Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 97 of 131
Found at i:17387536 original size:16 final size:16
Alignment explanation
Indices: 17387501--17387542 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
17387491 TTACCTTTTA
*
17387501 AAAAAAATG-AACAAG
1 AAAAAAATGAAAAAAG
17387516 AAAAAAATGAAAAAAG
1 AAAAAAATGAAAAAAG
* *
17387532 GAAAAGATGAA
1 AAAAAAATGAA
17387543 TGTGTTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (16 bp):
AAAAAAATGAAAAAAG
Found at i:17387761 original size:25 final size:23
Alignment explanation
Indices: 17387729--17387775 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
17387719 GGCCCAAAAA
17387729 TTTTTTTT-ATTAGTTATTCTAAAT
1 TTTTTTTTAATTA-TTATT-TAAAT
17387753 TTTTATTTTAATTATTATTTAAA
1 TTTT-TTTTAATTATTATTTAAA
17387776 GAAATAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTTTTTAATTATTATTTAAAT
Found at i:17387767 original size:22 final size:23
Alignment explanation
Indices: 17387726--17387768 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17387716 GTTGGCCCAA
* *
17387726 AAATTTTTTTTATTAGTTATTCT
1 AAATTTTTATTATTAATTATTCT
17387749 AAATTTTTATT-TTAATTATT
1 AAATTTTTATTATTAATTATT
17387769 ATTTAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
AAATTTTTATTATTAATTATTCT
Found at i:17387806 original size:25 final size:27
Alignment explanation
Indices: 17387773--17387828 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
17387763 ATTATTATTT
* *
17387773 AAAGAAATAATGATTAAAA-TTAAAAA
1 AAAGAAATAATAAATAAAATTTAAAAA
17387799 AAAG-AATAATAAATAAAATTTTAAAAA
1 AAAGAAATAATAAATAAAA-TTTAAAAA
17387826 AAA
1 AAA
17387829 AGGTTTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 4 0.15
27 10 0.38
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (27 bp):
AAAGAAATAATAAATAAAATTTAAAAA
Found at i:17388879 original size:8 final size:8
Alignment explanation
Indices: 17388868--17388914 Score: 67
Period size: 8 Copynumber: 5.6 Consensus size: 8
17388858 AAAAAAAACA
17388868 AAAAATAT
1 AAAAATAT
17388876 AAAAATAT
1 AAAAATAT
17388884 AAAAAATAT
1 -AAAAATAT
*
17388893 AAAAAGCAT
1 AAAAA-TAT
17388902 AAAAATAT
1 AAAAATAT
17388910 AAAAA
1 AAAAA
17388915 CTTTGGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 20 0.57
9 15 0.43
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAATAT
Found at i:17388879 original size:9 final size:9
Alignment explanation
Indices: 17388867--17388914 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
17388857 AAAAAAAAAC
17388867 AAAAAATAT
1 AAAAAATAT
17388876 -AAAAATAT
1 AAAAAATAT
17388884 AAAAAATAT
1 AAAAAATAT
**
17388893 AAAAAGCAT
1 AAAAAATAT
17388902 -AAAAATAT
1 AAAAAATAT
17388910 AAAAA
1 AAAAA
17388915 CTTTGGAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 14 0.42
9 19 0.58
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAATAT
Found at i:17388879 original size:17 final size:17
Alignment explanation
Indices: 17388859--17388914 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
17388849 TTCAAAACAA
17388859 AAAAAAACAAAAAATAT
1 AAAAAAACAAAAAATAT
* *
17388876 AAAAATATAAAAAATAT
1 AAAAAAACAAAAAATAT
*
17388893 -AAAAAGCATAAAAATAT
1 AAAAAAACA-AAAAATAT
17388910 AAAAA
1 AAAAA
17388915 CTTTGGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 5 0.16
17 23 0.72
18 4 0.12
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAAAACAAAAAATAT
Found at i:17393346 original size:23 final size:24
Alignment explanation
Indices: 17393311--17393356 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17393301 GACTTTTCAA
*
17393311 TTTTTTTATTATTATTTTATTCTC
1 TTTTTTTAGTATTATTTTATTCTC
*
17393335 TTTTTTT-GTATTTTTTTATTCT
1 TTTTTTTAGTATTATTTTATTCT
17393357 AATTTATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTAGTATTATTTTATTCTC
Found at i:17395274 original size:18 final size:17
Alignment explanation
Indices: 17395240--17395273 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17395230 AAATGGTAAT
17395240 TAAATAAAATAGTAAAA
1 TAAATAAAATAGTAAAA
17395257 TAAATTAAAATA-TAAAA
1 TAAA-TAAAATAGTAAAA
17395274 ACTCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
TAAATAAAATAGTAAAA
Found at i:17398437 original size:55 final size:53
Alignment explanation
Indices: 17398339--17398715 Score: 242
Period size: 54 Copynumber: 6.8 Consensus size: 53
17398329 ATCATTTAAA
* * * *
17398339 AAGGAAA-TTTGATATTTCAAGTTTTACTCAAATCTTTGAAATTATTTTTGTTT
1 AAGGAAATTTTAATATTTCAA-TTTTCCTCCAATTTTTGAAATTATTTTTGTTT
*
17398392 AAGGAAATTTTAATATTTCAACATTTTCCTCCAATTTTTGAAATTATTTTCGTTT
1 AAGGAAATTTTAATATTTC-A-ATTTTCCTCCAATTTTTGAAATTATTTTTGTTT
** * * *
17398447 AAAAAAATTTTCATATTTCAATTTTTCCTCCAATTTTTTG-ATTTTTTTTTGTTT
1 AAGGAAATTTTAATATTTCAA-TTTTCCTCCAA-TTTTTGAAATTATTTTTGTTT
* * * *
17398501 AAGGAAATTTTGATATTTCAAGTTTTTCTTCAATTTTTTTAAATTAATTTTAT-TTT
1 AAGGAAATTTTAATATTTCAA-TTTTCCTCCAA-TTTTTGAAATT-ATTTT-TGTTT
* ** * **
17398557 AAGAAAAAATTAATATTTTAACTTTTACCT-C-ATTTCTCAAAATTATTTTTTTTGTTT
1 AAGGAAATTTTAATATTTCAA-TTTT-CCTCCAATTT-TTGAAATTA---TTTTTGTTT
* * * * * * * *
17398614 AAGAAAAATTTGATATTTCAACTTTTTCTTCATTTTTTTTGAAATCATTTTTATTTT
1 AAGGAAATTTTAATATTTCAA-TTTTCCTCCA--ATTTTTGAAATTATTTTT-GTTT
* ** *
17398671 AAGGAAATTTTAATATTTTAAGTTTTTCCTTAAATTTTTAAAATT
1 AAGGAAATTTTAATATTTCAA--TTTTCCTCCAATTTTTGAAATT
17398716 TTAAAAAAAC
Statistics
Matches: 256, Mismatches: 48, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
53 8 0.03
54 70 0.27
55 61 0.24
56 46 0.18
57 54 0.21
58 8 0.03
59 6 0.02
60 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (53 bp):
AAGGAAATTTTAATATTTCAATTTTCCTCCAATTTTTGAAATTATTTTTGTTT
Found at i:17398501 original size:54 final size:56
Alignment explanation
Indices: 17398339--17398709 Score: 287
Period size: 55 Copynumber: 6.7 Consensus size: 56
17398329 ATCATTTAAA
* * * * *
17398339 AAGGAAA-TTTGATATTTCAA-GTTTTACT-CAAATCTTTGAAATTATTTTTGTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATTATTTTTGTTT
* *
17398392 AAGGAAATTTTAATATTTCAACATTTTCCTCCAA-TTTTTGAAATTATTTTCGTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATTATTTTTGTTT
** * * *
17398447 AAAAAAATTTTCATATTTCAA-TTTTTCCTCCAATTTTTTG-ATTTTTTTTTGTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATTATTTTTGTTT
* * * *
17398501 AAGGAAATTTTGATATTTCAAGTTTTT-CTTCAATTTTTTTAAATTAATTTTAT-TTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATT-ATTTT-TGTTT
* ** * * * **
17398557 AAGAAAAAATTAATATTTTAACTTTTACCT-C-ATTTCTCAAAATTATTTTTTTTGTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATTA---TTTTTGTTT
* * * * * * *
17398614 AAGAAAAATTTGATATTTCAACTTTTT-CTTCATTTTTTTTGAAATCATTTTTATTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCA-ATTTTTTGAAATTATTTTT-GTTT
* * **
17398671 AAGGAAATTTTAATATTTTAAGTTTTTCCTTAAATTTTT
1 AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTT
17398710 AAAATTTTAA
Statistics
Matches: 254, Mismatches: 46, Indels: 32
0.77 0.14 0.10
Matches are distributed among these distances:
53 7 0.03
54 64 0.25
55 67 0.26
56 39 0.15
57 64 0.25
58 4 0.02
59 9 0.04
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (56 bp):
AAGGAAATTTTAATATTTCAACTTTTTCCTCCAATTTTTTGAAATTATTTTTGTTT
Found at i:17398626 original size:113 final size:114
Alignment explanation
Indices: 17398489--17398696 Score: 319
Period size: 113 Copynumber: 1.8 Consensus size: 114
17398479 ATTTTTTGAT
* * * *
17398489 TTTTTTTTGTTTAAGGAAATTTTGATATTTCAAGTTTTTCTTCAATTTTTTT-AAATTAATTTTA
1 TTTTTTTTGTTTAAGAAAAATTTGATATTTCAACTTTTTCTTCAATTTTTTTGAAATCAATTTTA
17398553 TTTTAAGAAAAAATTAATATTTTAACTTTTACCTCATTTCTCAAAATTA
66 TTTTAAGAAAAAATTAATATTTTAACTTTTACCTCATTTCTCAAAATTA
* *
17398602 TTTTTTTTGTTTAAGAAAAATTTGATATTTCAACTTTTTCTTCATTTTTTTTGAAATCATTTTTA
1 TTTTTTTTGTTTAAGAAAAATTTGATATTTCAACTTTTTCTTCAATTTTTTTGAAATCAATTTTA
* ** *
17398667 TTTTAAGGAAATTTTAATATTTTAAGTTTT
66 TTTTAAGAAAAAATTAATATTTTAACTTTT
17398697 TCCTTAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
113 48 0.57
114 36 0.43
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (114 bp):
TTTTTTTTGTTTAAGAAAAATTTGATATTTCAACTTTTTCTTCAATTTTTTTGAAATCAATTTTA
TTTTAAGAAAAAATTAATATTTTAACTTTTACCTCATTTCTCAAAATTA
Found at i:17404739 original size:55 final size:55
Alignment explanation
Indices: 17404655--17404763 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
17404645 TAATTCACAC
*
17404655 TCACCGACAAGGATAAATGAATACATATGTTAATAAATGCATGAATATATATATG
1 TCACCCACAAGGATAAATGAATACATATGTTAATAAATGCATGAATATATATATG
*
17404710 TCACCCACAAGGATAAATGAATACATATGTTAATAAATGTATGAATATATATAT
1 TCACCCACAAGGATAAATGAATACATATGTTAATAAATGCATGAATATATATAT
17404764 ATATTACCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (55 bp):
TCACCCACAAGGATAAATGAATACATATGTTAATAAATGCATGAATATATATATG
Found at i:17408287 original size:22 final size:20
Alignment explanation
Indices: 17408256--17408300 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
17408246 TTCTTCAAAT
*
17408256 AAAAATAAAAAAATTAACAAGA
1 AAAAAGAAAAAAATT--CAAGA
*
17408278 AAAAAGAAAAATATTCAAGA
1 AAAAAGAAAAAAATTCAAGA
17408298 AAA
1 AAA
17408301 GGAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAGAAAAAAATTCAAGA
Found at i:17413134 original size:4 final size:4
Alignment explanation
Indices: 17413090--17413127 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
17413080 AGATTCCTTC
*
17413090 TACA TATA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
17413128 TATATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:17414157 original size:18 final size:18
Alignment explanation
Indices: 17414136--17414170 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17414126 ATTGCACAAA
17414136 ATTTAATTATAATTTTAT
1 ATTTAATTATAATTTTAT
* *
17414154 ATTTTATTGTAATTTTA
1 ATTTAATTATAATTTTA
17414171 CCATTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
ATTTAATTATAATTTTAT
Found at i:17415571 original size:18 final size:17
Alignment explanation
Indices: 17415543--17415582 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17415533 CCCTCCTCTC
17415543 AAAATTATATATAATAT
1 AAAATTATATATAATAT
* *
17415560 ATAAATTCTATATTATAT
1 A-AAATTATATATAATAT
17415578 AAAAT
1 AAAAT
17415583 AATAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAATTATATATAATAT
Found at i:17427636 original size:16 final size:16
Alignment explanation
Indices: 17427602--17427676 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 16
17427592 AATTATTTTT
17427602 TAAT-TATTTATAT-A
1 TAATATATTTATATAA
17427616 T-ATATATTTATATAA
1 TAATATATTTATATAA
17427631 TAATAT-TTT-TA-AA
1 TAATATATTTATATAA
* * *
17427644 TATTTATATTTAAAAAA
1 TA-ATATATTTATATAA
*
17427661 TAATATTTTTAT-TAA
1 TAATATATTTATATAA
17427676 T
1 T
17427677 TTCGGGTCAG
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.12
14 15 0.31
15 11 0.23
16 12 0.25
17 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATTTATATAA
Found at i:17427654 original size:30 final size:30
Alignment explanation
Indices: 17427608--17427671 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
17427598 TTTTTAATTA
* * *
17427608 TTTATATATATATATTTATATAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
17427638 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
17427668 TTTA
1 TTTA
17427672 TTAATTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:17428581 original size:2 final size:2
Alignment explanation
Indices: 17428574--17428606 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17428564 TTGAAGTTAA
*
17428574 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17428607 AGCACAGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17432811 original size:22 final size:23
Alignment explanation
Indices: 17432786--17432855 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 23
17432776 CTAATTTAAT
17432786 TTTTCATTTCCTTTTA-TTTTTA
1 TTTTCATTTCCTTTTAGTTTTTA
*
17432808 TTTTCTTTTCCTTTTAGTTTTTA
1 TTTTCATTTCCTTTTAGTTTTTA
*
17432831 -TTT-ATTTAGCTTTTAGTTTTTA
1 TTTTCATTT-CCTTTTAGTTTTTA
17432853 TTT
1 TTT
17432856 AATTGTGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 3 0.07
22 31 0.74
23 8 0.19
ACGTcount: A:0.13, C:0.10, G:0.04, T:0.73
Consensus pattern (23 bp):
TTTTCATTTCCTTTTAGTTTTTA
Found at i:17436651 original size:22 final size:20
Alignment explanation
Indices: 17436626--17436666 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
17436616 GTAAAAATAA
*
17436626 GTAATAAGTATAATAGAAAAAG
1 GTAATAA-TAAAATA-AAAAAG
17436648 GTAATAATAAAATAAAAAA
1 GTAATAATAAAATAAAAAA
17436667 CATATCCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (20 bp):
GTAATAATAAAATAAAAAAG
Found at i:17436969 original size:27 final size:26
Alignment explanation
Indices: 17436922--17436974 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
17436912 AAAATTTTAG
* **
17436922 TTGAAATTTTAAAGTGTAACCCTAAA
1 TTGAAATTTTAAACTAAAACCCTAAA
17436948 TTGAAACTTTTAAACTAAAACCCTAAA
1 TTGAAA-TTTTAAACTAAAACCCTAAA
17436975 ATTAGAACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (26 bp):
TTGAAATTTTAAACTAAAACCCTAAA
Found at i:17437025 original size:25 final size:26
Alignment explanation
Indices: 17436993--17437053 Score: 99
Period size: 25 Copynumber: 2.4 Consensus size: 26
17436983 CGTAAGGTCG
17436993 AGACCCTAAATAAAACCTTAAATC-A
1 AGACCCTAAATAAAACCTTAAATCGA
*
17437018 AGACCCTAAATAAAACTTTAAATCGA
1 AGACCCTAAATAAAACCTTAAATCGA
17437044 A-ACCCTAAAT
1 AGACCCTAAAT
17437054 TGGTTTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.51, C:0.23, G:0.05, T:0.21
Consensus pattern (26 bp):
AGACCCTAAATAAAACCTTAAATCGA
Found at i:17437052 original size:13 final size:13
Alignment explanation
Indices: 17436995--17437053 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
17436985 TAAGGTCGAG
17436995 ACCCTAAAT-AAA
1 ACCCTAAATCAAA
* *
17437007 ACCTTAAATCAAG
1 ACCCTAAATCAAA
17437020 ACCCTAAAT-AAA
1 ACCCTAAATCAAA
** *
17437032 ACTTTAAATCGAA
1 ACCCTAAATCAAA
17437045 ACCCTAAAT
1 ACCCTAAAT
17437054 TGGTTTTAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
12 17 0.47
13 19 0.53
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (13 bp):
ACCCTAAATCAAA
Found at i:17442601 original size:25 final size:25
Alignment explanation
Indices: 17442565--17442615 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
17442555 CTTAAATAGG
17442565 TTTATTCCACATGA-CCTTTTTCTCA
1 TTTATTCCACATGACCCTTTTT-TCA
*
17442590 TTTATTCTACATGACCCTTTTTTCA
1 TTTATTCCACATGACCCTTTTTTCA
17442615 T
1 T
17442616 AATAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.20, C:0.25, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTATTCCACATGACCCTTTTTTCA
Found at i:17444710 original size:28 final size:28
Alignment explanation
Indices: 17444657--17444719 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
17444647 CACATAATGA
* *
17444657 AAATTTAAGCCTATATTATCTAGCACCT
1 AAATTTAAGCCAATATTAACTAGCACCT
* *
17444685 AAATTTAAGCACAAT-TTAACTGGCACGT
1 AAATTTAAGC-CAATATTAACTAGCACCT
*
17444713 AAGTTTA
1 AAATTTA
17444720 GATTAGCTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 26 0.90
29 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (28 bp):
AAATTTAAGCCAATATTAACTAGCACCT
Found at i:17444939 original size:35 final size:35
Alignment explanation
Indices: 17444855--17444949 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
17444845 TTTATTCGGC
* *
17444855 TTAGTTCTGGTCATATTTATTCTTCGACTCGTGAT
1 TTAGTTCTGGTCATTTTTATTTTTCGACTCGTGAT
* * *
17444890 TTAG-TCTTGATCATTTTTATTTTTTGACTTGTGAT
1 TTAGTTC-TGGTCATTTTTATTTTTCGACTCGTGAT
*
17444925 TTAGTTCTGGTCATTTTCATTTTTC
1 TTAGTTCTGGTCATTTTTATTTTTC
17444950 CATTCACAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 2 0.04
35 46 0.92
36 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.56
Consensus pattern (35 bp):
TTAGTTCTGGTCATTTTTATTTTTCGACTCGTGAT
Found at i:17445335 original size:35 final size:35
Alignment explanation
Indices: 17445295--17445401 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 35
17445285 TATATAATTG
17445295 TTTGACTCATGATTCAATCTCGATCATTTTTATTC
1 TTTGACTCATGATTCAATCTCGATCATTTTTATTC
*** *
17445330 TTTGACTTGCGATTTAATCTCCG-TCATTTTTATTC
1 TTTGACTCATGATTCAATCT-CGATCATTTTTATTC
* * *
17445365 TTCGACTCATGGTTCAATCTCGATCATATTTATTC
1 TTTGACTCATGATTCAATCTCGATCATTTTTATTC
17445400 TT
1 TT
17445402 CAACTAGCAG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.03
35 55 0.93
36 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTGACTCATGATTCAATCTCGATCATTTTTATTC
Found at i:17445382 original size:70 final size:70
Alignment explanation
Indices: 17445297--17445478 Score: 210
Period size: 70 Copynumber: 2.6 Consensus size: 70
17445287 TATAATTGTT
* * *
17445297 TGACTCATGATTCAATCTCGATCATTTTTATTCTTTGACTTGC-GATTTAATCTCC-GTCATTTT
1 TGACTCATGGTTCAATCTCGATCATTTTTATTCTTTAACTAGCAG-TTTAATC-CCAGTCATTTT
* *
17445360 TATT-CT
64 CATTCCC
* *
17445366 TCGACTCATGGTTCAATCTCGATCATATTTATTCTTCAACTAGCAGTTTAATCCCAGTCATTTTC
1 T-GACTCATGGTTCAATCTCGATCATTTTTATTCTTTAACTAGCAGTTTAATCCCAGTCATTTTC
17445431 ATTCCC
65 ATTCCC
** *
17445437 TGACTCACAGTTCAATCT-TAGTCATTTTTATTCTTTAACTAG
1 TGACTCATGGTTCAATCTCGA-TCATTTTTATTCTTTAACTAG
17445479 TGGTTCAATC
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
69 4 0.04
70 89 0.93
71 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (70 bp):
TGACTCATGGTTCAATCTCGATCATTTTTATTCTTTAACTAGCAGTTTAATCCCAGTCATTTTCA
TTCCC
Found at i:17445402 original size:35 final size:35
Alignment explanation
Indices: 17445298--17445581 Score: 121
Period size: 35 Copynumber: 8.1 Consensus size: 35
17445288 ATAATTGTTT
* * *
17445298 GACTCATGATTCAATCTCGATCATTTTTATTCTTT
1 GACTCATGGTTCAATCTCGATCATATTTATTCTTC
* *
17445333 GACT--TGCGATTTAATCTCCG-TCATTTTTATTCTTC
1 GACTCATG-G-TTCAATCT-CGATCATATTTATTCTTC
17445368 GACTCATGGTTCAATCTCGATCATATTTATTCTTC
1 GACTCATGGTTCAATCTCGATCATATTTATTCTTC
* * * *
17445403 AACT-A-GCAGTTTAATC-CCAGTCAT-TTTCATTC-CC
1 GACTCATG--GTTCAATCTCGA-TCATATTT-ATTCTTC
** * * *
17445437 TGACTCACAGTTCAATCT-TAGTCATTTTTATTCTTT
1 -GACTCATGGTTCAATCTCGA-TCATATTTATTCTTC
* *
17445473 AACT-AGTGGTTCAATC-CTAATCATATTTATTCTTC
1 GACTCA-TGGTTCAATCTC-GATCATATTTATTCTTC
* * * *
17445508 AACTCGTAGTTCAAT-TCCAATCAT-TTTCATT-TCTC
1 GACTCATGGTTCAATCT-CGATCATATTT-ATTCT-TC
* * *
17445543 GACTTATGGTTCAATC-CCAGTTATATTTATTCTTC
1 GACTCATGGTTCAATCTCGA-TCATATTTATTCTTC
17445578 GACT
1 GACT
17445582 TGCAGTTTTA
Statistics
Matches: 192, Mismatches: 29, Indels: 56
0.69 0.10 0.20
Matches are distributed among these distances:
33 3 0.02
34 16 0.08
35 158 0.82
36 13 0.07
37 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (35 bp):
GACTCATGGTTCAATCTCGATCATATTTATTCTTC
Found at i:17445555 original size:105 final size:105
Alignment explanation
Indices: 17445352--17445577 Score: 260
Period size: 105 Copynumber: 2.2 Consensus size: 105
17445342 TTTAATCTCC
* * *
17445352 GTCATTTTTATTCTTCGACTCATGGTTCAATCTCGATCATATTTATTCTTCAACTAGCAGTTTAA
1 GTCATTTTTATTCTTCAACTCATGGTTCAATCTCAATCATATTTATTCTTCAACTAGCAGTTCAA
* **
17445417 TCCCAGTCATTTTCATTCCCTGACTCACAGTTCAATCTTA
66 TCCCAATCATTTTCATTCCCTGACTCACAGTTCAATCCCA
* * *
17445457 GTCATTTTTATTCTTTAACT-AGTGGTTCAATC-CTAATCATATTTATTCTTCAACTCGTAGTTC
1 GTCATTTTTATTCTTCAACTCA-TGGTTCAATCTC-AATCATATTTATTCTTCAACTAGCAGTTC
* * * **
17445520 AATTCCAATCATTTTCATT-TCTCGACTTATGGTTCAATCCCA
64 AATCCCAATCATTTTCATTCCCT-GACTCACAGTTCAATCCCA
* *
17445562 GTTATATTTATTCTTC
1 GTCATTTTTATTCTTC
17445578 GACTTGCAGT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
104 4 0.04
105 97 0.96
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.45
Consensus pattern (105 bp):
GTCATTTTTATTCTTCAACTCATGGTTCAATCTCAATCATATTTATTCTTCAACTAGCAGTTCAA
TCCCAATCATTTTCATTCCCTGACTCACAGTTCAATCCCA
Found at i:17445582 original size:35 final size:35
Alignment explanation
Indices: 17445352--17445582 Score: 127
Period size: 35 Copynumber: 6.6 Consensus size: 35
17445342 TTTAATCTCC
* * *
17445352 GTCATTTTTATTCTTCGACTCATGGTTCAATCTC-
1 GTCATATTTATTCTTCGACTTATGGTTCAATCCCA
* *
17445386 GATCATATTTATTCTTCAAC-TA-GCAGTTTAATCCCA
1 G-TCATATTTATTCTTCGACTTATG--GTTCAATCCCA
* * ** **
17445422 GTCAT-TTTCATTC-CCTGACTCACAGTTCAATCTTA
1 GTCATATTT-ATTCTTC-GACTTATGGTTCAATCCCA
* ** *
17445457 GTCATTTTTATTCTTTAAC-TAGTGGTTCAATCCTA
1 GTCATATTTATTCTTCGACTTA-TGGTTCAATCCCA
* * ** * *
17445492 ATCATATTTATTCTTCAACTCGTAGTTCAATTCCA
1 GTCATATTTATTCTTCGACTTATGGTTCAATCCCA
*
17445527 ATCAT-TTTCATT-TCTCGACTTATGGTTCAATCCCA
1 GTCATATTT-ATTCT-TCGACTTATGGTTCAATCCCA
*
17445562 GTTATATTTATTCTTCGACTT
1 GTCATATTTATTCTTCGACTT
17445583 GCAGTTTTAA
Statistics
Matches: 147, Mismatches: 34, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
33 1 0.01
34 11 0.07
35 126 0.86
36 9 0.06
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.45
Consensus pattern (35 bp):
GTCATATTTATTCTTCGACTTATGGTTCAATCCCA
Found at i:17446776 original size:23 final size:23
Alignment explanation
Indices: 17446746--17446793 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
17446736 CATAATTTTT
17446746 AGTACTTTAAAATCCTAAAAATG
1 AGTACTTTAAAATCCTAAAAATG
17446769 AGTACTTTAAAATCCTAAAAATG
1 AGTACTTTAAAATCCTAAAAATG
17446792 AG
1 AG
17446794 AATGGGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (23 bp):
AGTACTTTAAAATCCTAAAAATG
Found at i:17449509 original size:35 final size:35
Alignment explanation
Indices: 17449470--17449737 Score: 134
Period size: 35 Copynumber: 7.7 Consensus size: 35
17449460 CAAGCCGATA
* *
17449470 AATAAAAATGACCTAGATTGAATCATGAGTCGATG
1 AATAAAAATGACCTAGATTGAACCATGAGTCGAGG
* * * ** *
17449505 AATAAATACGA-CTAAGATTGAGCCACAAGTTG-GG
1 AATAAAAATGACCT-AGATTGAACCATGAGTCGAGG
* * * ** * *
17449539 AAATGAAAATGACCGAGTTTGAACTGTGAGTCAAAG
1 -AATAAAAATGACCTAGATTGAACCATGAGTCGAGG
* ** * * *
17449575 AATAAATAT-AATTAGGATTAAACTATAAGTC-AGG
1 AATAAAAATGACCTA-GATTGAACCATGAGTCGAGG
* * *
17449609 AAATAAAAATGA-CTAAGATTGAATCATGAGTCAAAG
1 -AATAAAAATGACCT-AGATTGAACCATGAGTCGAGG
* * *
17449645 AATAAATATGACCAAGATTGAACCACGAGTCGAGG
1 AATAAAAATGACCTAGATTGAACCATGAGTCGAGG
* ** * *
17449680 AATAAAAATGA-TTAGGATTGAACCGCGAGTCAAGA
1 AATAAAAATGACCTA-GATTGAACCATGAGTCGAGG
* *
17449715 AATAAAAATGATCGAGATTGAAC
1 AATAAAAATGACCTAGATTGAAC
17449738 TACAAGTCAA
Statistics
Matches: 169, Mismatches: 52, Indels: 24
0.69 0.21 0.10
Matches are distributed among these distances:
34 8 0.05
35 153 0.91
36 8 0.05
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (35 bp):
AATAAAAATGACCTAGATTGAACCATGAGTCGAGG
Found at i:17449548 original size:70 final size:70
Alignment explanation
Indices: 17449372--17449746 Score: 246
Period size: 70 Copynumber: 5.4 Consensus size: 70
17449362 AAAATAAAAG
* * * * * * *
17449372 ATGATTAAGATTAAACCACTAGT-TGAGAAATAAAAATAACCGAGATTGAGTCATGAGTCAAAGA
1 ATGACTAAGATTGAACCACAAGTCAG-GAAATAAAAATGACCTAGATTGAATCATGAGTCAAAGA
17449436 ATAAAT
65 ATAAAT
* * **** * * * *
17449442 ATGA-TCAGAACTGAGTTGCAAG-CCGATAAATAAAAATGACCTAGATTGAATCATGAGTCGATG
1 ATGACTAAG-ATTGAACCACAAGTCAG-GAAATAAAAATGACCTAGATTGAATCATGAGTCAAAG
17449505 AATAAAT
64 AATAAAT
* * ** * * * *
17449512 ACGACTAAGATTGAGCCACAAGTTGGGAAATGAAAATGACCGAGTTTGAA-CTGTGAGTCAAAGA
1 ATGACTAAGATTGAACCACAAGTCAGGAAATAAAAATGACCTAGATTGAATC-ATGAGTCAAAGA
17449576 ATAAAT
65 ATAAAT
* * * * * *
17449582 ATAATTAGGATTAAACTATAAGTCAGGAAATAAAAATGA-CTAAGATTGAATCATGAGTCAAAGA
1 ATGACTAAGATTGAACCACAAGTCAGGAAATAAAAATGACCT-AGATTGAATCATGAGTCAAAGA
17449646 ATAAAT
65 ATAAAT
* * * * **
17449652 ATGACCAAGATTGAACCACGAGTCGAGG-AATAAAAATGA-TTAGGATTGAACCGCGAGTC-AAG
1 ATGACTAAGATTGAACCACAAGTC-AGGAAATAAAAATGACCTA-GATTGAATCATGAGTCAAAG
*
17449714 AAATAAAA
64 -AATAAAT
* *
17449722 ATGA-TCGAGATTGAACTACAAGTCA
1 ATGACT-AAGATTGAACCACAAGTCA
17449747 AATAATAAAT
Statistics
Matches: 233, Mismatches: 61, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
69 10 0.04
70 215 0.92
71 8 0.03
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.23
Consensus pattern (70 bp):
ATGACTAAGATTGAACCACAAGTCAGGAAATAAAAATGACCTAGATTGAATCATGAGTCAAAGAA
TAAAT
Found at i:17449656 original size:105 final size:105
Alignment explanation
Indices: 17449566--17449760 Score: 234
Period size: 105 Copynumber: 1.9 Consensus size: 105
17449556 TTTGAACTGT
* * * *
17449566 GAGTCAAAGAATAAATATAATTAGGATTAAACTATAAGTCAGGAAATAAAAATGA-CTAAGATTG
1 GAGTCAAAGAATAAAAATAATTAGGATTAAACCACAAGTCAAGAAATAAAAATGATC-AAGATTG
17449630 AA-T-CATGAGTCAAAGAATAAATATGACCAAGATTGAACCAC
65 AACTACA--AGTCAAAGAATAAATATGACCAAGATTGAACCAC
* * * * * * *
17449671 GAGTCGAGGAATAAAAATGATTAGGATTGAACCGCGAGTCAAGAAATAAAAATGATCGAGATTGA
1 GAGTCAAAGAATAAAAATAATTAGGATTAAACCACAAGTCAAGAAATAAAAATGATCAAGATTGA
*
17449736 ACTACAAGTCAAATAATAAATATGA
66 ACTACAAGTCAAAGAATAAATATGA
17449761 TTATGATTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
105 71 0.95
106 2 0.03
107 2 0.03
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (105 bp):
GAGTCAAAGAATAAAAATAATTAGGATTAAACCACAAGTCAAGAAATAAAAATGATCAAGATTGA
ACTACAAGTCAAAGAATAAATATGACCAAGATTGAACCAC
Found at i:17449746 original size:35 final size:35
Alignment explanation
Indices: 17449590--17449761 Score: 120
Period size: 35 Copynumber: 4.9 Consensus size: 35
17449580 ATATAATTAG
* * *
17449590 GATTAAACTATAAGTCAGGAAATAAAAATGA-CTAA
1 GATTGAACTACAAGTCAAGAAATAAAAATGATC-AA
* *
17449625 GATTGAA-T-CATGAGTCAA-AGAATAAATATGACCAA
1 GATTGAACTACA--AGTCAAGA-AATAAAAATGATCAA
* * * * * *
17449660 GATTGAACCACGAGTCGAGGAATAAAAATGATTAG
1 GATTGAACTACAAGTCAAGAAATAAAAATGATCAA
** * *
17449695 GATTGAACCGCGAGTCAAGAAATAAAAATGATCGA
1 GATTGAACTACAAGTCAAGAAATAAAAATGATCAA
*
17449730 GATTGAACTACAAGTCAA-ATAATAAATATGAT
1 GATTGAACTACAAGTCAAGA-AATAAAAATGAT
17449762 TATGATTAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
33 1 0.01
34 3 0.03
35 101 0.94
36 1 0.01
37 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (35 bp):
GATTGAACTACAAGTCAAGAAATAAAAATGATCAA
Found at i:17449754 original size:70 final size:70
Alignment explanation
Indices: 17449610--17449780 Score: 173
Period size: 70 Copynumber: 2.4 Consensus size: 70
17449600 TAAGTCAGGA
* * ** * *
17449610 AATAAAAATGACTAAGATTGAATCATGAGTCAAAGAATAAATATGACCAAGATTGAACCACGAGT
1 AATAAAAATGATTAAGATTGAACCGCGAGTCAAAGAATAAAAATGACCAAGATTGAACCACAAGT
* *
17449675 CGAGG
66 CAAAG
* * * *
17449680 AATAAAAATGATTAGGATTGAACCGCGAGTC-AAGAAATAAAAATGATCGAGATTGAACTACAAG
1 AATAAAAATGATTAAGATTGAACCGCGAGTCAAAG-AATAAAAATGACCAAGATTGAACCACAAG
*
17449744 TCAAAT
65 TCAAAG
* * * *
17449750 AATAAATATGATTATGATTAAACTGCGAGTC
1 AATAAAAATGATTAAGATTGAACCGCGAGTC
17449781 GGGATTAAAC
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 3 0.04
70 80 0.96
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (70 bp):
AATAAAAATGATTAAGATTGAACCGCGAGTCAAAGAATAAAAATGACCAAGATTGAACCACAAGT
CAAAG
Found at i:17449826 original size:34 final size:35
Alignment explanation
Indices: 17449782--17449879 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 35
17449772 CTGCGAGTCG
*
17449782 GGATTAAACCATGAGTCAAAAAATATAA-ATGA-CA
1 GGATTGAACCATGAGTCAAAAAATA-AATATGACCA
* *
17449816 GGATTGAACCATGAGTTAAAGAATAAATATGACCA
1 GGATTGAACCATGAGTCAAAAAATAAATATGACCA
*** *
17449851 GGATTGAACTGCGAGCCAAAAAATAAATA
1 GGATTGAACCATGAGTCAAAAAATAAATA
17449880 CGACTGGGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 2 0.04
34 26 0.49
35 25 0.47
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (35 bp):
GGATTGAACCATGAGTCAAAAAATAAATATGACCA
Found at i:17449861 original size:87 final size:88
Alignment explanation
Indices: 17449706--17449865 Score: 198
Period size: 87 Copynumber: 1.8 Consensus size: 88
17449696 ATTGAACCGC
* * * ** *
17449706 GAGTCAAGAAATAAAAATGATCGAGATTGAACTACAAGTCAAATAATAAATATGATTATGATTAA
1 GAGTCAAAAAATAAAAATGATCGAGATTGAACCACAAGTCAAAGAATAAATATGACCAGGATTAA
17449771 ACTGCGAGTCGGGATTAAACCAT
66 ACTGCGAGTCGGGATTAAACCAT
* ** * *
17449794 GAGTCAAAAAATATAAATGA-C-AGGATTGAACCATGAGTTAAAGAATAAATATGACCAGGATTG
1 GAGTCAAAAAATAAAAATGATCGA-GATTGAACCACAAGTCAAAGAATAAATATGACCAGGATTA
17449857 AACTGCGAG
65 AACTGCGAG
17449866 CCAAAAAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.02
87 41 0.68
88 18 0.30
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (88 bp):
GAGTCAAAAAATAAAAATGATCGAGATTGAACCACAAGTCAAAGAATAAATATGACCAGGATTAA
ACTGCGAGTCGGGATTAAACCAT
Found at i:17454948 original size:12 final size:12
Alignment explanation
Indices: 17454904--17454967 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
17454894 TGTTAATGAT
*
17454904 AAATGAGGAAAA
1 AAATGAAGAAAA
* *
17454916 AAAAG-AGAAATG
1 AAATGAAGAAA-A
*
17454928 AAATAAAGAAAA
1 AAATGAAGAAAA
*
17454940 AAATGAAGAGAA
1 AAATGAAGAAAA
17454952 AAATGAAGAGAAA
1 AAATGAAGA-AAA
17454965 AAA
1 AAA
17454968 AAAGGGTGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 4 0.10
12 26 0.65
13 10 0.25
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (12 bp):
AAATGAAGAAAA
Found at i:17454965 original size:11 final size:12
Alignment explanation
Indices: 17454928--17454966 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
17454918 AAGAGAAATG
* *
17454928 AAATAAAGAAAA
1 AAATGAAGAGAA
17454940 AAATGAAGAGAA
1 AAATGAAGAGAA
17454952 AAATGAAGAGAA
1 AAATGAAGAGAA
17454964 AAA
1 AAA
17454967 AAAAGGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (12 bp):
AAATGAAGAGAA
Found at i:17455675 original size:22 final size:23
Alignment explanation
Indices: 17455627--17455682 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
17455617 TTTCAGTTGT
* * *
17455627 AAATCTATAAATTTTTTGAATAC
1 AAATCTTTGAATTTTTAGAATAC
*
17455650 AAATCTTTGAATTTTTAGATTA-
1 AAATCTTTGAATTTTTAGAATAC
17455672 AAATCTTTGAA
1 AAATCTTTGAA
17455683 AATTTCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (23 bp):
AAATCTTTGAATTTTTAGAATAC
Found at i:17455859 original size:44 final size:45
Alignment explanation
Indices: 17455796--17455910 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 45
17455786 TTTTAGTATT
* * *
17455796 TTTTTAAAATGAGAATCTTTACATTTCAAATGTGAGTTTTTAAAA
1 TTTTTAAAATGAGAATCTTTAAATTTCAAATGTGAATCTTTAAAA
* * * *
17455841 TTTTT-AAATGCGGATCTTTAAATTTTATATGTGAATCTTTAAAA
1 TTTTTAAAATGAGAATCTTTAAATTTCAAATGTGAATCTTTAAAA
* * * *
17455885 ATATTCAAAT-ATGAACCTTTAAATTT
1 TTTTTAAAATGA-GAATCTTTAAATTT
17455911 TTTTATTGTG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
44 35 0.62
45 21 0.38
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (45 bp):
TTTTTAAAATGAGAATCTTTAAATTTCAAATGTGAATCTTTAAAA
Found at i:17455878 original size:21 final size:21
Alignment explanation
Indices: 17455797--17455911 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 21
17455787 TTTAGTATTT
* *
17455797 TTTTAAAATGAGAATCTTTACA
1 TTTT-AAATGTGAATCTTTAAA
* * *
17455819 TTTCAAATGTGAGTTTTTAAAA
1 TTTTAAATGTGAATCTTT-AAA
* *
17455841 TTTTTAAATGCGGATCTTTAAA
1 -TTTTAAATGTGAATCTTTAAA
*
17455863 TTTTATATGTGAATCTTTAAAAA
1 TTTTAAATGTGAATCTTT--AAA
* * *
17455886 TATTCAAATATGAACCTTTAAA
1 T-TTTAAATGTGAATCTTTAAA
17455908 TTTT
1 TTTT
17455912 TTTATTGTGA
Statistics
Matches: 70, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
21 28 0.40
22 12 0.17
23 17 0.24
24 13 0.19
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTTAAATGTGAATCTTTAAA
Found at i:17458371 original size:22 final size:22
Alignment explanation
Indices: 17458343--17458386 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
17458333 GTAGACACCA
*
17458343 TATTTAGTTTGGTGTTCAATTT
1 TATTTAGTTTGGTGTTAAATTT
17458365 TATTTAGTTTGGTGTTAAATTT
1 TATTTAGTTTGGTGTTAAATTT
17458387 GTGTTTCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.59
Consensus pattern (22 bp):
TATTTAGTTTGGTGTTAAATTT
Found at i:17459483 original size:16 final size:19
Alignment explanation
Indices: 17459450--17459485 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
17459440 TTTCAAATGC
17459450 ATGATGAAACAATAAAAAA
1 ATGATGAAACAATAAAAAA
17459469 ATGA-GAAA-AATAAAAAA
1 ATGATGAAACAATAAAAAA
17459486 GGAAATGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.14
Consensus pattern (19 bp):
ATGATGAAACAATAAAAAA
Found at i:17460649 original size:39 final size:39
Alignment explanation
Indices: 17460513--17460676 Score: 122
Period size: 39 Copynumber: 4.2 Consensus size: 39
17460503 ATTTTTGAAC
* * * * *
17460513 TTTTGAATCATTGAATGAGGAAAACATTCCAA-ACTAAGA
1 TTTTGAATCCTCGAATAAGGAAAACATTTCAAGA-TGAGA
* * *
17460552 TTTTGAATCCTC--A-AAGGAGGAACTTTTTTAAGATGAGA
1 TTTTGAATCCTCGAATAAGGA-AAAC-ATTTCAAGATGAGA
* *
17460590 -TTTGAATCCTCGAGTGAGGAAAACATTTCAAGATGAGA
1 TTTTGAATCCTCGAATAAGGAAAACATTTCAAGATGAGA
* * * *
17460628 TTTTGACTTCTCGAATAAGGAAAACTTTTTAAGGATGAGA
1 TTTTGAATCCTCGAATAAGGAAAACATTTCAA-GATGAGA
*
17460668 TTTTAAATC
1 TTTTGAATC
17460677 TTTGAATGAG
Statistics
Matches: 95, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
36 4 0.04
37 15 0.16
38 20 0.21
39 39 0.41
40 17 0.18
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (39 bp):
TTTTGAATCCTCGAATAAGGAAAACATTTCAAGATGAGA
Found at i:17460649 original size:76 final size:77
Alignment explanation
Indices: 17460514--17460670 Score: 176
Period size: 76 Copynumber: 2.0 Consensus size: 77
17460504 TTTTTGAACT
* *
17460514 TTTGAATCATTGAATGAGGAAAACATTCCAAACTAAGATTTTGAATCCTCAAAGGAGG-AACTTT
1 TTTGAATCATCGAATGAGGAAAACATTCCAAACTAAGATTTTGAATCCTCAAAGAAGGAAAC-TT
17460578 TTTAA-GATGAGA
65 TTTAAGGATGAGA
* * * * * * * *
17460590 TTTGAATCCTCGAGTGAGGAAAACATTTCAAGA-TGAGATTTTGACTTCTCGAATAAGGAAAACT
1 TTTGAATCATCGAATGAGGAAAACATTCCAA-ACTAAGATTTTGAATCCTCAAAGAAGG-AAACT
17460654 TTTTAAGGATGAGA
64 TTTTAAGGATGAGA
17460668 TTT
1 TTT
17460671 TAAATCTTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
76 46 0.69
77 8 0.12
78 13 0.19
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (77 bp):
TTTGAATCATCGAATGAGGAAAACATTCCAAACTAAGATTTTGAATCCTCAAAGAAGGAAACTTT
TTAAGGATGAGA
Found at i:17461025 original size:44 final size:44
Alignment explanation
Indices: 17460932--17461032 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
17460922 CAATGTTGAG
* *
17460932 AATGATTTGTT-AGACCTTTGGGCATAATTTCAAAAGCCTCTTAG
1 AATGATTT-TTAAGACCTTTGGGCATAATCTCAAAAGCCTCTTAA
* *
17460976 TATGATTTTTAAGATCTTTGGGCATAATCTC-AAAGACCTC-TACA
1 AATGATTTTTAAGACCTTTGGGCATAATCTCAAAAG-CCTCTTA-A
*
17461020 AATGATTTGTAAG
1 AATGATTTTTAAG
17461033 GCTTTTAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 8 0.17
44 40 0.83
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (44 bp):
AATGATTTTTAAGACCTTTGGGCATAATCTCAAAAGCCTCTTAA
Found at i:17461094 original size:23 final size:22
Alignment explanation
Indices: 17461068--17461252 Score: 83
Period size: 23 Copynumber: 8.3 Consensus size: 22
17461058 TTTAGATATG
17461068 AATTTTCAAATGTGAATCTTTGA
1 AATTTT-AAATGTGAATCTTTGA
** * *
17461091 AATTTTGGATGTGAATCTCTAA
1 AATTTTAAATGTGAATCTTTGA
* *
17461113 AATTTTTTAATGTGAATCTTAG-
1 AA-TTTTAAATGTGAATCTTTGA
** *
17461135 AATTTTGGATGT-ACATCATTGAA
1 AATTTTAAATGTGA-ATCTTTG-A
* * *
17461158 AATTCTCAAATGTGAATTTTTAA
1 AATT-TTAAATGTGAATCTTTGA
17461181 AATTTTATGAATGTGAAAT-TTT-A
1 AATTTTA--AATGTG-AATCTTTGA
** * *
17461204 AATTTTGGATATGAA-CCTTGA
1 AATTTTAAATGTGAATCTTTGA
** * *
17461225 AATTTTGGATTTGAATCTTTAA
1 AATTTTAAATGTGAATCTTTGA
17461247 AATTTT
1 AATTTT
17461253 TTCAAATATG
Statistics
Matches: 123, Mismatches: 27, Indels: 25
0.70 0.15 0.14
Matches are distributed among these distances:
20 5 0.04
21 32 0.26
22 28 0.23
23 36 0.29
24 18 0.15
25 4 0.03
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (22 bp):
AATTTTAAATGTGAATCTTTGA
Found at i:17461132 original size:45 final size:44
Alignment explanation
Indices: 17461068--17461331 Score: 148
Period size: 45 Copynumber: 5.9 Consensus size: 44
17461058 TTTAGATATG
*
17461068 AATTTTCAAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAA
1 AATTTTTAAATGTGAATCTTTGAAATTTTGGATGTGAATCT-TAA
* *
17461113 AATTTTTTAATGTGAATCTTAG-AATTTTGGATGT-ACATCATTGAA
1 AATTTTTAAATGTGAATCTTTGAAATTTTGGATGTGA-ATC-TT-AA
* * * * * *
17461158 AATTCTCAAATGTGAATTTTTAAAATTTTATGAATGTGAAAT-TTTA
1 AATTTTTAAATGTGAATCTTTGAAA-TTT-TGGATGTG-AATCTTAA
** * * *
17461204 AA-TTTTGGATATGAA-CCTTGAAATTTTGGATTTGAATCTTTAA
1 AATTTTTAAATGTGAATCTTTGAAATTTTGGATGTGAATC-TTAA
* * * * *
17461247 AATTTTTTCAAATATGAGT-TTTCAAAATTTTGGGTGTGAATTTCTAA
1 AA-TTTTT-AAATGTGAATCTTT-GAAATTTTGGATGTGAATCT-TAA
* * * *
17461294 AAGTTTTCAAAAGTGAA-CTTTG-AATTTTAGATGAGAAT
1 AA-TTTTTAAATGTGAATCTTTGAAATTTTGGATGTGAAT
17461332 TTTTTAAACT
Statistics
Matches: 163, Mismatches: 39, Indels: 35
0.69 0.16 0.15
Matches are distributed among these distances:
41 3 0.02
42 6 0.04
43 9 0.06
44 34 0.21
45 50 0.31
46 23 0.14
47 29 0.18
48 6 0.04
49 2 0.01
50 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (44 bp):
AATTTTTAAATGTGAATCTTTGAAATTTTGGATGTGAATCTTAA
Found at i:17461451 original size:19 final size:20
Alignment explanation
Indices: 17461411--17461451 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
17461401 CTTTGAAATT
*
17461411 TTATTTGTGGATCTTTAAAA
1 TTATTTGTGGAACTTTAAAA
*
17461431 TTATTTGT-GAACTTTACAA
1 TTATTTGTGGAACTTTAAAA
17461450 TT
1 TT
17461452 CTAAAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.51
Consensus pattern (20 bp):
TTATTTGTGGAACTTTAAAA
Found at i:17461597 original size:18 final size:18
Alignment explanation
Indices: 17461570--17461604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17461560 GAATTTTAAA
*
17461570 TTCTTTCAAATATTTGAG
1 TTCTTACAAATATTTGAG
*
17461588 TTCTTACAAATCTTTGA
1 TTCTTACAAATATTTGA
17461605 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (18 bp):
TTCTTACAAATATTTGAG
Found at i:17462031 original size:7 final size:7
Alignment explanation
Indices: 17462019--17462048 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17462009 TTTTACCTAA
17462019 AAAAAGG
1 AAAAAGG
17462026 AAAAAGG
1 AAAAAGG
17462033 AAAAAGG
1 AAAAAGG
*
17462040 AAAGAGG
1 AAAAAGG
17462047 AA
1 AA
17462049 TTTGCCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:17462939 original size:18 final size:19
Alignment explanation
Indices: 17462902--17462942 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
17462892 GAGCCAACCC
*
17462902 TTTTGTTATAATTTTTTTA
1 TTTTGTTATAATTATTTTA
*
17462921 TTTTTTTATAA-TATTTTA
1 TTTTGTTATAATTATTTTA
17462939 TTTT
1 TTTT
17462943 ATTTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTGTTATAATTATTTTA
Found at i:17463969 original size:37 final size:38
Alignment explanation
Indices: 17463928--17464000 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
17463918 ATGATAATAA
* * *
17463928 AAATAAATTTT-GTAATTAAATCTTACCAAATTATTGG
1 AAATAAATTTTAGAAATAAAATCTTACCAAACTATTGG
*
17463965 AAATATATTTTAGAAATAAAATCTTACCAAACTATT
1 AAATAAATTTTAGAAATAAAATCTTACCAAACTATT
17464001 AAAAGGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 10 0.32
38 21 0.68
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (38 bp):
AAATAAATTTTAGAAATAAAATCTTACCAAACTATTGG
Found at i:17464002 original size:93 final size:95
Alignment explanation
Indices: 17463830--17464009 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 95
17463820 TAAAGAATAG
* * *
17463830 AAAAATAAAATTTTTGAAATTAATCATATCAAATTATTGGAGGATTTAAATTTTAAAATTAAATC
1 AAAAATAAAATTTTTGAAATTAATCATACCAAATTATTGGA-GATATAAATTTTAAAATAAAATC
17463895 TCACCAAACTATTAAAAGGTTTAATGATAAT
65 TCACCAAACTATTAAAAGGTTTAATGATAAT
* * *
17463926 AAAAAT-AAA-TTTTGTAATTAAATCTTACCAAATTATTGGA-A-ATATATTTTAGAAATAAAAT
1 AAAAATAAAATTTTTGAAATT-AATCATACCAAATTATTGGAGATATAAATTTTA-AAATAAAAT
*
17463987 CTTACCAAACTATTAAAAGGTTT
64 CTCACCAAACTATTAAAAGGTTT
17464010 TATTGACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
92 8 0.11
93 31 0.41
94 9 0.12
95 21 0.28
96 6 0.08
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (95 bp):
AAAAATAAAATTTTTGAAATTAATCATACCAAATTATTGGAGATATAAATTTTAAAATAAAATCT
CACCAAACTATTAAAAGGTTTAATGATAAT
Found at i:17468469 original size:13 final size:13
Alignment explanation
Indices: 17468451--17468498 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
17468441 TTTATTAAAC
17468451 TTAATTTTTATTT
1 TTAATTTTTATTT
*
17468464 TTAATTTTTACATAT
1 TTAATTTTT--ATTT
*
17468479 ATAATTTTTATTT
1 TTAATTTTTATTT
17468492 TTAATTT
1 TTAATTT
17468499 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 18 0.62
15 11 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATTTTTATTT
Found at i:17468470 original size:7 final size:7
Alignment explanation
Indices: 17468451--17468498 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
17468441 TTTATTAAAC
17468451 TTAATTT
1 TTAATTT
17468458 TT-ATTT
1 TTAATTT
17468464 TTAATTT
1 TTAATTT
*
17468471 TTACATAT
1 TTA-ATTT
*
17468479 ATAATTT
1 TTAATTT
17468486 TT-ATTT
1 TTAATTT
17468492 TTAATTT
1 TTAATTT
17468499 ATATATATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 12 0.35
7 17 0.50
8 5 0.15
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:17468483 original size:28 final size:28
Alignment explanation
Indices: 17468452--17468509 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
17468442 TTATTAAACT
*
17468452 TAATTTTTATTTTTAATTTTTACATATA
1 TAATTTTTATTTTTAATTTATACATATA
*
17468480 TAATTTTTATTTTTAATTTATATATATA
1 TAATTTTTATTTTTAATTTATACATATA
17468508 TA
1 TA
17468510 TGAATTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TAATTTTTATTTTTAATTTATACATATA
Found at i:17472712 original size:348 final size:349
Alignment explanation
Indices: 17472074--17472733 Score: 920
Period size: 348 Copynumber: 1.9 Consensus size: 349
17472064 TTCTAGATTT
* * *
17472074 TTGAAATCTCTCAAGCTATACCATATAAACCTCTTTTCCAAATCATCTTTTGGACACTGATTATG
1 TTGAAATCTCTCAAGCTATACCATATAAACCTCTTATCCAAATCATCTTTTGGACACTGACTAAG
* * *
17472139 ATTAAGTTTGTCACCTTTCACAATGGGTGTATCTCCAACCTTACAATTATGCATGTTAAACCTAC
66 ATTAAATCTGTCACCTTTCACAATAGGTGTATCTCCAACCTTACAATTATGCATGTTAAACCTAC
* *
17472204 TAAGCACATGATCAATATAAGACCTTTAGGATAGTCCCAATAGATTTTATGATCTATCTATGTGA
131 TAAGCACATGATCAATATAAGACCTTTAGGATAGTCCCAATAGATTTTATAATCTATCTATGTAA
* *
17472269 ATTTCAATCCCAATAACAAAAAAAGCATCTCCAAGATCTTTTATGTCAAAAGTCTTGGATAACAA
196 ATTTCAATCCCAAGAACAAAAAAAGCATCTCCAAGATCTTTCATGTCAAAAGTCTTGGATAACAA
* * *
17472334 CTTCTTAGTTTCATACAACAAACTAATATCATTACAGGCTAGCTTGCTTAAGGTTATAAATTGAC
261 CTACTTAATTTCATACAACAAACTAATATCATTACAGGCTAACTTGCTTAAGGTTATAAATTGAC
17472399 TTGTTAAGTCAACATACTAAAATG
326 TTGTTAAGTCAACATACTAAAATG
* *
17472423 TTGAAATC-CTTCAAGCTATACCATATAAACCTCTTATCCAAATCATCTTTTGGGCATTGACTAA
1 TTGAAATCTC-TCAAGCTATACCATATAAACCTCTTATCCAAATCATCTTTTGGACACTGACTAA
* ** * * * *
17472487 GA-TAAATCTGTCACCTTTTACAATAGGTGTATCTTTAGCCTTATAGTTTTGCATGTTAAACCTA
65 GATTAAATCTGTCACCTTTCACAATAGGTGTATCTCCAACCTTACAATTATGCATGTTAAACCTA
* * * *
17472551 TTAAGCACATGATCAATATAAGATCTTT-GCGATAGTTCTC-ATAGATTTTGA-AATCTATCTTT
130 CTAAGCACATGATCAATATAAGACCTTTAG-GATAG-TCCCAATAGATTTT-ATAATCTATCTAT
* * ** * *
17472613 GTAAATTTTAATCCTAAGAACAAAGTAGGCATC-CTTAAGATCTTTCATGTCAAAAGTCTTGGAT
192 GTAAATTTCAATCCCAAGAACAAAAAAAGCATCTC-CAAGATCTTTCATGTCAAAAGTCTTGGAT
*
17472677 AACAACTACTTAATTTCATACAACAAA-TCAATATCATTATAGGCTAACTTGCTTAAG
256 AACAACTACTTAATTTCATACAACAAACT-AATATCATTACAGGCTAACTTGCTTAAG
17472734 ACTGACTTTT
Statistics
Matches: 272, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
347 3 0.01
348 206 0.76
349 63 0.23
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (349 bp):
TTGAAATCTCTCAAGCTATACCATATAAACCTCTTATCCAAATCATCTTTTGGACACTGACTAAG
ATTAAATCTGTCACCTTTCACAATAGGTGTATCTCCAACCTTACAATTATGCATGTTAAACCTAC
TAAGCACATGATCAATATAAGACCTTTAGGATAGTCCCAATAGATTTTATAATCTATCTATGTAA
ATTTCAATCCCAAGAACAAAAAAAGCATCTCCAAGATCTTTCATGTCAAAAGTCTTGGATAACAA
CTACTTAATTTCATACAACAAACTAATATCATTACAGGCTAACTTGCTTAAGGTTATAAATTGAC
TTGTTAAGTCAACATACTAAAATG
Found at i:17474826 original size:354 final size:347
Alignment explanation
Indices: 17474343--17474994 Score: 817
Period size: 354 Copynumber: 1.9 Consensus size: 347
17474333 CCAACCTTAC
* * * ***
17474343 AGTTCTTCATGTTAATCCTACTAAGCACATGATCAATATAAGACCTTTACGATAGTTTTAACAAA
1 AGTTCTGCATGTTAAACCTACTAAGCACATAATCAATATAAGACCTTTACGATAGTCGCAACAAA
** *
17474408 TTTTGAGACCTATCTCTATGAATTTCAATCTCATGAACAAAAAAGGCATCCCCAAGATCTTTCAT
66 TTTTGAGACCTATCTCTATGAATTTCAATCTCAAAAACAAAAAAGGCATCCCCAAGAACTTTCAT
* * * * ***
17474473 GTCAAAAGTCTTGGATAACAACTACTTAGTTTCATATAATAAA-CTAATATTATTATAGGTTAGC
131 GTCAAAAGTCTTGGAT---AA-TA---A-TTTCATACAACAAATC-AATATCATTACAACCTAGC
* * *
17474537 TTGCTTAAGGTTATAGA-TTGACTTTTTAAGCCGACATACTAAATGTTCATTTTTAGATTTCTAA
187 TTGCTTAAGGTTATAGACTAG-CTTTTTAAGCCAACATACTAAATGCTCATTTTTAGATTTCTAA
* * *
17474601 AATCCTTCAAGTTGTACCATATAAACCTCTTCTCCAA-ATCATCATTTAGGCATTGACTAAGATT
251 AATCCTTCAAGCTATACCATATAAACCTCTTCTCCAAGATCATAATTTAGGCATTGACTAAGATT
17474665 AAGTCTGTCACCTTTTACAATGGGTGCCTTCT
316 AAGTCTGTCACCTTTTACAATGGGTGCCTTCT
* * * *
17474697 AGTTCTGCATGTTAAACCTACTAAGCATATAATCAATATAAGACCTTTGCGATAGTCGCAATAGA
1 AGTTCTGCATGTTAAACCTACTAAGCACATAATCAATATAAGACCTTTACGATAGTCGCAACAAA
** * * ** * *
17474762 TTTTGAGATTTTTCTCTATGAATTTTAATC-CTAAAAACAAATGAGGTATCCCTAAGAACTTTCA
66 TTTTGAGACCTATCTCTATGAATTTCAATCTC-AAAAACAAAAAAGGCATCCCCAAGAACTTTCA
*
17474826 TGTCAAAAGTCTTGGATAATAATTTCATGCAACAAATCAATATCATTACAACCTAGCTTGCTTAA
130 TGTCAAAAGTCTTGGATAATAATTTCATACAACAAATCAATATCATTACAACCTAGCTTGCTTAA
* *
17474891 GGTTATAGACTAGCTTTTTAAGCTAACATACTAAATGCTCATTTTTAGATTTCTAAAATCCTTTA
195 GGTTATAGACTAGCTTTTTAAGCCAACATACTAAATGCTCATTTTTAGATTTCTAAAATCCTTCA
* * *
17474956 GGCTATATCATATAAACCTCTTCTCTAAGATCATAATTT
260 AGCTATACCATATAAACCTCTTCTCCAAGATCATAATTT
17474995 TGAAAAGCTG
Statistics
Matches: 254, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
346 113 0.44
347 13 0.05
350 2 0.01
351 2 0.01
353 1 0.00
354 123 0.48
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (347 bp):
AGTTCTGCATGTTAAACCTACTAAGCACATAATCAATATAAGACCTTTACGATAGTCGCAACAAA
TTTTGAGACCTATCTCTATGAATTTCAATCTCAAAAACAAAAAAGGCATCCCCAAGAACTTTCAT
GTCAAAAGTCTTGGATAATAATTTCATACAACAAATCAATATCATTACAACCTAGCTTGCTTAAG
GTTATAGACTAGCTTTTTAAGCCAACATACTAAATGCTCATTTTTAGATTTCTAAAATCCTTCAA
GCTATACCATATAAACCTCTTCTCCAAGATCATAATTTAGGCATTGACTAAGATTAAGTCTGTCA
CCTTTTACAATGGGTGCCTTCT
Found at i:17485918 original size:9 final size:9
Alignment explanation
Indices: 17485904--17485930 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
17485894 GTCAAGCTCA
17485904 AATACAGAG
1 AATACAGAG
17485913 AATACAGAG
1 AATACAGAG
17485922 AATACAGAG
1 AATACAGAG
17485931 CAATCAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (9 bp):
AATACAGAG
Found at i:17488547 original size:17 final size:17
Alignment explanation
Indices: 17488525--17488558 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17488515 TTTAACTTTT
17488525 TATAAATCATTAGACAA
1 TATAAATCATTAGACAA
17488542 TATAAATCATTAGACAA
1 TATAAATCATTAGACAA
17488559 CCGATATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
TATAAATCATTAGACAA
Found at i:17491698 original size:22 final size:22
Alignment explanation
Indices: 17491673--17491716 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17491663 ATTTTTTTTC
**
17491673 CTTAATTCTAGGGATATAAATA
1 CTTAATTCTAAAGATATAAATA
17491695 CTTAATTCTAAAGATATAAATA
1 CTTAATTCTAAAGATATAAATA
17491717 TAAATATACA
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:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTAATTCTAAAGATATAAATA
Found at i:17495762 original size:22 final size:22
Alignment explanation
Indices: 17495734--17495777 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17495724 ATTTTTTATC
*
17495734 CTTAATTATAGGGATAAAAATA
1 CTTAATTATAGAGATAAAAATA
* *
17495756 CTTAATTCTAGAGATACAAATA
1 CTTAATTATAGAGATAAAAATA
17495778 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTATAGAGATAAAAATA
Found at i:17497950 original size:29 final size:31
Alignment explanation
Indices: 17497913--17497974 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
17497903 TAATGTCATC
*
17497913 AATTGTCAT-ATAAATATTAAAA-ATTTTAA
1 AATTGTCATAAAAAATATTAAAATATTTTAA
* * *
17497942 AATTTTCATAAAAAATTTTAAAATTTTTTAA
1 AATTGTCATAAAAAATATTAAAATATTTTAA
17497973 AA
1 AA
17497975 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (31 bp):
AATTGTCATAAAAAATATTAAAATATTTTAA
Found at i:17497973 original size:20 final size:21
Alignment explanation
Indices: 17497931--17497986 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
17497921 TATAAATATT
17497931 AAAAATTTTAAAATTTTCATA
1 AAAAATTTTAAAATTTTCATA
*
17497952 AAAAATTTTAAAATTTT-TTA
1 AAAAATTTTAAAATTTTCATA
17497972 AAAATATTTTCAAAA
1 AAAA-ATTTT-AAAA
17497987 ATCTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 6 0.19
21 22 0.69
22 4 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAAATTTTAAAATTTTCATA
Found at i:17498030 original size:34 final size:34
Alignment explanation
Indices: 17497983--17498053 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
17497973 AAATATTTTC
* * *
17497983 AAAAATCTGAAATATTTTCAAAAT-TATAAAAAAA
1 AAAAAACTAAAATA-TTTAAAAATATATAAAAAAA
*
17498017 AAAAAACTAAAATATTTAAAAATATATATAAAAA
1 AAAAAACTAAAATATTTAAAAATATATAAAAAAA
17498051 AAA
1 AAA
17498054 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 8 0.25
34 24 0.75
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (34 bp):
AAAAAACTAAAATATTTAAAAATATATAAAAAAA
Found at i:17498043 original size:12 final size:11
Alignment explanation
Indices: 17498025--17498079 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
17498015 AAAAAAAACT
17498025 AAAATATTTAA
1 AAAATATTTAA
*
17498036 AAATATATATAA
1 AAA-ATATTTAA
*
17498048 AAAAAATTTAA
1 AAAATATTTAA
17498059 TAAAA-ATTTAA
1 -AAAATATTTAA
17498070 AGAAA-ATTTA
1 A-AAATATTTA
17498080 TAAATTCCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 1 0.03
11 23 0.61
12 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:17498082 original size:35 final size:36
Alignment explanation
Indices: 17498002--17498083 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
17497992 AAATATTTTC
17498002 AAAA-TTATAAAAAAAAAAAAACTAAAATATTTAAA
1 AAAATTTATAAAAAAAAAAAAACTAAAATATTTAAA
* * ***
17498037 AATATATATAAAAAAAATTTAA-TAAAA-ATTTAAA
1 AAAATTTATAAAAAAAAAAAAACTAAAATATTTAAA
17498071 GAAAATTTATAAA
1 -AAAATTTATAAA
17498084 TTCCAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 7 0.18
35 18 0.47
36 13 0.34
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (36 bp):
AAAATTTATAAAAAAAAAAAAACTAAAATATTTAAA
Found at i:17498464 original size:25 final size:25
Alignment explanation
Indices: 17498435--17498497 Score: 126
Period size: 25 Copynumber: 2.5 Consensus size: 25
17498425 AATATTGTTA
17498435 TAATTATGATCATAATTGCATGAGT
1 TAATTATGATCATAATTGCATGAGT
17498460 TAATTATGATCATAATTGCATGAGT
1 TAATTATGATCATAATTGCATGAGT
17498485 TAATTATGATCAT
1 TAATTATGATCAT
17498498 TTGCTTTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (25 bp):
TAATTATGATCATAATTGCATGAGT
Found at i:17498633 original size:83 final size:83
Alignment explanation
Indices: 17498494--17498661 Score: 239
Period size: 83 Copynumber: 2.0 Consensus size: 83
17498484 TTAATTATGA
* * * *
17498494 TCATTTGCTTTCTATATTATACCTTTTCTGTGAGTTTGGTGTTTAAAGAAATGAAATTATCAGTT
1 TCATTTACTTTCTATATTATACCTTTTCTGTGAGTTTGGTATATAAAGAAATGAAATTATCAATT
*
17498559 CCATAATTTAACTTTTAT
66 CCATAATTTAACTCTTAT
* * *
17498577 TCATTTACTTTTTATATTATA-TTCTTTCTGTTAGTTTGGTATATAAAGAAATGAAATTATCAAT
1 TCATTTACTTTCTATATTATACCT-TTTCTGTGAGTTTGGTATATAAAGAAATGAAATTATCAAT
*
17498641 TTCATAATTTAACTCTTAT
65 TCCATAATTTAACTCTTAT
17498660 TC
1 TC
17498662 CATCAATTGC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
82 1 0.01
83 74 0.99
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (83 bp):
TCATTTACTTTCTATATTATACCTTTTCTGTGAGTTTGGTATATAAAGAAATGAAATTATCAATT
CCATAATTTAACTCTTAT
Found at i:17499224 original size:11 final size:10
Alignment explanation
Indices: 17499186--17499224 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17499176 AATCTAAATG
17499186 AATATAAACA
1 AATATAAACA
*
17499196 AACATAAACA
1 AATATAAACA
17499206 AATATAAACGA
1 AATATAAAC-A
*
17499217 AATTTAAA
1 AATATAAA
17499225 ATAGGATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.21
Consensus pattern (10 bp):
AATATAAACA
Found at i:17499640 original size:19 final size:19
Alignment explanation
Indices: 17499612--17499660 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
17499602 TTATTTTTAT
*
17499612 ATTTTATAAAATTTTCATA
1 ATTTTTTAAAATTTTCATA
* *
17499631 ATTTTTTAAATTTTTTATA
1 ATTTTTTAAAATTTTCATA
* *
17499650 AATATTTAAAA
1 ATTTTTTAAAA
17499661 ATATTTCAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTTTAAAATTTTCATA
Found at i:17499720 original size:23 final size:23
Alignment explanation
Indices: 17499693--17499755 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
17499683 TTTTTAACAT
* *
17499693 TTTAGAATTTTTTTAAAAAGAAA
1 TTTAGATTTTTTTTAAAAAAAAA
17499716 TTTAGATTTTTTTTTAAAAAAAAA
1 TTTAGA-TTTTTTTTAAAAAAAAA
*
17499740 TATAAGATTTTTTTTA
1 T-TTAGATTTTTTTTA
17499756 GTTCTCATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.17
24 25 0.71
25 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
TTTAGATTTTTTTTAAAAAAAAA
Found at i:17499735 original size:25 final size:24
Alignment explanation
Indices: 17499700--17499754 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
17499690 CATTTTAGAA
*
17499700 TTTTTTTAAAAAGAAAT-TTAGATT
1 TTTTTTTAAAAA-AAATATAAGATT
17499724 TTTTTTTAAAAAAAAATATAAGATT
1 TTTTTTT-AAAAAAAATATAAGATT
17499749 TTTTTT
1 TTTTTT
17499755 AGTTCTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (24 bp):
TTTTTTTAAAAAAAATATAAGATT
Found at i:17499868 original size:18 final size:18
Alignment explanation
Indices: 17499847--17499887 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17499837 TTTGTTTATA
*
17499847 TTTTCTTATTTTAAAAAT
1 TTTTCTGATTTTAAAAAT
*
17499865 TTTTATGATTTTAAAAAT
1 TTTTCTGATTTTAAAAAT
*
17499883 ATTTC
1 TTTTC
17499888 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTCTGATTTTAAAAAT
Found at i:17500326 original size:22 final size:19
Alignment explanation
Indices: 17500280--17500318 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
17500270 AGAAAAGATG
17500280 AAAAACAAAGAGAAAATAA
1 AAAAACAAAGAGAAAATAA
*
17500299 AGAAAACAATGAGAGAAATA
1 A-AAAACAAAGAGA-AAATA
17500319 GGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAACAAAGAGAAAATAA
Found at i:17502930 original size:28 final size:28
Alignment explanation
Indices: 17502854--17502933 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
17502844 AAGATCCAAG
*
17502854 AATCTCTAAATT-GAGACCAAATTTGAAA
1 AATCCCTAAATTAG-GACCAAATTTGAAA
* * * *
17502882 AATTCTTAAATTTGGATCAAATTCT-AAA
1 AATCCCTAAATTAGGACCAAATT-TGAAA
*
17502910 AATCCCTAACTTAGGACCAAATTT
1 AATCCCTAAATTAGGACCAAATTT
17502934 CAAGATTTTC
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.02
28 38 0.93
29 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (28 bp):
AATCCCTAAATTAGGACCAAATTTGAAA
Found at i:17509950 original size:25 final size:23
Alignment explanation
Indices: 17509922--17509967 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
17509912 CTAAATGCTA
17509922 AAAAATTAAAATTTTAAAAAATTTT
1 AAAAATTAAAA--TTAAAAAATTTT
*
17509947 AAAAATTAACATTAAAAAATT
1 AAAAATTAAAATTAAAAAATT
17509968 GTTCTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
25 10 0.50
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTAAAATTAAAAAATTTT
Found at i:17510296 original size:24 final size:23
Alignment explanation
Indices: 17510250--17510308 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
17510240 AACCAAAACC
* * * *
17510250 CTAAAATCATAAAACCTCGAAAT
1 CTAAAACCCTAAAACCCCAAAAT
17510273 GCTAAAACCCTAAAACCCCAAAAT
1 -CTAAAACCCTAAAACCCCAAAAT
17510297 CTTAAAACCCTA
1 C-TAAAACCCTA
17510309 TAATCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.19
Consensus pattern (23 bp):
CTAAAACCCTAAAACCCCAAAAT
Found at i:17510313 original size:16 final size:16
Alignment explanation
Indices: 17510283--17510318 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17510273 GCTAAAACCC
17510283 TAAAACCCCAAAATCT
1 TAAAACCCCAAAATCT
* *
17510299 TAAAACCCTATAATCT
1 TAAAACCCCAAAATCT
17510315 TAAA
1 TAAA
17510319 TTTAATCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAACCCCAAAATCT
Found at i:17511001 original size:47 final size:47
Alignment explanation
Indices: 17510950--17511041 Score: 109
Period size: 47 Copynumber: 2.0 Consensus size: 47
17510940 AATAAAGGTC
* *
17510950 TTTTTTTT-TTTAATTTTT-TCTTAGGATTT-TTTTGGTTTTTTTTACT
1 TTTTTTTTGTTTTATTTTTAT-TTAGG-TTTATTTTGGTTTCTTTTACT
* *
17510996 TTTTTTTTGTTTTGTTTTTATTTTGGTTTATTTTGGTTTCTTTTAC
1 TTTTTTTTGTTTTATTTTTATTTAGGTTTATTTTGGTTTCTTTTAC
17511042 AAATTTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 11 0.28
47 27 0.69
48 1 0.03
ACGTcount: A:0.09, C:0.04, G:0.11, T:0.76
Consensus pattern (47 bp):
TTTTTTTTGTTTTATTTTTATTTAGGTTTATTTTGGTTTCTTTTACT
Found at i:17513034 original size:38 final size:38
Alignment explanation
Indices: 17512978--17513066 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
17512968 ATGGGGTGCA
*
17512978 TGTACTATCTTATCAAAATGTGAATGAGATGGAATGCC
1 TGTACTATCTTATCAAAATGTGAATGAGATAGAATGCC
* *
17513016 TGTATTATCTTATCAAAATGTGTATGAGATAGAATGCC
1 TGTACTATCTTATCAAAATGTGAATGAGATAGAATGCC
* *
17513054 TATGCTATCTTAT
1 TGTACTATCTTAT
17513067 TATTCCCAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (38 bp):
TGTACTATCTTATCAAAATGTGAATGAGATAGAATGCC
Found at i:17517623 original size:144 final size:142
Alignment explanation
Indices: 17517364--17517756 Score: 429
Period size: 144 Copynumber: 2.7 Consensus size: 142
17517354 TAGAGAAGTA
* * ** * *
17517364 AAATTAACAAAATACCTTTTAAAGGTATTTTAGTAATTTGACCTTTTTAGCTAGAA-TTTCTAT-
1 AAATTACCAAAATACCTCTTAGGGGTATTTTAGTAATTTG-GCTTTTTAGCTCGAATTTTC-ATG
* *
17517427 AAAATTTTTTAGATCTCAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCACAA-TAG
64 AAACTTTTTT-GATCTCAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCA-AAGCAG
* * *
17517491 TACCTCGAAAGGTGTG
127 TACCCCAAAAGGAGTG
* * *
17517507 AAATTACCAAAATA-TTATTTAGGGGTATTTTTGTAATTTGGCATTTTTGAGCTCGAATTTTCAT
1 AAATTACCAAAATACCT-CTTAGGGGTATTTTAGTAATTTGGC-TTTTT-AGCTCGAATTTTCAT
* * *
17517571 GAAACTTTTTTTATCTTAATTTCATAATATTTCATGATTTTTTATGCATTTGAAATCAAAGCAGT
63 GAAACTTTTTTGATCTCAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCAAAGCAGT
17517636 ACCCCAAAAGGAGTG
128 ACCCCAAAAGGAGTG
** * * * *
17517651 AAATTATGAAAATACCTCTTATGGGTATTTTCA-AAATTTGGCCTTCTAAGCTC-ATATTTTCAT
1 AAATTACCAAAATACCTCTTAGGGGTATTTT-AGTAATTTGG-CTTTTTAGCTCGA-ATTTTCAT
* *
17517714 GAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTG
63 GAAACTTTTTTGATCTCAATTTCATAATATTTCATGATTTTTG
17517757 GTGTTTTAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
142 3 0.01
143 91 0.43
144 102 0.48
145 15 0.07
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (142 bp):
AAATTACCAAAATACCTCTTAGGGGTATTTTAGTAATTTGGCTTTTTAGCTCGAATTTTCATGAA
ACTTTTTTGATCTCAATTTCATAATATTTCATGATTTTTGATGCATTTGAAATCAAAGCAGTACC
CCAAAAGGAGTG
Found at i:17520112 original size:3 final size:3
Alignment explanation
Indices: 17520104--17520156 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
17520094 AAATTTATGC
17520104 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17520152 ATA AT
1 ATA AT
17520157 GATGATGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17520874 original size:24 final size:25
Alignment explanation
Indices: 17520842--17520889 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17520832 TCATCAGTGA
* *
17520842 TTATCATTTA-TAAAGAGTGTTATT
1 TTATCATTTAGGAAAGAATGTTATT
*
17520866 TTATTATTTAGGAAAGAATGTTAT
1 TTATCATTTAGGAAAGAATGTTAT
17520890 GATAAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (25 bp):
TTATCATTTAGGAAAGAATGTTATT
Found at i:17521948 original size:15 final size:12
Alignment explanation
Indices: 17521911--17521941 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17521901 AGTTGGTCTA
17521911 GTTCATTCAAAT
1 GTTCATTCAAAT
17521923 GTTCATTCAAAT
1 GTTCATTCAAAT
17521935 GTTCATT
1 GTTCATT
17521942 ATTCAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
GTTCATTCAAAT
Found at i:17522247 original size:35 final size:35
Alignment explanation
Indices: 17522208--17522325 Score: 89
Period size: 35 Copynumber: 3.4 Consensus size: 35
17522198 TCAACTCGTG
*
17522208 GTTCAGTCCCAATCATCTTTATTTCTTGACTGGCA
1 GTTCAATCCCAATCATCTTTATTTCTTGACTGGCA
** *
17522243 GTTCAATCCCAATTGT-TTTAATTTCCTGACTTGTG-A
1 GTTCAATCCCAATCATCTTT-ATTTCTTGAC-TG-GCA
* *** * **
17522279 -TTCAGTCTTGATCATCTTTATTTTTTGACTTACA
1 GTTCAATCCCAATCATCTTTATTTCTTGACTGGCA
17522313 GTTCAATCCCAAT
1 GTTCAATCCCAAT
17522326 TGTTTTTATT
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
34 5 0.08
35 47 0.80
36 6 0.10
37 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (35 bp):
GTTCAATCCCAATCATCTTTATTTCTTGACTGGCA
Found at i:17522283 original size:70 final size:70
Alignment explanation
Indices: 17522209--17522345 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 70
17522199 CAACTCGTGG
*
17522209 TTCAGTCCCAATCATCTTTATTTCTTGACTGGCAGTTCAATCCCAATTGTTTTAATTTCCTGACT
1 TTCAGTCCCAATCATCTTTATTTCTTGACTGACAGTTCAATCCCAATTGTTTTAATTTCCTGACT
17522274 TGTGA
66 TGTGA
*** * * * *
17522279 TTCAGTCTTGATCATCTTTATTTTTTGACTTACAGTTCAATCCCAATTGTTTTTATTTCCTTACT
1 TTCAGTCCCAATCATCTTTATTTCTTGACTGACAGTTCAATCCCAATTGTTTTAATTTCCTGACT
17522344 TG
66 TG
17522346 GGGTCAATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (70 bp):
TTCAGTCCCAATCATCTTTATTTCTTGACTGACAGTTCAATCCCAATTGTTTTAATTTCCTGACT
TGTGA
Found at i:17522405 original size:104 final size:105
Alignment explanation
Indices: 17522288--17522510 Score: 281
Period size: 104 Copynumber: 2.1 Consensus size: 105
17522278 ATTCAGTCTT
* * * * *
17522288 GATCATCTTTATTTTTTGACTTACAGTTCAATCCCAATTGTTTTTATTTCCTTACTTG-GGGTCA
1 GATCGTCTTTATTTTTTGACTTACAATTCAATCCCAATTATCTTTATTTCCTTACTTGTGGCTCA
* * *
17522352 ATCTCAGTCATATTTGTTCTTTTACTTACAATTCAATC-CG
66 ATCTCAGTCAT-TTTATTCTTTGACTTACAATTCAATCTCA
*
17522392 GATCGTCTTTATTTTTTGACTTATAATTCAATCCCAATTATCTTTATTTCCTTACTTGTGGCTCA
1 GATCGTCTTTATTTTTTGACTTACAATTCAATCCCAATTATCTTTATTTCCTTACTTGTGGCTCA
* ** * **
17522457 ATTTTGGTCATTTTATTCTTTGACTTGCCGTTCAATCTCA
66 ATCTCAGTCATTTTATTCTTTGACTTACAATTCAATCTCA
17522497 G-TCGTCTTTATTTT
1 GATCGTCTTTATTTT
17522511 CTAACTTGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
104 87 0.85
105 15 0.15
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (105 bp):
GATCGTCTTTATTTTTTGACTTACAATTCAATCCCAATTATCTTTATTTCCTTACTTGTGGCTCA
ATCTCAGTCATTTTATTCTTTGACTTACAATTCAATCTCA
Found at i:17522436 original size:35 final size:34
Alignment explanation
Indices: 17522289--17522440 Score: 99
Period size: 35 Copynumber: 4.4 Consensus size: 34
17522279 TTCAGTCTTG
*
17522289 ATCATCTTTATTTTTTGACTTACAGTTCAATCCCA
1 ATCATCTTTATTTTTT-ACTTACAATTCAATCCCA
** * * **** *
17522324 ATTGTTTTTATTTCCTTACTT-GGGGTCAATCTCA
1 ATCATCTTTATTT-TTTACTTACAATTCAATCCCA
* * * **
17522358 GTCATATTTGTTCTTTTACTTACAATTCAATCCGG
1 ATCATCTTTATT-TTTTACTTACAATTCAATCCCA
* *
17522393 ATCGTCTTTATTTTTTGACTTATAATTCAATCCCA
1 ATCATCTTTATTTTTT-ACTTACAATTCAATCCCA
*
17522428 ATTATCTTTATTT
1 ATCATCTTTATTT
17522441 CCTTACTTGT
Statistics
Matches: 83, Mismatches: 30, Indels: 8
0.69 0.25 0.07
Matches are distributed among these distances:
34 26 0.31
35 55 0.66
36 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (34 bp):
ATCATCTTTATTTTTTACTTACAATTCAATCCCA
Found at i:17522491 original size:69 final size:70
Alignment explanation
Indices: 17522418--17522580 Score: 184
Period size: 69 Copynumber: 2.3 Consensus size: 70
17522408 TGACTTATAA
* * * * * ** *
17522418 TTCAATCCCAATTATCTTTATTTCCTTACTTGTGGCTCAATTTTGGTCAT-TTTATTCTTTGACT
1 TTCAATCTCAATCATCTTTATTTCCTAACTTGTAGCTCAATCTCAGTCATCTTTATTCTTCGACT
*
17522482 TGCCG
66 TGCAG
* * * * *
17522487 TTCAATCTCAGTCGTCTTTATTTTCTAACTTGTAGCTTAGTCTCAGTCATCTTTATTCTTCGACT
1 TTCAATCTCAATCATCTTTATTTCCTAACTTGTAGCTCAATCTCAGTCATCTTTATTCTTCGACT
17522552 TGCAG
66 TGCAG
*
17522557 TTCAGTCTCAATCATCTTTATTTC
1 TTCAATCTCAATCATCTTTATTTC
17522581 TTGACGTGTG
Statistics
Matches: 75, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
69 38 0.51
70 37 0.49
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (70 bp):
TTCAATCTCAATCATCTTTATTTCCTAACTTGTAGCTCAATCTCAGTCATCTTTATTCTTCGACT
TGCAG
Found at i:17522518 original size:35 final size:34
Alignment explanation
Indices: 17522479--17522579 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 34
17522469 TTATTCTTTG
* * *
17522479 ACTTGCCGTTCAATCTCAGTCGTCTTTATTTTCTA
1 ACTTGCAGTTCAGTCTCAGTCATCTTTATTTTC-A
* *
17522514 ACTTGTAGCTT-AGTCTCAGTCATCTTTATTCTTCG
1 ACTTGCAG-TTCAGTCTCAGTCATCTTTATT-TTCA
*
17522549 ACTTGCAGTTCAGTCTCAATCATCTTTATTT
1 ACTTGCAGTTCAGTCTCAGTCATCTTTATTT
17522580 CTTGACGTGT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
34 3 0.05
35 48 0.86
36 5 0.09
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.46
Consensus pattern (34 bp):
ACTTGCAGTTCAGTCTCAGTCATCTTTATTTTCA
Found at i:17522596 original size:70 final size:69
Alignment explanation
Indices: 17522463--17522613 Score: 173
Period size: 70 Copynumber: 2.2 Consensus size: 69
17522453 CTCAATTTTG
* * * * *
17522463 GTCAT-TTTATTCTTTGACTTGCCGTTCAATCTCAGTCGTCTTTATTTTCTAACTTGTAGCTTAG
1 GTCATCTTTATTCTTCGACTTGCAGTTCAATCTCAATCATCTTTATTTTCTAACGTGTAGCTTAG
17522527 TCTCA
66 TC-CA
* *
17522532 GTCATCTTTATTCTTCGACTTGCAGTTCAGTCTCAATCATCTTTA-TTTCTTGACGTGT-GACTT
1 GTCATCTTTATTCTTCGACTTGCAGTTCAATCTCAATCATCTTTATTTTC-TAACGTGTAG-CTT
*
17522595 AGTCCC
64 AGTCCA
17522601 GATCATCTTTATT
1 G-TCATCTTTATT
17522614 TTTTAACTCA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
69 12 0.17
70 58 0.83
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (69 bp):
GTCATCTTTATTCTTCGACTTGCAGTTCAATCTCAATCATCTTTATTTTCTAACGTGTAGCTTAG
TCCA
Found at i:17522924 original size:70 final size:70
Alignment explanation
Indices: 17522521--17522929 Score: 211
Period size: 70 Copynumber: 5.9 Consensus size: 70
17522511 CTAACTTGTA
* * ** * * * *
17522521 GCTTAGTCTCAGTCATCTTTATTCTTCGACTTGCAGTTCAGTCTCAATCATCTTTATTTCTTGAC
1 GCTTAGTCCCAATCATCTTTATTCTTTAACTTGTAGTTCAATCCCAATCATTTTTATTTCTTGAC
* **
17522586 GTGTG
66 TTACG
* * * *** * ** * *
17522591 ACTTAGTCCCGATCATCTTTATTTTTTAACTCACAGTTCAGTTACAATCTTTTTTGTTTCTTGAC
1 GCTTAGTCCCAATCATCTTTATTCTTTAACTTGTAGTTCAATCCCAATCATTTTTATTTCTTGAC
**
17522656 TTATT
66 TTACG
* * * * * *** * *
17522661 GCTCAATCTCGATTATCTTTATT-TCTTAACTT-TACGGTTCAAT-CTTGTCTTTTTTATTTCCT
1 GCTTAGTCCCAATCATCTTTATTCT-TTAACTTGTA--GTTCAATCCCAATCATTTTTATTTCTT
* *
17522723 AACTTACA
63 GACTTACG
* * * * * * * * * *
17522731 GTTTAGTCCTAGTCATCTTTGTTCTTCAACTTG-CGCTT-AGTCCCAATCGTTTTAATTTCCTGA
1 GCTTAGTCCCAATCATCTTTATTCTTTAACTTGTAG-TTCAATCCCAATCATTTTTATTTCTTGA
**
17522794 CTTGTG
65 CTTACG
* * * * **
17522800 ACTTAGACCCAATCATCTTTA-TCTCTTAACTTGTAGCTCAAT-CCAGGTTGTTTTTATTTCTTG
1 GCTTAGTCCCAATCATCTTTATTCT-TTAACTTGTAGTTCAATCCCA-ATCATTTTTATTTCTTG
17522863 ACTTACG
64 ACTTACG
* *
17522870 GCTTAGTCCCAATCATCTTTATTCTTTGACTTGTAGTTCAATCCCGATCATTTTTATTTC
1 GCTTAGTCCCAATCATCTTTATTCTTTAACTTGTAGTTCAATCCCAATCATTTTTATTTC
17522930 CTTGCTTGCA
Statistics
Matches: 247, Mismatches: 79, Indels: 26
0.70 0.22 0.07
Matches are distributed among these distances:
68 6 0.02
69 48 0.19
70 181 0.73
71 12 0.05
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.46
Consensus pattern (70 bp):
GCTTAGTCCCAATCATCTTTATTCTTTAACTTGTAGTTCAATCCCAATCATTTTTATTTCTTGAC
TTACG
Found at i:17522957 original size:70 final size:70
Alignment explanation
Indices: 17522807--17523006 Score: 172
Period size: 70 Copynumber: 2.9 Consensus size: 70
17522797 GTGACTTAGA
* * * ** *
17522807 CCCAATCATCTTTA-TCTCTTAACTTGTAGCTCAATCCAGGTTGTTTTTATTTCTTGACTTACGG
1 CCCAAACATCTTTATTCT-TTGACTTGTAGCTCAATCCAGATCATTTTTATTTCTTGACTTACAG
*
17522871 CTTAGT
65 CTCAGT
* * * *
17522877 CCCAATCATCTTTATTCTTTGACTTGTAGTTCAATCCCGATCATTTTTATTTCCTTG-CTTGCAG
1 CCCAAACATCTTTATTCTTTGACTTGTAGCTCAATCCAGATCATTTTTATTT-CTTGACTTACAG
17522941 CTCAGT
65 CTCAGT
* * * * * * * * *
17522947 CTCAAACATCTTTCTTTTTTGACATGTCGCTTAGTCCTAG-TCATCTTTATCTCTTGACTT
1 CCCAAACATCTTTATTCTTTGACTTGTAGCTCAATCC-AGATCATTTTTATTTCTTGACTT
17523007 GCGATCCAGT
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
69 4 0.04
70 93 0.89
71 8 0.08
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (70 bp):
CCCAAACATCTTTATTCTTTGACTTGTAGCTCAATCCAGATCATTTTTATTTCTTGACTTACAGC
TCAGT
Found at i:17523098 original size:35 final size:35
Alignment explanation
Indices: 17523059--17523137 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
17523049 AGTCTTGATT
** *
17523059 ATTCTTATTTCTTGACTTA-TGACTCAATCCCGGTC
1 ATTCTTATTTCTCAACTTACAG-CTCAATCCCGGTC
* *
17523094 ATTCTTATTTCTCAACTTACAGCTCAGTCTCGGTC
1 ATTCTTATTTCTCAACTTACAGCTCAATCCCGGTC
17523129 ATTCTTATT
1 ATTCTTATT
17523138 ACTAGAGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (35 bp):
ATTCTTATTTCTCAACTTACAGCTCAATCCCGGTC
Found at i:17523292 original size:35 final size:35
Alignment explanation
Indices: 17523253--17523321 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
17523243 TAAACTTATT
* *
17523253 GTTCAGTC-CTGATAATTCTTATTTCTTGACTTGCG
1 GTTCAGTCTC-GATAATTCTCATTTCTCGACTTGCG
* *
17523288 GTTCAGTTTCGATCATTCTCATTTCTCGACTTGC
1 GTTCAGTCTCGATAATTCTCATTTCTCGACTTGC
17523322 AACTTAGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (35 bp):
GTTCAGTCTCGATAATTCTCATTTCTCGACTTGCG
Found at i:17523364 original size:35 final size:34
Alignment explanation
Indices: 17523325--17523399 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 34
17523315 GACTTGCAAC
*
17523325 TTAGTCCTAGTCATTATTA-TTTTTCGACTTATGGT
1 TTAGTCCTAGTCATT-TTACTTCTT-GACTTATGGT
** * *
17523360 TTAGTTTTGGTCATTTTACTTCTTGATTTATGGT
1 TTAGTCCTAGTCATTTTACTTCTTGACTTATGGT
17523394 TTAGTC
1 TTAGTC
17523400 TAGATCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 17 0.52
35 16 0.48
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (34 bp):
TTAGTCCTAGTCATTTTACTTCTTGACTTATGGT
Found at i:17526077 original size:24 final size:23
Alignment explanation
Indices: 17526042--17526086 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
17526032 TAAAAATATG
17526042 TAAAAACAAAAA-CTCTAAAACTT
1 TAAAAACAAAAATCT-TAAAACTT
*
17526065 TAAAACACCAAAATCTTAAAAC
1 TAAAA-ACAAAAATCTTAAAAC
17526087 CTTGAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAAAACAAAAATCTTAAAACTT
Found at i:17526794 original size:24 final size:24
Alignment explanation
Indices: 17526758--17526806 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17526748 TTCGACGAAA
* *
17526758 AAAGGTATTTTTAAAATTTTGCCT
1 AAAGGTATATTTAAAATTCTGCCT
* *
17526782 AAAGTTATATTTAAAGTTCTGCCT
1 AAAGGTATATTTAAAATTCTGCCT
17526806 A
1 A
17526807 GATTCCAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (24 bp):
AAAGGTATATTTAAAATTCTGCCT
Found at i:17530599 original size:33 final size:31
Alignment explanation
Indices: 17530558--17530666 Score: 128
Period size: 32 Copynumber: 3.4 Consensus size: 31
17530548 AAATCCTTTG
17530558 TCATTTTAAAAAATTAAATAAAAATTTCTATA
1 TCATTTTAAAAAATTAAATAAAAATTTC-ATA
* *
17530590 TCAGTTTTAAAAAAATTAAATAAAAACTCCATA
1 TCA-TTTT-AAAAAATTAAATAAAAATTTCATA
** * *
17530623 TCATTTTAAAATGTTAAGTGAACAATTTCATA
1 TCATTTTAAAAAATTAAAT-AAAAATTTCATA
17530655 TCATTTTAAAAA
1 TCATTTTAAAAA
17530667 TAGATTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 9 0.14
32 27 0.42
33 10 0.15
34 19 0.29
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.38
Consensus pattern (31 bp):
TCATTTTAAAAAATTAAATAAAAATTTCATA
Found at i:17530709 original size:20 final size:19
Alignment explanation
Indices: 17530681--17530718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17530671 TTTATTAATA
*
17530681 TATTCAAAAATCTATTTTC
1 TATTCAAAAATATATTTTC
17530700 TATTCAAAAAATATATTTT
1 TATTC-AAAAATATATTTT
17530719 GAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTCAAAAATATATTTTC
Found at i:17530950 original size:30 final size:28
Alignment explanation
Indices: 17530916--17531019 Score: 82
Period size: 30 Copynumber: 3.4 Consensus size: 28
17530906 AATTAATAAA
* *
17530916 TTAATTTTCAAAGGATTTGAAAATTTTTAG
1 TTAATTTTAAAAGGATAT-AAAA-TTTTAG
*
17530946 TTAATATTTTAAAAGGATATAAAATTTTAT
1 TT-A-ATTTTAAAAGGATATAAAATTTTAG
** *
17530976 TTAATTTTTTAAACCGATATAAAAGTTTTTG
1 TTAA--TTTTAAAAGGATATAAAA-TTTTAG
17531007 CTTAATTTTAAAA
1 -TTAATTTTAAAA
17531020 AATTATATAG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 32 0.53
31 9 0.15
32 17 0.28
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (28 bp):
TTAATTTTAAAAGGATATAAAATTTTAG
Found at i:17535255 original size:21 final size:22
Alignment explanation
Indices: 17535230--17535272 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17535220 CGTATATTTA
* *
17535230 TATTTGTAT-CCTAGAATTAAG
1 TATTTATATCCCTAAAATTAAG
17535251 TATTTATATCCCTAAAATTAAG
1 TATTTATATCCCTAAAATTAAG
17535273 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (22 bp):
TATTTATATCCCTAAAATTAAG
Found at i:17536579 original size:103 final size:105
Alignment explanation
Indices: 17536436--17536641 Score: 317
Period size: 103 Copynumber: 2.0 Consensus size: 105
17536426 TGTGAACTTG
* * *
17536436 CAAAGCATAGACATGTTTTTTTTTTTTCAAATAGCAATAAAAGAAGTTCTACTCTTTTTTACTTG
1 CAAAGCATAGACA-GTTGTTTTTTTTTCAAATAGCAATAAAAGAAATTCTACTCCTTTTTACTTG
* * * *
17536501 CTTCATAGTGACATGGGCTCCCTCTACAATTCCTAATATTT
65 ATTCATAGTGACATAGGCTCCATCTACAATTCATAATATTT
17536542 CAAAGCATAGAC-G-TGTTTTTTTTTCAAATAGCAATAAAAGAAATTCTACTCCTTTTTACTTGA
1 CAAAGCATAGACAGTTGTTTTTTTTTCAAATAGCAATAAAAGAAATTCTACTCCTTTTTACTTGA
*
17536605 TTCATAGTGACATAGGTTCCATCTACAATTCATAATA
66 TTCATAGTGACATAGGCTCCATCTACAATTCATAATA
17536642 CTTCTGGTGC
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 79 0.86
104 1 0.01
106 12 0.13
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (105 bp):
CAAAGCATAGACAGTTGTTTTTTTTTCAAATAGCAATAAAAGAAATTCTACTCCTTTTTACTTGA
TTCATAGTGACATAGGCTCCATCTACAATTCATAATATTT
Found at i:17538521 original size:19 final size:19
Alignment explanation
Indices: 17538476--17538524 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 19
17538466 GAACTAGGGA
17538476 AATTGAAGTACTTCCTAGG
1 AATTGAAGTACTTCCTAGG
17538495 AGATTGAAGTACTTCCTAGG
1 A-ATTGAAGTACTTCCTAGG
17538515 AATTGAAGTA
1 AATTGAAGTA
17538525 GCTCACTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (19 bp):
AATTGAAGTACTTCCTAGG
Found at i:17550009 original size:2 final size:2
Alignment explanation
Indices: 17550002--17550041 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
17549992 TTTCTTTTCT
* * *
17550002 TA TA TA TA TA TA TG TA TA TA TA TT TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17550042 CAAACATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17550054 original size:4 final size:4
Alignment explanation
Indices: 17550047--17550080 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
17550037 ATATACAAAC
*
17550047 ATGT ATGT ATGT ATGT ATGT ATGT ATGT TTGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
17550081 TTCTTACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:17551258 original size:2 final size:2
Alignment explanation
Indices: 17551241--17551283 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
17551231 ACATACATGC
* *
17551241 AT AT AT AC AT AA 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
17551283 A
1 A
17551284 AACACACACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:17552567 original size:25 final size:25
Alignment explanation
Indices: 17552536--17552594 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 25
17552526 GAAGAAACAG
*
17552536 AAGAAGAAGAAAAAGGAATAAAATAAAA
1 AAGAAGAAGAAGAA-GAA-AAAA-AAAA
17552564 AAGAAGAAGAAGAAGAAAAAAAAAA
1 AAGAAGAAGAAGAAGAAAAAAAAAA
17552589 AAGAAG
1 AAGAAG
17552595 GTTTGGGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 10 0.33
26 4 0.13
27 3 0.10
28 13 0.43
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (25 bp):
AAGAAGAAGAAGAAGAAAAAAAAAA
Found at i:17553206 original size:58 final size:60
Alignment explanation
Indices: 17553076--17553210 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 60
17553066 ATCATAAAAC
*
17553076 AAAACGTCATATTTGATATAGAAAAATTTTGAAAACAAATACTACAACATTTTCATGTTGA
1 AAAACGTCATATTTGATATAGAAAAA-TATGAAAACAAATACTACAACATTTTCATGTTGA
** * *
17553137 AAAACACCATATTTGATATA-AAAAA-ATGAAAACAAATACTACAAC-GTTTCTATGTTGG
1 AAAACGTCATATTTGATATAGAAAAATATGAAAACAAATACTACAACATTTTC-ATGTTGA
*
17553195 AAAATGTCATATTTGA
1 AAAACGTCATATTTGA
17553211 GAAAACTCTG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 4 0.06
58 38 0.58
60 5 0.08
61 18 0.28
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (60 bp):
AAAACGTCATATTTGATATAGAAAAATATGAAAACAAATACTACAACATTTTCATGTTGA
Found at i:17556677 original size:15 final size:15
Alignment explanation
Indices: 17556657--17556716 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
17556647 AATTATTCTT
*
17556657 TGAATAGTTGTTTTG
1 TGAATAGTTGTTTTA
*
17556672 TGAATAGCTGTTTTA
1 TGAATAGTTGTTTTA
* *
17556687 TGAAAGAGTTGTTCTA
1 TG-AATAGTTGTTTTA
*
17556703 TGAATAATTGTTTT
1 TGAATAGTTGTTTT
17556717 GTAAAATAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 24 0.67
16 12 0.33
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.48
Consensus pattern (15 bp):
TGAATAGTTGTTTTA
Found at i:17557986 original size:14 final size:13
Alignment explanation
Indices: 17557954--17557996 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17557944 CATCATTTCC
17557954 ATTATTTTTTATT
1 ATTATTTTTTATT
*
17557967 AATATTCTTTTATT
1 ATTATT-TTTTATT
* *
17557981 TTTATTTATTATT
1 ATTATTTTTTATT
17557994 ATT
1 ATT
17557997 TTACATTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTATT
Found at i:17557993 original size:21 final size:20
Alignment explanation
Indices: 17557959--17557999 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
17557949 TTTCCATTAT
*
17557959 TTTTTATTAATATTCTTTTA
1 TTTTTATTAATATTATTTTA
*
17557979 TTTTTATTTATTATTATTTTA
1 TTTTTA-TTAATATTATTTTA
17558000 CATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATTAATATTATTTTA
Found at i:17558380 original size:64 final size:63
Alignment explanation
Indices: 17558274--17558420 Score: 160
Period size: 64 Copynumber: 2.3 Consensus size: 63
17558264 AAATTAGCTT
* * *
17558274 ACAAAAAA-TT-GAATAG-GATTATTGAAGGCAGTTTTGGCCAAAAA-CACTTTCAATAATCCAT
1 ACAAAAAATTTGGAA-AGAGATTTTTAAAGGCAGTTTTGGCCAAAAATCAC-TTCAATAATCCAA
* *
17558335 TCAAAAAAATTTGGAAAGAGATTTTTAAAGGCA-TTTTCGGCCAAAAATGACTTCAATAATCCAA
1 AC-AAAAAATTTGGAAAGAGATTTTTAAAGGCAGTTTT-GGCCAAAAATCACTTCAATAATCCAA
* *
17558399 ACAAAAAATTTTGAAAGGGATT
1 ACAAAAAATTTGGAAAGAGATT
17558421 ATTGAATATG
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
61 1 0.01
62 6 0.08
63 26 0.36
64 37 0.51
65 2 0.03
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (63 bp):
ACAAAAAATTTGGAAAGAGATTTTTAAAGGCAGTTTTGGCCAAAAATCACTTCAATAATCCAA
Done.