Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold193
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: 886014
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 71246 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:614825 original size:111 final size:109
Alignment explanation
Indices: 614595--614819 Score: 319
Period size: 111 Copynumber: 2.0 Consensus size: 109
614585 ATTAGATTAG
* * * *
614595 GGTTT-AGTGTTTATGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAAAGTTATTTGAGTAA
1 GGTTTAAG-GTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGATTTAAAGTTACTTGAGTAA
*
614659 ATTAATTATAATTTTTTTTAAAAAATAGATTAGGGTTTAGGGTTTAA
65 ATTAATTATAA--TATTTTAAAAAATAGATTAGGGTTTAGGGTTTAA
**
614706 GGTTTAAGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGATTTAGGGTTACTTGAGTAAA
1 GGTTTAAGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGATTTAAAGTTACTTGAGTAAA
* *
614771 TTAATTATAA-ATTTTAAAAAATTAGATTAGGGTTTAGTGTTTAT
66 TTAATTATAATATTTTAAAAAA-TAGATTAGGGTTTAGGGTTTAA
614815 GGTTT
1 GGTTT
614820 TTAAGGAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
108 10 0.10
109 25 0.24
111 66 0.64
112 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.42
Consensus pattern (109 bp):
GGTTTAAGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGATTTAAAGTTACTTGAGTAAA
TTAATTATAATATTTTAAAAAATAGATTAGGGTTTAGGGTTTAA
Found at i:614890 original size:206 final size:206
Alignment explanation
Indices: 614517--614916 Score: 622
Period size: 206 Copynumber: 1.9 Consensus size: 206
614507 AATTTTAGGG
* * *
614517 TTTTAAAGAAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAAATAAATTAATTATAAATTTTAA
1 TTTTAAAGAAAAATCAAATAAATAAGGATTTAGGGTTACTTAAATAAATTAATTATAAATTTTAA
* *
614582 AAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAAAG
66 AAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAAATTAGAGCTTAAAG
* * *** * *
614647 TTATTTGAGTAAATTAATTATAATTTTTTTTAAAAAATAGATTAGGGTTTAGGGTTTAAGGTTTA
131 TTACTTGAGTAAATTAATTATAATATTTAAAAAAAAATAGATTAAGATTTAGGGTTTAAGGTTTA
614712 AGGTTTAAGGT
196 AGGTTTAAGGT
* * *
614723 TTTTAAAGAAAAATCAAATAAATTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAA
1 TTTTAAAGAAAAATCAAATAAATAAGGATTTAGGGTTACTTAAATAAATTAATTATAAATTTTAA
**
614788 AAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAGTCAAATAAATTAGAGCTTAGG
66 AAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAA-TCAAATAAATTAGAGCTTAAA
*
614853 GTTACTTGAGTAAATTAATTATAA-ATTTAAAAAAAAATAGATTAAGATTTAGGGTTTAGGGTTT
130 GTTACTTGAGTAAATTAATTATAATATTTAAAAAAAAATAGATTAAGATTTAGGGTTTAAGGTTT
614917 TTAAAGAAAA
Statistics
Matches: 175, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
206 135 0.77
207 40 0.23
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (206 bp):
TTTTAAAGAAAAATCAAATAAATAAGGATTTAGGGTTACTTAAATAAATTAATTATAAATTTTAA
AAAATTAGATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAAATTAGAGCTTAAAG
TTACTTGAGTAAATTAATTATAATATTTAAAAAAAAATAGATTAAGATTTAGGGTTTAAGGTTTA
AGGTTTAAGGT
Found at i:614948 original size:96 final size:94
Alignment explanation
Indices: 614702--614951 Score: 356
Period size: 96 Copynumber: 2.6 Consensus size: 94
614692 GGTTTAGGGT
*
614702 TTAAGGTTTAAGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGATTTAGGGTTACTTGAG
1 TTAAGGTTTAGGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGG-TTTAGGGTTACTTGAG
* *
614767 TAAATTAATTATAAATTTTAAAAAATTAGA
65 TAAATTAATTATAAATTTAAAAAAAATAGA
* * * * *
614797 TTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAAGTCAAATAAATTAGAGCTTAGGGTTACTTGA
1 TTAAGGTTTAGGGTTTAAGGTTTTTAAAGAAAAA-TCAAATAAATTAG-GTTTAGGGTTACTTGA
614862 GTAAATTAATTATAAATTTAAAAAAAAATAGA
64 GTAAATTAATTATAAATTT-AAAAAAAATAGA
* * *
614894 TTAAGATTTAGGGTTTAGGGTTTTTAAAGAAAAATCAAATAAACTAAGGTTTAGGGTT
1 TTAAGGTTTAGGGTTTAAGGTTTTTAAAGAAAAATCAAATAAA-TTAGGTTTAGGGTT
614952 TAGGGTTACT
Statistics
Matches: 136, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
95 29 0.21
96 64 0.47
97 43 0.32
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (94 bp):
TTAAGGTTTAGGGTTTAAGGTTTTTAAAGAAAAATCAAATAAATTAGGTTTAGGGTTACTTGAGT
AAATTAATTATAAATTTAAAAAAAATAGA
Found at i:615497 original size:7 final size:7
Alignment explanation
Indices: 615487--615512 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
615477 TTATATACAT
615487 AATACTA
1 AATACTA
615494 AATACTA
1 AATACTA
615501 AATACTA
1 AATACTA
615508 AATAC
1 AATAC
615513 GAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:616622 original size:14 final size:15
Alignment explanation
Indices: 616603--616632 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
616593 TCAATTTTTT
616603 ATTT-AAAAAAATAA
1 ATTTAAAAAAAATAA
616617 ATTTAAAAAAAATAA
1 ATTTAAAAAAAATAA
616632 A
1 A
616633 ATTAGAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTTAAAAAAAATAA
Found at i:621742 original size:6 final size:6
Alignment explanation
Indices: 621731--621755 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
621721 TTTTCATTTC
621731 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
621756 GGGAATATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:628131 original size:21 final size:21
Alignment explanation
Indices: 628107--628165 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
628097 AGAAGAGAAT
628107 AGAAAATAAAGAT-AAAATAAA
1 AGAAAATAAA-ATGAAAATAAA
* * *
628128 AGAAAGTTAAATGAACATAAA
1 AGAAAATAAAATGAAAATAAA
* *
628149 AGAAAAAAAAAGGAAAA
1 AGAAAATAAAATGAAAA
628166 AATAAATTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.73, C:0.02, G:0.14, T:0.12
Consensus pattern (21 bp):
AGAAAATAAAATGAAAATAAA
Found at i:628918 original size:2 final size:2
Alignment explanation
Indices: 628911--628943 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
628901 GTGGAACTTT
628911 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
628944 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:629805 original size:2 final size:2
Alignment explanation
Indices: 629798--629832 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
629788 AATACTTAAA
* *
629798 AT AT AT AT AT CT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
629833 AGGTTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:638773 original size:15 final size:15
Alignment explanation
Indices: 638749--638782 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
638739 TCTAAACCCT
638749 AAACCATAAA-CATA
1 AAACCATAAACCATA
638763 AAACTCATAAACCATA
1 AAAC-CATAAACCATA
638779 AAAC
1 AAAC
638783 ACTAAACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 6 0.33
16 8 0.44
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCATAAACCATA
Found at i:638788 original size:15 final size:15
Alignment explanation
Indices: 638740--638789 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
638730 ATCGTAAGCT
* *
638740 CTAAACCCTAAACCA
1 CTAAACCATAAAACA
*
638755 -TAAA-CATAAAACT
1 CTAAACCATAAAACA
638768 CATAAACCATAAAACA
1 C-TAAACCATAAAACA
638784 CTAAAC
1 CTAAAC
638790 TACTAAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 6 0.21
14 4 0.14
15 9 0.32
16 9 0.32
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAAACCATAAAACA
Found at i:638798 original size:23 final size:22
Alignment explanation
Indices: 638742--638804 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
638732 CGTAAGCTCT
*
638742 AAACCCTAAACCAT-AAACATA
1 AAACTCTAAACCATAAAACATA
638763 AAACTCATAAACCATAAAACACT-
1 AAACTC-TAAACCATAAAACA-TA
*
638786 AAACTACTAAACCCTAAAA
1 AAACT-CTAAACCATAAAA
638805 TCCAAGTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 8 0.22
23 21 0.58
24 2 0.06
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACTCTAAACCATAAAACATA
Found at i:640291 original size:229 final size:228
Alignment explanation
Indices: 639771--640410 Score: 699
Period size: 229 Copynumber: 2.8 Consensus size: 228
639761 CGGCGTTTTC
* * *
639771 AAGATCTTTAGTGGCGTTCGGTTTAAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGAT
1 AAGATCTTTAGTGGCGTTC-GTATAAAGCGCTGCTAAATGCCACCATACATCAAGGCCAAACGAT
* * *
639836 GCGTTTTGGTTAACTTTCTGCGGCGTTTATTCGTTAAGCGCCGTTAAT-TCTGATCTTTCGCGGT
65 GCGTTTTGGTTAACTTTCTGCGGCGTTTATCCGATAAGCGCCGTTAATATCTGATCTTTAGCGGT
* * * * * *
639900 GATTTTTA-TTAGCGCCGCTAGAA-TCGCAATTGATTAAAACCAAACGCTGCATTTAGTTTTAAC
130 G-TTTTTAGTTAGCGCCGCTA-AAGCCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAAC
* * * *
639963 AGACTCGGCGGCGTTTTAACGAAAACGCTGTTAATG
193 AGACTCGGCGGCGCTATAACGAAAACGCCGCTAATG
*
639999 AAGATCTTTAGTGGCGTTCAGT-TAAAAGCG-TCGCTGAATGCCACCATACATCAAGGCCAAACG
1 AAGATCTTTAGTGGCGTTC-GTAT-AAAGCGCT-GCTAAATGCCACCATACATCAAGGCCAAACG
* * *
640062 ATGCGTTTTGGTTAGCTTTCTGCGGCGTTTATCCGGTAAGCGCCGTTAATATC-GATTTTTAGCG
63 ATGCGTTTTGGTTAACTTTCTGCGGCGTTTATCCGATAAGCGCCGTTAATATCTGATCTTTAGCG
* *
640126 GTGTTTTTATGTTTGCGCCGCTAAAGCCACAATTGATGAACACCGAACGCTGCGTTTAGTTTTAA
128 GTGTTTTTA-GTTAGCGCCGCTAAAGCCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAA
* ** *** *
640191 CA-TCTTTTGCGGCGCTATGGTGAAATCGCCGCTAATG
192 CAGAC-TCGGCGGCGCTATAACGAAAACGCCGCTAATG
* * * *
640228 AAGATCTTTAGTGGCGTT-GTAACTAAAGCGCTGCTAAATGCCACTATACCTCGAGGTCAAACGA
1 AAGATCTTTAGTGGCGTTCGT-A-TAAAGCGCTGCTAAATGCCACCATACATCAAGGCCAAACGA
* * ** * *
640292 TGCATTTTGGTTAACTTTCTGTGGCGTTTA-CTATATAAGTGCCGTTAATA-CTGATCTTTGGCG
64 TGCGTTTTGGTTAACTTTCTGCGGCGTTTATC-CGATAAGCGCCGTTAATATCTGATCTTTAGCG
* * * *
640355 GCT-TTTCTAGATTAGTGCCGCTAAAGCAACAATTGATCAACACCGAACCCTGCGTT
128 G-TGTTTTTAG-TTAGCGCCGCTAAAGCCACAATTGATCAACACCGAACGCTGCGTT
640411 CTGCTTTAAT
Statistics
Matches: 350, Mismatches: 47, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
227 9 0.03
228 121 0.35
229 217 0.62
230 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (228 bp):
AAGATCTTTAGTGGCGTTCGTATAAAGCGCTGCTAAATGCCACCATACATCAAGGCCAAACGATG
CGTTTTGGTTAACTTTCTGCGGCGTTTATCCGATAAGCGCCGTTAATATCTGATCTTTAGCGGTG
TTTTTAGTTAGCGCCGCTAAAGCCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAACAGA
CTCGGCGGCGCTATAACGAAAACGCCGCTAATG
Found at i:642819 original size:7 final size:7
Alignment explanation
Indices: 642809--642861 Score: 70
Period size: 7 Copynumber: 7.0 Consensus size: 7
642799 TGATATATTT
642809 TTATGTA
1 TTATGTA
642816 TTATGTAA
1 TTATGT-A
642824 GTTATGTAA
1 -TTATGT-A
642833 GTTATGTA
1 -TTATGTA
642841 TTATGTA
1 TTATGTA
642848 TTATGTA
1 TTATGTA
642855 TTATGTA
1 TTATGTA
642862 AGTACTGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
7 27 0.61
8 2 0.05
9 15 0.34
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (7 bp):
TTATGTA
Found at i:642830 original size:9 final size:9
Alignment explanation
Indices: 642816--643030 Score: 132
Period size: 9 Copynumber: 25.9 Consensus size: 9
642806 TTTTTATGTA
642816 TTATGTAAG
1 TTATGTAAG
642825 TTATGTAAG
1 TTATGTAAG
642834 TTATGT-A-
1 TTATGTAAG
642841 TTATGT-A-
1 TTATGTAAG
642848 TTATGT-A-
1 TTATGTAAG
642855 TTATGTAAG
1 TTATGTAAG
642864 -TACTGTAAG
1 TTA-TGTAAG
642873 -TA---AAG
1 TTATGTAAG
642878 -TACTGTAAG
1 TTA-TGTAAG
*
642887 TAATGTAAG
1 TTATGTAAG
642896 TTATGTAAG
1 TTATGTAAG
* *
642905 TAATG-CA-
1 TTATGTAAG
642912 TTATGTAAG
1 TTATGTAAG
*
642921 TTGTGTATA-
1 TTATGTA-AG
*
642930 ATAT-TAA-
1 TTATGTAAG
642937 TTATGTAAG
1 TTATGTAAG
*
642946 TTGTGT-A-
1 TTATGTAAG
*
642953 TAATGTAAG
1 TTATGTAAG
*
642962 TTAAG-AAGG
1 TTATGTAA-G
642971 TTATGT-A-
1 TTATGTAAG
642978 TTATGTAAG
1 TTATGTAAG
*
642987 TTATTTAAG
1 TTATGTAAG
*
642996 TTAAGTAAG
1 TTATGTAAG
* *
643005 TTATTTAAT
1 TTATGTAAG
643014 TTATGTAAG
1 TTATGTAAG
643023 TTATGTAA
1 TTATGTAA
643031 CACTACACCA
Statistics
Matches: 163, Mismatches: 24, Indels: 38
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.03
7 38 0.23
8 16 0.10
9 102 0.63
10 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:642837 original size:25 final size:25
Alignment explanation
Indices: 642809--643030 Score: 130
Period size: 25 Copynumber: 9.0 Consensus size: 25
642799 TGATATATTT
642809 TTATGT-ATTATGTAAGTTATGTAA
1 TTATGTAATTATGTAAGTTATGTAA
642833 GTTATGT-ATTATGT-A-TTATGT-A
1 -TTATGTAATTATGTAAGTTATGTAA
*
642855 TTATGTAAGTACTGTAAG-TA---AA
1 TTATGTAATTA-TGTAAGTTATGTAA
* *
642877 GTACTGTAAGTAATGTAAGTTATGTAA
1 TTA-TGTAA-TTATGTAAGTTATGTAA
* * *
642904 GTAATG-CATTATGTAAGTTGTGTATA
1 -TTATGTAATTATGTAAGTTATGTA-A
* *
642930 ATAT-TAATTATGTAAGTTGTGT-A
1 TTATGTAATTATGTAAGTTATGTAA
* *
642953 TAATGTAAGTTAAG-AAGGTTATGT-A
1 TTATGTAA-TTATGTAA-GTTATGTAA
* *
642978 TTATGTAAGTTATTTAAGTTAAGTAA
1 TTATGTAA-TTATGTAAGTTATGTAA
*
643004 GTTATTTAATTTATGTAAGTTATGTAA
1 -TTATGTAA-TTATGTAAGTTATGTAA
643031 CACTACACCA
Statistics
Matches: 153, Mismatches: 24, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
21 6 0.04
22 7 0.05
23 23 0.15
24 12 0.08
25 73 0.48
26 5 0.03
27 26 0.17
28 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (25 bp):
TTATGTAATTATGTAAGTTATGTAA
Found at i:642878 original size:14 final size:14
Alignment explanation
Indices: 642861--642889 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
642851 TGTATTATGT
642861 AAGTACTGTAAGTA
1 AAGTACTGTAAGTA
642875 AAGTACTGTAAGTA
1 AAGTACTGTAAGTA
642889 A
1 A
642890 TGTAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AAGTACTGTAAGTA
Found at i:643451 original size:154 final size:156
Alignment explanation
Indices: 643165--643735 Score: 732
Period size: 154 Copynumber: 3.7 Consensus size: 156
643155 CACAAAAAAC
* * *
643165 CTAAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTTTTATTGACAGTAATAAAATTCG
1 CTAAAATAATGTAAAATAATAAAATTA-AAAAATAATATATTTTTATTGAAAGTAATAAAATCCG
* * * * * *
643229 -GGAAAAAATACGAGCAAATGACCGAAATAAGGGTTTTTTATTAAATTTATTT-AAAACCACACT
65 AGGAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAACACACT
643292 AAATTAATAAATTTCAAACATAATGTA
130 AAATTAATAAATTTCAAACATAATGTA
*
643319 CTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTTT-TT-AAAGTAATAAAATCCGA
1 CTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGA
* * * * * *
643382 GGAGAAAATACGAACAAAGGGGCGAAATAAGGATTTTTTACTAAATATT-TTTAAAAAACAGAAT
66 GGAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAAT-TTATTTAAAAAACACACT
* **
643446 TAATTAATCTATTTCAAACATAATGTA
130 AAATTAATAAATTTCAAACATAATGTA
** * * *
643473 CTAAAATAAAATAAAATAAAAAAATAAAAAAAATAATATATTTTTATTGAAAGTAATTAAATCC-
1 CTAAAATAATGTAAAATAATAAAAT-TAAAAAATAATATATTTTTATTGAAAGTAATAAAATCCG
* *
643537 AGGAAAAAAATACGAGCAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAAAACACA
65 AGG-AAAAAATACGAACAAAGGGCCAAAATAAGGGTT-TTTTACTAAATTTATTTAAAAAACACA
*
643602 CTAAATTAATGAATTTCAAACATAATGTA
128 CTAAATTAATAAATTTCAAACATAATGTA
* * *
643631 CTAAAATAATGTAAAATAATAAAATTATAAAAT-A-GTATTTTT-TT-AAAGTAATAAAATCCGG
1 CTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGA
* *
643692 GGAAAAAATACGAACAAATGGTCAAAATAAGGGTTTTTTACTAA
66 GGAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAA
643736 TTTTTTTTTG
Statistics
Matches: 360, Mismatches: 46, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
152 22 0.06
153 88 0.24
154 99 0.28
155 26 0.07
156 6 0.02
157 50 0.14
158 69 0.19
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.30
Consensus pattern (156 bp):
CTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGA
GGAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATTTAAAAAACACACTA
AATTAATAAATTTCAAACATAATGTA
Found at i:643504 original size:9 final size:9
Alignment explanation
Indices: 643475--643508 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
643465 ATAATGTACT
643475 AAAATAAAA
1 AAAATAAAA
643484 TAAAAT-AAA
1 -AAAATAAAA
643493 AAAATAAAA
1 AAAATAAAA
643502 AAAATAA
1 AAAATAA
643509 TATATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.22
9 13 0.57
10 5 0.22
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:643505 original size:17 final size:18
Alignment explanation
Indices: 643475--643508 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
643465 ATAATGTACT
643475 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
643493 AAAATAAAA-AAAATAA
1 AAAATAAAATAAAATAA
643509 TATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:646761 original size:23 final size:23
Alignment explanation
Indices: 646716--646762 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
646706 TAAAAATAAT
*
646716 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
646739 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
646762 A
1 A
646763 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:646838 original size:41 final size:41
Alignment explanation
Indices: 646739--646853 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 41
646729 ATAATGTAAA
646739 AACTAACAATCATACTAA-C-TAAAATAATAATTAGGGTTTTT
1 AACTAACAAT-ATACTAATCATAAAATAAT-ATTAGGGTTTTT
*
646780 -ACTAATCCTAATA-ACTAATCATAATAATAATATTA-GTTTTTT
1 AACTAA--C-AATATACTAATCATAA-AATAATATTAGGGTTTTT
646822 AACTAACAATATACTAAGT-A-AAAATAATATTA
1 AACTAACAATATACTAA-TCATAAAATAATATTA
646854 ATAACTAAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
39 10 0.16
40 11 0.17
41 12 0.19
42 10 0.16
43 15 0.23
44 6 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (41 bp):
AACTAACAATATACTAATCATAAAATAATATTAGGGTTTTT
Found at i:651963 original size:28 final size:29
Alignment explanation
Indices: 651910--651965 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
651900 TGATTAACAA
* *
651910 CTCAAAAACACACCATATTTATACAAAAC
1 CTCAAAAACACACCAAATCTATACAAAAC
*
651939 CTCAAAAACTCACCAAATCT-TACAAAA
1 CTCAAAAACACACCAAATCTATACAAAA
651966 ATCTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (29 bp):
CTCAAAAACACACCAAATCTATACAAAAC
Found at i:652877 original size:42 final size:42
Alignment explanation
Indices: 652830--652933 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
652820 TAGAGATATG
652830 GGCGTGTGCCCAGGCCGTGTGAGCCACACAAGCAAGGACA-T
1 GGCGTGTGCCCAGGCCGTGTGAGCCACACAAGCAAGGACATT
** *
652871 GAGCGTGTGCCCATACCGTGTGAGCTACACAAGCAAGGACATT
1 G-GCGTGTGCCCAGGCCGTGTGAGCCACACAAGCAAGGACATT
* *
652914 GGGGTGTGTCCAGGCCGTGT
1 GGCGTGTGCCCAGGCCGTGT
652934 AACTCATTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 51 0.94
43 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.35, T:0.17
Consensus pattern (42 bp):
GGCGTGTGCCCAGGCCGTGTGAGCCACACAAGCAAGGACATT
Found at i:653060 original size:104 final size:104
Alignment explanation
Indices: 652862--653050 Score: 243
Period size: 104 Copynumber: 1.8 Consensus size: 104
652852 GCCACACAAG
* * * * *
652862 CAAGGACATGAGCGTGTGCCCATACCGTGTGAGCTACACAAGCAAGGACATTGGGGTGTGTCCAG
1 CAAGGACATGAGCATGTGCCCAGACCATGTGAGCTACACAAGCAAGGACATAGGCGTGTGTCCAG
* *
652927 GCCGTGTAACTCATTGTTTACACTTTAGAACCATATTGC
66 GCCGTGTAACTCACTATTTACACTTTAGAACCATATTGC
* * * ** * *
652966 CAAGGACATGGGCATGTGCCCAGGCTATGTGAGCTACATGAGTAAGGACATAGGCGTGTGTCTAG
1 CAAGGACATGAGCATGTGCCCAGACCATGTGAGCTACACAAGCAAGGACATAGGCGTGTGTCCAG
*
653031 GTCGTGTAACTCACTATTTA
66 GCCGTGTAACTCACTATTTA
653051 TGATTTAGAA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
104 70 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (104 bp):
CAAGGACATGAGCATGTGCCCAGACCATGTGAGCTACACAAGCAAGGACATAGGCGTGTGTCCAG
GCCGTGTAACTCACTATTTACACTTTAGAACCATATTGC
Found at i:657076 original size:90 final size:90
Alignment explanation
Indices: 656936--657234 Score: 338
Period size: 90 Copynumber: 3.3 Consensus size: 90
656926 ACAAAAAAAA
* * * * * *
656936 TTACATATACAAGAA-AATAC-AAGCATTCTACAAAACTAATATATGAAAATATATAATTCGACC
1 TTACAGATACAAAAATAATACGAA-CATTTTACAAAACTGATATAAGAAAATATAAAATTCGACC
*
656999 AATAAATAATACCGACTAAATTTTAT
65 AATAAATAATACAGACTAAATTTTAT
* * *
657025 TTACATATACAAAAATAATACGAACATTTTA-GAAACTTGATATACGAAAATATAAAATTCGACC
1 TTACAGATACAAAAATAATACGAACATTTTACAAAAC-TGATATAAGAAAATATAAAATTCGACC
* * *
657089 AACAAATAATACAAACTAAAATATT-T
65 AATAAATAATACAGACT-AAATTTTAT
* * **
657115 TTACAGAT-CTAAAAATAATGCAAACATTTTACAAAACTGATATAAGAAAATATAAAATTTTACC
1 TTACAGATAC-AAAAATAATACGAACATTTTACAAAACTGATATAAGAAAATATAAAATTCGACC
* * *
657179 AATAAATTATACAGACTAAAATTGAT
65 AATAAATAATACAGACTAAATTTTAT
*
657205 TTACGGATACAAAAATAATACGAACATTTT
1 TTACAGATACAAAAATAATACGAACATTTT
657235 GAATAGTAGT
Statistics
Matches: 176, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
89 23 0.13
90 140 0.80
91 13 0.07
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (90 bp):
TTACAGATACAAAAATAATACGAACATTTTACAAAACTGATATAAGAAAATATAAAATTCGACCA
ATAAATAATACAGACTAAATTTTAT
Found at i:658437 original size:25 final size:26
Alignment explanation
Indices: 658399--658448 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
658389 ATTTACACTT
*
658399 TTAAAATTTATAAAAATATA-AATTA
1 TTAAAATATATAAAAATATATAATTA
*
658424 TTAAAATATGTAAAAATATATAATT
1 TTAAAATATATAAAAATATATAATT
658449 TAAATCTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TTAAAATATATAAAAATATATAATTA
Found at i:660100 original size:26 final size:25
Alignment explanation
Indices: 660071--660127 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
660061 AAATATTTTT
*
660071 TAAAATTAAAAAAATTAAAACTATAA
1 TAAAATTAAAAAAATAAAAACTA-AA
*
660097 TAAAACTAAAAAAATAAAAACTAAA
1 TAAAATTAAAAAAATAAAAACTAAA
*
660122 AAAAAT
1 TAAAAT
660128 GTTGGTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (25 bp):
TAAAATTAAAAAAATAAAAACTAAA
Found at i:660755 original size:30 final size:30
Alignment explanation
Indices: 660721--660783 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
660711 ACTTATTTTA
*
660721 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
*
660751 TTGTTAATTTTGTTACTATTTTAGAGACAT
1 TTGTTAATTTTGTTACTATTTTAAAGACAT
660781 TTG
1 TTG
660784 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTACTATTTTAAAGACAT
Found at i:661467 original size:17 final size:17
Alignment explanation
Indices: 661424--661468 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
661414 ATTATGAAAA
* *
661424 AATTGAGTTAAAAAATT
1 AATTTAGTTAATAAATT
*
661441 -ATTTAATTAATAAATT
1 AATTTAGTTAATAAATT
661457 AATTTAGTTAAT
1 AATTTAGTTAAT
661469 TTAATTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (17 bp):
AATTTAGTTAATAAATT
Found at i:662982 original size:19 final size:20
Alignment explanation
Indices: 662949--662995 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
662939 CAGTAAAATA
662949 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
662969 TTTTCTGG-AAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
662988 TTTTCTGG
1 TTTTCTGG
662996 TGTTTGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:675719 original size:17 final size:17
Alignment explanation
Indices: 675697--675746 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
675687 TCTTCAACAG
675697 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
*
675714 ACAGAT--TAAA--CAA
1 ACAGATGCAAAATCCAA
675727 ACAGATGCAAAATCCAA
1 ACAGATGCAAAATCCAA
675744 ACA
1 ACA
675747 TATTCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 9 0.33
15 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.22, G:0.10, T:0.12
Consensus pattern (17 bp):
ACAGATGCAAAATCCAA
Found at i:675776 original size:9 final size:9
Alignment explanation
Indices: 675762--675789 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
675752 TTCAACAAAA
675762 AAGAATAAG
1 AAGAATAAG
675771 AAGAATAAG
1 AAGAATAAG
675780 AAGAATAAG
1 AAGAATAAG
675789 A
1 A
675790 TTTGAGTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.21, T:0.11
Consensus pattern (9 bp):
AAGAATAAG
Found at i:682808 original size:70 final size:68
Alignment explanation
Indices: 682725--682858 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 68
682715 ATTTGAAGTA
* * **
682725 AATTGATTTGAAATCTAT-GATGATTTAAATTTTGCTATCTAGTTTAGATAAAATCATCGTAATA
1 AATTGATTCGAAATCTATAAACAATTTAAA-TTT--TATCTAGTTTAGATAAAATCATCGTAATA
682789 AAAATG
63 AAAATG
* *
682795 AATTGATTCGAAATCTATCAAACAATTTAAATTTTATCTCGTTTAGATAAAATCATCGTGATAA
1 AATTGATTCGAAATCTAT-AAACAATTTAAATTTTATCTAGTTTAGATAAAATCATCGTAATAA
682859 TAAAAAGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 28 0.50
70 17 0.30
71 3 0.05
72 8 0.14
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (68 bp):
AATTGATTCGAAATCTATAAACAATTTAAATTTTATCTAGTTTAGATAAAATCATCGTAATAAAA
ATG
Found at i:684956 original size:23 final size:24
Alignment explanation
Indices: 684904--684959 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
684894 ACCTAAATAT
684904 ATATATTTGATTAAAAAGTTAAAAA
1 ATATATTTGATTAAAAAG-TAAAAA
* *
684929 GTATATTTGTTTAAAAA-TAAAAA
1 ATATATTTGATTAAAAAGTAAAAA
684952 ATATATTT
1 ATATATTT
684960 AATATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.46
25 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (24 bp):
ATATATTTGATTAAAAAGTAAAAA
Found at i:685383 original size:27 final size:27
Alignment explanation
Indices: 685345--685402 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
685335 TTAATAGAAT
*
685345 TTAGGTATTAAAGTATTGTTTATTATG
1 TTAGGTATTAAAGTATTGTTAATTATG
*
685372 TTAGGTCTTAAAGTATTGTTAATTATG
1 TTAGGTATTAAAGTATTGTTAATTATG
685399 TTAG
1 TTAG
685403 TTTCGTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (27 bp):
TTAGGTATTAAAGTATTGTTAATTATG
Found at i:705505 original size:3 final size:3
Alignment explanation
Indices: 705497--705523 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
705487 CAAAACAATT
705497 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
705524 GGAGGTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:706990 original size:14 final size:14
Alignment explanation
Indices: 706965--707022 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
706955 TTTTTTTACT
706965 AAAATA-ATATTAA
1 AAAATATATATTAA
706978 AAAATATATATTAA
1 AAAATATATATTAA
* * * *
706992 AATGACATCTTTTAA
1 AA-AATATATATTAA
*
707007 AAAATATGTATTAA
1 AAAATATATATTAA
707021 AA
1 AA
707023 TGGTACATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 6 0.17
14 19 0.54
15 10 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATATTAA
Found at i:707188 original size:24 final size:24
Alignment explanation
Indices: 707146--707197 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
707136 AATAAAAGTC
** *
707146 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
707170 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
707194 AAAT
1 AAAT
707198 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:711523 original size:24 final size:24
Alignment explanation
Indices: 711496--711542 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
711486 AAACCTAATT
711496 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
*
711520 CTAATAAATGTTAAATATATTAT
1 CTAATAAATGTCAAATATATTAT
711543 ACTCATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:711558 original size:24 final size:24
Alignment explanation
Indices: 711508--711561 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
711498 AATCAAAGTC
* **
711508 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
* *
711532 AAATATATTATACTCATTAATACT
1 AAATATATTATACTAATAAATACT
711556 AAATAT
1 AAATAT
711562 TCTAGAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:712951 original size:21 final size:21
Alignment explanation
Indices: 712927--712973 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
712917 AAAGCTATTT
712927 ATAAT-AAACAAAATAAATAGA
1 ATAATCAAA-AAAATAAATAGA
*
712948 ATAATCAAAGAAATAAATAGA
1 ATAATCAAAAAAATAAATAGA
712969 ATAAT
1 ATAAT
712974 TTTCTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (21 bp):
ATAATCAAAAAAATAAATAGA
Found at i:716539 original size:22 final size:22
Alignment explanation
Indices: 716511--716565 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
716501 TAGTGAAATG
716511 ACAACAAAACAGTGGAAAAACA
1 ACAACAAAACAGTGGAAAAACA
* *
716533 ACAACAAAATAGTGGAAAAATA
1 ACAACAAAACAGTGGAAAAACA
*
716555 ACATCAAAACA
1 ACAACAAAACA
716566 ATAAATTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.64, C:0.16, G:0.11, T:0.09
Consensus pattern (22 bp):
ACAACAAAACAGTGGAAAAACA
Found at i:731910 original size:16 final size:15
Alignment explanation
Indices: 731875--731925 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
731865 GTGCATTGTT
*
731875 AAAACCTTATTAGGA
1 AAAACCTTATGAGGA
*
731890 AAAACCTTATGAGATA
1 AAAACCTTATGAG-GA
*
731906 AAAACCTAATGAAGGA
1 AAAACCTTATG-AGGA
731922 AAAA
1 AAAA
731926 GAATACACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 12 0.40
16 16 0.53
17 2 0.07
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.20
Consensus pattern (15 bp):
AAAACCTTATGAGGA
Found at i:733623 original size:13 final size:13
Alignment explanation
Indices: 733605--733629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
733595 TTTTTCAAAC
733605 TCAATCAATAAAT
1 TCAATCAATAAAT
733618 TCAATCAATAAA
1 TCAATCAATAAA
733630 AGATTGATAT
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
TCAATCAATAAAT
Found at i:742602 original size:4 final size:4
Alignment explanation
Indices: 742593--742619 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
742583 ATGTATTTCA
742593 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
742620 GAGAAAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:744154 original size:22 final size:21
Alignment explanation
Indices: 744124--744170 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
744114 TCGATTTATT
744124 ATTTAAAAAAAT-TAAGTAAAGA
1 ATTTAAAAAAATCTAAG-AAA-A
*
744146 ATTTTAAAAAATCTAAGAAAA
1 ATTTAAAAAAATCTAAGAAAA
744167 ATTT
1 ATTT
744171 GCATTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (21 bp):
ATTTAAAAAAATCTAAGAAAA
Found at i:746584 original size:13 final size:13
Alignment explanation
Indices: 746566--746590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
746556 ATTATTAATA
746566 TTATTTTGTGTGT
1 TTATTTTGTGTGT
746579 TTATTTTGTGTG
1 TTATTTTGTGTG
746591 CATGTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:748357 original size:41 final size:42
Alignment explanation
Indices: 748290--748374 Score: 145
Period size: 41 Copynumber: 2.0 Consensus size: 42
748280 TAAAGTGATC
*
748290 GAATGTAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGT
1 GAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGT
*
748332 GAAT-TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGT
1 GAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGT
748373 GA
1 GA
748375 TACATTTCGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
GAATGTAATACAGACTTTACGTCTAGCAGGCTTAATGCCGGT
Found at i:748396 original size:41 final size:41
Alignment explanation
Indices: 748290--748414 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 41
748280 TAAAGTGATC
* * *
748290 GAATGTAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGT
1 GAAT-TAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGT
*
748332 GAATTAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGT
1 GAATTAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGT
* * * *
748373 G-A-TACATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGT
1 GAATTA-A-TTCAGACTATACGTCTAGCAGGCTTAATGCCGGT
748414 G
1 G
748415 TATCGAATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 66 0.89
42 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
GAATTAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGT
Found at i:757736 original size:2 final size:2
Alignment explanation
Indices: 757729--757754 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
757719 TATGTATGTG
757729 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
757755 AATCATCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:767374 original size:18 final size:20
Alignment explanation
Indices: 767342--767379 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
767332 AAAATATTAG
767342 AAAAGTAAAAGAG-AATAAA
1 AAAAGTAAAAGAGAAATAAA
*
767361 AAAATTAAAA-AGAAATAAA
1 AAAAGTAAAAGAGAAATAAA
767380 TAATAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAAGTAAAAGAGAAATAAA
Found at i:768549 original size:2 final size:2
Alignment explanation
Indices: 768542--768577 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
768532 GGACATCTTT
768542 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
768578 GGGAAGGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:769187 original size:19 final size:20
Alignment explanation
Indices: 769159--769198 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
769149 AAAACTCAAA
*
769159 TATATATTTTTAAT-TTGTT
1 TATATATTTTAAATATTGTT
*
769178 TATATTTTTTAAATATTGTT
1 TATATATTTTAAATATTGTT
769198 T
1 T
769199 GATTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TATATATTTTAAATATTGTT
Found at i:773112 original size:3 final size:3
Alignment explanation
Indices: 773104--773129 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
773094 CCCACCCCCT
773104 CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CC
773130 TTCTCCTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:778014 original size:24 final size:24
Alignment explanation
Indices: 777987--778046 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
777977 ATGGTTTTCT
*
777987 TATATTATTAAT-ATAATATATATA
1 TATATTATTAATAATAAGATATA-A
* *
778011 TATATATATGTTATAATAAGGTATAA
1 TATAT-TAT-TAATAATAAGATATAA
778037 TATATTATTA
1 TATATTATTA
778047 TGTTATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 6 0.21
25 6 0.21
26 9 0.31
27 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (24 bp):
TATATTATTAATAATAAGATATAA
Found at i:778871 original size:16 final size:15
Alignment explanation
Indices: 778850--778880 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
778840 CAGTGATATT
778850 CAGGCTTTATGTCTAG
1 CAGGCTTTATG-CTAG
778866 CAGGCTTTATGCTAG
1 CAGGCTTTATGCTAG
778881 TGAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (15 bp):
CAGGCTTTATGCTAG
Found at i:778900 original size:41 final size:41
Alignment explanation
Indices: 778849--778995 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
778839 TCAGTGATAT
* * * **
778849 TCAGGCTTTATGTCTAGCAGGCTTTATGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCTAGTGTACCATA
* *
778890 TCAGGCTTTATGCCTAGCATGCTTCATGCTTGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCTAGTGTACCATA
**
778931 TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCTAGTGTACCATA
*
778972 TCAGGCATTATGCCTAGCAGGCTT
1 TCAGGCTTTATGCCTAGCAGGCTT
778996 TGTGTCGGTG
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTCATGCTAGTGTACCATA
Found at i:779005 original size:41 final size:40
Alignment explanation
Indices: 778849--779013 Score: 186
Period size: 41 Copynumber: 4.0 Consensus size: 40
778839 TCAGTGATAT
* * * * **
778849 TCAGGCTTTATGTCTAGCAGGCTTTATGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGC-GGTGTACCATA
* *
778890 TCAGGCTTTATGCCTAGCATGCTTCATGCTTGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGC-GGTGTACCATA
778931 TCAGGCTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATG-CGGTGTACCATA
* ** *
778972 TCAGGCATTATGCCTAGCAGGCTTTGTGTCGGTGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATG-CGGTGTACCATA
779013 T
1 T
779014 TTGGATTTGT
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
41 108 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (40 bp):
TCAGGCTTTATGCCTAGCAGGCTTCATGCGGTGTACCATA
Found at i:784422 original size:45 final size:45
Alignment explanation
Indices: 784372--784472 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
784362 ATAACAGTAG
* *
784372 CAGTAACAGTAACAATATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACAGTAACAATATCCAACACACAAAGTGTC-GAATCGGTAA
* * * *
784417 CAGTAACGGTAACAGTATCCGACACACAAAGTGTCGATTCGGTAA
1 CAGTAACAGTAACAATATCCAACACACAAAGTGTCGAATCGGTAA
784462 CAGTAACAGTA
1 CAGTAACAGTA
784473 GTCGGCACAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAATATCCAACACACAAAGTGTCGAATCGGTAA
Found at i:787463 original size:39 final size:40
Alignment explanation
Indices: 787377--787464 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
787367 AATTCTTTAC
* *
787377 TTCAGTAATTTCACAATTCAATGCATTATGCATAACAATA
1 TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
*
787417 TTCAGTATTTTCACAATTCACT-CAGTAAT-CA-AGACAATA
1 TTCAGTATTTTCACAATTCAATGCA-TAATGCATA-ACAATA
787456 TTCAGTATT
1 TTCAGTATT
787465 CCATAATTCG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 1 0.02
39 19 0.44
40 23 0.53
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (40 bp):
TTCAGTATTTTCACAATTCAATGCATAATGCATAACAATA
Found at i:788318 original size:15 final size:14
Alignment explanation
Indices: 788287--788320 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
788277 TATATTGTAA
788287 TAAT-ATAATTTAT
1 TAATAATAATTTAT
788300 TAATAATAATTTAAT
1 TAATAATAATTT-AT
788315 TAATAA
1 TAATAA
788321 ATATCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 7 0.37
15 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATAATAATTTAT
Found at i:788323 original size:16 final size:15
Alignment explanation
Indices: 788284--788323 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
788274 CTTTATATTG
788284 TAATAATATAATTTAT
1 TAATAA-ATAATTTAT
788300 TAAT-AATAATTTAAT
1 TAATAAATAATTT-AT
788315 TAATAAATA
1 TAATAAATA
788324 TCTTTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 7 0.32
16 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAAATAATTTAT
Found at i:788323 original size:19 final size:19
Alignment explanation
Indices: 788284--788323 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
788274 CTTTATATTG
* *
788284 TAATAATATAATTTATTAA
1 TAATAATATAATTAATAAA
*
788303 TAATAATTTAATTAATAAA
1 TAATAATATAATTAATAAA
788322 TA
1 TA
788324 TCTTTTACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATAATATAATTAATAAA
Found at i:788474 original size:25 final size:23
Alignment explanation
Indices: 788430--788490 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
788420 ATTTTGATTT
*
788430 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
788454 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
788478 ATATAAATTATAT
1 AT-TTAATTATAT
788491 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:788493 original size:35 final size:35
Alignment explanation
Indices: 788438--788517 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
788428 TTATTTAATA
* *
788438 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
788472 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
788507 ATATAAT-TAAA
1 ATATAATATAAA
788518 ACAAATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:803286 original size:18 final size:18
Alignment explanation
Indices: 803251--803287 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
803241 AGTGAGTGGA
*
803251 ACAAAAGCATGGTTAGTG
1 ACAAAAGCATGGTGAGTG
*
803269 ACAAAAGCATTGTGAGTG
1 ACAAAAGCATGGTGAGTG
803287 A
1 A
803288 AAATTATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
ACAAAAGCATGGTGAGTG
Found at i:806742 original size:17 final size:18
Alignment explanation
Indices: 806709--806742 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
806699 TTGAACCTAT
*
806709 TGGAGATGTGCTTTTGGC
1 TGGAAATGTGCTTTTGGC
806727 TGGAAATGTG-TTTTGG
1 TGGAAATGTGCTTTTGG
806743 TATGCTTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.06, G:0.38, T:0.41
Consensus pattern (18 bp):
TGGAAATGTGCTTTTGGC
Found at i:807321 original size:22 final size:22
Alignment explanation
Indices: 807294--807337 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
807284 TCATTCCAAT
807294 TTTTCTCATCAAACAAACAAAA
1 TTTTCTCATCAAACAAACAAAA
* *
807316 TTTTCTCATCAAGCAAATAAAA
1 TTTTCTCATCAAACAAACAAAA
807338 GATAAACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (22 bp):
TTTTCTCATCAAACAAACAAAA
Found at i:808008 original size:52 final size:52
Alignment explanation
Indices: 807930--808033 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
807920 AAATTCATAC
807930 ATTTTTTATTTGTCTAGGATGAACGCTTCGGCCGAGTGGTCTTCTCCACTAT
1 ATTTTTTATTTGTCTAGGATGAACGCTTCGGCCGAGTGGTCTTCTCCACTAT
* * **
807982 ATTTTTTATTTGTTTAGGATGAACGCTTTGGCTTAGTGGTCTTCTCCACTAT
1 ATTTTTTATTTGTCTAGGATGAACGCTTCGGCCGAGTGGTCTTCTCCACTAT
808034 CTTCAAGCTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (52 bp):
ATTTTTTATTTGTCTAGGATGAACGCTTCGGCCGAGTGGTCTTCTCCACTAT
Found at i:810211 original size:114 final size:114
Alignment explanation
Indices: 810011--810327 Score: 588
Period size: 114 Copynumber: 2.8 Consensus size: 114
810001 TAAATCAGTA
*
810011 TATACATATATATGTATATCTATTGTATATTTGATGAGTTATAATTAAAAGTATATGAATTGAAA
1 TATACATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
810076 TTAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATG
66 TTAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATG
810125 TATACATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
1 TATACATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
*
810190 TTAGTTAAGTATGAATGTTATATATATACATAAATGAAGTTCGAATATG
66 TTAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATG
810239 --T--ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
1 TATACATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
810300 TTAGTTAAGTATGAATGTTATATATATG
66 TTAGTTAAGTATGAATGTTATATATATG
810328 TAAATGTGTG
Statistics
Matches: 200, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
110 87 0.44
112 1 0.00
114 112 0.56
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (114 bp):
TATACATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAGTATATGAATTGAAA
TTAGTTAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATG
Found at i:810727 original size:41 final size:41
Alignment explanation
Indices: 810668--810818 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
810658 TTTCGGACTT
* *
810668 TAAGTCTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
* *
810709 TAAGCCCAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
* * ** *
810750 TAAACCTAGCAGACTAAGTGTTGGTGATCTGGATCAGGCTA
1 TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
**
810791 TAAAGTTTAGCAGGCTAAGTGCCGGTGA
1 T-AAGCCTAGCAGGCTAAGTGCCGGTGA
810819 ATATGTTAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 72 0.78
42 20 0.22
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (41 bp):
TAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTA
Found at i:813416 original size:20 final size:19
Alignment explanation
Indices: 813391--813435 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
813381 AGAAATATTG
*
813391 AAATTTCTAAAGGGATACCA
1 AAATTT-TAAAGAGATACCA
**
813411 AAATTTTTGAGAGATACCA
1 AAATTTTAAAGAGATACCA
813430 AAATTT
1 AAATTT
813436 GTAATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (19 bp):
AAATTTTAAAGAGATACCA
Found at i:829757 original size:20 final size:19
Alignment explanation
Indices: 829732--829776 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
829722 AGAAATATTG
*
829732 AAATTTCTAAAGGGATACCA
1 AAATTT-TAAAGAGATACCA
**
829752 AAATTTTTGAGAGATACCA
1 AAATTTTAAAGAGATACCA
829771 AAATTT
1 AAATTT
829777 GTAATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (19 bp):
AAATTTTAAAGAGATACCA
Found at i:831944 original size:18 final size:20
Alignment explanation
Indices: 831916--831975 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
831906 ACTAGTTTTA
831916 AAAATTATTAG-AAATTATT
1 AAAATTATTAGAAAATTATT
831935 AAAA-TATTAGAAAATTA-T
1 AAAATTATTAGAAAATTATT
* *
831953 AAATGTTATTA-AAAAGTATT
1 AAA-ATTATTAGAAAATTATT
831973 AAA
1 AAA
831976 TGTTATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 10 0.29
19 16 0.46
20 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAATTATTAGAAAATTATT
Found at i:831962 original size:38 final size:36
Alignment explanation
Indices: 831920--831991 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
831910 GTTTTAAAAA
* *
831920 TTATTAGAAATTATTAAAATATTAGAAAATTATAAATG
1 TTATTAAAAAGTATT-AAATATTAGAAAATT-TAAATG
* *
831958 TTATTAAAAAGTATTAAATGTTATAAAATTTAAA
1 TTATTAAAAAGTATTAAATATTAGAAAATTTAAA
831992 AACTACTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.13
37 13 0.43
38 13 0.43
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (36 bp):
TTATTAAAAAGTATTAAATATTAGAAAATTTAAATG
Found at i:831976 original size:20 final size:19
Alignment explanation
Indices: 831939--831985 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
831929 ATTATTAAAA
*
831939 TATTAGAAAATTATAAATGT
1 TATTA-AAAAGTATAAATGT
831959 TATTAAAAAGTATTAAATGT
1 TATTAAAAAGTA-TAAATGT
831979 TA-TAAAA
1 TATTAAAA
831986 TTTAAAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
TATTAAAAAGTATAAATGT
Found at i:832116 original size:33 final size:32
Alignment explanation
Indices: 832068--832137 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
832058 TAAAAATCAT
* *
832068 TTAACTTCTCCTAAAATAATTAAAATAAGTTAA
1 TTAAGTTCTCCTAAAATAATTAAAA-AAGTAAA
*
832101 TTAAGTTCTCGTAAAATAATTAAAAAAGTAAA
1 TTAAGTTCTCCTAAAATAATTAAAAAAGTAAA
832133 TTAAG
1 TTAAG
832138 CATTCTACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (32 bp):
TTAAGTTCTCCTAAAATAATTAAAAAAGTAAA
Found at i:833790 original size:19 final size:20
Alignment explanation
Indices: 833768--833812 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
833758 AATTTAGATT
833768 TTTTTATAAA-TATTTTGA-A
1 TTTTTATAAATTATTTT-ATA
*
833787 -TTTTAAAAATTATTTTATA
1 TTTTTATAAATTATTTTATA
833806 TTTTTAT
1 TTTTTAT
833813 GTAATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTATAAATTATTTTATA
Found at i:836863 original size:69 final size:69
Alignment explanation
Indices: 836758--837030 Score: 378
Period size: 70 Copynumber: 4.0 Consensus size: 69
836748 TTGTTTTATC
* * * * *
836758 TATTTATTTGTTATTCCTCTATTTTTTAAATATTTAAAATTGATATTATTTATATTTGTTTTATC
1 TATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTATATTTGTTTTATC
836823 TATT
66 TATT
* * * *
836827 TATTTATTTGTTATT-TTTTACTTTTTAAATATTTTAATTTTGATATTACTAATATTTGTTTTAT
1 TATTTATTTGTTATTCTTTTACTTTTTAAACA-TTTAAATTTGATATTATTTATATTTGTTTTAT
836891 C----
65 CTATT
* *
836892 TATTTATTTGTTTTTCTTTTAC-TTTTAAACATTTAAATTTAATATTATTTATATTTGTTTTATC
1 TATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTATATTTGTTTTATC
836956 TATT
66 TATT
836960 TATTTATTTGTTATTCTTTTACTTTTTTAAACATTTAAATTTGATATTATTTATATTTGTTTTAT
1 TATTTATTTGTTATTCTTTTAC-TTTTTAAACATTTAAATTTGATATTATTTATATTTGTTTTAT
*
837025 CAATT
65 CTATT
837030 T
1 T
837031 GATATTTTTT
Statistics
Matches: 180, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
64 29 0.16
65 22 0.12
66 6 0.03
68 34 0.19
69 44 0.24
70 45 0.25
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (69 bp):
TATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTATATTTGTTTTATC
TATT
Found at i:836937 original size:133 final size:135
Alignment explanation
Indices: 836748--837030 Score: 428
Period size: 134 Copynumber: 2.1 Consensus size: 135
836738 CTTTTATGAG
* * *
836748 TTGTTTTATCTATTTATTTGTTATTCCTCTATTTTTTAAATATTTAAAATTGATATTATTTATAT
1 TTGTTTTATCTATTTATTTGTTATTCCTCTATCTTTTAAACATTTAAAATTAATATTATTTATAT
* *
836813 TTGTTTTATCTATTTATTTATTTGTTATT-TTTTAC-TTTTTAAATATTTTAATTTTGATATTAC
66 TTGTTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTTAAACA-TTTAAATTTGATATTAC
836876 TAATAT
130 TAATAT
* * * *
836882 TTGTTTTATCTATTTATTTGTTTTTCTTTTA-CTTTTAAACATTTAAATTTAATATTATTTATAT
1 TTGTTTTATCTATTTATTTGTTATTCCTCTATCTTTTAAACATTTAAAATTAATATTATTTATAT
*
836946 TTGTTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTTAAACATTTAAATTTGATATTATT
66 TTGTTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTTAAACATTTAAATTTGATATTACT
*
837011 TATAT
131 AATAT
*
837016 TTGTTTTATCAATTT
1 TTGTTTTATCTATTT
837031 GATATTTTTT
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
133 58 0.43
134 68 0.50
135 9 0.07
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (135 bp):
TTGTTTTATCTATTTATTTGTTATTCCTCTATCTTTTAAACATTTAAAATTAATATTATTTATAT
TTGTTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTTAAACATTTAAATTTGATATTACT
AATAT
Found at i:837033 original size:29 final size:29
Alignment explanation
Indices: 836997--837069 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
836987 TAAACATTTA
*
836997 AATTTGATATTATTTATATTTGTTTTATC
1 AATTTGATATTATTTATATTTATTTTATC
* *
837026 AATTTGATATTTTTTGTATTTATTTTATC
1 AATTTGATATTATTTATATTTATTTTATC
*
837055 TATTT-AT-TTATTTAT
1 AATTTGATATTATTTAT
837070 TTGTTATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 6 0.16
28 2 0.05
29 30 0.79
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (29 bp):
AATTTGATATTATTTATATTTATTTTATC
Found at i:837039 original size:133 final size:132
Alignment explanation
Indices: 836781--837039 Score: 387
Period size: 133 Copynumber: 1.9 Consensus size: 132
836771 TTCCTCTATT
* *
836781 TTTTAAATATTTAAAATTGATATTATTTATATTTGTTTTATCTATTTATTTATTTGTTATTTTTT
1 TTTTAAACATTTAAAATTAATATTATTTATATTTGTTTTATCTATTTATTTATTTGTTATTTTTT
* * * *
836846 ACTTTTTAAATATTTTAATTTTGATATTACTAATATTTGTTTTATCTATTTATTTGTTTTTCTTT
66 ACTTTTTAAACATTTTAAATTTGATATTACTAATATTTGTTTTATCAATTTA-TTATTTTTCTTT
836911 TAC
130 TAC
*
836914 TTTTAAACATTTAAATTTAATATTATTTATATTTGTTTTATCTATTTATTTATTTGTTATTCTTT
1 TTTTAAACATTTAAAATTAATATTATTTATATTTGTTTTATCTATTTATTTATTTGTTATT-TTT
* *
836979 TACTTTTTTAAACA-TTTAAATTTGATATTATTTATATTTGTTTTATCAATTTGA-TATTTTT
65 TAC-TTTTTAAACATTTTAAATTTGATATTACTAATATTTGTTTTATCAATTT-ATTATTTTT
837040 TGTATTTATT
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
133 64 0.56
134 40 0.35
135 10 0.09
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (132 bp):
TTTTAAACATTTAAAATTAATATTATTTATATTTGTTTTATCTATTTATTTATTTGTTATTTTTT
ACTTTTTAAACATTTTAAATTTGATATTACTAATATTTGTTTTATCAATTTATTATTTTTCTTTT
AC
Found at i:837057 original size:163 final size:162
Alignment explanation
Indices: 836879--837179 Score: 418
Period size: 163 Copynumber: 1.9 Consensus size: 162
836869 ATATTACTAA
* *
836879 TATTTGTTTTATCTATTTATTTGTTT-TTCT-TT-TACTTTTAAAC-ATTT-AA-ATTTAATATT
1 TATTTATTTTATCTATTTATTTATTTATT-TGTTATACTTTT--ACTATTTAAACATTTAATATT
836938 ATTTATATTTG-TTTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTTAAACATTTAAATTT
63 ATTTATATTTGTTTTTATCTATTTATTTA----TTATTCTTTTAC-TTTTTAAACATTTAAATTT
*
837002 GATATTATTTATATTTGTTTTATCAATTTGATATTTTTTG
123 GATATTACTTATATTTGTTTTATCAATTTGATATTTTTTG
* * *
837042 TATTTATTTTATCTATTTATTTATTTATTTGTTATTCTTTTGCTTTTTAAACATTTAATATTATT
1 TATTTATTTTATCTATTTATTTATTTATTTGTTATACTTTTACTATTTAAACATTTAATATTATT
*
837107 TATATTTGTTTTTATCTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTAC
66 TATATTTGTTTTTATCTATTTATTTATTATTCTTTTACTTTTTAAACATTTAAATTTGATATTAC
837172 TTATATTT
131 TTATATTT
837180 CCCTTTCATT
Statistics
Matches: 124, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
162 33 0.27
163 38 0.31
164 7 0.06
165 8 0.06
166 21 0.17
167 17 0.14
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (162 bp):
TATTTATTTTATCTATTTATTTATTTATTTGTTATACTTTTACTATTTAAACATTTAATATTATT
TATATTTGTTTTTATCTATTTATTTATTATTCTTTTACTTTTTAAACATTTAAATTTGATATTAC
TTATATTTGTTTTATCAATTTGATATTTTTTG
Found at i:837072 original size:70 final size:69
Alignment explanation
Indices: 836788--837134 Score: 222
Period size: 70 Copynumber: 5.1 Consensus size: 69
836778 ATTTTTTAAA
*
836788 TATTTAAAATTGATATTATTTATATTTGTTTTATCTATTTAT-TTATTTGT-TATT-TTTTA-CT
1 TATTT-AATTTGATATTATTTATATTTGTTTTATC-ATTTATATTATTTGTAT-TTATTTTATCT
* **
836849 TTTTAAA
63 ATTTATT
* * * *
836856 TATTTTAATTTTGATATTACTAATATTTGTTTTATC---TAT-TTATTTGTTTTTCTTTTA-CT-
1 TA-TTTAA-TTTGATATTATTTATATTTGTTTTATCATTTATATTATTTGTATTTATTTTATCTA
**
836915 TTTAAA
64 TTTATT
* * *
836921 CATTTAAATTTAATATTATTTATATTTGTTTTATCTATTTAT-TTATTTGT-TATTCTTTTA-CT
1 TATTT-AATTTGATATTATTTATATTTGTTTTATC-ATTTATATTATTTGTAT-TTATTTTATC-
* **
836983 TTTTTAAA
62 TATTTATT
* *
836991 CATTTAAATTTGATATTATTTATATTTGTTTTATCAATTTGATATTTTTTGTATTTATTTTATCT
1 TATTT-AATTTGATATTATTTATATTTGTTTTATC-ATTT-ATATTATTTGTATTTATTTTATCT
837056 ATTTATT
63 ATTTATT
* * ** * * * *
837063 TATTT-ATTTGTTATTCTTT-TGCTT-TTTAAACATTTAATATTATTTATATTTGTTTTTATCTA
1 TATTTAATTTGATATTATTTATATTTGTTTTATCATTT-ATATTATTTGTATTT-ATTTTATCTA
837125 TTTATT
64 TTTATT
837131 TATT
1 TATT
837135 ATTCTTTTAC
Statistics
Matches: 237, Mismatches: 25, Indels: 34
0.80 0.08 0.11
Matches are distributed among these distances:
64 27 0.11
65 22 0.09
66 8 0.03
67 18 0.08
68 48 0.20
69 31 0.13
70 56 0.24
71 2 0.01
72 23 0.10
73 2 0.01
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (69 bp):
TATTTAATTTGATATTATTTATATTTGTTTTATCATTTATATTATTTGTATTTATTTTATCTATT
TATT
Found at i:837098 original size:30 final size:30
Alignment explanation
Indices: 837064--837158 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
837054 CTATTTATTT
*
837064 ATTTATTTGTTATTCTTTTGCTTTTTAAAC
1 ATTTATTTATTATTCTTTTGCTTTTTAAAC
* * *
837094 ATTTA-ATATTATTTATATTTG-TTTTT-ATC
1 ATTTATTTATTA-TTCT-TTTGCTTTTTAAAC
* *
837123 TATTTATTTATTATTCTTTTACTTTTTAAAT
1 -ATTTATTTATTATTCTTTTGCTTTTTAAAC
837154 ATTTA
1 ATTTA
837159 AATTTGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
29 9 0.18
30 31 0.62
31 10 0.20
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.65
Consensus pattern (30 bp):
ATTTATTTATTATTCTTTTGCTTTTTAAAC
Found at i:837159 original size:68 final size:66
Alignment explanation
Indices: 837048--837179 Score: 151
Period size: 68 Copynumber: 2.0 Consensus size: 66
837038 TTTGTATTTA
*** * *
837048 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTGCTTTTTAAACATTTAATATTATTTATATT
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTAAATATTT-AA-ATTTAATATTACTTATATT
837113 TGT
64 TGT
* *
837116 TTTTATCTATTTATTTA-TTATTCTTTTACTT-TTTAAATATTTAAATTTGATATTACTTATATT
1 TTTTATCTATTTATTTATTTATT-TGTTA-TTCTTTAAATATTTAAATTTAATATTACTTATATT
837179 T
64 T
837180 CCCTTTCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
66 18 0.33
67 7 0.13
68 28 0.51
69 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (66 bp):
TTTTATCTATTTATTTATTTATTTGTTATTCTTTAAATATTTAAATTTAATATTACTTATATTTG
T
Found at i:837384 original size:21 final size:20
Alignment explanation
Indices: 837358--837414 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
837348 TTTTGTCTTT
837358 TTATTTATTTTCTTTAT-TCA
1 TTATTTA-TTTCTTTATGTCA
*
837378 TCTATTTATTTATTTATGTCA
1 T-TATTTATTTCTTTATGTCA
837399 TTATTTCATTTCTTTA
1 TTATTT-ATTTCTTTA
837415 CCCTTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATTTATTTCTTTATGTCA
Found at i:848652 original size:44 final size:44
Alignment explanation
Indices: 848536--848698 Score: 177
Period size: 44 Copynumber: 3.7 Consensus size: 44
848526 AGTGAAGCCA
* * *
848536 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA-ATAG
* * * * *
848581 CAAATCTTATCTTCCTAAAGATGCAGTGGAGCAAGA-TGAATCTA-
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGC-AGATTGAA-ATAG
848625 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATAG
1 CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATAG
** * *
848669 TGAGTCTTATCTCCTTGAAGTTACAGTGGA
1 CAAATCTTATCTCCCTGAAGTTACAGTGGA
848699 CTAGATTAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
43 5 0.05
44 58 0.59
45 33 0.33
46 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATAG
Found at i:849969 original size:69 final size:69
Alignment explanation
Indices: 849871--850123 Score: 373
Period size: 69 Copynumber: 3.8 Consensus size: 69
849861 TTTATCTATT
* * *
849871 TATTTATTTATTTGTTATTCCTCTACTTTTTAAATATTTAAATTTGATATTATTTAAATTTGTTT
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTAAATTTGTTT
849936 TATG
66 TATG
849940 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTT--A-------
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTAAATTTGTTT
849996 TAT-
66 TATG
* * * *
849999 TATCTATTTATTTATTATTCTTTTAATTTTTAAATATTTAAATTTGATATTATTTAAATTTGTTT
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTAAATTTGTTT
850064 TATG
66 TATG
850068 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTA
1 TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTA
850124 TATTNNNNNN
Statistics
Matches: 163, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
59 51 0.31
60 3 0.02
61 1 0.01
67 1 0.01
68 3 0.02
69 104 0.64
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (69 bp):
TATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATATTATTTAAATTTGTTT
TATG
Found at i:850017 original size:128 final size:128
Alignment explanation
Indices: 849862--850127 Score: 471
Period size: 128 Copynumber: 2.1 Consensus size: 128
849852 ATGAGTTGTT
* * * *
849862 TTATCTAT-TTATTTATTTATTTGTTATTCCTCTACTTTTTAAATATTTAAATTTGATATTATTT
1 TTATTTATATTATCTATTTATTTATTATTCCTCTAATTTTTAAATATTTAAATTTGATATTATTT
849926 AAATTTGTTTTATGTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATA
66 AAATTTGTTTTATGTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATA
* *
849989 TTATTTATATTATCTATTTATTTATTATTCTTTTAATTTTTAAATATTTAAATTTGATATTATTT
1 TTATTTATATTATCTATTTATTTATTATTCCTCTAATTTTTAAATATTTAAATTTGATATTATTT
850054 AAATTTGTTTTATGTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATA
66 AAATTTGTTTTATGTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATA
850117 TTATTTATATT
1 TTATTTATATT
850128 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
127 7 0.05
128 125 0.95
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (128 bp):
TTATTTATATTATCTATTTATTTATTATTCCTCTAATTTTTAAATATTTAAATTTGATATTATTT
AAATTTGTTTTATGTATTTATTTATTTGTTATTCTTTTACTTTTTAAACATTTAAATTTGATA
Found at i:850744 original size:13 final size:12
Alignment explanation
Indices: 850713--850761 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
850703 GAGTATGACA
850713 TTTTTATTTTATC
1 TTTTTA-TTTATC
*
850726 TTTTTATTTATT
1 TTTTTATTTATC
*
850738 TTCTTTATTCATC
1 TT-TTTATTTATC
*
850751 TATTTATTTAT
1 TTTTTATTTAT
850762 TTATTTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 15 0.50
13 15 0.50
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATTTATC
Found at i:850756 original size:25 final size:25
Alignment explanation
Indices: 850723--850789 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
850713 TTTTTATTTT
* *
850723 ATCTTTTTATTTATTTTCTTTAT-TC
1 ATCTATTTATTTA-TTTATTTATGTC
850748 ATCTATTTATTTATTTATTTATGTC
1 ATCTATTTATTTATTTATTTATGTC
*
850773 ATC-ATTTCATTTCTTTA
1 ATCTATTT-ATTTATTTA
850790 CCCTCTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 12 0.32
25 25 0.68
ACGTcount: A:0.21, C:0.12, G:0.01, T:0.66
Consensus pattern (25 bp):
ATCTATTTATTTATTTATTTATGTC
Found at i:868933 original size:51 final size:52
Alignment explanation
Indices: 868876--868981 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 52
868866 GTAAGCCACC
868876 TTTAAAAAAAACTGCCAATCGTTCTTTTTTATTCCTCCTC-TTCCTCATCTT
1 TTTAAAAAAAACTGCCAATCGTTCTTTTTTATTCCTCCTCTTTCCTCATCTT
868927 TTTAAAAAAAACTGCCAATCGTTCTTTTTTATTCCTCCTCTTTCCTCATCTT
1 TTTAAAAAAAACTGCCAATCGTTCTTTTTTATTCCTCCTCTTTCCTCATCTT
868979 TTT
1 TTT
868982 CCTTTACAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 40 0.74
52 14 0.26
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (52 bp):
TTTAAAAAAAACTGCCAATCGTTCTTTTTTATTCCTCCTCTTTCCTCATCTT
Found at i:869204 original size:19 final size:19
Alignment explanation
Indices: 869180--869241 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
869170 NNNNNNNNNN
869180 ATATCATATCTAGGATTGC
1 ATATCATATCTAGGATTGC
869199 ATATCATATCTAGGATTGC
1 ATATCATATCTAGGATTGC
*
869218 ATATCATATCTAAGATTGC
1 ATATCATATCTAGGATTGC
869237 ATATC
1 ATATC
869242 CTCAAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAGGATTGC
Found at i:869923 original size:44 final size:44
Alignment explanation
Indices: 869858--870323 Score: 244
Period size: 44 Copynumber: 10.6 Consensus size: 44
869848 TACCAATCTG
* *
869858 CTCCACGGTAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
* * *** * * *
869902 CTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCCTCAGTCTGC-
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGT-TTTAATC--CA
* ** * *
869948 CT-CACTGCAACTTCA-GTAGGATAAGA-CTTG-CTTTGCTTAGTCTGA
1 CTCCACTGCAACTTCAGGGA-GATAAGATC-TGAGGTT--TTAATC-CA
* *** **
869993 -TCCACTGCAACTTCAGGGAGATAAGA-CT-A-GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
* * *
870033 CT-CTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
** * * * * **
870076 CTCCACTATAATTTCAAGGAGATAGGAT-T-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGA--GGTTTTAATCCA
*
870120 CTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
** * * * **
870164 CTCCACTATAATTTCAGGGAGATAGGAT-T-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGA--GGTTTTAATCCA
* *
870208 CTCCACTGCAACTTCAGGGGGATAAGATCTGAAGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
** * * * **
870252 CTCCACTATAATTTCAGGGAGATAGGAT-T-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGA--GGTTTTAATCCA
*
870296 CTCCACTGCAACTTCAGGGGGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
870324 TTGCCATCTT
Statistics
Matches: 309, Mismatches: 87, Indels: 52
0.69 0.19 0.12
Matches are distributed among these distances:
40 21 0.07
41 5 0.02
42 4 0.01
43 11 0.04
44 207 0.67
45 54 0.17
46 6 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCA
Found at i:869961 original size:45 final size:45
Alignment explanation
Indices: 869903--870020 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 45
869893 TTTAATCCAC
*
869903 TCCACTGCAACTTCAAGGAGATAAGATTTGCTATCCTCAGTCTG-
1 TCCACTGCAACTTCAAGGAGATAAGACTTGCTATCCTCAGTCTGA
* * * * *
869947 CCTCACTGCAACTTC-AGTAGGATAAGACTTGCTTTGCTTAGTCTGA
1 TC-CACTGCAACTTCAAGGA-GATAAGACTTGCTATCCTCAGTCTGA
*
869993 TCCACTGCAACTTCAGGGAGATAAGACT
1 TCCACTGCAACTTCAAGGAGATAAGACT
870021 AGATGCGATC
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
44 4 0.07
45 54 0.89
46 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTGCTATCCTCAGTCTGA
Found at i:870142 original size:88 final size:88
Alignment explanation
Indices: 870028--870323 Score: 522
Period size: 88 Copynumber: 3.4 Consensus size: 88
870018 ACTAGATGCG
* * * *
870028 ATCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTATAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
*
870092 AGGAGATAGGATTATTGGCTTTA
66 GGGAGATAGGATTATTGGCTTTA
870115 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
870180 GGGAGATAGGATTATTGGCTTTA
66 GGGAGATAGGATTATTGGCTTTA
*
870203 ATCTGCTCCACTGCAACTTCAGGGGGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
870268 GGGAGATAGGATTATTGGCTTTA
66 GGGAGATAGGATTATTGGCTTTA
*
870291 ATCTGCTCCACTGCAACTTCAGGGGGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
870324 TTGCCATCTT
Statistics
Matches: 202, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
87 7 0.03
88 195 0.97
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAGTTTTAATCCACTCCACTATAATTTCA
GGGAGATAGGATTATTGGCTTTA
Found at i:882641 original size:19 final size:20
Alignment explanation
Indices: 882617--882655 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
882607 CATGATCTTT
*
882617 AATATTTTTTA-AATTTTTA
1 AATATTTTTCATAATTTTTA
882636 AATATTTTTCATAATTTTTA
1 AATATTTTTCATAATTTTTA
882656 CAATTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTTTCATAATTTTTA
Found at i:883095 original size:44 final size:43
Alignment explanation
Indices: 882996--883119 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
882986 CTTCTTTTGG
*
882996 AAACGCCGCTAAAGATCATGTTCTTTGGCGGCGCTTTCTCCAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTCCAC
* *
883039 AAACGCCACTAAAGGTCATGTTCTTTTAGCGGCGCTTT-TCCCAC
1 AAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTCT-CCAC
* * ** *
883083 AAATGCCGCTAAAGACCATGACCTTTAGCGGTGCTTT
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTT
883120 TTTTAAAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 35 0.51
44 34 0.49
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTCTCCAC
Done.