Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, 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: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 24
Found at i:424518 original size:63 final size:63
Alignment explanation
Indices: 424419--424546 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
424409 AGCGCGCTGT
424419 ATTGATCGATAATGGAAAATAAGGATGAGGAGAAAGATATGAAGGAGGCTTTCGACGTTTTCG
1 ATTGATCGATAATGGAAAATAAGGATGAGGAGAAAGATATGAAGGAGGCTTTCGACGTTTTCG
424482 ATTGATCGATAATGGAAAATAAGGATGAGGAGAAAGATATGAAGGAGGCTTTCGACGTTTTCG
1 ATTGATCGATAATGGAAAATAAGGATGAGGAGAAAGATATGAAGGAGGCTTTCGACGTTTTCG
424545 AT
1 AT
424547 CGGAACGGGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.37, C:0.08, G:0.30, T:0.26
Consensus pattern (63 bp):
ATTGATCGATAATGGAAAATAAGGATGAGGAGAAAGATATGAAGGAGGCTTTCGACGTTTTCG
Found at i:434420 original size:40 final size:39
Alignment explanation
Indices: 434360--434440 Score: 144
Period size: 40 Copynumber: 2.1 Consensus size: 39
434350 TTCTTCCATT
*
434360 GCTTGTTTGTTTAGAGTTCGTGTACCCGAAACATGTTCGG
1 GCTTGTTTGTTTAGAATTCGTGTACCCGAAA-ATGTTCGG
434400 GCTTGTTTGTTTAGAATTCGTGTACCCGAAAATGTTCGG
1 GCTTGTTTGTTTAGAATTCGTGTACCCGAAAATGTTCGG
434439 GC
1 GC
434441 GGGCATGAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (39 bp):
GCTTGTTTGTTTAGAATTCGTGTACCCGAAAATGTTCGG
Found at i:435749 original size:105 final size:103
Alignment explanation
Indices: 435597--435797 Score: 348
Period size: 103 Copynumber: 1.9 Consensus size: 103
435587 TAACTTTTTT
435597 ACTAAATTCTTCTCCTATCAATGCTTTATCTTCAAAATACATTTAAAAAATAATAATATTATAAA
1 ACTAAATTCTTCTCCTATCAATGCTTTATCTTCAAAATACATTT-AAAAA-AATAATATTATAAA
* *
435662 TGTTTTATTGTTTTAGATTATATTTACTTTATTAAGATTG
64 TGTTTTATTATTTTAGATAATATTTACTTTATTAAGATTG
* *
435702 ACTAAATTCTTCTCCTATCAATGTTTTATCTTCAAAATATATTTAAAAAAATAATATTATAAATG
1 ACTAAATTCTTCTCCTATCAATGCTTTATCTTCAAAATACATTTAAAAAAATAATATTATAAATG
435767 TTTTATTATTTTAGATAATATTTACTTTATT
66 TTTTATTATTTTAGATAATATTTACTTTATT
435798 TACTTTATTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 45 0.49
104 5 0.05
105 42 0.46
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (103 bp):
ACTAAATTCTTCTCCTATCAATGCTTTATCTTCAAAATACATTTAAAAAAATAATATTATAAATG
TTTTATTATTTTAGATAATATTTACTTTATTAAGATTG
Found at i:442039 original size:56 final size:57
Alignment explanation
Indices: 441978--442120 Score: 191
Period size: 56 Copynumber: 2.5 Consensus size: 57
441968 ATAAGACATT
* * *
441978 CATCTTTGAATGTAACAATTTGGATAAGTTT-AGACATTAAAACGCTATTC-AACTTC
1 CATCTTTGAATGTAACAACTTGGATAAGTTTAAG-CAGTAAAACACTATTCAAACTTC
* *
442034 CATCTTTGAATGTAAGAACTTGGATAAGTTTAAGCAGTACAACACTATTCAAACTTC
1 CATCTTTGAATGTAACAACTTGGATAAGTTTAAGCAGTAAAACACTATTCAAACTTC
* * *
442091 CGTCTTTGAATGTGACAACTTGGATTAGTT
1 CATCTTTGAATGTAACAACTTGGATAAGTT
442121 AAACACTTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
56 42 0.55
57 34 0.45
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (57 bp):
CATCTTTGAATGTAACAACTTGGATAAGTTTAAGCAGTAAAACACTATTCAAACTTC
Found at i:444036 original size:22 final size:23
Alignment explanation
Indices: 443997--444040 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
443987 AAGATATACA
443997 GCAAAACAACAACTAGAGACCTT
1 GCAAAACAACAACTAGAGACCTT
*
444020 GCAAGACAAC-ACTAGAGACCT
1 GCAAAACAACAACTAGAGACCT
444041 CAAAGAGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (23 bp):
GCAAAACAACAACTAGAGACCTT
Found at i:445457 original size:19 final size:19
Alignment explanation
Indices: 445392--445460 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
445382 TAATATAAGT
445392 TAATTAAATAA-TAATTTA
1 TAATTAAATAATTAATTTA
* *
445410 T--TTGAATTATATTATTTTA
1 TAATT-AAATA-ATTAATTTA
* *
445429 AAATCAAATAATTAATTTA
1 TAATTAAATAATTAATTTA
*
445448 TAATTGAATAATT
1 TAATTAAATAATT
445461 TGAAACGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 9
0.67 0.16 0.16
Matches are distributed among these distances:
16 2 0.05
17 4 0.11
18 2 0.05
19 24 0.65
20 4 0.11
21 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (19 bp):
TAATTAAATAATTAATTTA
Found at i:445600 original size:2 final size:2
Alignment explanation
Indices: 445593--445622 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
445583 ACATGTAAGC
445593 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
445623 GTCACGTCCC
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:451824 original size:2 final size:2
Alignment explanation
Indices: 451817--451841 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
451807 TAATAAGTAC
451817 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 A
451842 ATAAGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:452650 original size:60 final size:60
Alignment explanation
Indices: 452538--452664 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
452528 TCATATGTTC
** *
452538 CAAACTATGACCCTCATTCTAAATCAGACCTTAAACTTTTAAATGTTTCAATTTCATCCT
1 CAAACTATGACCCTCATTCTAAATCAGACCTTAAACTTTTAAACATTCCAATTTCATCCT
* * * * *
452598 CAAATTATGACTCCT-ATTCTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTTATCC-
1 CAAACTATGAC-CCTCATTCTAAATCAGACCTTAAACTTTTAAACATTCCAATTTCATCCT
452657 CTAAACTA
1 C-AAACTA
452665 CGAATGAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.02
60 52 0.93
61 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (60 bp):
CAAACTATGACCCTCATTCTAAATCAGACCTTAAACTTTTAAACATTCCAATTTCATCCT
Found at i:453022 original size:60 final size:60
Alignment explanation
Indices: 452910--453023 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
452900 CACAATTTGG
* *
452910 GGATGAAAATGAAATGTTCAAAAGTTTAAGGACTAATTTAGAATGATAGTCATATATTAA
1 GGATGAAAATGAAATGTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATATATTAA
* * *
452970 GGAT-AAAATTGAAATGTTTAAAAGTTTAGGGACAAATTT-GAAATGAGGGTCATA
1 GGATGAAAA-TGAAATGTTCAAAAGTTTAAGGACAAATTTAG-AATGAGAGTCATA
453024 AATTGAGACA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 5 0.11
60 42 0.89
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (60 bp):
GGATGAAAATGAAATGTTCAAAAGTTTAAGGACAAATTTAGAATGAGAGTCATATATTAA
Found at i:453134 original size:19 final size:18
Alignment explanation
Indices: 453107--453149 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
453097 TTTTCAAAAG
*
453107 AAAATTATTACATAATGCT
1 AAAAATATT-CATAATGCT
*
453126 AAAAATATTCTTAATGCT
1 AAAAATATTCATAATGCT
453144 AAAAAT
1 AAAAAT
453150 TGACGGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (18 bp):
AAAAATATTCATAATGCT
Found at i:458069 original size:30 final size:30
Alignment explanation
Indices: 458033--458089 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
458023 AATTTCACTC
* * *
458033 TGGTCACTCAAATTTAGTATGCTTATAATT
1 TGGTCACTCAAAATTAGCAAGCTTATAATT
*
458063 TGGTCACTTAAAATTAGCAAGCTTATA
1 TGGTCACTCAAAATTAGCAAGCTTATA
458090 TAGATAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (30 bp):
TGGTCACTCAAAATTAGCAAGCTTATAATT
Found at i:458915 original size:2 final size:2
Alignment explanation
Indices: 458908--458936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
458898 ATGTTGAATT
458908 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 T
458937 GGATATTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:459864 original size:21 final size:22
Alignment explanation
Indices: 459838--459883 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
459828 GCTATGGTGC
*
459838 TGACGTGACAGTCTACAGT-GT
1 TGACGTGACAATCTACAGTGGT
*
459859 TGACGTGATAATCTACAGTGGT
1 TGACGTGACAATCTACAGTGGT
459881 TGA
1 TGA
459884 TAACATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (22 bp):
TGACGTGACAATCTACAGTGGT
Found at i:467196 original size:31 final size:31
Alignment explanation
Indices: 467158--467218 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
467148 ACGATTGAGA
* *
467158 AACTAAAATCGAACGGATTGATAATATTAAG
1 AACTAAAATCGAACGGATCGATAACATTAAG
467189 AACTAAAATCGAACGGATCGATAACATTAA
1 AACTAAAATCGAACGGATCGATAACATTAA
467219 AGACGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (31 bp):
AACTAAAATCGAACGGATCGATAACATTAAG
Found at i:468601 original size:2 final size:2
Alignment explanation
Indices: 468594--468632 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
468584 GCACCTCAAC
468594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
468633 ATACTTAAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:470892 original size:2 final size:2
Alignment explanation
Indices: 470885--470912 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
470875 CATAATCCTA
470885 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
470913 GGATAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:473696 original size:28 final size:28
Alignment explanation
Indices: 473624--473699 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
473614 AAAATGGGGC
*
473624 ATAG-TTAGGGGCTTATTTTGACCAAAAA
1 ATAGTTTAGGGACTTATTTTGA-CAAAAA
* *
473652 ATAGTTTA-AGAGTTTATTTTGA-ATAAAA
1 ATAGTTTAGGGA-CTTATTTTGACA-AAAA
473680 ATAGTTTAGGGACTTATTTT
1 ATAGTTTAGGGACTTATTTT
473700 TAGTTTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.03
28 24 0.62
29 14 0.36
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (28 bp):
ATAGTTTAGGGACTTATTTTGACAAAAA
Found at i:473811 original size:2 final size:2
Alignment explanation
Indices: 473804--473841 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
473794 TAGCCCTACA
473804 AT AT AT AT 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 AT AT AT AT
473842 CACCAGGGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:475148 original size:31 final size:31
Alignment explanation
Indices: 475108--475166 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
475098 TGCTCCTAGT
*
475108 GTTATAAACGCTACCACTTTAGGTGTCTGAA
1 GTTAAAAACGCTACCACTTTAGGTGTCTGAA
*
475139 GTTAAAAACGTTACCACTTTAGGTGTCT
1 GTTAAAAACGCTACCACTTTAGGTGTCT
475167 CATTTCTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTAAAAACGCTACCACTTTAGGTGTCTGAA
Found at i:477362 original size:199 final size:198
Alignment explanation
Indices: 476913--477698 Score: 1168
Period size: 198 Copynumber: 4.0 Consensus size: 198
476903 TGGAAATAAA
* *
476913 TTGATGAGAATTTGAATAAAGCTGAAACATTTGGAATGTTTGTGATAGTCTTGCTAAATTATAAT
1 TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTGTGATAGTCTTGCTAAATTATAAT
* * *
476978 GTCTTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTTTTTTGGGTTCCTTGATTG
66 GTCCTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTTTTTT-TGTTCCTTGGTTG
*
477043 TATTCGAGTTGTTAATCGGCCCGGTTGTGATAGGATTTAGG-TTTTAGGACTTGATTTTCTGGTT
130 TATTCGAGTTGTTAATCGGCCTGGTTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTGGTT
477107 CTGC
195 CTGC
* * *
477111 TTGATGAAAATTTTAATAAAGTTGAGACATTTTGAATGTTTGTGATAGTCTTGCTAAATTATAAT
1 TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTGTGATAGTCTTGCTAAATTATAAT
* *
477176 GTCCACTATAGCATCCGTTAAGTTTAGTTAGCTTGAATGTGCAGTTTTTTTTGGTTCCTTGGTTG
66 GTCCTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTTTTTTT-GTTCCTTGGTTG
* *
477241 TATTCGAGTTGTTAATTGGCCTGATTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTGGTT
130 TATTCGAGTTGTTAATCGGCCTGGTTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTGGTT
477306 CTGC
195 CTGC
* * * * *
477310 TTGATGAGAAGTTGAATAAAGTTGAAATATGTGTAATGTTTGTGATAGTCTTGCTAAATTATAAT
1 TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTGTGATAGTCTTGCTAAATTATAAT
* * *
477375 GTCCTCTATAGCAACCGTTAAGTTTGGTTAGCTTGAATGTGCAG------TTCTT--TTGGTTGC
66 GTCCTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTTTTTTTGTTCCTTGGTTGT
* * *
477432 ATTCAAGTTGTTAATCGGCCTGGTTGTGATAGGATTTAGGTTTTTAGGACTGGATTTTCTGGTTC
131 ATTCGAGTTGTTAATCGGCCTGGTTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTGGTTC
477497 TGC
196 TGC
477500 TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTGTTG-TAGTCTTGCTAAATTATAA
1 TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTG-TGATAGTCTTGCTAAATTATAA
*
477564 T-T--TCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTCTCTTATTGTTCCTTGGT
65 TGTCCTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTT-T-TTTTTGTTCCTTGGT
* *
477626 TGTATTCGAGTTGTTAATCGG-CTCGGTTTTGATAGGATTTAGGCTTTTAGGACTTGGTTTTCTG
128 TGTATTCGAGTTGTTAATCGGCCT-GGTTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTG
*
477690 GTTCAGC
192 GTTCTGC
477697 TT
1 TT
477699 TAGTTCCTAT
Statistics
Matches: 529, Mismatches: 45, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
187 39 0.07
189 1 0.00
190 127 0.24
191 2 0.00
192 2 0.00
193 2 0.00
195 4 0.01
196 2 0.00
197 68 0.13
198 157 0.30
199 125 0.24
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (198 bp):
TTGATGAAAATTTGAATAAAGTTGAAACATTTGGAATGTTTGTGATAGTCTTGCTAAATTATAAT
GTCCTCTATAGCATCCGTTAAGTTTGGTTAGCTTGAATGTGCAGTTTTTTTTGTTCCTTGGTTGT
ATTCGAGTTGTTAATCGGCCTGGTTGTGATAGGATTTAGGCTTTTAGGACTTGATTTTCTGGTTC
TGC
Found at i:482555 original size:83 final size:83
Alignment explanation
Indices: 482416--482581 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
482406 GGTTTTGCGG
482416 GTTTTTCAAATAAACTTGTTCGATGGATCCCTTGCATTTCATCTTGTTTCCCATTTTCTTCGCTC
1 GTTTTTCAAATAAACTTGTTCGATGGATCCCTTGCATTTCATCTTGTTTCCCATTTTCTTCGCTC
482481 CTTGGCTTGAGTTCTGGA
66 CTTGGCTTGAGTTCTGGA
*
482499 GTTTTTCAAATAAACTTGTTCGATGGATCTCTTGCATTTCATCTTGTTTCCCATTTTCTTCGCTC
1 GTTTTTCAAATAAACTTGTTCGATGGATCCCTTGCATTTCATCTTGTTTCCCATTTTCTTCGCTC
482564 CTTGGCTTGAGTTCTGGA
66 CTTGGCTTGAGTTCTGGA
482582 CTTGCAGAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (83 bp):
GTTTTTCAAATAAACTTGTTCGATGGATCCCTTGCATTTCATCTTGTTTCCCATTTTCTTCGCTC
CTTGGCTTGAGTTCTGGA
Found at i:484873 original size:20 final size:20
Alignment explanation
Indices: 484844--484884 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
484834 TAATAATATA
*
484844 ATTTTCTTAAAAAAATTATT
1 ATTTTCTTAAAAAAATCATT
* *
484864 ATTTTTTTAAATAAATCATT
1 ATTTTCTTAAAAAAATCATT
484884 A
1 A
484885 ATTTATAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTCTTAAAAAAATCATT
Found at i:488446 original size:14 final size:15
Alignment explanation
Indices: 488427--488455 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
488417 AATTTTAAAA
488427 TATATTA-TAATTAT
1 TATATTATTAATTAT
488441 TATATTATTAATTAT
1 TATATTATTAATTAT
488456 ATTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATTAATTAT
Found at i:488644 original size:18 final size:19
Alignment explanation
Indices: 488600--488644 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
488590 TAATTAATGT
488600 TATTAA-TTATTATTATTA
1 TATTAATTTATTATTATTA
*
488618 TATTTATTTATT-TTATTCA
1 TATTAATTTATTATTATT-A
488637 T-TTAATTT
1 TATTAATTT
488645 CTACGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTAATTTATTATTATTA
Found at i:488644 original size:22 final size:21
Alignment explanation
Indices: 488592--488644 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
488582 ATATTTAATA
488592 ATTAATGTTATTAATTATTATT
1 ATTAAT-TTATTAATTATTATT
*
488614 ATTATATTTATTTATT-TTATT
1 ATTA-ATTTATTAATTATTATT
488635 CATTTAATTT
1 -A-TTAATTT
488645 CTACGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.19
22 17 0.63
23 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTAATTTATTAATTATTATT
Found at i:490549 original size:2 final size:2
Alignment explanation
Indices: 490542--490580 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
490532 CAGATTCTGA
490542 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
490581 GTGTTTTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:505276 original size:12 final size:12
Alignment explanation
Indices: 505259--505288 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
505249 GAGGATGACC
505259 AAAAGAAGAAAA
1 AAAAGAAGAAAA
505271 AAAAGAAGAAAA
1 AAAAGAAGAAAA
505283 ATAAAG
1 A-AAAG
505289 CTGTTGCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGAAGAAAA
Found at i:519238 original size:2 final size:2
Alignment explanation
Indices: 519231--519282 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
519221 CGAAATGGGG
519231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
519273 TA TA TA TA TA
1 TA TA TA TA TA
519283 GAGAGAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:519287 original size:2 final size:2
Alignment explanation
Indices: 519282--519309 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
519272 ATATATATAT
519282 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
519310 GGGGGGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:523367 original size:121 final size:121
Alignment explanation
Indices: 523153--523381 Score: 413
Period size: 121 Copynumber: 1.9 Consensus size: 121
523143 TATACATGAA
* * *
523153 GTTGAGAAAAAAATCATTACTCGAAAACAACACATGGGATCTGACAGCATCTTAAATTGCAAACA
1 GTTGAGAAAAAAATCACTACTCCAAAACAACACATGGGATCTCACAGCATCTTAAATTGCAAACA
*
523218 TTACATGTTATAAGAAGCCATCAATAAATATGGACTCACCAATGGAAACAATACAT
66 TTACATGTTATAAAAAGCCATCAATAAATATGGACTCACCAATGGAAACAATACAT
523274 GTTGAGAAAAAAATCACTACTCCAAAACAACACATGGGATCTCACAGCATCTTAAATTGCAAACA
1 GTTGAGAAAAAAATCACTACTCCAAAACAACACATGGGATCTCACAGCATCTTAAATTGCAAACA
*
523339 TTACATGTTATAAAAAGCCATCAATAAATTTGGACTCACCAAT
66 TTACATGTTATAAAAAGCCATCAATAAATATGGACTCACCAAT
523382 ATAAATAATA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 103 1.00
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (121 bp):
GTTGAGAAAAAAATCACTACTCCAAAACAACACATGGGATCTCACAGCATCTTAAATTGCAAACA
TTACATGTTATAAAAAGCCATCAATAAATATGGACTCACCAATGGAAACAATACAT
Found at i:524627 original size:10 final size:10
Alignment explanation
Indices: 524612--524651 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
524602 CATTTAAATG
524612 ATAAACGAAC
1 ATAAACGAAC
*
524622 ATAAACTAAC
1 ATAAACGAAC
524632 ATAAACGAAC
1 ATAAACGAAC
*
524642 ACAAACGAAC
1 ATAAACGAAC
524652 GAACATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.60, C:0.23, G:0.07, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:524662 original size:27 final size:26
Alignment explanation
Indices: 524632--524682 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
524622 ATAAACTAAC
524632 ATAAACGAACACAAACGAACGAACATA
1 ATAAACGAACACAAACGAAC-AACATA
** *
524659 ATAAATTAACATAAACGAACAACA
1 ATAAACGAACACAAACGAACAACA
524683 CAAACACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.61, C:0.20, G:0.08, T:0.12
Consensus pattern (26 bp):
ATAAACGAACACAAACGAACAACATA
Found at i:524979 original size:24 final size:26
Alignment explanation
Indices: 524941--524996 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
524931 TGCCCTCTGT
*
524941 TCGAATATAAATGAACGAACAT-TAA
1 TCGAACATAAATGAACGAACATATAA
524966 T-GAACATAAATGAACGAACATATAA
1 TCGAACATAAATGAACGAACATATAA
524991 TCGAAC
1 TCGAAC
524997 GTTCACAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 19 0.68
25 5 0.18
26 4 0.14
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (26 bp):
TCGAACATAAATGAACGAACATATAA
Found at i:529821 original size:1 final size:1
Alignment explanation
Indices: 529815--529839 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
529805 GTGGTTATAC
529815 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
529840 GAGGCAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:535294 original size:13 final size:13
Alignment explanation
Indices: 535276--535304 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
535266 ATAACTTATA
535276 TGTAAATTATATT
1 TGTAAATTATATT
535289 TGTAAATTATATT
1 TGTAAATTATATT
535302 TGT
1 TGT
535305 TACTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (13 bp):
TGTAAATTATATT
Found at i:536107 original size:47 final size:50
Alignment explanation
Indices: 536018--536128 Score: 201
Period size: 47 Copynumber: 2.3 Consensus size: 50
536008 CAGAATCGAA
536018 ACAAAAACAAGCCTGAGCTCCACACACATATGATCATTCAACATTCAGAC
1 ACAAAAACAAGCCTGAGCTCCACACACATATGATCATTCAACATTCAGAC
536068 ACAAAAACAAGCCTGAGCT-CACACA-A-ATGATCATTCAACATTCAGAC
1 ACAAAAACAAGCCTGAGCTCCACACACATATGATCATTCAACATTCAGAC
536115 ACAAAAACAAGCCT
1 ACAAAAACAAGCCT
536129 TTGTCCTTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
47 35 0.57
48 1 0.02
49 6 0.10
50 19 0.31
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (50 bp):
ACAAAAACAAGCCTGAGCTCCACACACATATGATCATTCAACATTCAGAC
Found at i:545641 original size:7 final size:8
Alignment explanation
Indices: 545629--545680 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
545619 TTAATCATAC
545629 TATAAAT-
1 TATAAATA
545636 TATAAATA
1 TATAAATA
*
545644 TATATATA
1 TATAAATA
*
545652 TATATATA
1 TATAAATA
*
545660 TATATATA
1 TATAAATA
*
545668 TATATATA
1 TATAAATA
545676 TATAA
1 TATAA
545681 GAATTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
7 7 0.17
8 35 0.83
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TATAAATA
Found at i:545648 original size:2 final size:2
Alignment explanation
Indices: 545636--545679 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
545626 TACTATAAAT
*
545636 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
545678 TA
1 TA
545680 AGAATTTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:553431 original size:26 final size:27
Alignment explanation
Indices: 553385--553442 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 27
553375 CTCAAAATAG
553385 TTGTCTTTCTCTTAACACAAGTTCTGA
1 TTGTCTTTCTCTTAACACAAGTTCTGA
553412 TTGTCTTTCT-TTAACACAAGTTCTGA
1 TTGTCTTTCTCTTAACACAAGTTCTGA
553438 TTGTC
1 TTGTC
553443 CTAATTAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (27 bp):
TTGTCTTTCTCTTAACACAAGTTCTGA
Found at i:553554 original size:21 final size:20
Alignment explanation
Indices: 553530--553569 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
553520 CAAACCAAAT
553530 ATCACAAACAATACCAAAAAG
1 ATCA-AAACAATACCAAAAAG
* *
553551 ATCATAGCAATACCAAAAA
1 ATCAAAACAATACCAAAAA
553570 AAAAACCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.60, C:0.23, G:0.05, T:0.12
Consensus pattern (20 bp):
ATCAAAACAATACCAAAAAG
Found at i:562271 original size:60 final size:59
Alignment explanation
Indices: 562119--562274 Score: 179
Period size: 60 Copynumber: 2.6 Consensus size: 59
562109 GTATATGCGT
* * *
562119 ATAGTTTGGGATTAAATTGAAATGTTTAAAAAGTTTGAGGACTAATTTAGAATGAAGATT
1 ATAGTTTGGGATGAAATTGAAATGTTT-AAAAGTTTGAGAACTAATTTAGAATGAAGATC
* * * *
562179 ATAGTTTGGGGATGAAACTGAAATGCTCAAAAGTTTGATAACTAATTTAGAATGACA-ATC
1 ATAGTTT-GGGATGAAATTGAAATGTTTAAAAGTTTGAGAACTAATTTAGAATGA-AGATC
* * *
562239 ATAGTTTATGGATGAAATTGGAATATTTAAAAGTTT
1 ATAGTTT-GGGATGAAATTGAAATGTTTAAAAGTTT
562275 AGCAACCGAT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
60 63 0.79
61 17 0.21
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATGTTTAAAAGTTTGAGAACTAATTTAGAATGAAGATC
Found at i:585789 original size:22 final size:22
Alignment explanation
Indices: 585764--585813 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
585754 TTCTATATAT
* *
585764 TATTTTAATTTAATTTAATTCC
1 TATTTTAATTTAATTAAATTCA
*
585786 TATTTTATTTTAATTAAATTCA
1 TATTTTAATTTAATTAAATTCA
585808 TATTTT
1 TATTTT
585814 TATTGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTAATTTAATTAAATTCA
Found at i:587133 original size:28 final size:27
Alignment explanation
Indices: 587082--587150 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 27
587072 CTTTATTTTG
587082 TTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTAAGTGTGATA
*
587109 TTCGGGTCGGATTTTTTTAAGTGTGATA
1 TTCGGGTCGG-GTTTTTTAAGTGTGATA
587137 TTCGGGTCGGGTTT
1 TTCGGGTCGGGTTT
587151 ATGGTGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 13 0.33
28 26 0.67
ACGTcount: A:0.13, C:0.09, G:0.33, T:0.45
Consensus pattern (27 bp):
TTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:587395 original size:212 final size:218
Alignment explanation
Indices: 587143--587538 Score: 597
Period size: 212 Copynumber: 1.8 Consensus size: 218
587133 GATATTCGGG
* *** *
587143 TCGGGTTTATGGTGAAAAAAACCGGACCGACTTGAAAATATATATAATTCGGGTCGGGTCGGATT
1 TCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTCGGGTAGGGTCGGATT
** *
587208 AAGTCACTGTTTTTATTAAAT-AAAT-TTTTATTATTA-TT-AT-T-TCGTGTCAGATTTCTAAT
66 AAGTCACTACTTTTATTAAATAAAATATTTTATTATTATTTGATCTGTCGGGTCAGATTTCTAAT
587267 TCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTTAAGT
131 TCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTTAAGT
587332 GTGGTATTCGGGTCGGATCAGGT
196 GTGGTATTCGGGTCGGATCAGGT
587355 TCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTCGGGTAGGGTCGGATT
1 TCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTCGGGTAGGGTCGGATT
* * *
587420 AAGTCACTACTTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCTGGTCGGGTCGGATTTC
66 AAGTCACTACTTTTATTAAAT-AAAATATTTTATTATTATTT--GATCT-GTCGGGTCAGATTTC
* *
587485 TAATTCATATATTTGGGTCGGGTCGGATGAAACTTTGTTTTGTTCGGGTCGGGT
127 TAATTCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGT
587539 TTTTTAAGTG
Statistics
Matches: 161, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
212 79 0.49
214 4 0.02
215 10 0.06
216 2 0.01
219 1 0.01
220 1 0.01
222 64 0.40
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (218 bp):
TCGGGTTTAGGGTGAAAAAAACCGGACCGACCCAAAAATATATATAATTCGGGTAGGGTCGGATT
AAGTCACTACTTTTATTAAATAAAATATTTTATTATTATTTGATCTGTCGGGTCAGATTTCTAAT
TCATATATTCGGGTCGGGTCGGATGAAACTTTATTTTGTTCGGGTCGGGTCGGGTTTTTTTAAGT
GTGGTATTCGGGTCGGATCAGGT
Found at i:587579 original size:37 final size:37
Alignment explanation
Indices: 587528--587599 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
587518 TTTGTTTTGT
587528 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
*
587565 TCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCG
587600 GGTTTAGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.12, C:0.11, G:0.36, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:588174 original size:16 final size:17
Alignment explanation
Indices: 588153--588199 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
588143 TTTCGGAATT
588153 AGATTTCAATTCCT-AC
1 AGATTTCAATTCCTCAC
*
588169 AGATTTCAATTCTTTCAC
1 AGATTTCAATTC-CTCAC
*
588187 AAATTTCAATTCC
1 AGATTTCAATTCC
588200 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 13 0.50
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.40
Consensus pattern (17 bp):
AGATTTCAATTCCTCAC
Found at i:593796 original size:22 final size:22
Alignment explanation
Indices: 593736--593796 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 22
593726 CTATTTATAT
* * *
593736 ATATTATTTTTTAAATTAAAATT
1 ATATT-TTTTATAAATAAAAATA
* *
593759 TTA-TTTTTATCTAATAAAAATA
1 ATATTTTTTAT-AAATAAAAATA
593781 ATATTTTTTATAAATA
1 ATATTTTTTATAAATA
593797 TATTTAATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 5 0.17
22 15 0.52
23 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTTTTATAAATAAAAATA
Found at i:598444 original size:3 final size:3
Alignment explanation
Indices: 598396--598431 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
598386 CTTTTGTAGT
*
598396 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
598432 AAAAGATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:600572 original size:19 final size:19
Alignment explanation
Indices: 600548--600586 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
600538 TATTTTTTTA
600548 AAGTACAGAGACCTTTAAT
1 AAGTACAGAGACCTTTAAT
600567 AAGTACAGAGACCTTTAAT
1 AAGTACAGAGACCTTTAAT
600586 A
1 A
600587 CATTGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
AAGTACAGAGACCTTTAAT
Found at i:601691 original size:183 final size:183
Alignment explanation
Indices: 601448--601813 Score: 558
Period size: 183 Copynumber: 2.0 Consensus size: 183
601438 AATTTTAAAT
* ** * *
601448 ATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATACGATTAATAATTTA
1 ATTAAATATATTACATATAACATATGAACTCAACCCAAACCATTTAAAATACAATTAATAATTTA
*
601513 ATATCCAATAACTTTTAAACCTAAATCAATATTAATTAA-T-AAAAAATTATATAAAAAATTTAT
66 AGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAAATTTAT
* *
601576 TTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTTAATTAAAAAA
131 TTTATAATTATATATTATTTAAATTAATTATAAAATG--TTTTTTAATTAAAAAA
* * *
601631 ATTAAATATATTACATATAACATATGAACTCAACCTAAATCATTTAAGACT-CAATTAATAATTT
1 ATTAAATATATTACATATAACATATGAACTCAACCCAAACCATTTAA-AATACAATTAATAATTT
* **
601695 AAGATCCAATAATTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTTTTA
65 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAAATTTA
601760 TTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTTAATTAAAAAA
130 TTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTTAATTAAAAAA
601814 TATTTAATTT
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
183 107 0.64
184 3 0.02
185 56 0.34
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (183 bp):
ATTAAATATATTACATATAACATATGAACTCAACCCAAACCATTTAAAATACAATTAATAATTTA
AGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAAATTTAT
TTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTTAATTAAAAAA
Found at i:602394 original size:21 final size:20
Alignment explanation
Indices: 602364--602417 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
602354 TAGTTTCTAA
*
602364 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGAATAT-AAG
* *
602385 ATTTGCAACGCGATTATAAG
1 ATTCGCAACGCGAATATAAG
602405 ATTCGCAACGCGA
1 ATTCGCAACGCGA
602418 TTTTGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (20 bp):
ATTCGCAACGCGAATATAAG
Found at i:602412 original size:20 final size:21
Alignment explanation
Indices: 602364--602419 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
602354 TAGTTTCTAA
* *
602364 ATTCGCAACGCGAATATCCAG
1 ATTCGCAACGCGATTATCAAG
*
602385 ATTTGCAACGCGATTAT-AAG
1 ATTCGCAACGCGATTATCAAG
602405 ATTCGCAACGCGATT
1 ATTCGCAACGCGATT
602420 TTGAAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
ATTCGCAACGCGATTATCAAG
Found at i:602484 original size:19 final size:19
Alignment explanation
Indices: 602460--602496 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
602450 GAAAAACGTG
*
602460 TTGTTGTGATAGTGAAAAT
1 TTGTTGCGATAGTGAAAAT
602479 TTGTTGCGATAGTGAAAA
1 TTGTTGCGATAGTGAAAA
602497 ATCCAAAATA
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:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (19 bp):
TTGTTGCGATAGTGAAAAT
Found at i:611619 original size:5 final size:5
Alignment explanation
Indices: 611609--611634 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
611599 AATTCATCTT
611609 TTGTA TTGTA TTGTA TTGTA TTGTA T
1 TTGTA TTGTA TTGTA TTGTA TTGTA T
611635 CAGAACATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (5 bp):
TTGTA
Found at i:611872 original size:13 final size:13
Alignment explanation
Indices: 611854--611878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
611844 AATTAATTTC
611854 AGTAAAAAAAAGA
1 AGTAAAAAAAAGA
611867 AGTAAAAAAAAG
1 AGTAAAAAAAAG
611879 GGGATGAGTT
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AGTAAAAAAAAGA
Found at i:617017 original size:31 final size:31
Alignment explanation
Indices: 616976--617035 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
616966 TGAATGGCCG
* *
616976 CTAACGTTATCGATCCGTTCGATTTTAATTC
1 CTAACATTATCGATCCGTTCAATTTTAATTC
*
617007 CTAACATTATCGATCCTTTCAATTTTAAT
1 CTAACATTATCGATCCGTTCAATTTTAAT
617036 CCATCAGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (31 bp):
CTAACATTATCGATCCGTTCAATTTTAATTC
Found at i:617538 original size:24 final size:24
Alignment explanation
Indices: 617511--617607 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
617501 TTTTAATTTT
617511 AATATTAATTTTTTAAATAAATTA
1 AATATTAATTTTTTAAATAAATTA
617535 AATATTAA-TTTTTAATATTATATTATAGATA
1 AATATTAATTTTTTAA-A-TA-A--AT---TA
617566 TTAATATTAATTTTTTAAATAAATTA
1 --AATATTAATTTTTTAAATAAATTA
617592 AATATTAATTTTTTAA
1 AATATTAATTTTTTAA
617608 TATTATATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
23 7 0.11
24 25 0.40
25 2 0.03
26 3 0.05
28 2 0.03
29 2 0.03
31 3 0.05
32 2 0.03
33 9 0.15
34 7 0.11
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
AATATTAATTTTTTAAATAAATTA
Found at i:617551 original size:13 final size:12
Alignment explanation
Indices: 617503--617576 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 12
617493 ATATTTGATT
617503 TTAATTTTAATA
1 TTAATTTTAATA
617515 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
617528 -TAAATTAAATA
1 TTAATTTTAATA
617539 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
617552 TTATATTATAGATA
1 TTA-ATTTTA-ATA
*
617566 TTAATATTAAT
1 TTAATTTTAAT
617577 TTTTTAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 12 0.25
13 18 0.38
14 13 0.27
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:617575 original size:57 final size:57
Alignment explanation
Indices: 617509--617637 Score: 208
Period size: 57 Copynumber: 2.2 Consensus size: 57
617499 GATTTTAATT
617509 TTAATATTAATTTTTTAAATAAATTAAATATTAA-TTTTTAATATTATATTATAGATA
1 TTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATA-TATAGATA
*
617566 TTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATATATATA
1 TTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATATAGATA
617623 -TATATATTTAATTTT
1 TTA-ATA-TTAATTTT
617638 ATATCATATA
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
56 2 0.03
57 44 0.65
58 22 0.32
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (57 bp):
TTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATATAGATA
Found at i:617646 original size:19 final size:18
Alignment explanation
Indices: 617617--617662 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
617607 ATATTATATA
*
617617 TATATATATATATTTAATTT
1 TATATATATA-AATT-ATTT
617637 TATATCATATAAATTATTT
1 TATAT-ATATAAATTATTT
617656 TATATAT
1 TATATAT
617663 TATTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 8 0.33
21 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TATATATATAAATTATTT
Found at i:618208 original size:31 final size:31
Alignment explanation
Indices: 618150--618209 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
618140 TAGTTGTATC
* **
618150 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTACAAAACTAA
618181 AATTATTTAAATCTCAGTATTACAAAACT
1 AATTATTTAAATCTCAGTATTACAAAACT
618210 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTACAAAACTAA
Found at i:625438 original size:60 final size:60
Alignment explanation
Indices: 625345--625491 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
625335 AATTAAGCGT
625345 AAAG-TACATAAATAGTCATTCGACTATAGAATATTACTTTATTAAGTA-ACTCGACTATAA
1 AAAGTTACA-AAATAGTCATTCGACTATAGAATATTACTTTATTAAGTACA-TCGACTATAA
* * * * *
625405 AAAGTTATAAAATAGTCATTCGACTATATAATATTACTTTGTTAAGTCCATCGACTATTA
1 AAAGTTACAAAATAGTCATTCGACTATAGAATATTACTTTATTAAGTACATCGACTATAA
* * * *
625465 AAATTTACAAAATGGTCGTTTGACTAT
1 AAAGTTACAAAATAGTCATTCGACTAT
625492 TCATTATATT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
60 71 0.95
61 4 0.05
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (60 bp):
AAAGTTACAAAATAGTCATTCGACTATAGAATATTACTTTATTAAGTACATCGACTATAA
Found at i:650975 original size:261 final size:254
Alignment explanation
Indices: 650382--650978 Score: 794
Period size: 270 Copynumber: 2.3 Consensus size: 254
650372 ATTGAATATT
* *
650382 TTTTTATTATTTCGGGTCAGGTCAGGTTTCTAATTCATATATTC--G--GGTCGGGTGAAAC--T
1 TTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGTCGGGTGAAACTTT
650441 -TTTTT--T--GGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGGGTTTAGGGTG
66 ATTTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGGGTTTAGGGTG
* * *
650501 AAAAATATCTGACCCAAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA
131 AAAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA
** **
650566 CCCCTCTATATATAATTTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTT
196 CCCCTCTATATAT-ATTTTTTCCCAATTAAGTCACTGTTTTTATTGAATAAAAATAA-TAA
650627 TTTATTATTATTTCGGGTCGGGTCAGGTCGGATTTCTAATTCATATATTCGGGTCGGGT-GGGTG
1 TTT-TTATTATTTCGGGTCGGGTC--G--GG-TTTCTAATTCATATATTCGGGTC-GGTCGGGTG
*
650691 AAACTTTA-TTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTTGGGTTC
59 AAACTTTATTTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTC-----GAGTTC
650755 GGGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAAATATATAATTTTACCTTATATATTTAGG
119 GGGTTTAGGGTGAAAAATACCCGACCC-A---AAAAAATATATAATTTTACCTTATATATTTAGG
* *
650820 AATAATTATAATAATACCTCTCTATAT-T-TTTTTTCCCAATTAAGTCACTGTTTTTATTGAATA
180 AATAATTACAATAATACCCCTCTATATATATTTTTTCCCAATTAAGTCACTGTTTTTATTGAATA
650883 AAAATAA-AA
245 AAAATAATAA
*
650892 TTTTTATTATTTGGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCAGGTCGGGTGAAACTT
1 TTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTC-GGTCGGGTGAAACTT
650957 TATTTTTGGTCGGGTCGGGTCG
65 TATTTTTGGTCGGGTCGGGTCG
650979 CGGATGGAGA
Statistics
Matches: 309, Mismatches: 14, Indels: 42
0.85 0.04 0.12
Matches are distributed among these distances:
245 3 0.01
246 19 0.06
250 2 0.01
251 18 0.06
253 1 0.00
255 9 0.03
256 3 0.01
257 5 0.02
259 27 0.09
260 15 0.05
261 55 0.18
262 1 0.00
264 19 0.06
265 3 0.01
266 30 0.10
267 41 0.13
269 1 0.00
270 57 0.18
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (254 bp):
TTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGTCGGGTGAAACTTT
ATTTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTTCGGGTTTAGGGTG
AAAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA
CCCCTCTATATATATTTTTTCCCAATTAAGTCACTGTTTTTATTGAATAAAAATAATAA
Found at i:652735 original size:258 final size:245
Alignment explanation
Indices: 652297--652845 Score: 802
Period size: 258 Copynumber: 2.2 Consensus size: 245
652287 AAAATTTCAC
652297 CCGACCCGACCCGAAATAATAAAAAAAATTATTTTTATTCAAT-AAAACAGTGACTTAATTGAAA
1 CCGACCCGACCCGAAATAAT--AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
* *
652361 ATATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAATGTAAAATTATATATTTTT
64 AAATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTT
652426 GGGTCGGGTCAGGTATTTTTCACCCTAAACCCGAACCCAGCCCGACCCGAATATCACACTTAAAA
129 GGGTC-GG-CAGGTATTTTTCACCCTAAACCCGAACCCAGCCCGACCCGAATATCACACTTAAAA
652491 AAACCGACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAA
192 AAACCGACCCGA-CC-A--AAAA-AAAGTTT----C-ACCCGACCCGAATATATGAATTAGAAA
652555 TCCGACCCGACCCGAAATAATAAAAAATTTATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
1 -CCGACCCGACCCGAAATAATAAAAAA-TTATTTTTATTCAATAAAAACAGTGACTTAATTG-AA
* *
652620 AAAATTATATATAGAGGGGTATTATTGTAATTATTTCTAAATATATAAGGTAAAATTATATATAT
63 AAAA-TATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAA-T-TATATAT
*
652685 TTTTGGGTC-G-A-GTATTTTTCACCCTAAACCCGAACTC-GACCCGACCCGAATATCACACTTA
125 TTTTGGGTCGGCAGGTATTTTTCACCCTAAACCCGAACCCAG-CCCGACCCGAATATCACACTTA
652746 AAAAAACCGACCCGACCAAAAAAAAGTTTCACCCGACCCGAATATATGAATTAGAAA
189 AAAAAACCGACCCGACCAAAAAAAAGTTTCACCCGACCCGAATATATGAATTAGAAA
* *
652803 CCTGGCCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
1 CC-GACCCGACCCGAAATAATAAAAAATTATTTTTATTCAATA
652846 TATGAATAAG
Statistics
Matches: 275, Mismatches: 7, Indels: 28
0.89 0.02 0.09
Matches are distributed among these distances:
247 17 0.06
248 50 0.18
249 1 0.00
253 7 0.03
254 4 0.01
256 1 0.00
257 9 0.03
258 77 0.28
259 39 0.14
260 5 0.02
261 48 0.17
262 1 0.00
263 16 0.06
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.28
Consensus pattern (245 bp):
CCGACCCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAA
ATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTGG
GTCGGCAGGTATTTTTCACCCTAAACCCGAACCCAGCCCGACCCGAATATCACACTTAAAAAAAC
CGACCCGACCAAAAAAAAGTTTCACCCGACCCGAATATATGAATTAGAAA
Found at i:654808 original size:24 final size:25
Alignment explanation
Indices: 654759--654807 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
654749 ATGATAATAA
654759 AATTATCTTCCAATATTTATCAAAAT
1 AATTATCTT-CAATATTTATCAAAAT
*
654785 AATTATCTT-AATTTTTAATCAAA
1 AATTATCTTCAATATTT-ATCAAA
654808 TTAGTTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATCTTCAATATTTATCAAAAT
Found at i:656089 original size:2 final size:2
Alignment explanation
Indices: 656082--656110 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
656072 ATCCTAACCC
656082 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
656111 TCAAAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:658454 original size:74 final size:74
Alignment explanation
Indices: 658333--658480 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
658323 TCATGCAGTC
658333 CGTTCAATAACAAGTGTAACATGTGATCCGTTATAGACCCTAAAAGTTAGGGGCCCTACACGTAA
1 CGTTCAATAACAAGTGTAACATGTGATCCGTTATAGACCCTAAAAGTTAGGGGCCCTACACGTAA
658398 ATGTTATTT
66 ATGTTATTT
658407 CGTTCAATAACAAGTGTAACATGTGATCCGTTATAGACCCTAAAAGTTAGGGGCCCTACACGTAA
1 CGTTCAATAACAAGTGTAACATGTGATCCGTTATAGACCCTAAAAGTTAGGGGCCCTACACGTAA
658472 ATGTTATTT
66 ATGTTATTT
658481 ATGCACGTGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (74 bp):
CGTTCAATAACAAGTGTAACATGTGATCCGTTATAGACCCTAAAAGTTAGGGGCCCTACACGTAA
ATGTTATTT
Found at i:658871 original size:20 final size:19
Alignment explanation
Indices: 658837--658883 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
658827 ACATATCATC
658837 AATA-AAAATTACAAAGAACA
1 AATATAAAATTACAAA-AA-A
*
658857 AATCTAAAA-TACAAAAAA
1 AATATAAAATTACAAAAAA
658875 AATATAAAA
1 AATATAAAA
658884 AATTTAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 9 0.38
21 4 0.17
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (19 bp):
AATATAAAATTACAAAAAA
Found at i:659051 original size:60 final size:60
Alignment explanation
Indices: 658983--659106 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
658973 TAAAGTATAT
658983 AAATGATCCTCCGA-CTATAAAATATT-ATTTTATTAAG-TCACTCGACTATTAAAAGTTACA
1 AAATGATCCT-CGAGCTATAAAATATTGA-TTTATTAAGTTC-CTCGACTATTAAAAGTTACA
* * * * *
659043 AAATGATCCTCTAGTTATAAAGTATTGATTTGTTGAGTTCCTCGACTATTAAAAGTTACA
1 AAATGATCCTCGAGCTATAAAATATTGATTTATTAAGTTCCTCGACTATTAAAAGTTACA
659103 AAAT
1 AAAT
659107 AGTCACCCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
59 2 0.04
60 51 0.91
61 3 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (60 bp):
AAATGATCCTCGAGCTATAAAATATTGATTTATTAAGTTCCTCGACTATTAAAAGTTACA
Found at i:664373 original size:8 final size:8
Alignment explanation
Indices: 664362--664407 Score: 83
Period size: 8 Copynumber: 5.8 Consensus size: 8
664352 CACACATGCA
*
664362 TACATATG
1 TACATACG
664370 TACATACG
1 TACATACG
664378 TACATACG
1 TACATACG
664386 TACATACG
1 TACATACG
664394 TACATACG
1 TACATACG
664402 TACATA
1 TACATA
664408 ATACAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (8 bp):
TACATACG
Found at i:667548 original size:6 final size:6
Alignment explanation
Indices: 667537--667563 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
667527 ATGTTGGTTT
667537 TCTTCA TCTTCA TCTTCA TCTTCA TCT
1 TCTTCA TCTTCA TCTTCA TCTTCA TCT
667564 CCTCCGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:667780 original size:2 final size:2
Alignment explanation
Indices: 667773--667823 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
667763 CACAATTCAT
667773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
667815 TA TA TA TA T
1 TA TA TA TA T
667824 GCAATAATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:668730 original size:60 final size:58
Alignment explanation
Indices: 668571--668730 Score: 160
Period size: 61 Copynumber: 2.7 Consensus size: 58
668561 AAATTCAAAC
* *
668571 ATTCAAAAGTTTGGGGACTAATATAGAACGAGGATCATAATTTGGAGAAGAATTTAAAAT
1 ATTCAAAAGTTT-GGGACTAATATAGAATGAGGATCAT-AGTTGGAGAAGAATTTAAAAT
* * * * * * * *
668631 GTTTAAAATTTTGGGACCAATTTAGAATGAATGTG-TCATAGTTGGAGGATGGATTTAGAAT
1 ATTCAAAAGTTTGGGACTAATATAGAATG-A-G-GATCATAGTTGGA-GAAGAATTTAAAAT
668692 ATTCAAAAGTTTGTGGACTAATATAGAATGAGGATCATA
1 ATTCAAAAGTTTG-GGACTAATATAGAATGAGGATCATA
668731 AATGTTCCCC
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
59 15 0.19
60 22 0.28
61 27 0.34
62 15 0.19
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (58 bp):
ATTCAAAAGTTTGGGACTAATATAGAATGAGGATCATAGTTGGAGAAGAATTTAAAAT
Found at i:668907 original size:205 final size:204
Alignment explanation
Indices: 668524--668909 Score: 510
Period size: 205 Copynumber: 1.9 Consensus size: 204
668514 CCAAAACGTT
* *
668524 TAAATGTTCCTCTAAAGCATTCAAAAGTTTGGGGATGAAATTCAAACATTCAAAAGTTTGGGGAC
1 TAAATGTTCCCCTAAAGCATTCAAAAGTTTGGGGATGAAATTAAAACATTCAAAAGTTTGGGGAC
* * * * *
668589 TAATATAGAACGAGGATCATAATTTGGAGAAGAATTTAAAATGTTTAAAATTTTGGGACCAATTT
66 CAATATAGAACGAGGATCATAATTTAGAGAAGAATTTAAAATGTTCAAAAGTTTGGGAACAATTT
* * * *
668654 AGAATGAATGTGTCATAGTTGGAGGATGGATTTAGAATATTCAAAAGTTTGTGGACTAATATAGA
131 AGAATGAA-GAGTAATAGTTGGAGGATGAATTTAAAATATTCAAAAGTTTGTGGACTAATATAGA
668719 ATGAGGATCA
195 ATGAGGATCA
* * *
668729 TAAATGTTCCCCTAAATCATTCGAAAGTTTGGGGGATGAAATTAAAACATTCAAAATTTTGGGGG
1 TAAATGTTCCCCTAAAGCATTCAAAAGTTT-GGGGATGAAATTAAAACATTCAAAAGTTT-GGGG
* * * * *
668794 ACCAATGTCA-AATGAGGATTATAATTTAGAGATGAATTTCAAATGTTCAAAAGTTT-GGAACAA
64 ACCAATAT-AGAACGAGGATCATAATTTAGAGAAGAATTTAAAATGTTCAAAAGTTTGGGAACAA
*
668857 GTTTAGAATGAA-AGTAATA-TCTGGAGGATGAATTTAAAATATTTAAAAGTTTG
128 -TTTAGAATGAAGAGTAATAGT-TGGAGGATGAATTTAAAATATTCAAAAGTTTG
668910 AAAATAAATT
Statistics
Matches: 156, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
204 1 0.01
205 61 0.39
206 33 0.21
207 60 0.38
208 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (204 bp):
TAAATGTTCCCCTAAAGCATTCAAAAGTTTGGGGATGAAATTAAAACATTCAAAAGTTTGGGGAC
CAATATAGAACGAGGATCATAATTTAGAGAAGAATTTAAAATGTTCAAAAGTTTGGGAACAATTT
AGAATGAAGAGTAATAGTTGGAGGATGAATTTAAAATATTCAAAAGTTTGTGGACTAATATAGAA
TGAGGATCA
Found at i:670964 original size:8 final size:8
Alignment explanation
Indices: 670951--671144 Score: 269
Period size: 8 Copynumber: 25.2 Consensus size: 8
670941 AAATATAGTG
*
670951 ATGCATGC
1 ATGCATAC
670959 ATGCATAC
1 ATGCATAC
*
670967 ATACATAC
1 ATGCATAC
670975 ATGCATAC
1 ATGCATAC
670983 ATGCAT--
1 ATGCATAC
670989 A--CATAC
1 ATGCATAC
*
670995 ATACATAC
1 ATGCATAC
671003 ATGCATAC
1 ATGCATAC
671011 ATGCATAC
1 ATGCATAC
*
671019 ATACATAC
1 ATGCATAC
*
671027 ATACATAC
1 ATGCATAC
671035 ATGCAT--
1 ATGCATAC
671041 A--CATAC
1 ATGCATAC
671047 ATGCATAC
1 ATGCATAC
671055 ATGCATAC
1 ATGCATAC
*
671063 ATGCATCC
1 ATGCATAC
671071 ATGCATAC
1 ATGCATAC
*
671079 ATGCATCC
1 ATGCATAC
671087 ATGCATAC
1 ATGCATAC
671095 ATGCATAC
1 ATGCATAC
671103 ATGCATAC
1 ATGCATAC
671111 ATGCATAC
1 ATGCATAC
671119 ATGCATAC
1 ATGCATAC
671127 ATGCATAC
1 ATGCATAC
671135 ATGCATAC
1 ATGCATAC
671143 AT
1 AT
671145 ACATTTCCCA
Statistics
Matches: 168, Mismatches: 10, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
4 6 0.04
6 4 0.02
8 158 0.94
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (8 bp):
ATGCATAC
Found at i:671198 original size:51 final size:54
Alignment explanation
Indices: 671120--671264 Score: 224
Period size: 51 Copynumber: 2.7 Consensus size: 54
671110 CATGCATACA
* *
671120 TGCATACATGCATACATGCATACATACATTTCCCAATCCATAAATACATTGAT-
1 TGCATGCATGCATACATGCATACATACATTTCCCAATCCATAAATACAGTGATG
*
671173 T-CATGCATGCAT-CATGCATACATACATTTCCCAATCCATAAATATAGTGATGCG
1 TGCATGCATGCATACATGCATACATACATTTCCCAATCCATAAATACAGTGAT--G
671227 TGCATGCATGCATACATGCATACATACATTTCCCAATC
1 TGCATGCATGCATACATGCATACATACATTTCCCAATC
671265 AATATATTGA
Statistics
Matches: 84, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
51 37 0.44
52 10 0.12
53 1 0.01
54 1 0.01
55 11 0.13
56 24 0.29
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (54 bp):
TGCATGCATGCATACATGCATACATACATTTCCCAATCCATAAATACAGTGATG
Found at i:671318 original size:42 final size:36
Alignment explanation
Indices: 671241--671334 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 36
671231 TGCATGCATA
* *
671241 CATGCATACATACATTTCCCAATCAATATATTGATG
1 CATGCATACATACATTTCCCAATCAATAAAGTGATG
671277 CATGCATACACATACATTTCCCAATTCATAAATAAAGTGATG
1 CATGCAT--ACATACATTTCCCAA-TC---AATAAAGTGATG
*
671319 CATGCATGCATACATT
1 CATGCATACATACATT
671335 AGTCCTACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 7 0.14
38 15 0.31
39 2 0.04
40 8 0.16
42 17 0.35
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (36 bp):
CATGCATACATACATTTCCCAATCAATAAAGTGATG
Found at i:671320 original size:38 final size:38
Alignment explanation
Indices: 671241--671325 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 38
671231 TGCATGCATA
* **
671241 CATGCAT--ACATACATTTCCCAATCAATATATTGATG
1 CATGCATACACATACATTTCCCAATCAAAATAAAGATG
671277 CATGCATACACATACATTTCCCAATTCATAAATAAAGTGATG
1 CATGCATACACATACATTTCCCAA-TCA-AAATAAA--GATG
671319 CATGCAT
1 CATGCAT
671326 GCATACATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 7 0.17
38 15 0.38
39 3 0.08
40 4 0.10
42 11 0.28
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (38 bp):
CATGCATACACATACATTTCCCAATCAAAATAAAGATG
Found at i:672205 original size:15 final size:15
Alignment explanation
Indices: 672185--672213 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
672175 TTTCACTTTG
672185 GTCATCGTCGTCGTC
1 GTCATCGTCGTCGTC
672200 GTCATCGTCGTCGT
1 GTCATCGTCGTCGT
672214 ACTTAGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.31, G:0.28, T:0.34
Consensus pattern (15 bp):
GTCATCGTCGTCGTC
Found at i:676824 original size:4 final size:4
Alignment explanation
Indices: 676815--676841 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
676805 TAATCAAGTC
676815 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
676842 CTCTCTAGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:688661 original size:6 final size:6
Alignment explanation
Indices: 688634--688697 Score: 51
Period size: 6 Copynumber: 10.2 Consensus size: 6
688624 TTTTAAAATG
* *
688634 TTATAA GTATAA TTATGAAA TTATAA TTATGAA TTAGT-A TAAT-A TTAGTAA
1 TTATAA TTATAA TTAT--AA TTATAA TTAT-AA TTA-TAA TTATAA TTA-TAA
688685 TTATAA TTATAA T
1 TTATAA TTATAA T
688698 GTATTTGGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
5 4 0.08
6 28 0.58
7 9 0.19
8 7 0.15
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (6 bp):
TTATAA
Found at i:688807 original size:16 final size:16
Alignment explanation
Indices: 688786--688816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
688776 TGACACATAA
*
688786 TATTTATATATAATAG
1 TATTTAAATATAATAG
688802 TATTTAAATATAATA
1 TATTTAAATATAATA
688817 TTTTAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTTAAATATAATAG
Found at i:695186 original size:2 final size:2
Alignment explanation
Indices: 695181--695210 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
695171 ATAATAAGAT
695181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
695211 ATTCAATAGT
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):
TA
Found at i:695649 original size:23 final size:23
Alignment explanation
Indices: 695588--695656 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
695578 TAATTATGTT
695588 TTTATGACACA---TTCTCTGTC
1 TTTATGACACATTTTTCTCTGTC
* *
695608 TTTATGACACGTTTATCTCTGTC
1 TTTATGACACATTTTTCTCTGTC
* * * *
695631 TTTGTGATATATTTTTCTCTGCC
1 TTTATGACACATTTTTCTCTGTC
695654 TTT
1 TTT
695657 TGGTAGCTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
20 10 0.26
23 28 0.74
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.52
Consensus pattern (23 bp):
TTTATGACACATTTTTCTCTGTC
Found at i:698167 original size:19 final size:18
Alignment explanation
Indices: 698145--698183 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
698135 ATTGTCTAAG
*
698145 AATTTACAATTAGAAGTTT
1 AATTTACAATT-GAAATTT
*
698164 AATTTGCAATTGAAATTT
1 AATTTACAATTGAAATTT
698182 AA
1 AA
698184 GAATTTGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (18 bp):
AATTTACAATTGAAATTT
Found at i:698209 original size:21 final size:21
Alignment explanation
Indices: 698145--698210 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
698135 ATTGTCTAAG
*
698145 AATTTACAATTAGAAGTTT--
1 AATTTGCAATTAGAAGTTTAA
*
698164 AATTTGCAATT-GAAATTTAA
1 AATTTGCAATTAGAAGTTTAA
**
698184 GAATTTGGGATTAGAAGTTTAA
1 -AATTTGCAATTAGAAGTTTAA
698206 AATTT
1 AATTT
698211 TATATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.16
19 10 0.26
21 14 0.37
22 8 0.21
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (21 bp):
AATTTGCAATTAGAAGTTTAA
Found at i:699086 original size:21 final size:21
Alignment explanation
Indices: 699060--699102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
699050 TTTCTGGGTT
* *
699060 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
699081 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
699102 A
1 A
699103 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:699177 original size:67 final size:67
Alignment explanation
Indices: 699082--699232 Score: 207
Period size: 67 Copynumber: 2.3 Consensus size: 67
699072 ACCCATTCAA
* * *
699082 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC-TAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTA-AGGGGAATCGATA-CCCCA
699146 -GGG
64 GGGG
* * *
699149 GGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
699214 GG
66 GG
*
699216 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
699233 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 5 0.07
67 68 0.91
68 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.28, T:0.19
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
GG
Found at i:699572 original size:29 final size:29
Alignment explanation
Indices: 699538--699609 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
699528 CATATTATGA
**
699538 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
699567 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
699596 TACATGACATGAAT
1 TACATGACATGAAT
699610 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:699664 original size:30 final size:31
Alignment explanation
Indices: 699624--699682 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
699614 AGAAAAGTTC
*
699624 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
699655 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
699683 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Found at i:699930 original size:22 final size:22
Alignment explanation
Indices: 699902--699946 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
699892 TTATGGACAA
699902 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
699924 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
699946 A
1 A
699947 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:699954 original size:22 final size:22
Alignment explanation
Indices: 699902--699954 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
699892 TTATGGACAA
*
699902 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
699924 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
699946 ATTTATACG
1 AATTATACG
699955 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:705997 original size:21 final size:21
Alignment explanation
Indices: 705971--706013 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
705961 TTTCTGGGTT
* *
705971 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
705992 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
706013 A
1 A
706014 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:706088 original size:67 final size:66
Alignment explanation
Indices: 705993--706141 Score: 210
Period size: 67 Copynumber: 2.2 Consensus size: 66
705983 ACCCATTCAA
* * *
705993 GGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC-TAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTA-AGGGGAATCGATA-CCCCA
706057 GGG
64 GGG
* * *
706060 GGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
706125 G
66 G
*
706126 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
706142 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
66 23 0.31
67 49 0.66
68 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGG
G
Found at i:706481 original size:29 final size:29
Alignment explanation
Indices: 706447--706518 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
706437 CATATTATGA
**
706447 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
* *
706476 TACATGACATGAATTCATCTTATATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
706505 TACATGACATGAAT
1 TACATGACATGAAT
706519 ATGCAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:706573 original size:30 final size:31
Alignment explanation
Indices: 706533--706591 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
706523 AGAAAAGTTC
*
706533 TATGCACTATGTGATAAAAGTATGTAAATGA
1 TATGCACTATGTGATAAAAGTATGGAAATGA
* *
706564 TATGC-CTATGTGTTAAAGGTATGGAAAT
1 TATGCACTATGTGATAAAAGTATGGAAAT
706592 ACTATGTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (31 bp):
TATGCACTATGTGATAAAAGTATGGAAATGA
Found at i:706839 original size:22 final size:22
Alignment explanation
Indices: 706811--706855 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
706801 TTATGGACAA
706811 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
706833 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
706855 A
1 A
706856 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:706863 original size:22 final size:22
Alignment explanation
Indices: 706811--706863 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
706801 TTATGGACAA
*
706811 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
706833 AATTCTACGGGCACTTCGGTGC
1 AATTATACGGGCACTTCGGTGC
*
706855 ATTTATACG
1 AATTATACG
706864 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (22 bp):
AATTATACGGGCACTTCGGTGC
Found at i:737363 original size:15 final size:15
Alignment explanation
Indices: 737339--737371 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
737329 TAAGATCTAC
737339 AAATTAAGCAACTCT
1 AAATTAAGCAACTCT
*
737354 AAATTTAGCAACTCT
1 AAATTAAGCAACTCT
737369 AAA
1 AAA
737372 CTAACACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (15 bp):
AAATTAAGCAACTCT
Found at i:739052 original size:17 final size:18
Alignment explanation
Indices: 739027--739068 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
739017 TCCCTAAAAA
739027 TTTATATTTATCATATAT
1 TTTATATTTATCATATAT
* *
739045 TTTA-ATTTTTTATATAT
1 TTTATATTTATCATATAT
739062 TTT-TATT
1 TTTATATT
739069 GAAAATCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATATTTATCATATAT
Found at i:739749 original size:21 final size:22
Alignment explanation
Indices: 739720--739776 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
739710 AAAACCATAC
*
739720 TAATCAAAATTCGAATTAATT-
1 TAATAAAAATTCGAATTAATTG
* *
739741 TAATAAAAAAAATGGAATTAATTG
1 TAAT--AAAAATTCGAATTAATTG
739765 TAATAGAAAATT
1 TAATA-AAAATT
739777 AATTTAGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 4 0.14
22 1 0.04
23 19 0.68
24 4 0.14
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (22 bp):
TAATAAAAATTCGAATTAATTG
Found at i:740243 original size:21 final size:21
Alignment explanation
Indices: 740205--740277 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
740195 GCCCGACCCG
*
740205 AAATAATATTTTTATTAA-AA
1 AAATAATAATTTTATTAATAA
*
740225 AAATATTAATTTTATTTAATAA
1 AAATAATAATTTTA-TTAATAA
*
740247 AAA-AAGAATTTTAATTGAA-AA
1 AAATAATAATTTT-ATT-AATAA
740268 ATAATAATAA
1 A-AATAATAA
740278 ATATAGGGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 12 0.29
21 16 0.38
22 10 0.24
23 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AAATAATAATTTTATTAATAA
Found at i:745441 original size:35 final size:35
Alignment explanation
Indices: 745395--745470 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
745385 CTTATCCGGA
*
745395 GATGTTTCGGGGACGTCCCCAGGGGTAATTTTGTT
1 GATGTTTCGGGGACGTCCCCAGGGGTAATTTTGAT
745430 GATGTTTCGGGGACGTCCCCAGGGGTAATTTTGAT
1 GATGTTTCGGGGACGTCCCCAGGGGTAATTTTGAT
745465 GATGTT
1 GATGTT
745471 CCTCGGCTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (35 bp):
GATGTTTCGGGGACGTCCCCAGGGGTAATTTTGAT
Found at i:745849 original size:18 final size:19
Alignment explanation
Indices: 745826--745864 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
745816 GTGAAACAAC
745826 AAGGAAGAAGG-GAAAAAG
1 AAGGAAGAAGGAGAAAAAG
* *
745844 AAGGAAGGAGGAGGAAAAG
1 AAGGAAGAAGGAGAAAAAG
745863 AA
1 AA
745865 ATAGGGGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (19 bp):
AAGGAAGAAGGAGAAAAAG
Found at i:751341 original size:3 final size:3
Alignment explanation
Indices: 751335--751409 Score: 141
Period size: 3 Copynumber: 24.7 Consensus size: 3
751325 AAGAAGAAGA
751335 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
751383 AGG AGG AGG AGG AGG AGG AGG AAGG AG
1 AGG AGG AGG AGG AGG AGG AGG -AGG AG
751410 AAGAAGAAGA
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:751414 original size:3 final size:3
Alignment explanation
Indices: 751403--751447 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
751393 GGAGGAGGAG
*
751403 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
751448 AGAATTCAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:751415 original size:9 final size:9
Alignment explanation
Indices: 751322--751447 Score: 67
Period size: 9 Copynumber: 14.2 Consensus size: 9
751312 TTATAAAGCA
*
751322 AAGAAGAAG
1 AAGAAGGAG
751331 AAGAAGGAG
1 AAGAAGGAG
* *
751340 GAGGAGGAG
1 AAGAAGGAG
* *
751349 GAGGAGGAG
1 AAGAAGGAG
* *
751358 GAGGAGGAG
1 AAGAAGGAG
* *
751367 GAGGAGGAG
1 AAGAAGGAG
* *
751376 GAGGAGGAG
1 AAGAAGGAG
* *
751385 GAGGAGGAG
1 AAGAAGGAG
* *
751394 GAGGAGGAG
1 AAGAAGGAG
751403 --GAAGGAG
1 AAGAAGGAG
*
751410 AAGAAGAAG
1 AAGAAGGAG
*
751419 AAGAAGAAG
1 AAGAAGGAG
*
751428 AAGAAGAAG
1 AAGAAGGAG
*
751437 AAGAAGAAG
1 AAGAAGGAG
751446 AA
1 AA
751448 AGAATTCAGT
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
7 6 0.05
9 104 0.95
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (9 bp):
AAGAAGGAG
Found at i:751487 original size:3 final size:3
Alignment explanation
Indices: 751479--751553 Score: 141
Period size: 3 Copynumber: 24.7 Consensus size: 3
751469 AAAGCAAAGC
751479 AAG AAG AAG AAG AAG AAG AAG AAAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG
751525 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
751554 AGAATTCAGT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:758069 original size:13 final size:13
Alignment explanation
Indices: 758051--758077 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
758041 TGGACAATTT
758051 AGGGATGGAAATG
1 AGGGATGGAAATG
758064 AGGGATGGAAATG
1 AGGGATGGAAATG
758077 A
1 A
758078 ACCGAGTTTG
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:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (13 bp):
AGGGATGGAAATG
Found at i:758267 original size:23 final size:23
Alignment explanation
Indices: 758222--758267 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
758212 TTATATGCTT
* *
758222 ACGAATATGTTCATTTAGCGTTC
1 ACGAATATATTCATTCAGCGTTC
* *
758245 ACGAATATATTCGTTCAGTGTTC
1 ACGAATATATTCATTCAGCGTTC
758268 GTCAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
ACGAATATATTCATTCAGCGTTC
Found at i:763320 original size:2 final size:2
Alignment explanation
Indices: 763309--763343 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
763299 CTCACCATCA
*
763309 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
763344 TTCACACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:766986 original size:7 final size:7
Alignment explanation
Indices: 766974--767013 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
766964 CGAAGTCTTA
766974 GCTGCCT
1 GCTGCCT
766981 GCTGCCT
1 GCTGCCT
766988 GCTGCCT
1 GCTGCCT
766995 GCTGCCT
1 GCTGCCT
767002 GCTGCCT
1 GCTGCCT
767009 GCTGC
1 GCTGC
767014 GACCCGCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.00, C:0.42, G:0.30, T:0.28
Consensus pattern (7 bp):
GCTGCCT
Found at i:771643 original size:19 final size:19
Alignment explanation
Indices: 771619--771656 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
771609 ATCGGCAGCC
771619 TTTTCCATCT-CCTGCATTT
1 TTTTCC-TCTGCCTGCATTT
*
771638 TTTTCCTCTGCTTGCATTT
1 TTTTCCTCTGCCTGCATTT
771657 GCGAGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.08, C:0.29, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTCCTCTGCCTGCATTT
Found at i:774313 original size:33 final size:30
Alignment explanation
Indices: 774270--774345 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
774260 TATTAAGGTA
* * *
774270 TATTTTATTATATTTAGTATTTTTTTAGTAATT
1 TATTTAATTATATTTA--A-TTGTTTAATAATT
*
774303 TATTTAATTAT-TTTAATTGTTTAATATTT
1 TATTTAATTATATTTAATTGTTTAATAATT
774332 TATTTAATTA-ATTT
1 TATTTAATTATATTT
774346 TTTTGTAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 23 0.61
30 1 0.03
32 4 0.11
33 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (30 bp):
TATTTAATTATATTTAATTGTTTAATAATT
Found at i:776622 original size:17 final size:17
Alignment explanation
Indices: 776590--776623 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
776580 TTTTTATTAT
*
776590 TTCTCATTTAACACTTA
1 TTCTCATTCAACACTTA
*
776607 TTCTCATTCAATACTTA
1 TTCTCATTCAACACTTA
776624 CTTTATTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCTCATTCAACACTTA
Found at i:776709 original size:35 final size:33
Alignment explanation
Indices: 776670--776754 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
776660 GTATTTTAAT
776670 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
* *
776705 TAATTTCGTTATCAGTTATCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
776740 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
776755 TAAAATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 2 0.05
38 12 0.29
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:780772 original size:46 final size:49
Alignment explanation
Indices: 780703--780832 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 49
780693 TTCATACTAC
* * * * *
780703 AAAAAAATATATAGCACTTAACACATAGTTATACC-TGT-GTAAGT-GAAT
1 AAAAAAATGTA-A-CACTTAACACATACTTACACCGTGTAGTAAATAAAAT
780751 AAAAAAATGTAACACTTAACACATACTTACACCGGTGTAAGTAAATAAAAT
1 AAAAAAATGTAACACTTAACACATACTTACACC-GTGT-AGTAAATAAAAT
*
780802 AAAAAAATGTAACACTTAACACGTACTTACA
1 AAAAAAATGTAACACTTAACACATACTTACA
780833 TACCAACACC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 19 0.27
47 1 0.01
48 13 0.18
50 5 0.07
51 33 0.46
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.25
Consensus pattern (49 bp):
AAAAAAATGTAACACTTAACACATACTTACACCGTGTAGTAAATAAAAT
Found at i:781508 original size:60 final size:59
Alignment explanation
Indices: 781379--781515 Score: 168
Period size: 60 Copynumber: 2.3 Consensus size: 59
781369 AGTCATCGAG
* *
781379 CTATTAAAAGTTACAAAATTATATTTCGACTATAGGAGTTGCTTTGCTGAGTGCATTGA
1 CTATTAAAAGTTACAAAATGATATTTCAACTATAGGAGTTGCTTTGCTGAGTGCATTGA
* * * * *
781438 CTACTAAAAGTTACAAAATGATATTTCAACTATTGGGAGTTGTTTTGTTGAGT-CTGTTGA
1 CTATTAAAAGTTACAAAATGATATTTCAACTA-TAGGAGTTGCTTTGCTGAGTGC-ATTGA
* *
781498 GTGTTAAAAGTTACAAAA
1 CTATTAAAAGTTACAAAA
781516 CCGTCACTCT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
59 30 0.45
60 36 0.55
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (59 bp):
CTATTAAAAGTTACAAAATGATATTTCAACTATAGGAGTTGCTTTGCTGAGTGCATTGA
Found at i:783061 original size:6 final size:6
Alignment explanation
Indices: 783047--783076 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
783037 TACTACAAAT
*
783047 CAAAAG CAAAGG CAAAGG CAAAGG CAAAGG
1 CAAAGG CAAAGG CAAAGG CAAAGG CAAAGG
783077 TGAGCCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.53, C:0.17, G:0.30, T:0.00
Consensus pattern (6 bp):
CAAAGG
Done.