGTTGATTGT
Found at i:14020105 original size:18 final size:17
Alignment explanation
Indices: 14020072--14020113 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
14020062 ATTAAAAAGG
*
14020072 ATTTTAAACAAAAAAAC
1 ATTTTAAACAAAAAAAA
14020089 ATTTTAAA-ATAATAAAAA
1 ATTTTAAACA-AA-AAAAA
14020107 ATTTTAA
1 ATTTTAA
14020114 TTAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTTTAAACAAAAAAAA
Found at i:14020259 original size:13 final size:13
Alignment explanation
Indices: 14020241--14020276 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
14020231 CTAAACTCCC
14020241 AAACCCTAAACTT
1 AAACCCTAAACTT
14020254 AAACCCTAAACTT
1 AAACCCTAAACTT
**
14020267 TTACCCTAAA
1 AAACCCTAAA
14020277 ATTTTTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:14022463 original size:18 final size:18
Alignment explanation
Indices: 14022440--14022475 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14022430 CCAAGATCAT
14022440 ACAAGTAGAGGTTGAAGA
1 ACAAGTAGAGGTTGAAGA
14022458 ACAAGTAGAGGTTGAAGA
1 ACAAGTAGAGGTTGAAGA
14022476 GATAGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.33, T:0.17
Consensus pattern (18 bp):
ACAAGTAGAGGTTGAAGA
Found at i:14025469 original size:18 final size:18
Alignment explanation
Indices: 14025446--14025489 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
14025436 AAGGGTCCAA
14025446 AAAGAAGATAGCAACTTT
1 AAAGAAGATAGCAACTTT
14025464 AAAGAAGATAGCAACTTT
1 AAAGAAGATAGCAACTTT
14025482 AAAGAAGA
1 AAAGAAGA
14025490 AAGAGCGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (18 bp):
AAAGAAGATAGCAACTTT
Found at i:14031660 original size:10 final size:10
Alignment explanation
Indices: 14031645--14031705 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
14031635 TATTTTGCTT
14031645 AAAAAAAAAC
1 AAAAAAAAAC
* *
14031655 AAAAAAATAT
1 AAAAAAAAAC
*
14031665 AAAAAGATAAAA
1 AAAAA-A-AAAC
14031677 AAAACAAAAAC
1 AAAA-AAAAAC
**
14031688 AAAAAAAATG
1 AAAAAAAAAC
14031698 AAAAAAAA
1 AAAAAAAA
14031706 TGAGAAAGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
10 25 0.61
11 8 0.20
12 7 0.17
13 1 0.02
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.07
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:14031685 original size:16 final size:15
Alignment explanation
Indices: 14031645--14031695 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
14031635 TATTTTGCTT
14031645 AAAA-AAAAACAAAA
1 AAAACAAAAACAAAA
* *
14031659 AAATATAAAAAGATAAAA
1 AAA-A-CAAAA-ACAAAA
14031677 AAAACAAAAACAAAA
1 AAAACAAAAACAAAA
14031692 AAAA
1 AAAA
14031696 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 4 0.13
17 5 0.17
18 8 0.27
ACGTcount: A:0.86, C:0.06, G:0.02, T:0.06
Consensus pattern (15 bp):
AAAACAAAAACAAAA
Found at i:14031695 original size:27 final size:26
Alignment explanation
Indices: 14031645--14031705 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
14031635 TATTTTGCTT
*
14031645 AAAAAAAAACAAAAAAATATAAAAAG
1 AAAAAAAAACAAAAAAATAAAAAAAG
*
14031671 ATAAAAAAAACAAAAACAA-AAAAAATG
1 A-AAAAAAAACAAAAA-AATAAAAAAAG
14031698 AAAAAAAA
1 AAAAAAAA
14031706 TGAGAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 8 0.26
27 21 0.68
28 2 0.06
ACGTcount: A:0.85, C:0.05, G:0.03, T:0.07
Consensus pattern (26 bp):
AAAAAAAAACAAAAAAATAAAAAAAG
Found at i:14032862 original size:73 final size:71
Alignment explanation
Indices: 14032737--14032950 Score: 275
Period size: 73 Copynumber: 2.9 Consensus size: 71
14032727 TCTTATATAG
* * * *
14032737 TTCTTCGACTTGCGGTTCAGTCCTAGTCATCTTTGATCTTTGGCTTGTGGTTTAATCTCGATCAT
1 TTCTT-GACTTACGGTTCAGTCC-AGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
14032802 TTCATTAA
64 TTCATTAA
*
14032810 TTTCTTGACTTACGGTTCAGTCTCAGTTATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
1 -TTCTTGACTTACGGTTCAGTC-CAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
14032875 TTCATTAA
64 TTCATTAA
* * * * * *
14032883 TTCTCTGACTTACGATTTAGTCCCAGTCATCTTCATTTTTTGACTCGTGGTTTAATCCCGATCAT
1 TTCT-TGACTTACGGTTCAGT-CCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCAT
14032948 TTC
64 TTC
14032951 TATAGTTTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
72 4 0.03
73 114 0.91
74 7 0.06
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (71 bp):
TTCTTGACTTACGGTTCAGTCCAGTCATCTTTAATCTTTGGCTCGTGGTTTAATCCCGATCATTT
CATTAA
Found at i:14033009 original size:36 final size:34
Alignment explanation
Indices: 14032905--14033111 Score: 164
Period size: 36 Copynumber: 5.7 Consensus size: 34
14032895 CGATTTAGTC
* * *
14032905 CCAGTCATCTTCATTTTTTGACTCGTGGTTTAAT
1 CCAGTCATTTTTATTTTTTTACTCGTGGTTTAAT
* *
14032939 CCCGATCATTTCTATAGTTTTTTTGACTCATGGTTTAAT
1 CCAG-TCATTT-T-TA-TTTTTTT-ACTCGTGGTTTAAT
*
14032978 CTCAGTCGTTTTTATTTTTCTTACTCGTGGTTTAAT
1 C-CAGTCATTTTTATTTTT-TTACTCGTGGTTTAAT
* * *
14033014 CCCGATCATTTTTATAGTTTTCCTGACTCATGGTTTAAT
1 CCAG-TCATTTTTAT--TTTT--TTACTCGTGGTTTAAT
* *
14033053 CCTAGTCGTTTTTATTTTTCTCACTCGTGGTTTAAT
1 CC-AGTCATTTTTATTTTT-TTACTCGTGGTTTAAT
*
14033089 CTCAATCA-TTTTATTTTTTTACT
1 C-CAGTCATTTTTATTTTTTTACT
14033112 TGTTAACGTC
Statistics
Matches: 141, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
34 7 0.05
35 17 0.12
36 48 0.34
37 10 0.07
38 11 0.08
39 45 0.32
40 3 0.02
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.51
Consensus pattern (34 bp):
CCAGTCATTTTTATTTTTTTACTCGTGGTTTAAT
Found at i:14033023 original size:75 final size:74
Alignment explanation
Indices: 14032853--14033099 Score: 293
Period size: 75 Copynumber: 3.3 Consensus size: 74
14032843 TAATCTTTGG
* * * * * * * *
14032853 CTCGTGGTTTAATCCCGATCATTTC-ATTA-ATTCTCTGACTTACGATTTAGTCCCAGTCATCTT
1 CTCGTGGTTTAATCCCGATCATTTCTA-TAGTTTTTCTGACTCATGGTTTAAT-CCAGTCGTTTT
* *
14032916 CATTTTT-TGA
64 TATTTTTCTCA
*
14032926 CTCGTGGTTTAATCCCGATCATTTCTATAGTTTTTTTGACTCATGGTTTAATCTCAGTCGTTTTT
1 CTCGTGGTTTAATCCCGATCATTTCTATAGTTTTTCTGACTCATGGTTTAATC-CAGTCGTTTTT
*
14032991 ATTTTTCTTA
65 ATTTTTCTCA
* *
14033001 CTCGTGGTTTAATCCCGATCATTTTTATAGTTTTCCTGACTCATGGTTTAATCCTAGTCGTTTTT
1 CTCGTGGTTTAATCCCGATCATTTCTATAGTTTTTCTGACTCATGGTTTAATCC-AGTCGTTTTT
14033066 ATTTTTCTCA
65 ATTTTTCTCA
* *
14033076 CTCGTGGTTTAATCTCAATCATTT
1 CTCGTGGTTTAATCCCGATCATTT
14033100 TATTTTTTTA
Statistics
Matches: 152, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
73 28 0.18
74 31 0.20
75 93 0.61
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (74 bp):
CTCGTGGTTTAATCCCGATCATTTCTATAGTTTTTCTGACTCATGGTTTAATCCAGTCGTTTTTA
TTTTTCTCA
Found at i:14033300 original size:101 final size:101
Alignment explanation
Indices: 14033148--14033462 Score: 361
Period size: 101 Copynumber: 3.1 Consensus size: 101
14033138 TTTAATTTCA
* * *
14033148 ATCTTTTTATTCTCTGATTCGCGGTTCAATCCCGATCTCTTTAATTCAAAGTCGCAGTTTAATCT
1 ATCTCTTTATTCTCTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCGCAGTTTAATCT
14033213 CGATTGTTG-TATCTTTTGACTCACTGTTTAATCCCG
66 CGATTGTTGTTATCTTTTGACTC-CTGTTTAATCCCG
* * * * *
14033249 ATCTTTTTATT-TTTCGATTTGTGGTTCAATCTCGATC-CATTTAATTCAAAGTCGTA-ATTAAT
1 ATCTCTTTATTCTCT-GATTCGTGGTTCAATCTCGATCTC-TTTAATTCAAAGTCGCAGTTTAAT
* * * *
14033311 CTTGATTGTTGTTATCCTTTGACTCGC-GATTTAATCTCA
64 CTCGATTGTTGTTATCTTTTGACTC-CTG-TTTAATCCCG
* * * *
14033350 ATCTCTTTATTCTCTGATTCGTGATTCAATCTCGATCTCTTTAATTTAAAATCACAGTTTAATCT
1 ATCTCTTTATTCTCTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCGCAGTTTAATCT
* * *
14033415 CGATTGTTGTTATCTTCTGACTCGTGGTTTAATCCTG
66 CGATTGTTGTTATCTTTTGACTCCT-GTTTAATCCCG
*
14033452 GTCTCTTTATT
1 ATCTCTTTATT
14033463 TTCTTACTTG
Statistics
Matches: 177, Mismatches: 28, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
100 19 0.11
101 110 0.62
102 47 0.27
103 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (101 bp):
ATCTCTTTATTCTCTGATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCGCAGTTTAATCT
CGATTGTTGTTATCTTTTGACTCCTGTTTAATCCCG
Found at i:14033910 original size:3 final size:3
Alignment explanation
Indices: 14033902--14033938 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14033892 CATTTTAGTT
14033902 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14033939 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:14034013 original size:12 final size:11
Alignment explanation
Indices: 14033980--14034006 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14033970 AATTAAATTT
14033980 AAAAAAGAAAA
1 AAAAAAGAAAA
14033991 AAAAAAGAAAA
1 AAAAAAGAAAA
14034002 AAAAA
1 AAAAA
14034007 GGGAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:14034787 original size:28 final size:28
Alignment explanation
Indices: 14034756--14034836 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
14034746 AACATAGGGG
* *
14034756 CAAAATGACGTCGTTTTGAGCATATGAT
1 CAAAACGACGTCGTTTTGAGCATAGGAT
*
14034784 CAAAACGACGTCGTTTTGAGGATAGGAT
1 CAAAACGACGTCGTTTTGAGCATAGGAT
* **
14034812 CAAAACGACGTTGTTTCAAGCATAG
1 CAAAACGACGTCGTTTTGAGCATAG
14034837 AAGATTCGCG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (28 bp):
CAAAACGACGTCGTTTTGAGCATAGGAT
Found at i:14035146 original size:3 final size:3
Alignment explanation
Indices: 14035138--14035192 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
14035128 AATTATTTTT
*
14035138 TAA TAA TAA TAA -AA TGAA -AA TAA TATA GAA TAA TAA CTAA -AA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TAA TAA TAA -TAA TAA TAA
14035183 TAA TAA TAA T
1 TAA TAA TAA T
14035193 GAAATAATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
2 6 0.14
3 31 0.70
4 7 0.16
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:14035183 original size:12 final size:11
Alignment explanation
Indices: 14035138--14035188 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
14035128 AATTATTTTT
14035138 TAATAATAATAA
1 TAATAA-AATAA
14035150 -AATGAAAATAA
1 TAAT-AAAATAA
*
14035161 T-ATAGAATAA
1 TAATAAAATAA
14035171 TAACTAAAATAA
1 TAA-TAAAATAA
14035183 TAATAA
1 TAATAA
14035189 TAATGAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
10 7 0.21
11 14 0.42
12 12 0.36
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:14035199 original size:17 final size:17
Alignment explanation
Indices: 14035139--14035200 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
14035129 ATTATTTTTT
14035139 AATAATAATAA-AATGAA
1 AATAATAATAATAATG-A
*
14035156 AATAATATAGAATAATAACTAA
1 AAT-A-AT--AATAATAA-TGA
14035178 AATAATAATAATAATGA
1 AATAATAATAATAATGA
14035195 AATAAT
1 AATAAT
14035201 CTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
17 11 0.30
18 9 0.24
19 2 0.05
20 2 0.05
21 6 0.16
22 6 0.16
23 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
AATAATAATAATAATGA
Found at i:14035360 original size:20 final size:19
Alignment explanation
Indices: 14035335--14035371 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14035325 AAGTTTTCAT
*
14035335 AAAAAAAAAGATTTTAAAC
1 AAAAAAAAACATTTTAAAC
14035354 AAAAAAAAACATTTTAAA
1 AAAAAAAAACATTTTAAA
14035372 ATAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAAAAAAACATTTTAAAC
Found at i:14035380 original size:20 final size:19
Alignment explanation
Indices: 14035336--14035386 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
14035326 AGTTTTCATA
14035336 AAAAAAAAGATTTTAAACA-
1 AAAAAAAA-ATTTTAAACAT
14035355 AAAAAAAACATTTTAAA-AT
1 AAAAAAAA-ATTTTAAACAT
14035374 AATAAAAAAATTT
1 AA-AAAAAAATTT
14035387 AATTAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 22 0.76
20 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAAAAAATTTTAAACAT
Found at i:14035442 original size:21 final size:22
Alignment explanation
Indices: 14035418--14035459 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
14035408 TCTTAAATTA
14035418 ATTTTAAAAT-TTTTTTTTATT
1 ATTTTAAAATGTTTTTTTTATT
14035439 ATTTTAAAATGTTTTTTTTAT
1 ATTTTAAAATGTTTTTTTTAT
14035460 GAAAACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTAAAATGTTTTTTTTATT
Found at i:14035889 original size:19 final size:20
Alignment explanation
Indices: 14035865--14035902 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14035855 TCACTAACAA
14035865 TTATTTT-TTATAAAGATTG
1 TTATTTTATTATAAAGATTG
*
14035884 TTATTTTATTTTAAAGATT
1 TTATTTTATTATAAAGATT
14035903 ATTGTGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (20 bp):
TTATTTTATTATAAAGATTG
Found at i:14040772 original size:18 final size:19
Alignment explanation
Indices: 14040733--14040780 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
14040723 AATTTAATTC
14040733 AAAATTT-TATTTTATTAAT
1 AAAATTTAT-TTTTATTAAT
*
14040752 AAAATTTATTTTTATT-TT
1 AAAATTTATTTTTATTAAT
*
14040770 AAAATATATTT
1 AAAATTTATTT
14040781 AAAAATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 14 0.54
20 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AAAATTTATTTTTATTAAT
Found at i:14044750 original size:17 final size:17
Alignment explanation
Indices: 14044716--14044753 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
14044706 GAATATCAAC
*
14044716 TGAATTATTGCACCACT
1 TGAATTATTACACCACT
14044733 TGAATTATTAC-CCTACT
1 TGAATTATTACACC-ACT
14044750 TGAA
1 TGAA
14044754 GACAAGCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (17 bp):
TGAATTATTACACCACT
Found at i:14046198 original size:20 final size:19
Alignment explanation
Indices: 14046153--14046208 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
14046143 ACTTGAAATT
* *
14046153 CAAATAATAATATTTTTTT
1 CAAAAAATAATATTTTTTG
*
14046172 TACAAAAATAATATTTCTTTG
1 CA-AAAAATAATATTT-TTTG
14046193 CAAAAAATAATTATTT
1 CAAAAAATAA-TATTT
14046209 GAATTCCCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 20 0.67
21 9 0.30
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
CAAAAAATAATATTTTTTG
Found at i:14052609 original size:159 final size:159
Alignment explanation
Indices: 14052320--14052639 Score: 631
Period size: 159 Copynumber: 2.0 Consensus size: 159
14052310 TGGGCCTAAG
14052320 TTTTAAGAGAAGAGAAAGCAAAGAAGATAGTCATAACATGAAAATACTATAAATTTCCTATTGAC
1 TTTTAAGAGAAGAGAAAGCAAAGAAGATAGTCATAACATGAAAATACTATAAATTTCCTATTGAC
*
14052385 TCTAATCCTCTTATGAAAAAACTATAATTAAATGATCATTTATTATGTTGGTTTTCTTTCAAACA
66 TCTAATCCTCTCATGAAAAAACTATAATTAAATGATCATTTATTATGTTGGTTTTCTTTCAAACA
14052450 TATTTTGAGATATTGTATTTTACTAATAT
131 TATTTTGAGATATTGTATTTTACTAATAT
14052479 TTTTAAGAGAAGAGAAAGCAAAGAAGATAGTCATAACATGAAAATACTATAAATTTCCTATTGAC
1 TTTTAAGAGAAGAGAAAGCAAAGAAGATAGTCATAACATGAAAATACTATAAATTTCCTATTGAC
14052544 TCTAATCCTCTCATGAAAAAACTATAATTAAATGATCATTTATTATGTTGGTTTTCTTTCAAACA
66 TCTAATCCTCTCATGAAAAAACTATAATTAAATGATCATTTATTATGTTGGTTTTCTTTCAAACA
14052609 TATTTTGAGATATTGTATTTTACTAATAT
131 TATTTTGAGATATTGTATTTTACTAATAT
14052638 TT
1 TT
14052640 ATAACCCTTA
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 160 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (159 bp):
TTTTAAGAGAAGAGAAAGCAAAGAAGATAGTCATAACATGAAAATACTATAAATTTCCTATTGAC
TCTAATCCTCTCATGAAAAAACTATAATTAAATGATCATTTATTATGTTGGTTTTCTTTCAAACA
TATTTTGAGATATTGTATTTTACTAATAT
Found at i:14053227 original size:73 final size:74
Alignment explanation
Indices: 14053149--14053290 Score: 191
Period size: 73 Copynumber: 1.9 Consensus size: 74
14053139 AAACATGATT
* * *
14053149 TTTGTTGAAAAGATGAAAA-CATTATTTTTCATAATTCAATAAAGATGACA-TTTTAAAATAAAA
1 TTTGTTAAAAAGATGAAAATAATTATTTTTCATAATT-AA-AAAAATGACATTTTTAAAATAAAA
14053212 -AAATGAGGTC
64 GAAATGAGGTC
* * *
14053222 TTTGTTAAAAATATGAAAATAATTATTTTTTATAATTAAAAAAATGACATTTTTAAGATAAAAGA
1 TTTGTTAAAAAGATGAAAATAATTATTTTTCATAATTAAAAAAATGACATTTTTAAAATAAAAGA
14053287 AATG
66 AATG
14053291 CTGTTGAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
72 9 0.15
73 31 0.52
74 20 0.33
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (74 bp):
TTTGTTAAAAAGATGAAAATAATTATTTTTCATAATTAAAAAAATGACATTTTTAAAATAAAAGA
AATGAGGTC
Found at i:14056076 original size:22 final size:23
Alignment explanation
Indices: 14056051--14056100 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 23
14056041 ATTTTATTAT
14056051 ATTTTTAAAAATTATATAAAT-A
1 ATTTTTAAAAATTATATAAATAA
*
14056073 A--TTT--AAATTATATATATAA
1 ATTTTTAAAAATTATATAAATAA
14056092 ATTTTTAAA
1 ATTTTTAAA
14056101 TAAATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 9
0.69 0.03 0.28
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 3 0.14
21 3 0.14
22 1 0.05
23 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTTAAAAATTATATAAATAA
Found at i:14056687 original size:15 final size:15
Alignment explanation
Indices: 14056667--14056698 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14056657 TCATATAACC
14056667 CATTTCTATAAGTTT
1 CATTTCTATAAGTTT
*
14056682 CATTTCTCTAAGTTT
1 CATTTCTATAAGTTT
14056697 CA
1 CA
14056699 ATCTTTCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (15 bp):
CATTTCTATAAGTTT
Found at i:14060720 original size:13 final size:13
Alignment explanation
Indices: 14060702--14060727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14060692 AAATTAGACA
14060702 TTACCTACAGAAT
1 TTACCTACAGAAT
14060715 TTACCTACAGAAT
1 TTACCTACAGAAT
14060728 AAGCAACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTACCTACAGAAT
Found at i:14061230 original size:3 final size:3
Alignment explanation
Indices: 14061222--14061265 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14061212 ATTGTTTGTG
14061222 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14061266 TAAATTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14063192 original size:91 final size:91
Alignment explanation
Indices: 14063037--14063219 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
14063027 TAAAATTAGG
14063037 ATAAAACGTTCATAGCACAAAGTGGAACAAATTAAGTTATTTAAGATGAAATAAAAATGCAAAGA
1 ATAAAACGTTCATAGCACAAAGTGGAACAAATTAAGTTATTTAAGATGAAATAAAAATGCAAAGA
14063102 GAACCGTCTTTCAATCCCAAAAACAC
66 GAACCGTCTTTCAATCCCAAAAACAC
*
14063128 ATAAAATGTTCATAGCACAAAGTGGAACAAATTAAGTTATTTAAGATGAAATAAAAATGCAAAGA
1 ATAAAACGTTCATAGCACAAAGTGGAACAAATTAAGTTATTTAAGATGAAATAAAAATGCAAAGA
14063193 GAACCGTCTTTCAATCCCAAAAACAC
66 GAACCGTCTTTCAATCCCAAAAACAC
14063219 A
1 A
14063220 CCAATTTAGT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (91 bp):
ATAAAACGTTCATAGCACAAAGTGGAACAAATTAAGTTATTTAAGATGAAATAAAAATGCAAAGA
GAACCGTCTTTCAATCCCAAAAACAC
Found at i:14064360 original size:21 final size:19
Alignment explanation
Indices: 14064327--14064369 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
14064317 TGGTATAAAA
*
14064327 TTATTTAAATTTTACATTTTG
1 TTATATAAATTTT--ATTTTG
*
14064348 TTATATAATTTTTATTTTG
1 TTATATAAATTTTATTTTG
14064367 TTA
1 TTA
14064370 ATCCAATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTATATAAATTTTATTTTG
Found at i:14064660 original size:19 final size:20
Alignment explanation
Indices: 14064613--14064661 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
14064603 TAAATGTGTA
14064613 AAATTTAGTAAAATTGTTTTT
1 AAATTTA-TAAAATTGTTTTT
14064634 ACAA--TATAAAATTG-TTTT
1 A-AATTTATAAAATTGTTTTT
14064652 AAATTTATAA
1 AAATTTATAA
14064662 TTTTTGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.08
18 5 0.20
19 13 0.52
20 2 0.08
21 1 0.04
22 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (20 bp):
AAATTTATAAAATTGTTTTT
Found at i:14065046 original size:29 final size:28
Alignment explanation
Indices: 14065013--14065108 Score: 68
Period size: 29 Copynumber: 3.2 Consensus size: 28
14065003 AACTTTATTT
14065013 ATTATAAAAATTATTAATAAATAATTAA
1 ATTATAAAAATTATTAATAAATAATTAA
* * *
14065041 ATTTATTCAAAA-TATTTATTAATATATTAA
1 A-TTA-TAAAAATTATTAATAAATA-ATTAA
* *
14065071 ATAATAAAATATATATTATATTAAATTATTAAA
1 ATTATAAAA-AT-TATTA-A-TAAATAATT-AA
14065104 ATTAT
1 ATTAT
14065109 TTTATGACTT
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
28 5 0.10
29 16 0.32
30 11 0.22
31 4 0.08
32 4 0.08
33 10 0.20
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATAAAAATTATTAATAAATAATTAA
Found at i:14065095 original size:24 final size:24
Alignment explanation
Indices: 14065063--14065113 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
14065053 TATTTATTAA
14065063 TATATTAAA-TAATAAAATATATAT
1 TATATTAAATTAATAAAAT-TATAT
* *
14065087 TATATTAAATTATTAAAATTATTT
1 TATATTAAATTAATAAAATTATAT
14065111 TAT
1 TAT
14065114 GACTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TATATTAAATTAATAAAATTATAT
Found at i:14065176 original size:7 final size:7
Alignment explanation
Indices: 14065164--14065192 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
14065154 CAACATAATG
14065164 ATAAAAA
1 ATAAAAA
14065171 ATAAAAA
1 ATAAAAA
14065178 AT-AAAA
1 ATAAAAA
14065184 ATAAAAA
1 ATAAAAA
14065191 AT
1 AT
14065193 CTCACTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:14065183 original size:13 final size:13
Alignment explanation
Indices: 14065167--14065192 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14065157 CATAATGATA
14065167 AAAAATAAAAAAT
1 AAAAATAAAAAAT
14065180 AAAAATAAAAAAT
1 AAAAATAAAAAAT
14065193 CTCACTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:14067868 original size:17 final size:18
Alignment explanation
Indices: 14067836--14067877 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
14067826 AGATAATTCA
*
14067836 ATAAATATACATAAAATT
1 ATAAATATAAATAAAATT
14067854 ATAAA-ATAAATAAAA-T
1 ATAAATATAAATAAAATT
14067870 A-AAATATA
1 ATAAATATA
14067878 TTATTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 5 0.23
17 9 0.41
18 5 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATATAAATAAAATT
Found at i:14073860 original size:2 final size:2
Alignment explanation
Indices: 14073848--14073887 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
14073838 TTCATTGACA
14073848 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14073888 GAATAAGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14074201 original size:6 final size:6
Alignment explanation
Indices: 14074190--14074256 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
14074180 ATTATTTTTA
* **
14074190 AAATAT AAATAT AAACT-T -AA-AT AAATAT AAAAAT TGATAT AAATAT
1 AAATAT AAATAT AAA-TAT AAATAT AAATAT AAATAT AAATAT AAATAT
*
14074236 --ATAT AAATAT AAAAAT AAATA
1 AAATAT AAATAT AAATAT AAATA
14074257 AATAATATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
4 5 0.11
5 4 0.09
6 37 0.79
7 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:14074217 original size:22 final size:21
Alignment explanation
Indices: 14074190--14074260 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
14074180 ATTATTTTTA
14074190 AAATATAAATATAAACTTAAAT
1 AAATATAAATATAAA-TTAAAT
* **
14074212 AAATATAAAAATTGATATAAAT
1 AAATATAAATATAAAT-TAAAT
* *
14074234 ATATATAAATATAAAAATAAAT
1 AAATATAAATAT-AAATTAAAT
14074256 AAATA
1 AAATA
14074261 ATATATATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (21 bp):
AAATATAAATATAAATTAAAT
Found at i:14074230 original size:28 final size:28
Alignment explanation
Indices: 14074198--14074251 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
14074188 TAAAATATAA
14074198 ATATAAACT-TAAATAAATATAAAAATTG
1 ATATAAA-TATAAATAAATATAAAAATTG
*
14074226 ATATAAATATATATAAATATAAAAAT
1 ATATAAATATAAATAAATATAAAAAT
14074252 AAATAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (28 bp):
ATATAAATATAAATAAATATAAAAATTG
Found at i:14074247 original size:16 final size:16
Alignment explanation
Indices: 14074192--14074260 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
14074182 TATTTTTAAA
14074192 ATATAAATATAAACT-T
1 ATATAAATATAAA-TAT
*
14074208 AAATAAATATAAA-A-
1 ATATAAATATAAATAT
*
14074222 AT-T-GATATAAATAT
1 ATATAAATATAAATAT
*
14074236 ATATAAATATAAAAAT
1 ATATAAATATAAATAT
*
14074252 AAATAAATA
1 ATATAAATA
14074261 ATATATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
12 7 0.17
13 2 0.05
14 3 0.07
15 1 0.02
16 29 0.69
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (16 bp):
ATATAAATATAAATAT
Found at i:14074395 original size:12 final size:12
Alignment explanation
Indices: 14074378--14074402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14074368 AAATCAATCT
14074378 TATAAGATTGAG
1 TATAAGATTGAG
14074390 TATAAGATTGAG
1 TATAAGATTGAG
14074402 T
1 T
14074403 TGGGTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TATAAGATTGAG
Found at i:14076468 original size:2 final size:2
Alignment explanation
Indices: 14076461--14076487 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14076451 AATTAGAATA
14076461 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14076488 GTCAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14079150 original size:22 final size:22
Alignment explanation
Indices: 14079103--14079147 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14079093 GTTTTAATAG
*
14079103 TTTA-TTTATTGATTTATTTTA
1 TTTATTTTATTGATTTATTATA
*
14079124 TTTATTTTATTGATTTGTTA-A
1 TTTATTTTATTGATTTATTATA
14079145 TTT
1 TTT
14079148 TATATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (22 bp):
TTTATTTTATTGATTTATTATA
Found at i:14079432 original size:23 final size:21
Alignment explanation
Indices: 14079406--14079447 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
14079396 AAAATTTTTA
14079406 TTTTTATTTTAATTTCATTTAAT
1 TTTTTATTTT-ATTT-ATTTAAT
14079429 TTTTTATTTTATTTATTTA
1 TTTTTATTTTATTTATTTA
14079448 TCATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTATTTATTTAAT
Found at i:14079798 original size:12 final size:12
Alignment explanation
Indices: 14079783--14079807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14079773 CTTCAAACCT
14079783 TAGAAGCTTTGG
1 TAGAAGCTTTGG
14079795 TAGAAGCTTTGG
1 TAGAAGCTTTGG
14079807 T
1 T
14079808 TCATCAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TAGAAGCTTTGG
Found at i:14084611 original size:15 final size:16
Alignment explanation
Indices: 14084567--14084611 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14084557 GTGTGCAAAA
*
14084567 AAAAAAATGAAAAA-AT
1 AAAAAAAT-AAAAAGCT
14084583 AAAAAAATAAAAAGCT
1 AAAAAAATAAAAAGCT
14084599 AAAAAAA-AAAAAG
1 AAAAAAATAAAAAG
14084612 AAAAATGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAAAGCT
Found at i:14085689 original size:45 final size:44
Alignment explanation
Indices: 14085602--14085769 Score: 185
Period size: 45 Copynumber: 3.8 Consensus size: 44
14085592 TTAAAGGAAC
* * ** *
14085602 TTTTCAAATGAGATTCTTTAAATTTTGGATGCAAAACTCCAAAAT
1 TTTTCAAATGAGAATCTTTAAATTTTAGATGTGAATC-CCAAAAT
* *
14085647 TTTTCAAATGAGAATCTTTGAAGTTTTGGATGTGAATCCCAAAAT
1 TTTTCAAATGAGAATCTTT-AAATTTTAGATGTGAATCCCAAAAT
* * * *
14085692 TTTTTAAATAAGAATCTTTAAAATTTCAGATGTGAATCCTAAAAT
1 TTTTCAAATGAGAATCTTT-AAATTTTAGATGTGAATCCCAAAAT
* *
14085737 TTTT-AAATGAAAATCTTTAATTTTTAGATGTGA
1 TTTTCAAATGAGAATCTTTAAATTTTAGATGTGA
14085770 GATCTTGAAA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 13 0.12
44 12 0.11
45 67 0.63
46 14 0.13
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (44 bp):
TTTTCAAATGAGAATCTTTAAATTTTAGATGTGAATCCCAAAAT
Found at i:14085934 original size:17 final size:17
Alignment explanation
Indices: 14085914--14085967 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
14085904 TTTTGTGAAC
*
14085914 CTTAATCTCTTGCGAAT
1 CTTAATCTCTTGCAAAT
*
14085931 CTTAATTTCTTGCAAAT
1 CTTAATCTCTTGCAAAT
* * *
14085948 CTAAATTTCTTACAAAT
1 CTTAATCTCTTGCAAAT
14085965 CTT
1 CTT
14085968 TGAATTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (17 bp):
CTTAATCTCTTGCAAAT
Found at i:14085975 original size:36 final size:36
Alignment explanation
Indices: 14085921--14086137 Score: 128
Period size: 36 Copynumber: 6.1 Consensus size: 36
14085911 AACCTTAATC
*
14085921 TCTTGCGAATC-TT-AATTTCTTGCAAATCTAAATT
1 TCTTGCAAATCTTTGAATTTCTTGCAAATCTAAATT
* * *
14085955 TCTTACAAATCTTTGAATTTCTT-CTGAACCTAAATT
1 TCTTGCAAATCTTTGAATTTCTTGC-AAATCTAAATT
* * ***
14085991 TCTTACAAA--TTTGAAGTTCTTATGAATCTTTAAATT
1 TCTTGCAAATCTTTGAATTTCTTGCAAATC--TAAATT
* * *
14086027 TTTTGCGAATCTTTGAATTTCTTGCAAA-CTTGAATT
1 TCTTGCAAATCTTTGAATTTCTTGCAAATC-TAAATT
* * * ** * *
14086063 GCTTGCAAA-C-CTGAATCTCTTGTGAATATGAATT
1 TCTTGCAAATCTTTGAATTTCTTGCAAATCTAAATT
* * *
14086097 TCTTGCAAATCTTTGAAGCTT-TTGCAAATTTGAATT
1 TCTTGCAAATCTTTGAA-TTTCTTGCAAATCTAAATT
14086133 TCTTG
1 TCTTG
14086138 TGAATATGAA
Statistics
Matches: 141, Mismatches: 30, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
34 50 0.35
35 5 0.04
36 71 0.50
37 2 0.01
38 13 0.09
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (36 bp):
TCTTGCAAATCTTTGAATTTCTTGCAAATCTAAATT
Found at i:14086061 original size:17 final size:17
Alignment explanation
Indices: 14085921--14086137 Score: 86
Period size: 17 Copynumber: 12.3 Consensus size: 17
14085911 AACCTTAATC
*
14085921 TCTTGCGAATCTT-AATT
1 TCTTGC-AAACTTGAATT
*
14085938 TCTTGCAAA-TCTAAATT
1 TCTTGCAAACT-TGAATT
*
14085955 TCTTACAAATCTTTGAATT
1 TCTTGCAAA-C-TTGAATT
* * *
14085974 TCTT-CTGAACCTAAATT
1 TCTTGC-AAACTTGAATT
* * *
14085991 TCTTACAAATTTGAAGT
1 TCTTGCAAACTTGAATT
* *
14086008 TCTTATG-AATCTTTAAATT
1 TC-T-TGCAAAC-TTGAATT
* *
14086027 TTTTGCGAATCTTTGAATT
1 TCTTGC-AAAC-TTGAATT
14086046 TCTTGCAAACTTGAATT
1 TCTTGCAAACTTGAATT
* * *
14086063 GCTTGCAAACCTGAATC
1 TCTTGCAAACTTGAATT
**
14086080 TCTTGTGAA-TATGAATT
1 TCTTGCAAACT-TGAATT
*
14086097 TCTTGCAAATCTTTGAAGCT
1 TCTTGCAAA-C-TTGAA-TT
*
14086117 T-TTGCAAATTTGAATT
1 TCTTGCAAACTTGAATT
14086133 TCTTG
1 TCTTG
14086138 TGAATATGAA
Statistics
Matches: 149, Mismatches: 33, Indels: 36
0.68 0.15 0.17
Matches are distributed among these distances:
15 1 0.01
16 5 0.03
17 84 0.56
18 10 0.07
19 45 0.30
20 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.44
Consensus pattern (17 bp):
TCTTGCAAACTTGAATT
Found at i:14086131 original size:53 final size:50
Alignment explanation
Indices: 14086040--14086153 Score: 149
Period size: 53 Copynumber: 2.2 Consensus size: 50
14086030 TGCGAATCTT
14086040 TGAATTTCTTGCAAACTTGAATTGCTTGCAAACCTGAATCTCTTGTGAATA
1 TGAATTTCTTGCAAACTTGAATT-CTTGCAAACCTGAATCTCTTGTGAATA
** *
14086091 TGAATTTCTTGCAAATCTTTGAAGCTT-TTGCAAATTTGAATTTCTTGTGAATA
1 TGAATTTCTTGCAAA-C-TTGAA--TTCTTGCAAACCTGAATCTCTTGTGAATA
14086144 TGAATTTCTT
1 TGAATTTCTT
14086154 ACCTTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
51 15 0.27
52 1 0.02
53 38 0.68
55 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (50 bp):
TGAATTTCTTGCAAACTTGAATTCTTGCAAACCTGAATCTCTTGTGAATA
Found at i:14086221 original size:17 final size:17
Alignment explanation
Indices: 14086195--14086245 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
14086185 TACAAATTTT
14086195 TGAA-TTCTTGTGAATC
1 TGAATTTCTTGTGAATC
** *
14086211 TGAATTTCTTGCAAACC
1 TGAATTTCTTGTGAATC
*
14086228 TGAATTTTTTGTGAATC
1 TGAATTTCTTGTGAATC
14086245 T
1 T
14086246 TTAAAAATTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (17 bp):
TGAATTTCTTGTGAATC
Found at i:14086274 original size:18 final size:19
Alignment explanation
Indices: 14086233--14086276 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
14086223 AAACCTGAAT
14086233 TTTTTGTGAATCTTTAAAAA
1 TTTTTGTGAATCTTT-AAAA
*
14086253 TTTTTGTGAATCTTT-CAA
1 TTTTTGTGAATCTTTAAAA
14086271 TTTTTG
1 TTTTTG
14086277 AAAACCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTTGTGAATCTTTAAAA
Found at i:14086323 original size:35 final size:35
Alignment explanation
Indices: 14086249--14086327 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
14086239 TGAATCTTTA
* * *
14086249 AAAATTTTTGTGAATCTTTCAATTTTTGAAAACCT
1 AAAATTCTTATGAATCTTTCAATTTTTGAAAACAT
* * *
14086284 AAAATTCTTATGAATC-TTCTATTTTTGCAAATAT
1 AAAATTCTTATGAATCTTTCAATTTTTGAAAACAT
14086318 GAAAATTCTT
1 -AAAATTCTT
14086328 GAAAATCTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 14 0.38
35 23 0.62
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.46
Consensus pattern (35 bp):
AAAATTCTTATGAATCTTTCAATTTTTGAAAACAT
Found at i:14086389 original size:18 final size:18
Alignment explanation
Indices: 14086331--14086432 Score: 105
Period size: 18 Copynumber: 5.6 Consensus size: 18
14086321 AATTCTTGAA
14086331 AATCTTGAAATTTTTTACG
1 AATCTTGAAA-TTTTTACG
** * *
14086350 AATCTTGAAACCTCTACA
1 AATCTTGAAATTTTTACG
*
14086368 AATCTTGAAAATTTTACG
1 AATCTTGAAATTTTTACG
* *
14086386 AATCTTGAAGTTTTTACA
1 AATCTTGAAATTTTTACG
* *
14086404 AATCCTGAAATTTTTTATG
1 AATCTTGAAA-TTTTTACG
14086423 AATCTTGAAA
1 AATCTTGAAA
14086433 ACTTTGCGAA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
18 41 0.62
19 25 0.38
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (18 bp):
AATCTTGAAATTTTTACG
Found at i:14086390 original size:36 final size:37
Alignment explanation
Indices: 14086330--14086432 Score: 136
Period size: 36 Copynumber: 2.8 Consensus size: 37
14086320 AAATTCTTGA
14086330 AAATCTTGAAATTTTTTACGAATCTTGAAACCTCTAC
1 AAATCTTGAAATTTTTTACGAATCTTGAAACCTCTAC
* *** *
14086367 AAATCTTGAAA-ATTTTACGAATCTTGAAGTTTTTAC
1 AAATCTTGAAATTTTTTACGAATCTTGAAACCTCTAC
* *
14086403 AAATCCTGAAATTTTTTATGAATCTTGAAA
1 AAATCTTGAAATTTTTTACGAATCTTGAAA
14086433 ACTTTGCGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 30 0.54
37 26 0.46
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (37 bp):
AAATCTTGAAATTTTTTACGAATCTTGAAACCTCTAC
Found at i:14086462 original size:73 final size:74
Alignment explanation
Indices: 14086330--14086468 Score: 163
Period size: 73 Copynumber: 1.9 Consensus size: 74
14086320 AAATTCTTGA
* * * * * *
14086330 AAATCTTGAAATTTTTTACGAATCTTGAAACCTCTACAAATCTTGAAAATTTTACGAATCT-TGA
1 AAATCCTGAAATTTTTTACGAATCTTGAAAACTCTACAAATATCGAAAACTCTACGAATCTATGA
14086394 AGTTTTTAC
66 AGTTTTTAC
* * * * * *
14086403 AAATCCTGAAATTTTTTATGAATCTTGAAAACTTTGCGAATATCGAAACCTCTATGAATCTATGA
1 AAATCCTGAAATTTTTTACGAATCTTGAAAACTCTACAAATATCGAAAACTCTACGAATCTATGA
14086468 A
66 A
14086469 TCATTGAATC
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
73 49 0.92
74 4 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (74 bp):
AAATCCTGAAATTTTTTACGAATCTTGAAAACTCTACAAATATCGAAAACTCTACGAATCTATGA
AGTTTTTAC
Found at i:14086485 original size:15 final size:16
Alignment explanation
Indices: 14086457--14086488 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14086447 GAAACCTCTA
14086457 TGAATCTATGAATCAT
1 TGAATCTATGAATCAT
14086473 TGAATCT-TGAATCAT
1 TGAATCTATGAATCAT
14086488 T
1 T
14086489 TCCAAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (16 bp):
TGAATCTATGAATCAT
Found at i:14090429 original size:5 final size:5
Alignment explanation
Indices: 14090419--14090451 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14090409 AAATGCATGA
14090419 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA- AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
14090452 TATTTGTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:14093790 original size:16 final size:17
Alignment explanation
Indices: 14093769--14093804 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
14093759 GAAGACTTTA
14093769 TTTGAAAAGATTTT-TT
1 TTTGAAAAGATTTTCTT
*
14093785 TTTGAAAGGATTTTCTT
1 TTTGAAAAGATTTTCTT
14093802 TTT
1 TTT
14093805 TCTTACTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (17 bp):
TTTGAAAAGATTTTCTT
Found at i:14094009 original size:28 final size:23
Alignment explanation
Indices: 14093919--14094004 Score: 158
Period size: 23 Copynumber: 3.8 Consensus size: 23
14093909 TTTAAAAAAT
14093919 TGGGTTAAAAAT--AATAATAAA
1 TGGGTTAAAAATAAAATAATAAA
14093940 TGGGTTAAAAATAAAATAATAAA
1 TGGGTTAAAAATAAAATAATAAA
14093963 TGGGTTAAAAATAAAATAATAAA
1 TGGGTTAAAAATAAAATAATAAA
14093986 TGGGTTAAAAATAAAATAA
1 TGGGTTAAAAATAAAATAA
14094005 AATAAAAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.19
23 51 0.81
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (23 bp):
TGGGTTAAAAATAAAATAATAAA
Found at i:14094020 original size:46 final size:45
Alignment explanation
Indices: 14093923--14094026 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 45
14093913 AAAAATTGGG
* ***
14093923 TTAAAA-ATAATAATAAATGGGTTAAAAATAAAATAATAAATGGG
1 TTAAAATAAAATAATAAATGGGTTAAAAATAAAATAATAAATAAA
14093967 TTAAAAATAAAATAATAAATGGGTTAAAAATAAAATAAAATAAA-AAA
1 TT-AAAATAAAATAATAAATGGGTTAAAAATAAAAT--AATAAATAAA
14094014 TTAAAATTAAAAT
1 TTAAAA-TAAAAT
14094027 TAAAAAAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
44 2 0.04
45 4 0.08
46 31 0.61
47 8 0.16
48 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (45 bp):
TTAAAATAAAATAATAAATGGGTTAAAAATAAAATAATAAATAAA
Found at i:14094032 original size:7 final size:6
Alignment explanation
Indices: 14093990--14094031 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
14093980 AATAAATGGG
* *
14093990 TTAAAA ATAAAA -TAAAA TAAAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA T-TAAAA TTAAAA TTAAAA TTAAAA
14094032 AAGAAAAGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TTAAAA
Found at i:14094644 original size:25 final size:25
Alignment explanation
Indices: 14094616--14094663 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14094606 TTTTGCCCAA
14094616 AATTTAT-TAGACTTTTTTCTCTAAT
1 AATTTATCTA-ACTTTTTTCTCTAAT
* *
14094641 AATTTTTCTACCTTTTTTCTCTA
1 AATTTATCTAACTTTTTTCTCTA
14094664 TAAAGTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.58
Consensus pattern (25 bp):
AATTTATCTAACTTTTTTCTCTAAT
Found at i:14094877 original size:18 final size:17
Alignment explanation
Indices: 14094851--14094884 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14094841 TGTGTGGATT
*
14094851 AGAATAGAAAAGGAAAAA
1 AGAAAAGAAAA-GAAAAA
14094869 AGAAAAGAAAAGAAAA
1 AGAAAAGAAAAGAAAA
14094885 GGAATGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AGAAAAGAAAAGAAAAA
Found at i:14094955 original size:6 final size:5
Alignment explanation
Indices: 14094910--14094953 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
14094900 AAAACCAAAA
14094910 AATAT -ATAT -ATAT AATAT AATAT AATAT AATAAT AATAAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT-AT AAT-AT AATA
14094954 ATGGCATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.22
5 18 0.49
6 11 0.30
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:14095129 original size:3 final size:3
Alignment explanation
Indices: 14095017--14095117 Score: 116
Period size: 3 Copynumber: 34.0 Consensus size: 3
14095007 AAGGAAAATA
* *
14095017 AAT ACAT AAT AAT ATT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
14095063 AAT AAT AAT AAT AAT AAT AAT AAT -AT ATT ATT AAC CAT -AT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14095109 AAT AAT AAT
1 AAT AAT AAT
14095118 GACATTAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
2 4 0.05
3 77 0.92
4 3 0.04
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:14099297 original size:16 final size:16
Alignment explanation
Indices: 14099276--14099308 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14099266 AGATTTGTAG
14099276 TAATGTTGGAAAATAT
1 TAATGTTGGAAAATAT
14099292 TAATGTTGGAAAATAT
1 TAATGTTGGAAAATAT
14099308 T
1 T
14099309 GGGGTGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (16 bp):
TAATGTTGGAAAATAT
Found at i:14105487 original size:15 final size:15
Alignment explanation
Indices: 14105467--14105496 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14105457 GAGGCAACCT
14105467 AAGTTTTACATTTTC
1 AAGTTTTACATTTTC
14105482 AAGTTTTACATTTTC
1 AAGTTTTACATTTTC
14105497 TTTGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
AAGTTTTACATTTTC
Found at i:14106378 original size:10 final size:10
Alignment explanation
Indices: 14106363--14106416 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
14106353 GCCATGAATT
*
14106363 TATATGTGTA
1 TATATGTATA
14106373 TATATGTATA
1 TATATGTATA
**
14106383 TATATACATA
1 TATATGTATA
* *
14106393 TACATATATA
1 TATATGTATA
*
14106403 TATATATATA
1 TATATGTATA
14106413 TATA
1 TATA
14106417 AAGATTCCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (10 bp):
TATATGTATA
Found at i:14106384 original size:2 final size:2
Alignment explanation
Indices: 14106371--14106416 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
14106361 TTTATATGTG
* * *
14106371 TA TA TA TG TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14106413 TA TA
1 TA TA
14106417 AAGATTCCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:14106779 original size:20 final size:20
Alignment explanation
Indices: 14106756--14106797 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14106746 CTCAAGAGTA
14106756 AGGTCCAATGTGAGTCCCAT
1 AGGTCCAATGTGAGTCCCAT
14106776 AGGTCCAATGTGAGTCCCAT
1 AGGTCCAATGTGAGTCCCAT
14106796 AG
1 AG
14106798 TAAAACCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (20 bp):
AGGTCCAATGTGAGTCCCAT
Found at i:14106925 original size:14 final size:14
Alignment explanation
Indices: 14106906--14106972 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
14106896 TTGGCCATAA
* *
14106906 AAAAAATATAATTT
1 AAAAAATAAAAATT
14106920 AAAAAAT---AATT
1 AAAAAATAAAAATT
*
14106931 AAAAATTAAAAATT
1 AAAAAATAAAAATT
*
14106945 AAAAATTAAAAATT
1 AAAAAATAAAAATT
14106959 AAAAAATAATAAAT
1 AAAAAATAA-AAAT
14106973 AATAATGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
11 9 0.20
14 33 0.72
15 4 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:14106939 original size:7 final size:7
Alignment explanation
Indices: 14106927--14106963 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
14106917 TTTAAAAAAT
14106927 AATTAAA
1 AATTAAA
14106934 AATTAAA
1 AATTAAA
14106941 AATTAAA
1 AATTAAA
14106948 AATTAAA
1 AATTAAA
14106955 AATTAAA
1 AATTAAA
14106962 AA
1 AA
14106964 ATAATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATTAAA
Found at i:14106953 original size:21 final size:22
Alignment explanation
Indices: 14106920--14106972 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
14106910 AATATAATTT
14106920 AAAA-AAT-AATTAAAAATTAA
1 AAAATAATAAATTAAAAATTAA
*
14106940 AAATTAA-AAATTAAAAATTAA
1 AAAATAATAAATTAAAAATTAA
14106961 AAAATAATAAAT
1 AAAATAATAAAT
14106973 AATAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATAATAAATTAAAAATTAA
Found at i:14106972 original size:15 final size:15
Alignment explanation
Indices: 14106903--14107020 Score: 63
Period size: 14 Copynumber: 7.9 Consensus size: 15
14106893 TCATTGGCCA
14106903 TAAAAAA-AATATAAT
1 TAAAAAATAATA-AAT
*
14106918 T-TAAAA-AAT-AAT
1 TAAAAAATAATAAAT
*
14106930 TAAAAATTAA-AAAT
1 TAAAAAATAATAAAT
*
14106944 TAAAAATTAA-AAAT
1 TAAAAAATAATAAAT
14106958 TAAAAAATAATAAA-
1 TAAAAAATAATAAAT
** *
14106972 TAATAATGTAATTAAT
1 TAA-AAAATAATAAAT
14106988 TATAAAAA-AATTAAAT
1 TA-AAAAATAA-TAAAT
14107004 ATCAAAACAATAATAAA
1 -T-AAAA-AATAATAAA
14107021 AAGGCTTGCC
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
12 4 0.05
13 3 0.04
14 38 0.47
15 14 0.17
16 8 0.10
17 5 0.06
18 7 0.09
19 2 0.02
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.29
Consensus pattern (15 bp):
TAAAAAATAATAAAT
Found at i:14107743 original size:23 final size:23
Alignment explanation
Indices: 14107699--14107750 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
14107689 CGGCAGAATT
*
14107699 GAAAAACGAAAAACTGGAAGCAAG
1 GAAAAACCAAAAACTGGAAGC-AG
* *
14107723 GAAAAACCAGAAAC-GGCAGCAG
1 GAAAAACCAAAAACTGGAAGCAG
14107745 GAAAAA
1 GAAAAA
14107751 GCAGCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
23 5 0.20
24 12 0.48
ACGTcount: A:0.58, C:0.15, G:0.25, T:0.02
Consensus pattern (23 bp):
GAAAAACCAAAAACTGGAAGCAG
Found at i:14108868 original size:3 final size:3
Alignment explanation
Indices: 14108862--14108891 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14108852 GATGAAAGAT
14108862 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14108892 ATTTTAACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14108999 original size:53 final size:53
Alignment explanation
Indices: 14108932--14109064 Score: 148
Period size: 53 Copynumber: 2.6 Consensus size: 53
14108922 AAAAATTAAA
* *
14108932 TTTTGGGAGATTATTAAAAACGAG-TGTGTTAAAAAAAATATAGGAATTAATTT
1 TTTTGGGAAATTATTAAAAACGAGCT-TGTTAAAAAAAATATAAGAATTAATTT
* * * *
14108985 TTTTTGGAAATTATTAAAAATGAGCTTGTTTAAAAAAATATAAGAATT-A-GT
1 TTTTGGGAAATTATTAAAAACGAGCTTGTTAAAAAAAATATAAGAATTAATTT
* * *
14109036 TCTT-GGAAATTATGAAAAATGAGCTTGTT
1 TTTTGGGAAATTATTAAAAACGAGCTTGTT
14109065 CTAATATATA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
50 24 0.34
51 4 0.06
52 1 0.01
53 41 0.58
54 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (53 bp):
TTTTGGGAAATTATTAAAAACGAGCTTGTTAAAAAAAATATAAGAATTAATTT
Found at i:14109075 original size:2 final size:2
Alignment explanation
Indices: 14109068--14109097 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14109058 GCTTGTTCTA
14109068 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14109098 CCAAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14109209 original size:13 final size:13
Alignment explanation
Indices: 14109191--14109233 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
14109181 TTTAAAACCC
14109191 TAAATTGAAAATT
1 TAAATTGAAAATT
**
14109204 TAAATT-AAAACCC
1 TAAATTGAAAA-TT
14109217 TAAATTGAAAATT
1 TAAATTGAAAATT
14109230 TAAA
1 TAAA
14109234 ATTATAACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (13 bp):
TAAATTGAAAATT
Found at i:14109211 original size:26 final size:27
Alignment explanation
Indices: 14109182--14109304 Score: 146
Period size: 26 Copynumber: 4.7 Consensus size: 27
14109172 TGCTAAAGTT
14109182 TTAAAACCCTAAA-TTGAAAATTTAAA
1 TTAAAACCCTAAAGTTGAAAATTTAAA
14109208 TTAAAACCCTAAA-TTGAAAATTTAAAA
1 TTAAAACCCTAAAGTTGAAAATTT-AAA
* * *
14109235 TTATAACCCTAAAGTTGAAACTCTAAA
1 TTAAAACCCTAAAGTTGAAAATTTAAA
* **
14109262 -TAAAACCTTAAAGTTGAAACCTTAAA
1 TTAAAACCCTAAAGTTGAAAATTTAAA
*
14109288 -TAAAACCCTAAGGTTGA
1 TTAAAACCCTAAAGTTGA
14109305 GACCTTATCA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 60 0.70
27 18 0.21
28 8 0.09
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (27 bp):
TTAAAACCCTAAAGTTGAAAATTTAAA
Found at i:14109284 original size:14 final size:14
Alignment explanation
Indices: 14109239--14109287 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
14109229 TTAAAATTAT
*
14109239 AACCCTAAAGTTGA
1 AACCTTAAAGTTGA
*
14109253 AA-CTCTAAA--TAA
1 AACCT-TAAAGTTGA
14109265 AACCTTAAAGTTGA
1 AACCTTAAAGTTGA
14109279 AACCTTAAA
1 AACCTTAAA
14109288 TAAAACCCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
12 8 0.29
13 3 0.11
14 17 0.61
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.24
Consensus pattern (14 bp):
AACCTTAAAGTTGA
Found at i:14128126 original size:812 final size:806
Alignment explanation
Indices: 14126281--14128706 Score: 3851
Period size: 812 Copynumber: 3.0 Consensus size: 806
14126271 AAACTCCTTA
* * * * *
14126281 GATCTTTTTTCTTTTTGTTCAAGAGTTATTAAAGTTTATGGCTACCATCTTCCAAAAATATAGCA
1 GATCTTTTTACTTTTTGTTCAAGAGTTATTGAAGTTCAGGGCTACCATCTTCCAAAAATATAACA
**
14126346 TCGGTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
66 TCTTTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
* *
14126411 TGCCTATACATTCTTATGATCATCCTTTGCTTTGCTTGAACTTCGTCTTGAACTCCCTTTTGAAT
131 TGCCTATACATTCTTATGATCATCCTTAGCTTTGCTTGAACTTTGTCTTGAACTCCCTTTTGAAT
* **
14126476 TTCCTCCTCTTGAACTATTTTCTTAGGCTCATGCCAAATGCTTTTTACTAATGTTCTTTCTACTT
196 TTCCTCCTCTTGAACTATTTCCTTAGGCTCATGCTGAATGCTTTTTACTAATGTTCTTTCTACTT
* * *
14126541 ATAATAGCATTTGACATTCCTTAGTAGATCTTTCAATTTATTCCTCATAATCTTTTTCATAATCC
261 ATAATAGCATTTGACATTCTTTAGCAGATCTTTCAATTTATTCCTCATAATCCTTTTCATAATCC
* * * *
14126606 ATCTATACATTTTCTTCTTTCGAATCTTTTTTAGGGTCCTCCTCATAAGGTTCATTGTTCTTAGA
326 ATCTCTACATTTTTTTCTTTCGAATCTTTTTTAGGGTTCTCCTCATAAGGTTCAATGTTCTTAGA
*
14126671 GGCCATCAATGCCATAAACTCAACTTAGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAGGG
391 GGCC-TCAATGCCATAAACTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAGGG
* *
14126736 TGGGTTATAAATTGATGGATTATGGTGGAAGTTATTATTTTAGGTGTTGGAGTTTGGTTGGTTCC
455 TGGGTTATAAGTTGGTGGATTATGGTGGAAGTTATTATTTTAGGTGTTGG-GTTTGGTTGGTTCC
14126801 AAGAAAAATTAGTGTCATTTTGCCATTCAGGGTTGTAAGTGCAGCTATGTGGATTGTAGTTAGGC
519 AAGAAAAATTAGTGTCATTTTGCCATTCAGGGTTGTAAGTGCAGCTATGTGGATTGTAGTTAGGC
14126866 TTAGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAACGGGGTTT
584 TTAGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAACGGGG-TT
14126931 TTTTTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTTGGGATTG
648 TTTTTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTT-GGATTG
*
14126996 AGCTCTTAAGGCTTTTATCTTTTTGGTTAGGGTAGCTAAATGAGAGTTTATGGAGGTGATTGCAT
712 AGCTCTTAAGGCTTTTATCTTTTTGGTTAGGGCAGCTAAATGAGAGTTTATGGAGGTGATTGCAT
14127061 CAATTTTAGATAAACTCATAGACTTCACAT
777 CAATTTTAGATAAACTCATAGACTTCACAT
* * * * * *
14127091 GATCCTTCTACTTTTTGTTCAAGAGTTATTGGAGTTCAGGGCTATCATTTTTCAAAAATATAACA
1 GATCTTTTTACTTTTTGTTCAAGAGTTATTGAAGTTCAGGGCTACCATCTTCCAAAAATATAACA
* *
14127156 TCTTTTAATTCTTTAACTAGCTCATTTTGAATAGGCCTTGGGAATGTGGTGTTATATTAAAACAT
66 TCTTTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
* *
14127221 TGCCTATATATTCTTATGATCATCCTTAGCTTTGCTTGAACTTTGTCTTGAACTTCCTTTTGAAT
131 TGCCTATACATTCTTATGATCATCCTTAGCTTTGCTTGAACTTTGTCTTGAACTCCCTTTTGAAT
* * * * * *
14127286 TTCTTCCTCTTGAACTATTTCTTTAGGCTCATGGTGAATGCTTTTTACTAATGCTCTTTTTATTT
196 TTCCTCCTCTTGAACTATTTCCTTAGGCTCATGCTGAATGCTTTTTACTAATGTTCTTTCTACTT
* * * * *
14127351 ATAATAGCATATGACCTTTTTTAGCAGAGCTTTCAATTTATTCCTCATAATCCTTTTCATAGTCC
261 ATAATAGCATTTGACATTCTTTAGCAGATCTTTCAATTTATTCCTCATAATCCTTTTCATAATCC
* * * * *
14127416 ATCTCTACATTTTTTTCCTTCAAATCTTTTTTAGGGTTTTTCTCATAAGGTTCAATGTTCTTAGG
326 ATCTCTACATTTTTTTCTTTCGAATCTTTTTTAGGGTTCTCCTCATAAGGTTCAATGTTCTTAGA
* *
14127481 GGCCTCCAATGCCATAAAGTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCATGG
391 GGCCT-CAATGCCATAAACTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAGGG
* *
14127546 TGGGTTATAAGTTGGTGGATTAGGGGTGGAAGTTATT-TATTTAGGTGTTGGGTTTAGTTGGTTC
455 TGGGTTATAAGTTGGTGGATTA-TGGTGGAAGTTATTAT-TTTAGGTGTTGGGTTTGGTTGGTTC
* * * * * *
14127610 CAAAGAAAAATAAGTGTCATATTCGTCATTTAAGGGTTAATCAAGTGGCGGGCTATGTGGATTGT
518 C-AAGAAAAATTAGTGTCAT-TTTGCCA-TTCAGGGTT-GT-AAGT-GC-AGCTATGTGGATTGT
* * *
14127675 AGTTAGGCTTAGATTATTGGATAAATTATACATGTTCTATCTTAAATTGATATTTTTCATTTGAA
576 AGTTAGGCTTAGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAA
* * * * * * *
14127740 -TGGG-TTCTTTACATATATCTCACGAAACAAAAAGACTTTGGATTGCATTCACATGATTGGTTT
641 CGGGGTTTTTTTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTT
* ** * *
14127803 AGGATTGAGCTCTTAAAGCTTTTATCTTTTTAATTAGGGCAACTGAATGAGAGTTTATGGAGGTG
706 -GGATTGAGCTCTTAAGGCTTTTATCTTTTTGGTTAGGGCAGCTAAATGAGAGTTTATGGAGGTG
14127868 ATTGCATCAATTTTAGATAAACTCA-A-ACTTCACAT
770 ATTGCATCAATTTTAGATAAACTCATAGACTTCACAT
14127903 GATCTTTTTACTTTTTGTTCAAGAGTTATTGAAGTTCAGGGCTACCATCTTCCAAAAATATAACA
1 GATCTTTTTACTTTTTGTTCAAGAGTTATTGAAGTTCAGGGCTACCATCTTCCAAAAATATAACA
*
14127968 TATTTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
66 TCTTTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
*
14128033 TGCCTATACATTCTTATGATCATCCTTAGCTTTACTTGAACTTTGTCTTGAACTCCCTTTTGAAT
131 TGCCTATACATTCTTATGATCATCCTTAGCTTTGCTTGAACTTTGTCTTGAACTCCCTTTTGAAT
* *
14128098 TTCCTCCTCTTGAGCTATTTCCTTAGGCTCACGCTGAATGCTTTTTACTAATGTTCTTTCTACTT
196 TTCCTCCTCTTGAACTATTTCCTTAGGCTCATGCTGAATGCTTTTTACTAATGTTCTTTCTACTT
* *
14128163 ATAATAGCATTTGACATGCTTTAGCAGATCTTTCAATTTATTCCTCATAATCCCTTTCATAATCC
261 ATAATAGCATTTGACATTCTTTAGCAGATCTTTCAATTTATTCCTCATAATCCTTTTCATAATCC
*
14128228 ATCTCTACATTTTCTTTTTTTCGAATC-TTTTTAGGGTTCCTCCTCATAAGGTTC-ATGTTCTTA
326 ATCTCTACATTTT-TTTCTTTCGAATCTTTTTTAGGGTT-CTCCTCATAAGGTTCAATGTTCTTA
14128291 GAGGCCTTCAATGCCATAAACTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAG
389 GAGGCC-TCAATGCCATAAACTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAG
14128356 GGTGGGTTATAAGTTGGTGGATTATGGTGGAAGTTATTATTTTAGGTGTTGGGGTTTGGTTGGTT
453 GGTGGGTTATAAGTTGGTGGATTATGGTGGAAGTTATTATTTTAGGTGTT-GGGTTTGGTTGGTT
14128421 CCAAGAAAAATTAGTGTCATTTTGCCATTCAGGGTTGTAAGTGCAGCTATGTGGATTGTAGTTAG
517 CCAAGAAAAATTAGTGTCATTTTGCCATTCAGGGTTGTAAGTGCAGCTATGTGGATTGTAGTTAG
14128486 GCTTAGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAACGGGGT
582 GCTTAGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAACGGGG-
*
14128551 TTTTTTTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTTGGGTT
646 TTTTTTTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTTGGATT
** *
14128616 GAGCTC-TAAGGCTTTTATAGTTTTGGTTAGGGCAGCTAAATGAGAGTTTATAGAGGTGATTGCA
711 GAGCTCTTAAGGCTTTTATCTTTTTGGTTAGGGCAGCTAAATGAGAGTTTATGGAGGTGATTGCA
14128680 TCAATTTTAGATAAACTCATAGACTTC
776 TCAATTTTAGATAAACTCATAGACTTC
14128707 TCACTTACCT
Statistics
Matches: 1459, Mismatches: 137, Indels: 42
0.89 0.08 0.03
Matches are distributed among these distances:
805 76 0.05
806 74 0.05
807 15 0.01
808 59 0.04
809 9 0.01
810 444 0.30
811 82 0.06
812 445 0.31
813 33 0.02
814 137 0.09
815 4 0.00
816 5 0.00
817 76 0.05
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (806 bp):
GATCTTTTTACTTTTTGTTCAAGAGTTATTGAAGTTCAGGGCTACCATCTTCCAAAAATATAACA
TCTTTTAATTCTTTAACCAGCTCATTTTGAATAGGCCTTGGGAAGGTGGTGTTATATTAAAACAT
TGCCTATACATTCTTATGATCATCCTTAGCTTTGCTTGAACTTTGTCTTGAACTCCCTTTTGAAT
TTCCTCCTCTTGAACTATTTCCTTAGGCTCATGCTGAATGCTTTTTACTAATGTTCTTTCTACTT
ATAATAGCATTTGACATTCTTTAGCAGATCTTTCAATTTATTCCTCATAATCCTTTTCATAATCC
ATCTCTACATTTTTTTCTTTCGAATCTTTTTTAGGGTTCTCCTCATAAGGTTCAATGTTCTTAGA
GGCCTCAATGCCATAAACTCAACTTGGTCAACATATCCTTAAAACTTGTTTTCTTTTCTCAGGGT
GGGTTATAAGTTGGTGGATTATGGTGGAAGTTATTATTTTAGGTGTTGGGTTTGGTTGGTTCCAA
GAAAAATTAGTGTCATTTTGCCATTCAGGGTTGTAAGTGCAGCTATGTGGATTGTAGTTAGGCTT
AGATTGTTGGATAAATTATACATGTTCTATCTTAAAGTGATATTTTTCACTTGAACGGGGTTTTT
TTATAGATATCTCATGAAACAAAGAGACTTTGGATTGCATTCACATGACTGGTTTGGATTGAGCT
CTTAAGGCTTTTATCTTTTTGGTTAGGGCAGCTAAATGAGAGTTTATGGAGGTGATTGCATCAAT
TTTAGATAAACTCATAGACTTCACAT
Found at i:14129288 original size:13 final size:13
Alignment explanation
Indices: 14129270--14129296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14129260 TTTTTGTAAA
14129270 AGAATTCAAAATT
1 AGAATTCAAAATT
14129283 AGAATTCAAAATT
1 AGAATTCAAAATT
14129296 A
1 A
14129297 TCTAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AGAATTCAAAATT
Found at i:14129805 original size:35 final size:35
Alignment explanation
Indices: 14129763--14129969 Score: 216
Period size: 35 Copynumber: 5.9 Consensus size: 35
14129753 TTAGGGGTGT
** *
14129763 ATGACATTGATTGCCATTGATGCTTGCATTTAGGC
1 ATGACATTGATTTTCATTGATACTTGCATTTAGGC
* * *
14129798 ATGACATTGATTTTCATTGATACTTGCATTCAAAGT
1 ATGACATTGATTTTCATTGATACTTGCATT-TAGGC
* *
14129834 ATGATATTGATTTTCATTGATACGTGCATTTAGGC
1 ATGACATTGATTTTCATTGATACTTGCATTTAGGC
* * * * * * *
14129869 ATTACATTTATTTTAATTGATACTCGCATTCAAAGT
1 ATGACATTGATTTTCATTGATACTTGCATT-TAGGC
* * * *
14129905 ATGATATTGATTTTCATTGATACGTGTACTTAGGC
1 ATGACATTGATTTTCATTGATACTTGCATTTAGGC
*
14129940 ATGACATTGATTTTAATTGATACTTGCATT
1 ATGACATTGATTTTCATTGATACTTGCATT
14129970 CAAGATATTT
Statistics
Matches: 134, Mismatches: 36, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
35 80 0.60
36 54 0.40
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (35 bp):
ATGACATTGATTTTCATTGATACTTGCATTTAGGC
Found at i:14129882 original size:71 final size:71
Alignment explanation
Indices: 14129761--14129972 Score: 325
Period size: 71 Copynumber: 3.0 Consensus size: 71
14129751 ATTTAGGGGT
* ** * * *
14129761 GTATGACATTGATTGCCATTGATGCTTGCATTTAGGCATGACATTGATTTTCATTGATACTTGCA
1 GTATGATATTGATTTTCATTGATACGTGCATTTAGGCATGACATTGATTTTAATTGATACTTGCA
14129826 TTCAAA
66 TTCAAA
* * *
14129832 GTATGATATTGATTTTCATTGATACGTGCATTTAGGCATTACATTTATTTTAATTGATACTCGCA
1 GTATGATATTGATTTTCATTGATACGTGCATTTAGGCATGACATTGATTTTAATTGATACTTGCA
14129897 TTCAAA
66 TTCAAA
* *
14129903 GTATGATATTGATTTTCATTGATACGTGTACTTAGGCATGACATTGATTTTAATTGATACTTGCA
1 GTATGATATTGATTTTCATTGATACGTGCATTTAGGCATGACATTGATTTTAATTGATACTTGCA
14129968 TTCAA
66 TTCAA
14129973 GATATTTGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 127 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (71 bp):
GTATGATATTGATTTTCATTGATACGTGCATTTAGGCATGACATTGATTTTAATTGATACTTGCA
TTCAAA
Found at i:14131550 original size:21 final size:20
Alignment explanation
Indices: 14131524--14131593 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 20
14131514 AGACATTATA
14131524 AAAAACTAATAATAAAATAAT
1 AAAAAC-AATAATAAAATAAT
14131545 AAAAACAA-AATTTTGAATAATAAT
1 AAAAACAATAA---T-AA-AATAAT
*
14131569 AAAAACAATAAATAAAATGAT
1 AAAAACAAT-AATAAAATAAT
14131590 AAAA
1 AAAA
14131594 TAAAATAGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 15 0.37
22 3 0.07
23 3 0.07
24 14 0.34
26 2 0.05
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAAACAATAATAAAATAAT
Found at i:14131834 original size:3 final size:3
Alignment explanation
Indices: 14131826--14131896 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
14131816 TTTCAAACAC
*
14131826 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14131874 AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
14131897 GAAATCTCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:14132044 original size:22 final size:22
Alignment explanation
Indices: 14132019--14132062 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14132009 AAATCATTTC
14132019 AATAAAATAATAAATAATAAAT
1 AATAAAATAATAAATAATAAAT
** *
14132041 AATAAAATTCTTAATAATAAAT
1 AATAAAATAATAAATAATAAAT
14132063 TATTATAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATAATAAATAATAAAT
Found at i:14132530 original size:15 final size:16
Alignment explanation
Indices: 14132512--14132550 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14132502 AAAAATTTTT
14132512 AATATTAAAATAAT-A
1 AATATTAAAATAATAA
* *
14132527 AATAATATAATAATAA
1 AATATTAAAATAATAA
14132543 AATATTAA
1 AATATTAA
14132551 GTAAAAGGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATTAAAATAATAA
Found at i:14135571 original size:20 final size:19
Alignment explanation
Indices: 14135524--14135575 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
14135514 CTTGGTTGGT
14135524 TTTTCTTTTTTCTTTTTGC
1 TTTTCTTTTTTCTTTTTGC
14135543 TTTTCTTTTATTCTTTTTG-
1 TTTTCTTTT-TTCTTTTTGC
*
14135562 TTAT-TTTTTTCTTT
1 TTTTCTTTTTTCTTT
14135576 AAAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 6 0.19
18 4 0.13
19 12 0.39
20 9 0.29
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTTCTTTTTGC
Found at i:14135625 original size:15 final size:16
Alignment explanation
Indices: 14135599--14135628 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14135589 TTTAAAACTA
14135599 TAAAAATATATATTTG
1 TAAAAATATATATTTG
14135615 TAAAAAT-TATATTT
1 TAAAAATATATATTT
14135629 TTATACGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAAAATATATATTTG
Found at i:14142283 original size:134 final size:134
Alignment explanation
Indices: 14142043--14142312 Score: 504
Period size: 134 Copynumber: 2.0 Consensus size: 134
14142033 TCTATTAAAT
14142043 TACCGTAACAAAAAAATCAGAATGTATAAAATAAATGTTCATAAATATTCATTAATGAGTATAAA
1 TACCGTAACAAAAAAATCAGAATGTATAAAATAAATGTTCATAAATATTCATTAATGAGTATAAA
* *
14142108 ATAAGTGTGCGAATAAATACAAGCTTATATTTCACATTTGCATATCCCTTTCTCATTGTCTAATG
66 ACAAGTGTGCGAATAAATACAAGCTCATATTTCACATTTGCATATCCCTTTCTCATTGTCTAATG
14142173 GTGA
131 GTGA
* *
14142177 TACCGTAACAAAAGAATCAGAATGTATGAAATAAATGTTCATAAATATTCATTAATGAGTATAAA
1 TACCGTAACAAAAAAATCAGAATGTATAAAATAAATGTTCATAAATATTCATTAATGAGTATAAA
14142242 ACAAGTGTGCGAATAAATACAAGCTCATATTTCACATTTGCATATCCCTTTCTCATTGTCTAATG
66 ACAAGTGTGCGAATAAATACAAGCTCATATTTCACATTTGCATATCCCTTTCTCATTGTCTAATG
14142307 GTGA
131 GTGA
14142311 TA
1 TA
14142313 TTGTTGTTTG
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (134 bp):
TACCGTAACAAAAAAATCAGAATGTATAAAATAAATGTTCATAAATATTCATTAATGAGTATAAA
ACAAGTGTGCGAATAAATACAAGCTCATATTTCACATTTGCATATCCCTTTCTCATTGTCTAATG
GTGA
Found at i:14143351 original size:80 final size:79
Alignment explanation
Indices: 14143204--14143419 Score: 261
Period size: 80 Copynumber: 2.7 Consensus size: 79
14143194 AGAAAGACCA
* * ** * *
14143204 TTCAGCAAACCATTCAGAATACAATTCAGCCTCCCAATACCATACAAAACCATTCAGTAAAACAA
1 TTCAGCAAACCATTAAGCATATGATTCAGCC-CCCAATATCATACAATACCATTCAGTAAAACAA
14143269 TATCAGACAACAAGG
65 TATCAGACAACAAGG
* * ** * *
14143284 TTTAGCAAACCATTAAGCATATGATTCAGTCCCCCAATATCACACAATACCATTTGGTAATATAA
1 TTCAGCAAACCATTAAGCATATGATTCAG-CCCCCAATATCATACAATACCATTCAGTAAAACAA
* *
14143349 TATCATACAATAAGG
65 TATCAGACAACAAGG
* *
14143364 TTCAGCAAACCATTAAGCATATGATTCAACTTCCCAATATCATACAATACCATTCA
1 TTCAGCAAACCATTAAGCATATGATTCAGC-CCCCAATATCATACAATACCATTCA
14143420 ACATAAAAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 111 0.97
81 2 0.02
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (79 bp):
TTCAGCAAACCATTAAGCATATGATTCAGCCCCCAATATCATACAATACCATTCAGTAAAACAAT
ATCAGACAACAAGG
Found at i:14145532 original size:698 final size:698
Alignment explanation
Indices: 14144208--14145654 Score: 2127
Period size: 698 Copynumber: 2.1 Consensus size: 698
14144198 ATTATAAAAA
* *
14144208 ACACCTTTA-ATAATCTC-AACAAATTCTACAAAGAAATTATTGAAGGCGTTTATAATCAAGAAA
1 ACACCTTTACA-AATC-CAAACAAATTCTACAAGGAAATTATTGAAGGCGTTTATAATCAAAAAA
* * *
14144271 TGCTTTCAATTTTTATGAAGATTTTTTAAAAAGAATTATTGAAGGTGTTTGTCAGTAGAAGACAC
64 TACATTCAATTTTTATGAAGATTTTTTAAAAAGAATTATTGAAGGTATTTGTCAGTAGAAGACAC
**
14144336 CGTTAATAATTCTAAAATATTTTTTAGAGGGAAATCATTGAAGGTGTGTGTTATTAACAAACACC
129 CGTTAATAATTCTAAAATATTTTTTAGAGGGAAATCATTGAAGGCATGTGTTATTAACAAACACC
* * * *
14144401 TTCTGTAATTAAGTACTAAGTTTAAATGAATTAGTAAAGGCATTTTTTTGGAATAAACATTTTCA
194 TTCTATAATTAAGTACTAAGTTTAAATGAATTAGTAAAGGCATTTTTCTAGAATAAACATCTTCA
** * * * *
14144466 ATATGTATGTAGATAATTTAAATGGAATTGTTGAAGGCCTTTATTAGTAGAAGACGCTTTTAATA
259 ATATGTACATAGATAATTTAAATGAAATTCTTGAAGGCCTTTATCAGTAGAAGACACTTTTAATA
* * *
14144531 CTACCAAAATTTCTTAGAGAGAAATCATTGAAGGCGGTGTTATAGAATAAACGCTTTCACTAACC
324 CTACCAAAATTTCTTAGAGAGAAATCATTGAAGGCGATGTTATAGAATAAACACCTTCACTAACC
* *
14144596 GTTACAAATTTTAAGTTCTCGATTATTGAAGGTATTTTTCGTTAGAAAATGCCATTACTAATACC
389 ATTACAAATTTTAAGTTCTCGATTATTGAAGGTATTTTTCGCTAGAAAATGCCATTACTAATACC
* * *
14144661 AATAATTTTAATTGGAAATTGTTCAATGCGTTTTAATTAAACTAAAAAAAAAAGCTTCTAGTAAT
454 AATAATTTTAATTGGAAATTATTCAATACGTTTTAATTAAAATAAAAAAAAAAGCTTCTAGTAAT
* * *
14144726 GGCATTTTTTTACAATAAACGCCTTCATTATTTTGAGCAGTGGAATATTGAAGACATTTTGCAAC
519 GGCATTTTTCTACAATAAACACCTTCAATATTTTGAGCAGTGGAATATTGAAGACATTTTGCAAC
* * *
14144791 AGAACACGCCTTCAATAAATTGATTCCAAAAATTTTTTACGAATTAGTCAA-GACATTTTTCTAG
584 AAAAAACACCTTCAATAAATTGATTCCAAAAATTTTTTACGAATTAGTCAATG-CATTTTTCTAG
* * * *
14144855 AATAAAAGTCTTCAATAGAAGGACATTGTCGAAGGCA-TTTAATAGTCGAAG
648 AATAAAAGCCTTCAATAGAAGGACATTATCGAA-GAAGTTTAACAGTCGAAG
** * * *
14144906 ATGCCTTTACAAATCCTAACAAATTCTATAAGGAAATTATTGAAGGCGTTTATAATTAAAAAATA
1 ACACCTTTACAAATCCAAACAAATTCTACAAGGAAATTATTGAAGGCGTTTATAATCAAAAAATA
* * **
14144971 CATTCAATTTTTATGAAGATTTTTTAAAAGGAATTTTTGAAGGTATTTGTCAGTAGAAGACGTCG
66 CATTCAATTTTTATGAAGATTTTTTAAAAAGAATTATTGAAGGTATTTGTCAGTAGAAGACACCG
* **
14145036 TTAATAATT-TCAAAATATTTTTTAGAGGGAAATTATTGAAGGCATGTGTTATTAACAAATGCCT
131 TTAATAATTCT-AAAATATTTTTTAGAGGGAAATCATTGAAGGCATGTGTTATTAACAAACACCT
* **
14145100 TCTATAATTAAGTTCTAAGTTTAAATGAATTAGTAAAGGTGTTTTTCTAGAATAAACATCTTCAA
195 TCTATAATTAAGTACTAAGTTTAAATGAATTAGTAAAGGCATTTTTCTAGAATAAACATCTTCAA
* * *
14145165 TATTTACATAGATAATTTAAATGAAATTCTTGAAGGCCTTTGTCAGTAGAAGACACTTTTAGTAC
260 TATGTACATAGATAATTTAAATGAAATTCTTGAAGGCCTTTATCAGTAGAAGACACTTTTAATAC
* *
14145230 TACCAAAATTTCTTAGAGGGAAATCATTGAAGGTGATGTTAT-GAAATAAACACCTTCACTAACC
325 TACCAAAATTTCTTAGAGAGAAATCATTGAAGGCGATGTTATAG-AATAAACACCTTCACTAACC
* *
14145294 ATTACAAATTTTAAGTTCTCGATTATTGAAGGTATTTTTTGCTAGAAGATGCCATTACTAATACC
389 ATTACAAATTTTAAGTTCTCGATTATTGAAGGTATTTTTCGCTAGAAAATGCCATTACTAATACC
* *
14145359 AATAATTTTAATTGGAAATTATTCAATATGTTTGTAATTAAAAT-AAAATAAAAGCTTCTAGTAA
454 AATAATTTTAATTGGAAATTATTCAATACGTTT-TAATTAAAATAAAAAAAAAAGCTTCTAGTAA
** * * * *
14145423 TGGTGTTTTTCTACAATAAACACCTTCAATATTTTGAGCAGTGGAATATTGAAGGCGTTTTGTAG
518 TGGCATTTTTCTACAATAAACACCTTCAATATTTTGAGCAGTGGAATATTGAAGACATTTTGCAA
* * *
14145488 TAAAAAACACCTTCAATAAATTGATTCC-AAAATTTTTCTACGAATTAGTCAATGTATTTTTTTA
583 CAAAAAACACCTTCAATAAATTGATTCCAAAAATTTTT-TACGAATTAGTCAATGCATTTTTCTA
*
14145552 GAATAAAAGCCTTCAATAGAAGGACATTATTGAAGAAGTTTAACAGTCGAAG
647 GAATAAAAGCCTTCAATAGAAGGACATTATCGAAGAAGTTTAACAGTCGAAG
* *
14145604 ACACCTTTACTAATCCAAACAAATTCTACAAGAAAATTATTGAAGGCGTTT
1 ACACCTTTACAAATCCAAACAAATTCTACAAGGAAATTATTGAAGGCGTTT
14145655 GTCATTAGAA
Statistics
Matches: 667, Mismatches: 74, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
697 14 0.02
698 642 0.96
699 11 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (698 bp):
ACACCTTTACAAATCCAAACAAATTCTACAAGGAAATTATTGAAGGCGTTTATAATCAAAAAATA
CATTCAATTTTTATGAAGATTTTTTAAAAAGAATTATTGAAGGTATTTGTCAGTAGAAGACACCG
TTAATAATTCTAAAATATTTTTTAGAGGGAAATCATTGAAGGCATGTGTTATTAACAAACACCTT
CTATAATTAAGTACTAAGTTTAAATGAATTAGTAAAGGCATTTTTCTAGAATAAACATCTTCAAT
ATGTACATAGATAATTTAAATGAAATTCTTGAAGGCCTTTATCAGTAGAAGACACTTTTAATACT
ACCAAAATTTCTTAGAGAGAAATCATTGAAGGCGATGTTATAGAATAAACACCTTCACTAACCAT
TACAAATTTTAAGTTCTCGATTATTGAAGGTATTTTTCGCTAGAAAATGCCATTACTAATACCAA
TAATTTTAATTGGAAATTATTCAATACGTTTTAATTAAAATAAAAAAAAAAGCTTCTAGTAATGG
CATTTTTCTACAATAAACACCTTCAATATTTTGAGCAGTGGAATATTGAAGACATTTTGCAACAA
AAAACACCTTCAATAAATTGATTCCAAAAATTTTTTACGAATTAGTCAATGCATTTTTCTAGAAT
AAAAGCCTTCAATAGAAGGACATTATCGAAGAAGTTTAACAGTCGAAG
Found at i:14145949 original size:15 final size:16
Alignment explanation
Indices: 14145924--14145955 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14145914 GAAAGCTTTG
14145924 TTAGTAGGGAAATTAT
1 TTAGTAGGGAAATTAT
14145940 TTAG-AGGGAAATTAT
1 TTAGTAGGGAAATTAT
14145955 T
1 T
14145956 GAAGGTGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (16 bp):
TTAGTAGGGAAATTAT
Found at i:14153924 original size:133 final size:135
Alignment explanation
Indices: 14153698--14154044 Score: 398
Period size: 134 Copynumber: 2.6 Consensus size: 135
14153688 CAAAAAATGC
** * * * * * *
14153698 CACTAAATTAGCGGCATCTAAAAGATATAAATGCCGCTAATATAGAGGCGTTTTCAGATACAAAC
1 CACTAAATTAGCAACGTCTGAAAGATACAAACGCCGCTAATATAGAGGCATTTTCAGATACAAAT
* * * * *
14153763 ACCTCTAAAGTAGGGGCGGTTTCAGTTAC-AAATGCCA-TAAAAACAACGACGTTTTTCAAAAAA
66 GCCTCTAAAGTAGCGACGATTTCAGTTACAAAATGCCAGTAAAAA-AACGACATTTTTCAAAAAA
14153826 AAA-ACT
130 AAACA-T
* * * * *
14153832 CCACTAAATTAGCAACGTTTGAAAGATACAAACGCCACTAATAT-GAAGCATTTTTATATACAAA
1 -CACTAAATTAGCAACGTCTGAAAGATACAAACGCCGCTAATATAGAGGCATTTTCAGATACAAA
* ** *
14153896 TGCCTCTAAAGTAGCGAC-ATTTCAGTTACAAAATGCCAGTAAAGAAACGACATTTTTCTCATAA
65 TGCCTCTAAAGTAGCGACGATTTCAGTTACAAAATGCCAGTAAAAAAACGACATTTTTCAAAAAA
14153960 AAACAT
130 AAACAT
* * * *
14153966 CACTAAATTAGCTACGTCTGAAAGATACAAACACCGTTAATATAGAGGTATTTTCAGATACAAAT
1 CACTAAATTAGCAACGTCTGAAAGATACAAACGCCGCTAATATAGAGGCATTTTCAGATACAAAT
14154031 GCCTCTAAAGTAGC
66 GCCTCTAAAGTAGC
14154045 AATGTTTTTA
Statistics
Matches: 177, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
133 48 0.27
134 88 0.50
135 41 0.23
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (135 bp):
CACTAAATTAGCAACGTCTGAAAGATACAAACGCCGCTAATATAGAGGCATTTTCAGATACAAAT
GCCTCTAAAGTAGCGACGATTTCAGTTACAAAATGCCAGTAAAAAAACGACATTTTTCAAAAAAA
AACAT
Found at i:14154154 original size:135 final size:131
Alignment explanation
Indices: 14153663--14154154 Score: 330
Period size: 135 Copynumber: 3.7 Consensus size: 131
14153653 TTATACAAAC
* * * * * * * *
14153663 GCCACCAAAGTAACGACACTTTTCTCA-AAAAATGC-CACTAAATTAGCGGCATCTAAAAGATAT
1 GCCACCAAAGAAACAACATTTTTCTCATAAAAA--CACACTAAATTAGC-ACGTTTGAAAGATAC
** * * ** *** *
14153726 AAATGCCGCTAATATAGAGGCGTTTTCAGATACAAACACCTCTAAAGTAGGGGCGGTTTCAGTTA
63 AAACACCGCTAATATGGA-GCATTTTCAGATACAAATGCCTCTAAAGTAGCAAC-ATTTCAGTTA
14153791 C-AAAT
126 CAAAAT
* * * * ** * *
14153796 GCCA-TAAAAACAACGACGTTTTTCAAAAAAAAAACTCCACTAAATTAGCAACGTTTGAAAGATA
1 GCCACCAAAGA-AACAACATTTTTC-TCATAAAAAC-ACACTAAATTAGC-ACGTTTGAAAGATA
* * * * * *
14153860 CAAACGCCACTAATATGAAGCATTTTTATATACAAATGCCTCTAAAGTAGCGACATTTCAGTTAC
62 CAAACACCGCTAATATGGAGCATTTTCAGATACAAATGCCTCTAAAGTAGCAACATTTCAGTTAC
14153925 AAAAT
127 AAAAT
** * *
14153930 GCCAGTAAAGAAACGACATTTTTCTCATAAAAACATCACTAAATTAGCTACGTCTGAAAGATACA
1 GCCACCAAAGAAACAACATTTTTCTCATAAAAACA-CACTAAATTAGC-ACGTTTGAAAGATACA
* * * ** *
14153995 AACACCGTTAATATAGAGGTATTTTCAGATACAAATGCCTCTAAAGTAGCAATGTTTTTAG-TAT
64 AACACCGCTAATATGGA-GCATTTTCAGATACAAATGCCTCTAAAGTAGCAA-CATTTCAGTTA-
14154059 CAAAAT
126 CAAAAT
* ** * *
14154065 GCCACCAAAGCAACAATGTTTTTCTCATAAAAATGCA-ACTAATTTAGCAGCGTTTGAAAGATAG
1 GCCACCAAAGAAACAACATTTTTCTCATAAAAA--CACACTAAATTAGCA-CGTTTGAAAGATAC
* * *
14154129 AAACACTGCTAAAATGGTGACATTTT
63 AAACACCGCTAATATGGAG-CATTTT
14154155 TTTGAAAATG
Statistics
Matches: 284, Mismatches: 60, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
132 3 0.01
133 72 0.25
134 83 0.29
135 124 0.44
137 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (131 bp):
GCCACCAAAGAAACAACATTTTTCTCATAAAAACACACTAAATTAGCACGTTTGAAAGATACAAA
CACCGCTAATATGGAGCATTTTCAGATACAAATGCCTCTAAAGTAGCAACATTTCAGTTACAAAA
T
Found at i:14155447 original size:28 final size:28
Alignment explanation
Indices: 14155407--14155463 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
14155397 TTTTGGGCTT
*
14155407 GGTTTGGGTTTTAAACCTAAAACCAAGG
1 GGTTTGGGTTTTAAACCCAAAACCAAGG
*
14155435 GGTTTGGGTTTTAAACCCAAAACTAAGG
1 GGTTTGGGTTTTAAACCCAAAACCAAGG
14155463 G
1 G
14155464 TCTAGCCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (28 bp):
GGTTTGGGTTTTAAACCCAAAACCAAGG
Found at i:14155551 original size:13 final size:13
Alignment explanation
Indices: 14155533--14155557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14155523 TTTAGTCATT
14155533 TTATATTATTTTA
1 TTATATTATTTTA
14155546 TTATATTATTTT
1 TTATATTATTTT
14155558 CAAAAAATAG
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATATTATTTTA
Found at i:14156554 original size:21 final size:21
Alignment explanation
Indices: 14156528--14156570 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
14156518 AGACACCCAT
14156528 CTGTGTTT-GGGATCAATTGGA
1 CTGTGTTTAGGG-TCAATTGGA
14156549 CTGTGTTTAGGGTCAATTGGA
1 CTGTGTTTAGGGTCAATTGGA
14156570 C
1 C
14156571 CTTGTCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.12, G:0.33, T:0.37
Consensus pattern (21 bp):
CTGTGTTTAGGGTCAATTGGA
Found at i:14156663 original size:3 final size:3
Alignment explanation
Indices: 14156655--14156713 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
14156645 TATATCATAT
* * * * * * *
14156655 TAC TAC TAC TAC TGC TGC TGC TGC TAC TAG TAC TAC TAT TTC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
14156703 TAC TAC TAC TA
1 TAC TAC TAC TA
14156714 TTATTATTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.37
Consensus pattern (3 bp):
TAC
Found at i:14156739 original size:3 final size:3
Alignment explanation
Indices: 14156733--14156778 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
14156723 TTATTATTAT
* * *
14156733 TAG TAG TAG TAG TAG TAG TGG TAG TAG T-G TAG TAT TAG TAT TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
14156779 TTGTTTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (3 bp):
TAG
Found at i:14156779 original size:6 final size:6
Alignment explanation
Indices: 14156712--14156780 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
14156702 CTACTACTAC
* * * * * * * *
14156712 TATTAT TATTAT TATTAT TATTAG TAGTAG TAGTAG TAGTGG TAGTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
*
14156760 T-GTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATT
14156781 GTTTTTGTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
5 5 0.09
6 52 0.91
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:14157335 original size:31 final size:31
Alignment explanation
Indices: 14157300--14157384 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
14157290 GATGAATGTT
* *
14157300 TGAAGTTTTCGATGAATTTTCTGGTGGGATA
1 TGAAGTTTTCGATGAATTTTCTGATGGAATA
* * * *
14157331 TGAAGTTTTTGATGAGTTTTTTTATGGAATA
1 TGAAGTTTTCGATGAATTTTCTGATGGAATA
* *
14157362 TGAATTTTTCGATGGGATTTTCT
1 TGAAGTTTTCGAT-GAATTTTCT
14157385 AAAATTTGAC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 36 0.86
32 6 0.14
ACGTcount: A:0.22, C:0.05, G:0.25, T:0.48
Consensus pattern (31 bp):
TGAAGTTTTCGATGAATTTTCTGATGGAATA
Found at i:14157676 original size:16 final size:15
Alignment explanation
Indices: 14157629--14157683 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 15
14157619 TCTCAATTTC
*
14157629 ATTTTATTTTTTGAT
1 ATTTTATTTTTTAAT
*
14157644 -TTTCATTTTTTAAT
1 ATTTTATTTTTTAAT
*
14157658 ATTTTATTTTATTATT
1 ATTTTATTTT-TTAAT
*
14157674 ATTCTATTTT
1 ATTTTATTTT
14157684 CTTGGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 12 0.36
15 8 0.24
16 13 0.39
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTTTAAT
Found at i:14162036 original size:17 final size:17
Alignment explanation
Indices: 14162016--14162048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14162006 GGTGCTAAAT
*
14162016 AAAAAAAACGAAAAGAA
1 AAAAAAAAAGAAAAGAA
14162033 AAAAAAAAAGAAAAGA
1 AAAAAAAAAGAAAAGA
14162049 GACAAAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAGAA
Found at i:14163286 original size:120 final size:120
Alignment explanation
Indices: 14163159--14163382 Score: 292
Period size: 120 Copynumber: 1.9 Consensus size: 120
14163149 TCTATCCCAA
* * ** *
14163159 TCAATCCTCTTT-GACCTCGACTCGATTTTAGTCACTTTATCTTTTTGACAT-GTAGTTTCATCC
1 TCAATCCT-TTTCAACCTCAACTCGATCCTAGTCACTTTATCTTTTTGAC-TCATAGTTTCAT-C
*
14163222 CAG-TCATTCGATCTCAATTCCATCTAGATCATTTCCTAACTCGTAGTTCTGTCATGG
63 CAGATCATTCGATCTCAATTCCATCCAGATCATTTCCTAACTCGTAGTTCTGTCATGG
* * * *
14163279 TCAATCCTTTTCAATCTCAACTCGATCCTGGTCACTTTATCTTTTTGACTCATAGTTTTATCCTG
1 TCAATCCTTTTCAACCTCAACTCGATCCTAGTCACTTTATCTTTTTGACTCATAGTTTCATCCAG
* *
14163344 ATCATTCGATCTCAGTTTCATCCAGATCATTTCCTAACT
66 ATCATTCGATCTCAATTCCATCCAGATCATTTCCTAACT
14163383 TGCGGTTCAG
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
119 7 0.08
120 82 0.92
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (120 bp):
TCAATCCTTTTCAACCTCAACTCGATCCTAGTCACTTTATCTTTTTGACTCATAGTTTCATCCAG
ATCATTCGATCTCAATTCCATCCAGATCATTTCCTAACTCGTAGTTCTGTCATGG
Found at i:14163591 original size:3 final size:3
Alignment explanation
Indices: 14163555--14163647 Score: 65
Period size: 3 Copynumber: 32.7 Consensus size: 3
14163545 GGACCATGCT
* * *
14163555 TTA TTA -TA TTA CTA -TA TTA TCA TTA TCA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
14163600 GTA -TA TTA -TA TGGTA TTA -TA TCA -TA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14163643 TTA TT
1 TTA TT
14163648 TTTTTGTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
2 12 0.17
3 56 0.79
5 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:14164727 original size:24 final size:25
Alignment explanation
Indices: 14164670--14164729 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
14164660 AAAAAAGAAG
14164670 TATGAAAAAATCTTTTTAAATAAGT
1 TATGAAAAAATCTTTTTAAATAAGT
14164695 TATGAAAAAATCTTTTTAAATAAGT
1 TATGAAAAAATCTTTTTAAATAAGT
* *
14164720 TTTCAAAAAA
1 TATGAAAAAA
14164730 ACAATTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (25 bp):
TATGAAAAAATCTTTTTAAATAAGT
Found at i:14168253 original size:17 final size:16
Alignment explanation
Indices: 14168229--14168261 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14168219 TAAGATAAAT
14168229 AAAAATATAAAATATA
1 AAAAATATAAAATATA
14168245 AAAACATATAAAATATA
1 AAAA-ATATAAAATATA
14168262 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATATAAAATATA
Found at i:14172024 original size:19 final size:18
Alignment explanation
Indices: 14171994--14172031 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
14171984 TTTGAATGAA
14171994 AATAGGAATAGCGGCAAT
1 AATAGGAATAGCGGCAAT
14172012 AATAGGCAATAGCGGCAAT
1 AATAGG-AATAGCGGCAAT
14172031 A
1 A
14172032 GCGGGCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.16
Consensus pattern (18 bp):
AATAGGAATAGCGGCAAT
Found at i:14172038 original size:19 final size:19
Alignment explanation
Indices: 14172000--14172041 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14171990 TGAAAATAGG
*
14172000 AATAGCGGCAATAATAGGC
1 AATAGCGGCAATAACAGGC
* *
14172019 AATAGCGGCAATAGCGGGC
1 AATAGCGGCAATAACAGGC
14172038 AATA
1 AATA
14172042 ACGGACCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (19 bp):
AATAGCGGCAATAACAGGC
Done.