Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_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: 1186098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:520933 original size:29 final size:30
Alignment explanation
Indices: 520901--520957 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
520891 AACTTTGAAT
520901 AAATTCAATT-AAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
*
520930 AAATTCAATTCAAGTCCAAAAACTTTTT
1 AAATTCAATTCAAGTCCAAAAACATTTT
520958 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATTCAATTCAAGTCCAAAAACATTTTGC
Found at i:522562 original size:21 final size:21
Alignment explanation
Indices: 522538--522614 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
522528 GTTGTAGCCT
*
522538 TGATGCATGGATGCATAGCAA
1 TGATGCATCGATGCATAGCAA
*
522559 TGATGCATGGATGCATAGCAA
1 TGATGCATCGATGCATAGCAA
*
522580 GGATGCATCGATGCATAGCAA
1 TGATGCATCGATGCATAGCAA
522601 -GATGCATCGATGCA
1 TGATGCATCGATGCA
522615 CTAATTGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
20 14 0.26
21 40 0.74
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (21 bp):
TGATGCATCGATGCATAGCAA
Found at i:522703 original size:21 final size:21
Alignment explanation
Indices: 522677--522734 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
522667 CATTAGTGCA
522677 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
522698 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
*
522719 GGTGCATGGATGCACT
1 GATGCATGGATGCACT
522735 TTGACATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.21
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:522861 original size:30 final size:29
Alignment explanation
Indices: 522815--522871 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 29
522805 AACTTTAAAT
522815 AAATTCAATTAAGTCCAAAAACATTTTGC
1 AAATTCAATTAAGTCCAAAAACATTTTGC
522844 AAATTCAATTCAAGTCCAAAAACATTTT
1 AAATTCAATT-AAGTCCAAAAACATTTT
522872 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATTCAATTAAGTCCAAAAACATTTTGC
Found at i:525581 original size:2 final size:2
Alignment explanation
Indices: 525574--525617 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
525564 TTTTCATTAA
525574 AT AT 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 AT AT
525616 AT
1 AT
525618 TTGTGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:526904 original size:6 final size:6
Alignment explanation
Indices: 526893--528139 Score: 2373
Period size: 6 Copynumber: 208.0 Consensus size: 6
526883 ATAATTTCTT
526893 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
526941 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
526989 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527037 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527085 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527133 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527181 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATA--
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527227 TA-ATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527274 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527322 TATATG TATATG TATATG TATATG TATATG TATATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG --TATATG TATATG TATATG
527372 TATATG TATATG TATATG TATATG --TATG TATATG TATATG TATATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG --TATATG
527420 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527468 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527516 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527564 TATATG TATATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG --TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527614 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527662 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527710 TATATG TATATG TATATG TATATG TATATG --TATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527756 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527804 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527852 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527900 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527948 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
527996 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
528044 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
528092 TATATG TATATG TATATG TAAATG TAAATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
528140 CATAGGACCG
Statistics
Matches: 1226, Mismatches: 2, Indels: 26
0.98 0.00 0.02
Matches are distributed among these distances:
3 1 0.00
4 10 0.01
5 2 0.00
6 1195 0.97
8 18 0.01
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:533899 original size:31 final size:32
Alignment explanation
Indices: 533839--533915 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
533829 TTTAAAGATA
*
533839 ATTTTGTAATAATTTGATAAATGTTAATGACT
1 ATTTTGTAATAATTTGATAAAGGTTAATGACT
* *
533871 ATTTTGTAATCATTTGA-AAAGGTTAATGATT
1 ATTTTGTAATAATTTGATAAAGGTTAATGACT
*
533902 ATTTTATAATAATT
1 ATTTTGTAATAATT
533916 GGAAGATTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 24 0.60
32 16 0.40
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.48
Consensus pattern (32 bp):
ATTTTGTAATAATTTGATAAAGGTTAATGACT
Found at i:540643 original size:16 final size:17
Alignment explanation
Indices: 540608--540644 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
540598 TGATATGAGT
540608 ATATGTGTTGTATGTTG
1 ATATGTGTTGTATGTTG
*
540625 ATATGTTTTGTAT-TTG
1 ATATGTGTTGTATGTTG
540641 ATAT
1 ATAT
540645 ATGATGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (17 bp):
ATATGTGTTGTATGTTG
Found at i:541754 original size:23 final size:22
Alignment explanation
Indices: 541724--541793 Score: 86
Period size: 23 Copynumber: 3.1 Consensus size: 22
541714 ATATTATATG
541724 GCACTACGGTGCATTTCTACGCA
1 GCACTACGGTGCATTTCTACG-A
* *
541747 GCACTACGGTGCAATTCTACGT
1 GCACTACGGTGCATTTCTACGA
* *
541769 GACACTTCGGTGCATTTATACGA
1 G-CACTACGGTGCATTTCTACGA
541792 GC
1 GC
541794 TGTGGTGACA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 2 0.05
23 38 0.95
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
GCACTACGGTGCATTTCTACGA
Found at i:543819 original size:10 final size:11
Alignment explanation
Indices: 543803--543835 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
543793 TCTGTTCACG
543803 GTACTGTTCAT
1 GTACTGTTCAT
543814 -TACTGTTCAT
1 GTACTGTTCAT
543824 GGTACTGTTCAT
1 -GTACTGTTCAT
543836 ACCGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (11 bp):
GTACTGTTCAT
Found at i:543822 original size:22 final size:22
Alignment explanation
Indices: 543794--543835 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
543784 AAATATTTCT
543794 CTGTTCACGGTACTGTTCATTA
1 CTGTTCACGGTACTGTTCATTA
*
543816 CTGTTCATGGTACTGTTCAT
1 CTGTTCACGGTACTGTTCAT
543836 ACCGTATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (22 bp):
CTGTTCACGGTACTGTTCATTA
Found at i:543835 original size:12 final size:12
Alignment explanation
Indices: 543794--543835 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
543784 AAATATTTCT
*
543794 CTGTTCACGGTA
1 CTGTTCATGGTA
543806 CTGTTCAT--TA
1 CTGTTCATGGTA
543816 CTGTTCATGGTA
1 CTGTTCATGGTA
543828 CTGTTCAT
1 CTGTTCAT
543836 ACCGTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 10 0.37
12 17 0.63
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (12 bp):
CTGTTCATGGTA
Found at i:549588 original size:24 final size:24
Alignment explanation
Indices: 549518--549588 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
549508 CAATCTTATA
*
549518 TGGCACTACGGTGC-ATTTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
* * *
549541 CGGCACTTTGGTGCAAATTCTACG
1 TGGCACTTCGGTGCAATTTCTACG
*
549565 TGGCACTTCGGTGCAATTTATACG
1 TGGCACTTCGGTGCAATTTCTACG
549589 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 11 0.28
24 28 0.72
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (24 bp):
TGGCACTTCGGTGCAATTTCTACG
Found at i:550217 original size:12 final size:12
Alignment explanation
Indices: 550200--550237 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
550190 GAGTTTTGTA
550200 ATGGTACTGTTC
1 ATGGTACTGTTC
550212 ATGGTACTGTTC
1 ATGGTACTGTTC
**
550224 ACAGTACTGTTC
1 ATGGTACTGTTC
550236 AT
1 AT
550238 ACCATATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (12 bp):
ATGGTACTGTTC
Found at i:554431 original size:23 final size:24
Alignment explanation
Indices: 554384--554436 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
554374 ATTCACAAAT
* *
554384 ATGTTAGTGTAAATGTTTGTTAAC
1 ATGTTCGTGTAAATGTTTGTAAAC
*
554408 ATGTTCGTGTAGA-GTTTGTAAAC
1 ATGTTCGTGTAAATGTTTGTAAAC
554431 ATGTTC
1 ATGTTC
554437 ATGTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.43
Consensus pattern (24 bp):
ATGTTCGTGTAAATGTTTGTAAAC
Found at i:554632 original size:77 final size:77
Alignment explanation
Indices: 554545--554699 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
554535 TAATATTTAA
554545 AATATAAAAAAATGAAAAGAAGAACCGAATAAACAAGTTTTTAAACAAGTTTATTCGTGAACACA
1 AATATAAAAAAATGAAAAGAAGAACCGAATAAACAAGTTTTTAAACAAGTTTATTCGTGAACACA
554610 AACGAACTGAAC
66 AACGAACTGAAC
*
554622 AATATAAAAAAATGAAAAGAAGAACCGAATAAACGAGTTTTTAAACAAGTTTATTCGTGAACACA
1 AATATAAAAAAATGAAAAGAAGAACCGAATAAACAAGTTTTTAAACAAGTTTATTCGTGAACACA
*
554687 AATGAACTGAAC
66 AACGAACTGAAC
554699 A
1 A
554700 CACCTTTATT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (77 bp):
AATATAAAAAAATGAAAAGAAGAACCGAATAAACAAGTTTTTAAACAAGTTTATTCGTGAACACA
AACGAACTGAAC
Found at i:566661 original size:15 final size:15
Alignment explanation
Indices: 566641--566671 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
566631 ATGTTGAACC
566641 GTGCTGAATGATTCA
1 GTGCTGAATGATTCA
*
566656 GTGCTGACTGATTCA
1 GTGCTGAATGATTCA
566671 G
1 G
566672 CAAAACAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (15 bp):
GTGCTGAATGATTCA
Found at i:568181 original size:91 final size:92
Alignment explanation
Indices: 568080--568264 Score: 327
Period size: 91 Copynumber: 2.0 Consensus size: 92
568070 TGTACCAAAA
*
568080 TGAAACAAAAAATAAATCTTAGGTATGATTTTAAAAGAAATGAAAGTTTAAGTACTAAAACGAAA
1 TGAAACAAAAAATAAATCTTAGGTATGATTTTAAAACAAATGAAAGTTTAAGTACTAAAACGAAA
*
568145 C-AAACTAATAATTTAAGTACTAAATG
66 CAAAACTAATAATTTAAATACTAAATG
*
568171 TGAAACAAAAAGTAAATCTTAGGTATGATTTTAAAACAAATGAAAGTTTAAGTACTAAAACGAAA
1 TGAAACAAAAAATAAATCTTAGGTATGATTTTAAAACAAATGAAAGTTTAAGTACTAAAACGAAA
*
568236 CAAAACTAATAATTTAAATATTAAATG
66 CAAAACTAATAATTTAAATACTAAATG
568263 TG
1 TG
568265 TAATTTATCC
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 64 0.72
92 25 0.28
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (92 bp):
TGAAACAAAAAATAAATCTTAGGTATGATTTTAAAACAAATGAAAGTTTAAGTACTAAAACGAAA
CAAAACTAATAATTTAAATACTAAATG
Found at i:570821 original size:20 final size:20
Alignment explanation
Indices: 570774--570826 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
570764 ACGCGAACTC
*
570774 CAATTTCGCAACTCGATTTT
1 CAATTTCGCAACACGATTTT
570794 CGAA-TTCGCAACACGAATTTT
1 C-AATTTCGCAACACG-ATTTT
570815 -AATTTCGCAACA
1 CAATTTCGCAACA
570827 TGTTTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 20 0.69
21 7 0.24
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (20 bp):
CAATTTCGCAACACGATTTT
Found at i:574394 original size:20 final size:20
Alignment explanation
Indices: 574369--574433 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
574359 GAATCGCAAC
*
574369 GCGAATTTGACTTTTGCATT
1 GCGAATTTGACTTTTGCGTT
*
574389 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTTGCGTT
*
574409 ACGAATTTGA-TTTTCGCGTT
1 GCGAATTTGACTTTT-GCGTT
574429 GCGAA
1 GCGAA
574434 AGTGTACCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.08
20 36 0.92
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GCGAATTTGACTTTTGCGTT
Found at i:574631 original size:65 final size:64
Alignment explanation
Indices: 574496--574645 Score: 230
Period size: 65 Copynumber: 2.3 Consensus size: 64
574486 TTAAAACAAT
574496 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTATACATCAATTAAAC
1 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTATACATCAATTAAAC
*** *
574560 AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTCCT-CATCAATTAAA
1 AAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAAGAATTATTT-ATACATCAATTAAA
574624 C
64 C
*
574625 AAATCAACTTTTATAAATCAA
1 AAATCAACTTTTACAAATCAA
574646 CTTTTACAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
64 31 0.39
65 47 0.59
66 1 0.01
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (64 bp):
AAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTATACATCAATTAAAC
Found at i:574644 original size:14 final size:14
Alignment explanation
Indices: 574623--574659 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
574613 CATCAATTAA
574623 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
574637 ATAAATCAACTTTT
1 ACAAATCAACTTTT
574651 ACAAATCAA
1 ACAAATCAA
574660 TTAAACAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:576040 original size:21 final size:20
Alignment explanation
Indices: 576014--576130 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 20
576004 GTGAATCGGG
*
576014 CTCTTGAACGGTAGGAGGGAC
1 CTCTTGAACGATAGGAGGG-C
*
576035 CTCTTGAACGAT-GACAGGGGC
1 CTCTTGAACGATAG-GA-GGGC
*
576056 CTCTTGAACGATGGGAGGGGC
1 CTCTTGAACGATAGGA-GGGC
* * **
576077 TTCTTGAAGGATGATAAGGGC
1 CTCTTGAACGAT-AGGAGGGC
576098 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATAGGAG-GGC
576119 CTCTTGAACGAT
1 CTCTTGAACGAT
576131 GACAGGTGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
20 4 0.05
21 70 0.89
22 5 0.06
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (20 bp):
CTCTTGAACGATAGGAGGGC
Found at i:576073 original size:42 final size:41
Alignment explanation
Indices: 576014--576136 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 41
576004 GTGAATCGGG
*
576014 CTCTTGAACGGTAGGAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATAGGAGGG-CCTCTTGAACGATGACAGGGGC
* * * * *
576056 CTCTTGAACGATGGGAGGGGCTTCTTGAAGGATGATAAGGGC
1 CTCTTGAACGATAGGA-GGGCCTCTTGAACGATGACAGGGGC
576098 CTCTTGAACGATAGGAGAGGCCTCTTGAACGATGACAGG
1 CTCTTGAACGATAGGAG-GGCCTCTTGAACGATGACAGG
576137 TGAATCGGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 64 0.94
43 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGATAGGAGGGCCTCTTGAACGATGACAGGGGC
Found at i:576563 original size:21 final size:21
Alignment explanation
Indices: 576539--576588 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
576529 ACAATTGTCG
* *
576539 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGCACCGACCTCA
* **
576560 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACCGACCTCA
576581 TCACGTAA
1 TCACGTAA
576589 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:578614 original size:22 final size:22
Alignment explanation
Indices: 578587--578643 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
578577 ATGGAGATAC
* *
578587 ACGGATTTCGTCGGAGATGGGG
1 ACGGATTTCGTCGAAAATGGGG
578609 ACGGATTTCGTCGAAAATGGGG
1 ACGGATTTCGTCGAAAATGGGG
*
578631 ACGGATGTCGTCG
1 ACGGATTTCGTCG
578644 TAGAGAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (22 bp):
ACGGATTTCGTCGAAAATGGGG
Found at i:578816 original size:20 final size:20
Alignment explanation
Indices: 578791--578859 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
578781 TAAACGCGCT
* *
578791 TTGCGAATTACAAATTCACG
1 TTGCGAATTACAGATTCGCG
* *
578811 TTGCGATTTACAGATTTGCG
1 TTGCGAATTACAGATTCGCG
*
578831 TTGCGATTTACAGATTCGCG
1 TTGCGAATTACAGATTCGCG
578851 TTGCGAATT
1 TTGCGAATT
578860 TGAAAATCGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (20 bp):
TTGCGAATTACAGATTCGCG
Found at i:580062 original size:92 final size:92
Alignment explanation
Indices: 579905--580279 Score: 580
Period size: 92 Copynumber: 4.1 Consensus size: 92
579895 TTATAATATG
* * **
579905 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAAACATGTATTAGAAGTTGAGGTTCTTA
1 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
579970 GATCCAGTTCGCACATAATATCCTCCT
66 GATCCAGTTCGCACATAATATCCTCCT
579997 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
1 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
*
580062 GATCCGGTTCGCACATAATATCCTCCT
66 GATCCAGTTCGCACATAATATCCTCCT
* * * *
580089 ATTCGTTTATCGAAGAAATAAAATTGTGAGAAAATAAAGACCTATATTAGATGCGGAGGTTCTTA
1 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
*
580154 GATCCAGTTCGCACATACTA---T--T
66 GATCCAGTTCGCACATAATATCCTCCT
* ** *
580176 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACCTGTATTAGATGTAGAGGTTCTTC
1 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
*
580241 GATCCAGTTCGTACATAATATCCTCCT
66 GATCCAGTTCGCACATAATATCCTCCT
580268 ATTCGTTTATTG
1 ATTCGTTTATTG
580280 TGCGATCGTT
Statistics
Matches: 259, Mismatches: 19, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
87 78 0.30
89 1 0.00
90 1 0.00
92 179 0.69
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (92 bp):
ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGACATGTATTAGATGCGGAGGTTCTTA
GATCCAGTTCGCACATAATATCCTCCT
Found at i:580224 original size:179 final size:181
Alignment explanation
Indices: 579905--580277 Score: 570
Period size: 179 Copynumber: 2.1 Consensus size: 181
579895 TTATAATATG
* * **
579905 ATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAAACATGTATTAGAAGTTGAGGTTCTTA
1 ATTCGTTTATCGAAGAAATAAAATTGAGAGAAAATAAAAACATATATTAGAAGCGGAGGTTCTTA
579970 GATCCAGTTCGCACATAATATCCTCCTATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAA
66 GATCCAGTTCGCACATAATA--CT-CTATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAA
* *
580035 GACATGTATTAGATGCGGAGGTTCTTAGATCCGGTTCGCACATAATATCCTCCT
128 GACATGTATTAGATGCAGAGGTTCTTAGATCCAGTTCGCACATAATATCCTCCT
* * * *
580089 ATTCGTTTATCGAAGAAATAAAATTGTGAGAAAATAAAGACCTATATTAGATGCGGAGGTTCTTA
1 ATTCGTTTATCGAAGAAATAAAATTGAGAGAAAATAAAAACATATATTAGAAGCGGAGGTTCTTA
*
580154 GATCCAGTTCGCACATACTA-T-TATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGAC
66 GATCCAGTTCGCACATAATACTCTATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGAC
* * * *
580217 CTGTATTAGATGTAGAGGTTCTTCGATCCAGTTCGTACATAATATCCTCCT
131 ATGTATTAGATGCAGAGGTTCTTAGATCCAGTTCGCACATAATATCCTCCT
580268 ATTCGTTTAT
1 ATTCGTTTAT
580278 TGTGCGATCG
Statistics
Matches: 174, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
179 97 0.56
181 1 0.01
184 76 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (181 bp):
ATTCGTTTATCGAAGAAATAAAATTGAGAGAAAATAAAAACATATATTAGAAGCGGAGGTTCTTA
GATCCAGTTCGCACATAATACTCTATTCGTTTATTGAAGAAATAAAATTGAGAGAAAATAAAGAC
ATGTATTAGATGCAGAGGTTCTTAGATCCAGTTCGCACATAATATCCTCCT
Found at i:592919 original size:21 final size:21
Alignment explanation
Indices: 592893--592943 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
592883 TTTTCAAATT
592893 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
*
592914 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
592935 CGTTGCGAT
1 CGTTGCGAT
592944 TTACATATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCA
Found at i:593966 original size:41 final size:42
Alignment explanation
Indices: 593903--594097 Score: 150
Period size: 41 Copynumber: 4.7 Consensus size: 42
593893 GCGATTTTGG
**
593903 GCAACGCGAATTTCGACTATCGCAATGCGAA-TATGTA-AATC
1 GCAACGCGAATTT-GAAAATCGCAATGCGAACTATGTACAATC
* * * *
593944 GCAACGTGAATTTGAAAAATCGCAACGCGAACTTTG-ACTATC
1 GCAACGCGAATTTG-AAAATCGCAATGCGAACTATGTACAATC
* * * * * * * *
593986 GCAATGCGAATATGTAAATCACAACGTGAACT-TGGACTATC
1 GCAACGCGAATTTGAAAATCGCAATGCGAACTATGTACAATC
** **
594027 GCAACGCGAACTCCGACTATCGCAATGCGAA-TATGTA-AATC
1 GCAACGCGAA-TTTGAAAATCGCAATGCGAACTATGTACAATC
594068 GCAACGCGAATTTGGAAAATCGCAATGCGA
1 GCAACGCGAATTT-GAAAATCGCAATGCGA
594098 TAGTCGAAGT
Statistics
Matches: 120, Mismatches: 27, Indels: 14
0.75 0.17 0.09
Matches are distributed among these distances:
40 4 0.03
41 84 0.70
42 32 0.27
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (42 bp):
GCAACGCGAATTTGAAAATCGCAATGCGAACTATGTACAATC
Found at i:594000 original size:62 final size:62
Alignment explanation
Indices: 593903--594097 Score: 293
Period size: 62 Copynumber: 3.1 Consensus size: 62
593893 GCGATTTTGG
*
593903 GCAACGCGAA-TTTCGACTATCGCAATGCGAATATGTAAATCGCAACGTGAATTTGAAAAATC
1 GCAACGCGAACTTT-GACTATCGCAATGCGAATATGTAAATCGCAACGTGAATTTGGAAAATC
* * **
593965 GCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCACAACGTGAACTTGGACTATC
1 GCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAACGTGAATTTGGAAAATC
** *
594027 GCAACGCGAACTCCGACTATCGCAATGCGAATATGTAAATCGCAACGCGAATTTGGAAAATC
1 GCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAACGTGAATTTGGAAAATC
*
594089 GCAATGCGA
1 GCAACGCGA
594098 TAGTCGAAGT
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
62 116 0.97
63 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (62 bp):
GCAACGCGAACTTTGACTATCGCAATGCGAATATGTAAATCGCAACGTGAATTTGGAAAATC
Found at i:600399 original size:21 final size:22
Alignment explanation
Indices: 600356--600399 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
600346 TATTTTTTAA
*
600356 AAAAAATATTTACCAAACTTTG
1 AAAAAATATTTACCAAACGTTG
*
600378 AAAAAATATTTTCCAAA-GTTG
1 AAAAAATATTTACCAAACGTTG
600399 A
1 A
600400 TTGCCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAAAATATTTACCAAACGTTG
Found at i:600465 original size:12 final size:12
Alignment explanation
Indices: 600448--600474 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
600438 TGCCAACAAC
600448 TGATGGCAATGA
1 TGATGGCAATGA
600460 TGATGGCAATGA
1 TGATGGCAATGA
600472 TGA
1 TGA
600475 CAAGGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (12 bp):
TGATGGCAATGA
Found at i:603974 original size:31 final size:31
Alignment explanation
Indices: 603897--604022 Score: 148
Period size: 31 Copynumber: 4.1 Consensus size: 31
603887 AATTATGGTC
* *
603897 TAGACACCTAAAAGTGTAA-GT-TGAAACGT
1 TAGACACCTAAAAGTATAACGTCGGAAACGT
* *
603926 TAGATACCTAAAAAGTATAACGTCGGAAACAT
1 TAGACACCT-AAAAGTATAACGTCGGAAACGT
* *
603958 TAAACACCTAAAAGTATAACGCCGGAAACGT
1 TAGACACCTAAAAGTATAACGTCGGAAACGT
* * *
603989 TAGACACTTAAAAGTATAACGTCGTAAACTT
1 TAGACACCTAAAAGTATAACGTCGGAAACGT
604020 TAG
1 TAG
604023 GCAGATATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
29 8 0.10
30 9 0.11
31 51 0.63
32 13 0.16
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (31 bp):
TAGACACCTAAAAGTATAACGTCGGAAACGT
Found at i:604368 original size:21 final size:21
Alignment explanation
Indices: 604338--604410 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
604328 ATTATGACTA
*
604338 TCGCAATGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
604359 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
604379 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
604400 TCGCAATGCGA
1 TCGCAATGCGA
604411 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:604370 original size:41 final size:41
Alignment explanation
Indices: 604316--604432 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
604306 CAGTTTCCAG
* *
604316 ATTCGCAACGCGATTATGAC-TA-TCGCAATGCGATTTTCCTA
1 ATTCGCAATGCGATT-T-ACGTATTCGCAATGCGATTTTCATA
* **
604357 ATTCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATA
1 ATTCGCAATGCGATTTACGTATTCGCAATGCGATTTTCATA
* * *
604398 ATTCGCAATGCGA-ATACGTAAATCGCAACGCGATT
1 ATTCGCAATGCGATTTACGT-ATTCGCAATGCGATT
604433 AAGTAAATCG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 8 0.13
41 52 0.84
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (41 bp):
ATTCGCAATGCGATTTACGTATTCGCAATGCGATTTTCATA
Found at i:604425 original size:20 final size:20
Alignment explanation
Indices: 604400--604511 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
604390 TTTTCATAAT
604400 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
604420 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
604440 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
604461 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
604481 TCGCAATGTGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
604501 TCGCAATGCGA
1 TCGCAATGCGA
604512 TTTACATAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 56 0.73
21 18 0.23
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:604462 original size:41 final size:41
Alignment explanation
Indices: 604400--604493 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
604390 TTTTCATAAT
* *
604400 TCGCAATGCGAA-TACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
* * *
604440 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
*
604481 TCGCAATGTGAAT
1 TCGCAATGCGAAT
604494 CTTACTATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCGCAACGCGAATAAGTAAA
Found at i:605101 original size:33 final size:33
Alignment explanation
Indices: 605040--605121 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
605030 CGAGAATGAA
*
605040 AATCGCAACGCAGAAATAACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATAACAATCGCAACGAGAG
* *
605074 AATCGCAACGCGAAATGAA-AATTGCAACGAGAT
1 AATCGCAACGCGAAAT-AACAATCGCAACGAGAG
605107 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
605122 CCAAAATCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 31 0.70
34 13 0.30
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATAACAATCGCAACGAGAG
Found at i:605128 original size:33 final size:33
Alignment explanation
Indices: 605064--605128 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
605054 AATAACTATC
**
605064 GCAACGAGAGAATCGCAACGCGAAATGAAAATT
1 GCAACGAGAGAATCGCAACGCGAAACCAAAATT
*
605097 GCAACGAGATAATCGCAACGCGAAACCAAAAT
1 GCAACGAGAGAATCGCAACGCGAAACCAAAAT
605129 CGCATTGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
GCAACGAGAGAATCGCAACGCGAAACCAAAATT
Found at i:605188 original size:19 final size:17
Alignment explanation
Indices: 605141--605191 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
605131 CATTGCGATT
605141 TTCATTTCGCGTTGCGA
1 TTCATTTCGCGTTGCGA
*
605158 TTC---TCTCGTTGCGA
1 TTCATTTCGCGTTGCGA
605172 TAGTCATTTCGCGTTGCGA
1 T--TCATTTCGCGTTGCGA
605191 T
1 T
605192 CTGCGATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 11 0.41
16 2 0.07
17 3 0.11
19 11 0.41
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (17 bp):
TTCATTTCGCGTTGCGA
Found at i:607393 original size:21 final size:21
Alignment explanation
Indices: 607369--607435 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
607359 TCATTCCTCG
607369 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
607390 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
607411 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
607432 AGAG
1 AGAG
607436 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:607396 original size:42 final size:42
Alignment explanation
Indices: 607317--607435 Score: 98
Period size: 42 Copynumber: 2.8 Consensus size: 42
607307 AACTCGCCTG
* * * * * * * *
607317 TCATCCCTCAAGAGTCCACTCCTATCGTTGAATAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
607359 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
607401 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
607436 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.06
42 57 0.90
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:610941 original size:20 final size:20
Alignment explanation
Indices: 610920--611007 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
610910 TGTATTATCT
* *
610920 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
610940 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
* *
610960 CGTTGCAAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
* * *
610980 CGTTGCGAAAGTAAGTATCA
1 CGTTGCGAAAGTCAGAATCG
611000 CGTTGCGA
1 CGTTGCGA
611008 TTTTCCCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:611061 original size:21 final size:20
Alignment explanation
Indices: 611018--611069 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
611008 TTTTCCCAAT
*
611018 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
611038 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
*
611059 TCGTAATGCGA
1 TCGCAATGCGA
611070 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:611086 original size:20 final size:20
Alignment explanation
Indices: 611066--611167 Score: 107
Period size: 20 Copynumber: 5.0 Consensus size: 20
611056 AAATCGTAAT
*
611066 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* *
611086 GCGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
* *
611107 GCGATACTGATTTTCGCAAC
1 GCGATACTGACTATCGCAAC
*
611127 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
611147 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
611167 G
1 G
611168 AGATTCTGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 53 0.76
21 14 0.20
22 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:611100 original size:41 final size:41
Alignment explanation
Indices: 611055--611167 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
611045 GCGAATTTGG
* * *
611055 AAAATCGTAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
611096 AAAATCGCAACGCGATACTGATTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * *
611138 --TTTCGCAACGCGATTCTGACTTTCGCAACG
1 AAAATCGCAACGCGATACTGACTATCGCAACG
611168 AGATTCTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 26 0.43
41 33 0.54
42 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:611176 original size:20 final size:20
Alignment explanation
Indices: 611100--611167 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
611090 TAATACAAAA
*
611100 TCGCAACGCGATACTGATTT
1 TCGCAACGCGATACTGACTT
611120 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
611140 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
611160 TCGCAACG
1 TCGCAACG
611168 AGATTCTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:611183 original size:20 final size:20
Alignment explanation
Indices: 611140--611185 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
611130 ATACTGACTT
* ***
611140 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATTCTGAAAA
611160 TCGCAACGAGATTCTGAAAA
1 TCGCAACGAGATTCTGAAAA
611180 TCGCAA
1 TCGCAA
611186 TCATCTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAACGAGATTCTGAAAA
Found at i:611184 original size:40 final size:40
Alignment explanation
Indices: 611054--611185 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 40
611044 TGCGAATTTG
* * * * * *
611054 GAAAATCGTAATGCGATACTGACTATCGCAATGCGATAAT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATACT
* * *
611094 ACAAAATCGCAACGCGATACTGATTTTCGCAACGCGATACT
1 -GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATACT
*** * *
611135 GACTTTCGCAACGCGATTCTGACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATACT
611175 GAAAATCGCAA
1 GAAAATCGCAA
611186 TCATCTTCAA
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
40 40 0.55
41 33 0.45
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (40 bp):
GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATACT
Found at i:611423 original size:34 final size:33
Alignment explanation
Indices: 611380--611449 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
611370 GACATTCATT
* *
611380 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAATCGCAACGC-AAAA
* *
611414 TGACTATCGCAACGCGAAAATGGCAATGCAAAA
1 TGACTATCGCAACGCGAAAATCGCAACGCAAAA
611447 TGA
1 TGA
611450 AAATCGCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
TGACTATCGCAACGCGAAAATCGCAACGCAAAA
Found at i:611494 original size:19 final size:19
Alignment explanation
Indices: 611472--611516 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
611462 GATTTTCTCG
611472 TTGCGATAGCCATTTCGCA
1 TTGCGATAGCCATTTCGCA
***
611491 TTGCGATTTTCATTTCGCA
1 TTGCGATAGCCATTTCGCA
611510 TTGCGAT
1 TTGCGAT
611517 TCTCTCGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCA
Found at i:613158 original size:41 final size:42
Alignment explanation
Indices: 613104--613195 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
613094 CCTCTTCAAC
* * *
613104 GATGACAGTGGCCTCTTGAAC-GGTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
* *
613145 GATGATAGGGGCCTCTTGAACAATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
613187 GATGACAGG
1 GATGACAGG
613196 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 19 0.43
42 25 0.57
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACAAGTGGAGGGGACTCTTGAGG
Found at i:613582 original size:20 final size:20
Alignment explanation
Indices: 613559--613631 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
613549 AAACTTACTT
* *
613559 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGGCTA
*
613579 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
613599 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGGCTA
*
613619 TCGCAATGCGAAA
1 TCGCAACGCGAAA
613632 TGAAAATCGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGGCTA
Found at i:613653 original size:14 final size:14
Alignment explanation
Indices: 613634--613692 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
613624 ATGCGAAATG
613634 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
613648 AAAATCGCAATGTGAAATG
1 AAAATCGCAA--CG--A-C
613667 AAAATCGCAACGAC
1 AAAATCGCAACGAC
613681 AAAATCGCAACG
1 AAAATCGCAACG
613693 TGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 22 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 10 0.28
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:613665 original size:33 final size:33
Alignment explanation
Indices: 613618--613697 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
613608 GGAAATGGCT
*
613618 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
613651 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
*
613684 ATCGCAACGTGAAA
1 ATCGCAATGTGAAA
613698 CACAAATCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGTGAAATGAAAATCGCAACGACAAA
Found at i:613705 original size:33 final size:33
Alignment explanation
Indices: 613618--613708 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
613608 GGAAATGGCT
* * *
613618 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGTGAAATCAAAATCGCAACGACAAA
* *
613651 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGTGAAATCAAAATCGCAACGACAAA
613684 ATCGCAACGTGAAA-CACAAATCGCA
1 ATCGCAACGTGAAATCA-AAATCGCA
613709 TTGCAATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAACGTGAAATCAAAATCGCAACGACAAA
Found at i:613726 original size:19 final size:18
Alignment explanation
Indices: 613704--613800 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 18
613694 GAAACACAAA
*
613704 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTT-ATT
* *
613723 TCGCGTTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
613739 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTT-ATT
*
613756 TCGCATTGCGA-TTT-TG
1 TCGCATTGCGATTTTATT
*
613772 T--CATTGCAATTTTTATT
1 TCGCATTGCGA-TTTTATT
613789 TCGCATTGCGAT
1 TCGCATTGCGAT
613801 AGCCATTATC
Statistics
Matches: 60, Mismatches: 8, Indels: 21
0.67 0.09 0.24
Matches are distributed among these distances:
14 13 0.22
15 3 0.05
16 9 0.15
17 6 0.10
18 7 0.12
19 22 0.37
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (18 bp):
TCGCATTGCGATTTTATT
Found at i:613756 original size:33 final size:33
Alignment explanation
Indices: 613707--613800 Score: 152
Period size: 33 Copynumber: 2.8 Consensus size: 33
613697 ACACAAATCG
*
613707 CATTGCAATTTTCATTTCGCGTTGCGATTTTGT
1 CATTGCAATTTTCATTTCGCATTGCGATTTTGT
* *
613740 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCAATTTTCATTTCGCATTGCGATTTTGT
*
613773 CATTGCAATTTTTATTTCGCATTGCGAT
1 CATTGCAATTTTCATTTCGCATTGCGAT
613801 AGCCATTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (33 bp):
CATTGCAATTTTCATTTCGCATTGCGATTTTGT
Found at i:613839 original size:20 final size:20
Alignment explanation
Indices: 613789--613827 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
613779 AATTTTTATT
613789 TCGCATTGCGATAGCCATTA
1 TCGCATTGCGATAGCCATTA
*
613809 TCGCATTGCGATAGTCATT
1 TCGCATTGCGATAGCCATT
613828 TTCGTGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATAGCCATTA
Found at i:615750 original size:20 final size:20
Alignment explanation
Indices: 615725--615763 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
615715 GAATAGTTTC
615725 TGAAAATGAAAATCGCAACA
1 TGAAAATGAAAATCGCAACA
*
615745 TGAAAATGACAATCGCAAC
1 TGAAAATGAAAATCGCAAC
615764 GCGAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.15
Consensus pattern (20 bp):
TGAAAATGAAAATCGCAACA
Found at i:616074 original size:22 final size:22
Alignment explanation
Indices: 616047--616090 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
616037 GATGGAGATA
616047 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
616069 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
616091 TGAGAGAGTG
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:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:616376 original size:41 final size:41
Alignment explanation
Indices: 616257--616394 Score: 197
Period size: 41 Copynumber: 3.4 Consensus size: 41
616247 CGCTTTGAAA
* * *
616257 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
** * *
616298 ATCGCGTTGCGAAATT-AAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
*
616338 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
616379 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
616395 CCAAATTCGC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 35 0.42
41 49 0.58
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:616391 original size:20 final size:20
Alignment explanation
Indices: 616277--616390 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
616267 GATTATGTAT
*
616277 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
616297 TATCGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAG
616317 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
616337 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
616358 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
616378 TATCGCGTTGCGA
1 TATCGCGTTGCGA
616391 TTTTCCAAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 3 0.04
20 62 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:616409 original size:21 final size:21
Alignment explanation
Indices: 616380--616435 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
616370 ATAGTCAGTA
*
616380 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
616401 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
616422 TCGCATTGCGATTT
1 TCGCATTGCGATTT
616436 ACTTATTCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:616412 original size:41 final size:40
Alignment explanation
Indices: 616277--616411 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 40
616267 GATTATGTAT
* ** *
616277 TATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAATTAAG
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAA
* *
616317 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT-AAA
*
616358 TATCGCGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAA
1 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT--AAA
*
616400 T-TCGCATTGCGA
1 TATCGCGTTGCGA
616412 TTTTCCAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
40 34 0.41
41 47 0.57
42 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTAAA
Found at i:616445 original size:20 final size:21
Alignment explanation
Indices: 616380--616448 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
616370 ATAGTCAGTA
* *
616380 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
*
616401 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
616422 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
616442 TCGCATT
1 TCGCATT
616449 ACGAATTGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 13 0.30
21 31 0.70
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:616494 original size:21 final size:22
Alignment explanation
Indices: 616442--616494 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
616432 ATTTACTTAT
*
616442 TCGCATTACG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
616463 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
616484 TCGCATTGCGA
1 TCGCATTGCGA
616495 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:622620 original size:34 final size:34
Alignment explanation
Indices: 622575--622653 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
622565 TAAAGTTCAA
* *
622575 ACCTACCTGATGCCCCACGAGCTATTATTATTCC
1 ACCTACTTGATGCCCCAAGAGCTATTATTATTCC
622609 ACCTACTTGATGCCCCAAGAGCTATTATTATTCC
1 ACCTACTTGATGCCCCAAGAGCTATTATTATTCC
622643 ACCTACTTGAT
1 ACCTACTTGAT
622654 CCTAGACGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (34 bp):
ACCTACTTGATGCCCCAAGAGCTATTATTATTCC
Found at i:624908 original size:13 final size:13
Alignment explanation
Indices: 624890--624937 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
624880 TTTATATTAT
624890 AAATAATATTTTA
1 AAATAATATTTTA
*
624903 AAATAAT-TTAT-
1 AAATAATATTTTA
624914 AAATAATATTTATA
1 AAATAATATTT-TA
*
624928 AAATTATATT
1 AAATAATATT
624938 ATAATTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 7 0.24
12 5 0.17
13 8 0.28
14 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATAATATTTTA
Found at i:624913 original size:24 final size:26
Alignment explanation
Indices: 624883--624941 Score: 95
Period size: 24 Copynumber: 2.3 Consensus size: 26
624873 ATAAATATTT
624883 ATATTATAAATAATATTT-TAAAATA
1 ATATTATAAATAATATTTATAAAATA
*
624908 AT-TTATAAATAATATTTATAAAATT
1 ATATTATAAATAATATTTATAAAATA
624933 ATATTATAA
1 ATATTATAA
624942 TTATAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 15 0.48
25 10 0.32
26 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATTATAAATAATATTTATAAAATA
Found at i:624939 original size:13 final size:13
Alignment explanation
Indices: 624883--624941 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
624873 ATAAATATTT
624883 ATATTAT-AAATA
1 ATATTATAAAATA
*
624895 ATATTTTAAAATA
1 ATATTATAAAATA
624908 AT-TTAT-AAATA
1 ATATTATAAAATA
*
624919 ATATTTATAAAATT
1 ATA-TTATAAAATA
624933 ATATTATAA
1 ATATTATAA
624942 TTATAATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 7 0.17
12 9 0.22
13 17 0.43
14 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATTATAAAATA
Found at i:626062 original size:3 final size:3
Alignment explanation
Indices: 626054--626122 Score: 111
Period size: 3 Copynumber: 22.7 Consensus size: 3
626044 CGAGTCTTAT
* *
626054 AGA AGA AGA AGA AGA AGA AGA AGA AGGG GGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA
626100 AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AG
626123 GGGGAACTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 60 0.98
4 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:626228 original size:101 final size:101
Alignment explanation
Indices: 626103--626307 Score: 410
Period size: 101 Copynumber: 2.0 Consensus size: 101
626093 AAGAAGAAGA
626103 AGAAGAAGAAGAAGAAGAAGGGGGAACTATTTAAAATTTTATATCGCAAAGCCAAAATTTAACCT
1 AGAAGAAGAAGAAGAAGAAGGGGGAACTATTTAAAATTTTATATCGCAAAGCCAAAATTTAACCT
626168 CAAGGAAGCGACTCGAAAGAGAATATACAGAAAAAT
66 CAAGGAAGCGACTCGAAAGAGAATATACAGAAAAAT
626204 AGAAGAAGAAGAAGAAGAAGGGGGAACTATTTAAAATTTTATATCGCAAAGCCAAAATTTAACCT
1 AGAAGAAGAAGAAGAAGAAGGGGGAACTATTTAAAATTTTATATCGCAAAGCCAAAATTTAACCT
626269 CAAGGAAGCGACTCGAAAGAGAATATACAGAAAAAT
66 CAAGGAAGCGACTCGAAAGAGAATATACAGAAAAAT
626305 AGA
1 AGA
626308 GGGCCAGTGT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (101 bp):
AGAAGAAGAAGAAGAAGAAGGGGGAACTATTTAAAATTTTATATCGCAAAGCCAAAATTTAACCT
CAAGGAAGCGACTCGAAAGAGAATATACAGAAAAAT
Found at i:636083 original size:15 final size:15
Alignment explanation
Indices: 636063--636093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
636053 CAACAAATAG
636063 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
636078 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
636093 A
1 A
636094 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:643611 original size:20 final size:21
Alignment explanation
Indices: 643561--643612 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
643551 CCCCTTTCAA
643561 TCCCTAAATTCACTCGATCCTC
1 TCCCT-AATTCACTCGATCCTC
* *
643583 TCCCAAATTCGACT-GATGCT-
1 TCCCTAATTC-ACTCGATCCTC
643603 TCCCTAATTC
1 TCCCTAATTC
643613 CTCTCTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
21 10 0.38
22 7 0.27
ACGTcount: A:0.23, C:0.37, G:0.08, T:0.33
Consensus pattern (21 bp):
TCCCTAATTCACTCGATCCTC
Found at i:645591 original size:23 final size:23
Alignment explanation
Indices: 645565--645619 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
645555 AGGCGGCATT
645565 ATGAGATAAT-TGGAAAAGCACAA
1 ATGAGA-AATCTGGAAAAGCACAA
645588 AT--GAAATCTGGAAAAGCACAA
1 ATGAGAAATCTGGAAAAGCACAA
645609 AT--GAAATCTGG
1 ATGAGAAATCTGG
645620 GATTGGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
23 2 0.06
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGAGAAATCTGGAAAAGCACAA
Found at i:645599 original size:21 final size:21
Alignment explanation
Indices: 645575--645619 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
645565 ATGAGATAAT
645575 TGGAAAAGCACAAATGAAATC
1 TGGAAAAGCACAAATGAAATC
645596 TGGAAAAGCACAAATGAAATC
1 TGGAAAAGCACAAATGAAATC
645617 TGG
1 TGG
645620 GATTGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (21 bp):
TGGAAAAGCACAAATGAAATC
Found at i:648654 original size:2 final size:2
Alignment explanation
Indices: 648637--648695 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
648627 TTAAAATAAA
* *
648637 AT AT AC AT AC 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 AT AT
648679 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
648696 ATTGAAGTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:661206 original size:224 final size:225
Alignment explanation
Indices: 660811--661252 Score: 716
Period size: 225 Copynumber: 2.0 Consensus size: 225
660801 GTAAATTATC
* * *
660811 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* **
660876 TAATATTGTTAAATAATAAGTCTAAATAATATTTATAAAATATCAAAACAATCAAATAATTTTTG
66 TAATATTGTTAAATAATAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATAATTG
660941 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATTAAA-AAATTTGA
131 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TTGA
661004 AACATAAA-TACATAACTTTCAAAAAAGTATA
195 AACATAAATTACATAACTTT-AAAAAAGTATA
*
661035 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
661100 TTAATATTGTTAAAT-TTAAATGCTAAATAATATTT-TATAAATATCAAAACAATCAAATAA-AA
65 TTAATATTGTTAAATAATAAAT-CTAAATAATATTTATA-AAATATCAAAACAATCAAATAATAA
*
661162 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
128 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
661227 GAAACATAAATTACATAACTTTAAAA
193 GAAACATAAATTACATAACTTTAAAA
661253 GCAGTTTTAA
Statistics
Matches: 203, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
224 87 0.43
225 102 0.50
226 14 0.07
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATAATAAATCTAAATAATATTTATAAAATATCAAAACAATCAAATAATAATTG
TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAA
ACATAAATTACATAACTTTAAAAAAGTATA
Found at i:661341 original size:20 final size:19
Alignment explanation
Indices: 661318--661363 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
661308 CGATATACCA
661318 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
661338 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
661358 GGTAAA
1 GGTAAA
661364 TTTAAAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:661505 original size:20 final size:19
Alignment explanation
Indices: 661482--661528 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
661472 CGATATAACA
*
661482 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
661502 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
661522 GGTAAAA
1 GGTAAAA
661529 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:663860 original size:33 final size:33
Alignment explanation
Indices: 663818--663883 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
663808 AAATAGATGG
*
663818 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
663851 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
663884 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:665673 original size:16 final size:17
Alignment explanation
Indices: 665652--665687 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
665642 TCGAGTTAAT
665652 TTTGTATAAGA-TTATA
1 TTTGTATAAGATTTATA
*
665668 TTTGTATACGATTTATA
1 TTTGTATAAGATTTATA
665685 TTT
1 TTT
665688 TTTATGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (17 bp):
TTTGTATAAGATTTATA
Found at i:666364 original size:196 final size:199
Alignment explanation
Indices: 665770--667368 Score: 2750
Period size: 196 Copynumber: 8.1 Consensus size: 199
665760 TTAAGGGTCA
* *
665770 TGTCGATACTAATATAG-TT-TGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
665833 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGAT-CCAAAATCATCGAA-CCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
665895 TAATATGTAATTTTTTAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAAT-AGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
665958 AATG
196 AATG
* *
665962 TGTCGACA-TAATATAGTTTGTGTGGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGC-TC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
666024 AAT-AAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
666087 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG-ATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
666151 AATG
196 AATG
* *
666155 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAA-GTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
666219 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
666284 T-ATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
666347 AATG
196 AATG
666351 TGTCGACACTAATATAG-TT-TGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
666414 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
666478 TAATATGTAATTTTTCAAGCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
666543 AATG
196 AATG
*
666547 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
666612 CATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAA-AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
666677 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
666742 TAATG
195 TAATG
666747 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGC-A
666812 CC-ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG--T-
64 CCAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
* *
666873 ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATAAGTCTA
128 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
666938 AATAATG
193 AATAATG
666945 TGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAC
* *
667009 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT-GTGTGAACCCAAAAGTATAA
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT-CGAACCCAAAAGTATAA
*
667073 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
129 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
667138 ATAA--
194 ATAATG
*
667142 TGT-GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
667206 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
667271 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
667336 AATG
196 AATG
*
667340 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
667369 CTAATTTAAA
Statistics
Matches: 1346, Mismatches: 28, Indels: 59
0.94 0.02 0.04
Matches are distributed among these distances:
190 29 0.02
191 27 0.02
192 80 0.06
193 53 0.04
194 102 0.08
195 112 0.08
196 342 0.25
197 112 0.08
198 166 0.12
199 95 0.07
200 143 0.11
201 78 0.06
202 7 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:666977 original size:594 final size:590
Alignment explanation
Indices: 665770--667368 Score: 2784
Period size: 594 Copynumber: 2.7 Consensus size: 590
665760 TTAAGGGTCA
* *
665770 TGTCGATACTAATATAGTTTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATCAA
1 TGTCGACACTAATATAGTTTGTCGA-ATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCAA
665835 TAAAGTGTCGATCCATATATAAAAGTGTCGAT-CCAAAATCATCGAA-CCAAAAGTATAATGTAA
65 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
*
665898 TATGTAATTTTTTAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAAT-AGTCTAAATAAT
130 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
* *
665961 GTGTCGACA-TAATATAGTTTGTGTGGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGC-T
195 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
*
666023 CAAT-AAGTGTCGATCCATATA-AAAA-AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
260 CCATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
*
666085 TGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG-ATAAGTCTAA
325 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
*
666149 ATAATGTGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGT
390 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGT
*
666214 GCATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
455 GCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG-A
666279 TAATGTATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
519 TAATGTATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTA
666344 AATAATG
584 AATAATG
666351 TGTCGACACTAATATAGTTTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCAA
1 TGTCGACACTAATATAGTTTGTCGA-ATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCAA
666416 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
65 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
*
666481 TATGTAATTTTTCAAGCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
130 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAAT
666546 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
195 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
666611 CCATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
260 CCATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
666676 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
325 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
666741 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAG
390 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAA-
*
666806 GTGCAACCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAA
453 GTGCAACAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAA
*
666871 G-T-ATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATAAG
517 GATAATGT-ATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAG
666934 TCTAAATAATG
580 TCTAAATAATG
*
666945 TGTCGACACTAATATAGTTTGTGTCGATTTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAG-TT-TGTCGAATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCACC
* *
667010 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT-GTGTGAACCCAAAAGTATAAT
63 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCAT-CGAACCCAAAAGTATAAT
*
667074 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
126 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
667139 TAA--TGT-GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
191 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
667201 GCACCCATAAAGTGTCGATCCATATATAAAAC-GTGTCGATCCCAAAATCATCGAACCCAAAAGT
256 GCACCCATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
* *
667265 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGT
321 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
*
667330 CTAAATAATGTGTCGACACTAATATATTTTGTGTCGATA
386 CTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
667369 CTAATTTAAA
Statistics
Matches: 977, Mismatches: 20, Indels: 30
0.95 0.02 0.03
Matches are distributed among these distances:
581 95 0.10
582 14 0.01
583 37 0.04
584 29 0.03
585 21 0.02
586 26 0.03
587 25 0.03
588 3 0.00
589 17 0.02
590 4 0.00
591 90 0.09
592 56 0.06
593 162 0.17
594 189 0.19
595 49 0.05
596 57 0.06
597 103 0.11
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (590 bp):
TGTCGACACTAATATAGTTTGTCGAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCAAT
AAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAACAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGTG
CAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGATA
ATGTATATGTAATTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:668840 original size:18 final size:18
Alignment explanation
Indices: 668817--668884 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
668807 ATCAGTCGCA
668817 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
668835 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
668856 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
668877 GAAGATGA
1 GAAGATGA
668885 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:668841 original size:6 final size:6
Alignment explanation
Indices: 668817--668913 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
668807 ATCAGTCGCA
* * * * * *
668817 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * *
668865 GAAGCT GGCGAT GAAGAT GATGAC GATGAT G-AGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
668912 GA
1 GA
668914 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
5 4 0.06
6 66 0.94
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:668852 original size:3 final size:3
Alignment explanation
Indices: 668832--668917 Score: 75
Period size: 3 Copynumber: 29.0 Consensus size: 3
668822 TGAAGCTGAC
* * * * * ** *
668832 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
668880 GAT GAT GAC GAT GAT GA- GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
668918 CCAAACAAGT
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:668895 original size:12 final size:12
Alignment explanation
Indices: 668820--668917 Score: 81
Period size: 12 Copynumber: 8.2 Consensus size: 12
668810 AGTCGCAGAA
* *
668820 GATGAAGCTGAC
1 GATGAAGATGAT
*
668832 GATGAAGATGAC
1 GATGAAGATGAT
*
668844 GATGATGATGAT
1 GATGAAGATGAT
* *
668856 GATGACGATGAA
1 GATGAAGATGAT
* ** *
668868 GCTGGCGATGAA
1 GATGAAGATGAT
* *
668880 GATGATGACGAT
1 GATGAAGATGAT
668892 GATG-AGATGAT
1 GATGAAGATGAT
668903 GATGAAGATGAT
1 GATGAAGATGAT
668915 GAT
1 GAT
668918 CCAAACAAGT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
11 9 0.13
12 62 0.87
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:670781 original size:13 final size:13
Alignment explanation
Indices: 670763--670787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670753 GATAATTTGT
670763 AATATACCGGTAA
1 AATATACCGGTAA
670776 AATATACCGGTA
1 AATATACCGGTA
670788 TTATGCGCGA
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
AATATACCGGTAA
Found at i:670886 original size:181 final size:184
Alignment explanation
Indices: 670372--671399 Score: 1864
Period size: 181 Copynumber: 5.7 Consensus size: 184
670362 CTTTCAACAT
**
670372 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
670437 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
670502 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * * *
670556 ATTATAATGTAATAGAT-ATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
670620 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
670685 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
670739 ATTATAATGTAATAGATAA-TTTGTAATAT-ACCGGTA-AAATATACCGGTATTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
670801 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
670866 AATGTGTCGATACGATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
670919 ATTATAATGTAATAGATAATTTTGT-ATATAACCGGTATAAATTTACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
670983 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAA-AAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
671046 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
671100 ATTATAATGTAATAGATAATTTTGTAATATAACCGG--TAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
671163 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
671228 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
671282 ATTATAATGTAATAGATAATTTTGTAATATAACC-GTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
671346 GGTCTACAACCTATATCGACACTTTAT-ATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
671400 CCATTTAAAA
Statistics
Matches: 816, Mismatches: 18, Indels: 22
0.95 0.02 0.03
Matches are distributed among these distances:
180 127 0.16
181 254 0.31
182 181 0.22
183 238 0.29
184 16 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:671281 original size:363 final size:365
Alignment explanation
Indices: 670372--671399 Score: 1874
Period size: 363 Copynumber: 2.8 Consensus size: 365
670362 CTTTCAACAT
**
670372 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGG--TAAATATACCGGTCTTATGCGCGAATA
670437 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
64 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
670502 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
129 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
* *
670567 ATAGAT-ATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATAGGTCTACAACC
194 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
670631 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
259 TATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
670696 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
323 ACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
670739 ATTATAATGTAATAGATAA-TTTGTAATAT-ACCGGTAAAATATACCGGTATTATGCGCGAATAG
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGT-AAATATACCGGTCTTATGCGCGAATAG
670802 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
65 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
670867 ATGTGTCGATACGATTTAAAAAAGTGTCGACA-TTTACACATCGGAACCCATAATTATAATGTAA
130 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAA
* * *
670931 TAGATAATTTTGT-ATATAACCGGTATAAATTTACCGGTCTTATGCGCGAATAGGTCTACAACCT
195 TAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCT
670995 ATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAA-AAAAATGTGTCGATAC
260 ATATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATAC
*
671059 GATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
325 AATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
671100 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAAATATACCGGTCTTATGCGCGAATAGG
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAAATATACCGGTCTTATGCGCGAATAGG
671165 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
671230 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
131 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
671295 AGATAATTTTGTAATATAACC-GTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTA
196 AGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTA
671359 TATCGACAC-TTTATATATTGTGTCGGTACTTTATGTCCATA
261 TATCGACACTTTTA-ATATTGTGTCGGTACTTTATGTCCATA
671400 CCATTTAAAA
Statistics
Matches: 641, Mismatches: 13, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
361 75 0.12
362 175 0.27
363 222 0.35
364 137 0.21
365 5 0.01
366 10 0.02
367 17 0.03
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (365 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTAAATATACCGGTCTTATGCGCGAATAGG
TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAAT
AGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTA
TATCGACACTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACA
ATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:674003 original size:21 final size:22
Alignment explanation
Indices: 673950--674010 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
673940 ATAGGTAAAC
673950 ATATGATGTAATAGGTAGCCCTT
1 ATAT-ATGTAATAGGTAGCCCTT
* **
673973 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCCCTT
673995 ATA-ATGTAATAGGTAG
1 ATATATGTAATAGGTAG
674011 TGGTTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.35
22 18 0.53
23 4 0.12
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCCCTT
Found at i:674017 original size:21 final size:21
Alignment explanation
Indices: 673955--674024 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
673945 TAAACATATG
**
673955 ATGTAATAGGTAGCCCTTATA
1 ATGTAATAGGTAGTGCTTATA
*
673976 TATGTAATAGGTA-TCGTTTATA
1 -ATGTAATAGGTAGT-GCTTATA
*
673998 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGTGCTTATA
*
674019 TTGTAA
1 ATGTAA
674025 AGTGTCTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 23 0.56
22 18 0.44
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTAATAGGTAGTGCTTATA
Found at i:674402 original size:23 final size:23
Alignment explanation
Indices: 674376--674438 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
674366 AATAGGTAAC
*
674376 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
674399 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
674422 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
674439 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:674446 original size:23 final size:23
Alignment explanation
Indices: 674376--674448 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
674366 AATAGGTAAC
* * **
674376 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
674399 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
674422 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
674445 ATAT
1 ATAT
674449 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:674662 original size:429 final size:430
Alignment explanation
Indices: 673852--674867 Score: 1938
Period size: 429 Copynumber: 2.4 Consensus size: 430
673842 AATTCGCAGT
673852 ACACTGTTAAAAAAATTGAAACATAAA-TACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
673916 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATAT-ATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
673980 TAATAGGTATCG-TT-TATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
674043 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
* *
674108 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATT
674173 ATTAAATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
326 ATTAAATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
674238 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
674278 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
674343 AAAAGTATGGACACTTTCAATATAATAGGT-AACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
674407 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
674472 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
674537 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATT
674602 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATA-TTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
674666 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
674707 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
674772 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
674837 T-ATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
674868 TCTATCTCGC
Statistics
Matches: 580, Mismatches: 4, Indels: 9
0.98 0.01 0.02
Matches are distributed among these distances:
426 57 0.10
427 81 0.14
428 2 0.00
429 377 0.65
430 63 0.11
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (430 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:674868 original size:23 final size:23
Alignment explanation
Indices: 674806--674869 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
674796 ATAGGTAAAC
* *
674806 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
674829 ATATAATGT-ATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
674851 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
674870 TATCTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:675093 original size:18 final size:18
Alignment explanation
Indices: 675072--675108 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
675062 GTAATTGGAG
675072 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
675090 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
675108 T
1 T
675109 ATATATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:675116 original size:24 final size:24
Alignment explanation
Indices: 675064--675110 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
675054 TTTCATATGT
* *
675064 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
675088 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
675111 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:676427 original size:16 final size:17
Alignment explanation
Indices: 676408--676445 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
676398 AAAAAATAGT
*
676408 AATCAAATAAA-AGAGA
1 AATCAAATAAAGAAAGA
676424 AATCAAATAAAGAAAGA
1 AATCAAATAAAGAAAGA
676441 AATCA
1 AATCA
676446 TTAACTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (17 bp):
AATCAAATAAAGAAAGA
Found at i:681072 original size:132 final size:132
Alignment explanation
Indices: 680833--681228 Score: 598
Period size: 131 Copynumber: 3.0 Consensus size: 132
680823 TGTATTTTTT
* * **
680833 CGGTTAAGAAGAGCGGCCAATTGTTGTCTTCAAATGCTTTGCAATGCCTCATTTTGAGGCCTACC
1 CGGTTAAGAAGAGCGGCCGATTGTTGTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTACC
* * * *
680898 TTGGTTCGTGGAAGAAGATTCCGAGCACCAGTCTTTCTCTCCCATTCAACCATTACATTATGTTT
66 TTGGTTCATGAAAGAAGATTCCGAGCACGAGTCTTTCCCTCCCATTCAACCATTACATTATGTTT
680963 GA
131 GA
* * *
680965 CGGTTAAGAAGAGCGACTGATTGTTTTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTACC
1 CGGTTAAGAAGAGCGGCCGATTGTTGTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTACC
* * * *
681030 TTAGTTCATAAAAGAAGACTCCGAGCATGAGTCTTTCCCTCCCATTCAACCATTACATTATGTTT
66 TTGGTTCATGAAAGAAGATTCCGAGCACGAGTCTTTCCCTCCCATTCAACCATTACATTATGTTT
681095 -A
131 GA
* * *
681096 CAGTTAA-AATGACCGGCCGATTGTCGTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTAC
1 CGGTTAAGAA-GAGCGGCCGATTGTTGTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTAC
*
681160 CTTGGTTCATGAAAGAAGATTCCGAGCACGAATCTTTCCCTCCCATTCAACCATTACATTATGTT
65 CTTGGTTCATGAAAGAAGATTCCGAGCACGAGTCTTTCCCTCCCATTCAACCATTACATTATGTT
681225 TGA
130 TGA
681228 C
1 C
681229 CATCCTGCTT
Statistics
Matches: 236, Mismatches: 26, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 117 0.50
132 117 0.50
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
CGGTTAAGAAGAGCGGCCGATTGTTGTCTTCAAATGCTTTGCAATGCCTAATTGCGAGGCCTACC
TTGGTTCATGAAAGAAGATTCCGAGCACGAGTCTTTCCCTCCCATTCAACCATTACATTATGTTT
GA
Found at i:682325 original size:20 final size:20
Alignment explanation
Indices: 682300--682337 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
682290 CATTATTATC
*
682300 CCACTCATTGAATAACTATA
1 CCACTCACTGAATAACTATA
682320 CCACTCACTGAATAACTA
1 CCACTCACTGAATAACTA
682338 ATCCAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.05, T:0.26
Consensus pattern (20 bp):
CCACTCACTGAATAACTATA
Found at i:684617 original size:20 final size:22
Alignment explanation
Indices: 684584--684623 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
684574 CCAGAAATAT
*
684584 TAAAAAACATTAATGTTTTAGG
1 TAAAAAACATTAATATTTTAGG
684606 TAAAAAA-A-TAATATTTTA
1 TAAAAAACATTAATATTTTA
684624 CCGAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 1 0.06
22 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAAAAACATTAATATTTTAGG
Found at i:698299 original size:17 final size:18
Alignment explanation
Indices: 698262--698300 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
698252 TTATATTGAG
**
698262 AAATTAATATTTTTTTAT
1 AAATTAATATTTTGATAT
698280 AAATTAATATTTTGAT-T
1 AAATTAATATTTTGATAT
698297 AAAT
1 AAAT
698301 AAATTTGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AAATTAATATTTTGATAT
Found at i:698602 original size:20 final size:21
Alignment explanation
Indices: 698577--698622 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
698567 CATAACTTTT
698577 TATTTTGATTAAA-TTTAATA
1 TATTTTGATTAAATTTTAATA
698597 TATTTTGATTAAATTTTTAATA
1 TATTTTGATTAAA-TTTTAATA
698619 TATT
1 TATT
698623 ATTGTGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTTTGATTAAATTTTAATA
Found at i:698876 original size:19 final size:20
Alignment explanation
Indices: 698852--698896 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
698842 ACAGTTGTCA
698852 TTGCGATTTTTC-AAATTCG
1 TTGCGATTTTTCTAAATTCG
698871 TTGCGA-TTTTCTAAATTCG
1 TTGCGATTTTTCTAAATTCG
698890 TTGCGAT
1 TTGCGAT
698897 AGTCTACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (20 bp):
TTGCGATTTTTCTAAATTCG
Found at i:698902 original size:19 final size:19
Alignment explanation
Indices: 698864--698966 Score: 64
Period size: 22 Copynumber: 5.2 Consensus size: 19
698854 GCGATTTTTC
**
698864 AAATTCGTTGCGATTTTCT
1 AAATTCGTTGCGATAGTCT
698883 AAATTCGTTGCGATAGTCT
1 AAATTCGTTGCGATAGTCT
* *
698902 ACAGTTGTTGTTGCGATAGTCT
1 A-A-AT-TCGTTGCGATAGTCT
* ** *
698924 ACAGTTGTCGTTGCGATTTTCC
1 A-A-AT-TCGTTGCGATAGTCT
*
698946 AAATTCGTTGTGATAGT-T
1 AAATTCGTTGCGATAGTCT
698964 AAA
1 AAA
698967 AAAAAGATTT
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.04
19 28 0.41
20 2 0.03
21 2 0.03
22 33 0.49
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (19 bp):
AAATTCGTTGCGATAGTCT
Found at i:698917 original size:22 final size:22
Alignment explanation
Indices: 698828--698940 Score: 103
Period size: 22 Copynumber: 5.4 Consensus size: 22
698818 TTCCATTTCG
698828 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * * **
698850 CATTGCGAT--TTTTCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
** *
698869 CGTTGCGATTTTCTA-A-AT-T
1 CGTTGCGATAGTCTACAGTTGT
698888 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
698910 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
698932 CGTTGCGAT
1 CGTTGCGAT
698941 TTTCCAAATT
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 25 0.34
20 7 0.10
21 3 0.04
22 38 0.52
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:699050 original size:6 final size:6
Alignment explanation
Indices: 699039--699076 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
699029 GACACGTATT
*
699039 ACCACG ACCACG ACCACG ACCACG ATCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
699077 CGAGAAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.32, C:0.50, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:699735 original size:22 final size:22
Alignment explanation
Indices: 699707--699821 Score: 96
Period size: 22 Copynumber: 5.4 Consensus size: 22
699697 AATTTGGAAA
699707 ATCGCAACGACAACTGTAGAAT
1 ATCGCAACGACAACTGTAGAAT
**
699729 ATCGCAACGA-ATTTGTA-AACT
1 ATCGCAACGACAACTGTAGAA-T
* ** *
699750 ATCGCAACAACAACTGTCCACT
1 ATCGCAACGACAACTGTAGAAT
* * *
699772 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGAAT
*
699791 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGAAT
699813 ATCGCAACG
1 ATCGCAACG
699822 CGATTTTCAA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
19 12 0.17
20 4 0.06
21 17 0.24
22 36 0.51
23 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGAAT
Found at i:699764 original size:43 final size:41
Alignment explanation
Indices: 699689--699821 Score: 203
Period size: 41 Copynumber: 3.2 Consensus size: 41
699679 CAACGAATTT
*
699689 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGAATA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
* * **
699730 TCGCAACGAATTTGTAAACTATCGCAACAACAACTGTCCACTA
1 TCGCAACGAATTTGGAAA--ATCGCAACGACAACTGTAGACTA
699773 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
699814 TCGCAACG
1 TCGCAACG
699822 CGATTTTCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 45 0.56
43 36 0.44
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:699853 original size:21 final size:21
Alignment explanation
Indices: 699810--699853 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
699800 ACAACTGTAG
** *
699810 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
699831 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
699852 AC
1 AC
699854 GCGAATTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:700758 original size:27 final size:27
Alignment explanation
Indices: 700721--700775 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
700711 CGGGTCAGAT
700721 TTTTTTAAGTGTGATATTTGGGTCGGG
1 TTTTTTAAGTGTGATATTTGGGTCGGG
700748 TTTTTTAAGTGTGATATTTGGGTCGGG
1 TTTTTTAAGTGTGATATTTGGGTCGGG
700775 T
1 T
700776 CGGGTCCGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.04, G:0.33, T:0.49
Consensus pattern (27 bp):
TTTTTTAAGTGTGATATTTGGGTCGGG
Found at i:702412 original size:2 final size:2
Alignment explanation
Indices: 702407--702469 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
702397 GTTAGGTGTG
702407 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
702449 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
702470 TGTAACACCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:704867 original size:2 final size:2
Alignment explanation
Indices: 704856--704890 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
704846 GTAGTTTGGG
704856 AT AT -T 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
704891 TAAGGATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:706358 original size:140 final size:137
Alignment explanation
Indices: 706147--706410 Score: 368
Period size: 140 Copynumber: 1.9 Consensus size: 137
706137 GTTACAAAAC
706147 TTGTCACTATATAACATTGTTGCACCAAAAATAGGAAGAAATAATTATGATAATATAAGTTTTCA
1 TTGTCACTATATAACATTGTTGCACCAAAAATAGGAAGAAATAATTATGATAATATAAGTTTTCA
706212 TAATGATTAAAATATATAACTACAAAAATA-ATTAATTACAAAAAACTTAAATTTTATTAATTAC
66 TAATGATTAAAATATATAACTACAAAAATATATTAA-TACAAAAAACTTAAATTTTATTAATTAC
706276 AATATATT
130 AATATATT
* * * * * ** ***
706284 TTGTTACTATATAACATTTTTGACACTAAAAAGTAGGGAGAAGTGGTTATGATAATATGTTTTTT
1 TTGTCACTATATAACATTGTTG-CACCAAAAA-TAGGAAGAAATAATTATGATAATAT-AAGTTT
* * *
706349 TCATAATGATTAAAATATATAAGTACAAAAATATTTTAATACAAAAAACTTGAATTTTATTA
63 TCATAATGATTAAAATATATAACTACAAAAATATATTAATACAAAAAACTTAAATTTTATTA
706411 TTTGATGTGA
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
137 20 0.18
138 8 0.07
139 21 0.19
140 57 0.52
141 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.38
Consensus pattern (137 bp):
TTGTCACTATATAACATTGTTGCACCAAAAATAGGAAGAAATAATTATGATAATATAAGTTTTCA
TAATGATTAAAATATATAACTACAAAAATATATTAATACAAAAAACTTAAATTTTATTAATTACA
ATATATT
Found at i:706951 original size:180 final size:177
Alignment explanation
Indices: 706528--706967 Score: 449
Period size: 180 Copynumber: 2.4 Consensus size: 177
706518 ATATATGCTA
* * * *
706528 TCACTATAATTAAAATTTATAACTACTAATATAATTTTTCAC-AAAATGTGAATATC-ATTATTT
1 TCACTATAATTAAAATATATAACTACAAACATAATTTTTCACAAAAAT-TTAA-ATCTATTATTT
* * * **
706591 TTTGTGACAATATTTTTTATAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGAT
64 GTTGTGACAAT-TTTTTTATAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGAT
* * *
706656 TTTCTTGACGCAAAAAAATATGGAGGGAAATCTTTGTAACAATATATTTTG
128 TTTCTTGACGCAAAAAAATAT-GAGAGAAATATTTGTAACAATACATTTTG
* * * * * * *
706707 TCACTATAATTAAAACATATAACAACAAACATTATTTTTTATTAAAAACTTGAATCTCATTATTT
1 TCACTATAATTAAAATATATAACTACAAACATAATTTTTCA-CAAAAATTTAAATCT-ATTATTT
*
706772 GTTGTGACAATTTTTTTGTAACAATAATTATA-ACTTATAGTTACAAAACATGTCACTATATGAT
64 GTTGTGACAATTTTTTTATAACAATAATTA-ACACTTATAGTTACAAAACATGTCACTATATGAT
* *** * * * *
706836 TTTGTTTTTGTACCAAAAAT-T-AGAGATAATAATTTGTGACTATACATTTTG
128 TTTCTTGACGCA-AAAAAATATGAGAGA-AAT-ATTTGTAACAATACATTTTG
* * *
706887 TCACTATAATTAAAATATATAATTACAAACAAAATTTGTCACAACAAATTTAAATCCTATTATTT
1 TCACTATAATTAAAATATATAACTACAAACATAATTTTTCACAA-AAATTTAAAT-CTATTATTT
*
706952 GTTGTGACAAATTTTT
64 GTTGTGACAATTTTTT
706968 CTGTCATAGT
Statistics
Matches: 212, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
178 4 0.02
179 42 0.20
180 136 0.64
181 30 0.14
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (177 bp):
TCACTATAATTAAAATATATAACTACAAACATAATTTTTCACAAAAATTTAAATCTATTATTTGT
TGTGACAATTTTTTTATAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGATTTT
CTTGACGCAAAAAAATATGAGAGAAATATTTGTAACAATACATTTTG
Done.