Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 75 of 150
Found at i:22661065 original size:10 final size:10
Alignment explanation
Indices: 22661050--22661091 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
22661040 TTTGCAAGTT
22661050 TTGAGCTAAA
1 TTGAGCTAAA
* *
22661060 TTGAGCTGAT
1 TTGAGCTAAA
*
22661070 TTGAGCT-CA
1 TTGAGCTAAA
22661079 TTGAGCTAAA
1 TTGAGCTAAA
22661089 TTG
1 TTG
22661092 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:22662760 original size:17 final size:17
Alignment explanation
Indices: 22662721--22662763 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22662711 AAACCAAAAG
*
22662721 GAAAAATAAAAAAGTTA
1 GAAAAATAAAAAAGTAA
22662738 GTAAAAATAAGAAAA-TAA
1 G-AAAAATAA-AAAAGTAA
22662756 GAAAAATA
1 GAAAAATA
22662764 TTTATACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
GAAAAATAAAAAAGTAA
Found at i:22664191 original size:19 final size:20
Alignment explanation
Indices: 22664161--22664198 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22664151 CTTTTTATTT
*
22664161 AATTTAAACTAAAATATAAA
1 AATTTAAACTAAAACATAAA
22664181 AATTT-AACTAAAACATAA
1 AATTTAAACTAAAACATAA
22664199 TAAAAGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTAAACTAAAACATAAA
Found at i:22673952 original size:18 final size:18
Alignment explanation
Indices: 22673931--22673965 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22673921 TTTTTCTTTT
22673931 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
22673949 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
22673966 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:22674930 original size:16 final size:16
Alignment explanation
Indices: 22674909--22674947 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
22674899 TACAAACTCT
22674909 TTTTTTTATGCACGAA
1 TTTTTTTATGCACGAA
*
22674925 TTTTTTTTTGCACGAA
1 TTTTTTTATGCACGAA
22674941 TTTTTTT
1 TTTTTTT
22674948 CAATTAACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTTTTTATGCACGAA
Found at i:22690404 original size:52 final size:49
Alignment explanation
Indices: 22690316--22690419 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 49
22690306 TCCTCTAGAG
* * * *
22690316 AACATATGGAAAGCATTAAACATGTTATGTTCTTTCCAAAAAAGAATTAT
1 AACATATGGAAAGCATAAAAAATGTTATATGCTTTCC-AAAAAGAATTAT
*
22690366 AACATATGGAAAGTACTAAAAAAATGTTATATGCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGCA-T-AAAAAATGTTATATGCTTTCCAAAAAGAATTAT
22690417 AAC
1 AAC
22690420 TACCATGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
50 14 0.30
51 16 0.34
52 17 0.36
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (49 bp):
AACATATGGAAAGCATAAAAAATGTTATATGCTTTCCAAAAAGAATTAT
Found at i:22691455 original size:19 final size:19
Alignment explanation
Indices: 22691431--22691478 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
22691421 TTCTTAGTAC
*
22691431 TTTATTACAATTCAGTTTG
1 TTTATTACAATTCAGTTTA
22691450 TTTATTACAATTCAGTTTA
1 TTTATTACAATTCAGTTTA
22691469 TTTATATACA
1 TTTAT-TACA
22691479 TAGAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTATTACAATTCAGTTTA
Found at i:22701670 original size:30 final size:30
Alignment explanation
Indices: 22701635--22701708 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
22701625 AGTTTTTCCC
22701635 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* * *
22701665 AGCTCGTTTGAGCTTAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
22701695 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
22701709 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:22701698 original size:20 final size:20
Alignment explanation
Indices: 22701641--22701698 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
22701631 TCCCAGCTCG
* * *
22701641 ATTTAGCTCACATGAGCTTA
1 ATTTAGCTTACTTTAGCTTA
22701661 ATTTAGC-T-CGTTTGAGCTTA
1 ATTTAGCTTAC-TTT-AGCTTA
22701681 ATTTAGCTTACTTTAGCT
1 ATTTAGCTTACTTTAGCT
22701699 CGTTTGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 24 0.77
21 4 0.13
22 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (20 bp):
ATTTAGCTTACTTTAGCTTA
Found at i:22704436 original size:5 final size:6
Alignment explanation
Indices: 22704406--22704526 Score: 57
Period size: 6 Copynumber: 19.7 Consensus size: 6
22704396 AAAGAAATTG
* * * ** **
22704406 AAAG-A AAACAA AAAGGA AACGAA AAAGAA AAAGAA ATCGAA AAAGTG
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* * * ** * *
22704453 AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA AAAGAA ATTGAG AATGAA
1 AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA AAAGAA AAAGAA AAAGAA
22704504 AAA-AA AAATTGAA AAAGAA AAAG
1 AAAGAA AAA--GAA AAAGAA AAAG
22704527 TGAAAAAAGA
Statistics
Matches: 83, Mismatches: 26, Indels: 13
0.68 0.21 0.11
Matches are distributed among these distances:
5 8 0.10
6 59 0.71
7 7 0.08
8 9 0.11
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.08
Consensus pattern (6 bp):
AAAGAA
Found at i:22704486 original size:27 final size:27
Alignment explanation
Indices: 22704456--22704544 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 27
22704446 AAAAGTGAGA
22704456 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
* *
22704483 GAAAAAGAAATTGAGAATGAAAAAAAAAATT
1 GAAAAAGAAAAT--GAA-G-AAAAGAAAATT
22704514 GAAAAAGAAAAAGTGAA-AAAAG-AAATT
1 GAAAAAG-AAAA-TGAAGAAAAGAAAATT
22704541 GAAA
1 GAAA
22704545 GAGAGCTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
27 20 0.38
28 4 0.08
29 3 0.06
30 1 0.02
31 20 0.38
32 3 0.06
33 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:22704493 original size:12 final size:12
Alignment explanation
Indices: 22704432--22704562 Score: 58
Period size: 12 Copynumber: 10.9 Consensus size: 12
22704422 AAACGAAAAA
*
22704432 GAAAAAGAAATC
1 GAAAAAGAAATT
** **
22704444 GAAAAAGTGAGA
1 GAAAAAGAAATT
*
22704456 GAAAAAGAAAAT
1 GAAAAAGAAATT
22704468 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
22704483 GAAAAAGAAATT
1 GAAAAAGAAATT
* *
22704495 GAGAATG-AA--
1 GAAAAAGAAATT
22704504 -AAAAA-AAATT
1 GAAAAAGAAATT
*
22704514 GAAAAAGAAAAAGT
1 GAAAAAG--AAATT
22704528 GAAAAAAGAAATT
1 G-AAAAAGAAATT
* **
22704541 GAAAGAGAGCTT
1 GAAAAAGAAATT
22704553 G-AAAAGAAAT
1 GAAAAAGAAAT
22704563 CAAGTGAAAA
Statistics
Matches: 87, Mismatches: 21, Indels: 23
0.66 0.16 0.18
Matches are distributed among these distances:
8 5 0.06
11 13 0.15
12 36 0.41
13 11 0.13
14 11 0.13
15 11 0.13
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:22704512 original size:19 final size:19
Alignment explanation
Indices: 22704484--22704525 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22704474 AAGAAAATTG
* * *
22704484 AAAAAGAAATTGAGAATGA
1 AAAAAAAAATTGAAAAAGA
22704503 AAAAAAAAATTGAAAAAGA
1 AAAAAAAAATTGAAAAAGA
22704522 AAAA
1 AAAA
22704526 GTGAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAAAAAATTGAAAAAGA
Found at i:22704578 original size:33 final size:33
Alignment explanation
Indices: 22704541--22704603 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
22704531 AAAAGAAATT
22704541 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
22704574 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
22704604 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:22711002 original size:13 final size:13
Alignment explanation
Indices: 22710984--22711008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22710974 GTCCTCAAGA
22710984 AAATAATGTATGC
1 AAATAATGTATGC
22710997 AAATAATGTATG
1 AAATAATGTATG
22711009 AATATGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (13 bp):
AAATAATGTATGC
Found at i:22711060 original size:25 final size:25
Alignment explanation
Indices: 22711026--22711075 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22711016 ATGAATGCAA
*
22711026 GGAATTGCCAAAACAATCAATCACC
1 GGAATCGCCAAAACAATCAATCACC
22711051 GGAATCGCCAAAACAATCAATCACC
1 GGAATCGCCAAAACAATCAATCACC
22711076 AATTATACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.14
Consensus pattern (25 bp):
GGAATCGCCAAAACAATCAATCACC
Found at i:22720245 original size:2 final size:2
Alignment explanation
Indices: 22720238--22720268 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22720228 GGTTGAGCTT
22720238 TA 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 TA T
22720269 TCATGTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 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):
TA
Found at i:22720478 original size:41 final size:41
Alignment explanation
Indices: 22720417--22720558 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
22720407 AATGAGATAA
*
22720417 TTCA-ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
22720457 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* * *
22720498 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGATGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
22720539 TTCACACTTTACGTCTAGCA
1 TTCAGACTTTACGTCTAGCA
22720559 AGCTAATTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 4 0.04
41 89 0.96
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:22720603 original size:82 final size:82
Alignment explanation
Indices: 22720421--22720603 Score: 188
Period size: 82 Copynumber: 2.2 Consensus size: 82
22720411 AGATAATTCA
* * * * * * * * *
22720421 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTGATG
1 ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAATG
**
22720486 CCGGTGAAATGTTTCAG
66 CCGGTGAAATGAATCAG
* * *
22720503 ACTTTACGTCTAGTAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGC-TAATT
1 ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAA-T
* *
22720567 GCCGGTGTATTGAATCAG
65 GCCGGTGAAATGAATCAG
**
22720585 GTTTTAAGCCTAGCAGGCT
1 ACTTTAAGCCTAGCAGGCT
22720604 AAGTGCCGGT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 2 0.02
82 81 0.98
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (82 bp):
ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAATG
CCGGTGAAATGAATCAG
Found at i:22721065 original size:70 final size:69
Alignment explanation
Indices: 22720991--22721126 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 69
22720981 TGGATATATG
* *
22720991 TATGTGGTAAA-TACATGTACATATTTGGTTATAATATTTGTTAAGC-ATATGTATATATGCATT
1 TATGT-GTAAAGTACATATAC--ATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATT
22721054 CGGCTAA
63 CGGCTAA
* ** * *
22721061 TATGTTTAAAGTGTATATACATTTGGTTCTAATATTTGTCATGCATATATGTATATATGCATTCG
1 TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCA-ATATGTATATATGCATTCG
22721126 G
65 G
22721127 GGATTAATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 21 0.38
69 4 0.07
70 31 0.55
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (69 bp):
TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATTCGG
CTAA
Found at i:22737159 original size:2 final size:2
Alignment explanation
Indices: 22737152--22737192 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
22737142 TCGAAAATAT
22737152 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
22737193 GCAAAACCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:22739168 original size:22 final size:22
Alignment explanation
Indices: 22739142--22739186 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22739132 ATTATATGTA
22739142 TTAATTCATAATACAA-TTAATT
1 TTAATTCAT-ATACAATTTAATT
* *
22739164 TTAATTTATATCCAATTTAATT
1 TTAATTCATATACAATTTAATT
22739186 T
1 T
22739187 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTCATATACAATTTAATT
Found at i:22743469 original size:22 final size:20
Alignment explanation
Indices: 22743426--22743464 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22743416 CAATTTAAAA
22743426 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
22743446 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
22743465 ATGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:22744852 original size:46 final size:46
Alignment explanation
Indices: 22744780--22744873 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
22744770 AAAATACTAT
*
22744780 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
22744826 AACTCAGTATGGTTTCCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
22744872 AA
1 AA
22744874 TTTGCCATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:22747138 original size:34 final size:34
Alignment explanation
Indices: 22747098--22747199 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
22747088 TTACTCATTC
22747098 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
1 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
* *
22747132 ACTTACTT-TTCT-CTT--G---CTGA-AATGT-TG
1 ACTTACTTGTT-TACTTAGGCAACTCATAAT-TAGG
22747159 A-TTACTTGTTTACTTAGGCAACTCATAATTAGG
1 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
22747192 ACTTACTT
1 ACTTACTT
22747200 TTCTCTTGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 24
0.65 0.05 0.30
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 4 0.08
29 1 0.02
31 1 0.02
32 4 0.08
33 10 0.19
34 15 0.29
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (34 bp):
ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
Found at i:22747166 original size:60 final size:60
Alignment explanation
Indices: 22747100--22747221 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
22747090 ACTCATTCAC
22747100 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
1 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
22747160 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
1 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
22747220 TT
1 TT
22747222 CTCAATGGGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (60 bp):
TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
Found at i:22747544 original size:50 final size:50
Alignment explanation
Indices: 22747377--22747672 Score: 263
Period size: 50 Copynumber: 5.8 Consensus size: 50
22747367 GATAATAACA
* * ** * * *
22747377 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * * * * ** * *
22747426 TACCTATGCCATATCCCAGATATTGTTTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * **
22747476 TGCCCATG-CATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
22747525 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
22747575 TGCCAACGCCATGTCCCAGACCTGGCCTTACATGGGACCTCTCATGATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G
* * *
22747630 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22747673 TTACCCATAT
Statistics
Matches: 198, Mismatches: 41, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
49 72 0.36
50 83 0.42
53 5 0.03
55 1 0.01
56 37 0.19
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:22747662 original size:106 final size:99
Alignment explanation
Indices: 22747453--22747672 Score: 260
Period size: 106 Copynumber: 2.2 Consensus size: 99
22747443 AGATATTGTT
** * * * *
22747453 TTACATGGGAGTTCTCATATCGGTGCCCATGCATGTCCCAGACATGGTCTTACGGGGGACCTCTC
1 TTACATGGGACCTCTCATATCGGTGCCAACGCATGTCCCAGACATGGCCTTACAGGGGACCTCTC
*
22747518 ATCTCAGTGCCAACGCCATGTCCCAGACATGATC
66 ATCTCAGTGCCAACGCCATGTCCCAAACATGATC
* * *
22747552 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACCTGGCCTTACATGGGACCTCT
1 TTACATGGGACCTCTCATATCGGTGCCAACG-CATGTCCCAGACATGGCCTTACAGGGGACCTCT
* *
22747617 CATGATCTCAATGATGCCAATGCCATGTCCCAAACATGGTC
65 C---ATCTC-A-G-TGCCAACGCCATGTCCCAAACATGATC
*
22747658 TTACATGGGATCTCT
1 TTACATGGGACCTCT
22747673 TTACCCATAT
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
99 26 0.26
100 30 0.30
103 5 0.05
104 1 0.01
105 1 0.01
106 38 0.38
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (99 bp):
TTACATGGGACCTCTCATATCGGTGCCAACGCATGTCCCAGACATGGCCTTACAGGGGACCTCTC
ATCTCAGTGCCAACGCCATGTCCCAAACATGATC
Found at i:22749416 original size:13 final size:13
Alignment explanation
Indices: 22749398--22749425 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22749388 TCTGAGGATG
22749398 AAAAGCTGTACTA
1 AAAAGCTGTACTA
22749411 AAAAGCTGTACTA
1 AAAAGCTGTACTA
22749424 AA
1 AA
22749426 TTTGAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAAGCTGTACTA
Found at i:22754893 original size:46 final size:47
Alignment explanation
Indices: 22754789--22754927 Score: 214
Period size: 46 Copynumber: 3.0 Consensus size: 47
22754779 AAAATACTAT
* *
22754789 AACTCAGTATGG-TTTCTTTCACTGAAATACCATACCTA-TTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
* *
22754834 AACTAAGTATGGTTTTCCTT-ATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
22754880 AACTCAGTATGGTTTT-CTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
22754926 AA
1 AA
22754928 TTTGTCATGA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
45 30 0.35
46 55 0.65
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (47 bp):
AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:22764043 original size:21 final size:20
Alignment explanation
Indices: 22764014--22764052 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22764004 ATCTTCCAAG
22764014 TTTATAGAATTATCAGAATT
1 TTTATAGAATTATCAGAATT
*
22764034 TTTATCAGAATTATTAGAA
1 TTTAT-AGAATTATCAGAA
22764053 CTACTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTATAGAATTATCAGAATT
Found at i:22764121 original size:24 final size:24
Alignment explanation
Indices: 22764089--22764137 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22764079 TAACATATAA
22764089 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
22764113 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
22764137 T
1 T
22764138 CTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (24 bp):
TGATAATTAAATAATGCAAATAGG
Found at i:22766000 original size:19 final size:19
Alignment explanation
Indices: 22765976--22766024 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
22765966 TCAAATTTTG
*
22765976 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
22765995 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
22766014 -TAATATTTATA
1 AAAATATTTATA
22766025 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:22766410 original size:21 final size:21
Alignment explanation
Indices: 22766386--22766425 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22766376 ACCTTTTCTA
22766386 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGTCAAAACTATC
*
22766407 AAGTTAAAAGTCAAGACTA
1 AAGTTAAAAGTCAAAACTA
22766426 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACTATC
Found at i:22778615 original size:47 final size:49
Alignment explanation
Indices: 22778552--22778687 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 49
22778542 AGTGAAAGTG
*
22778552 ATGGTCACGTGTGTAGTACTATGTGCAGGCTAC-ATGTACCGGAATG--
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTACCGGAATGTA
* * * *
22778598 ATAGGTCGCATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATTGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTA--TGTACCGGAATGTA
22778650 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGT
22778688 GAACTGAACA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
46 2 0.03
47 28 0.36
48 1 0.01
49 3 0.04
50 10 0.13
51 31 0.40
52 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTACCGGAATGTA
Found at i:22778750 original size:45 final size:45
Alignment explanation
Indices: 22778690--22778781 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
22778680 TACTATGTGA
* * *
22778690 ACTGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
* *
22778735 ACTGGACATCGTTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
1 ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
22778780 AC
1 AC
22778782 CGAGTATCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
Found at i:22784758 original size:16 final size:17
Alignment explanation
Indices: 22784727--22784759 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22784717 TAAGAAGGTC
*
22784727 CAAAATATGTATTAATT
1 CAAAATATGAATTAATT
22784744 CAAAATAT-AATTAATT
1 CAAAATATGAATTAATT
22784760 TTAATCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CAAAATATGAATTAATT
Found at i:22788912 original size:46 final size:46
Alignment explanation
Indices: 22788859--22788959 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
22788849 ATGCAAAAGT
**
22788859 TCAGAACCTAATCCTATATTCTTGAGTCCGCAACATATGAAGGAAC
1 TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
* * * ** * *
22788905 TCAGAACCTATTCTTGTATTCTCAAGTGTGCAACATATGCAGGAGC
1 TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
22788951 TCA-AACCTA
1 TCAGAACCTA
22788960 GGTAAACTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (46 bp):
TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
Found at i:22789836 original size:26 final size:26
Alignment explanation
Indices: 22789800--22789863 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
22789790 CGACCCACAA
* * *
22789800 CTCGTATGAGCAGGCCTATTCTATAG
1 CTCGTGTGAGCAGGCCCATTCCATAG
22789826 CTCGTGTGAGCAGGCCCATTCCATAG
1 CTCGTGTGAGCAGGCCCATTCCATAG
*
22789852 CTCATGTGAGCA
1 CTCGTGTGAGCA
22789864 ATAATGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (26 bp):
CTCGTGTGAGCAGGCCCATTCCATAG
Found at i:22807715 original size:16 final size:15
Alignment explanation
Indices: 22807690--22807723 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
22807680 AAAGTTGATA
*
22807690 ATAATTAATATATATT
1 ATAATAAATATA-ATT
22807706 ATAATAAATATAATT
1 ATAATAAATATAATT
22807721 ATA
1 ATA
22807724 TACTAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:22807847 original size:29 final size:30
Alignment explanation
Indices: 22807789--22807847 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22807779 TGCCATTGAA
* * * *
22807789 AATATTTACCAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
22807819 AATATTTACAAAAAGA-ACAACCAAATTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
22807848 GCAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAATTTT
Found at i:22821316 original size:16 final size:15
Alignment explanation
Indices: 22821291--22821321 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
22821281 GAGTGAAAGA
22821291 GAGAGAGAGATGTGT
1 GAGAGAGAGATGTGT
22821306 GAGATGAGAGATGTGT
1 GAGA-GAGAGATGTGT
22821322 TGAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (15 bp):
GAGAGAGAGATGTGT
Found at i:22828500 original size:28 final size:29
Alignment explanation
Indices: 22828440--22828501 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
22828430 TTTATGAAAG
** * *
22828440 CTCTCTGTTTAGCTTTGCTTTGTACGAGT
1 CTCTCTGTTTAAATTTACTTTATACGAGT
22828469 -TCTCTGTTTAAATTTACTTTATACGA-T
1 CTCTCTGTTTAAATTTACTTTATACGAGT
22828496 CTCTCT
1 CTCTCT
22828502 ATTCAGATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.50
Consensus pattern (29 bp):
CTCTCTGTTTAAATTTACTTTATACGAGT
Found at i:22836605 original size:20 final size:20
Alignment explanation
Indices: 22836580--22836630 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
22836570 ATAGATGGAT
**
22836580 AACAGGGGCACTGATGTGCA
1 AACAGGGGCACAAATGTGCA
*
22836600 AACAGGGGCAAAAATGTGCA
1 AACAGGGGCACAAATGTGCA
*
22836620 AACAAGGGCAC
1 AACAGGGGCAC
22836631 CATAGTGCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACAAATGTGCA
Found at i:22836638 original size:20 final size:20
Alignment explanation
Indices: 22836615--22836652 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22836605 GGGCAAAAAT
*
22836615 GTGCAAACAAGGGCACCATA
1 GTGCAAACAAGGACACCATA
*
22836635 GTGCGAACAAGGACACCA
1 GTGCAAACAAGGACACCA
22836653 ATATGTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.08
Consensus pattern (20 bp):
GTGCAAACAAGGACACCATA
Found at i:22838879 original size:20 final size:20
Alignment explanation
Indices: 22838854--22838906 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22838844 ACATGCTAAT
* **
22838854 AGAGGCACCGAAGTTCATCC
1 AGAGGCACCGAAGTGCAAAC
* *
22838874 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAC
22838894 AGAGGCACCGAAG
1 AGAGGCACCGAAG
22838907 AGAAAACCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:22839163 original size:14 final size:14
Alignment explanation
Indices: 22839144--22839173 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22839134 TTAACCAGTT
*
22839144 AATATCATTAATTC
1 AATATCAATAATTC
22839158 AATATCAATAATTC
1 AATATCAATAATTC
22839172 AA
1 AA
22839174 CCAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATCAATAATTC
Found at i:22840560 original size:61 final size:61
Alignment explanation
Indices: 22840455--22840570 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
22840445 CAGGCTGTCA
* * * *
22840455 TTTACATCCAGTACTCACCACAAAGATTTCCTTGTCTAGTGTTTTTCCATAAAGGTTTTCC
1 TTTACATCCAGTACTCACCACAAAGATTTCCTTATCAAGAGTTTTTCCAAAAAGGTTTTCC
**
22840516 TTTACATCCAGTACTTGCCACAAAGGCA-TTCC-TATCAAGAGTTTTTCCAAAAAGG
1 TTTACATCCAGTACTCACCACAAA-G-ATTTCCTTATCAAGAGTTTTTCCAAAAAGG
22840571 CGTCCTTAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 41 0.87
62 5 0.11
63 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (61 bp):
TTTACATCCAGTACTCACCACAAAGATTTCCTTATCAAGAGTTTTTCCAAAAAGGTTTTCC
Found at i:22840633 original size:31 final size:31
Alignment explanation
Indices: 22840566--22840633 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
22840556 GTTTTTCCAA
* ** *
22840566 AAAGGCGTCCTTAACATTCAGTGCTCGCCAC
1 AAAGGCATCCTTAACATTCAGCACTAGCCAC
* *
22840597 GAAGGCATCCTTAACATTCAGCACTAGTCAC
1 AAAGGCATCCTTAACATTCAGCACTAGCCAC
22840628 AAAGGC
1 AAAGGC
22840634 TTTCCTATCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (31 bp):
AAAGGCATCCTTAACATTCAGCACTAGCCAC
Found at i:22844556 original size:20 final size:20
Alignment explanation
Indices: 22844498--22844569 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
22844488 TATGAACCAC
* *
22844498 TCCATTTACTTACTTACAAT
1 TCCATTTACTTACTTTCCAT
* ** *
22844518 TCCATATGTTTAGTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
22844538 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
22844558 TCCTTTTACTTA
1 TCCATTTACTTA
22844570 GCATAAGCTT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.51
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:22847066 original size:50 final size:51
Alignment explanation
Indices: 22846947--22847079 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
22846937 GATACCGATT
*
22846947 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGATGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTATCTGGTA
* * * *
22846998 CGCATCGTAGCCTGCACATAGTACTACACATGCGATCTAT-C-ATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTA-TCTGGTA
* * *
22847048 CACGTAGTAGCTTGCACATAATACTACACACG
1 CACATAGTAGCCTGCACATAGTACTACACACG
22847080 TGACCATCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 34 0.49
51 35 0.50
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTATCTGGTA
Found at i:22848411 original size:6 final size:6
Alignment explanation
Indices: 22848400--22848437 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
22848390 GGTCGAAACC
22848400 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
22848438 ACATCGATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:22851715 original size:33 final size:33
Alignment explanation
Indices: 22851646--22851708 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
22851636 GTTGTTCCCT
*
22851646 TTTGCCGAATATTACTTCTCCCCATTCATTGAG
1 TTTGCCAAATATTACTTCTCCCCATTCATTGAG
* *
22851679 TTTGCCAAATTTTACTTCTCTCCATTCATT
1 TTTGCCAAATATTACTTCTCCCCATTCATT
22851709 ACGTTTGTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (33 bp):
TTTGCCAAATATTACTTCTCCCCATTCATTGAG
Found at i:22860678 original size:42 final size:42
Alignment explanation
Indices: 22860616--22860701 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
22860606 AAATTATTTT
* ** *
22860616 ATAAGTTTGGTATCAGTGAAGCTCCTTACATGAGCTTAAGTG
1 ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
*
22860658 ATAAG-TTGTGTATCAATGAAGCTCCCCATAAGAGCTTAAGTG
1 ATAAGTTTG-GTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
22860700 AT
1 AT
22860702 TGTGCTCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
Found at i:22868485 original size:12 final size:12
Alignment explanation
Indices: 22868464--22868493 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22868454 TACCAACACT
*
22868464 GTTGATTTGACA
1 GTTGACTTGACA
22868476 GTTGACTTGACA
1 GTTGACTTGACA
22868488 GTTGAC
1 GTTGAC
22868494 GGAGTCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (12 bp):
GTTGACTTGACA
Found at i:22883238 original size:23 final size:24
Alignment explanation
Indices: 22883207--22883251 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
22883197 GTGTTATCGG
*
22883207 AAATGAAGAAAAGAACATACACGA
1 AAATGAAGAAAAGAAAATACACGA
22883231 AAAT-AAGAAAAGAAAATACAC
1 AAATGAAGAAAAGAAAATACAC
22883252 TGATGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (24 bp):
AAATGAAGAAAAGAAAATACACGA
Found at i:22884685 original size:29 final size:29
Alignment explanation
Indices: 22884618--22884688 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
22884608 CTGCGATCAA
* *
22884618 AAAGAGAAGAAAAAGAGAGCAGCAGCTAG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
22884647 AAAGAGAAGGAAAAGAAAGCAGCAGC-AGG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTA-G
22884676 AAAGAGAAGGAAA
1 AAAGAGAAGGAAA
22884689 GAAGCAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.58, C:0.08, G:0.32, T:0.01
Consensus pattern (29 bp):
AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
Found at i:22884927 original size:7 final size:7
Alignment explanation
Indices: 22884915--22884990 Score: 57
Period size: 7 Copynumber: 10.3 Consensus size: 7
22884905 TAAAATACAA
22884915 ATATATT
1 ATATATT
22884922 ATATATT
1 ATATATT
22884929 ATATATT
1 ATATATT
22884936 ATAATATTT
1 AT-ATA-TT
22884945 AATATAATT
1 -ATAT-ATT
*
22884954 AAAT-TT
1 ATATATT
22884960 ATATATT
1 ATATATT
*
22884967 AGATA-T
1 ATATATT
22884973 ATAATATT
1 AT-ATATT
*
22884981 TTATAATT
1 ATAT-ATT
22884989 AT
1 AT
22884991 TATAGATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
6 7 0.13
7 27 0.49
8 12 0.22
9 6 0.11
10 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:22884962 original size:38 final size:35
Alignment explanation
Indices: 22884920--22884989 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 35
22884910 TACAAATATA
*
22884920 TTATATATTATATATTATAATATTTAATATAATTAAAT
1 TTATATATTAGATA-TATAATATTT--TATAATTAAAT
22884958 TTATATATTAGATATATAATATTTTATAATTA
1 TTATATATTAGATATATAATATTTTATAATTA
22884990 TTATAGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 8 0.26
37 10 0.32
38 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TTATATATTAGATATATAATATTTTATAATTAAAT
Found at i:22894683 original size:29 final size:29
Alignment explanation
Indices: 22894636--22894709 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
22894626 AGCTTGATTG
* *
22894636 AAAGATTGAAGATTCAAGGATGACGGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
* * *
22894665 AAATATTGAATATTTAAGGATGTCTGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
22894694 AAAGATTGAATGATTT
1 AAAGATTGAAT-ATTT
22894710 TTTATATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAGATTGAATATTTAAGGATGACGGGAT
Found at i:22896103 original size:21 final size:22
Alignment explanation
Indices: 22896079--22896119 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22896069 CAAATTATTT
22896079 AATAT-ATAGAAATAAAGATTG
1 AATATAATAGAAATAAAGATTG
**
22896100 AATATAATAGACCTAAAGAT
1 AATATAATAGAAATAAAGAT
22896120 AAATTTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (22 bp):
AATATAATAGAAATAAAGATTG
Found at i:22896384 original size:21 final size:21
Alignment explanation
Indices: 22896309--22896393 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
22896299 CTGTTGGATA
*
22896309 AATTTTCTAAA-AGTTTTTATG
1 AATTTTTTAAATA-TTTTTATG
* *
22896330 AACTTTTTTTAA-ATTTGT-TG
1 AA-TTTTTTAAATATTTTTATG
*
22896350 -A-TTTTTAAATATTTTTATT
1 AATTTTTTAAATATTTTTATG
22896369 AATTTTTCTAAA-ATTTTTATG
1 AATTTTT-TAAATATTTTTATG
22896390 AATT
1 AATT
22896394 ACATGTGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.14
18 5 0.10
19 2 0.04
20 3 0.06
21 22 0.43
22 12 0.24
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (21 bp):
AATTTTTTAAATATTTTTATG
Found at i:22897482 original size:31 final size:31
Alignment explanation
Indices: 22897433--22897504 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
22897423 ATTAATCATA
22897433 TTATTATTTATTTATGATTAATTATATAAAAT
1 TTATTA-TTATTTATGATTAATTATATAAAAT
*
22897465 TTATTATTATTTGTGATTAATTATATAAAAT
1 TTATTATTATTTATGATTAATTATATAAAAT
22897496 TTATTATTA
1 TTATTATTA
22897505 ATTGGTTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (31 bp):
TTATTATTATTTATGATTAATTATATAAAAT
Found at i:22900909 original size:2 final size:2
Alignment explanation
Indices: 22900902--22900939 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22900892 ACTGATAAAC
22900902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22900940 GCGAAATGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22901480 original size:41 final size:41
Alignment explanation
Indices: 22901435--22901526 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 41
22901425 ACCGGTAATT
* **
22901435 AGCCTACTAGACTTATCGTCCGAATTATTTCACCGGCAC-AA
1 AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGC-CTAA
* *
22901476 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCCTTA
1 AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGCCTAA
22901517 AGCCTACTAG
1 AGCCTACTAG
22901527 GTTTTAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGCCTAA
Found at i:22903412 original size:43 final size:43
Alignment explanation
Indices: 22903363--22903579 Score: 242
Period size: 43 Copynumber: 5.1 Consensus size: 43
22903353 TGTGAAAAAA
* * * * *
22903363 GCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
22903406 GCCGCTAAAGAACATAACCTTTAACGGCGC-TTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAAC
* * * *
22903449 ACCGCTAAAGAACATGA-CTTTCAGCGACAC-TTTATCACAAAT
1 GCCGCTAAAGAACATGACCTTT-AGCGGCGCTTTTATCACAAAC
* *
22903491 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
22903534 ACCGCTAAAGAGCATGATCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
22903577 GCC
1 GCC
22903580 AATATAGAAA
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
42 35 0.24
43 109 0.76
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:22903511 original size:85 final size:86
Alignment explanation
Indices: 22903364--22903575 Score: 268
Period size: 85 Copynumber: 2.5 Consensus size: 86
22903354 GTGAAAAAAG
* * * * * * *
22903364 CCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAATGCCGCTAAAGAACATAACCTTTA
1 CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTTA
*
22903429 ACGGCGC-TTTACCCACAAACA
66 ACGCCGCTTTTA-CCACAAACA
*
22903450 CCGCTAAAGAACATGA-CTTTCAGCGACAC-TTTATCACAAATGCCGCTAAAGAACATGACCTTT
1 CCGCTAAAGAACATGATCTTT-AGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTT
*
22903513 AACGCCGCTTTTATCACAAACA
65 AACGCCGCTTTTACCACAAACA
* * *
22903535 CCGCTAAAGAGCATGATCTTTAGCGGCGCTTTTATCACAAA
1 CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAA
22903576 CGCCAATATA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
85 71 0.65
86 39 0.35
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (86 bp):
CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTTA
ACGCCGCTTTTACCACAAACA
Found at i:22903596 original size:128 final size:128
Alignment explanation
Indices: 22903363--22903597 Score: 283
Period size: 128 Copynumber: 1.8 Consensus size: 128
22903353 TGTGAAAAAA
* ** * **
22903363 GCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAATGCCGCTAAAGAACATAACCTTT
1 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
** * *
22903428 AACGGCGCTTTACCCACAAACACCGCTAAAGAACATGACTTTCAGCGACACTTTATCACAAAT
66 AACGGCGCTTTACCCACAAACACCAATAAAGAAAAAGACTTTCAGCGACACTTTATCACAAAT
* * * * *
22903491 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATCACAAACACCGCTAAAGAGCATGATCTTT
1 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
* * * *
22903556 AGCGGCGCTTTTA-TCACAAACGCCAATATAGAAAAAGACTTT
66 AACGGCGC-TTTACCCACAAACACCAATAAAGAAAAAGACTTT
22903598 TAGCAACTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
128 83 0.95
129 4 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (128 bp):
GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
AACGGCGCTTTACCCACAAACACCAATAAAGAAAAAGACTTTCAGCGACACTTTATCACAAAT
Found at i:22907875 original size:7 final size:7
Alignment explanation
Indices: 22907863--22908011 Score: 68
Period size: 7 Copynumber: 21.3 Consensus size: 7
22907853 AACCCTTAGC
22907863 CCCTAAA
1 CCCTAAA
22907870 CCCTAAA
1 CCCTAAA
**
22907877 CTATAAA
1 CCCTAAA
***
22907884 ATTTAAA
1 CCCTAAA
22907891 CCCTAAA
1 CCCTAAA
* *
22907898 TCCTAAG
1 CCCTAAA
*
22907905 CAC-ATAA
1 CCCTA-AA
22907912 CCCATAAA
1 CCC-TAAA
**
22907920 CTATAAA
1 CCCTAAA
*
22907927 CACTAAA
1 CCCTAAA
*
22907934 CCATAAA
1 CCCTAAA
*
22907941 -CCTACA
1 CCCTAAA
22907947 CCCTAAA
1 CCCTAAA
*
22907954 CCGTAAA
1 CCCTAAA
**
22907961 TACTAAA
1 CCCTAAA
* *
22907968 CTCTTAA
1 CCCTAAA
*
22907975 CACTAAA
1 CCCTAAA
* *
22907982 TCATAAA
1 CCCTAAA
22907989 CCCTAAA
1 CCCTAAA
22907996 CCCTAAA
1 CCCTAAA
*
22908003 CCTTAAA
1 CCCTAAA
22908010 CC
1 CC
22908012 TCAAACTATA
Statistics
Matches: 101, Mismatches: 37, Indels: 8
0.69 0.25 0.05
Matches are distributed among these distances:
6 5 0.05
7 92 0.91
8 3 0.03
9 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:22907955 original size:13 final size:13
Alignment explanation
Indices: 22907887--22908039 Score: 58
Period size: 14 Copynumber: 11.1 Consensus size: 13
22907877 CTATAAAATT
*
22907887 TAAACCCTAAATCC
1 TAAACCATAAA-CC
* *
22907901 TAAGCACATAACCC
1 TAAAC-CATAAACC
*
22907915 ATAAACTATAAACAC
1 -TAAACCATAAAC-C
22907930 TAAACCATAAACC
1 TAAACCATAAACC
* *
22907943 TACACCCTAAACC
1 TAAACCATAAACC
*
22907956 GTAAA-TACTAAACTC
1 -TAAACCA-TAAAC-C
* *
22907971 TTAA-CACTAAATCA
1 TAAACCA-TAAA-CC
*
22907985 TAAACCCTAAACCC
1 TAAACCATAAA-CC
*
22907999 TAAACCTTAAACC
1 TAAACCATAAACC
* *
22908012 TCAAACTATAATCC
1 T-AAACCATAAACC
* *
22908026 TACACCTTAAACC
1 TAAACCATAAACC
22908039 T
1 T
22908040 TGAATATATA
Statistics
Matches: 103, Mismatches: 27, Indels: 19
0.69 0.18 0.13
Matches are distributed among these distances:
13 24 0.23
14 67 0.65
15 12 0.12
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCATAAACC
Found at i:22908001 original size:21 final size:20
Alignment explanation
Indices: 22907863--22908003 Score: 77
Period size: 21 Copynumber: 6.8 Consensus size: 20
22907853 AACCCTTAGC
22907863 CCCTAAACCCTAAACTATAAA
1 CCCTAAACCCTAAAC-ATAAA
*** * *
22907884 ATTTAAACCCTAAATCCTAAG
1 CCCTAAACCCTAAA-CATAAA
*
22907905 CAC-ATAACCCATAAACTATAAA
1 CCCTA-AACCC-TAAAC-ATAAA
* * * *
22907927 CACTAAACCATAAACCTACA
1 CCCTAAACCCTAAACATAAA
* *
22907947 CCCTAAACCGTAAATACTAAA
1 CCCTAAACCCTAAACA-TAAA
* * *
22907968 CTCTTAACACTAAATCATAAA
1 CCCTAAACCCTAAA-CATAAA
22907989 CCCTAAACCCTAAAC
1 CCCTAAACCCTAAAC
22908004 CTTAAACCTC
Statistics
Matches: 87, Mismatches: 26, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
20 17 0.20
21 53 0.61
22 16 0.18
23 1 0.01
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (20 bp):
CCCTAAACCCTAAACATAAA
Found at i:22908232 original size:21 final size:21
Alignment explanation
Indices: 22908208--22908254 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22908198 TATAAAATAA
*
22908208 TAAACCCCAAACCCCAAACTC
1 TAAACCACAAACCCCAAACTC
* *
22908229 TAAACCATAAACCCTAAACTC
1 TAAACCACAAACCCCAAACTC
*
22908250 AAAAC
1 TAAAC
22908255 TCTAATCCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (21 bp):
TAAACCACAAACCCCAAACTC
Found at i:22908233 original size:14 final size:14
Alignment explanation
Indices: 22908216--22908266 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
22908206 AATAAACCCC
*
22908216 AAACCCCAAACTCT
1 AAACCCAAAACTCT
*
22908230 AAA-CCATAAACCCT
1 AAACCCA-AAACTCT
*
22908244 AAACTCAAAACTCT
1 AAACCCAAAACTCT
*
22908258 AATCCCAAA
1 AAACCCAAA
22908267 TAAACATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCAAAACTCT
Found at i:22908416 original size:40 final size:40
Alignment explanation
Indices: 22908359--22908455 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
22908349 GCATTTTCCG
*
22908359 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
* * * *
22908399 AATAGCGTCGCTAATGCTCGATCTATTGCGGTATTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
*
22908439 AAAAGTGCCGCTAATGC
1 AAAAGCGCCGCTAATGC
22908456 CACTTAAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
Found at i:22911057 original size:13 final size:13
Alignment explanation
Indices: 22911025--22911060 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22911015 TCAAGTATCA
* *
22911025 ATTTCAAATGACC
1 ATTTCATATAACC
22911038 ATTTCATATAACC
1 ATTTCATATAACC
22911051 ATTTCATATA
1 ATTTCATATA
22911061 TATATTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:22914314 original size:22 final size:22
Alignment explanation
Indices: 22914284--22914326 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22914274 AAGAGAGAAT
* * *
22914284 GATGCTTGATGGATGCTTGAGG
1 GATGATTGATGAATGATTGAGG
22914306 GATGATTGATGAATGATTGAG
1 GATGATTGATGAATGATTGAG
22914327 AGGGTCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.33
Consensus pattern (22 bp):
GATGATTGATGAATGATTGAGG
Found at i:22915354 original size:27 final size:28
Alignment explanation
Indices: 22915324--22915379 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
22915314 AAGCTATCCC
*
22915324 TTCATAATT-AGCCACAAAGGTG-TTCTT
1 TTCAT-ATTGAGCCACAAAGGCGTTTCTT
*
22915351 TTCATATTGCGCCACAAAGGCGTTTCTT
1 TTCATATTGAGCCACAAAGGCGTTTCTT
22915379 T
1 T
22915380 CTTGACGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 16 0.64
28 6 0.24
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (28 bp):
TTCATATTGAGCCACAAAGGCGTTTCTT
Found at i:22922280 original size:58 final size:58
Alignment explanation
Indices: 22922028--22922279 Score: 362
Period size: 58 Copynumber: 4.4 Consensus size: 58
22922018 GTACGTAGCA
* * ** *
22922028 TAAGACCATAGATGAAAGATCCCATGATGG-ATGGTACAAGGTATAAGGTATTCGGTG
1 TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTATAAGGTATTTGGTG
* *
22922085 TAAGACCATGGATGAAAGATGCCATGGCGACATGGTACAAGGTATAAAGTATTTGGTG
1 TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTATAAGGTATTTGGTG
*
22922143 TAAGACCATGGATGAAAGATGCCATGGCTGCATGGTACAAGGTATAAGGTATTTGGTG
1 TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTATAAGGTATTTGGTG
* * * * *
22922201 TAAAACCATGGATGAAAGATGTCATGGCGGCATGGTACAAGGTATAAGGTATATAGCG
1 TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTATAAGGTATTTGGTG
* *
22922259 TAAGACTATAGATGAAAGATG
1 TAAGACCATGGATGAAAGATG
22922280 TTATGACAGT
Statistics
Matches: 175, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
57 25 0.14
58 150 0.86
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (58 bp):
TAAGACCATGGATGAAAGATGCCATGGCGGCATGGTACAAGGTATAAGGTATTTGGTG
Found at i:22922295 original size:58 final size:57
Alignment explanation
Indices: 22922028--22922384 Score: 304
Period size: 58 Copynumber: 6.4 Consensus size: 57
22922018 GTACGTAGCA
* * * *
22922028 TAAGACCATAGATGAAAGATCCCATGA-TGGATGGTACAAGGTATAAGGTATTCGGTG
1 TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTATT-GGTG
* *
22922085 TAAGACCATGGATGAAAGATGCCATGGC-GACATGGTACAAGGTATAAAGTATTTGGTG
1 TAAGACCATGGATGAAAGATGCCATGACAG-CATGGTACAAGGTATAAGGTA-TTGGTG
* *
22922143 TAAGACCATGGATGAAAGATGCCATGGCTGCATGGTACAAGGTATAAGGTATTTGGTG
1 TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTA-TTGGTG
* * * * * *
22922201 TAAAACCATGGATGAAAGATGTCATGGCGGCATGGTACAAGGTATAAGGTATATAGCG
1 TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTAT-TGGTG
* * ** ** ** * *
22922259 TAAGACTATAGATGAAAGATGTTATGACAGTTTGGTATGAGG--T-ACGTA-T--CG
1 TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTATTGGTG
* ** * * *
22922310 TAAGACTATGGATGAAAGATGCCACAACGGTATGGTACAAGGTAT---GTATTAGTG
1 TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTATTGGTG
* *
22922364 TAGGACCATAGATGAAAGATG
1 TAAGACCATGGATGAAAGATG
22922385 TTATGACATC
Statistics
Matches: 255, Mismatches: 35, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
51 38 0.15
52 1 0.00
53 2 0.01
54 19 0.07
55 4 0.02
56 1 0.00
57 26 0.10
58 161 0.63
59 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (57 bp):
TAAGACCATGGATGAAAGATGCCATGACAGCATGGTACAAGGTATAAGGTATTGGTG
Found at i:22922353 original size:51 final size:51
Alignment explanation
Indices: 22922257--22922358 Score: 114
Period size: 51 Copynumber: 2.0 Consensus size: 51
22922247 AGGTATATAG
** ** * **
22922257 CGTAAGACTATAGATGAAAGATGTTATGACAGTTTGGTATGAGGTACGTAT
1 CGTAAGACTATAGATGAAAGATGCCACAACAGTATGGTACAAGGTACGTAT
* * *
22922308 CGTAAGACTATGGATGAAAGATGCCACAACGGTATGGTACAAGGTATGTAT
1 CGTAAGACTATAGATGAAAGATGCCACAACAGTATGGTACAAGGTACGTAT
22922359 TAGTGTAGGA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.27
Consensus pattern (51 bp):
CGTAAGACTATAGATGAAAGATGCCACAACAGTATGGTACAAGGTACGTAT
Found at i:22922542 original size:31 final size:31
Alignment explanation
Indices: 22922507--22922571 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
22922497 GTATCCACAA
* * *
22922507 AGATAGTCCGCTAGGACAGTAAACACAGAAT
1 AGATAGTCCACTAAGACAGTAAACACAAAAT
*
22922538 AGATAGTCCACTAAGATAGTAAACACAAAAT
1 AGATAGTCCACTAAGACAGTAAACACAAAAT
22922569 AGA
1 AGA
22922572 GATAGCCCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (31 bp):
AGATAGTCCACTAAGACAGTAAACACAAAAT
Found at i:22924556 original size:20 final size:20
Alignment explanation
Indices: 22924531--22924568 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22924521 CCTATGATCG
* *
22924531 ATTAAATCATTACTTATCTA
1 ATTAAATAATTAATTATCTA
22924551 ATTAAATAATTAATTATC
1 ATTAAATAATTAATTATC
22924569 CTCGATTGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATAATTAATTATCTA
Found at i:22927585 original size:28 final size:28
Alignment explanation
Indices: 22927545--22927600 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
22927535 CGTACAATAG
22927545 GGATCTAATTAAATAAAATGAAAAATTT
1 GGATCTAATTAAATAAAATGAAAAATTT
22927573 GGATCTAATTAAATAAAATGAAAAATTT
1 GGATCTAATTAAATAAAATGAAAAATTT
22927601 TCATAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (28 bp):
GGATCTAATTAAATAAAATGAAAAATTT
Found at i:22927610 original size:28 final size:28
Alignment explanation
Indices: 22927551--22927610 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
22927541 ATAGGGATCT
* **
22927551 AATTAAATAAAATGAAAAATTTGGATCT
1 AATTAAATAAAATGAAAAATTTGCATAA
*
22927579 AATTAAATAAAATGAAAAATTTTCATAA
1 AATTAAATAAAATGAAAAATTTGCATAA
22927607 AATT
1 AATT
22927611 TTGGTAGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (28 bp):
AATTAAATAAAATGAAAAATTTGCATAA
Found at i:22931707 original size:32 final size:32
Alignment explanation
Indices: 22931634--22931900 Score: 223
Period size: 32 Copynumber: 8.4 Consensus size: 32
22931624 GAATGGCTAC
* * * * *
22931634 AAGCCATAAGT-ACAGTAATGTGATTGGAACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
*
22931665 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* ** * *
22931697 CAGCCATCAGTAATGGTAACATGATCGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* ** *
22931729 AAGCCATTAGTGGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
22931761 CAGCCATCAATAACAGTGAAATGATCGGTACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
22931793 CAGCCATCGGTAACAGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * *
22931825 AAGCCATTAGTAACAGTGAAATGATCGACACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * ** *
22931857 CATCTATTGGTAACGGT-ACTATGATCGGCACA
1 AAGCCATCAGTAACAGTGA-TATGATCGGCACA
22931889 AAGCCATCAGTA
1 AAGCCATCAGTA
22931901 GCATCGCAGC
Statistics
Matches: 182, Mismatches: 52, Indels: 3
0.77 0.22 0.01
Matches are distributed among these distances:
31 11 0.06
32 171 0.94
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTGATATGATCGGCACA
Found at i:22931818 original size:96 final size:96
Alignment explanation
Indices: 22931654--22931858 Score: 266
Period size: 96 Copynumber: 2.1 Consensus size: 96
22931644 TACAGTAATG
* * * * * **
22931654 TGATTGGAACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACAT
1 TGATTGGCACACAGCCATCAATAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGTAACAT
** *
22931719 GATCGGCACAAAGCCATTAGTGGCAGTGATA
66 GATCGGCACAAAGCCATTAGTAACAGTGAAA
* * *
22931750 TGATTGGCACACAGCCATCAATAACAGTGAAATGATCGGTACACAGCCATCGGTAACAGTAATAT
1 TGATTGGCACACAGCCATCAATAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGTAACAT
*
22931815 GATCGGTACAAAGCCATTAGTAACAGTGAAA
66 GATCGGCACAAAGCCATTAGTAACAGTGAAA
* *
22931846 TGATCGACACACA
1 TGATTGGCACACA
22931859 TCTATTGGTA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (96 bp):
TGATTGGCACACAGCCATCAATAACAGTGAAATGATCGGCACACAGCCATCAGTAACAGTAACAT
GATCGGCACAAAGCCATTAGTAACAGTGAAA
Found at i:22931881 original size:96 final size:96
Alignment explanation
Indices: 22931666--22931900 Score: 265
Period size: 96 Copynumber: 2.4 Consensus size: 96
22931656 ATTGGAACAA
* * **
22931666 AGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACATGATCGGCACAAA
1 AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACAGTAACATGATCGGCACAAA
** * * *
22931731 GCCATTAGTGGCAGTGATATGATTGGCACAC
66 GCCATTAGTAACAGTGAAATGATCGACACAC
* * * * *
22931762 AGCCATCAATAACAGTGAAATGATCGGTACACAGCCATCGGTAACAGTAATATGATCGGTACAAA
1 AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACAGTAACATGATCGGCACAAA
22931827 GCCATTAGTAACAGTGAAATGATCGACACAC
66 GCCATTAGTAACAGTGAAATGATCGACACAC
* * *** * *
22931858 ATCTATTGGTAACGGT-ACTATGATCGGCACAAAGCCATCAGTA
1 AGCCATCAATAACAGTGA-TATGATCGGCACACAGCCATCAGTA
22931901 GCATCGCAGC
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
95 1 0.01
96 113 0.99
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (96 bp):
AGCCATCAATAACAGTGATATGATCGGCACACAGCCATCAGTAACAGTAACATGATCGGCACAAA
GCCATTAGTAACAGTGAAATGATCGACACAC
Found at i:22931932 original size:26 final size:26
Alignment explanation
Indices: 22931903--22931956 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
22931893 CATCAGTAGC
22931903 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* * * *
22931929 ATCGCAGTAAAGTTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
22931955 AT
1 AT
22931957 ATGTGGTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:22931975 original size:27 final size:27
Alignment explanation
Indices: 22931944--22932034 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
22931934 AGTAAAGTTG
*
22931944 CCAGTAATAGT-ATATGTGGTCAGGCCA
1 CCAGTAACAGTGAT-TGTGGTCAGGCCA
22931971 CCAGTAACAGTGATTGTGGTCAGGCCA
1 CCAGTAACAGTGATTGTGGTCAGGCCA
22931998 CCAGTAACAGTGATTGTGGT-AGAGCCA
1 CCAGTAACAGTGATTGTGGTCAG-GCCA
*
22932025 CTAGT-ACAGT
1 CCAGTAACAGT
22932035 ACTTCCTCCA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.12
27 51 0.85
28 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGTCAGGCCA
Found at i:22932173 original size:24 final size:23
Alignment explanation
Indices: 22932099--22932171 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
22932089 CCATGCTCAG
* *
22932099 AATCAGTCATTCAAATCACAAACA
1 AATCAGTCATTTAAA-CACAGACA
**
22932123 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TTAAACACAGACA
*
22932147 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTTAAACACAGACA
22932170 AA
1 AA
22932172 ATAATCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.28
24 27 0.63
25 4 0.09
ACGTcount: A:0.49, C:0.26, G:0.07, T:0.18
Consensus pattern (23 bp):
AATCAGTCATTTAAACACAGACA
Found at i:22932256 original size:27 final size:27
Alignment explanation
Indices: 22932221--22932320 Score: 164
Period size: 27 Copynumber: 3.7 Consensus size: 27
22932211 CCACCAAGGC
*
22932221 ATTATGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
22932248 ATTACGGTCATTTTACCCTACAGGGGA
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
22932275 ATTACAGTCATTTTACCTTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
22932302 ATTACGGTCATTTTACCCT
1 ATTACGGTCATTTTACCCT
22932321 CATATGGATG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:22932473 original size:27 final size:27
Alignment explanation
Indices: 22932438--22932707 Score: 236
Period size: 27 Copynumber: 10.1 Consensus size: 27
22932428 TTGGGCCTAT
22932438 GGTCATTTTACCCTATAGGGGTATTAT-
1 GGTCATTTTACCCTATAGGGGTATT-TC
*
22932465 GGTCATTTTGCCCTATA-GGGTATTTC
1 GGTCATTTTACCCTATAGGGGTATTTC
* *
22932491 GAT-ATTCTACCCTAT-GGGGTATTTC
1 GGTCATTTTACCCTATAGGGGTATTTC
* * *
22932516 GGT-ATTCTACCTTACAGGGGTATTTC
1 GGTCATTTTACCCTATAGGGGTATTTC
* *
22932542 AGTCATTTTACCCTAT-GGGGACATTTC
1 GGTCATTTTACCCTATAGGGG-TATTTC
* *
22932569 AGTCATTTTACCC-ATCGAGGGTATTTC
1 GGTCATTTTACCCTATAG-GGGTATTTC
** * * *
22932596 GGTCATTTTATTC-ATCGAGAGTATTTT
1 GGTCATTTTACCCTATAG-GGGTATTTC
*
22932623 GGTCATTTTACCCT-TCGAGGGTATTTC
1 GGTCATTTTACCCTATAG-GGGTATTTC
* *
22932650 AGTCATTTTACCC-ATCGAGGGTATTTC
1 GGTCATTTTACCCTATAG-GGGTATTTC
* *
22932677 TGTCATTTTACCCTTTAGGGGTATTTC
1 GGTCATTTTACCCTATAGGGGTATTTC
22932704 GGTC
1 GGTC
22932708 TAGATATCGA
Statistics
Matches: 206, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
25 32 0.16
26 27 0.13
27 142 0.69
28 5 0.02
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTCATTTTACCCTATAGGGGTATTTC
Found at i:22932510 original size:25 final size:25
Alignment explanation
Indices: 22932475--22932561 Score: 95
Period size: 25 Copynumber: 3.4 Consensus size: 25
22932465 GGTCATTTTG
*
22932475 CCCTATAGGGTATTTCGATATTCTA
1 CCCTATGGGGTATTTCGATATTCTA
*
22932500 CCCTATGGGGTATTTCGGTATTCTA
1 CCCTATGGGGTATTTCGATATTCTA
* * *
22932525 CCTTACAGGGGTATTTC-AGTCATTTTA
1 CCCTA-TGGGGTATTTCGA-T-ATTCTA
22932552 CCCTATGGGG
1 CCCTATGGGG
22932562 ACATTTCAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
25 27 0.53
26 15 0.29
27 9 0.18
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (25 bp):
CCCTATGGGGTATTTCGATATTCTA
Found at i:22932701 original size:81 final size:81
Alignment explanation
Indices: 22932438--22932707 Score: 290
Period size: 81 Copynumber: 3.4 Consensus size: 81
22932428 TTGGGCCTAT
* *
22932438 GGTCATTTTACCCTATAGGGGTATTAT-GGTCATTTTGCCCTAT-AGGGTATTTC-GAT-ATTCT
1 GGTCATTTTACCCTATAGGGGTATT-TCGGTCATTTTACCCTATGAGGGTATTTCAG-TCATTTT
22932499 ACCCTAT-G-GGGTATTTC
64 ACCC-ATCGAGGGTATTTC
* * * * *
22932516 GGT-ATTCTACCTTACAGGGGTATTTCAGTCATTTTACCCTATG-GGGACATTTCAGTCATTTTA
1 GGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGG-TATTTCAGTCATTTTA
22932579 CCCATCGAGGGTATTTC
65 CCCATCGAGGGTATTTC
** * * *
22932596 GGTCATTTTATTC-ATCGAGAGTATTTTGGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTT
1 GGTCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACCCTAT-GAGGGTATTTCAGTCATTTT
22932659 ACCCATCGAGGGTATTTC
64 ACCCATCGAGGGTATTTC
* *
22932677 TGTCATTTTACCCTTTAGGGGTATTTCGGTC
1 GGTCATTTTACCCTATAGGGGTATTTCGGTC
22932708 TAGATATCGA
Statistics
Matches: 156, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
76 1 0.01
77 35 0.22
78 11 0.07
79 10 0.06
80 15 0.10
81 79 0.51
82 5 0.03
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (81 bp):
GGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTAC
CCATCGAGGGTATTTC
Found at i:22935259 original size:33 final size:32
Alignment explanation
Indices: 22935239--22935364 Score: 126
Period size: 33 Copynumber: 3.8 Consensus size: 32
22935229 ACATTTGTAG
*
22935239 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAACCCAGCTATGGTCTTA-CATCAGAA
* * * *
22935272 TGTCATAGCCCAGCTATGGTCTTACATCCATAG
1 TGCCATAACCCAGCTATGGTCTTACAT-CAGAA
* ** * *
22935305 TGTCATAACCCAATTATGGTTTTATCACCAGAA
1 TGCCATAACCCAGCTATGGTCTTA-CATCAGAA
*
22935338 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAACCCAGCTATGGTCTTACAT
22935365 ATAAATACCG
Statistics
Matches: 73, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
32 5 0.07
33 66 0.90
34 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
TGCCATAACCCAGCTATGGTCTTACATCAGAA
Found at i:22935292 original size:66 final size:66
Alignment explanation
Indices: 22935222--22935364 Score: 214
Period size: 66 Copynumber: 2.2 Consensus size: 66
22935212 GGCCCTACCG
*** * * *
22935222 TGGTCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCT
1 TGGTCTTACATCCATAGTGCCATAACCCAATTATGGTCTTATCACCAGAATGCCATAGCCCAGCT
22935287 A
66 A
* *
22935288 TGGTCTTACATCCATAGTGTCATAACCCAATTATGGTTTTATCACCAGAATGCCATAGCCCAGCT
1 TGGTCTTACATCCATAGTGCCATAACCCAATTATGGTCTTATCACCAGAATGCCATAGCCCAGCT
22935353 A
66 A
22935354 TGGTCTTACAT
1 TGGTCTTACAT
22935365 ATAAATACCG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (66 bp):
TGGTCTTACATCCATAGTGCCATAACCCAATTATGGTCTTATCACCAGAATGCCATAGCCCAGCT
A
Found at i:22937576 original size:14 final size:13
Alignment explanation
Indices: 22937549--22937583 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22937539 TTTACATATT
22937549 TTTATATTTTAAAA
1 TTTA-ATTTTAAAA
22937563 TTTAATTTTAAAA
1 TTTAATTTTAAAA
*
22937576 ATTAATTT
1 TTTAATTT
22937584 AATCTATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTAATTTTAAAA
Found at i:22938126 original size:61 final size:59
Alignment explanation
Indices: 22938061--22938176 Score: 196
Period size: 61 Copynumber: 1.9 Consensus size: 59
22938051 GGTGACGGTT
*
22938061 ATTAATGTACCAACATCCCAAAAATAATTTCTTTTTGAAAAAAAATAAATGAATGCCGGCA
1 ATTAATGTACCAACATCCCAAAAATAATTTCGTTTTG-AAAAAAA-AAATGAATGCCGGCA
*
22938122 ATTAATGTACCAGCATCCCAAAAATAATTTCGTTTTGAAAAAAAAAATGAATGCC
1 ATTAATGTACCAACATCCCAAAAATAATTTCGTTTTGAAAAAAAAAATGAATGCC
22938177 AACCATCTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
59 11 0.21
60 7 0.13
61 35 0.66
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (59 bp):
ATTAATGTACCAACATCCCAAAAATAATTTCGTTTTGAAAAAAAAAATGAATGCCGGCA
Found at i:22946617 original size:70 final size:71
Alignment explanation
Indices: 22946531--22946678 Score: 187
Period size: 70 Copynumber: 2.1 Consensus size: 71
22946521 ATTAATAACT
* * * *
22946531 AATATGGATTAGAACCCTACAGAATAAGAGAA-AGAGCAATATTTCAAGAT-TTTGTCTTA-TTA
1 AATATGGATTAAAACCCTACAAAATAAGAGAACAGAGCAAGATTTCAAGATCTCTG-CTTACTT-
22946593 TCAATTTA
64 TCAATTTA
* * *
22946601 AATATGGATTAAAACCCTACAAAATAAGTGAACAGATCAAGATTTCAAGGTCTCTGCTTACTTTC
1 AATATGGATTAAAACCCTACAAAATAAGAGAACAGAGCAAGATTTCAAGATCTCTGCTTACTTTC
22946666 AATTTA
66 AATTTA
22946672 AAT-TGGA
1 AATATGGA
22946679 AAAATGAAAC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
70 33 0.49
71 30 0.44
72 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (71 bp):
AATATGGATTAAAACCCTACAAAATAAGAGAACAGAGCAAGATTTCAAGATCTCTGCTTACTTTC
AATTTA
Found at i:22947129 original size:12 final size:12
Alignment explanation
Indices: 22947112--22947136 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22947102 GGTATAATAA
22947112 TTTTATAATATT
1 TTTTATAATATT
22947124 TTTTATAATATT
1 TTTTATAATATT
22947136 T
1 T
22947137 AATTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATAATATT
Found at i:22947318 original size:28 final size:28
Alignment explanation
Indices: 22947265--22947318 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
22947255 TTTATCATGA
* *
22947265 TTTAAATATTAATATTAATATATTATAC
1 TTTAAATAATAATATTAAAATATTATAC
*
22947293 TTTAAATAATATTATTAACAAT-TTAT
1 TTTAAATAATAATATTAA-AATATTAT
22947319 TACAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.91
29 2 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTAAATAATAATATTAAAATATTATAC
Found at i:22947391 original size:17 final size:18
Alignment explanation
Indices: 22947371--22947417 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
22947361 TTAATGTCAA
*
22947371 TTTTATTAATATTTATTT
1 TTTTATTAATATTTATAT
22947389 TTTTA-TAAT-TTTATAT
1 TTTTATTAATATTTATAT
*
22947405 TTGTTATGAATAT
1 TT-TTATTAATAT
22947418 CTTGTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 8 0.33
17 7 0.29
18 8 0.33
19 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTATTAATATTTATAT
Found at i:22947394 original size:18 final size:19
Alignment explanation
Indices: 22947371--22947417 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
22947361 TTAATGTCAA
22947371 TTTTATTAATATTTAT-TT
1 TTTTATTAATATTTATATT
22947389 TTTTA-TAAT-TTTATATT
1 TTTTATTAATATTTATATT
* *
22947406 TGTTATGAATAT
1 TTTTATTAATAT
22947418 CTTGTTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 8 0.33
19 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTATTAATATTTATATT
Found at i:22948357 original size:18 final size:18
Alignment explanation
Indices: 22948336--22948375 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22948326 AAAAAAATTG
*
22948336 AATTGACTCAAATAACTC
1 AATTAACTCAAATAACTC
* *
22948354 AATTAACTTAAATAATTC
1 AATTAACTCAAATAACTC
22948372 AATT
1 AATT
22948376 CGTTTAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTAACTCAAATAACTC
Found at i:22953756 original size:16 final size:15
Alignment explanation
Indices: 22953688--22953770 Score: 71
Period size: 15 Copynumber: 5.5 Consensus size: 15
22953678 ACTATAGAAT
*
22953688 ACTATAGATTATGAA
1 ACTATAGATTTTGAA
*
22953703 ACTCTAGATTTTGAAAA
1 ACTATAGATTTTG--AA
22953720 ACTAT--ATTTTGAA
1 ACTATAGATTTTGAA
* *
22953733 ACTTTAGATTCTGAAA
1 ACTATAGATTTTG-AA
* *
22953749 ACTATAGATATTGAT
1 ACTATAGATTTTGAA
22953764 ACTATAG
1 ACTATAG
22953771 TGACGAAACT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
13 6 0.11
15 30 0.56
16 12 0.22
17 6 0.11
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (15 bp):
ACTATAGATTTTGAA
Found at i:22960482 original size:16 final size:18
Alignment explanation
Indices: 22960461--22960493 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
22960451 AACTTGGACA
22960461 TTGGAT-ATTTT-TAATT
1 TTGGATGATTTTATAATT
22960477 TTGGATGATTTTATAAT
1 TTGGATGATTTTATAAT
22960494 ATCATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (18 bp):
TTGGATGATTTTATAATT
Found at i:22962627 original size:42 final size:42
Alignment explanation
Indices: 22962579--22962872 Score: 374
Period size: 42 Copynumber: 7.0 Consensus size: 42
22962569 AGCATTTACA
* *
22962579 AAAAAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
22962621 AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGACGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
22962663 AAAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGGTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
** ** * *
22962705 TCAAAAAATTGCCACTAAAGATAATGTTCTTTAGCGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * * * * *
22962747 AAAGATAAATGCTGCTAAAGATTATGTTCTTTAGTGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
22962789 AAAGAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
** *
22962831 GGTAAAAAAA-GCCGCTATAGATCATGTTCTTTAGCGGCGCTT
1 -AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
22962873 TTCATCACGA
Statistics
Matches: 219, Mismatches: 32, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
42 213 0.97
43 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
AAAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:22968886 original size:9 final size:9
Alignment explanation
Indices: 22968867--22969427 Score: 294
Period size: 9 Copynumber: 62.3 Consensus size: 9
22968857 TATTCGTGTA
*
22968867 TAAGCTATG
1 TAAGTTATG
*
22968876 TAAGTTGTG
1 TAAGTTATG
22968885 T-A-TTATG
1 TAAGTTATG
22968892 TAAGTTATG
1 TAAGTTATG
*
22968901 TAAGTTATC
1 TAAGTTATG
* *
22968910 AAAGTAATG
1 TAAGTTATG
*
22968919 TATGTTATG
1 TAAGTTATG
22968928 TAAG-T-TG
1 TAAGTTATG
22968935 TAAGTTAT-
1 TAAGTTATG
*
22968943 TATGTATTATG
1 TAAG--TTATG
22968954 TAAGTTATG
1 TAAGTTATG
22968963 TAAGTTAAATG
1 TAAGTT--ATG
22968974 T-A-TTATG
1 TAAGTTATG
*
22968981 TAGGTTATG
1 TAAGTTATG
*
22968990 TAAGTTGTG
1 TAAGTTATG
* *
22968999 TAAGATATT
1 TAAGTTATG
*
22969008 TATGTTATG
1 TAAGTTATG
*
22969017 TAAGTTTTG
1 TAAGTTATG
22969026 T-A-TTATG
1 TAAGTTATG
22969033 TAAGTTATG
1 TAAGTTATG
*
22969042 TACGTGTA--
1 TAAGT-TATG
22969050 TAAGTTATG
1 TAAGTTATG
22969059 TAAGTTATG
1 TAAGTTATG
*
22969068 T-A-TTAAG
1 TAAGTTATG
*
22969075 TAAGCTATG
1 TAAGTTATG
*
22969084 TAAGTTGTG
1 TAAGTTATG
22969093 T-A-TTATG
1 TAAGTTATG
22969100 TAAGTTATG
1 TAAGTTATG
*
22969109 TAAGTTATC
1 TAAGTTATG
* **
22969118 AAAGAAATG
1 TAAGTTATG
*
22969127 TATGTTATG
1 TAAGTTATG
22969136 TAAG-T-TG
1 TAAGTTATG
22969143 TAAGTTAT-
1 TAAGTTATG
*
22969151 TATGTATTATG
1 TAAG--TTATG
22969162 TAAGTTATG
1 TAAGTTATG
22969171 TAAGTTAAATG
1 TAAGTT--ATG
22969182 T-A-TTATG
1 TAAGTTATG
*
22969189 TAGGTTATG
1 TAAGTTATG
*
22969198 TAAGTTGTG
1 TAAGTTATG
* *
22969207 TAAGATATT
1 TAAGTTATG
22969216 TAAGTTATG
1 TAAGTTATG
*
22969225 TAAGTTTTTG
1 TAAG-TTATG
22969235 T-A-TTATG
1 TAAGTTATG
22969242 TAAGTTATG
1 TAAGTTATG
*
22969251 TCAGTTATG
1 TAAGTTATG
* *
22969260 TATGCTATG
1 TAAGTTATG
22969269 T-A-TTATG
1 TAAGTTATG
22969276 TAAGTTGTTATG
1 TAA---GTTATG
* *
22969288 TTA-TTACG
1 TAAGTTATG
22969296 TAAGTTATG
1 TAAGTTATG
* *
22969305 CAAGTTTATATA
1 TAAG--T-TATG
*
22969317 TAAGCTTGTAG
1 TAAG-TTAT-G
*
22969328 ATAACTTATG
1 -TAAGTTATG
22969338 TAAGTTATG
1 TAAGTTATG
*
22969347 TCAGTTAATATG
1 TAAG-T--TATG
*
22969359 TAAGTAATG
1 TAAGTTATG
22969368 T-A-TTATG
1 TAAGTTATG
*
22969375 TAAGTTTATA
1 TAAG-TTATG
* *
22969385 TAAAAATTTTATA
1 T---AA-GTTATG
22969398 TAAGTTATG
1 TAAGTTATG
*
22969407 TAAGTAATG
1 TAAGTTATG
*
22969416 TAAGTAATG
1 TAAGTTATG
22969425 TAA
1 TAA
22969428 TAAATTTAAC
Statistics
Matches: 416, Mismatches: 83, Indels: 106
0.69 0.14 0.18
Matches are distributed among these distances:
7 57 0.14
8 32 0.08
9 248 0.60
10 28 0.07
11 20 0.05
12 23 0.06
13 8 0.02
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:22968947 original size:19 final size:19
Alignment explanation
Indices: 22968923--22968961 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22968913 GTAATGTATG
22968923 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
22968942 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
22968961 T
1 T
22968962 GTAAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:22968957 original size:62 final size:64
Alignment explanation
Indices: 22968883--22969027 Score: 185
Period size: 62 Copynumber: 2.3 Consensus size: 64
22968873 ATGTAAGTTG
* *
22968883 TGTATTATGTAAGTTATGTAAGTTATCAAAGTA-ATGTATGTTATGTAAG-T-TGTAAGTTA-TT
1 TGTATTATGTAAGTTATGTAAGTTA--AAAGTATATGTAGGTTATGTAAGTTGTGTAAGATATTT
22968944 A
64 A
*
22968945 TGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTA
1 TGTATTATGTAAGTTATGTAAGTTAAAAGTA-TATGTAGGTTATGTAAGTTGTGTAAGATATTTA
*
22969010 TG--TTATGTAAGTTTTGTA
1 TGTATTATGTAAGTTATGTA
22969028 TTATGTAAGT
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
60 5 0.07
62 40 0.54
63 16 0.22
64 8 0.11
65 5 0.07
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (64 bp):
TGTATTATGTAAGTTATGTAAGTTAAAAGTATATGTAGGTTATGTAAGTTGTGTAAGATATTTA
Found at i:22969018 original size:98 final size:94
Alignment explanation
Indices: 22968887--22969094 Score: 222
Period size: 98 Copynumber: 2.2 Consensus size: 94
22968877 AAGTTGTGTA
* * * * *
22968887 TTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAGT-TGTAAGTTAT-TATGTAT
1 TTATGTAAGTTGTGTAAGATATCAAAGTAATGTAAGTTATGT-AGTATGTAAGTTATGTACGT-G
* *
22968950 TATGTAAGTTATGTAAGTTAAATGTATTATGTAGG
64 TA--TAAGTTATGTAAGTT--ATGTATTAAGTAAG
** * * * *
22968985 TTATGTAAGTTGTGTAAGATATTTATGTTATGTAAGTTTTGTATTATGTAAGTTATGTACGTGTA
1 TTATGTAAGTTGTGTAAGATATCAAAGTAATGTAAGTTATGTAGTATGTAAGTTATGTACGTGTA
22969050 TAAGTTATGTAAGTTATGTATTAAGTAAG
66 TAAGTTATGTAAGTTATGTATTAAGTAAG
*
22969079 CTATGTAAGTTGTGTA
1 TTATGTAAGTTGTGTA
22969095 TTATGTAAGT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
94 27 0.29
96 15 0.16
97 2 0.02
98 46 0.49
99 4 0.04
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (94 bp):
TTATGTAAGTTGTGTAAGATATCAAAGTAATGTAAGTTATGTAGTATGTAAGTTATGTACGTGTA
TAAGTTATGTAAGTTATGTATTAAGTAAG
Found at i:22969155 original size:19 final size:19
Alignment explanation
Indices: 22969131--22969169 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22969121 GAAATGTATG
22969131 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
22969150 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
22969169 T
1 T
22969170 GTAAGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:22969178 original size:208 final size:209
Alignment explanation
Indices: 22968867--22969251 Score: 745
Period size: 208 Copynumber: 1.8 Consensus size: 209
22968857 TATTCGTGTA
*
22968867 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAAG
1 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGAAATGTATGTTATGTAAG
22968932 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTG
66 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTG
*
22968997 TGTAAGATATTTATGTTATGTAAG-TTTTGTATTATGTAAGTTATGTACGTGTATAAGTTATGTA
131 TGTAAGATATTTAAGTTATGTAAGTTTTTGTATTATGTAAGTTATGTACGTGTATAAGTTATGTA
22969061 AGTTATGTATTAAG
196 AGTTATGTATTAAG
22969075 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGAAATGTATGTTATGTAAG
1 TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGAAATGTATGTTATGTAAG
22969140 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTG
66 TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTG
22969205 TGTAAGATATTTAAGTTATGTAAGTTTTTGTATTATGTAAGTTATGT
131 TGTAAGATATTTAAGTTATGTAAGTTTTTGTATTATGTAAGTTATGT
22969252 CAGTTATGTA
Statistics
Matches: 174, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
208 152 0.87
209 22 0.13
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (209 bp):
TAAGCTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATCAAAGAAATGTATGTTATGTAAG
TTGTAAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTG
TGTAAGATATTTAAGTTATGTAAGTTTTTGTATTATGTAAGTTATGTACGTGTATAAGTTATGTA
AGTTATGTATTAAG
Found at i:22969196 original size:80 final size:80
Alignment explanation
Indices: 22969104--22969257 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
22969094 ATTATGTAAG
* *
22969104 TTATGTAAGTTATCAAAGAAATGTATGTTATGTAAG-T-TGTAAGTTATTATGTATTATGTAAGT
1 TTATGTAAGTTATCAAAGAAATGTAAGATATGTAAGTTATGTAAGTT-TT-TGTATTATGTAAGT
22969167 TATGTAAGTTAAATGTA
64 TATGTAAGTTAAATGTA
* ** *** *
22969184 TTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTTATGTAAGTTTTTGTATTATGTAAGTTA
1 TTATGTAAGTTATCAAAGAAATGTAAGATATGTAAGTTATGTAAGTTTTTGTATTATGTAAGTTA
*
22969249 TGTCAGTTA
66 TGTAAGTTA
22969258 TGTATGCTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 51 0.82
81 3 0.05
82 8 0.13
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (80 bp):
TTATGTAAGTTATCAAAGAAATGTAAGATATGTAAGTTATGTAAGTTTTTGTATTATGTAAGTTA
TGTAAGTTAAATGTA
Found at i:22969299 original size:89 final size:89
Alignment explanation
Indices: 22968867--22969380 Score: 325
Period size: 89 Copynumber: 5.7 Consensus size: 89
22968857 TATTCGTGTA
* * ** *
22968867 TAAGCTATGTAAG-TTGTGTATTATGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGTAA
1 TAAGTTATGTAAGTTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTA--TTATGTAA
* *
22968931 GTTG-TAAGTTATTATGT-A-TTATG
64 GTTGTTATGTTATTATGTAAGATATG
* * * * *
22968954 TAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTATGTTATGTA
1 TAAGTTATGTAAGTT-TATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTA--TTATGTA
*
22969019 AG-T-TT-TG-TATTATGTAAGTTATG
63 AGTTGTTATGTTATTATGTAAGATATG
* * * *
22969042 TACGTGTA--TAAG-TTATGTAAGTTATGT-A-TTAAGTAAGCTATGTAAGTTGTGTATTATGTA
1 TAAGT-TATGTAAGTTTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGTA
* ** *
22969102 A---GTTATGTAAGTTATCAAAGAAATG
63 AGTTGTTATGTTA-TTATGTAAGATATG
* *
22969127 TATGTTATGTAAGTTGTAAGTTATTATGT-A-TTATGTAAGTTATGTAAGTTAAATGTATTATGT
1 TAAGTTATGTAAGTT-TATG-TATTATGTAAGTTATGTAAGTTATGTAAGTT--ATGTATTATGT
* * *
22969190 -AG--GTTATGTAAGTTGTGTAAGATATT
62 AAGTTGTTATGTTA-TTATGTAAGATATG
* * * *
22969216 TAAGTTATGTAAGTTTTTGTATTATGTAAGTTATGTCAGTTATGTATGCTATGTATTATGTAAGT
1 TAAGTTATGTAAGTTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGTAAGT
* *
22969281 TGTTATGTTATTACGTAAGTTATG
66 TGTTATGTTATTATGTAAGATATG
* * * *
22969305 CAAGTTTATATATAAGCTTGTA-GATAACTTATGTAAGTTATGTCAGTTAATATGTAAGTAATGT
1 TAAG--T-TATGTAAG-TT-TATG-T-A-TTATGTAAGTTATGTAAG-T--TATGTAAGTTATGT
22969369 ATTATGTAAGTT
55 ATTATGTAAGTT
22969381 TATATAAAAA
Statistics
Matches: 339, Mismatches: 52, Indels: 60
0.75 0.12 0.13
Matches are distributed among these distances:
82 2 0.01
83 10 0.03
84 3 0.01
85 37 0.11
86 14 0.04
87 69 0.20
88 22 0.06
89 118 0.35
90 8 0.02
91 1 0.00
92 7 0.02
93 3 0.01
94 2 0.01
95 1 0.00
96 18 0.05
97 1 0.00
99 23 0.07
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (89 bp):
TAAGTTATGTAAGTTTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTATGTATTATGTAAGT
TGTTATGTTATTATGTAAGATATG
Found at i:22969310 original size:80 final size:79
Alignment explanation
Indices: 22969144--22969311 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 79
22969134 TGTAAGTTGT
22969144 AAGTTATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTA
1 AAGTT-TTATGTATTATGTAAGTTATGTAAGTT-AATGTATTATGTA-GTTATGTAAGTTGTGTA
*
22969209 AGATATTTAAGTTATGT
63 AGATATTTAAGTTATGC
* *
22969226 AAGTTTT-TGTATTATGTAAGTTATGTCAGTT-ATGTATGCTATGTA-TTATGTAAGTTGT-TAT
1 AAGTTTTATGTATTATGTAAGTTATGTAAGTTAATGTAT--TATGTAGTTATGTAAGTTGTGTAA
*
22969287 GTTATTACGTAAGTTATGC
64 GATATT---TAAGTTATGC
22969306 AAGTTT
1 AAGTTT
22969312 ATATATAAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
77 7 0.09
78 19 0.25
80 44 0.57
81 2 0.03
82 5 0.06
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (79 bp):
AAGTTTTATGTATTATGTAAGTTATGTAAGTTAATGTATTATGTAGTTATGTAAGTTGTGTAAGA
TATTTAAGTTATGC
Found at i:22969484 original size:33 final size:31
Alignment explanation
Indices: 22969408--22969493 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
22969398 TAAGTTATGT
*
22969408 AAGTAATGTAAGTAATGTAATAAATTTAACC
1 AAGTTATGTAAGTAATGTAATAAATTTAACC
*
22969439 AAATTATGTAAGTAATGT-ATAAAAGTTTTATA-C
1 AAGTTATGTAAGTAATGTAAT-AAA--TTTA-ACC
22969472 AAGTTATGTAAGTAATGTAATA
1 AAGTTATGTAAGTAATGTAATA
22969494 TATACTTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 2 0.04
31 19 0.40
33 23 0.49
34 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (31 bp):
AAGTTATGTAAGTAATGTAATAAATTTAACC
Found at i:22969528 original size:13 final size:13
Alignment explanation
Indices: 22969510--22969608 Score: 92
Period size: 13 Copynumber: 7.5 Consensus size: 13
22969500 TAAATTTTAG
*
22969510 TAAGTAATGTATT
1 TAAGTAATATATT
*
22969523 TAAGTAACATATT
1 TAAGTAATATATT
*
22969536 TAAGTAATAAATT
1 TAAGTAATATATT
** *
22969549 TAACCAA-ATTTT
1 TAAGTAATATATT
*
22969561 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
22969576 TAAGTAATTTATT
1 TAAGTAATATATT
22969589 TAAGTAATATATT
1 TAAGTAATATATT
*
22969602 AAAGTAA
1 TAAGTAA
22969609 ATTTTAGTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.84
14 5 0.07
15 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:22969635 original size:53 final size:53
Alignment explanation
Indices: 22969500--22969618 Score: 184
Period size: 53 Copynumber: 2.2 Consensus size: 53
22969490 AATATATACT
*
22969500 TAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAC
1 TAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTAAAC
* ** * *
22969553 CAAATTTTAGTAAGTAATGTATTTAAGTAATTTATTTAAGTAATATATTAAAG
1 TAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTAAAC
22969606 TAAATTTTAGTAA
1 TAAATTTTAGTAA
22969619 AAAATGTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.43
Consensus pattern (53 bp):
TAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTAAAC
Found at i:22969646 original size:53 final size:52
Alignment explanation
Indices: 22969500--22969646 Score: 168
Period size: 53 Copynumber: 2.8 Consensus size: 52
22969490 AATATATACT
* *
22969500 TAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAC
1 TAAATTTTAGTAAGTAATGTATTTAAGTAATA-ATTTAAGTAATAAATTAAAC
* * * *
22969553 CAAATTTTAGTAAGTAATGTATTTAAGTAATTTATTTAAGTAATATATTAAAG
1 TAAATTTTAGTAAGTAATGTATTTAAGTAA-TAATTTAAGTAATAAATTAAAC
** * * *
22969606 TAAATTTTAGTAAAAAATGTGTTTTAGTAAGTAATGTAAGT
1 TAAATTTTAGTAAGTAATGTATTTAAGTAA-TAATTTAAGT
22969647 CATGTAAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 79 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (52 bp):
TAAATTTTAGTAAGTAATGTATTTAAGTAATAATTTAAGTAATAAATTAAAC
Done.