Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 101 of 147
Found at i:18551906 original size:13 final size:13
Alignment explanation
Indices: 18551888--18551916 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18551878 TTTTTCATAA
18551888 TTTACATGTTATT
1 TTTACATGTTATT
18551901 TTTACATGTTATT
1 TTTACATGTTATT
18551914 TTT
1 TTT
18551917 TGTTACCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TTTACATGTTATT
Found at i:18552819 original size:233 final size:235
Alignment explanation
Indices: 18552402--18552866 Score: 783
Period size: 233 Copynumber: 2.0 Consensus size: 235
18552392 AAGAAATTAT
***
18552402 TTTTGAAATAAATAATAAAATCCTCAATTTGTTTGGTAGTCTTTTTATATCAATGCATATCTCCT
1 TTTTGAAATAAATAATAAAATCCTCAATCCATTTGGTAGTCTTTTTATATCAATGCATATCTCCT
* *
18552467 AATCATTTAGTGGGATTTTTATTTAAAAACCTTTTTTAAAGATCATTAAATTTTTCAATAGATGG
66 AATCATTTAGTGAGATTTTTATTTAAAAACCTTTTTTAAAGATCATTAAATTTTTCAATAAATGG
*
18552532 GTAAGATTTAATTTGGAGATTTAAATTCTCCAATCGTTTGGTAGGATCACAAAATC-ATTTTTTT
131 GTAAGATTTAATTTGGAGATTTAAATTCTCCAATCATTTGGTAGGATCACAAAATCTATTTTTTT
18552596 TCCAAAATTCATTATAAAATTCTCTAATCGTTTGGTAGTC
196 TCCAAAATTCATTATAAAATTCTCTAATCGTTTGGTAGTC
*
18552636 TTTT-AAATCAAATAATAAAATCCTCCATCCATTTGGTAGTC-TTTTATATCAATGCATATCTCC
1 TTTTGAAAT-AAATAATAAAATCCTCAATCCATTTGGTAGTCTTTTTATATCAATGCATATCTCC
* * * *
18552699 TAATTATTTGGTGAGATTTTTATTTAAAAACTTTTTTTAAAGATCATTAAATTTTTTAATAAATG
65 TAATCATTTAGTGAGATTTTTATTTAAAAACCTTTTTTAAAGATCATTAAATTTTTCAATAAATG
*
18552764 GGTAAGATTTAATTTGGAGATTTAAATTCTCCAATCATTTGGTAGGATCACAAAATCTTTTTTTT
130 GGTAAGATTTAATTTGGAGATTTAAATTCTCCAATCATTTGGTAGGATCACAAAATCTATTTTTT
*
18552829 TTCCAAAATTCATTATAAAATTCTCTAATTGTTTGGTA
195 TTCCAAAATTCATTATAAAATTCTCTAATCGTTTGGTA
18552867 AAATTCATAA
Statistics
Matches: 216, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
233 141 0.65
234 75 0.35
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (235 bp):
TTTTGAAATAAATAATAAAATCCTCAATCCATTTGGTAGTCTTTTTATATCAATGCATATCTCCT
AATCATTTAGTGAGATTTTTATTTAAAAACCTTTTTTAAAGATCATTAAATTTTTCAATAAATGG
GTAAGATTTAATTTGGAGATTTAAATTCTCCAATCATTTGGTAGGATCACAAAATCTATTTTTTT
TCCAAAATTCATTATAAAATTCTCTAATCGTTTGGTAGTC
Found at i:18553031 original size:100 final size:100
Alignment explanation
Indices: 18552833--18553020 Score: 223
Period size: 100 Copynumber: 1.9 Consensus size: 100
18552823 TTTTTTTTCC
* * * * * * * *
18552833 AAAATTCATTATAAAATTCTCTAATTGTTTGGTAAAATTCATAATTCAAGACTTAAAATCCTCTA
1 AAAATTCATCATAAAATTCTCTAATTATTTGATAAAATTCATAAGTAAAAAATTAAAATCCTCCA
* *
18552898 ATTATTTGGTAGGATTGAAAAATATATATTTTTAA
66 ATCATTTGGTAGGATTGAAAAAGATATATTTTTAA
* * * *
18552933 AAAATTCATCATGAAATTCTCTAATTATTTGATAGAATTCATAAGTAAAAAATTCCTAAATTCTC
1 AAAATTCATCATAAAATTCTCTAATTATTTGATAAAATTCATAAGTAAAAAATT--AAAATCCTC
18552998 CAATCATTTGGTAGGATTAGAAA
64 CAATCATTTGGTAGGATT-GAAA
18553021 CGATAATTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
100 45 0.62
102 23 0.32
103 4 0.06
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (100 bp):
AAAATTCATCATAAAATTCTCTAATTATTTGATAAAATTCATAAGTAAAAAATTAAAATCCTCCA
ATCATTTGGTAGGATTGAAAAAGATATATTTTTAA
Found at i:18554333 original size:14 final size:14
Alignment explanation
Indices: 18554314--18554357 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18554304 CCAGATCAAT
18554314 AAATAAATTAAATG
1 AAATAAATTAAATG
*
18554328 AAATAAATATAAAAG
1 AAATAAAT-TAAATG
* *
18554343 AAAAAAAGTAAATG
1 AAATAAATTAAATG
18554357 A
1 A
18554358 TAACAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
AAATAAATTAAATG
Found at i:18554916 original size:32 final size:32
Alignment explanation
Indices: 18554824--18554924 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
18554814 ATGTGATCAG
* *
18554824 ATTGAACCAAGGTCAAAAATGAAAATGA-TCGA
1 ATTGAAACAAGGTAAAAAATGAAAATGACT-GA
* *
18554856 ATTGAATCAAGGTAAAAAAT-AAGGATGACTGA
1 ATTGAAACAAGGTAAAAAATGAA-AATGACTGA
* *
18554888 ATT-AAACAAAGGTTAAAAATGAAAATGACTCA
1 ATTGAAAC-AAGGTAAAAAATGAAAATGACTGA
18554920 ATTGA
1 ATTGA
18554925 GCCTAAGTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
31 5 0.09
32 48 0.84
33 4 0.07
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (32 bp):
ATTGAAACAAGGTAAAAAATGAAAATGACTGA
Found at i:18554935 original size:64 final size:63
Alignment explanation
Indices: 18554828--18555038 Score: 184
Period size: 64 Copynumber: 3.3 Consensus size: 63
18554818 GATCAGATTG
* *
18554828 AACCAAGGTCAAAAATGAAAATGA-TCGAATTGA-ATCAAGGTAAAAAATAAGGATGACTGAATT
1 AACCAAGGTTAAAAAT-AAAATGACTC-AATTGAGCT-AAGGTAAAAAATAAGGATGACTGAATT
18554891 A
63 A
* * * *
18554892 AACAAAGGTTAAAAATGAAAATGACTCAATTGAGCCTAA-GT-AAAAA-AAGGATGACAGGATTG
1 AACCAAGGTTAAAAAT-AAAATGACTCAATTGAG-CTAAGGTAAAAAATAAGGATGACTGAATTA
* * * * *
18554954 AACCAACGTCAAAAAATAAAGGTGAC-CAGATAGAGTTAAGGTAAAAAATAAGGATGA-TCGAAT
1 AACCAAGGT-TAAAAATAAA-ATGACTCA-ATTGAGCTAAGGTAAAAAATAAGGATGACT-GAAT
18555017 TA
62 TA
*
18555019 AGCCAAGGTTAAAAATAAAA
1 AACCAAGGTTAAAAATAAAA
18555039 GAGATCGGAC
Statistics
Matches: 118, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
62 28 0.24
63 22 0.19
64 44 0.37
65 23 0.19
66 1 0.01
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (63 bp):
AACCAAGGTTAAAAATAAAATGACTCAATTGAGCTAAGGTAAAAAATAAGGATGACTGAATTA
Found at i:18555027 original size:32 final size:33
Alignment explanation
Indices: 18554830--18555084 Score: 96
Period size: 32 Copynumber: 8.0 Consensus size: 33
18554820 TCAGATTGAA
* *
18554830 CCAAGGTCAAAAATGAA-AATGATCGAATTGAA-
1 CCAAGGTAAAAAATGAAGGATGATCGAATT-AAG
* *
18554862 TCAAGGTAAAAAAT-AAGGATGA-CTGAATTAAA
1 CCAAGGTAAAAAATGAAGGATGATC-GAATTAAG
* * * *
18554894 CAAAGGTTAAAAATGAA-AATGACTC-AATTGAG
1 CCAAGGTAAAAAATGAAGGATGA-TCGAATTAAG
*
18554926 CCTAA-GT-AAAAA--AAGGATGA-CAGGATTGAA-
1 CC-AAGGTAAAAAATGAAGGATGATC-GAATT-AAG
* * *
18554956 CCAACGTCAAAAAATAAAGG-TGA-CCAGA-TAGAG
1 CCAAGGT-AAAAAATGAAGGATGATCGA-ATTA-AG
**
18554989 TTAAGGTAAAAAAT-AAGGATGATCGAATTAAG
1 CCAAGGTAAAAAATGAAGGATGATCGAATTAAG
* * * * **
18555021 CCAAGGTTAAAAATAAAAGA-GATCGGACCAAG
1 CCAAGGTAAAAAATGAAGGATGATCGAATTAAG
* *
18555053 CCAAGGTCAAAAAATGAAAG-TGATTGAATTAA
1 CCAAGGT-AAAAAATGAAGGATGATCGAATTAA
18555085 ACTGGATTGA
Statistics
Matches: 166, Mismatches: 32, Indels: 49
0.67 0.13 0.20
Matches are distributed among these distances:
28 1 0.01
29 4 0.02
30 11 0.07
31 16 0.10
32 91 0.55
33 38 0.23
34 5 0.03
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.19
Consensus pattern (33 bp):
CCAAGGTAAAAAATGAAGGATGATCGAATTAAG
Found at i:18555372 original size:98 final size:97
Alignment explanation
Indices: 18555217--18555410 Score: 210
Period size: 98 Copynumber: 2.0 Consensus size: 97
18555207 AAGGTGACCT
* * * * * *
18555217 AACTAAATCAAGGCCGAAAATAAATTATCAGGATTGAACCAAGGTCAAAAATAAAAATGACTGGA
1 AACTAAATCAAGGCCGAAAATAAATGATCAAGACTGAACCAAGGTAAAAAACAAAAATGACTGAA
* * *
18555282 TTGAGCCATAAGTCAAAAAAATTAAATAACTTG
66 TTAAACAATAAGTC-AAAAAATTAAATAACTTG
** * * * *
18555315 AACTAAATTGAGGTCGAAAATAAGTGATCAAGACTGAACCACA-GTAAAAAACGAAAATGATTGA
1 AACTAAATCAAGGCCGAAAATAAATGATCAAGACTGAACCA-AGGTAAAAAACAAAAATGACTGA
* *
18555379 ATTAAACAATGAGTCAAAAAATTAAATGACTT
65 ATTAAACAATAAGTCAAAAAATTAAATAACTT
18555411 AGACTGAACT
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
97 16 0.21
98 61 0.78
99 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (97 bp):
AACTAAATCAAGGCCGAAAATAAATGATCAAGACTGAACCAAGGTAAAAAACAAAAATGACTGAA
TTAAACAATAAGTCAAAAAATTAAATAACTTG
Found at i:18555649 original size:17 final size:17
Alignment explanation
Indices: 18555627--18555660 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18555617 ATAAAAAATT
*
18555627 ATCTTTTTAAAATTTCC
1 ATCTTTTGAAAATTTCC
*
18555644 ATCTTTTGACAATTTCC
1 ATCTTTTGAAAATTTCC
18555661 CTCAACTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (17 bp):
ATCTTTTGAAAATTTCC
Found at i:18555750 original size:9 final size:9
Alignment explanation
Indices: 18555733--18555786 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
18555723 ACTTTTTGTT
18555733 TGCAATGAA
1 TGCAATGAA
*
18555742 TGTAATGAA
1 TGCAATGAA
*
18555751 TGCCATGAA
1 TGCAATGAA
*
18555760 TGCAATGCA
1 TGCAATGAA
18555769 TG--A--AA
1 TGCAATGAA
18555774 TGCAATGAA
1 TGCAATGAA
18555783 TGCA
1 TGCA
18555787 TCCATAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
5 3 0.09
7 2 0.06
9 30 0.86
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (9 bp):
TGCAATGAA
Found at i:18555766 original size:23 final size:23
Alignment explanation
Indices: 18555736--18555786 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
18555726 TTTTGTTTGC
*
18555736 AATG-AATGTAATG-AATGCCATG
1 AATGCAATG-AATGAAATGCAATG
*
18555758 AATGCAATGCATGAAATGCAATG
1 AATGCAATGAATGAAATGCAATG
18555781 AATGCA
1 AATGCA
18555787 TCCATAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.24
Consensus pattern (23 bp):
AATGCAATGAATGAAATGCAATG
Found at i:18555775 original size:14 final size:13
Alignment explanation
Indices: 18555733--18555780 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
18555723 ACTTTTTGTT
*
18555733 TGCAATGAATGTAA
1 TGCAATGCATG-AA
18555747 TG-AATGCCATGAA
1 TGCAATG-CATGAA
18555760 TGCAATGCATGAAA
1 TGCAATGCATG-AA
18555774 TGCAATG
1 TGCAATG
18555781 AATGCATCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (13 bp):
TGCAATGCATGAA
Found at i:18556497 original size:19 final size:19
Alignment explanation
Indices: 18556452--18556529 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 19
18556442 CTTTTTCCCT
*
18556452 TTTTTTCACTTTTCACTTTTCA
1 TTTTTTCATTTTTCA--TTT-A
*
18556474 TTTTTCCATTTTTCATTTA
1 TTTTTTCATTTTTCATTTA
* *
18556493 TTTTTTTATTTTTCATTCA
1 TTTTTTCATTTTTCATTTA
18556512 TTTTTTCATTTTTCATTT
1 TTTTTTCATTTTTCATTT
18556530 TCTTTTGCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 33 0.67
20 3 0.06
22 13 0.27
ACGTcount: A:0.14, C:0.15, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTCATTTTTCATTTA
Found at i:18556525 original size:7 final size:7
Alignment explanation
Indices: 18556453--18556530 Score: 69
Period size: 7 Copynumber: 11.6 Consensus size: 7
18556443 TTTTTCCCTT
18556453 TTTTTCA
1 TTTTTCA
*
18556460 CTTTTCA
1 TTTTTCA
*
18556467 CTTTTCA
1 TTTTTCA
18556474 TTTTTCCA
1 TTTTT-CA
18556482 TTTTTCA
1 TTTTTCA
18556489 TTTATT--
1 TTT-TTCA
18556495 TTTTT-A
1 TTTTTCA
18556501 TTTTTCA
1 TTTTTCA
18556508 ---TTCA
1 TTTTTCA
18556512 TTTTTTCA
1 -TTTTTCA
18556520 TTTTTCA
1 TTTTTCA
18556527 TTTT
1 TTTT
18556531 CTTTTGCTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
4 4 0.07
5 2 0.03
6 8 0.13
7 34 0.56
8 13 0.21
ACGTcount: A:0.14, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:18560330 original size:22 final size:22
Alignment explanation
Indices: 18560286--18560331 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
18560276 AAATTAATTC
**
18560286 TAAAACTAAATTACTAAGTAAT
1 TAAAACTAAATTACTAACAAAT
* *
18560308 TAAACCTAAGTTACTAACAAAT
1 TAAAACTAAATTACTAACAAAT
18560330 TA
1 TA
18560332 TGAAATTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (22 bp):
TAAAACTAAATTACTAACAAAT
Found at i:18560555 original size:19 final size:19
Alignment explanation
Indices: 18560531--18560567 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18560521 TATTATTTAC
*
18560531 CCTGAATGGTAACTTAAAT
1 CCTGAATGGTAACCTAAAT
18560550 CCTGAATGGTAACCTAAA
1 CCTGAATGGTAACCTAAA
18560568 CCCCAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (19 bp):
CCTGAATGGTAACCTAAAT
Found at i:18560709 original size:18 final size:16
Alignment explanation
Indices: 18560686--18560722 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
18560676 TTATAAACTT
18560686 AAATTAACATACAAATTA
1 AAATTAACA-AC-AATTA
18560704 AAATTAACAACAATTA
1 AAATTAACAACAATTA
18560720 AAA
1 AAA
18560723 CTTAGCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTAACAACAATTA
Found at i:18567404 original size:31 final size:31
Alignment explanation
Indices: 18567369--18567445 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
18567359 TACTTTAGCT
18567369 TTTTAACTCATGTTTCATAGATTAGGCTTAA
1 TTTTAACTCATGTTTCATAGATTAGGCTTAA
*
18567400 TTTTAACTCATGTTTCATAGATTAGGCTTAC
1 TTTTAACTCATGTTTCATAGATTAGGCTTAA
18567431 TTTTCAA-TCATGTTT
1 TTTT-AACTCATGTTT
18567446 TACTTAATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (31 bp):
TTTTAACTCATGTTTCATAGATTAGGCTTAA
Found at i:18575044 original size:40 final size:39
Alignment explanation
Indices: 18574966--18575044 Score: 88
Period size: 40 Copynumber: 2.0 Consensus size: 39
18574956 AGAATATTTT
* ****
18574966 AAATTTTGGATGTGAAACCCAAAATTTTTTTTCGAATGA
1 AAATTTTGGATGTGAAACCCAAAAGTTTTTGAAAAATGA
18575005 AAATCTTTGGATGTGAAA-CCATAAAGTTTTTGAAAAATGA
1 AAAT-TTTGGATGTGAAACCCA-AAAGTTTTTGAAAAATGA
18575045 CCTTTGAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (39 bp):
AAATTTTGGATGTGAAACCCAAAAGTTTTTGAAAAATGA
Found at i:18575127 original size:22 final size:22
Alignment explanation
Indices: 18575079--18575127 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18575069 TCTAAAATTT
* *
18575079 TTTTGAATGTGAATTTTTGAAA
1 TTTTGAATGTGAAATCTTGAAA
* * *
18575101 CTTTGGATGTGAAATCTTGGAA
1 TTTTGAATGTGAAATCTTGAAA
18575123 TTTTG
1 TTTTG
18575128 CGGCTGAGAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.47
Consensus pattern (22 bp):
TTTTGAATGTGAAATCTTGAAA
Found at i:18575648 original size:17 final size:17
Alignment explanation
Indices: 18575628--18575688 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
18575618 CTCACAAATT
*
18575628 TGAAGTTCTTGTGAACC
1 TGAAATTCTTGTGAACC
*
18575645 TGAAATTCTTGTGAATC
1 TGAAATTCTTGTGAACC
* * *
18575662 T-ATAGTTCTTTTGAACT
1 TGA-AATTCTTGTGAACC
18575679 TGAAATTCTT
1 TGAAATTCTT
18575689 ACGAATCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
16 1 0.03
17 33 0.94
18 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (17 bp):
TGAAATTCTTGTGAACC
Found at i:18575695 original size:34 final size:34
Alignment explanation
Indices: 18575631--18575696 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
18575621 ACAAATTTGA
**
18575631 AGTTCTTGTGAACCTGAAATTCTTGTGAATCTAT
1 AGTTCTTGTGAACCTGAAATTCTTACGAATCTAT
* *
18575665 AGTTCTTTTGAACTTGAAATTCTTACGAATCT
1 AGTTCTTGTGAACCTGAAATTCTTACGAATCT
18575697 TCATTCATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (34 bp):
AGTTCTTGTGAACCTGAAATTCTTACGAATCTAT
Found at i:18580130 original size:21 final size:20
Alignment explanation
Indices: 18580084--18580131 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
18580074 AGGTATGAAA
18580084 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
18580105 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
18580126 TTTTGA
1 TTTTGA
18580132 TGAGTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:18583670 original size:16 final size:16
Alignment explanation
Indices: 18583651--18583685 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18583641 TATGATAACA
* *
18583651 TATCTTTAACAATTGG
1 TATCCTTAACAATTAG
18583667 TATCCTTAACAATTAG
1 TATCCTTAACAATTAG
18583683 TAT
1 TAT
18583686 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTAG
Found at i:18584377 original size:223 final size:223
Alignment explanation
Indices: 18584003--18584434 Score: 810
Period size: 223 Copynumber: 1.9 Consensus size: 223
18583993 CTCTCCTTTT
* **
18584003 TTTTTTTTTTTGCAATGACAAAAACGGGGAGAGTTTATGTTTATTTCTTTTTGTATGCTTATAGC
1 TTTTTTTTTTTGCAATGACAAAAACGGGGAGAGTTTATGCTTATTTCTTTTTGTACACTTATAGC
18584068 AATTGATATAGGAGCTTAAACATTTGGTATAAAAAGCATAAACAAAAAGGATGAGAAATGTTTCT
66 AATTGATATAGGAGCTTAAACATTTGGTATAAAAAGCATAAACAAAAAGGATGAGAAATGTTTCT
18584133 TGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTCAATAATATGCTCATGCCTTTTTG
131 TGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTCAATAATATGCTCATGCCTTTTTG
18584198 CTATGACAAAAAAATGAATTGATCTCTC
196 CTATGACAAAAAAATGAATTGATCTCTC
* *
18584226 TTTTTTTTTTTGTAATGACAAAAATGGGGAGAGTTTATGCTTATTTCTTTTTGTACACTTATAGC
1 TTTTTTTTTTTGCAATGACAAAAACGGGGAGAGTTTATGCTTATTTCTTTTTGTACACTTATAGC
18584291 AATTGATATAGGAGCTTAAACATTTGGTATAAAAAGCATAAACAAAAAGGATGAGAAATGTTTCT
66 AATTGATATAGGAGCTTAAACATTTGGTATAAAAAGCATAAACAAAAAGGATGAGAAATGTTTCT
18584356 TGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTCAATAATATGCTCATGCCTTTTTG
131 TGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTCAATAATATGCTCATGCCTTTTTG
*
18584421 TTATGACAAAAAAA
196 CTATGACAAAAAAA
18584435 GGGAGAAATA
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
223 203 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (223 bp):
TTTTTTTTTTTGCAATGACAAAAACGGGGAGAGTTTATGCTTATTTCTTTTTGTACACTTATAGC
AATTGATATAGGAGCTTAAACATTTGGTATAAAAAGCATAAACAAAAAGGATGAGAAATGTTTCT
TGAATATATTTGTTAATGATGCCTCTTTGTGTTTATTTGCTCAATAATATGCTCATGCCTTTTTG
CTATGACAAAAAAATGAATTGATCTCTC
Found at i:18585876 original size:36 final size:36
Alignment explanation
Indices: 18585824--18585894 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
18585814 AGGCAAACAC
* *
18585824 TTAGCCTTTGAGAGGTGTTCTAAGTTAGCATTTTTT
1 TTAGCCTTTAAAAGGTGTTCTAAGTTAGCATTTTTT
*
18585860 TTAGCCTTTAAAAGGTGTTCTAAGTTTGCATTTTT
1 TTAGCCTTTAAAAGGTGTTCTAAGTTAGCATTTTT
18585895 ATTAAGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (36 bp):
TTAGCCTTTAAAAGGTGTTCTAAGTTAGCATTTTTT
Found at i:18587438 original size:17 final size:17
Alignment explanation
Indices: 18587411--18587471 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 17
18587401 CAATAATAAT
*
18587411 ATAATATATCATGTAATA
1 ATAATA-ATCATGCAATA
* *
18587429 ATAATAATCATACAAAA
1 ATAATAATCATGCAATA
18587446 ATAATATAATCATGCAATA
1 AT-A-ATAATCATGCAATA
18587465 AT-ATAAT
1 ATAATAAT
18587472 ATATGAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
16 5 0.14
17 10 0.28
18 7 0.19
19 14 0.39
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAATAATCATGCAATA
Found at i:18587456 original size:19 final size:20
Alignment explanation
Indices: 18587425--18587474 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
18587415 TATATCATGT
18587425 AATAATAATAATCATACAA-A
1 AATAAT-ATAATCATACAATA
*
18587445 AATAATATAATCATGCAATA
1 AATAATATAATCATACAATA
18587465 ATATAATATA
1 A-ATAATATA
18587475 TGAATTATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.41
20 8 0.30
21 8 0.30
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (20 bp):
AATAATATAATCATACAATA
Found at i:18587466 original size:16 final size:16
Alignment explanation
Indices: 18587411--18587471 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
18587401 CAATAATAAT
*
18587411 ATAATAT-ATCATGTA
1 ATAATATAATCATGCA
*
18587426 ATAATAATAATCATACAAAA
1 ATAAT-ATAATCATGC---A
18587446 ATAATATAATCATGCA
1 ATAATATAATCATGCA
18587462 ATAATATAAT
1 ATAATATAAT
18587472 ATATGAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
15 5 0.13
16 13 0.34
17 5 0.13
19 9 0.24
20 6 0.16
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (16 bp):
ATAATATAATCATGCA
Found at i:18587614 original size:15 final size:15
Alignment explanation
Indices: 18587594--18587633 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
18587584 AATCTACCAT
*
18587594 TTAAAATAATAACTA
1 TTAAAATAATAAATA
18587609 TTAAAAT-ATAAATA
1 TTAAAATAATAAATA
*
18587623 TAAAAATAATA
1 TTAAAATAATA
18587634 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAAATAATAAATA
Found at i:18587636 original size:13 final size:13
Alignment explanation
Indices: 18587601--18587641 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
18587591 CATTTAAAAT
18587601 AATAACTAT-TAAA
1 AATAA-TATATAAA
18587614 ATATAA-ATATAAA
1 A-ATAATATATAAA
18587627 AATAATATATAAA
1 AATAATATATAAA
18587640 AA
1 AA
18587642 ATAGAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 15 0.60
14 4 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATATATAAA
Found at i:18587642 original size:14 final size:14
Alignment explanation
Indices: 18587595--18587644 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
18587585 ATCTACCATT
18587595 TAAAATAATAACTAT-
1 TAAAA-AATAA-TATA
*
18587610 TAAAATATAA-ATA
1 TAAAAAATAATATA
18587623 T-AAAAATAATATA
1 TAAAAAATAATATA
18587636 TAAAAAATA
1 TAAAAAATA
18587645 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 9 0.30
13 5 0.17
14 11 0.37
15 5 0.17
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAAATAATATA
Found at i:18587693 original size:27 final size:27
Alignment explanation
Indices: 18587637--18587703 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
18587627 AATAATATAT
* *
18587637 AAAAAATAGAAAAAGAAATCAAGAAGA
1 AAAAAATAGAAAAAGAAATAAACAAGA
* *
18587664 AAAAAATTGAAATAGAAAATAAAC-A-A
1 AAAAAATAGAAAAAG-AAATAAACAAGA
18587690 AAAAAA-AGAAAAAG
1 AAAAAATAGAAAAAG
18587704 GAAAACTTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 6 0.18
26 7 0.21
27 14 0.42
28 6 0.18
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (27 bp):
AAAAAATAGAAAAAGAAATAAACAAGA
Found at i:18588260 original size:16 final size:17
Alignment explanation
Indices: 18588236--18588274 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
18588226 ACCAAGAACA
* *
18588236 CAAATAAAAAA-AATCC
1 CAAAAAAAAAACAAACC
18588252 CAAAAAAAAAACAAACC
1 CAAAAAAAAAACAAACC
18588269 CAAAAA
1 CAAAAA
18588275 CTATGTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.74, C:0.21, G:0.00, T:0.05
Consensus pattern (17 bp):
CAAAAAAAAAACAAACC
Found at i:18589305 original size:17 final size:17
Alignment explanation
Indices: 18589283--18589351 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
18589273 ATTCACATGA
*
18589283 TTTAGATTTGCAAGAAC
1 TTTAGATTTGCAAGAAT
** *
18589300 TTTAGATTCACAAGAGT
1 TTTAGATTTGCAAGAAT
*
18589317 TTTATG-TTTTCAAGAAT
1 TTTA-GATTTGCAAGAAT
*
18589334 TTTAGGTTTGCAAGAAT
1 TTTAGATTTGCAAGAAT
18589351 T
1 T
18589352 CAGTTTCACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 1 0.02
17 40 0.95
18 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (17 bp):
TTTAGATTTGCAAGAAT
Found at i:18589404 original size:17 final size:17
Alignment explanation
Indices: 18589327--18589434 Score: 83
Period size: 17 Copynumber: 6.4 Consensus size: 17
18589317 TTTATGTTTT
* *
18589327 CAAGAATTTTAGGTTTG
1 CAAGAATTTCAGGTTCG
* *
18589344 CAAGAA-TTCAGTTTCA
1 CAAGAATTTCAGGTTCG
*** *
18589360 CAAGAACTAAAAGATTCG
1 CAAGAA-TTTCAGGTTCG
* * *
18589378 TAAGACTTTCAGGTTCT
1 CAAGAATTTCAGGTTCG
18589395 CAAGAATTTCAGGTTCG
1 CAAGAATTTCAGGTTCG
* *
18589412 CAAGAATTTCAGTTTTG
1 CAAGAATTTCAGGTTCG
18589429 CAAGAA
1 CAAGAA
18589435 CTTAAAGATT
Statistics
Matches: 68, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
16 12 0.18
17 47 0.69
18 9 0.13
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (17 bp):
CAAGAATTTCAGGTTCG
Found at i:18589433 original size:34 final size:34
Alignment explanation
Indices: 18589293--18589437 Score: 100
Period size: 34 Copynumber: 4.3 Consensus size: 34
18589283 TTTAGATTTG
* * * *
18589293 CAAGAACTTTAGATTCACAAGAGTTTTATGTTTT
1 CAAGAACTTTAGATTCGCAAGAATTTCAGGTTTT
* * * *
18589327 CAAGAATTTTAGGTTTGCAAGAA-TTCA-GTTTCA
1 CAAGAACTTTAGATTCGCAAGAATTTCAGGTTT-T
** * * *
18589360 CAAGAACTAAAAGATTCGTAAGACTTTCAGGTTCT
1 CAAGAACT-TTAGATTCGCAAGAATTTCAGGTTTT
*
18589395 CAAGAA-TTTCAGGTTCGCAAGAATTTCA-GTTTT
1 CAAGAACTTT-AGATTCGCAAGAATTTCAGGTTTT
18589428 GCAAGAACTT
1 -CAAGAACTT
18589438 AAAGATTTGC
Statistics
Matches: 82, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
32 4 0.05
33 14 0.17
34 49 0.60
35 12 0.15
36 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (34 bp):
CAAGAACTTTAGATTCGCAAGAATTTCAGGTTTT
Found at i:18589456 original size:69 final size:69
Alignment explanation
Indices: 18589326--18589526 Score: 235
Period size: 69 Copynumber: 2.9 Consensus size: 69
18589316 TTTTATGTTT
* * *
18589326 TCAAGAATTTTAGGTTTGCAAGAA-TTCAGTTTCACAAGAACTAAAAGATTCGTAAGACTTTCAG
1 TCAAGAATTTCAGGTTCGCAAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAG
18589390 -GTTC
66 AG-TC
** * * *
18589394 TCAAGAATTTCAGGTTCGCAAGAATTTCAGTTTTGCAAGAACTTAAAGATTTGCAAGGCTTTCAG
1 TCAAGAATTTCAGGTTCGCAAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAG
18589459 AGTC
66 AGTC
* * * * ** * *
18589463 GCAAGACTCTCAGATTCATAAGAATTTCAGTTTCACAAGAACTCAAAGATTCACAAGACTTTCA
1 TCAAGAATTTCAGGTTCGCAAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCA
18589527 AATTCGTGAG
Statistics
Matches: 111, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
68 22 0.20
69 88 0.79
70 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (69 bp):
TCAAGAATTTCAGGTTCGCAAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAG
AGTC
Found at i:18589485 original size:17 final size:17
Alignment explanation
Indices: 18589464--18589522 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
18589454 TTCAGAGTCG
18589464 CAAGACTCTCAGATTCA
1 CAAGACTCTCAGATTCA
* * * *
18589481 TAAGAATTTCAGTTTCA
1 CAAGACTCTCAGATTCA
**
18589498 CAAGAACTCAAAGATTCA
1 CAAG-ACTCTCAGATTCA
18589516 CAAGACT
1 CAAGACT
18589523 TTCAAATTCG
Statistics
Matches: 31, Mismatches: 10, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
17 19 0.61
18 12 0.39
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (17 bp):
CAAGACTCTCAGATTCA
Found at i:18589543 original size:52 final size:52
Alignment explanation
Indices: 18589464--18589591 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 52
18589454 TTCAGAGTCG
*
18589464 CAAGACTCTCAGATTCATAAGAATTTCAG-TTTCACAAGAACTCAAAGATTCA
1 CAAGACTCTCAAATTCATAAGAATTTCAGTTTTC-CAAGAACTCAAAGATTCA
* * * * * **
18589516 CAAGACTTTCAAATTCGTGAGAATTTCAGTTTTCTAAGAATTCAAAGATTTG
1 CAAGACTCTCAAATTCATAAGAATTTCAGTTTTCCAAGAACTCAAAGATTCA
* * *
18589568 CAAGAAT-TCATATTCACAAGAATT
1 CAAGACTCTCAAATTCATAAGAATT
18589592 GCAAGATTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
51 13 0.21
52 45 0.73
53 4 0.06
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (52 bp):
CAAGACTCTCAAATTCATAAGAATTTCAGTTTTCCAAGAACTCAAAGATTCA
Found at i:18589554 original size:69 final size:69
Alignment explanation
Indices: 18589345--18589557 Score: 216
Period size: 69 Copynumber: 3.1 Consensus size: 69
18589335 TTAGGTTTGC
* * *
18589345 AAGAA-TTCAGTTTCACAAGAACTAAAAGATTCGTAAGACTTTCAGGTTC-TCAAGAATTTCAGG
1 AAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAGATTCGT-AAGAATTTCAGA
**
18589408 TTCGC
65 TTCAT
** * * * * * * *
18589413 AAGAATTTCAGTTTTGCAAGAACTTAAAGATTTGCAAGGCTTTCAGAGTCGCAAGACTCTCAGAT
1 AAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAGATTCGTAAGAATTTCAGAT
18589478 TCAT
66 TCAT
* * * * *
18589482 AAGAATTTCAGTTTCACAAGAACTCAAAGATTCACAAGACTTTCAAATTCGTGAGAATTTCAGTT
1 AAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAGATTCGTAAGAATTTCAG-A
18589547 TTC-T
65 TTCAT
18589551 AAGAATT
1 AAGAATT
18589558 CAAAGATTTG
Statistics
Matches: 115, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
68 5 0.04
69 107 0.93
70 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (69 bp):
AAGAATTTCAGTTTCACAAGAACTAAAAGATTCGCAAGACTTTCAGATTCGTAAGAATTTCAGAT
TCAT
Found at i:18589679 original size:17 final size:18
Alignment explanation
Indices: 18589626--18589686 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
18589616 TCTCAAGAGC
* *
18589626 TCAAAGTTTCATAAGAAT
1 TCAAAATTTCGTAAGAAT
* *
18589644 TCAAAATTTTGTAAAAAT
1 TCAAAATTTCGTAAGAAT
*
18589662 TCCAAA-TTCGTAAGAAT
1 TCAAAATTTCGTAAGAAT
*
18589679 TGAAAATT
1 TCAAAATT
18589687 CATGAAACTA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (18 bp):
TCAAAATTTCGTAAGAAT
Found at i:18589687 original size:17 final size:17
Alignment explanation
Indices: 18589637--18589687 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
18589627 CAAAGTTTCA
*
18589637 TAAGAATTCAAAATTTTG
1 TAAGAATTCAAAA-TTCG
* *
18589655 TAAAAATTCCAAATTCG
1 TAAGAATTCAAAATTCG
*
18589672 TAAGAATTGAAAATTC
1 TAAGAATTCAAAATTC
18589688 ATGAAACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 16 0.59
18 11 0.41
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
TAAGAATTCAAAATTCG
Found at i:18589966 original size:45 final size:45
Alignment explanation
Indices: 18589915--18590201 Score: 219
Period size: 45 Copynumber: 6.3 Consensus size: 45
18589905 AAGATTTTGA
* * *
18589915 TTGAAAAA-CTTAGGGATTCACATTAGAAACTTCAAAGATTCACAT
1 TTGAAAAATTTTAGGGATTCACATTA-AAATTTCAAAGATTCTCAT
*
18589960 TTGAAAAATTTTA-GTATTTCACATCTAAAATTTCAAATG-TTCTCA-
1 TTGAAAAATTTTAGGGA-TTCACAT-TAAAATTTCAAA-GATTCTCAT
* *
18590005 TTAAAAAATTTTAGGGATTCACATTAAAATTTCAAAGATTCTTAT
1 TTGAAAAATTTTAGGGATTCACATTAAAATTTCAAAGATTCTCAT
* * * *
18590050 TTGAAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCTTAT
1 TTGAAAAATTTTAGGGATTCACAT-TAAAATTTCAAAGATTCTCAT
** * ** * *
18590096 TCAAAAAAATTTTAGGGTTTTGCATAAAAAATTTTAAAGATT-T-ACT
1 T-TGAAAAATTTTAGGGATTCACAT-TAAAATTTCAAAGATTCTCA-T
** * * * *
18590142 CTAAAAAAATTTTAGAGATTC-CTAATAAAAATTCAAATATTCTCAT
1 -TTGAAAAATTTTAGGGATTCAC-ATTAAAATTTCAAAGATTCTCAT
*
18590188 TTGAAAGATTTTAG
1 TTGAAAAATTTTAG
18590202 TGACTATACC
Statistics
Matches: 198, Mismatches: 30, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 17 0.09
45 76 0.38
46 67 0.34
47 37 0.19
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (45 bp):
TTGAAAAATTTTAGGGATTCACATTAAAATTTCAAAGATTCTCAT
Found at i:18590056 original size:90 final size:92
Alignment explanation
Indices: 18589924--18590112 Score: 260
Period size: 90 Copynumber: 2.1 Consensus size: 92
18589914 ATTGAAAAAC
* *
18589924 TTAGGGATTCACATTAGAAACTTCAAAGATTCACATTTGAAAAATTTTAGTA-TTTCACATCTAA
1 TTAGGGATTCACATTAGAAACTTCAAAGATTCACATTTGAAAAATTTTAG-AGATTCACATCCAA
18589988 AATTTCAAATG-TTCTCATT-AAAAAATT
65 AATTTCAAA-GATTCTCATTAAAAAAATT
* **
18590015 TTAGGGATTCACATTA-AAATTTCAAAGATTCTTATTTGAAAAATTTTAGAGATTCACATCCAAA
1 TTAGGGATTCACATTAGAAACTTCAAAGATTCACATTTGAAAAATTTTAGAGATTCACATCCAAA
* *
18590079 ATTTTAAAGATTCTTATTCAAAAAAATT
66 ATTTCAAAGATTCTCATT-AAAAAAATT
18590107 TTAGGG
1 TTAGGG
18590113 TTTTGCATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
89 2 0.02
90 55 0.63
91 16 0.18
92 14 0.16
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (92 bp):
TTAGGGATTCACATTAGAAACTTCAAAGATTCACATTTGAAAAATTTTAGAGATTCACATCCAAA
ATTTCAAAGATTCTCATTAAAAAAATT
Found at i:18590100 original size:22 final size:22
Alignment explanation
Indices: 18590030--18590101 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
18590020 GATTCACATT
* *
18590030 AAAATTTCAAAGATTCTTATTTGA
1 AAAATTTTAAAGATTCTTA-TT-C
* ** *
18590054 AAAATTTTAGAGATTCACATCC
1 AAAATTTTAAAGATTCTTATTC
18590076 AAAATTTTAAAGATTCTTATTC
1 AAAATTTTAAAGATTCTTATTC
18590098 AAAA
1 AAAA
18590102 AAATTTTAGG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 22 0.58
23 1 0.03
24 15 0.39
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAATTTTAAAGATTCTTATTC
Found at i:18590127 original size:47 final size:46
Alignment explanation
Indices: 18590007--18590162 Score: 165
Period size: 46 Copynumber: 3.4 Consensus size: 46
18589997 TGTTCTCATT
* * *
18590007 AAAAAATTTTAGGGATTCACATTAAAATTTCAAAGATTCTTATT-T
1 AAAAAATTTTAGGGATTCACATAAAAATTTTAAAGATTCTTATTCA
* * *
18590052 GAAAAATTTTAGAGATTCACATCCAAAATTTTAAAGATTCTTATTCA
1 AAAAAATTTTAGGGATTCACAT-AAAAATTTTAAAGATTCTTATTCA
* ** *
18590099 AAAAAATTTTAGGGTTTTGCATAAAAAATTTTAAAGA-T-TTACTCTA
1 AAAAAATTTTAGGGATTCACAT-AAAAATTTTAAAGATTCTTATTC-A
*
18590145 AAAAAATTTTAGAGATTC
1 AAAAAATTTTAGGGATTC
18590163 CTAATAAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
45 25 0.27
46 37 0.40
47 30 0.33
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (46 bp):
AAAAAATTTTAGGGATTCACATAAAAATTTTAAAGATTCTTATTCA
Found at i:18590170 original size:47 final size:47
Alignment explanation
Indices: 18590007--18590172 Score: 130
Period size: 47 Copynumber: 3.6 Consensus size: 47
18589997 TGTTCTCATT
* * * **
18590007 AAAAAATTTTAGGGATTC-ACAT-TAAAATTTCAAAGATTCTTA-TTT
1 AAAAAATTTTAGAGATTCTA-ATAAAAAATTTTAAAGATTCTTACTCA
* ** *
18590052 GAAAAATTTTAGAGATTC-ACATCCAAAATTTTAAAGATTCTTATTCA
1 AAAAAATTTTAGAGATTCTA-ATAAAAAATTTTAAAGATTCTTACTCA
* * *
18590099 AAAAAATTTTAG-GGTTTTGCATAAAAAATTTTAAAGA-T-TTACTCTA
1 AAAAAATTTTAGAGATTCT-AATAAAAAATTTTAAAGATTCTTACTC-A
18590145 AAAAAATTTTAGAGATTCCTAATAAAAA
1 AAAAAATTTTAGAGATT-CTAATAAAAA
18590173 TTCAAATATT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
45 25 0.26
46 35 0.36
47 37 0.38
48 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (47 bp):
AAAAAATTTTAGAGATTCTAATAAAAAATTTTAAAGATTCTTACTCA
Found at i:18591617 original size:15 final size:15
Alignment explanation
Indices: 18591597--18591648 Score: 70
Period size: 15 Copynumber: 3.4 Consensus size: 15
18591587 TTTCTTTATC
18591597 TTTTTTCTTCTTTTT
1 TTTTTTCTTCTTTTT
18591612 TTTTTT-TCTCTTTTT
1 TTTTTTCT-TCTTTTT
*
18591627 TCTTTTTCATCTTTTT
1 T-TTTTTCTTCTTTTT
18591643 TTTTTT
1 TTTTTT
18591649 TGCATTTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.03
15 19 0.58
16 13 0.39
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTCTTTTT
Found at i:18591624 original size:31 final size:31
Alignment explanation
Indices: 18591589--18591649 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
18591579 CCCATCAATT
*
18591589 TCTTTATCT-TTTTTCTTCTTTTTTTTTTTTC
1 TCTTT-TCTCTTTTTCATCTTTTTTTTTTTTC
*
18591620 TCTTTTTTCTTTTTCATCTTTTTTTTTTTT
1 TCTTTTCTCTTTTTCATCTTTTTTTTTTTT
18591650 GCATTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (31 bp):
TCTTTTCTCTTTTTCATCTTTTTTTTTTTTC
Found at i:18591639 original size:9 final size:8
Alignment explanation
Indices: 18591589--18591642 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 8
18591579 CCCATCAATT
*
18591589 TCTTTATC
1 TCTTTTTC
18591597 T-TTTTTC
1 TCTTTTTC
18591604 TTCTTTTT-
1 -TCTTTTTC
*
18591612 TTTTTTTC
1 TCTTTTTC
18591620 TCTTTTT-
1 TCTTTTTC
18591627 TCTTTTTC
1 TCTTTTTC
18591635 ATCTTTTT
1 -TCTTTTT
18591643 TTTTTTTGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
7 18 0.47
8 8 0.21
9 12 0.32
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.80
Consensus pattern (8 bp):
TCTTTTTC
Found at i:18591657 original size:16 final size:16
Alignment explanation
Indices: 18591597--18591649 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
18591587 TTTCTTTATC
*
18591597 TTTTTTCTTCTTTTTT
1 TTTTTTCATCTTTTTT
18591613 TTTTTTC-TCTTTTTT
1 TTTTTTCATCTTTTTT
*
18591628 CTTTTTCATCTTTTTT
1 TTTTTTCATCTTTTTT
18591644 TTTTTT
1 TTTTTT
18591650 GCATTTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 14 0.41
16 20 0.59
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTCATCTTTTTT
Found at i:18591657 original size:31 final size:31
Alignment explanation
Indices: 18591598--18591657 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
18591588 TTCTTTATCT
* *
18591598 TTTTTCTTCTTTTTTTTTTTTCTCTTTTTTC
1 TTTTTCATCTTTTTTTTTTTTCTATTTTTTC
18591629 TTTTTCATCTTTTTTTTTTTTGC-ATTTTT
1 TTTTTCATCTTTTTTTTTTTT-CTATTTTT
18591658 CATCATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (31 bp):
TTTTTCATCTTTTTTTTTTTTCTATTTTTTC
Found at i:18591920 original size:55 final size:55
Alignment explanation
Indices: 18591840--18591952 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
18591830 TTCTTTTTGT
* *
18591840 GAAGGGTAGAAGAAAGATAGCTAGTTTTATCTCAAACATGAATACTCTCAATGAA
1 GAAGGGTAGAAGAAAGATAACTAGTTTTATCTCAAACACGAATACTCTCAATGAA
*
18591895 GAAGGGTAGAGGAAAGATAACTAGTTTTATCTCAAACACGAATACTCTCAATGAA
1 GAAGGGTAGAAGAAAGATAACTAGTTTTATCTCAAACACGAATACTCTCAATGAA
18591950 GAA
1 GAA
18591953 CATTTATTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.24
Consensus pattern (55 bp):
GAAGGGTAGAAGAAAGATAACTAGTTTTATCTCAAACACGAATACTCTCAATGAA
Found at i:18597919 original size:40 final size:40
Alignment explanation
Indices: 18597864--18597944 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
18597854 AGAGCCCAGA
* *
18597864 CCACCCGCACATCATTTAGGCCTACCTGTACAACCGGAGC
1 CCACCCGCACATCATTTAGGCCTACCCGTACAACCAGAGC
18597904 CCACCCGCACATCATTTAGGCCTACCCGTACAACCAGAGC
1 CCACCCGCACATCATTTAGGCCTACCCGTACAACCAGAGC
18597944 C
1 C
18597945 AAGCCTGCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (40 bp):
CCACCCGCACATCATTTAGGCCTACCCGTACAACCAGAGC
Found at i:18598887 original size:2 final size:2
Alignment explanation
Indices: 18598880--18598908 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18598870 AATCAATTCT
18598880 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
18598909 TTTCAGAACA
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:18599083 original size:15 final size:14
Alignment explanation
Indices: 18599057--18599090 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
18599047 TTATTATTCT
18599057 TTATTAATCTTTTA
1 TTATTAATCTTTTA
18599071 TTATTATATCTTTTA
1 TTATTA-ATCTTTTA
18599086 TTATT
1 TTATT
18599091 TAATAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTAATCTTTTA
Found at i:18599125 original size:3 final size:3
Alignment explanation
Indices: 18599117--18599154 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
18599107 TCTAGACAAA
* *
18599117 ATT ATT ATT ATT ATT ATT ATT ATT AGT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18599155 AACTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:18600832 original size:3 final size:3
Alignment explanation
Indices: 18600824--18600858 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18600814 TTTTGTAATT
18600824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18600859 TTGTTTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18601366 original size:36 final size:37
Alignment explanation
Indices: 18601260--18601367 Score: 109
Period size: 36 Copynumber: 3.0 Consensus size: 37
18601250 CCATGAATAG
* ** *
18601260 AAAATAAAGATGATTGAGATTAAACCGTA-AGTC-AA
1 AAAATAAAGACGACCGAGATTGAACCGTACAGTCAAA
* **
18601295 AAAATAAAGACGACCAAGATTGAAATGT-CAGTCAAA
1 AAAATAAAGACGACCGAGATTGAACCGTACAGTCAAA
18601331 AAAATAAAGGACGA-CGAGATTGAACCGTACA-TCAAA
1 AAAATAAA-GACGACCGAGATTGAACCGTACAGTCAAA
18601367 A
1 A
18601368 GATCAAGATG
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
35 25 0.42
36 27 0.46
37 7 0.12
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.18
Consensus pattern (37 bp):
AAAATAAAGACGACCGAGATTGAACCGTACAGTCAAA
Found at i:18609994 original size:21 final size:20
Alignment explanation
Indices: 18609962--18610001 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
18609952 ATTTTAGTAT
18609962 TTTAGTTCCATACCATTTACC
1 TTTAGTTCCATA-CATTTACC
18609983 TTTATGTT-CATACATTTAC
1 TTTA-GTTCCATACATTTAC
18610002 ATGTCATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTAGTTCCATACATTTACC
Found at i:18610082 original size:20 final size:20
Alignment explanation
Indices: 18610041--18610082 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
18610031 GGGTAAATTG
* *
18610041 CAATTTTATTTCTTTTTGTT
1 CAATTTAATTTCTATTTGTT
18610061 CAATTTAATTTCATATTT-TT
1 CAATTTAATTTC-TATTTGTT
18610081 CA
1 CA
18610083 TGAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.62
Consensus pattern (20 bp):
CAATTTAATTTCTATTTGTT
Found at i:18610205 original size:17 final size:16
Alignment explanation
Indices: 18610164--18610206 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
18610154 TTCTTTCCTT
* *
18610164 TTTTAGCAACTTTCTA
1 TTTTAGTAACTTTCCA
18610180 TTTTAAGTAACTTTCCA
1 TTTT-AGTAACTTTCCA
18610197 CTTTTAGTAA
1 -TTTTAGTAA
18610207 GTTTTAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (16 bp):
TTTTAGTAACTTTCCA
Found at i:18612934 original size:3 final size:3
Alignment explanation
Indices: 18612926--18612966 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
18612916 CATGTTTTAA
18612926 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18612967 CTCTGCTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18613000 original size:3 final size:3
Alignment explanation
Indices: 18612994--18613055 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
18612984 AAAATTATTA
* * *
18612994 AAT AAT AA- AA- AAT -AT AAT AAT AA- AAG ATT AAT ATAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
18613036 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
18613056 AAGATTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 8 0.16
3 39 0.78
4 3 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18624638 original size:24 final size:25
Alignment explanation
Indices: 18624585--18624643 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
18624575 TTCAAAATCC
18624585 TATTTTATTACTTTATTATTTTTCA
1 TATTTTATTACTTTATTATTTTTCA
* *
18624610 TATTTTATT-CTTTATTCTTTATTTA
1 TATTTTATTACTTTATTATTT-TTCA
18624635 -ATTTTATTA
1 TATTTTATTA
18624644 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 18 0.60
25 12 0.40
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTTTATTACTTTATTATTTTTCA
Found at i:18625169 original size:53 final size:53
Alignment explanation
Indices: 18625073--18625174 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 53
18625063 TATATATATA
* * * * *
18625073 TTTTTCAGAACAATATCATTTTTCATAGTTTCCAAAAGCTAATTCTTATATTT
1 TTTTTCAAAACAAGATCATTTTTAATAATTTCCAAAAACTAATTCTTATATTT
* * * *
18625126 TTTTTCAAAACAAGCTCATTTTTAATAATTTTCAAAAATTAATTTTTAT
1 TTTTTCAAAACAAGATCATTTTTAATAATTTCCAAAAACTAATTCTTAT
18625175 GTTATATATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (53 bp):
TTTTTCAAAACAAGATCATTTTTAATAATTTCCAAAAACTAATTCTTATATTT
Found at i:18625228 original size:3 final size:3
Alignment explanation
Indices: 18625220--18625275 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
18625210 TAATCTTTTA
* *
18625220 ATT ATT ATT A-T ATT ATT ATT ATTT ATT AAT CTT -TT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
18625263 ATT -TT -TT ATT ATT
1 ATT ATT ATT ATT ATT
18625276 TAATAATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 10 0.22
3 32 0.71
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:18625236 original size:11 final size:11
Alignment explanation
Indices: 18625220--18625265 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
18625210 TAATCTTTTA
18625220 ATTATTATTAT
1 ATTATTATTAT
18625231 ATTATTATTAT
1 ATTATTATTAT
* *
18625242 -TTATTAATCT
1 ATTATTATTAT
*
18625252 TTTATTATTAT
1 ATTATTATTAT
18625263 ATT
1 ATT
18625266 TTTTATTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:18625239 original size:14 final size:14
Alignment explanation
Indices: 18625220--18625274 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
18625210 TAATCTTTTA
18625220 ATTATTATTATATT
1 ATTATTATTATATT
18625234 ATTATTATTTATTAATCT
1 ATTATTA-TTA-T-AT-T
*
18625252 TTTATTATTATATT
1 ATTATTATTATATT
18625266 -TT-TTATTAT
1 ATTATTATTAT
18625275 TTAATAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 7 0.19
13 2 0.06
14 8 0.22
15 5 0.14
16 2 0.06
17 5 0.14
18 7 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:18625245 original size:18 final size:17
Alignment explanation
Indices: 18625220--18625275 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 17
18625210 TAATCTTTTA
18625220 ATTATTATTATATTATT
1 ATTATTATTATATTATT
*
18625237 ATTATTTATTA-A-TCTT
1 ATTA-TTATTATATTATT
18625253 -TTATTATTATATT-TT
1 ATTATTATTATATTATT
18625268 -TTATTATT
1 ATTATTATT
18625276 TAATAATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.17
15 14 0.40
16 4 0.11
17 5 0.14
18 6 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTATTATTATATTATT
Found at i:18625247 original size:21 final size:21
Alignment explanation
Indices: 18625221--18625262 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18625211 AATCTTTTAA
*
18625221 TTATTATTATATTATTATTAT
1 TTATTAATATATTATTATTAT
* *
18625242 TTATTAATCTTTTATTATTAT
1 TTATTAATATATTATTATTAT
18625263 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTAATATATTATTATTAT
Found at i:18625262 original size:32 final size:33
Alignment explanation
Indices: 18625210--18625282 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 33
18625200 TCCTTTCCAT
*
18625210 TAATCTTTTAATTATTATTATATTATTATTATTTAT
1 TAATCTTTT-ATTATTA-TAT-TTATTATTATTTAA
*
18625246 TAATCTTTTATTATTATATTTTTTATTATTTAA
1 TAATCTTTTATTATTATATTTATTATTATTTAA
18625279 TAAT
1 TAAT
18625283 TTCTAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 16 0.46
34 3 0.09
35 7 0.20
36 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (33 bp):
TAATCTTTTATTATTATATTTATTATTATTTAA
Found at i:18625311 original size:3 final size:3
Alignment explanation
Indices: 18625303--18625352 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
18625293 TTAGGTAGAG
18625303 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18625351 TT
1 TT
18625353 TTAAAACATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18631657 original size:12 final size:12
Alignment explanation
Indices: 18631640--18631672 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18631630 AGACTTAGAA
18631640 GATGATGATAAT
1 GATGATGATAAT
18631652 GATGATGATAAT
1 GATGATGATAAT
*
18631664 AATGATGAT
1 GATGATGAT
18631673 GATCATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (12 bp):
GATGATGATAAT
Found at i:18631660 original size:15 final size:15
Alignment explanation
Indices: 18631640--18631687 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
18631630 AGACTTAGAA
*
18631640 GATGATGATAATGAT
1 GATGATAATAATGAT
18631655 GATGATAATAATGAT
1 GATGATAATAATGAT
18631670 GATGATCATATAATGAT
1 GATGAT-A-ATAATGAT
18631687 G
1 G
18631688 GTTTCTACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 20 0.67
16 1 0.03
17 9 0.30
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (15 bp):
GATGATAATAATGAT
Found at i:18644662 original size:16 final size:15
Alignment explanation
Indices: 18644636--18644680 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 15
18644626 TAAGAATGGA
18644636 AAAACAAAAAAAAAAG
1 AAAA-AAAAAAAAAAG
18644652 TAAAAAAAAAAAAAAG
1 -AAAAAAAAAAAAAAG
18644668 AAACAAAGAAAAA
1 AAA-AAA-AAAAA
18644681 GTCGTGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 9 0.35
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:18646193 original size:3 final size:3
Alignment explanation
Indices: 18646185--18646219 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18646175 AAAATCTTTC
18646185 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18646220 AAAAACAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18648116 original size:14 final size:14
Alignment explanation
Indices: 18648097--18648125 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18648087 TAAAACTTCA
18648097 AAAACCCATCTATG
1 AAAACCCATCTATG
18648111 AAAACCCATCTATG
1 AAAACCCATCTATG
18648125 A
1 A
18648126 GCACTCTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAACCCATCTATG
Found at i:18649234 original size:27 final size:27
Alignment explanation
Indices: 18649166--18649249 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
18649156 ATTTTTAATT
*
18649166 TTTTGTTATCTTTTT-TTATCATTTATTA
1 TTTT-TTATATTTTTATT-TCATTTATTA
**
18649194 --TTTT-TATTGCTATTTCATTTATTA
1 TTTTTTATATTTTTATTTCATTTATTA
** *
18649218 TTTTTTATATTTTTATTTGGTTTTTTA
1 TTTTTTATATTTTTATTTCATTTATTA
18649245 TTTTT
1 TTTTT
18649250 AAAAATTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
24 14 0.32
25 4 0.09
26 6 0.14
27 20 0.45
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (27 bp):
TTTTTTATATTTTTATTTCATTTATTA
Found at i:18649277 original size:17 final size:17
Alignment explanation
Indices: 18649256--18649294 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
18649246 TTTTAAAAAT
18649256 TTTTTAATTCAAATTTAA
1 TTTTTAATT-AAATTTAA
* *
18649274 TTTTTTATTTAATTTAA
1 TTTTTAATTAAATTTAA
18649291 TTTT
1 TTTT
18649295 ATATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATTAAATTTAA
Found at i:18649663 original size:11 final size:11
Alignment explanation
Indices: 18649646--18649780 Score: 99
Period size: 11 Copynumber: 11.6 Consensus size: 11
18649636 ATTTTTTGTC
18649646 TTGTTTTTTTT
1 TTGTTTTTTTT
* *
18649657 TTCTTTTTTTG
1 TTGTTTTTTTT
*
18649668 TTGTTTATGTTT
1 TTGTTT-TTTTT
* **
18649680 ATGTTTTGGTT
1 TTGTTTTTTTT
*
18649691 TTATTTTTATTT
1 TTGTTTTT-TTT
* *
18649703 TTATTTTGTTT
1 TTGTTTTTTTT
*
18649714 TTATATTTTTTT
1 TTGT-TTTTTTT
*
18649726 TGGTTTTTTGTT
1 TTGTTTTTT-TT
18649738 TTGTTTTTTTGTT
1 TTG-TTTTTT-TT
18649751 TTGGTTTTTTTT
1 TT-GTTTTTTTT
*
18649763 TTGTTTGTTTT
1 TTGTTTTTTTT
18649774 TTGTTTT
1 TTGTTTT
18649781 GGTTCTGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
11 49 0.49
12 33 0.33
13 17 0.17
14 1 0.01
ACGTcount: A:0.05, C:0.01, G:0.13, T:0.81
Consensus pattern (11 bp):
TTGTTTTTTTT
Found at i:18649734 original size:12 final size:12
Alignment explanation
Indices: 18649719--18649823 Score: 81
Period size: 13 Copynumber: 8.6 Consensus size: 12
18649709 TGTTTTTATA
18649719 TTTTTTTTGGTT
1 TTTTTTTTGGTT
*
18649731 TTTTGTTTTGTTT
1 TTTT-TTTTGGTT
18649744 TTTTGTTTTGGTT
1 TTTT-TTTTGGTT
18649757 TTTTTTTT-GTT
1 TTTTTTTTGGTT
*
18649768 TGTTTTTT-GTT
1 TTTTTTTTGGTT
** *
18649779 TTGGTTCTGGTT
1 TTTTTTTTGGTT
* *
18649791 TTTCTTTCT-ATT
1 TTT-TTTTTGGTT
18649803 TTTGTTTTTGGTT
1 TTT-TTTTTGGTT
18649816 TTTGTTTT
1 TTT-TTTT
18649824 AAGGTTTGGG
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
11 17 0.22
12 22 0.29
13 37 0.49
ACGTcount: A:0.01, C:0.03, G:0.17, T:0.79
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:18649739 original size:13 final size:13
Alignment explanation
Indices: 18649719--18649784 Score: 82
Period size: 13 Copynumber: 5.0 Consensus size: 13
18649709 TGTTTTTATA
18649719 TTTT-TTTTGGTT
1 TTTTGTTTTGGTT
*
18649731 TTTTGTTTTGTTT
1 TTTTGTTTTGGTT
18649744 TTTTGTTTTGGTT
1 TTTTGTTTTGGTT
18649757 TTTT-TTTTGTTTGTT
1 TTTTGTTTTG---GTT
18649772 TTTTGTTTTGGTT
1 TTTTGTTTTGGTT
18649785 CTGGTTTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
12 9 0.19
13 26 0.55
15 7 0.15
16 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (13 bp):
TTTTGTTTTGGTT
Found at i:18649739 original size:17 final size:16
Alignment explanation
Indices: 18649637--18649775 Score: 72
Period size: 17 Copynumber: 8.2 Consensus size: 16
18649627 AAAACCCTCA
18649637 TTTTTTGTCTTGTTT-TT
1 TTTTTTGT-TT-TTTGTT
18649654 TTTTTCT-TTTTTTGTT
1 TTTTT-TGTTTTTTGTT
* * *
18649670 GTTTATG-TTTATGTT
1 TTTTTTGTTTTTTGTT
*
18649685 TTGGTTTTATTTTTAT-TT
1 TT--TTTTGTTTTT-TGTT
*
18649703 TTATTTTGTTTTTATATT
1 TT-TTTTGTTTTT-TGTT
18649721 TTTTTTGGTTTTTTGTT
1 TTTTTT-GTTTTTTGTT
*
18649738 TTGTTTTTTTGTTTTGGTT
1 TT-TTTTGTT-TTTT-GTT
*
18649757 TTTTTT-TTGTTTGTT
1 TTTTTTGTTTTTTGTT
18649772 TTTT
1 TTTT
18649776 GTTTTGGTTC
Statistics
Matches: 98, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
15 19 0.19
16 10 0.10
17 33 0.34
18 30 0.31
19 6 0.06
ACGTcount: A:0.05, C:0.01, G:0.13, T:0.81
Consensus pattern (16 bp):
TTTTTTGTTTTTTGTT
Found at i:18649812 original size:6 final size:6
Alignment explanation
Indices: 18649646--18649823 Score: 100
Period size: 6 Copynumber: 30.2 Consensus size: 6
18649636 ATTTTTTGTC
* * * * *
18649646 TTGTTT TT-TTT TTCTTT TT-TTG TTGTTT ATGTTT ATG-TT TTGGTT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT
* * * * *
18649691 TTATTT TTATTT TT-ATT TTGTTT TTATATT TT-TTT TGGTTTT TTGTTT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGT-TT TTGTTT TTG-TTT TTGTTT
* * * * *
18649739 TGTTTTT TTGTTT TGGTTT TT-TTT TTGTTT GT-TTT TTGTTT TGGTTC
1 T-TGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT
* * * *
18649786 TGGTTT TTCTTT CTATTT TTGTTT TTGGTTT TTGTTT T
1 TTGTTT TTGTTT TTGTTT TTGTTT TT-GTTT TTGTTT T
18649824 AAGGTTTGGG
Statistics
Matches: 135, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
5 29 0.21
6 86 0.64
7 20 0.15
ACGTcount: A:0.04, C:0.02, G:0.15, T:0.79
Consensus pattern (6 bp):
TTGTTT
Found at i:18649893 original size:36 final size:36
Alignment explanation
Indices: 18649852--18649930 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
18649842 ACGAGTCAAT
*
18649852 AATAAAGAACA-ATCAAAATAACA-CTGTAAGTCAAAA
1 AATAAAGAA-AGATCAAAACAACATC-GTAAGTCAAAA
**
18649888 AATAAAGAAATGATCAGGACAACATCGTAAGTCAAAA
1 AATAAAGAAA-GATCAAAACAACATCGTAAGTCAAAA
18649925 AATAAA
1 AATAAA
18649931 AAATGATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 1 0.03
36 9 0.24
37 26 0.70
38 1 0.03
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.16
Consensus pattern (36 bp):
AATAAAGAAAGATCAAAACAACATCGTAAGTCAAAA
Found at i:18649935 original size:36 final size:37
Alignment explanation
Indices: 18649877--18649955 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
18649867 AAATAACACT
18649877 GTAAGTCAAAAAATAAAGAAATGATCA-GGACAACATC
1 GTAAGTCAAAAAATAAAGAAATGAT-AGGGACAACATC
*
18649914 GTAAGTCAAAAAATAAA-AAATGATAGGGACAATATC
1 GTAAGTCAAAAAATAAAGAAATGATAGGGACAACATC
*
18649950 GCAAGT
1 GTAAGT
18649956 AATTATAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 21 0.54
37 17 0.44
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (37 bp):
GTAAGTCAAAAAATAAAGAAATGATAGGGACAACATC
Found at i:18650031 original size:36 final size:36
Alignment explanation
Indices: 18649991--18650059 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
18649981 CGTAAATTTA
*
18649991 AAAATAAAGAATGA-CTGAGACAATACCATAAGTTAG
1 AAAATAAAGAATGAGC-AAGACAATACCATAAGTTAG
*
18650027 AAAATAAAGAATGAGCAAGATAATACCATAAGT
1 AAAATAAAGAATGAGCAAGACAATACCATAAGT
18650060 CAAGTAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.16, T:0.19
Consensus pattern (36 bp):
AAAATAAAGAATGAGCAAGACAATACCATAAGTTAG
Found at i:18650155 original size:37 final size:37
Alignment explanation
Indices: 18650112--18650265 Score: 118
Period size: 37 Copynumber: 4.2 Consensus size: 37
18650102 AAGTACAACT
* *
18650112 GGGACAACACCGCAAGTCAAGTAATTAAAAAACGATC
1 GGGACAACACCGTAAGTCAAGAAATTAAAAAACGATC
*** * *
18650149 GGGACAACATTATAAGTCAAAAAATGAAGAACAAC--T-
1 GGGACAACACCGTAAGTCAAGAAATTAA-AA-AACGATC
* * * *
18650185 GGGACAACACTGTAAGTCAA-AAAATAAATAATGATC
1 GGGACAACACCGTAAGTCAAGAAATTAAAAAACGATC
* * * *
18650221 GAGAAAACACCGTAAGTCAAGTAATTAAAGAACGATC
1 GGGACAACACCGTAAGTCAAGAAATTAAAAAACGATC
*
18650258 GAGACAAC
1 GGGACAAC
18650266 TCTATAAATC
Statistics
Matches: 90, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
33 2 0.02
34 1 0.01
35 6 0.07
36 35 0.39
37 41 0.46
38 2 0.02
39 3 0.03
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (37 bp):
GGGACAACACCGTAAGTCAAGAAATTAAAAAACGATC
Found at i:18650201 original size:36 final size:36
Alignment explanation
Indices: 18650064--18650537 Score: 167
Period size: 36 Copynumber: 13.2 Consensus size: 36
18650054 ATAAGTCAAG
* * *
18650064 TAAAGAACAACTAGGACAATA-TCGCAAGTTAAAAAA
1 TAAAGAACAACTGGGACAACACT-GCAAGTCAAAAAA
* * * *
18650100 TAAAGTACAACTGGGACAACACCGCAAGTCAAGTAAT
1 TAAAGAACAACTGGGACAACACTGCAAGTCAA-AAAA
* * * **
18650137 TAAAAAACGA-TCGGGACAACATTATAAGTCAAAAAA
1 TAAAGAACAACT-GGGACAACACTGCAAGTCAAAAAA
* *
18650173 TGAAGAACAACTGGGACAACACTGTAAGTCAAAAAA
1 TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
* ** * * * * * *
18650209 TAAATAATGA-TCGAGAAAACACCGTAAGTCAAGTAAT
1 TAAAGAACAACT-GGGACAACACTGCAAGTCAA-AAAA
* * * ** *
18650246 TAAAGAACGA-TCGAGACAACTCTATAAATCAAAAAA
1 TAAAGAACAACT-GGGACAACACTGCAAGTCAAAAAA
* * * * *
18650282 TAAAGAACAACCGAGATAATACTGCAAGTTAAAAAA
1 TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
*** * ** * * *
18650318 TAAAGAATGGCCGAAACAACACCGTAAGTC---AAG
1 TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
** * ** *
18650351 TAAAGAA-TGCTTGGACAACACTATAAGTCAGAAAA
1 TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
* * ** ***
18650386 TAAAGAACGACCGGGACAGTACCATAAGTCAAAAAA
1 TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
*** ** * *
18650422 TAAAGAATGCCTAAGACAACACTGCAAGTCAAGTAAT
1 TAAAGAACAACTGGGACAACACTGCAAGTCAA-AAAA
* * *
18650459 TAAAGAACAA-TCGAGATAATACTGCAAGTCAAAAAA
1 TAAAGAACAACT-GGGACAACACTGCAAGTCAAAAAA
* * * *
18650495 TAAAGAACAACTAGGATAACACCT-TAAGTCAGAAAA
1 TAAAGAACAACTGGGACAACA-CTGCAAGTCAAAAAA
18650531 TAAAGAA
1 TAAAGAA
18650538 TGATCGGGAT
Statistics
Matches: 324, Mismatches: 99, Indels: 30
0.72 0.22 0.07
Matches are distributed among these distances:
32 15 0.05
33 9 0.03
35 10 0.03
36 208 0.64
37 82 0.25
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (36 bp):
TAAAGAACAACTGGGACAACACTGCAAGTCAAAAAA
Found at i:18650533 original size:213 final size:213
Alignment explanation
Indices: 18650150--18650606 Score: 499
Period size: 213 Copynumber: 2.1 Consensus size: 213
18650140 AAAACGATCG
* * * ** *
18650150 GGACAACATTATAAGTCAAAAAATGAAGAACAACTGGGACAACACTGTAAGTCAAAAAATAAATA
1 GGACAACACTATAAGTCAAAAAATAAAGAACAACCGGGACAACACCATAAGTCAAAAAATAAAGA
* * * *
18650215 ATGATCGAGAAAACACCGTAAGTCAAGTAATTAAAGAACGATCGAGACAACTCTATAAATCAAAA
66 ATGATCAAGAAAACACCGCAAGTCAAGTAATTAAAGAACAATCGAGACAACTCTACAAATCAAAA
* * * * *
18650280 AATAAAGAACAACCGAGATAATACTGCAAGTTAAAAAATAAAGAATGGCCGAAACAACACCGTAA
131 AATAAAGAACAACAGAGATAACACTGCAAGTCAAAAAATAAAGAATGACCGAAACAACACCATAA
18650345 GTCAAGTAAAGAATGCTT
196 GTCAAGTAAAGAATGCTT
* * **
18650363 GGACAACACTATAAGTCAGAAAATAAAGAACGACCGGGACAGTACCATAAGTCAAAAAATAAAGA
1 GGACAACACTATAAGTCAAAAAATAAAGAACAACCGGGACAACACCATAAGTCAAAAAATAAAGA
* * * * * *
18650428 ATG-CCTAAGACAACACTGCAAGTCAAGTAATTAAAGAACAATCGAGATAA-TACTGCAAGTCAA
66 ATGATC-AAGAAAACACCGCAAGTCAAGTAATTAAAGAACAATCGAGACAACT-CTACAAATCAA
* * * ** *
18650491 AAAATAAAGAACAACTAG-GATAACACCT-TAAGTCAGAAAATAAAGAATGATCGGGATAACACC
129 AAAATAAAGAACAAC-AGAGATAACA-CTGCAAGTCAAAAAATAAAGAATGACCGAAACAACACC
* * **
18650554 ATAAGTTAAGTAAAGAATAACCG
192 ATAAGTCAAGTAAAGAAT-GCTT
* * *
18650577 GGACAACATTACAAGTTAAAAAATAAAGAA
1 GGACAACACTATAAGTCAAAAAATAAAGAA
18650607 TGACTAAGAC
Statistics
Matches: 200, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
212 2 0.01
213 168 0.84
214 30 0.15
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (213 bp):
GGACAACACTATAAGTCAAAAAATAAAGAACAACCGGGACAACACCATAAGTCAAAAAATAAAGA
ATGATCAAGAAAACACCGCAAGTCAAGTAATTAAAGAACAATCGAGACAACTCTACAAATCAAAA
AATAAAGAACAACAGAGATAACACTGCAAGTCAAAAAATAAAGAATGACCGAAACAACACCATAA
GTCAAGTAAAGAATGCTT
Found at i:18650566 original size:109 final size:109
Alignment explanation
Indices: 18649962--18650566 Score: 444
Period size: 109 Copynumber: 5.6 Consensus size: 109
18649952 AAGTAATTAT
** * * ** * * * *
18649962 AGAACAACTAAGACAACACCGTAAATTTAAAAATAAAGAATGACTGAGACAATACCATAAGT-TA
1 AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCAA
* * * * * * * *
18650026 GAAAATAAAGAATGAGCAAGATAATACCATAAGTC---AAGTAA
66 GTAATTAAAGAACGATCGAGACAATACTATAAGTCAAAAAATAA
* * * * * ** * * *
18650067 AGAACAACTAGGACAATA-TCGCAAGTTAAAAAATAAAGTACAACTGGGACAACACCGCAAGTCA
1 AGAACAACTGGGACAACACT-GTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCA
* * * * *
18650131 AGTAATTAAAAAACGATCGGGACAACATTATAAGTCAAAAAATGA
65 AGTAATTAAAGAACGATCGAGACAATACTATAAGTCAAAAAATAA
* * *
18650176 AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAATAATGATCGAGAAAACACCGTAAGTCAA
1 AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCAA
*
18650241 GTAATTAAAGAACGATCGAGACAACT-CTATAAATCAAAAAATAA
66 GTAATTAAAGAACGATCGAGACAA-TACTATAAGTCAAAAAATAA
* * * * * * * *
18650285 AGAACAACCGAGATAATACTGCAAGTTAAAAAATAAAGAATGGCCGAAACAACACCGTAAGTCAA
1 AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCAA
* * * * *
18650350 G----TAAAGAATGCTTG-GACAACACTATAAGTCAGAAAATAA
66 GTAATTAAAGAACGATCGAGACAATACTATAAGTCAAAAAATAA
* * ** ** * * *
18650389 AGAACGACCGGGACAGTACCATAAGTCAAAAAATAAAGAATG-CCTAAGACAACACTGCAAGTCA
1 AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAAGAATGACC-GAGACAACACCGTAAGTCA
* * **
18650453 AGTAATTAAAGAACAATCGAGATAATACTGCAAGTCAAAAAATAA
65 AGTAATTAAAGAACGATCGAGACAATACTATAAGTCAAAAAATAA
* * * * * * * *
18650498 AGAACAACTAGGATAACACCT-TAAGTCAGAAAATAAAGAATGATCGGGATAACACCATAAGTTA
1 AGAACAACTGGGACAACA-CTGTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCA
18650562 AGTAA
65 AGTAA
18650567 AGAATAACCG
Statistics
Matches: 384, Mismatches: 100, Indels: 28
0.75 0.20 0.05
Matches are distributed among these distances:
103 2 0.01
104 72 0.19
105 58 0.15
106 25 0.07
108 9 0.02
109 215 0.56
110 3 0.01
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (109 bp):
AGAACAACTGGGACAACACTGTAAGTCAAAAAATAAAGAATGACCGAGACAACACCGTAAGTCAA
GTAATTAAAGAACGATCGAGACAATACTATAAGTCAAAAAATAA
Found at i:18650736 original size:36 final size:35
Alignment explanation
Indices: 18650589--18650783 Score: 120
Period size: 36 Copynumber: 5.4 Consensus size: 35
18650579 ACAACATTAC
* * *
18650589 AAGTTAAAAAATAAAGAATGACTAAGACAATACCAC
1 AAGTCAAAAAATAAAGAATGACTAA-ACAACACCAT
* * * * * * *
18650625 AAGTCAAGTAATTAAAGAACGATTAGGACAACATCGT
1 AAGTCAA-AAAATAAAGAATGACTA-AACAACACCAT
* * * * *
18650662 AAGTTAAAAAATATAGAATGACCATACAACACTAT
1 AAGTCAAAAAATAAAGAATGACTAAACAACACCAT
* * *
18650697 AAGTCAAAAAATAAAGAATGATTAGAACAATACCGT
1 AAGTCAAAAAATAAAGAATGACTA-AACAACACCAT
* * ** *
18650733 AAGTCAAGAATTAAAGAACAACTGAGACAACACCAT
1 AAGTCAAAAAATAAAGAATGACT-AAACAACACCAT
**
18650769 AAGTTGAAAAATAAA
1 AAGTCAAAAAATAAA
18650784 ATAACACCAT
Statistics
Matches: 114, Mismatches: 41, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
35 27 0.24
36 61 0.54
37 26 0.23
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (35 bp):
AAGTCAAAAAATAAAGAATGACTAAACAACACCAT
Found at i:18650779 original size:108 final size:108
Alignment explanation
Indices: 18650579--18650781 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 108
18650569 AATAACCGGG
* *
18650579 ACAACATTACAAGTTAAAAAATAAAGAATGACTAAGACAATACCACAAGTCAAGTAATTAAAGAA
1 ACAACACTACAAGTCAAAAAATAAAGAATGACTAAGACAATACCACAAGTCAAGTAATTAAAGAA
* * * *
18650644 CGATTAGGACAACATCGTAAGTTAAAAAATATAGAATGACCAT
66 CAATGAGGACAACACCATAAGTTAAAAAATATAGAATGACCAT
* * **
18650687 ACAACACTATAAGTCAAAAAATAAAGAATGA-TTAGAACAATACCGTAAGTCAAG-AATTAAAGA
1 ACAACACTACAAGTCAAAAAATAAAGAATGACTAAG-ACAATACCACAAGTCAAGTAATTAAAGA
*
18650750 ACAACTGA-GACAACACCATAAGTTGAAAAATA
65 ACAA-TGAGGACAACACCATAAGTTAAAAAATA
18650782 AAATAACACC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
107 36 0.44
108 46 0.56
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (108 bp):
ACAACACTACAAGTCAAAAAATAAAGAATGACTAAGACAATACCACAAGTCAAGTAATTAAAGAA
CAATGAGGACAACACCATAAGTTAAAAAATATAGAATGACCAT
Found at i:18650817 original size:25 final size:25
Alignment explanation
Indices: 18650761--18650808 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
18650751 CAACTGAGAC
18650761 AACACCATAAGTTGAAAAATAAAAT
1 AACACCATAAGTTGAAAAATAAAAT
18650786 AACACCATAAGTTGAAAAATAAA
1 AACACCATAAGTTGAAAAATAAA
18650809 GAATGACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.19
Consensus pattern (25 bp):
AACACCATAAGTTGAAAAATAAAAT
Found at i:18650910 original size:36 final size:36
Alignment explanation
Indices: 18650855--18650968 Score: 129
Period size: 36 Copynumber: 3.1 Consensus size: 36
18650845 CAACCTACTT
* *
18650855 AACACCGTAAGTCAAAAAATAAAAAATGACCAGGAC
1 AACACCGCAAGTCAAAAAATAAAAAATGACTAGGAC
* * * *
18650891 AACATCGCAAGTCAAAAAATAAAAAACGACTGGGAT
1 AACACCGCAAGTCAAAAAATAAAAAATGACTAGGAC
* * * *
18650927 AATACCGTAAGTCAAAAAAATAAAGAATGACTTGGAC
1 AACACCGCAAGTC-AAAAAATAAAAAATGACTAGGAC
18650964 AACAC
1 AACAC
18650969 AACAAATCAA
Statistics
Matches: 63, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
36 40 0.63
37 23 0.37
ACGTcount: A:0.54, C:0.18, G:0.15, T:0.14
Consensus pattern (36 bp):
AACACCGCAAGTCAAAAAATAAAAAATGACTAGGAC
Found at i:18651942 original size:20 final size:18
Alignment explanation
Indices: 18651919--18651984 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 18
18651909 TATTCAAATC
18651919 TTTTTTTTTACTTTTTTACT
1 TTTTTTTTTA-TTTTTT-CT
*
18651939 TTTTTTTCTATTTTTTCT
1 TTTTTTTTTATTTTTTCT
18651957 CTTTTGTTTTTATTTTTTTCCT
1 -TTTT-TTTTTA-TTTTTT-CT
18651979 TTTTTT
1 TTTTTT
18651985 GTTTTTTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.05
19 10 0.25
20 16 0.40
21 10 0.25
22 2 0.05
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTTTTTATTTTTTCT
Found at i:18651990 original size:9 final size:9
Alignment explanation
Indices: 18651920--18651991 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
18651910 ATTCAAATCT
18651920 TTTTTTTTAC
1 TTTTTTTT-C
*
18651930 -TTTTTTAC
1 TTTTTTTTC
18651938 TTTTTTTTC
1 TTTTTTTTC
18651947 TATTTTTTCTC
1 T-TTTTTT-TC
18651958 TTTTGTTTT-
1 TTTT-TTTTC
18651967 TATTTTTTTC
1 T-TTTTTTTC
* *
18651977 CTTTTTTTG
1 TTTTTTTTC
18651986 TTTTTT
1 TTTTTT
18651992 AAGTTTTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.02
9 31 0.61
10 13 0.25
11 6 0.12
ACGTcount: A:0.06, C:0.10, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:18670879 original size:19 final size:19
Alignment explanation
Indices: 18670855--18670895 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
18670845 AATCTGTAAC
18670855 ATATAGGTAGGCTTTCGAA
1 ATATAGGTAGGCTTTCGAA
18670874 ATATAGGTAGGCTTTCGAA
1 ATATAGGTAGGCTTTCGAA
18670893 ATA
1 ATA
18670896 AGTTCATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (19 bp):
ATATAGGTAGGCTTTCGAA
Found at i:18671118 original size:3 final size:3
Alignment explanation
Indices: 18671110--18671152 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
18671100 AAAATTTTTC
*
18671110 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18671153 GATAAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18675693 original size:25 final size:24
Alignment explanation
Indices: 18675664--18675710 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
18675654 TATAAGCTGA
18675664 CATAATTTCTTTTGAAAATTGTGGT
1 CATAATTTCTTTTG-AAATTGTGGT
18675689 CATAATTTCTTTTGAAATTGTG
1 CATAATTTCTTTTGAAATTGTG
18675711 TACAACTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.49
Consensus pattern (24 bp):
CATAATTTCTTTTGAAATTGTGGT
Found at i:18677433 original size:21 final size:21
Alignment explanation
Indices: 18677408--18677447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18677398 AACTTAAATT
18677408 GCATGAACAAAAATTAAAAAA
1 GCATGAACAAAAATTAAAAAA
* *
18677429 GCATGAATAAGAATTAAAA
1 GCATGAACAAAAATTAAAA
18677448 CTAACTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
GCATGAACAAAAATTAAAAAA
Found at i:18678627 original size:21 final size:19
Alignment explanation
Indices: 18678555--18678619 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 19
18678545 TTCACTTTCT
*
18678555 TTTTTTTTTTTTTC-AAT-
1 TTTTTTCTTTTTTCAAATA
*
18678572 TTTTCATC-TTTTTCAAA-A
1 TTTT-TTCTTTTTTCAAATA
*
18678590 --TTTTCTTTTTTGAAATA
1 TTTTTTCTTTTTTCAAATA
18678607 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
18678620 TCACAATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
15 2 0.05
16 10 0.27
17 11 0.30
18 3 0.08
19 11 0.30
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTCTTTTTTCAAATA
Found at i:18683809 original size:19 final size:19
Alignment explanation
Indices: 18683787--18683873 Score: 50
Period size: 19 Copynumber: 4.4 Consensus size: 19
18683777 AAATTTTTTT
18683787 AAAATTTTAAAAATTGATA
1 AAAATTTTAAAAATTGATA
* * *
18683806 AAAACTTAAAAAATCTAGAAAA
1 AAAATTTTAAAAAT-T-G-ATA
* * * **
18683828 AAAAATCTAAAGATTTTTA
1 AAAATTTTAAAAATTGATA
*
18683847 AAAATTCTAAAAAATTG-TA
1 AAAATT-TTAAAAATTGATA
18683866 AAAATTTT
1 AAAATTTT
18683874 GAATAATTAA
Statistics
Matches: 48, Mismatches: 16, Indels: 9
0.66 0.22 0.12
Matches are distributed among these distances:
18 1 0.02
19 26 0.54
20 7 0.15
21 2 0.04
22 12 0.25
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATTTTAAAAATTGATA
Found at i:18683881 original size:19 final size:17
Alignment explanation
Indices: 18683844--18683935 Score: 60
Period size: 19 Copynumber: 5.1 Consensus size: 17
18683834 CTAAAGATTT
*
18683844 TTAAAAATTCTAAAAAA
1 TTAAAAATTTTAAAAAA
* *
18683861 TTGTAAAAATTTTGAATAA
1 -T-TAAAAATTTTAAAAAA
*
18683880 TTAAAAATTTCAAAAAA
1 TTAAAAATTTTAAAAAA
*
18683897 TCTAAAATATTATAAAATAA
1 T-TAAAA-ATTTTAAAA-AA
* *
18683917 -TAAGAAGTTTGAAAAAA
1 TTAA-AAATTTTAAAAAA
18683934 TT
1 TT
18683936 TCTCAAAAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
17 16 0.28
18 17 0.30
19 22 0.39
20 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (17 bp):
TTAAAAATTTTAAAAAA
Found at i:18683881 original size:29 final size:29
Alignment explanation
Indices: 18683826--18683881 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
18683816 AAATCTAGAA
* *
18683826 AAAAAAATCTAAAGATTTTTAAAAATTCT
1 AAAAAAATCTAAAAATTTTGAAAAATTCT
* * *
18683855 AAAAAATTGTAAAAATTTTGAATAATT
1 AAAAAAATCTAAAAATTTTGAAAAATT
18683882 AAAAATTTCA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAAAAATCTAAAAATTTTGAAAAATTCT
Found at i:18684360 original size:17 final size:17
Alignment explanation
Indices: 18684334--18684368 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18684324 TAAAAAGTTT
* *
18684334 TTAAATTTTTTAAAAAA
1 TTAAAATTTTCAAAAAA
18684351 TTAAAATTTTCAAAAAA
1 TTAAAATTTTCAAAAAA
18684368 T
1 T
18684369 CTGAAACATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAAATTTTCAAAAAA
Found at i:18684551 original size:17 final size:16
Alignment explanation
Indices: 18684530--18684572 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
18684520 TTTAAACTAA
18684530 ATAAAATTTTATTTTT
1 ATAAAATTTTATTTTT
*
18684546 ATTAAAAATTTGATTTTT
1 A-T-AAAATTTTATTTTT
18684564 A-AAAATTTT
1 ATAAAATTTT
18684573 TTTCAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 1 0.04
18 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
ATAAAATTTTATTTTT
Found at i:18686131 original size:12 final size:11
Alignment explanation
Indices: 18686107--18686146 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
18686097 TATATTTAAA
18686107 ATTTATTTTTT
1 ATTTATTTTTT
18686118 ATTTATTCTTTT
1 ATTTATT-TTTT
18686130 ATTTAATTTTATT
1 ATTT-ATTTT-TT
18686143 ATTT
1 ATTT
18686147 TAAATTGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.27
12 10 0.38
13 9 0.35
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTATTTTTT
Found at i:18686311 original size:19 final size:20
Alignment explanation
Indices: 18686282--18686325 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
18686272 AAATTTAGGG
18686282 TTTTATTTTTAA-AGTTTTAT
1 TTTTATTTTTAAGA-TTTTAT
*
18686302 TTTTA-TTTTAGGATTTTAT
1 TTTTATTTTTAAGATTTTAT
18686321 TTTTA
1 TTTTA
18686326 GGGCTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTAAGATTTTAT
Found at i:18686851 original size:15 final size:15
Alignment explanation
Indices: 18686812--18686848 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18686802 TTCTAAATAT
*
18686812 ATTTCATTATTATTA
1 ATTTTATTATTATTA
18686827 ATTTTATTATTATT-
1 ATTTTATTATTATTA
18686841 ATTTTATT
1 ATTTTATT
18686849 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTATTATTATTA
Found at i:18687989 original size:20 final size:20
Alignment explanation
Indices: 18687964--18688011 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
18687954 GAGGTTTCAA
18687964 GATTTCAATATTTCATTTAG
1 GATTTCAATATTTCATTTAG
18687984 GATTTCAATATTTCATTTAG
1 GATTTCAATATTTCATTTAG
*
18688004 GGTTTCAA
1 GATTTCAA
18688012 ATTCTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (20 bp):
GATTTCAATATTTCATTTAG
Found at i:18688189 original size:3 final size:3
Alignment explanation
Indices: 18688181--18688231 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
18688171 CATTAAATAT
*
18688181 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
18688227 TTA TT
1 TTA TT
18688232 TAATTGTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18689534 original size:25 final size:25
Alignment explanation
Indices: 18689479--18689537 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
18689469 TCTGCTACTG
* *
18689479 CTTTTTTTTTTCACTTCATTTTTTA
1 CTTTTTTTCTTCACTTCATTTTCTA
18689504 -TGTTTTTTCTTCACTTC-TTCTTCTA
1 CT-TTTTTTCTTCACTTCATT-TTCTA
18689529 CTTTTTTTC
1 CTTTTTTTC
18689538 AATTTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
25 25 0.86
26 1 0.03
ACGTcount: A:0.08, C:0.20, G:0.02, T:0.69
Consensus pattern (25 bp):
CTTTTTTTCTTCACTTCATTTTCTA
Found at i:18690313 original size:24 final size:24
Alignment explanation
Indices: 18690279--18690326 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
18690269 AATGCAACGA
18690279 GCCTCACCCTAAGGCCCACATTGG
1 GCCTCACCCTAAGGCCCACATTGG
* *
18690303 GCCTCATCCTAGGGCCCACATTGG
1 GCCTCACCCTAAGGCCCACATTGG
18690327 CCTTACCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.40, G:0.23, T:0.19
Consensus pattern (24 bp):
GCCTCACCCTAAGGCCCACATTGG
Found at i:18690744 original size:22 final size:22
Alignment explanation
Indices: 18690716--18690784 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
18690706 AAGTGACTGT
*
18690716 TAATTTAGGCTTGCATGCCAGC
1 TAATTTAGGCTTACATGCCAGC
* * *
18690738 TAATTTAGCCTTTCATGCCAAC
1 TAATTTAGGCTTACATGCCAGC
* *
18690760 TAATTTTGGGCTTACGTGCCAGC
1 TAA-TTTAGGCTTACATGCCAGC
18690783 TA
1 TA
18690785 CACTGGGCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 22 0.58
23 16 0.42
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (22 bp):
TAATTTAGGCTTACATGCCAGC
Found at i:18690957 original size:32 final size:32
Alignment explanation
Indices: 18690921--18691433 Score: 165
Period size: 32 Copynumber: 16.2 Consensus size: 32
18690911 GATAATCTAA
*
18690921 GCTTAAATTTCATTGGGTGCCAACTAAATCGG
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
* ** *
18690953 GCTTAAAATTCATTGGGTGTTAGA-TAATTTGG
1 GCTTAAATTTCATTGGGTGCCA-ACTAAATTGG
* *
18690985 GCTTAAAATTTCATTAGGTGCCAAAT-AATCTGG
1 GCTT-AAATTTCATTGGGTGCCAACTAAAT-TGG
* * * * * * *
18691018 GCTTAATTTTCCTTAGATGCTAACTAAGTTAG
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
* * ** *
18691050 GCTTAAGTTTCATTGGGTGCCAAATACTTTAG
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
* * * *
18691082 GCTTAAGCTTCCATT-GGTGCTAACTAAATTGA
1 GCTTAA-ATTTCATTGGGTGCCAACTAAATTGG
* ** *
18691114 GCTTAAGTTTCATTGGGTGTTAGA-T-AATCTAG
1 GCTTAAATTTCATTGGGTGCCA-ACTAAAT-TGG
* * *
18691146 GCTTAAATTTTCATT-AGTGCTAGA-T-AATCTAG
1 GCTTAAA-TTTCATTGGGTGCCA-ACTAAAT-TGG
* * *
18691178 GCTTAAATTTTA-TCGG-GCCAGA-T-AATCTAG
1 GCTTAAATTTCATTGGGTGCCA-ACTAAAT-TGG
* ** * **
18691208 GCTTAAATTTCAATGGGTTTCAAAT-AATCTAA
1 GCTTAAATTTCATTGGGTGCCAACTAAAT-TGG
* * *
18691240 GCTTAAATTTTCATT-GATGCTAGA-TAATTTGG
1 GCTTAAA-TTTCATTGGGTGCCA-ACTAAATTGG
* * **
18691272 GCTTAAATTTCATTGGATGCCAGCTAAATTAA
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
*** * *
18691304 GCTTAAA--T--TTGGGTATTAGCTAAATTAG
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
** * *
18691332 GCTTAAATTTTCATTACGTGCCAAAT-AATATGA
1 GCTTAAA-TTTCATTGGGTGCCAACTAAAT-TGG
* * * *
18691365 GCTTAAATTTTCATTAGGTACCAAATAAATTAG
1 GCTTAAA-TTTCATTGGGTGCCAACTAAATTGG
*
18691398 GCTTAAATTT-A---GGTACCAACTAAATTGG
1 GCTTAAATTTCATTGGGTGCCAACTAAATTGG
18691426 GCTTAAAT
1 GCTTAAAT
18691434 ATTTTCATGA
Statistics
Matches: 373, Mismatches: 82, Indels: 56
0.73 0.16 0.11
Matches are distributed among these distances:
28 45 0.12
30 26 0.07
31 27 0.07
32 185 0.50
33 87 0.23
34 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
GCTTAAATTTCATTGGGTGCCAACTAAATTGG
Found at i:18691073 original size:64 final size:63
Alignment explanation
Indices: 18690840--18691313 Score: 286
Period size: 64 Copynumber: 7.4 Consensus size: 63
18690830 ATGCTATTGT
* * * * * *
18690840 TGCTAGGTAATTTGGGCTTAAATTATCATTGAGTGCCAAGTAATCTAGGCTTAAATATTAATTAT
1 TGCTAGATAA-TTAGGCTTAAATT-TCATTGGGTGCCAAATAATCTAGGCTTAAAT-TTCATTAG
*
18690905 T
63 G
* * * * * *
18690906 TGCCAGATAATCTAAGCTTAAATTTCATTGGGTGCCAACTAAATC-GGGCTTAAAATTCATTGGG
1 TGCTAGATAAT-TAGGCTTAAATTTCATTGGGTGCCAAAT-AATCTAGGCTTAAATTTCATTAGG
* * * * * * *
18690970 TGTTAGATAATTTGGGCTTAAAATTTCATTAGGTGCCAAATAATCTGGGCTTAATTTTCCTTAGA
1 TGCTAGATAA-TTAGGCTT-AAATTTCATTGGGTGCCAAATAATCTAGGCTTAAATTTCATTAGG
* * * * *
18691035 TGCTA-ACTAAGTTAGGCTTAAGTTTCATTGGGTGCCAAATACTTTAGGCTTAAGCTTCCATT-G
1 TGCTAGA-TAA-TTAGGCTTAAATTTCATTGGGTGCCAAATAATCTAGGCTTAA-ATTTCATTAG
18691098 G
63 G
* ** *
18691099 TGCTA-ACTAAATT-GAGCTTAAGTTTCATTGGGTGTTAGATAATCTAGGCTTAAATTTTCATTA
1 TGCTAGA-T-AATTAG-GCTTAAATTTCATTGGGTGCCAAATAATCTAGGCTTAAA-TTTCATTA
18691162 -G
62 GG
* * * * *
18691163 TGCTAGATAATCTAGGCTTAAATTTTA-TCGG-GCCAGATAATCTAGGCTTAAATTTCAATGGG
1 TGCTAGATAAT-TAGGCTTAAATTTCATTGGGTGCCAAATAATCTAGGCTTAAATTTCATTAGG
* * * * * * * *
18691225 T-TTCAAATAATCTAAGCTTAAATTTTCATT-GATGCTAGATAATTTGGGCTTAAATTTCATT-G
1 TGCT-AGATAAT-TAGGCTTAAA-TTTCATTGGGTGCCAAATAATCTAGGCTTAAATTTCATTAG
18691287 G
63 G
* * *
18691288 ATGCCAGCTAAATTAAGCTTAAATTT
1 -TGCTAGAT-AATTAGGCTTAAATTT
18691314 GGGTATTAGC
Statistics
Matches: 324, Mismatches: 62, Indels: 47
0.75 0.14 0.11
Matches are distributed among these distances:
61 7 0.02
62 37 0.11
63 17 0.05
64 158 0.49
65 83 0.26
66 22 0.07
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (63 bp):
TGCTAGATAATTAGGCTTAAATTTCATTGGGTGCCAAATAATCTAGGCTTAAATTTCATTAGG
Found at i:18691203 original size:30 final size:32
Alignment explanation
Indices: 18690854--18691407 Score: 144
Period size: 32 Copynumber: 17.3 Consensus size: 32
18690844 AGGTAATTTG
* *
18690854 GGCTTAAATTATCATTGAGTGCCA-AGTAATCTA
1 GGCTTAAATTTTCATT-AGGGCCAGA-TAATCTA
* * **
18690887 GGCTTAAATATTAATTATTTGCCAGATAATCTA
1 GGCTTAAATTTTCATTA-GGGCCAGATAATCTA
* * *
18690920 AGCTTAAA-TTTCATTGGGTGCCA-ACTAAATC-G
1 GGCTTAAATTTTCATTAGG-GCCAGA-T-AATCTA
* * ** * *
18690952 GGCTTAAA-ATTCATTGGGTGTTAGATAATTTG
1 GGCTTAAATTTTCATTAGG-GCCAGATAATCTA
* * *
18690984 GGCTTAAAATTTCATTAGGTGCCAAATAATCTG
1 GGCTTAAATTTTCATTAGG-GCCAGATAATCTA
* * *
18691017 GGCTT-AATTTTCCTTAGATGCTA-ACTAAGT-TA
1 GGCTTAAATTTTCATTAG-GGCCAGA-TAA-TCTA
* * * * *
18691049 GGCTT-AAGTTTCATTGGGTGCCAAATACTTTA
1 GGCTTAAATTTTCATTAGG-GCCAGATAATCTA
** * *
18691081 GGCTTAAGCTTCCATT-GGTGCTA-ACTAAAT-T-
1 GGCTTAAATTTTCATTAGG-GCCAGA-T-AATCTA
* * **
18691112 GAGCTT-AAGTTTCATTGGGTGTTAGATAATCTA
1 G-GCTTAAATTTTCATTAGG-GCCAGATAATCTA
* *
18691145 GGCTTAAATTTTCATTAGTGCTAGATAATCTA
1 GGCTTAAATTTTCATTAGGGCCAGATAATCTA
*
18691177 GGCTTAAATTTT-A-TCGGGCCAGATAATCTA
1 GGCTTAAATTTTCATTAGGGCCAGATAATCTA
* * *
18691207 GGCTTAAA-TTTCAAT-GGGTTTCAAATAATCTA
1 GGCTTAAATTTTCATTAGGG--CCAGATAATCTA
* * * * *
18691239 AGCTTAAATTTTCATT-GATGCTAGATAATTTG
1 GGCTTAAATTTTCATTAG-GGCCAGATAATCTA
*
18691271 GGCTTAAA-TTTCATT-GGATGCCAGCTAAAT-TA
1 GGCTTAAATTTTCATTAGG--GCCAGAT-AATCTA
* *
18691303 AGCTTAAATTTGGGT-ATTA--G-C-TA-AAT-TA
1 GGCTTAAATTT---TCATTAGGGCCAGATAATCTA
* * *
18691331 GGCTTAAATTTTCATTACGTGCCAAATAATAT-
1 GGCTTAAATTTTCATTA-GGGCCAGATAATCTA
* *
18691363 GAGCTTAAATTTTCATTAGGTACCAAATAAAT-TA
1 G-GCTTAAATTTTCATTAGG-GCCAGAT-AATCTA
18691397 GGCTTAAATTT
1 GGCTTAAATTT
18691408 AGGTACCAAC
Statistics
Matches: 401, Mismatches: 71, Indels: 98
0.70 0.12 0.17
Matches are distributed among these distances:
25 1 0.00
26 4 0.01
28 15 0.04
29 4 0.01
30 27 0.07
31 30 0.07
32 181 0.45
33 129 0.32
34 6 0.01
35 3 0.01
36 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
GGCTTAAATTTTCATTAGGGCCAGATAATCTA
Done.