Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 9 of 318
Found at i:2263773 original size:18 final size:18
Alignment explanation
Indices: 2263752--2263794 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
2263742 TTTTACTCAC
2263752 ATTGAAACTCCATGTTAT
1 ATTGAAACTCCATGTTAT
*
2263770 ATTGGAACTCCATGTTAT
1 ATTGAAACTCCATGTTAT
2263788 ATTGAAA
1 ATTGAAA
2263795 GATTGCCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
ATTGAAACTCCATGTTAT
Found at i:2268706 original size:31 final size:31
Alignment explanation
Indices: 2268632--2268707 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
2268622 AAAAAAGATT
* * *
2268632 AAGTACCAACTTAAGAAAAAAAATGTCAAATTT
1 AAGTACCAAATT-A-AAAAAAAATATCAAATTC
* *
2268665 AAGTATCAAATTAAAAAAAAATATCAAGTTC
1 AAGTACCAAATTAAAAAAAAATATCAAATTC
*
2268696 AGGTACCAAATT
1 AAGTACCAAATT
2268708 GTTATAAGTC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 25 0.69
32 1 0.03
33 10 0.28
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (31 bp):
AAGTACCAAATTAAAAAAAAATATCAAATTC
Found at i:2271352 original size:24 final size:24
Alignment explanation
Indices: 2271324--2271371 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2271314 TCGATAAAAG
2271324 CTCGAACCCTGAAGCTAAAACGGT
1 CTCGAACCCTGAAGCTAAAACGGT
2271348 CTCGAACCCTGAAGCTAAAACGGT
1 CTCGAACCCTGAAGCTAAAACGGT
2271372 GAACTTAGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (24 bp):
CTCGAACCCTGAAGCTAAAACGGT
Found at i:2274788 original size:18 final size:18
Alignment explanation
Indices: 2274749--2274789 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2274739 CATAATATAG
* *
2274749 TAATGGTAATAATAACGT
1 TAATAGTAATAATAACGA
*
2274767 TAATAGTAATAATACCGA
1 TAATAGTAATAATAACGA
2274785 TAATA
1 TAATA
2274790 ATTTAGAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (18 bp):
TAATAGTAATAATAACGA
Found at i:2275008 original size:22 final size:22
Alignment explanation
Indices: 2274963--2275038 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
2274953 AACAATAGTG
*
2274963 AAAATAATAAGTATA-AT-AATA
1 AAAATAAT-AGTATATATAAAAA
2274984 AAAATAATAGTATATATAAAAA
1 AAAATAATAGTATATATAAAAA
* *
2275006 AAAATAATACTACATATAAAGAA
1 AAAATAATAGTATATATAAA-AA
*
2275029 AATATAATAG
1 AAAATAATAG
2275039 GGGTGAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 6 0.13
21 10 0.21
22 21 0.45
23 10 0.21
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAATAATAGTATATATAAAAA
Found at i:2275566 original size:2 final size:2
Alignment explanation
Indices: 2275557--2275591 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
2275547 TAATATGGAG
*
2275557 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2275592 GTAAAAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2277693 original size:26 final size:26
Alignment explanation
Indices: 2277664--2277721 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
2277654 AAATTCGAAT
*
2277664 TTAAATTG-AAAATTTTTTAATCTAAC
1 TTAAATTGAAAAATTTTCT-ATCTAAC
2277690 TTAAATTGAAAAATTTTCTATCTAAC
1 TTAAATTGAAAAATTTTCTATCTAAC
2277716 TTAAAT
1 TTAAAT
2277722 CCCAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (26 bp):
TTAAATTGAAAAATTTTCTATCTAAC
Found at i:2277728 original size:27 final size:27
Alignment explanation
Indices: 2277672--2277729 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
2277662 ATTTAAATTG
* **
2277672 AAAATTTTTTAATCTAACTTAAATTGA
1 AAAATTTTCTAATCTAACTTAAATCCA
*
2277699 AAAATTTTCT-ATCTAACTTAAATCCC
1 AAAATTTTCTAATCTAACTTAAATCCA
2277725 AAAAT
1 AAAAT
2277730 AAACTCCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (27 bp):
AAAATTTTCTAATCTAACTTAAATCCA
Found at i:2278326 original size:12 final size:12
Alignment explanation
Indices: 2278309--2278340 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
2278299 TATACAACTC
2278309 TTAATTTTATTA
1 TTAATTTTATTA
2278321 TTAATTTTATTA
1 TTAATTTTATTA
2278333 TT-ATTTTA
1 TTAATTTTA
2278341 GAGGTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAATTTTATTA
Found at i:2278694 original size:19 final size:19
Alignment explanation
Indices: 2278670--2278716 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2278660 TGAAAAACTC
2278670 TAAATTATTAAATT-AATTT
1 TAAATTATT-AATTCAATTT
*
2278689 TAAATTATTCATTCAATTT
1 TAAATTATTAATTCAATTT
*
2278708 TAAAATATT
1 TAAATTATT
2278717 TTAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAATTATTAATTCAATTT
Found at i:2282606 original size:78 final size:75
Alignment explanation
Indices: 2282512--2282716 Score: 238
Period size: 78 Copynumber: 2.7 Consensus size: 75
2282502 TTTGGTAGGA
2282512 TTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAAACTAGTTTATTTTTTTCCTTTTAGGAGGGAAGA
1 TTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAAACTAGTTTATTTTTTTCCTTTT-GGAGGGAAG-
* **
2282577 AATGAAAATGGG
64 AAGGAAAATAAG
* * *** *
2282589 TTTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAACCTAGTTTCA-TTTTTGCTCTTTTTTTGGGTA
1 -TTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAAACTAGTTT-ATTTTTTTC-CTTTTGGAGGGAA
2282653 GAAGGAAAATAAG
63 GAAGGAAAATAAG
* *
2282666 --AG-GGAAGGAAAAGAAAGATTTGAAAGGAAACTAGTTTCTTTTTTTCCTTTT
1 TTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAAACTAGTTTATTTTTTTCCTTTT
2282717 TCTTTGGGAG
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
72 5 0.05
73 39 0.35
74 2 0.02
77 9 0.08
78 50 0.45
79 6 0.05
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (75 bp):
TTAGAGGAAGGAAAAGAAAGGTTTGAAAGGAAACTAGTTTATTTTTTTCCTTTTGGAGGGAAGAA
GGAAAATAAG
Found at i:2282700 original size:73 final size:73
Alignment explanation
Indices: 2282595--2282750 Score: 226
Period size: 73 Copynumber: 2.1 Consensus size: 73
2282585 TGGGTTTAGA
* *
2282595 GGAAGGAAAAGAAAGGTTTGAAAGGAACCTAGTTTCATTTTTG-CTCTTTT-TTTGGGTAGAAGG
1 GGAAGGAAAAGAAAGATTTGAAAGGAAACTAGTTTCATTTTTGCCT-TTTTCTTTGGG-AGAAGG
2282658 AAAATAAGAG
64 AAAATAAGAG
* *
2282668 GGAAGGAAAAGAAAGATTTGAAAGGAAACTAGTTTCTTTTTTTCCTTTTTCTTTGGGAGAAGGAA
1 GGAAGGAAAAGAAAGATTTGAAAGGAAACTAGTTTCATTTTTGCCTTTTTCTTTGGGAGAAGGAA
* *
2282733 GATAGGAG
66 AATAAGAG
2282741 GGAAGGAAAA
1 GGAAGGAAAA
2282751 TGGGTGGTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
73 67 0.89
74 8 0.11
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (73 bp):
GGAAGGAAAAGAAAGATTTGAAAGGAAACTAGTTTCATTTTTGCCTTTTTCTTTGGGAGAAGGAA
AATAAGAG
Found at i:2283626 original size:17 final size:18
Alignment explanation
Indices: 2283601--2283640 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
2283591 TAAGAGAGAA
*
2283601 AGAAAGAAC-TGAAAAGG
1 AGAAGGAACGTGAAAAGG
2283618 AGAAGGAACGTGAAAAGG
1 AGAAGGAACGTGAAAAGG
2283636 A-AAGG
1 AGAAGG
2283641 GAGAAGGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.55, C:0.05, G:0.35, T:0.05
Consensus pattern (18 bp):
AGAAGGAACGTGAAAAGG
Found at i:2283637 original size:12 final size:12
Alignment explanation
Indices: 2283617--2283671 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
2283607 AACTGAAAAG
*
2283617 GAGAAGGAACGT
1 GAGAAGGAACGC
* * *
2283629 GAAAAGGAAAGG
1 GAGAAGGAACGC
2283641 GAGAAGGAACGC
1 GAGAAGGAACGC
* *
2283653 GAGAAGGAAAGG
1 GAGAAGGAACGC
2283665 GAGAAGG
1 GAGAAGG
2283672 CTGAAAGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.47, C:0.05, G:0.45, T:0.02
Consensus pattern (12 bp):
GAGAAGGAACGC
Found at i:2283643 original size:24 final size:24
Alignment explanation
Indices: 2283611--2283671 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
2283601 AGAAAGAACT
* *
2283611 GAAAAGGAGAAGGAACGTGAAAAG
1 GAAAGGGAGAAGGAACGCGAAAAG
*
2283635 GAAAGGGAGAAGGAACGCGAGAAG
1 GAAAGGGAGAAGGAACGCGAAAAG
2283659 GAAAGGGAGAAGG
1 GAAAGGGAGAAGG
2283672 CTGAAAGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.49, C:0.05, G:0.44, T:0.02
Consensus pattern (24 bp):
GAAAGGGAGAAGGAACGCGAAAAG
Found at i:2287098 original size:12 final size:12
Alignment explanation
Indices: 2287083--2287112 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2287073 AGATTTGGAT
2287083 TTTGATTTTGAG
1 TTTGATTTTGAG
*
2287095 TTTGAGTTTGAG
1 TTTGATTTTGAG
2287107 TTTGAT
1 TTTGAT
2287113 AAGTAGAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.57
Consensus pattern (12 bp):
TTTGATTTTGAG
Found at i:2293667 original size:23 final size:23
Alignment explanation
Indices: 2293611--2293669 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2293601 AAATATTTTT
*
2293611 AAATTTTAGATTTAATTATAAAA
1 AAATTTTAAATTTAATTATAAAA
* *
2293634 AAATATAAAATATTAA-TATAAAA
1 AAATTTTAAAT-TTAATTATAAAA
*
2293657 ATATTTTAAATTT
1 AAATTTTAAATTT
2293670 TTAATAACTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.07
23 23 0.79
24 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATTTTAAATTTAATTATAAAA
Found at i:2294221 original size:11 final size:11
Alignment explanation
Indices: 2294207--2294284 Score: 57
Period size: 11 Copynumber: 6.7 Consensus size: 11
2294197 CTTAATAAGC
2294207 AAATAATAATA
1 AAATAATAATA
*
2294218 AAATTAACAATA
1 AAA-TAATAATA
* *
2294230 AAATAATATTT
1 AAATAATAATA
* *
2294241 ATATAATATTCAA
1 AAATAATAAT--A
2294254 ATAATAATAATA
1 A-AATAATAATA
*
2294266 AAATAATAGTA
1 AAATAATAATA
*
2294277 ATATAATA
1 AAATAATA
2294285 GTGAAATAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
11 33 0.62
12 12 0.23
13 1 0.02
14 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:2299640 original size:2 final size:2
Alignment explanation
Indices: 2299633--2299657 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2299623 AATATAAGAA
2299633 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2299658 CACCAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2299689 original size:3 final size:3
Alignment explanation
Indices: 2299681--2299718 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2299671 GAAGTTCTGA
2299681 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2299719 ATGCTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2299809 original size:23 final size:22
Alignment explanation
Indices: 2299764--2299811 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2299754 AGTTTGTGCA
*
2299764 TTTTTATTTTTAGGAATTCAAT
1 TTTTTATTTTTAGGAATTAAAT
**
2299786 TTTTCTATTTTTAGGTTTTAAAT
1 TTTT-TATTTTTAGGAATTAAAT
2299809 TTT
1 TTT
2299812 AGGTTCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (22 bp):
TTTTTATTTTTAGGAATTAAAT
Found at i:2307203 original size:27 final size:27
Alignment explanation
Indices: 2307173--2307238 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
2307163 TAAGTTTCGT
* *
2307173 GGGACAGTCCACCATATAGGTGTTTGG
1 GGGACAGTCCACAAAATAGGTGTTTGG
* ** *
2307200 GGGACACTCCGTAAAATAGGTGTTTGT
1 GGGACAGTCCACAAAATAGGTGTTTGG
*
2307227 AGGACAGTCCAC
1 GGGACAGTCCAC
2307239 TGTTTAGCCT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (27 bp):
GGGACAGTCCACAAAATAGGTGTTTGG
Found at i:2309826 original size:27 final size:26
Alignment explanation
Indices: 2309714--2309829 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
2309704 ATATGCCATG
**
2309714 AAGGCATTCCTTTTTATAGATCACTACA
1 AAGGC-TTCCTTTTT-TAGATTTCTACA
* * * *
2309742 AATGCTTCCTTTTCATAGATATCCACA
1 AAGGCTTCCTTTT-TTAGATTTCTACA
* *
2309769 AAGACTT-CTGTTCTTTAGATTGCTACA
1 AAGGCTTCCT-TT-TTTAGATTTCTACA
2309796 AAGGCTTCCTTTTGTTAGATTTCTACA
1 AAGGCTTCCTTTT-TTAGATTTCTACA
2309823 AAGGCTT
1 AAGGCTT
2309830 TCATTTCTAG
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.04
27 60 0.86
28 7 0.10
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (26 bp):
AAGGCTTCCTTTTTTAGATTTCTACA
Found at i:2310002 original size:50 final size:50
Alignment explanation
Indices: 2309944--2310043 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
2309934 TCCTTTAGTC
* * * *
2309944 CTTTCCATATTATGTCATAACCCACCAGTTATGGTCTTATACAATATGGT
1 CTTTCCATATGATGCCATAACCCACCAGCTATGGTCTTACACAATATGGT
*
2309994 CTTTCCATATGATGCCATAGCCCACCAGCTATGGTCTTACACAATATGGT
1 CTTTCCATATGATGCCATAACCCACCAGCTATGGTCTTACACAATATGGT
2310044 GCGATAGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (50 bp):
CTTTCCATATGATGCCATAACCCACCAGCTATGGTCTTACACAATATGGT
Found at i:2313745 original size:5 final size:5
Alignment explanation
Indices: 2313735--2313771 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
2313725 ATATTAATAT
2313735 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
2313772 AAGTAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:2313833 original size:18 final size:19
Alignment explanation
Indices: 2313789--2313834 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
2313779 TAAAAGAAAT
2313789 GAAATA-AAAGAAACAAAA
1 GAAATAGAAAGAAACAAAA
*
2313807 GAAAAAGAAAG-AACAAACA
1 GAAATAGAAAGAAACAAA-A
2313826 G-AATAGAAA
1 GAAATAGAAA
2313835 ACGAAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.74, C:0.07, G:0.15, T:0.04
Consensus pattern (19 bp):
GAAATAGAAAGAAACAAAA
Found at i:2320041 original size:46 final size:46
Alignment explanation
Indices: 2319974--2320148 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
2319964 TCTAACCCGC
*
2319974 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
2320020 CCATAAGTGAACTCGGACTCAACCCAACGAGCTCGGGTGCCTAATT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-G-C--ATTCGCAT
* * * * **
2320070 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
2320113 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
2320149 TTGCTCAACC
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:2323573 original size:35 final size:35
Alignment explanation
Indices: 2323511--2323620 Score: 105
Period size: 35 Copynumber: 3.0 Consensus size: 35
2323501 TTTTCTCATT
*
2323511 GAAATGCCATACCTACATTTTACAACTCGGTATGG
1 GAAATGCCATACCTACATTTTACAACTCAGTATGG
* * *
2323546 GAAATGCCATACCTACGTTTCT-TAACTCAGTATAGATTT
1 GAAATGCCATACCTACATTT-TACAACTCAGTAT-G---G
* *
2323585 GATAATACCATACCTACATTTCACAACTCAGTATGG
1 GA-AATGCCATACCTACATTTTACAACTCAGTATGG
2323621 ATGATACCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
35 28 0.47
36 2 0.03
39 3 0.05
40 26 0.44
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (35 bp):
GAAATGCCATACCTACATTTTACAACTCAGTATGG
Found at i:2326247 original size:3 final size:3
Alignment explanation
Indices: 2326239--2326271 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
2326229 CCTCCCACTT
2326239 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
2326272 TTCTCCTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:2333826 original size:105 final size:105
Alignment explanation
Indices: 2333644--2333848 Score: 383
Period size: 105 Copynumber: 2.0 Consensus size: 105
2333634 GTGCGAGTTA
2333644 AACAATGTGAAGTTGCCTAATCTCGTGGAGTCCACTTTAAATCAGGTCTATCCGCCTCGTGCAAC
1 AACAATGTGAAGTTGCCTAATCTCGTGGAGTCCACTTTAAATCAGGTCTATCCGCCTCGTGCAAC
2333709 TAAGGTTAAGAAGTTGGTTGAGGACTTGAAGAGTAAATCC
66 TAAGGTTAAGAAGTTGGTTGAGGACTTGAAGAGTAAATCC
* * *
2333749 AACAATGTGAAGTTGCCTGATCTCGTGGAGTCCACTTTAAATCAGGTCTATCCGCCTCGTGTATC
1 AACAATGTGAAGTTGCCTAATCTCGTGGAGTCCACTTTAAATCAGGTCTATCCGCCTCGTGCAAC
2333814 TAAGGTTAAGAAGTTGGTTGAGGACTTGAAGAGTA
66 TAAGGTTAAGAAGTTGGTTGAGGACTTGAAGAGTA
2333849 CATCAACTGA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (105 bp):
AACAATGTGAAGTTGCCTAATCTCGTGGAGTCCACTTTAAATCAGGTCTATCCGCCTCGTGCAAC
TAAGGTTAAGAAGTTGGTTGAGGACTTGAAGAGTAAATCC
Found at i:2337878 original size:50 final size:50
Alignment explanation
Indices: 2337798--2337908 Score: 195
Period size: 50 Copynumber: 2.2 Consensus size: 50
2337788 CCATGGCAAC
* *
2337798 AAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
2337848 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
2337898 AAGTGATAAGT
1 AAGTGATAAGT
2337909 TGTAACACCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:2339548 original size:40 final size:39
Alignment explanation
Indices: 2339490--2339925 Score: 376
Period size: 40 Copynumber: 11.0 Consensus size: 39
2339480 ACCCTGAATT
* *
2339490 CAATCACCAGCACAAAGCCTACGGGACTTTAAG-CTCGGATA
1 CAAT-ACCAGCACGAAGCCTGC-GGACTTTAAGTC-CGGATA
* * * * *
2339531 TAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAATA
1 CAATACCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
* * *
2339570 TAGTACCAGCACGAAGCCTACGGA-TCTTAAGTCCGGATA
1 CAATACCAGCACGAAGCCTGCGGACT-TTAAGTCCGGATA
* * * *
2339609 CAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATA
1 CAATACCAGCACGAAGCCTGC-GGACTTTAAGTCCGGATA
* * * * *
2339649 CAATTCCAGCACGAAGCTTGTGGGTCTTTAAGCCCGGATA
1 CAATACCAGCACGAAGCCTG-CGGACTTTAAGTCCGGATA
*
2339689 CAATTCCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
1 CAATACCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
* * * * * *
2339728 CAATTCCAGCACAAAGCTTGTGGGTCTTTAAGCCCGGATA
1 CAATACCAGCACGAAGCCTG-CGGACTTTAAGTCCGGATA
* * *
2339768 CAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCAGATA
1 CAATACCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
* * *
2339807 CAATTCCAGCACAAAGCCTGCGGGTCTTTAAG-CCAGGATA
1 CAATACCAGCACGAAGCCTGC-GGACTTTAAGTCC-GGATA
* * * * *
2339847 TAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 CAATACCAGCACGA-AGCCTGC-GGACTTTAAGTCCGGATA
* * * *
2339887 CAATTCCAGCACGAAGCTTGCGGACCTCAAGTCCGGATA
1 CAATACCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
2339926 TACATCAAAT
Statistics
Matches: 334, Mismatches: 50, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
39 150 0.45
40 178 0.53
41 6 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
CAATACCAGCACGAAGCCTGCGGACTTTAAGTCCGGATA
Found at i:2339658 original size:79 final size:79
Alignment explanation
Indices: 2339496--2339909 Score: 474
Period size: 79 Copynumber: 5.2 Consensus size: 79
2339486 AATTCAATCA
* * * * * * * * * *
2339496 CCAGCACAAAGCCTACGGGACTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAA
1 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACTTTAA
* * * *
2339561 GTCC-GAATATAGTA
66 GCCCAG-ATACAATT
* * * * *
2339575 CCAGCACGAAGCCTACGGATC-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTA
1 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACTTTA
2339639 AGCCCAGATACAATT
65 AGCCCAGATACAATT
*
2339654 CCAGCACGAAGCTTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACTTTAA
1 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACTTTAA
* *
2339719 GTCCGGATACAATT
66 GCCCAGATACAATT
* * *
2339733 CCAGCACAAAGCTTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
1 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACTTTAA
*
2339798 GTCCAGATACAATT
66 GCCCAGATACAATT
* * * * * *
2339812 CCAGCACAAAGCCTGCGGGTCTTTAAGCCAGGATATAATTCCAGCA-TATAGCCTGCGGGTCTTT
1 CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGC-GGACTTT
*
2339876 AAGCCCGGATACAATT
64 AAGCCCAGATACAATT
2339892 CCAGCACGAAGCTTGCGG
1 CCAGCACGAAGCTTGCGG
2339910 ACCTCAAGTC
Statistics
Matches: 293, Mismatches: 37, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
78 29 0.10
79 195 0.67
80 69 0.24
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (79 bp):
CCAGCACGAAGCTTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACTTTAA
GCCCAGATACAATT
Found at i:2339919 original size:119 final size:119
Alignment explanation
Indices: 2339496--2339925 Score: 551
Period size: 119 Copynumber: 3.6 Consensus size: 119
2339486 AATTCAATCA
* * * * * * *
2339496 CCAGCACAAAGCCTACGGGACTTTAAGCTCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAA
1 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
* * * * * *
2339561 GTCCGAATATAGTACCAGCACGAAGCCTACGGATC-TTAAGTCCGGATACAATT
66 GTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGTCCGGATACAATT
* * * * * *
2339614 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCTTGTGGGTCTTTA
1 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTG-CGGACCTTA
* *
2339679 AGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACTTTAAGTCCGGATACAATT
65 AGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGTCCGGATACAATT
* *
2339733 CCAGCACAAAGCTTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
1 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
* * *
2339798 GTCCAGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAG-CCAGGATATAATT
66 GTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGTCC-GGATACAATT
* * * *
2339852 CCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGACCTCAA
1 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
2339917 GTCCGGATA
66 GTCCGGATA
2339926 TACATCAAAT
Statistics
Matches: 267, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
118 83 0.31
119 184 0.69
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (119 bp):
CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAA
GTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGTCCGGATACAATT
Found at i:2340923 original size:40 final size:40
Alignment explanation
Indices: 2340868--2340948 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
2340858 AGCATGCAAG
2340868 TTAACTTCCAACATTCGGTCAAAGCATTTAAAGAAAAGAA
1 TTAACTTCCAACATTCGGTCAAAGCATTTAAAGAAAAGAA
2340908 TTAACTTCCAACATTCGGTCAAAGCATTTAAAGAAAAGAA
1 TTAACTTCCAACATTCGGTCAAAGCATTTAAAGAAAAGAA
2340948 T
1 T
2340949 ATGCATGCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.26
Consensus pattern (40 bp):
TTAACTTCCAACATTCGGTCAAAGCATTTAAAGAAAAGAA
Found at i:2342128 original size:31 final size:31
Alignment explanation
Indices: 2342090--2342238 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
2342080 ACAAATGACA
*
2342090 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2342121 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2342152 AGTGAAAAGTGATAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
2342183 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2342214 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
2342239 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 2 0.02
31 105 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:2342334 original size:46 final size:43
Alignment explanation
Indices: 2342267--2342426 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 43
2342257 AATTTCCGTA
* * *
2342267 TAAGACCATATCTGGGATATGGCATCAGTAAGATATGTGAT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATCAG--AGATATG-AATAT-GTG
*
2342313 TAAGACCATAGCTGGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
** * *
2342355 TAAGACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* **
2342397 TAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGA
2342427 AAACGAAGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
42 67 0.68
43 7 0.07
45 1 0.01
46 24 0.24
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:2342368 original size:42 final size:43
Alignment explanation
Indices: 2342310--2342424 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
2342300 TATGTGATTC
*
2342310 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
2342352 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
2342394 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
2342425 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:2344970 original size:32 final size:33
Alignment explanation
Indices: 2344934--2345002 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2344924 TCGTTGAAGA
2344934 TAGGTTC-AATTTATATGCAGGTTTTGAAAAGT
1 TAGGTTCTAATTTATATGCAGGTTTTGAAAAGT
** *
2344966 TAGGTTCTCTTTTGTATGCAGGTTTTGAAAAGT
1 TAGGTTCTAATTTATATGCAGGTTTTGAAAAGT
2344999 TAGG
1 TAGG
2345003 GCATTGTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (33 bp):
TAGGTTCTAATTTATATGCAGGTTTTGAAAAGT
Found at i:2348208 original size:25 final size:25
Alignment explanation
Indices: 2348179--2348254 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
2348169 AGACCATAGT
2348179 TGAAAGATACCATGGCAACCTGATA
1 TGAAAGATACCATGGCAACCTGATA
* * * *
2348204 TGAAATATA-TA-AG--ACCATGGT-
1 TGAAAGATACCATGGCAACC-TGATA
2348225 TGAAAGATACCATGGCAACCTGATA
1 TGAAAGATACCATGGCAACCTGATA
2348250 TGAAA
1 TGAAA
2348255 TGTGTAAGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
21 11 0.30
22 4 0.11
23 2 0.05
24 4 0.11
25 16 0.43
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (25 bp):
TGAAAGATACCATGGCAACCTGATA
Found at i:2348209 original size:46 final size:46
Alignment explanation
Indices: 2348157--2348461 Score: 416
Period size: 46 Copynumber: 6.6 Consensus size: 46
2348147 GCTCTCTGAA
* *
2348157 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
2348203 ATGAAATATATAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
2348249 ATGAAATGTGTAAGATCATGATTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
2348295 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAATATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
2348341 A-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* **
2348387 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
2348433 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
2348462 CACTATGACA
Statistics
Matches: 232, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 2 0.01
46 229 0.99
47 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:2348412 original size:138 final size:138
Alignment explanation
Indices: 2348157--2348468 Score: 459
Period size: 138 Copynumber: 2.3 Consensus size: 138
2348147 GCTCTCTGAA
* *
2348157 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGATATGAAATATATAAGACCAT
1 ATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAACATGATATGAAATATATAAGACCAT
* * ** *
2348222 GGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGATCATGATTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGATTGAAAGATACCATGGC
2348287 AACATGAT
131 AACATGAT
* *
2348295 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAATATGATA-GAAA-ATGAATAAGACC
1 ATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAACATGATATGAAATAT--ATAAGACC
* *
2348358 ATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATG
64 ATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGATTGAAAGATACCATG
2348423 GCAACATGAT
129 GCAACATGAT
* *
2348433 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATG
1 ATG-AAATGTGTAAGACCATAGTTGAAAGATACTATG
2348469 ACATCATGTC
Statistics
Matches: 157, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
136 2 0.01
137 5 0.03
138 150 0.96
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATAGTTGAAAGATACTATGGCAACATGATATGAAATATATAAGACCAT
GGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGATTGAAAGATACCATGGC
AACATGAT
Found at i:2348778 original size:16 final size:17
Alignment explanation
Indices: 2348757--2348789 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2348747 ATGATGGAGC
2348757 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
2348773 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
2348790 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:2351967 original size:17 final size:18
Alignment explanation
Indices: 2351945--2351978 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2351935 CTCTAATTTT
2351945 CCTTTTTCTTT-TCTTTC
1 CCTTTTTCTTTCTCTTTC
2351962 CCTTTTTCTTTCTCTTT
1 CCTTTTTCTTTCTCTTT
2351979 TTCTCCCCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CCTTTTTCTTTCTCTTTC
Found at i:2351968 original size:12 final size:12
Alignment explanation
Indices: 2351953--2351982 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2351943 TTCCTTTTTC
2351953 TTTTCTTTCCCT
1 TTTTCTTTCCCT
*
2351965 TTTTCTTTCTCT
1 TTTTCTTTCCCT
2351977 TTTTCT
1 TTTTCT
2351983 CCCCTGTTTT
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:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTCTTTCCCT
Found at i:2352157 original size:24 final size:23
Alignment explanation
Indices: 2352114--2352159 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2352104 TAAATAAATA
2352114 TATATATATATTACAATTGTATG
1 TATATATATATTACAATTGTATG
* *
2352137 TATATGATTTATTACACTTGTAT
1 TATAT-ATATATTACAATTGTAT
2352160 TTTACTATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (23 bp):
TATATATATATTACAATTGTATG
Found at i:2359835 original size:21 final size:21
Alignment explanation
Indices: 2359809--2359849 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2359799 AGACGAGCGA
* *
2359809 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2359830 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2359850 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2363319 original size:2 final size:2
Alignment explanation
Indices: 2363314--2363349 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2363304 ATGTGTGTAG
*
2363314 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2363350 GTGTGTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2370344 original size:17 final size:17
Alignment explanation
Indices: 2370324--2370374 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
2370314 CTGTTTTATA
2370324 TAATATATTTGTTTAAT
1 TAATATATTTGTTTAAT
*
2370341 TAATAATAGTTT-TTTTAT
1 TAAT-ATA-TTTGTTTAAT
*
2370359 AAATATATTTGTTTAA
1 TAATATATTTGTTTAA
2370375 GTTACTTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 11 0.39
19 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TAATATATTTGTTTAAT
Found at i:2370348 original size:20 final size:18
Alignment explanation
Indices: 2370315--2370374 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
2370305 TAATTTACCC
*
2370315 TGTTTTATATAATATATT
1 TGTTTAATATAATATATT
2370333 TGTTTAAT-TAATAATAGTT
1 TGTTTAATATAAT-ATA-TT
*
2370352 T-TTTTATA-AATATATT
1 TGTTTAATATAATATATT
2370368 TGTTTAA
1 TGTTTAA
2370375 GTTACTTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 3 0.09
17 11 0.31
18 18 0.51
19 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (18 bp):
TGTTTAATATAATATATT
Found at i:2371079 original size:28 final size:29
Alignment explanation
Indices: 2371030--2371092 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
2371020 AACATTCATT
2371030 TTTTAATATATCTTATAATCG-TATTAT-A
1 TTTTAATATATCTTATAATCGTTA-TATCA
* *
2371058 TTTTAATA-ATTTTCATAGTCGTTATATCA
1 TTTTAATATATCTT-ATAATCGTTATATCA
2371087 TTTTAA
1 TTTTAA
2371093 AAAGTTAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 4 0.13
28 17 0.57
29 9 0.30
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (29 bp):
TTTTAATATATCTTATAATCGTTATATCA
Found at i:2385313 original size:15 final size:15
Alignment explanation
Indices: 2385292--2385326 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2385282 TCGGTTCTCG
2385292 ATTTTTTTATATT-A
1 ATTTTTTTATATTGA
*
2385306 ATTTTTTTATTTTGA
1 ATTTTTTTATATTGA
2385321 ATTTTT
1 ATTTTT
2385327 AGATTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTATATTGA
Found at i:2387131 original size:29 final size:29
Alignment explanation
Indices: 2387089--2387184 Score: 104
Period size: 28 Copynumber: 3.2 Consensus size: 29
2387079 ATATCAAATT
2387089 TAAATATTTAAAAATAAAAGAATAATAAA
1 TAAATATTTAAAAATAAAAGAATAATAAA
** * *
2387118 TAAATATGCAAAAA-AAAATAATATTAAA
1 TAAATATTTAAAAATAAAAGAATAATAAA
*
2387146 TTTAAGTATTTAAAAAGTAAAAGAATAAATAAA
1 --TAAATATTTAAAAA-TAAAAGAAT-AATAAA
2387179 TAAATA
1 TAAATA
2387185 AAATAAGTAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
28 12 0.23
29 12 0.23
30 11 0.21
31 5 0.10
32 7 0.13
33 5 0.10
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (29 bp):
TAAATATTTAAAAATAAAAGAATAATAAA
Found at i:2387209 original size:56 final size:57
Alignment explanation
Indices: 2387072--2387210 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 57
2387062 AAAGAGAAGT
* *
2387072 ATAAGTAATATCAAATTTAAATATTTAAAAATAAAAGAATAATAAATAAATATGCAAAA
1 ATAAGTAATATTAAATTTAAGTATTTAAAAATAAAAGAATAATAAATAAATAT--AAAA
* *
2387131 AAAAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAAATAAAT-AA-AT-AAA
1 ATAAGTAATATTAAATTTAAGTATTTAAAAA-TAAAAGAAT-AATAAATAAATATAAAA
2387187 ATAAGTAATATTAAATTTAAGTAT
1 ATAAGTAATATTAAATTTAAGTAT
2387211 ATGAGAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
56 25 0.35
59 29 0.40
60 11 0.15
61 7 0.10
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (57 bp):
ATAAGTAATATTAAATTTAAGTATTTAAAAATAAAAGAATAATAAATAAATATAAAA
Found at i:2388057 original size:7 final size:6
Alignment explanation
Indices: 2388016--2388056 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
2388006 ATAATTTAAT
*
2388016 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
2388057 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:2388057 original size:20 final size:20
Alignment explanation
Indices: 2388019--2388058 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2388009 ATTTAATAAA
**
2388019 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
2388039 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
2388059 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:2388090 original size:9 final size:9
Alignment explanation
Indices: 2388076--2388151 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
2388066 TTTATACAAA
2388076 TAATTCGGT
1 TAATTCGGT
2388085 TAATTCGG-
1 TAATTCGGT
2388093 TATATTCGGT
1 TA-ATTCGGT
* *
2388103 TAATTTGGG
1 TAATTCGGT
**
2388112 T-ATTCAAT
1 TAATTCGGT
*
2388120 TAATTCGAT
1 TAATTCGGT
**
2388129 TAATTTAGT
1 TAATTCGGT
2388138 TAATTCGGT
1 TAATTCGGT
2388147 TAATT
1 TAATT
2388152 TTATACTTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.12
9 44 0.85
10 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:2394272 original size:20 final size:21
Alignment explanation
Indices: 2394225--2394274 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
2394215 ATATCACATC
2394225 AGTATTTTTATCTTAAATTTCA
1 AGTA-TTTTATCTTAAATTTCA
* *
2394247 AG-ATTTTATCTTGAATTT-T
1 AGTATTTTATCTTAAATTTCA
2394266 AGTATTTTA
1 AGTATTTTA
2394275 ATTTGGTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 1 0.04
22 2 0.08
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (21 bp):
AGTATTTTATCTTAAATTTCA
Found at i:2395818 original size:41 final size:40
Alignment explanation
Indices: 2395771--2395958 Score: 268
Period size: 40 Copynumber: 4.6 Consensus size: 40
2395761 AACTGTACAA
*
2395771 TAGCGGCGCTTTTGGAAAATCGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAA-CGCCGCTATAGGCCGAGGTTT
* * * *
2395812 TAGCGGCACATCTGGAAAACGCCGATATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAACGCCGCTATAGGCCGAGGTTT
*
2395852 TAGCGGCGCTTCTGGAAAACGCCGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAACGCCGCTATAGGCCGAGGTTT
* *
2395892 TAGCTGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGG-AAAACGCCGCTATAGGCCGAGGTTT
*
2395933 TAGCGGCGCTTTTAGAAAAACGCCGC
1 TAGCGGCGCTTTT-GGAAAACGCCGC
2395959 AAAAAAGTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
40 69 0.52
41 62 0.47
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGAAAACGCCGCTATAGGCCGAGGTTT
Found at i:2395868 original size:81 final size:81
Alignment explanation
Indices: 2395771--2395958 Score: 270
Period size: 81 Copynumber: 2.3 Consensus size: 81
2395761 AACTGTACAA
*
2395771 TAGCGGCGCTTTTGGAAAATCGCCGCTATAGGTCGAGGTTTTAGCGGCACATCTGG-AAAACGCC
1 TAGCGGCGCTTTTGGAAAA-CGCCGCTATAGGCCGAGGTTTTAGCGGCACATCTGGAAAAACGCC
2395835 GATATAGGCCGAGGTTT
65 GATATAGGCCGAGGTTT
* * * * *
2395852 TAGCGGCGCTTCTGGAAAACGCCGCTATAGGCCGAGGTTTTAGCTGCGCTTTTGGAAAAACGCCG
1 TAGCGGCGCTTTTGGAAAACGCCGCTATAGGCCGAGGTTTTAGCGGCACATCTGGAAAAACGCCG
* *
2395917 CTATAGGCCGATGTTT
66 ATATAGGCCGAGGTTT
*
2395933 TAGCGGCGCTTTTAGAAAAACGCCGC
1 TAGCGGCGCTTTT-GGAAAACGCCGC
2395959 AAAAAAGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 31 0.33
81 53 0.56
82 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (81 bp):
TAGCGGCGCTTTTGGAAAACGCCGCTATAGGCCGAGGTTTTAGCGGCACATCTGGAAAAACGCCG
ATATAGGCCGAGGTTT
Found at i:2396291 original size:18 final size:18
Alignment explanation
Indices: 2396264--2396312 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
2396254 TTGTCCCTTG
2396264 TTAT-ATATATATTAA-A
1 TTATAATATATATTAAGA
*
2396280 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
2396299 TTATAATATATATT
1 TTATAATATATATT
2396313 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:2396750 original size:15 final size:15
Alignment explanation
Indices: 2396732--2396763 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2396722 ATTAATGTAG
*
2396732 AAGATAAATGTATAT
1 AAGATAAATATATAT
2396747 AAGATAAATATATAT
1 AAGATAAATATATAT
2396762 AA
1 AA
2396764 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:2396802 original size:24 final size:23
Alignment explanation
Indices: 2396735--2396802 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
2396725 AATGTAGAAG
* *
2396735 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
2396760 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
2396784 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
2396803 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:2397585 original size:21 final size:21
Alignment explanation
Indices: 2397524--2397585 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
2397514 TTAGAGCGGA
* *
2397524 GGCAGCAGAAAGGGAGGCAAC
1 GGCAGCAGAGAGGGAGGCAGC
2397545 GGCAGCAGAGAGGGAGGCAGC
1 GGCAGCAGAGAGGGAGGCAGC
*
2397566 GGCAGCAGCGAGGGAGGCAG
1 GGCAGCAGAGAGGGAGGCAG
2397586 AGCATAGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.50, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGGGAGGCAGC
Found at i:2397990 original size:43 final size:42
Alignment explanation
Indices: 2397943--2398026 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
2397933 TCTGCCAAAA
2397943 TTAGCGGCG-TTTGTGGGAAAAACGCCGCTAAAGGCCATGACTT
1 TTAGCGGCGCTTT-T-GGAAAAACGCCGCTAAAGGCCATGACTT
****
2397986 TTAGCGGCGCTTTTTTCCAAACGCCGCTAAAGGCCATGACT
1 TTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGGCCATGACT
2398027 AAAGGCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 23 0.64
43 10 0.28
44 3 0.08
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (42 bp):
TTAGCGGCGCTTTTGGAAAAACGCCGCTAAAGGCCATGACTT
Found at i:2398012 original size:42 final size:42
Alignment explanation
Indices: 2397961--2398098 Score: 132
Period size: 42 Copynumber: 3.0 Consensus size: 42
2397951 GTTTGTGGGA
2397961 AAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTC
1 AAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTC
* * *
2398003 CAAACGCCGCTAAAGGCCATGACTAAAGGCCATGACTTTTAGCAGCGCTTTTTTT
1 AAAACGCCGCTAAAGGCCATG-----A---C-T---TTT-AGCGGCGCTTTTTTC
2398058 AAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTT
1 AAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTT
2398099 TTAATAACCG
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
42 33 0.42
43 3 0.04
46 1 0.01
47 2 0.03
50 2 0.03
51 1 0.01
54 3 0.04
55 33 0.42
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (42 bp):
AAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTC
Found at i:2398030 original size:13 final size:13
Alignment explanation
Indices: 2398012--2398039 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2398002 CCAAACGCCG
2398012 CTAAAGGCCATGA
1 CTAAAGGCCATGA
2398025 CTAAAGGCCATGA
1 CTAAAGGCCATGA
2398038 CT
1 CT
2398040 TTTAGCAGCG
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:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (13 bp):
CTAAAGGCCATGA
Found at i:2398054 original size:55 final size:55
Alignment explanation
Indices: 2397970--2398081 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
2397960 AAAAACGCCG
* *
2397970 CTAAAGGCCATGACTTTTAGCGGCGCTTTTTTCCAAACGCCGCTAAAGGCCATGA
1 CTAAAGGCCATGACTTTTAGCAGCGCTTTTTTCAAAACGCCGCTAAAGGCCATGA
*
2398025 CTAAAGGCCATGACTTTTAGCAGCGCTTTTTTTAAAACGCCGCTAAAGGCCATGA
1 CTAAAGGCCATGACTTTTAGCAGCGCTTTTTTCAAAACGCCGCTAAAGGCCATGA
2398080 CT
1 CT
2398082 TTTAGCGGCG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (55 bp):
CTAAAGGCCATGACTTTTAGCAGCGCTTTTTTCAAAACGCCGCTAAAGGCCATGA
Found at i:2400569 original size:60 final size:60
Alignment explanation
Indices: 2400502--2400620 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
2400492 CTTTGTCTGC
*
2400502 CCCTTGGCAAGGCTATATTCTATCCACGTGTTTTTGATTGAATCTAATTCGATTTTTTTG
1 CCCTTGGCAAGGCTATATTCTATCCACGTGTTTCTGATTGAATCTAATTCGATTTTTTTG
* * *
2400562 CCCTTGGCTAGGCTATATTCTATCCACGTGTTTCTGATTTAATCTAATTCTATTTTTTT
1 CCCTTGGCAAGGCTATATTCTATCCACGTGTTTCTGATTGAATCTAATTCGATTTTTTT
2400621 TGTCTATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (60 bp):
CCCTTGGCAAGGCTATATTCTATCCACGTGTTTCTGATTGAATCTAATTCGATTTTTTTG
Found at i:2401138 original size:43 final size:43
Alignment explanation
Indices: 2401086--2401314 Score: 314
Period size: 43 Copynumber: 5.3 Consensus size: 43
2401076 TTTCGAAAAA
*
2401086 AAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * * *
2401129 AAACGCCGCTAAAGACTAGGACTTTTAGCGGCGCTTTTTTCGA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * * *
2401172 AAATGCCGCTAAAGACCATGTCCTTTAGCGGTGCTTTTTTAGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* *
2401215 AAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
* * * * *
2401258 AAACGCCGCTAAAGATCATAACCTTTAGCGGCACTTTTTCCCC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
2401301 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
2401315 GTCATGAAAT
Statistics
Matches: 161, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 161 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCGC
Found at i:2401629 original size:19 final size:19
Alignment explanation
Indices: 2401584--2401630 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
2401574 TAAATATTAA
*
2401584 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
2401603 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
2401622 AATAAAAAT
1 AATAAAAAT
2401631 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:2404470 original size:24 final size:25
Alignment explanation
Indices: 2404421--2404476 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
2404411 TTTATTAACC
* *
2404421 TTATTTAAATGTTTCATTTATATG-
1 TTATTTAAATATTTCATATATATGT
*
2404445 TTATTTCAAATATTTTATATAT-TGT
1 TTATTT-AAATATTTCATATATATGT
2404470 TTATTTA
1 TTATTTA
2404477 CATCATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (25 bp):
TTATTTAAATATTTCATATATATGT
Found at i:2404566 original size:3 final size:3
Alignment explanation
Indices: 2404547--2404600 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
2404537 TTATTGTAGA
* *
2404547 TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2404595 TAT TAT
1 TAT TAT
2404601 ATGCATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2404827 original size:31 final size:31
Alignment explanation
Indices: 2404779--2404843 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2404769 CCATCCTATG
* *
2404779 TATATATTTTTTAAATACTATATTGTGTATA
1 TATATATTTCTTAAATACCATATTGTGTATA
2404810 TATATATATTCTT-AATACCATATTGTGTATA
1 TATATAT-TTCTTAAATACCATATTGTGTATA
2404841 TAT
1 TAT
2404844 CATTATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (31 bp):
TATATATTTCTTAAATACCATATTGTGTATA
Found at i:2409048 original size:8 final size:8
Alignment explanation
Indices: 2409037--2409085 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
2409027 TGAAAAGAAA
2409037 AAAAAAAC
1 AAAAAAAC
2409045 AAAAAAAC
1 AAAAAAAC
*
2409053 AAAAAGAAA
1 AAAAA-AAC
*
2409062 AAAAGACAAG
1 AAAA-A-AAC
2409072 AAAAAAAC
1 AAAAAAAC
2409080 AAAAAA
1 AAAAAA
2409086 GAAATCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 21 0.60
9 7 0.20
10 7 0.20
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:2409062 original size:24 final size:26
Alignment explanation
Indices: 2409029--2409076 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
2409019 GACAGTCATG
2409029 AAAAGAAAAAAAAAACAA-AAAAACA
1 AAAAGAAAAAAAAAACAAGAAAAACA
*
2409054 AAAAG-AAAAAAAGACAAGAAAAA
1 AAAAGAAAAAAAAAACAAGAAAAA
2409077 AACAAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.85, C:0.06, G:0.08, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAAAAACAAGAAAAACA
Found at i:2409075 original size:27 final size:26
Alignment explanation
Indices: 2409030--2409089 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
2409020 ACAGTCATGA
2409030 AAAGAAAAAAAAAACAAAAAAAC-AA
1 AAAGAAAAAAAAAACAAAAAAACAAA
*
2409055 AAAGAAAAAAAGACAAGAAAAAAACAAA
1 AAAGAAAAAAA-A-AACAAAAAAACAAA
2409083 AAAGAAA
1 AAAGAAA
2409090 TCAAATGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 11 0.35
26 1 0.03
27 10 0.32
28 9 0.29
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (26 bp):
AAAGAAAAAAAAAACAAAAAAACAAA
Found at i:2411356 original size:73 final size:73
Alignment explanation
Indices: 2411235--2411460 Score: 292
Period size: 73 Copynumber: 3.1 Consensus size: 73
2411225 TTGATGTTTT
* * *
2411235 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCATGCTGAGG
1 ATTTCTGATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
*
2411300 TAATTTCA
66 TATTTTCA
* ** * * * *
2411308 ATTTCT-ATATGTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAAGACACGTTGAG
1 ATTTCTGAT-TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
2411372 GTATTTTCA
65 GTATTTTCA
* * *
2411381 ATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGATTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
2411446 GGTATTTTCA
64 GGTATTTTCA
2411456 ATTTC
1 ATTTC
2411461 CGTTTTTCAA
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
72 1 0.01
73 68 0.54
74 1 0.01
75 57 0.45
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (73 bp):
ATTTCTGATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCA
Found at i:2411563 original size:89 final size:89
Alignment explanation
Indices: 2411377--2411716 Score: 470
Period size: 89 Copynumber: 3.9 Consensus size: 89
2411367 TTGAGGTATT
*
2411377 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* **
2411442 CTGAGGTATTTTCAATTTCCGTTT-
65 CTGAGGTAATTTCAATTTCTTTTTC
*
2411466 TTCAATTTATGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
2411530 TGAGGTAATTTCAATTTCTATTTTC
66 TGAGGTAATTTCAATTTCT-TTTTC
* * * *
2411555 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
2411619 TGAGGTATTTTCAA--T-TTTTGC
66 TGAGGTAATTTCAATTTCTTTTTC
2411640 TTC------TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
2411699 CTGAGGTAATTTCAATTT
65 CTGAGGTAATTTCAATTT
2411717 ATGTTTGTCA
Statistics
Matches: 228, Mismatches: 17, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
79 7 0.03
81 57 0.25
83 1 0.00
85 7 0.03
86 1 0.00
87 63 0.28
88 3 0.01
89 89 0.39
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (89 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTTTTTC
Found at i:2411715 original size:170 final size:172
Alignment explanation
Indices: 2411377--2411716 Score: 526
Period size: 170 Copynumber: 2.0 Consensus size: 172
2411367 TTGAGGTATT
2411377 TTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
2411442 CTGAGGTATTTTCAATTTCCGTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
65 CTGAGGTATTTTCAA-TT-C-TTTTGC-A-TTATGCTTTTCAAAAATCAACTCATATTGCGAGAG
*
2411507 GTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTATTTTC
125 GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTTTC
* * *
2411555 TTCAATTTATGTTTTTC-GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
2411619 TGAGGTATTTTCAA-T-TTTTGC-TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
66 TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGA
2411681 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
129 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
2411717 ATGTTTGTCA
Statistics
Matches: 154, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
168 10 0.06
170 63 0.41
171 5 0.03
174 1 0.01
176 59 0.38
178 16 0.10
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (172 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
TGAGGTATTTTCAATTCTTTTGCATTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTTTC
Found at i:2411775 original size:76 final size:75
Alignment explanation
Indices: 2411555--2411798 Score: 307
Period size: 76 Copynumber: 3.2 Consensus size: 75
2411545 TTCTATTTTC
* *
2411555 TTCAATTTATGTTT-TTC--GAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTCAATTTATGTTTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGCAC
2411617 GCTGAGGTATT
65 GCTGAGGTATT
*
2411628 TTCAATTTTTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTCAATTTATG-TT-TG---TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
2411693 GACACGCTGAGGTAAT
61 G-CACGCTGAGGTATT
* *
2411709 TTCAATTTATGTTTG-TCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGAGGCA
1 TTCAATTTATGTTTGTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCA
2411773 CGCTGAGGTATT
64 CGCTGAGGTATT
* *
2411785 TTTAGTTTATGTTT
1 TTCAATTTATGTTT
2411799 TAAATTGACT
Statistics
Matches: 150, Mismatches: 10, Indels: 19
0.84 0.06 0.11
Matches are distributed among these distances:
73 10 0.07
74 2 0.01
75 3 0.02
76 63 0.42
77 3 0.02
79 5 0.03
80 4 0.03
81 60 0.40
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (75 bp):
TTCAATTTATGTTTGTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACG
CTGAGGTATT
Found at i:2411947 original size:72 final size:72
Alignment explanation
Indices: 2411838--2412029 Score: 294
Period size: 72 Copynumber: 2.6 Consensus size: 72
2411828 TAAGCCTTTT
* * * *
2411838 AATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAT
1 AATTTCTGTTTGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAG
*
2411903 TTAATTTC
65 GTAATTTC
2411911 AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
1 AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
2411976 TAATTTC
66 TAATTTC
* * *
2411983 AATTTCTATTTGTCAAGAATCAGCTCATATTGCGAGAGGTGGGTTGA
1 AATTTCTGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
2412030 ACCTTTTAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
72 70 0.64
73 40 0.36
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AATTTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGG
TAATTTC
Found at i:2412012 original size:199 final size:196
Alignment explanation
Indices: 2411653--2412162 Score: 670
Period size: 199 Copynumber: 2.6 Consensus size: 196
2411643 TGCTTTTCAA
*
2411653 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
2411718 TGTTTGTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGAGGCACGCTGAGGTA
66 TGTTTGTC----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGGCACGCTGAGGTA
* * * * * * **
2411783 TTTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TTG
127 ATTTCAATTTATATTTTAAAATCACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTAC
2411846 TTTTTC
191 TTTTTC
**
2411852 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGATTTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
2411917 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CCAGGACACGCTGAGGTAATT
66 TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGG-CACGCTGAGGTAATT
* *
2411981 TCAATTTCTATTTGTCAAGAATCAGCTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTAC
130 TCAATTTATATTT-T-AA-AATCA-CTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTAC
2412046 TTTTTC
191 TTTTTC
* * *
2412052 -AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCA-GATCACGCCGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTAATTTCAATTT
* * *
2412115 CTATTTTTGGAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 CTGTTTGT-CAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
2412163 GGGTCACATG
Statistics
Matches: 276, Mismatches: 24, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
194 4 0.01
195 56 0.20
196 1 0.00
197 2 0.01
198 5 0.02
199 163 0.59
200 11 0.04
201 33 0.12
202 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (196 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCAGGCACGCTGAGGTAATTT
CAATTTATATTTTAAAATCACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTT
C
Found at i:2412403 original size:73 final size:71
Alignment explanation
Indices: 2412228--2412403 Score: 237
Period size: 71 Copynumber: 2.5 Consensus size: 71
2412218 TTACTTTCCT
* * * * * *
2412228 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
2412293 TGTTTC
66 TGTTTC
* *
2412299 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
2412363 TGTTTGTC
66 TG-TT-TC
*
2412371 AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGA
2412404 ACCTTTTAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 9 0.10
71 51 0.55
72 4 0.04
73 28 0.30
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTCAATTTA
TGTTTC
Found at i:2412572 original size:126 final size:126
Alignment explanation
Indices: 2412295--2412652 Score: 644
Period size: 126 Copynumber: 2.8 Consensus size: 126
2412285 TTAGTTTATG
*
2412295 TTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
2412360 TTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
66 TTCTGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
* *
2412422 TATCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
2412487 TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
66 TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
2412548 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
2412613 TTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTG
66 TTCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTG
2412653 AGATGAGCCT
Statistics
Matches: 222, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
126 121 0.55
127 75 0.34
129 26 0.12
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (126 bp):
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
Found at i:2412662 original size:201 final size:203
Alignment explanation
Indices: 2412426--2412997 Score: 542
Period size: 201 Copynumber: 2.8 Consensus size: 203
2412416 CTACTTTATC
*
2412426 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCT
2412491 GTTTGTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAA
64 GTTT-TCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAA
* *
2412556 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATT-TCAA-TTT-AT
128 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTATCAACTTTCAA
*
2412617 GTT-TGTCAAA
193 ATTATGTCAAA
*
2412627 AAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCACGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCT
* * * *
2412692 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTC
64 GTTTTCAAAA-TCAACTCATATTGCGAG--A-G-G-TG-G-GT--TGA-ACCTT---TTAATTTC
* ** *
2412757 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
115 ---TACT-TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
* *
2412822 TATTTTCAAAATCAACTTTTCAAATTAAGTTTCAAA
175 TATATT----ATCAAC-TTTCAAATT-A-TGTCAAA
2412858 AAAATCAACTCATATTGCGAGAGGTGAGT-----T--GA-AC-C-----T--TTT-AATTTCTGT
1 AAAATCAACTCATATTGCGAGAGGTGAGTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG-
2412906 TTTTCAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTA-TTTTTCAAAAA
65 TTTTC-AAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTC-AAAA
2412970 TCAACTCATATTGCGAGAGGTGAGTTGA
128 TCAACTCATATTGCGAGAGGTGAGTTGA
2412998 ACCTTTTAAT
Statistics
Matches: 312, Mismatches: 25, Indels: 74
0.76 0.06 0.18
Matches are distributed among these distances:
195 31 0.10
196 5 0.02
197 1 0.00
200 13 0.04
201 82 0.26
203 5 0.02
204 3 0.01
205 1 0.00
206 3 0.01
207 2 0.01
208 3 0.01
209 1 0.00
210 3 0.01
211 5 0.02
212 8 0.03
213 25 0.08
214 11 0.04
215 1 0.00
217 3 0.01
218 9 0.03
219 45 0.14
220 2 0.01
221 2 0.01
222 2 0.01
225 5 0.02
227 3 0.01
228 3 0.01
230 1 0.00
231 34 0.11
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (203 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTGT
TTTCAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCA
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTATCAACTTTCAAATT
ATGTCAAA
Found at i:2412745 original size:72 final size:72
Alignment explanation
Indices: 2412547--2412830 Score: 426
Period size: 72 Copynumber: 3.9 Consensus size: 72
2412537 AATTTCTACT
** * *
2412547 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
*
2412611 ATTTATG
66 ATTTCTG
* ** * *
2412618 TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCACGACACGTTGAGGTAATT
1 TTT-TC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATT
2412683 TCAATTTCTG
63 TCAATTTCTG
*
2412693 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
2412758 ATTTCTG
66 ATTTCTG
*
2412765 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
2412830 A
66 A
2412831 AATCAACTTT
Statistics
Matches: 197, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
71 3 0.02
72 127 0.64
74 6 0.03
75 61 0.31
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:2413163 original size:54 final size:54
Alignment explanation
Indices: 2412857--2413159 Score: 552
Period size: 54 Copynumber: 5.6 Consensus size: 54
2412847 TAAGTTTCAA
2412857 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
* *
2412911 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
*
2412965 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
* *
2413019 AAAAATCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
*
2413073 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
2413127 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
2413160 GCCTCGGGTC
Statistics
Matches: 240, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 240 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTGTTTTTC
Found at i:2416646 original size:15 final size:14
Alignment explanation
Indices: 2416626--2416662 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
2416616 AACCATTAAA
2416626 CTTAAACCATAGAAC
1 CTTAAACCATAG-AC
2416641 CTTAAACCATAGAC
1 CTTAAACCATAGAC
2416655 CTTAAACC
1 CTTAAACC
2416663 TTAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.22
Consensus pattern (14 bp):
CTTAAACCATAGAC
Found at i:2416663 original size:7 final size:7
Alignment explanation
Indices: 2416616--2416683 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
2416606 GTTTACGACG
2416616 AACCATTA
1 AACC-TTA
2416624 AA-CTTA
1 AACCTTA
*
2416630 AACCATA
1 AACCTTA
2416637 GAACCTTA
1 -AACCTTA
*
2416645 AACCATA
1 AACCTTA
*
2416652 GACCTTA
1 AACCTTA
2416659 AACCTTA
1 AACCTTA
**
2416666 AATATTA
1 AACCTTA
*
2416673 AACCCTA
1 AACCTTA
2416680 AACC
1 AACC
2416684 CAAAAAAAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
6 5 0.11
7 34 0.72
8 8 0.17
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (7 bp):
AACCTTA
Found at i:2416841 original size:17 final size:18
Alignment explanation
Indices: 2416819--2416853 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2416809 AAAGTTATAG
2416819 TTTAAGGTTTAG-GGTTT
1 TTTAAGGTTTAGAGGTTT
2416836 TTTAAGGTTTAGAGGTTT
1 TTTAAGGTTTAGAGGTTT
2416854 AGTGTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (18 bp):
TTTAAGGTTTAGAGGTTT
Found at i:2416968 original size:41 final size:41
Alignment explanation
Indices: 2416923--2417211 Score: 354
Period size: 41 Copynumber: 7.1 Consensus size: 41
2416913 GTTATATGAC
*
2416923 TTTTAGCGGCGTTTTTCCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
2416964 TTTTAGCGGCGTTTTACAGAAAGCGTCGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
2417005 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATTCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
2417046 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
2417087 TTTTAGCGGCATTTTACAGAAAGCGCCGCTATTGAC-CT-GT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATG-CTCTGGT
**** * *
2417127 TTTTAGCGGCGTTTTTGTTAAAACGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
2417167 TTTTAGCGGCGTTCTT--GGTAAAACGCCGCTAATGCTCTGTGT
1 TTTTAGCGGCGTT-TTACCG-AAAGCGCCGCTAATGCTCTG-GT
2417209 TTT
1 TTT
2417212 ACAATTTTTG
Statistics
Matches: 221, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.00
40 65 0.29
41 149 0.67
42 6 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:2421391 original size:44 final size:44
Alignment explanation
Indices: 2421326--2421411 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
2421316 ATCTTTTTAA
* * *
2421326 AATTTGCTGGTAAACATTTGTTTCAATGTTTTTAATGTATTTTC
1 AATTTGCTGGGAAACACTTGTTTCAATATTTTTAATGTATTTTC
* * *
2421370 AATTTGTTGGGAAACACTTGTTTTAATATTTTTAGTGTATTT
1 AATTTGCTGGGAAACACTTGTTTCAATATTTTTAATGTATTT
2421412 GATATATTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (44 bp):
AATTTGCTGGGAAACACTTGTTTCAATATTTTTAATGTATTTTC
Found at i:2422717 original size:29 final size:27
Alignment explanation
Indices: 2422669--2422735 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
2422659 AATTTACAAT
* * *
2422669 AAAAAATTTACATTTTTACTATTATAA
1 AAAAAAATTAAATTTCTACTATTATAA
* *
2422696 AAAATTAAATTAAATTTCTACTCTTCTAA
1 AAAA--AAATTAAATTTCTACTATTATAA
2422725 AAAAAAATTAA
1 AAAAAAATTAA
2422736 CACGGCCTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 11 0.33
29 22 0.67
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAAAAATTAAATTTCTACTATTATAA
Found at i:2423871 original size:30 final size:30
Alignment explanation
Indices: 2423799--2423875 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
2423789 ATTGTACTAG
*
2423799 TTAATATTTTTATAAATTTTTAAAAGATTAAA
1 TTAA-ATTTTTAT-CATTTTTAAAAGATTAAA
*
2423831 TTAAAATTTTATCATTTTTAAAAG-TTAAAA
1 TTAAATTTTTATCATTTTTAAAAGATT-AAA
2423861 TGT-AATTTTTATCAT
1 T-TAAATTTTTATCAT
2423876 GTATTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.05
30 26 0.65
31 8 0.20
32 4 0.10
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAATTTTTATCATTTTTAAAAGATTAAA
Found at i:2427077 original size:25 final size:26
Alignment explanation
Indices: 2427048--2427097 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2427038 ATTTTTGACA
2427048 AAATT-AAATGTA-TTTTTTATAATCT
1 AAATTCAAATGTACTTTTTT-TAATCT
*
2427073 AAATTCAATTGTACTTTTTTTAATC
1 AAATTCAAATGTACTTTTTTTAATC
2427098 CTTTAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (26 bp):
AAATTCAAATGTACTTTTTTTAATCT
Found at i:2432818 original size:7 final size:7
Alignment explanation
Indices: 2432806--2432831 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2432796 TTTTTGTTTA
2432806 TATTTTT
1 TATTTTT
2432813 TATTTTT
1 TATTTTT
2432820 TATTTTT
1 TATTTTT
2432827 TATTT
1 TATTT
2432832 CTGATTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:2441445 original size:13 final size:14
Alignment explanation
Indices: 2441427--2441463 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2441417 AGTCATTAAT
2441427 AATAAAATAAAAA-
1 AATAAAATAAAAAC
2441440 AATAAAA-AAAAAC
1 AATAAAATAAAAAC
*
2441453 CATAAAATAAA
1 AATAAAATAAA
2441464 GGTGTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.24
13 13 0.62
14 3 0.14
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAAATAAAAAC
Found at i:2448536 original size:15 final size:16
Alignment explanation
Indices: 2448506--2448538 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2448496 TGGTTAATCG
2448506 ATTTTATAATTATTTT
1 ATTTTATAATTATTTT
*
2448522 ATTTT-TAATTTTTTT
1 ATTTTATAATTATTTT
2448537 AT
1 AT
2448539 ATCCATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTATAATTATTTT
Found at i:2449951 original size:2 final size:2
Alignment explanation
Indices: 2449944--2449979 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2449934 ACCATTAACA
2449944 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
2449980 GAGCAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2466524 original size:26 final size:28
Alignment explanation
Indices: 2466469--2466524 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 28
2466459 ATATAACTAC
**
2466469 ATAAACTATAAGAAAATTTTAAAAGGATA
1 ATAAACTATAAG-AAATTTTAAAAAAATA
2466498 ATAAA-TATAAG-AATTTTAAAAAAATA
1 ATAAACTATAAGAAATTTTAAAAAAATA
2466524 A
1 A
2466525 ATATGGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 14 0.56
28 6 0.24
29 5 0.20
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (28 bp):
ATAAACTATAAGAAATTTTAAAAAAATA
Found at i:2468447 original size:44 final size:44
Alignment explanation
Indices: 2468269--2468451 Score: 189
Period size: 44 Copynumber: 4.2 Consensus size: 44
2468259 GAGTCTTCGA
2468269 CCTGCTCCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
1 CCTGCTCCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
*
2468313 CCTGTTACC-CCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
1 CCTGCT-CCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
* * * * * * * * *
2468357 CCTGTTACC-CTACTGCTTAGAGGGTTA--A--AGTAGATCTTCG
1 CCTGCT-CCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
* *
2468397 ACCTGCTCCACCACTGCTCGGAGAGCCAGGATCTGTAAATTTTAG
1 -CCTGCTCCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
2468442 CCTGCTCCAC
1 CCTGCTCCAC
2468452 TTTTACTTAG
Statistics
Matches: 112, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
40 10 0.09
41 17 0.15
42 1 0.01
43 1 0.01
44 73 0.65
45 10 0.09
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (44 bp):
CCTGCTCCACCACTGCTTGGAGAGCTAGGATCTGTAAATTTTAG
Found at i:2468675 original size:133 final size:133
Alignment explanation
Indices: 2468437--2469408 Score: 1453
Period size: 133 Copynumber: 7.3 Consensus size: 133
2468427 ATCTGTAAAT
** * * * ** * * *
2468437 TTTAGCCTGCTCCACTTTTACTTAGTGAAGATAAGGCTGGTGGTTGAAATCTGCTTCATTGCCGA
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
* * * *
2468502 TACATGGAGATAAGATTCACCAAAATTTGATCCGCTCCGCTCCTGTTCAGCGAAGATAAGATCTA
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
2468567 GTA
131 GTA
* *** * *
2468570 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGA
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
* * *
2468635 TACATGGAGATAAGATTCACCAAAATTTAATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTA
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
2468700 GTA
131 GTA
* * *** * * *
2468703 TTTAGCCTGCTCCACTCCTACTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGCCGA
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
* *
2468768 TACATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTA
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
2468833 GTA
131 GTA
* * *
2468836 TTTAGCCTGCTCCACTCCTACTCAGTAAAGATAAGGCTGATAATT-AGAATCTGCTCCATCGTCG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGA-AATCTGCTCCATCGCCG
* *
2468900 GTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTTCGCTCCTACTCAGCGAAGATAAGATCT
65 GTACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT
2468965 GGTA
130 GGTA
*
2468969 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCCGG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
* *
2469034 TACGTGGAGATAAGATTCACTAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATACA-TTCT
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATA-AGATCT
2469098 GGTA
130 GGTA
* * *
2469102 TTTAGCTTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTTCATCGCCGG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
*
2469167 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAATATAAGATCTG
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
2469232 GTA
131 GTA
* *
2469235 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGGAATCTGCTCCATCGCTGG
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
* * *
2469300 TACGTAGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTACTCAGCGAAGATAAGATTTG
66 TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
2469365 GTA
131 GTA
*
2469368 TTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGAT
1 TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGAT
2469409 GATATCTGTA
Statistics
Matches: 789, Mismatches: 46, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
132 2 0.00
133 786 1.00
134 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (133 bp):
TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAATTGAAATCTGCTCCATCGCCGG
TACGTGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTG
GTA
Found at i:2468854 original size:43 final size:44
Alignment explanation
Indices: 2468799--2469402 Score: 164
Period size: 43 Copynumber: 13.7 Consensus size: 44
2468789 AAAATTTGAT
* *
2468799 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAG-C
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGAC
* * * * *
2468842 CTGCTCCACTCCTACTCAGTAAAGATAAG-GCT-GATAATTAGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-TATTTAG-AC
* * * * ** *
2468886 CTGCTCCA-TCGTCGGT-ACGTGGAGATAAGATTCACCAAAATTT-GAT
1 CTGCTCCACTCCT-GCTCA-GTGAAGATAAGA-T--CTAGTATTTAGAC
* * * * *
2468932 CTGCTTCGCTCCTACTCAGCGAAGATAAGATCTGGTATTTAG-C
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGAC
* * * *
2468975 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATAATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-TATTTAG-AC
* * * ** *
2469019 CTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCACTAAAATTT-GAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-T--CTAGTATTTAGAC
* * * *
2469065 CTGCTCCGCTCCTGCTCAGCGAAGATACA-TTCTGGTATTTAG-C
1 CTGCTCCACTCCTGCTCAGTGAAGATA-AGATCTAGTATTTAGAC
* * * * *
2469108 TTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATAATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-TATTTAG-AC
* * * * * ** *
2469152 CTGCTTCA-TCGCCGGT-ACGTGGAGATAAGATTCACCAAAATTT-GAT
1 CTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-T--CTAGTATTTAGAC
* * * *
2469198 CTGCTCCGCTCCTGCTCAGCGAATATAAGATCTGGTATTTAG-C
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGAC
* * * *
2469241 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCT-GATAATTGGAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAG-TATTTAG-AC
* * ** *
2469285 CTGCTCCA-TCGCTGGT-ACGT-AGAGATAAGATTCACCAAAATTT-GAT
1 CTGCTCCACTC-CTGCTCA-GTGA-AGATAAGA-T--CTAGTATTTAGAC
* * * * *
2469331 CTGCTCCGCTCCTACTCAGCGAAGATAAGATTTGGTATTTAG-C
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGAC
*
2469374 CTGCTCCACTCTTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
2469403 GCTGATGATA
Statistics
Matches: 395, Mismatches: 110, Indels: 112
0.64 0.18 0.18
Matches are distributed among these distances:
41 4 0.01
42 30 0.08
43 159 0.40
44 83 0.21
45 4 0.01
46 79 0.20
47 19 0.05
48 17 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGAC
Found at i:2475296 original size:19 final size:19
Alignment explanation
Indices: 2475246--2475297 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
2475236 AATAACAGTC
*
2475246 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
2475265 GA-TATAT-AGTAACAATTA
1 AATTAT-TCAGTAACAATCA
2475283 AATTATTCAGTAACA
1 AATTATTCAGTAACA
2475298 GTCGATCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.33
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:2475398 original size:23 final size:23
Alignment explanation
Indices: 2475368--2475425 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
2475358 GTGGATTCCT
2475368 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
2475391 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
2475414 CCCAAACACACC
1 CCCAAACACACC
2475426 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:2475872 original size:13 final size:16
Alignment explanation
Indices: 2475854--2475889 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2475844 CATATTCCAA
2475854 TCAATAT-A-ATTT-T
1 TCAATATAACATTTAT
2475867 TCAATATAACATTTAT
1 TCAATATAACATTTAT
2475883 TCAATAT
1 TCAATAT
2475890 TCAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 1 0.05
15 4 0.20
16 8 0.40
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (16 bp):
TCAATATAACATTTAT
Found at i:2477244 original size:10 final size:9
Alignment explanation
Indices: 2477231--2477286 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
2477221 TTGCTTTGTT
2477231 TTTCTTTTCA
1 TTTCTTTT-A
2477241 TTTCTTTTA
1 TTTCTTTTA
*
2477250 TTTCCTTTA
1 TTTCTTTTA
2477259 TTTC-TTTA
1 TTTCTTTTA
* *
2477267 TTTCATTTC
1 TTTCTTTTA
*
2477276 TTTATTTTA
1 TTTCTTTTA
2477285 TT
1 TT
2477287 ATTAAACTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
8 8 0.20
9 24 0.60
10 8 0.20
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:2477276 original size:13 final size:13
Alignment explanation
Indices: 2477258--2477282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2477248 TATTTCCTTT
2477258 ATTTCTTTATTTC
1 ATTTCTTTATTTC
2477271 ATTTCTTTATTT
1 ATTTCTTTATTT
2477283 TATTATTAAA
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTTATTTC
Found at i:2490995 original size:15 final size:15
Alignment explanation
Indices: 2490975--2491006 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2490965 AAAAAAATAA
2490975 TTAATTATTGTCAAT
1 TTAATTATTGTCAAT
*
2490990 TTAATTTTTGTCAAT
1 TTAATTATTGTCAAT
2491005 TT
1 TT
2491007 CGAATGTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (15 bp):
TTAATTATTGTCAAT
Found at i:2491153 original size:52 final size:51
Alignment explanation
Indices: 2491071--2491188 Score: 139
Period size: 52 Copynumber: 2.3 Consensus size: 51
2491061 TTAGGTATAA
* *
2491071 TAACAAATTTAGCTCTCAAAATTTACACATTTTATCAATTTGATCTTTAATT
1 TAACAAATTTAGCTCACAAAATTTACACATTCTATCAATTTGATC-TTAATT
* * ** *
2491123 TAACAAATTTAGC-CAACAACATTTATACATTCTATCAATTTTTTCTTGATT
1 TAACAAATTTAGCTC-ACAAAATTTACACATTCTATCAATTTGATCTTAATT
*
2491174 TAATAAATTTAGCTC
1 TAACAAATTTAGCTC
2491189 GTGACATTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 18 0.32
52 38 0.68
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.43
Consensus pattern (51 bp):
TAACAAATTTAGCTCACAAAATTTACACATTCTATCAATTTGATCTTAATT
Found at i:2501581 original size:6 final size:6
Alignment explanation
Indices: 2501570--2501598 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2501560 CTCTCTTCAC
2501570 CACCAT CACCAT CACCAT CACCAT CACCA
1 CACCAT CACCAT CACCAT CACCAT CACCA
2501599 CCGCCCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (6 bp):
CACCAT
Found at i:2510566 original size:27 final size:28
Alignment explanation
Indices: 2510527--2510582 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
2510517 TAATTTTTTA
*
2510527 TTTTAATATTATACATATTATTAATTAT
1 TTTTAATACTATACATATTATTAATTAT
* * *
2510555 TTTTAA-ACTATATATTTTATTATTTAT
1 TTTTAATACTATACATATTATTAATTAT
2510582 T
1 T
2510583 ATATATTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAATACTATACATATTATTAATTAT
Found at i:2511609 original size:21 final size:21
Alignment explanation
Indices: 2511568--2511611 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2511558 TAGAACATAG
*
2511568 CCGTGTGCTTACCCCATACGC
1 CCGTGTGCTTACCCCACACGC
*
2511589 CCGTGTGGC-TACTCCACACGC
1 CCGTGT-GCTTACCCCACACGC
2511610 CC
1 CC
2511612 ATTTAACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.14, C:0.45, G:0.20, T:0.20
Consensus pattern (21 bp):
CCGTGTGCTTACCCCACACGC
Found at i:2512935 original size:12 final size:12
Alignment explanation
Indices: 2512918--2512948 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2512908 TAAGCAGGGG
2512918 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
2512930 AGAAAAAGGGAA
1 AGAAAAAGAGAA
2512942 AGAAAAA
1 AGAAAAA
2512949 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:2514130 original size:18 final size:18
Alignment explanation
Indices: 2514107--2514147 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2514097 AAGAAGAAGA
2514107 AGAAATT-GAATTATGAAT
1 AGAAATTGGAATTATG-AT
*
2514125 AGAAATTGGAATTGTGAT
1 AGAAATTGGAATTATGAT
2514143 AGAAA
1 AGAAA
2514148 GAGAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
AGAAATTGGAATTATGAT
Found at i:2516547 original size:46 final size:47
Alignment explanation
Indices: 2516353--2516528 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 47
2516343 TGTAACCCGC
* *
2516353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* * *
2516399 CCATAAGTGAACTTGGACTCAACTCAACAAGCTT-GGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA-G-C-A-TTCGCAT
* * *
2516449 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
2516492 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
2516529 TGCTTAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 23
0.74 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:2518047 original size:24 final size:24
Alignment explanation
Indices: 2518010--2518064 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
2518000 AGAATGATGC
*
2518010 TATGATAGTTATTAAGTTAAAAAT
1 TATGTTAGTTATTAAGTTAAAAAT
*
2518034 TGTGTTAGTTATTAAGTTAAAAAT
1 TATGTTAGTTATTAAGTTAAAAAT
2518058 TATGTTA
1 TATGTTA
2518065 ATGATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (24 bp):
TATGTTAGTTATTAAGTTAAAAAT
Found at i:2518074 original size:20 final size:20
Alignment explanation
Indices: 2518051--2518088 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2518041 GTTATTAAGT
2518051 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
2518071 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
2518089 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:2522018 original size:21 final size:21
Alignment explanation
Indices: 2521989--2522036 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2521979 GAAGCTCGAA
*
2521989 AGCTAAACAGAAGCTCATGAG
1 AGCTAAACAGAAGCTCATAAG
* *
2522010 AGCTGAACAGAAGCTCGTAAG
1 AGCTAAACAGAAGCTCATAAG
2522031 AGCTAA
1 AGCTAA
2522037 TCCACCCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Done.