Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold41
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: 2798036
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 10448 characters in sequence are not A, C, G, or T
File 8 of 21
Found at i:747248 original size:13 final size:13
Alignment explanation
Indices: 747230--747254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747220 CATAAAATGT
747230 TGTATCGATACAA
1 TGTATCGATACAA
747243 TGTATCGATACA
1 TGTATCGATACA
747255 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:747335 original size:13 final size:13
Alignment explanation
Indices: 747317--747341 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
747307 ATTACTCAAA
747317 TGTATCGATACAT
1 TGTATCGATACAT
747330 TGTATCGATACA
1 TGTATCGATACA
747342 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747443 original size:52 final size:52
Alignment explanation
Indices: 747350--747473 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
747340 CACTGATCTT
*
747350 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
747401 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
747453 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
747474 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:759828 original size:17 final size:17
Alignment explanation
Indices: 759805--759857 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
759795 CCTTCTCTTC
759805 AAAAAAAAAAAGCAAAA
1 AAAAAAAAAAAGCAAAA
* *
759822 GAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAGCAAAA
*
759839 AACAAAACAAAAAACAAAA
1 AA-AAAA-AAAAAGCAAAA
759858 CAGAGAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 16 0.55
18 4 0.14
19 9 0.31
ACGTcount: A:0.87, C:0.08, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGCAAAA
Found at i:759858 original size:17 final size:17
Alignment explanation
Indices: 759804--759859 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
759794 ACCTTCTCTT
759804 CAAAAAAAAAAAGCAAAA
1 CAAAAAAAAAAA-CAAAA
* *
759822 GAAAAAAAAAAGAAAAAAA
1 -CAAAAAAAAA-AACAAAA
*
759841 CAAAACAAAAAACAAAA
1 CAAAAAAAAAAACAAAA
759858 CA
1 CA
759860 GAGAAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 8 0.26
18 8 0.26
19 13 0.42
20 2 0.06
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAACAAAA
Found at i:759859 original size:12 final size:12
Alignment explanation
Indices: 759804--759857 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
759794 ACCTTCTCTT
759804 CAAAAAAAAAAA
1 CAAAAAAAAAAA
759816 GCAAAAGAAAAAAA
1 -CAAAA-AAAAAAA
*
759830 -AAAGAAAAAAA
1 CAAAAAAAAAAA
*
759841 CAAAACAAAAAA
1 CAAAAAAAAAAA
759853 CAAAA
1 CAAAA
759858 CAGAGAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.19
12 17 0.47
13 5 0.14
14 7 0.19
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:761144 original size:55 final size:55
Alignment explanation
Indices: 760878--762178 Score: 1329
Period size: 55 Copynumber: 22.9 Consensus size: 55
760868 GATGCCTTTT
* * *
760878 CCTTTTAAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCTTCAAAGAGCGGGACGC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-C
* *
760935 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGATGTCTTT
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA---C--C
* * * * *
760998 TCTTTTAAAGCCCACCCGAGTTGGTGGCACC-TTCAGTCCTCAAAAAGCAGGATGCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C---C
* *
761057 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * * *
761113 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGCCCCCGAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * *
761168 CCTTTCAAAGTCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACC
* * *
761223 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTTAGAGAGCGGGATGCC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--CC
* *
761279 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAATCCTCAAAGAGCAGGACGC
1 ---CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-C
* * * **
761337 CTTTTCTTTTAAAGCCCACATAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGTGGGACGC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-C
*
761397 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACAC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-C
*
761456 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-C
*
761515 CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-C
* * *
761574 CTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* *
761633 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * *
761688 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCGAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * *
761743 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAAGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACC
*
761798 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-C
* * * *
761853 CTTTTCTTTTAAAGCCCAC-CTGAGTTTGTGGCACC-TTCAGTCCTCGAAGAGCAGGACA
1 C----CTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * *
761911 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACC
* * * *
761966 CCTCTTAAAGCCCACACAAGTTAGTGGCACCTTTCAATCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * *
762021 CCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACC
* **
762076 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
* * * *
762131 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
762179 TAGAATACAC
Statistics
Matches: 1103, Mismatches: 99, Indels: 86
0.86 0.08 0.07
Matches are distributed among these distances:
54 68 0.06
55 503 0.46
56 11 0.01
57 2 0.00
58 4 0.00
59 368 0.33
60 122 0.11
61 24 0.02
62 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACC
Found at i:761646 original size:26 final size:26
Alignment explanation
Indices: 761617--761701 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
761607 CCTTTCAGTC
761617 CCCAAAGAGCAGGACCCCTTTCAAAG
1 CCCAAAGAGCAGGACCCCTTTCAAAG
** * * ***
761643 CCCACACA-AGTTGGTGGCACCTTTCAGTC
1 CCCA-A-AGAG-CAG-GACCCCTTTCAAAG
761672 CCCAAAGAGCAGGACCCCTTTCAAAG
1 CCCAAAGAGCAGGACCCCTTTCAAAG
761698 CCCA
1 CCCA
761702 CACAAGTTGG
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 17 0.43
27 5 0.12
28 5 0.12
29 13 0.32
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.15
Consensus pattern (26 bp):
CCCAAAGAGCAGGACCCCTTTCAAAG
Found at i:762337 original size:42 final size:43
Alignment explanation
Indices: 762273--762364 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 43
762263 TGGGACGTAC
* * *
762273 TCTTCT-TTCACTTTGTCCTCAAGAAGCAGGA-CACTTTCCTTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCA-TTTCATTT
* *
762315 TCTTCTCTTC-CTTGGTCTTCAAGGAGCAAGACCTATTTCATTT
1 TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACC-ATTTCATTT
762358 TCTTCTC
1 TCTTCTC
762365 CTTTGTCCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
42 23 0.55
43 18 0.43
44 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.42
Consensus pattern (43 bp):
TCTTCTCTTCACTTGGTCCTCAAGAAGCAAGACCATTTCATTT
Found at i:763002 original size:19 final size:19
Alignment explanation
Indices: 762978--763045 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
762968 AATTCAACAA
762978 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
762997 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
763012 --TATATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
763029 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
763046 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:763023 original size:32 final size:32
Alignment explanation
Indices: 762982--763042 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
762972 CAACAATTTG
*
762982 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGTATTGTATCGATACAATA
763014 TATCGATACATAAGTATTGTATCGATACA
1 TATCGATACATAAGTATTGTATCGATACA
763043 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATA
Found at i:763103 original size:13 final size:13
Alignment explanation
Indices: 763085--763110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
763075 CATTTTTCTG
763085 TGTATCGATACAT
1 TGTATCGATACAT
763098 TGTATCGATACAT
1 TGTATCGATACAT
763111 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:765602 original size:17 final size:17
Alignment explanation
Indices: 765580--765615 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
765570 TCTTCACAAT
765580 CGGGGATACTCCAACCC
1 CGGGGATACTCCAACCC
*
765597 CGGGGATATTCCAACCC
1 CGGGGATACTCCAACCC
765614 CG
1 CG
765616 TTATTTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.14
Consensus pattern (17 bp):
CGGGGATACTCCAACCC
Found at i:765688 original size:52 final size:52
Alignment explanation
Indices: 765626--765849 Score: 227
Period size: 52 Copynumber: 4.3 Consensus size: 52
765616 TTATTTCTGA
** * * * *
765626 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTTCACAATC
*
765678 GGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTTTCACAATC
* ** **
765730 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTTC-ACAATC
* * * * * * *
765783 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAA-TTTCTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTTTCACAATC
*
765835 GAGGATACTCCAACC
1 GGGGATACTCCAACC
765850 TCGTTATTTC
Statistics
Matches: 145, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
51 3 0.02
52 96 0.66
53 37 0.26
54 9 0.06
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTTTCACAATC
Found at i:765747 original size:149 final size:148
Alignment explanation
Indices: 765476--765748 Score: 379
Period size: 149 Copynumber: 1.8 Consensus size: 148
765466 CTCCACAATC
* *
765476 GGGGATATTCCAACTCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
* * *
765541 TCCGATTTTATTTTAAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAACCCCGGGGATAT
66 CCCGATTTTATTCT--AAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGGGGATAT
765606 TCCAACCCCGTTATTTCTGA
129 TCCAACCCCGTTATTTCTGA
* * * *
765626 GGGGATACTCCAACCCCGACTTT-ATTTTCAAAATATTGATTTTTTCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGA-TTTCATTTTCAAAACACTAATTTTCT-ATAATCGGGGATACTCCA
* * *
765690 ACCCCGGTTTTATTGCT-AAAACACTAATTTTTTCACAATCGGGGATACTCCAACCCCGG
64 ACCCCGATTTTATT-CTAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGG
765749 TTTTATTTTC
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
149 39 0.36
150 35 0.32
151 33 0.31
152 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (148 bp):
GGGGATACTCCAACCCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCCAAC
CCCGATTTTATTCTAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGGGGATATTC
CAACCCCGTTATTTCTGA
Found at i:765841 original size:105 final size:104
Alignment explanation
Indices: 765628--765849 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 104
765618 ATTTCTGAGG
* *** **
765628 GGATACTCCAACCCCGACTTTATTTTCAAAATATTGATTTTTTCATAATCGGGGATACTCCAACC
1 GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCCATAATCGGGGATACTCCAACC
* * * * * *
765693 CCGGTTTTATTGCTAAAACACTAATTTTTTCACAATCGG
66 CCGATTTTATTCCAAAAACACCAATTTTCTCACAATCGA
** *
765732 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCC-ATAATCGGGGATACTCCAAC
* * *
765797 TCTGATTTTATTTCCAAAAATACCAA-TTTCTCACAATCGA
65 CCCGATTTTA-TTCCAAAAACACCAATTTTCTCACAATCGA
765837 GGATACTCCAACC
1 GGATACTCCAACC
765850 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
104 36 0.37
105 51 0.52
106 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (104 bp):
GGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCCATAATCGGGGATACTCCAACC
CCGATTTTATTCCAAAAACACCAATTTTCTCACAATCGA
Found at i:765868 original size:28 final size:28
Alignment explanation
Indices: 765832--765908 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
765822 ATTTCTCACA
* * *
765832 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
765860 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
765888 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
765909 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:765974 original size:107 final size:107
Alignment explanation
Indices: 765783--765987 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
765773 CCCTTTAATC
* * *
765783 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
765848 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * ** * * *
765891 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTAATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
765955 CCCCGTTATTTTCGA-GGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ACGGGGATACTCCAACCCCG
765988 ATTTTTTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 58 0.70
108 24 0.29
109 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:766012 original size:79 final size:79
Alignment explanation
Indices: 765862--766066 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
765852 GTTATTTCAT
* * *
765862 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
765927 TAATTTCTCATAAT
66 CAATTTCTCACAAC
* * * * ** *
765941 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
*
766005 TCGATTTCTCACAAC
65 TCAATTTCTCACAAC
* * * *
766020 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
766067 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 3 0.03
79 102 0.97
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CAATTTCTCACAAC
Found at i:772155 original size:45 final size:46
Alignment explanation
Indices: 772104--772192 Score: 108
Period size: 46 Copynumber: 2.0 Consensus size: 46
772094 AAATAATTTT
* * *
772104 TTTCATAAATCCAAGAG-CATAATATTCTATTGATCAATAGACACA
1 TTTCATAAATCCAAGAGACATAACATTCAATTAATCAATAGACACA
* ** *
772149 TTTCATATATTTAAGAGACATAACATTCAATTAATCATTAGACA
1 TTTCATAAATCCAAGAGACATAACATTCAATTAATCAATAGACA
772193 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 14 0.39
46 22 0.61
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (46 bp):
TTTCATAAATCCAAGAGACATAACATTCAATTAATCAATAGACACA
Found at i:773497 original size:2 final size:2
Alignment explanation
Indices: 773492--773538 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
773482 AAAAATAGCC
773492 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
773534 AT AT A
1 AT AT A
773539 AAGAGCAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:774866 original size:23 final size:23
Alignment explanation
Indices: 774822--774866 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
774812 ATTTTAAAAT
*
774822 ATATATTAATATTGTATCATATC
1 ATATATCAATATTGTATCATATC
*
774845 ATATATCAAGTATTTTAT-ATAT
1 ATATATCAA-TATTGTATCATAT
774867 GTTATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (23 bp):
ATATATCAATATTGTATCATATC
Found at i:775239 original size:13 final size:13
Alignment explanation
Indices: 775213--775263 Score: 63
Period size: 13 Copynumber: 4.0 Consensus size: 13
775203 ATTTAATTGG
775213 TTAAATTGATTAAA
1 TTAAATT-ATTAAA
775227 TTAAATTATTAAA
1 TTAAATTATTAAA
775240 -TAAATATATT-AA
1 TTAAAT-TATTAAA
775252 TTAAA-TATTAAA
1 TTAAATTATTAAA
775264 AATTAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.12
12 9 0.26
13 14 0.41
14 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (13 bp):
TTAAATTATTAAA
Found at i:775266 original size:26 final size:25
Alignment explanation
Indices: 775225--775289 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
775215 AAATTGATTA
775225 AATTAAATTATT--AAATAAATATATT-
1 AATTAAA-TATTAAAAATAAAT-T-TTG
*
775250 AATTAAATATTAAAAATTAATTTTG
1 AATTAAATATTAAAAATAAATTTTG
775275 ATATTAAATATTAAA
1 A-ATTAAATATTAAA
775290 GTTAGTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
24 6 0.17
25 9 0.26
26 20 0.57
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTAAATATTAAAAATAAATTTTG
Found at i:776435 original size:21 final size:22
Alignment explanation
Indices: 776392--776448 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
776382 CTAAATAAGA
* * *
776392 ATTTTTTAATTATAAAATGTAT
1 ATTTTATAATAATAAAATATAT
776414 ATTTTATAATAATAAAA-ATAT
1 ATTTTATAATAATAAAATATAT
*
776435 AATTTATAATAATA
1 ATTTTATAATAATA
776449 GTTATAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTTATAATAATAAAATATAT
Found at i:776818 original size:37 final size:37
Alignment explanation
Indices: 776777--776856 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
776767 ATTGGTAAAT
776777 TATGTTGTCTTATTGC-AATACATATTTTTTGAATATA
1 TATGTTGTCTTATTGCTAA-ACATATTTTTTGAATATA
776814 TATGTTGTCTTATTGCTAAACATATTTTTTGAATATA
1 TATGTTGTCTTATTGCTAAACATATTTTTTGAATATA
776851 TATGTT
1 TATGTT
776857 ATTTTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 40 0.95
38 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (37 bp):
TATGTTGTCTTATTGCTAAACATATTTTTTGAATATA
Found at i:777318 original size:16 final size:17
Alignment explanation
Indices: 777299--777379 Score: 80
Period size: 16 Copynumber: 4.9 Consensus size: 17
777289 TGAACGACCA
*
777299 AAAATTAAAGA-AATTT
1 AAAATTAAAAATAATTT
*
777315 AAAATTAAAAATAATCT
1 AAAATTAAAAATAATTT
*
777332 -AAATTTAAAAT-A-TT
1 AAAATTAAAAATAATTT
777346 ATAAATTAAAAATAATTT
1 A-AAATTAAAAATAATTT
* *
777364 AAATTTAAAATTAATT
1 AAAATTAAAAATAATT
777380 AAATTTTTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 30 0.57
17 18 0.34
18 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (17 bp):
AAAATTAAAAATAATTT
Found at i:777352 original size:32 final size:30
Alignment explanation
Indices: 777309--777375 Score: 107
Period size: 32 Copynumber: 2.2 Consensus size: 30
777299 AAAATTAAAG
777309 AAATTTAAAATTAAAAATAATCTAAATTTA
1 AAATTTAAAATTAAAAATAATCTAAATTTA
*
777339 AAATATTATAAATTAAAAATAATTTAAATTTA
1 AAAT-TTA-AAATTAAAAATAATCTAAATTTA
777371 AAATT
1 AAATT
777376 AATTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 4 0.12
31 4 0.12
32 26 0.76
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
AAATTTAAAATTAAAAATAATCTAAATTTA
Found at i:777367 original size:25 final size:26
Alignment explanation
Indices: 777333--777403 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
777323 AAATAATCTA
777333 AATTTAAAATATTATAAATTAA-AAAT
1 AATTT-AAATATTATAAATTAATAAAT
777359 AATTTAAAT-TTA-AAATTAATTAAAT
1 AATTTAAATATTATAAATTAA-TAAAT
**
777384 TTTTTAAA-ATT-TAAATTAAT
1 AATTTAAATATTATAAATTAAT
777404 CTAATCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 7 0.18
24 4 0.10
25 23 0.59
26 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTTAAATATTATAAATTAATAAAT
Found at i:777383 original size:32 final size:32
Alignment explanation
Indices: 777316--777384 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
777306 AAGAAATTTA
*
777316 AAATTAAAAATAATCTAAATTTAAAATATTAT
1 AAATTAAAAATAATCTAAATTTAAAATAATAT
*
777348 AAATTAAAAATAATTTAAATTTAAAATTAAT-T
1 AAATTAAAAATAATCTAAATTTAAAA-TAATAT
777380 AAATT
1 AAATT
777385 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 31 0.91
33 3 0.09
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATTAAAAATAATCTAAATTTAAAATAATAT
Found at i:778130 original size:22 final size:21
Alignment explanation
Indices: 778093--778140 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
778083 CGAATTAATT
778093 TTTAA-AAAATTTAAAATAT-A
1 TTTAATAAAATTTAAAA-ATCA
*
778113 TTTAATAATATTTCAAAAATCA
1 TTTAATAAAATTT-AAAAATCA
778135 TTTAAT
1 TTTAAT
778141 CTTAACTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 8 0.33
22 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAATAAAATTTAAAAATCA
Found at i:780423 original size:11 final size:11
Alignment explanation
Indices: 780409--780470 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
780399 TGTAAATATA
780409 AAAAAATAATT
1 AAAAAATAATT
*
780420 AAAATATAATT
1 AAAAAATAATT
780431 AAAATATATAA-T
1 AAAA-A-ATAATT
780443 ATAAAAATAATAT
1 A-AAAAATAAT-T
*
780456 AAATAAAAAATT
1 AAA-AAATAATT
780468 AAA
1 AAA
780471 TATATAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
11 18 0.43
12 9 0.21
13 15 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:780436 original size:20 final size:21
Alignment explanation
Indices: 780380--780436 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
780370 TGACTTTAGA
780380 TAAAATATAATT--AATAAGT
1 TAAAATATAATTAAAATAAGT
* *
780399 TGTAAATATAA-AAAAATAA-T
1 T-AAAATATAATTAAAATAAGT
780419 TAAAATATAATTAAAATA
1 TAAAATATAATTAAAATA
780437 TATAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 9 0.30
20 16 0.53
21 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
TAAAATATAATTAAAATAAGT
Found at i:780465 original size:16 final size:18
Alignment explanation
Indices: 780410--780477 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
780400 GTAAATATAA
*
780410 AAAAATAAT-TAAAATAT
1 AAAAATAATATATAATAT
*
780427 AATTAA-AATATATAATAT
1 AA-AAATAATATATAATAT
780445 AAAAATAATATA-AATA-
1 AAAAATAATATATAATAT
780461 AAAAATTAAATATATAA
1 AAAAA-T-AATATATAA
780478 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
16 5 0.12
17 12 0.29
18 23 0.55
19 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATAATATATAATAT
Found at i:780472 original size:29 final size:29
Alignment explanation
Indices: 780422--780480 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
780412 AAATAATTAA
* *
780422 AATATAATTAAAATATATAATATAAAAAT
1 AATATAAATAAAAAATATAATATAAAAAT
*
780451 AATATAAATAAAAAAT-TAAATATATAAAT
1 AATATAAATAAAAAATAT-AATATAAAAAT
780480 A
1 A
780481 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AATATAAATAAAAAATATAATATAAAAAT
Found at i:780577 original size:19 final size:19
Alignment explanation
Indices: 780541--780584 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
780531 AAGTGTAAAT
* *
780541 ATAATAAAAAAATTAAAAC
1 ATAATAAAAAAATAAAAAA
* *
780560 ATAATAATAATATAAAAAA
1 ATAATAAAAAAATAAAAAA
780579 ATAATA
1 ATAATA
780585 TGAACAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAATAAAAAAATAAAAAA
Found at i:781204 original size:14 final size:14
Alignment explanation
Indices: 781185--781214 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
781175 CTCATTATTA
781185 ATTTATATATAGAT
1 ATTTATATATAGAT
*
781199 ATTTATATATATAT
1 ATTTATATATAGAT
781213 AT
1 AT
781215 ATTTTAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTATATATAGAT
Found at i:781825 original size:16 final size:15
Alignment explanation
Indices: 781806--781866 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
781796 CTTAACTCGA
*
781806 AAATAATTTAAATCTG
1 AAATAACTTAAA-CTG
**
781822 AAATAACCCAAACTAG
1 AAATAACTTAAACT-G
*
781838 AAATAACTTAAAACTA
1 AAATAACTT-AAACTG
*
781854 AAATAATTTAAAC
1 AAATAACTTAAAC
781867 AAAATATGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 6 0.17
16 25 0.69
17 5 0.14
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATAACTTAAACTG
Found at i:781853 original size:17 final size:16
Alignment explanation
Indices: 781831--781865 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
781821 GAAATAACCC
781831 AAACTAGAAATAACTTA
1 AAACTA-AAATAACTTA
*
781848 AAACTAAAATAATTTA
1 AAACTAAAATAACTTA
781864 AA
1 AA
781866 CAAAATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.26
Consensus pattern (16 bp):
AAACTAAAATAACTTA
Found at i:782009 original size:17 final size:17
Alignment explanation
Indices: 781967--782009 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
781957 TATCAACCTT
781967 CTCTCTTTTCATTATTGA
1 CTCTC-TTTCATTATTGA
*
781985 CT-TACTTTCTTTATTGA
1 CTCT-CTTTCATTATTGA
782002 CTCTCTTT
1 CTCTCTTT
782010 AAATCCTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (17 bp):
CTCTCTTTCATTATTGA
Found at i:782551 original size:19 final size:20
Alignment explanation
Indices: 782529--782569 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
782519 TTTAATAAAA
*
782529 ATAAATTTAA-ATAATAATT
1 ATAAATATAATATAATAATT
*
782548 AT-AATATAATATTATAATT
1 ATAAATATAATATAATAATT
782567 ATA
1 ATA
782570 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAATATAATATAATAATT
Found at i:782591 original size:29 final size:28
Alignment explanation
Indices: 782545--782663 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 28
782535 TTAAATAATA
*
782545 ATTATAATATAATATTATAATT-ATATTTT
1 ATTATTAT-TAATATTATAATTAATA-TTT
*
782574 TTTATTATTAATATTTATAATTAATATTT
1 ATTATTATTAATA-TTATAATTAATATTT
*
782603 ATTATTATT-A-ATTAT-ATTAGTATTT
1 ATTATTATTAATATTATAATTAATATTT
* **
782628 ATCA-TATTCGTATCTATAA-TAATATTTT
1 ATTATTATTAATAT-TATAATTAATA-TTT
782656 ATT-TTATT
1 ATTATTATT
782664 GCGGTAGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
24 4 0.05
25 12 0.16
26 6 0.08
27 8 0.11
28 16 0.22
29 25 0.34
30 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTATTATTAATATTATAATTAATATTT
Found at i:782602 original size:13 final size:13
Alignment explanation
Indices: 782540--782629 Score: 67
Period size: 13 Copynumber: 6.8 Consensus size: 13
782530 TAAATTTAAA
*
782540 TAATAATTATAAT
1 TAATATTTATAAT
782553 ATAATA-TTATAAT
1 -TAATATTTATAAT
* *
782566 TATATTTTTTTATTAT
1 TA-A--TATTTATAAT
782582 TAATATTTATAAT
1 TAATATTTATAAT
*
782595 TAATATTTATTAT
1 TAATATTTATAAT
* *
782608 TATTAATTAT-AT
1 TAATATTTATAAT
*
782620 TAGTATTTAT
1 TAATATTTAT
782630 CATATTCGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
12 12 0.19
13 36 0.57
14 5 0.08
15 2 0.03
16 8 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (13 bp):
TAATATTTATAAT
Found at i:782617 original size:26 final size:25
Alignment explanation
Indices: 782557--782629 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 25
782547 TATAATATAA
*
782557 TATT-ATAATTATATT--TTTTTAT
1 TATTAATAATTATATTAATATTTAT
*
782579 TATTAATATTTATAATTAATATTTAT
1 TATTAATAATTAT-ATTAATATTTAT
* *
782605 TATTATTAATTATATTAGTATTTAT
1 TATTAATAATTATATTAATATTTAT
782630 CATATTCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
22 4 0.10
23 7 0.17
24 3 0.07
25 11 0.26
26 17 0.40
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (25 bp):
TATTAATAATTATATTAATATTTAT
Found at i:783034 original size:12 final size:12
Alignment explanation
Indices: 783002--783045 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
782992 TTAAAAAATT
783002 ATAAATAATAATA
1 ATAAATAAT-ATA
*
783015 TTTAAATAATATA
1 -ATAAATAATATA
*
783028 ATAAATAATAAA
1 ATAAATAATATA
783040 ATAAAT
1 ATAAAT
783046 TTTTTGAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 3 0.11
14 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:783643 original size:11 final size:11
Alignment explanation
Indices: 783627--783668 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
783617 TGTATTATTT
783627 ATTATATTATA
1 ATTATATTATA
783638 ATTATATT-TA
1 ATTATATTATA
*
783648 ATATATTTTATA
1 AT-TATATTATA
*
783660 TTTATATTA
1 ATTATATTA
783669 ATTTTTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.15
11 19 0.73
12 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATATTATA
Found at i:783726 original size:19 final size:20
Alignment explanation
Indices: 783704--783744 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
783694 TTATAAAATA
783704 TTATGATATTTATAT-ATTT
1 TTATGATATTTATATAATTT
*
783723 TTATTATATTTATATAATTT
1 TTATGATATTTATATAATTT
783743 TT
1 TT
783745 TATATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATGATATTTATATAATTT
Found at i:783735 original size:28 final size:27
Alignment explanation
Indices: 783622--783738 Score: 89
Period size: 28 Copynumber: 4.1 Consensus size: 27
783612 AGGTTTGTAT
783622 TATTTAT-TATATTATAATTATATTTAATA
1 TATTTATATAT-TTAT-ATTATATTT-ATA
*
783651 TATTT-TATATTTATATTA-ATTTTTAA
1 TATTTATATATTTATATTATATTTAT-A
783677 TATGTTA-ATAATTTATATTATAAAATATTATGA
1 TAT-TTATAT-ATTTATATTAT---AT-TTAT-A
*
783710 TATTTATATATTTTTATTATATTTATA
1 TATTTATATATTTATATTATATTTATA
783737 TA
1 TA
783739 ATTTTTTATA
Statistics
Matches: 73, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
25 1 0.01
26 8 0.11
27 11 0.15
28 19 0.26
29 10 0.14
32 15 0.21
33 9 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTTATATATTTATATTATATTTATA
Found at i:783748 original size:12 final size:12
Alignment explanation
Indices: 783717--783814 Score: 58
Period size: 12 Copynumber: 8.2 Consensus size: 12
783707 TGATATTTAT
*
783717 ATATTTT-TATT
1 ATATTTTATATA
783728 ATA-TTTATATA
1 ATATTTTATATA
*
783739 ATTTTTTATATA
1 ATATTTTATATA
* *
783751 ATATTTTATGTT
1 ATATTTTATATA
** * *
783763 ACGTTTAAAAT-
1 ATATTTTATATA
* *
783774 ATTTTTTATATT
1 ATATTTTATATA
783786 ATATTTATATATA
1 ATATTT-TATATA
*
783799 ATAGTTTATGATA
1 ATATTTTAT-ATA
783812 ATA
1 ATA
783815 AAATAAAATT
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
10 3 0.05
11 15 0.23
12 31 0.48
13 16 0.25
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (12 bp):
ATATTTTATATA
Found at i:783754 original size:50 final size:52
Alignment explanation
Indices: 783635--783755 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 52
783625 TTATTATATT
* *
783635 ATAA-TTATATT-TAATATATT-TTATATTTATATTAATTTTTAATATGTTA
1 ATAATTTATATTATAAAATATTATGATATTTATATTAATTTTTAATATGTTA
783684 ATAATTTATATTATAAAATATTATGATATTTATA-T-ATTTTTATTATAT-TTA
1 ATAATTTATATTATAAAATATTATGATATTTATATTAATTTTTA--ATATGTTA
*
783735 TATAATTT-T-TTATATAATATT
1 -ATAATTTATATTATAAAATATT
783756 TTATGTTACG
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
49 4 0.06
50 25 0.40
51 13 0.21
52 21 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (52 bp):
ATAATTTATATTATAAAATATTATGATATTTATATTAATTTTTAATATGTTA
Found at i:784354 original size:20 final size:20
Alignment explanation
Indices: 784314--784374 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
784304 TATATTTTAA
* *
784314 ATTAATTTAAATTATTATTT
1 ATTAATTAAAATAATTATTT
*
784334 ATTAATTAAAATAATTTTTT
1 ATTAATTAAAATAATTATTT
* *
784354 AATATATTTTAAATAATTATT
1 -AT-TAATTAAAATAATTATT
784375 GAAACCATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTAATTAAAATAATTATTT
Found at i:785520 original size:2 final size:2
Alignment explanation
Indices: 785513--785546 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
785503 TAAAGTGTTC
785513 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
785547 TAATTCTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:785593 original size:2 final size:2
Alignment explanation
Indices: 785586--785617 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
785576 TCTTCTCTGA
785586 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
785618 CCTTCTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:787133 original size:2 final size:2
Alignment explanation
Indices: 787126--787155 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
787116 TTGATATTTC
787126 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
787156 CTTTCGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:788384 original size:3 final size:3
Alignment explanation
Indices: 788378--788415 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
788368 CATCATCATC
788378 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
788416 TTAATGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:788947 original size:21 final size:24
Alignment explanation
Indices: 788907--788950 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
788897 AAATGAATCA
788907 TAAATTTAAACTTACAAGTTAAAT
1 TAAATTTAAACTTACAAGTTAAAT
788931 TAAA-TTAAA-TT-CAAGTTAAA
1 TAAATTTAAACTTACAAGTTAAA
788951 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 5 0.25
24 4 0.20
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (24 bp):
TAAATTTAAACTTACAAGTTAAAT
Found at i:791848 original size:20 final size:20
Alignment explanation
Indices: 791811--791848 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
791801 GTGCTGCTGC
*
791811 TGCAAAATAATAATAAAAAA
1 TGCAAAATAATAACAAAAAA
791831 TGCATAAATAA-AACAAAA
1 TGCA-AAATAATAACAAAA
791849 TGAATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (20 bp):
TGCAAAATAATAACAAAAAA
Found at i:795924 original size:93 final size:93
Alignment explanation
Indices: 795765--795953 Score: 369
Period size: 93 Copynumber: 2.0 Consensus size: 93
795755 ACTTGTTCTG
*
795765 TTTCATGCCAAGTATTTCAAATCCATATGGGATTTCTTATTGCCTAAATTTGTACGCTAGCAACT
1 TTTCATGCCAAGGATTTCAAATCCATATGGGATTTCTTATTGCCTAAATTTGTACGCTAGCAACT
795830 TTAAGTTAAATTTGTATGGTGTAAAACT
66 TTAAGTTAAATTTGTATGGTGTAAAACT
795858 TTTCATGCCAAGGATTTCAAATCCATATGGGATTTCTTATTGCCTAAATTTGTACGCTAGCAACT
1 TTTCATGCCAAGGATTTCAAATCCATATGGGATTTCTTATTGCCTAAATTTGTACGCTAGCAACT
795923 TTAAGTTAAATTTGTATGGTGTAAAACT
66 TTAAGTTAAATTTGTATGGTGTAAAACT
795951 TTT
1 TTT
795954 GATAGCATAA
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (93 bp):
TTTCATGCCAAGGATTTCAAATCCATATGGGATTTCTTATTGCCTAAATTTGTACGCTAGCAACT
TTAAGTTAAATTTGTATGGTGTAAAACT
Found at i:799187 original size:22 final size:22
Alignment explanation
Indices: 799157--799232 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
799147 CTTGAATCAA
* *
799157 AAATTTTAATTAAAAATATTTT
1 AAATATTAAATAAAAATATTTT
799179 AAATATTAAATAAATAAT-TTTT
1 AAATATTAAATAAA-AATATTTT
*
799201 -AATATTAAATAAATA-ATTTT
1 AAATATTAAATAAAAATATTTT
* *
799221 ATATAATAAATA
1 AAATATTAAATA
799233 TTTATACTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.11
21 22 0.48
22 16 0.35
23 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATATTAAATAAAAATATTTT
Found at i:799204 original size:21 final size:21
Alignment explanation
Indices: 799170--799232 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
799160 TTTTAATTAA
799170 AAAT-ATTTTAAATATTAAAT
1 AAATAATTTTAAATATTAAAT
*
799190 AAATAATTTTTAATATTAAAT
1 AAATAATTTTAAATATTAAAT
* *
799211 AAATAATTTTATATAATAAAT
1 AAATAATTTTAAATATTAAAT
799232 A
1 A
799233 TTTATACTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATTTTAAATATTAAAT
Found at i:799429 original size:27 final size:27
Alignment explanation
Indices: 799377--799429 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
799367 ATTATTAGAA
* *
799377 TTATTATTATTTTACTTTTATAAATTT
1 TTATTATTATTTTAATTTAATAAATTT
*
799404 TTATTA-TATATTTAATTTAATTAATT
1 TTATTATTAT-TTTAATTTAATAAATT
799430 ATAATTAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (27 bp):
TTATTATTATTTTAATTTAATAAATTT
Found at i:799522 original size:86 final size:85
Alignment explanation
Indices: 799397--799573 Score: 275
Period size: 87 Copynumber: 2.1 Consensus size: 85
799387 TTTACTTTTA
* *
799397 TAAATTTTTATTATATATTTAATTTAATTAATTATAATTAATGTTA-TTTCAAATTCAATTATAC
1 TAAATTATTATTATATATTTAATTTAATTAATTACAATTAATGTTATTTTCAAATTCAATTATAC
799461 TATATAATAATATTTGATAT
66 TATATAATAATATTTGATAT
* *
799481 TAAATTATTATATATTTAATTTAATTTAATTAATTACAATTAATGTTATTTTCAAATTTAATTAT
1 TAAATTATTAT-TATAT-ATTTAATTTAATTAATTACAATTAATGTTATTTTCAAATTCAATTAT
* *
799546 ATTATATAATTATATTTGATAT
64 ACTATATAATAATATTTGATAT
799568 TAAATT
1 TAAATT
799574 GCTTTAAATG
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
84 10 0.12
85 4 0.05
86 29 0.35
87 41 0.49
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (85 bp):
TAAATTATTATTATATATTTAATTTAATTAATTACAATTAATGTTATTTTCAAATTCAATTATAC
TATATAATAATATTTGATAT
Found at i:800040 original size:17 final size:16
Alignment explanation
Indices: 799976--800070 Score: 53
Period size: 16 Copynumber: 6.1 Consensus size: 16
799966 TGTATTCATA
799976 TTATATT-TATAAATT
1 TTATATTATATAAATT
799991 TTATCATGTA-AT-AATT
1 TTAT-AT-TATATAAATT
* * *
800007 GTAT-TCA-ATATATT
1 TTATATTATATAAATT
800021 TTATATTTATATAAATT
1 TTATA-TTATATAAATT
800038 TTAATAAGTTA-A-AAA-T
1 TT-AT-A-TTATATAAATT
800054 TTATATTATATAAATT
1 TTATATTATATAAATT
800070 T
1 T
800071 AAAGCTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 23
0.67 0.08 0.25
Matches are distributed among these distances:
13 6 0.10
14 9 0.15
15 9 0.15
16 16 0.26
17 14 0.23
18 3 0.05
19 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:801708 original size:30 final size:31
Alignment explanation
Indices: 801672--801731 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
801662 TGTGATTAAA
801672 ATAATAA-AAAGTTA-CTAATTTAAAAAATAT
1 ATAATAATAAA-TTATCTAATTTAAAAAATAT
* *
801702 ATAATAATTAATTATCTAATTTAAATAATA
1 ATAATAATAAATTATCTAATTTAAAAAATA
801732 AAATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (31 bp):
ATAATAATAAATTATCTAATTTAAAAAATAT
Found at i:802663 original size:20 final size:20
Alignment explanation
Indices: 802619--802668 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
802609 ATATAAGATT
* * *
802619 AATTTAAAATTTTATTTTAT
1 AATTTAAAATTATATTTAAA
*
802639 TATTTAAAATTATATTTAAA
1 AATTTAAAATTATATTTAAA
802659 AATTTAAAAT
1 AATTTAAAAT
802669 ATTTTTATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAAAATTATATTTAAA
Found at i:802966 original size:16 final size:16
Alignment explanation
Indices: 802947--802977 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
802937 TACATTAAAA
802947 AAATATTTTATTAATT
1 AAATATTTTATTAATT
*
802963 AAATATTTTTTTAAT
1 AAATATTTTATTAAT
802978 ATCATCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAATATTTTATTAATT
Found at i:803690 original size:25 final size:26
Alignment explanation
Indices: 803653--803706 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
803643 TTTAAATATT
*
803653 AAAATTTAAT-AAAATAAAA-AATAA
1 AAAATTTAATAAAAATAAAATAAGAA
*
803677 AAAATATTATTAAAAATAAAATAAGAA
1 AAAAT-TTAATAAAAATAAAATAAGAA
803704 AAA
1 AAA
803707 TGTCCAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 4 0.16
26 9 0.36
27 7 0.28
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAATTTAATAAAAATAAAATAAGAA
Found at i:803697 original size:24 final size:25
Alignment explanation
Indices: 803653--803705 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
803643 TTTAAATATT
803653 AAAATTTAATAAAATAAAAAATAA-
1 AAAATTTAATAAAATAAAAAATAAG
* *
803677 AAAATATTATTAAAA-ATAAAATAAG
1 AAAAT-TTAATAAAATAAAAAATAAG
803702 AAAA
1 AAAA
803706 ATGTCCAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATTTAATAAAATAAAAAATAAG
Found at i:808638 original size:27 final size:27
Alignment explanation
Indices: 808589--808643 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
808579 GGAAAAAAAA
* * *
808589 ATAAAAATTAAATTAATTGATTTTATT
1 ATAAAAATTAAATTAAATAATTTAATT
*
808616 ATAAAAATTAATTTAAATAATTTAATT
1 ATAAAAATTAAATTAAATAATTTAATT
808643 A
1 A
808644 AATTAAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAAAAATTAAATTAAATAATTTAATT
Found at i:809135 original size:10 final size:10
Alignment explanation
Indices: 809120--809144 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
809110 GGTTTGTTGA
809120 ATTTGCTTTT
1 ATTTGCTTTT
809130 ATTTGCTTTT
1 ATTTGCTTTT
809140 ATTTG
1 ATTTG
809145 TTGATTCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.68
Consensus pattern (10 bp):
ATTTGCTTTT
Found at i:811779 original size:29 final size:30
Alignment explanation
Indices: 811740--811811 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 30
811730 ATTTTATTAA
*
811740 TTTTTA-TTATTTCA-TTTAATC-GTTTTGT
1 TTTTTATTTATTTCAGTTT-ATCTGTTTTAT
811768 TTTTTATTTA-TTCAGTTTATCTGTTTTAT
1 TTTTTATTTATTTCAGTTTATCTGTTTTAT
811797 TATTTTCATTTATTT
1 T-TTTT-ATTTATTT
811812 ATACCTTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 13 0.35
29 13 0.35
30 4 0.11
31 5 0.14
32 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.06, T:0.69
Consensus pattern (30 bp):
TTTTTATTTATTTCAGTTTATCTGTTTTAT
Found at i:812120 original size:29 final size:29
Alignment explanation
Indices: 812082--812153 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
812072 ATTTTATTAA
812082 TTTTTA-TTATTTTATTTAATCGTTTTAT
1 TTTTTATTTATTTTATTTAATCGTTTTAT
* * *
812110 TTTTTATTTATTTTGTTTATTTGTTTTAT
1 TTTTTATTTATTTTATTTAATCGTTTTAT
812139 TATTTTCATTTATTT
1 T-TTTT-ATTTATTT
812154 ATACCTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.16
29 20 0.53
30 4 0.11
31 8 0.21
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTTATTTATTTTATTTAATCGTTTTAT
Found at i:812139 original size:22 final size:22
Alignment explanation
Indices: 812111--812153 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
812101 TCGTTTTATT
*
812111 TTTTATTTATTTT-GTTTATTTG
1 TTTTA-TTATTTTCATTTATTTG
812133 TTTTATTATTTTCATTTATTT
1 TTTTATTATTTTCATTTATTT
812154 ATACCTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTATTATTTTCATTTATTTG
Found at i:812292 original size:20 final size:21
Alignment explanation
Indices: 812253--812293 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
812243 TGATCGATAT
812253 TTATTTTTAAATAAAAATAAAC
1 TTATTTTT-AATAAAAATAAAC
*
812275 TTATTTTT-ATAAACATAAA
1 TTATTTTTAATAAAAATAAA
812294 AAAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATTTTTAATAAAAATAAAC
Found at i:812382 original size:342 final size:342
Alignment explanation
Indices: 811730--812393 Score: 1111
Period size: 342 Copynumber: 1.9 Consensus size: 342
811720 TTAACTTTTT
*
811730 ATTTTATTAATTTTTATTATTTCATTTAATCGTTTTGTTTTTTATTTATTCAGTTTATCTGTTTT
1 ATTTTATTAATTTTTATTATTTCATTTAATCGTTTTATTTTTTATTTATTCAGTTTATCTGTTTT
*
811795 ATTATTTTCATTTATTTATACCTTTCTATTATTAGAATTTTAATATTAGAGATTTTTAAAAAATC
66 ATTATTTTCATTTATTTATACCTTTCTATTATTAGAATTTAAATATTAGAGATTTTTAAAAAATC
*
811860 ACTAATTAATAAAATTTTAAAAATTATAAATTTAATATTAATGATTAATATTTATTTTTAAATAA
131 ACTAATTAATAAAATTTTAAAAATTATAAATTTAATATTAATGATCAATATTTATTTTTAAATAA
* * *
811925 AATTTAACTCATTTTTATAAACATAAAAGAAAAATATAATTATGAAGGCAGAATCTTTAGAACAA
196 AAATAAACTCATTTTTATAAACATAAAAGAAAAATATAATTATGAAGGCAGAATCTTTAAAACAA
*
811990 ATGATTTTTTTATATTTTTTAAAGTGAATATTTTTTAAAAAATTTTAGCTTAAATGATTTTTTGG
261 ATGATTTTTTTATATTTTTTAAAGTGAATATTTTTTAAAAAATGTTAGCTTAAATGATTTTTTGG
812055 ATATATTTTTTTAAAAA
326 ATATATTTTTTTAAAAA
* ** *
812072 ATTTTATTAATTTTTATTATTTTATTTAATCGTTTTATTTTTTATTTATTTTGTTTATTTGTTTT
1 ATTTTATTAATTTTTATTATTTCATTTAATCGTTTTATTTTTTATTTATTCAGTTTATCTGTTTT
812137 ATTATTTTCATTTATTTATACCTTTCTATTATTAGAATTTAAATATTA-AGGATTTTTAAAAAAT
66 ATTATTTTCATTTATTTATACCTTTCTATTATTAGAATTTAAATATTAGA-GATTTTTAAAAAAT
*
812201 CACTAATTAATAAAATTTTAAAAATTATAAATTTAATATTAATGATCGATATTTATTTTTAAATA
130 CACTAATTAATAAAATTTTAAAAATTATAAATTTAATATTAATGATCAATATTTATTTTTAAATA
* *
812266 AAAATAAACTTATTTTTATAAACAT-AAA-AAAAATATAATTATGAAGGTAGAATCTTTAAAACA
195 AAAATAAACTCATTTTTATAAACATAAAAGAAAAATATAATTATGAAGGCAGAATCTTTAAAACA
* * *
812329 AATGATTTTTTTATATATTTTTTAAGATGAATAATTTTTT-TAAAATGTTAGCTTGAATGATTTT
260 AATGATTTTTTTATAT-TTTTTAAAG-TGAAT-ATTTTTTAAAAAATGTTAGCTTAAATGATTTT
812393 T
322 T
812394 ATATATATAT
Statistics
Matches: 301, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
340 49 0.16
341 12 0.04
342 233 0.77
343 7 0.02
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (342 bp):
ATTTTATTAATTTTTATTATTTCATTTAATCGTTTTATTTTTTATTTATTCAGTTTATCTGTTTT
ATTATTTTCATTTATTTATACCTTTCTATTATTAGAATTTAAATATTAGAGATTTTTAAAAAATC
ACTAATTAATAAAATTTTAAAAATTATAAATTTAATATTAATGATCAATATTTATTTTTAAATAA
AAATAAACTCATTTTTATAAACATAAAAGAAAAATATAATTATGAAGGCAGAATCTTTAAAACAA
ATGATTTTTTTATATTTTTTAAAGTGAATATTTTTTAAAAAATGTTAGCTTAAATGATTTTTTGG
ATATATTTTTTTAAAAA
Found at i:812928 original size:9 final size:9
Alignment explanation
Indices: 812914--812939 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
812904 TCGAGAAGAA
812914 CATCATCGT
1 CATCATCGT
812923 CATCATCGT
1 CATCATCGT
812932 CATCATCG
1 CATCATCG
812940 AGGCAGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.12, T:0.31
Consensus pattern (9 bp):
CATCATCGT
Found at i:815907 original size:3 final size:3
Alignment explanation
Indices: 815899--815960 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
815889 ATCCTGCTCC
** * * * *
815899 TCA TCA TCA TTG TCG TCA TCA CCA TCA TCA TCA TCG TCG TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
815947 TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TC
815961 TTCGTCCTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:815931 original size:24 final size:24
Alignment explanation
Indices: 815899--815957 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
815889 ATCCTGCTCC
*
815899 TCATCATCATTGTCGTCATCACCA
1 TCATCATCATCGTCGTCATCACCA
*
815923 TCATCATCATCGTCGTCATCATCA
1 TCATCATCATCGTCGTCATCACCA
815947 TCATCATCATC
1 TCATCATCATC
815958 ATCTTCGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.34, G:0.07, T:0.34
Consensus pattern (24 bp):
TCATCATCATCGTCGTCATCACCA
Found at i:815954 original size:21 final size:21
Alignment explanation
Indices: 815899--815960 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
815889 ATCCTGCTCC
**
815899 TCATCATCATTGTCGTCATCA
1 TCATCATCATCATCGTCATCA
* *
815920 CCATCATCATCATCGTCGTCA
1 TCATCATCATCATCGTCATCA
*
815941 TCATCATCATCATCATCATC
1 TCATCATCATCATCGTCATC
815961 TTCGTCCTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (21 bp):
TCATCATCATCATCGTCATCA
Found at i:815979 original size:27 final size:27
Alignment explanation
Indices: 815899--815966 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
815889 ATCCTGCTCC
* *
815899 TCATCATCATT-GTCGTCATCACCATCA
1 TCATCATC-TTCGTCATCATCATCATCA
*
815926 TCATCATCGTCGTCATCATCATCATCA
1 TCATCATCTTCGTCATCATCATCATCA
815953 TCATCATCTTCGTC
1 TCATCATCTTCGTC
815967 CTCTGGGTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (27 bp):
TCATCATCTTCGTCATCATCATCATCA
Found at i:817882 original size:19 final size:17
Alignment explanation
Indices: 817860--817903 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
817850 TAAAGGAAAT
817860 AAATAAAATTAAGAATGAA
1 AAATAAAATTAA-AA-GAA
817879 AAATAAAA-TAAAAGAA
1 AAATAAAATTAAAAGAA
817895 AAA-AAAATT
1 AAATAAAATT
817904 GATATGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
17 2 0.08
18 3 0.12
19 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATAAAATTAAAAGAA
Found at i:818351 original size:20 final size:20
Alignment explanation
Indices: 818326--818372 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
818316 TTAAATTAAA
*
818326 TAATATTTTTATTAATCATT
1 TAATATTTTTAATAATCATT
* * *
818346 TAATATATTTAATATTTATT
1 TAATATTTTTAATAATCATT
818366 TAATATT
1 TAATATT
818373 AAAAATTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATATTTTTAATAATCATT
Found at i:819747 original size:15 final size:15
Alignment explanation
Indices: 819724--819753 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
819714 ATTATATTTT
*
819724 AAATTTATTTTTAAA
1 AAATATATTTTTAAA
819739 AAATATATTTTTAAA
1 AAATATATTTTTAAA
819754 TTTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAATATATTTTTAAA
Found at i:819926 original size:35 final size:35
Alignment explanation
Indices: 819751--819926 Score: 112
Period size: 36 Copynumber: 4.9 Consensus size: 35
819741 ATATATTTTT
* * * *
819751 AAATTTTAATAATTTAATATTTTTTATTTAAT-TTTA
1 AAATTTAAATAATTAAATA-TATTT-TTTAATATATA
*
819787 AAATTTAAATAATTAAATATATTTTTTAATAT-TT
1 AAATTTAAATAATTAAATATATTTTTTAATATATA
* *
819821 ATA-TTATAAT-ATTACATATATATTTTTTTAT-TATAA
1 AAATTTA-AATAATTA-A-ATATATTTTTTAATATAT-A
* * ***
819857 AAATTATCTAAT-ATATAAAAATATCAAATTAATATATA
1 AAATT-T-AAATAAT-TAAATATAT-TTTTTAATATATA
819895 AAATTTAAATAATTAAATATATTTTTTAATAT
1 AAATTTAAATAATTAAATATATTTTTTAATAT
819927 TTACATTATA
Statistics
Matches: 108, Mismatches: 19, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
33 7 0.06
34 14 0.13
35 26 0.24
36 30 0.28
37 9 0.08
38 17 0.16
39 5 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (35 bp):
AAATTTAAATAATTAAATATATTTTTTAATATATA
Found at i:821259 original size:50 final size:50
Alignment explanation
Indices: 821200--821333 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
821190 GGAAAGTATT
* *
821200 TTTGACAATAAAAAGATGTGGTCATAATTGTTGACGATTCTTCATCAACC
1 TTTGACAATAAAAAGAGGTGGTCATAATTGTTGACGATCCTTCATCAACC
* * * * * *
821250 TTTGACAATAGAAGGAGGTGATCATACTTGTTGACGATCCTTTATCAATC
1 TTTGACAATAAAAAGAGGTGGTCATAATTGTTGACGATCCTTCATCAACC
* *
821300 TTTGATAATAGAAAA-AGGTAGTCATAATTGTTGA
1 TTTGACAATA-AAAAGAGGTGGTCATAATTGTTGA
821334 TTCTAAGTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
50 67 0.97
51 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (50 bp):
TTTGACAATAAAAAGAGGTGGTCATAATTGTTGACGATCCTTCATCAACC
Found at i:822017 original size:2 final size:2
Alignment explanation
Indices: 822010--822054 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
822000 AAATACCTTG
822010 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
822052 AT A
1 AT A
822055 ATTCCCAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:822901 original size:2 final size:2
Alignment explanation
Indices: 822894--822922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
822884 TCATGAAAAT
822894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
822923 TGAGGATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:823837 original size:25 final size:25
Alignment explanation
Indices: 823787--823837 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
823777 TAAATTAAAT
**
823787 ATAAATAAAAATATTATTTTATTTA
1 ATAAATAAAAATATTAAATTATTTA
*
823812 ATAAATAATAAT-TTAAATTATCTTA
1 ATAAATAAAAATATTAAATTAT-TTA
823837 A
1 A
823838 CTCGATCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATAAATAAAAATATTAAATTATTTA
Found at i:831964 original size:6 final size:6
Alignment explanation
Indices: 831940--831977 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
831930 AAAATTTTAA
831940 TATATT TA-A-T TAT-TT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATAT
831978 AAATAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 3 0.10
5 5 0.17
6 21 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:833324 original size:22 final size:22
Alignment explanation
Indices: 833280--833324 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
833270 TAATAAGTTT
**
833280 TTAAAAAATAAAAAAATTTAAA
1 TTAAAAAATAAAAAAATAAAAA
833302 TTAAAAAA-ACAAAAAATAAAAA
1 TTAAAAAATA-AAAAAATAAAAA
833324 T
1 T
833325 CACGAGTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
TTAAAAAATAAAAAAATAAAAA
Found at i:833986 original size:70 final size:70
Alignment explanation
Indices: 833901--834079 Score: 189
Period size: 72 Copynumber: 2.5 Consensus size: 70
833891 TAAAGCTATT
* ** * * *
833901 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTATTTAATTATGTGAGTTTAAATTTTT-AG
1 ATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTAGGT-ATGATATAAGTTTAAATTTTTGAG
*
833965 GGTATA
65 GATATA
* * *
833971 ATTTATTTTGATTTGTAAAAATTTAAATGTGTTTTTTTAGGTATGATATAAGTTTAAATTTTTGA
1 ATTTATTTTTATTTGTAGAAATTTAAAT-T-TATTTTTAGGTATGATATAAGTTTAAATTTTTGA
* *
834036 TGATGTA
64 GGATATA
**
834043 ATTTATTTTTATTTAAAGAAATTTAAGATTTATTTTT
1 ATTTATTTTTATTTGTAGAAATTTAA-ATTTATTTTT
834080 TTATCTGATT
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
70 25 0.28
71 25 0.28
72 36 0.41
73 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (70 bp):
ATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTAGGTATGATATAAGTTTAAATTTTTGAGG
ATATA
Found at i:834735 original size:26 final size:29
Alignment explanation
Indices: 834706--834767 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 29
834696 TATTATAATT
*
834706 TTATTAATTATATATTTAA-ATT-AT-TA
1 TTATTAATTATAAATTTAAGATTAATATA
*
834732 TTATTATTTATAAATTTAAGATTAATATA
1 TTATTAATTATAAATTTAAGATTAATATA
834761 TTATTAA
1 TTATTAA
834768 CTTTTTAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 17 0.57
27 3 0.10
28 2 0.07
29 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TTATTAATTATAAATTTAAGATTAATATA
Found at i:839113 original size:24 final size:25
Alignment explanation
Indices: 839072--839125 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
839062 ATAAAAAACC
839072 TTAAA-TTTTATAACTTTATT-TAA
1 TTAAATTTTTATAACTTTATTATAA
** *
839095 TTAAATTTTTATATTTTTATTATAT
1 TTAAATTTTTATAACTTTATTATAA
839120 TTAAAT
1 TTAAAT
839126 CAATCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.19
24 13 0.50
25 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAAATTTTTATAACTTTATTATAA
Found at i:839153 original size:31 final size:31
Alignment explanation
Indices: 839118--839203 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
839108 TTTTTATTAT
* *
839118 ATTTAAATCAATCT-TTAATCTTTAAATTTTC
1 ATTTAAAT-AAGCTCTTAATATTTAAATTTTC
*
839149 ATTTAAATAAGCTCTTAATATTT-AATTTTT
1 ATTTAAATAAGCTCTTAATATTTAAATTTTC
* * *
839179 ACTCAAATAAACTCTTAATATTTAA
1 ATTTAAATAAGCTCTTAATATTTAA
839204 TTTATTCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 30 0.64
31 17 0.36
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.48
Consensus pattern (31 bp):
ATTTAAATAAGCTCTTAATATTTAAATTTTC
Found at i:839227 original size:30 final size:30
Alignment explanation
Indices: 839163--839227 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
839153 AAATAAGCTC
* *
839163 TTAATATTTAATTTTTACTCAAATAAACTC
1 TTAATATTTAATTTTTACTCAAACAAACTA
*
839193 TTAATATTTAATTTATT-CT-AATACAAATTA
1 TTAATATTTAATTT-TTACTCAA-ACAAACTA
839223 TTAAT
1 TTAAT
839228 TTATTAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.07
30 26 0.87
31 2 0.07
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (30 bp):
TTAATATTTAATTTTTACTCAAACAAACTA
Found at i:839509 original size:16 final size:16
Alignment explanation
Indices: 839490--839534 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
839480 AAATGACTTA
* *
839490 AATTTAAAATTATCTG
1 AATTTAAAATAATCCG
*
839506 AATTCAAAATAATCCG
1 AATTTAAAATAATCCG
*
839522 AACTTAAAATAAT
1 AATTTAAAATAAT
839535 TAAACTCAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (16 bp):
AATTTAAAATAATCCG
Found at i:840568 original size:23 final size:22
Alignment explanation
Indices: 840510--840568 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
840500 ATTTAAATTT
* * *
840510 AAAGCCCATTTAAATCTAACTA
1 AAAGTCCAATTAAACCTAACTA
*
840532 AAAGT-CTATCTAAACCTAAACTA
1 AAAGTCCAAT-TAAACCT-AACTA
840555 AAAGTCCAATTAAA
1 AAAGTCCAATTAAA
840569 ACAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.07
22 10 0.34
23 14 0.48
24 3 0.10
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAGTCCAATTAAACCTAACTA
Found at i:841857 original size:30 final size:28
Alignment explanation
Indices: 841809--841906 Score: 88
Period size: 30 Copynumber: 3.4 Consensus size: 28
841799 AATTAATTTA
*
841809 TATTAATATAAATAATAAAATTTATATATT
1 TATTAA-ATTAATAATAAAATTTAT-TATT
* * * *
841839 TATTAGATTATTATATAAAAATTATGTGTT
1 TATTAAATTAATA-ATAAAATTTAT-TATT
* * *
841869 TATTATATAAATAATAAAATTTATTATA
1 TATTAAATTAATAATAAAATTTATTATT
841897 TATTAAATTA
1 TATTAAATTA
841907 GTAAAATTAC
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
28 10 0.19
29 15 0.28
30 28 0.53
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TATTAAATTAATAATAAAATTTATTATT
Found at i:843064 original size:29 final size:29
Alignment explanation
Indices: 843027--843083 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
843017 GTTTAAATAA
843027 AAATAATTTATCAAAATATTATTATTTTT
1 AAATAATTTATCAAAATATTATTATTTTT
* * *
843056 AAATTATTTATCGAATTATTATTATTTT
1 AAATAATTTATCAAAATATTATTATTTT
843084 GATTGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATAATTTATCAAAATATTATTATTTTT
Found at i:843549 original size:36 final size:36
Alignment explanation
Indices: 843509--843623 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
843499 TCACGTTACT
843509 ACTATCAACAACTAATCTGAGATAATCTGCACAATA
1 ACTATCAACAACTAATCTGAGATAATCTGCACAATA
* * * * * *
843545 ACTATAATCAACAAATATTTTG-CAT-AT-TTCACATTA
1 AC--T-ATCAACAACTAATCTGAGATAATCTGCACAATA
*
843581 CTACTATCAACAACTAATCTGAGATAATCTGCACCATA
1 --ACTATCAACAACTAATCTGAGATAATCTGCACAATA
843619 ACTAT
1 ACTAT
843624 AATCAATAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
35 13 0.22
36 17 0.29
37 4 0.07
38 11 0.19
39 13 0.22
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (36 bp):
ACTATCAACAACTAATCTGAGATAATCTGCACAATA
Found at i:843688 original size:75 final size:75
Alignment explanation
Indices: 843475--843707 Score: 380
Period size: 75 Copynumber: 3.1 Consensus size: 75
843465 CGATGAATAC
* *
843475 AATCAACAACTATTTCTGCATATTTCACGTTACTACTATCAACAACTAATCTGAGATAATCTGCA
1 AATCAACAAATATTTCTGCATATTTCACATTACTACTATCAACAACTAATCTGAGATAATCTGCA
843540 CAATAACTAT
66 CAATAACTAT
843550 AATCAACAAATATTT-TGCATATTTCACATTACTACTATCAACAACTAATCTGAGATAATCTGCA
1 AATCAACAAATATTTCTGCATATTTCACATTACTACTATCAACAACTAATCTGAGATAATCTGCA
*
843614 CCATAACTAT
66 CAATAACTAT
* * *
843624 AATCAATAAATATTTCTGCATATTGT-ATATTACTACTATCAACAACTAATCCGAGATAATCTGC
1 AATCAACAAATATTTCTGCATATT-TCACATTACTACTATCAACAACTAATCTGAGATAATCTGC
*
843688 ACGATAACTAT
65 ACAATAACTAT
843699 AATCAACAA
1 AATCAACAA
843708 CTTTGTGCGT
Statistics
Matches: 148, Mismatches: 8, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
74 71 0.48
75 76 0.51
76 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (75 bp):
AATCAACAAATATTTCTGCATATTTCACATTACTACTATCAACAACTAATCTGAGATAATCTGCA
CAATAACTAT
Found at i:843778 original size:13 final size:13
Alignment explanation
Indices: 843760--843786 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
843750 ACGTATTCAT
843760 TCGACTAATAAAA
1 TCGACTAATAAAA
843773 TCGACTAATAAAA
1 TCGACTAATAAAA
843786 T
1 T
843787 TGTTGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (13 bp):
TCGACTAATAAAA
Found at i:844160 original size:15 final size:15
Alignment explanation
Indices: 844140--844178 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
844130 GGTAAACAAA
844140 TGGTGGATGCACGGG
1 TGGTGGATGCACGGG
*
844155 TTGTGGATGCACGGG
1 TGGTGGATGCACGGG
844170 TGGTGGATG
1 TGGTGGATG
844179 GACAAGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.10, G:0.51, T:0.26
Consensus pattern (15 bp):
TGGTGGATGCACGGG
Found at i:846140 original size:49 final size:49
Alignment explanation
Indices: 846081--846187 Score: 121
Period size: 49 Copynumber: 2.1 Consensus size: 49
846071 TAATAATTTA
* *
846081 AAAAATATTTT-TA-TTTAAATTTAATTATAAAATATATAATTATTAAT-AT
1 AAAAATATTTTAAATTTTAAA-TTAATTAT-AAATA-ATAAATATTAATAAT
*
846130 AAAAATATTTTAAAATTTTTAATTAATTATAAATAATAAATATTAATAAT
1 AAAAATATTTT-AAATTTTAAATTAATTATAAATAATAAATATTAATAAT
846180 ATAAAATA
1 A-AAAATA
846188 ACTCAAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
49 22 0.44
50 8 0.16
51 15 0.30
52 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (49 bp):
AAAAATATTTTAAATTTTAAATTAATTATAAATAATAAATATTAATAAT
Found at i:846153 original size:32 final size:35
Alignment explanation
Indices: 846108--846173 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 35
846098 AATTTAATTA
*
846108 TAAAATATATAATT-ATTA-ATATAA-AAATATTT
1 TAAAATATATAATTAATTATAAATAATAAATATTT
* *
846140 TAAAATTTTTAATTAATTATAAATAATAAATATT
1 TAAAATATATAATTAATTATAAATAATAAATATT
846174 AATAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
33 4 0.14
34 5 0.18
35 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
TAAAATATATAATTAATTATAAATAATAAATATTT
Found at i:847635 original size:25 final size:25
Alignment explanation
Indices: 847606--847657 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
847596 ATGTTAAAAA
847606 GTAAGAAAGAAAGCTTGTGTGTTAG
1 GTAAGAAAGAAAGCTTGTGTGTTAG
847631 GTAAGAAAGAAAGCTTGTGTGTTAG
1 GTAAGAAAGAAAGCTTGTGTGTTAG
847656 GT
1 GT
847658 TCTTGATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.29
Consensus pattern (25 bp):
GTAAGAAAGAAAGCTTGTGTGTTAG
Found at i:853572 original size:16 final size:16
Alignment explanation
Indices: 853551--853581 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
853541 ATGTCATTTT
853551 TGTCATGATATTAGTA
1 TGTCATGATATTAGTA
853567 TGTCATGATATTAGT
1 TGTCATGATATTAGT
853582 CTTTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.45
Consensus pattern (16 bp):
TGTCATGATATTAGTA
Found at i:853863 original size:21 final size:21
Alignment explanation
Indices: 853797--853864 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
853787 TTTTTGAAAA
* *
853797 TATTAAAAATTAAAAATGATC-
1 TATTAAAAAATAAAAA-AATCT
*
853818 -ATTAGAAAAACTAATAAGAAT-T
1 TATTA-AAAAA-TAA-AAAAATCT
853840 TATTAAAAAATAAAAAAATCT
1 TATTAAAAAATAAAAAAATCT
853861 TATT
1 TATT
853865 CAAATCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
20 9 0.24
21 12 0.32
22 10 0.27
23 6 0.16
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
TATTAAAAAATAAAAAAATCT
Found at i:855207 original size:18 final size:18
Alignment explanation
Indices: 855186--855221 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
855176 ATTTTTTAAT
855186 TTTAATTAATTT-ATAAAA
1 TTTAA-TAATTTAATAAAA
855204 TTTAATAATTTAATAAAA
1 TTTAATAATTTAATAAAA
855222 AAATTGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAATAATTTAATAAAA
Found at i:856101 original size:18 final size:20
Alignment explanation
Indices: 856080--856122 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
856070 TATTTAATAA
856080 AAATATTTTA-AT-TAAATT
1 AAATATTTTACATATAAATT
* *
856098 AAATTTTTTACTTATAAATT
1 AAATATTTTACATATAAATT
856118 AAATA
1 AAATA
856123 AATATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATTTTACATATAAATT
Found at i:856342 original size:28 final size:28
Alignment explanation
Indices: 856310--856364 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
856300 CGTAGACATT
856310 ATATAAAAAATAAT-TAAAATATGATATC
1 ATATAAAAAATAATAT-AAATATGATATC
*
856338 ATATAAAAAGTAATATAAATATGATAT
1 ATATAAAAAATAATATAAATATGATAT
856365 GAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
ATATAAAAAATAATATAAATATGATATC
Found at i:856384 original size:28 final size:28
Alignment explanation
Indices: 856310--856371 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
856300 CGTAGACATT
* *
856310 ATATAAAAAATAAT-TAAAATATGATATC
1 ATATAAAAAGTAATAT-AAATATGATATA
856338 ATATAAAAAGTAATATAAATATGATATGA
1 ATATAAAAAGTAATATAAATATGATAT-A
856367 ATATA
1 ATATA
856372 TAAGTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (28 bp):
ATATAAAAAGTAATATAAATATGATATA
Found at i:856722 original size:2 final size:2
Alignment explanation
Indices: 856711--856743 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
856701 ACACACACAC
*
856711 AT AT AA AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
856744 GGAGTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:859304 original size:16 final size:16
Alignment explanation
Indices: 859283--859316 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
859273 CACCTCTATT
*
859283 TCAATTTTTTTTAAAA
1 TCAATTTTGTTTAAAA
*
859299 TCAATTTTGTTTATAA
1 TCAATTTTGTTTAAAA
859315 TC
1 TC
859317 TTTCAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (16 bp):
TCAATTTTGTTTAAAA
Found at i:867357 original size:19 final size:19
Alignment explanation
Indices: 867314--867358 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
867304 TTTATTTTAT
**
867314 TTTATTTAAAAATGATCTA
1 TTTATTTAAAAATGATAAA
867333 TTTATTTAAAAAT-ATAAA
1 TTTATTTAAAAATGATAAA
867351 TTATATTT
1 TT-TATTT
867359 TAATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTATTTAAAAATGATAAA
Found at i:867774 original size:12 final size:12
Alignment explanation
Indices: 867759--867783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
867749 TATTGTTGTT
867759 ATTATTATTATA
1 ATTATTATTATA
867771 ATTATTATTATA
1 ATTATTATTATA
867783 A
1 A
867784 AAAAATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:867900 original size:19 final size:19
Alignment explanation
Indices: 867873--867916 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
867863 AAGCATGATA
867873 TTAATATTATTTATATTTAT
1 TTAA-ATTATTTATATTTAT
*
867893 TTAAATTATTTATATTTGT
1 TTAAATTATTTATATTTAT
867912 TTAAA
1 TTAAA
867917 CTCAATTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTAAATTATTTATATTTAT
Found at i:868044 original size:24 final size:24
Alignment explanation
Indices: 868017--868065 Score: 64
Period size: 27 Copynumber: 2.0 Consensus size: 24
868007 ATTTATTTTT
868017 TAAA-TTTAATTTTTAATAATATAG
1 TAAATTTTAATTTTTAA-AATATAG
868041 TAAATTTTTTAATTTTTAAAATATA
1 TAAA--TTTTAATTTTTAAAATATA
868066 AAAACTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.18
26 6 0.27
27 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATTTTAATTTTTAAAATATAG
Found at i:868245 original size:17 final size:17
Alignment explanation
Indices: 868223--868278 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
868213 ACATATTTAA
868223 TTATTTTTAAATAAATT
1 TTATTTTTAAATAAATT
868240 TTATTTTT-AA-AAA-T
1 TTATTTTTAAATAAATT
*
868254 TTATTTTTAAACTTAATT
1 TTATTTTTAAA-TAAATT
868272 TT-TTTTT
1 TTATTTTT
868279 CAACAAACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 9 0.26
15 5 0.15
16 2 0.06
17 15 0.44
18 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTTTAAATAAATT
Found at i:868258 original size:14 final size:15
Alignment explanation
Indices: 868223--868264 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
868213 ACATATTTAA
868223 TTATTTTTAAATAAATT
1 TTATTTTT-AA-AAATT
868240 TTATTTTTAAAAA-T
1 TTATTTTTAAAAATT
868254 TTATTTTTAAA
1 TTATTTTTAAA
868265 CTTAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.48
15 3 0.12
16 2 0.08
17 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTTTTAAAAATT
Done.