Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3201804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2071587 original size:82 final size:78
Alignment explanation
Indices: 2071330--2071600 Score: 209
Period size: 82 Copynumber: 3.4 Consensus size: 78
2071320 ATGTATATAT
* * * *
2071330 TTTTTA-CTATTATTTTTCTTTATTTT-CTTTATTTTATTCATTTT-TTCTCTTTA--TTT-TTT
1 TTTTTATCT-TTATTTATCTTTATTTTATTTTATTTTATTTATTTTATTTTCTTTATCTTTATTT
*
2071389 TA-T-TTTTTATATC
65 TATTATTTTTTTA-C
* * * * *
2071402 TCTTTATCTTTATTTATTTCTTTATATTTTTTCTTTTTCTTAATTTGTTTTATTTTCTTTATATT
1 TTTTTATCTTTATTTA--TCTTTAT-TTTATT-TTATT-TT-ATTTATTTTATTTTCTTTATCTT
* *
2071467 TATATTTATTTTTTATTTTAT
60 TAT-TTTATTATTT-TTTTAC
* * *
2071488 TTTATTTTATTTTTTTATCTTTATCTTTATTTTATTTTATTTATTTTATTTTCTTTATCTTTATT
1 TTT-TTATCTTTATTTATCTTTAT-TTTATTTTATTTTATTTATTTTATTTTCTTTATCTTTATT
2071553 TTCATTATTTTCTTTAC
64 TT-ATTATTTT-TTTAC
2071570 TTTTTATCTTTACTTTATCTTT-TTTTATTTT
1 TTTTTATCTTTA-TTTATCTTTATTTTATTTT
2071601 CGTTATCTTT
Statistics
Matches: 156, Mismatches: 23, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
72 11 0.07
73 2 0.01
74 7 0.04
75 3 0.02
76 1 0.01
77 4 0.03
78 2 0.01
79 7 0.04
80 16 0.10
81 11 0.07
82 49 0.31
83 3 0.02
84 8 0.05
85 13 0.08
86 5 0.03
87 14 0.09
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.75
Consensus pattern (78 bp):
TTTTTATCTTTATTTATCTTTATTTTATTTTATTTTATTTATTTTATTTTCTTTATCTTTATTTT
ATTATTTTTTTAC
Found at i:2071615 original size:15 final size:15
Alignment explanation
Indices: 2071536--2071624 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 15
2071526 ATTTATTTTA
* *
2071536 TTTTCTTTATCTTTA
1 TTTTCGTTATCTTTC
*
2071551 TTTTCATTAT-TTTC
1 TTTTCGTTATCTTTC
**
2071565 TTTACTTTTTATCTTTAC
1 TTT--TCGTTATCTTT-C
* *
2071583 TTTATC-TT-TTTTTA
1 TTT-TCGTTATCTTTC
2071597 TTTTCGTTATCTTTC
1 TTTTCGTTATCTTTC
2071612 TTTTCGTTATCTT
1 TTTTCGTTATCTT
2071625 ATTTTCTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.03
14 11 0.19
15 30 0.52
16 7 0.12
17 4 0.07
18 4 0.07
ACGTcount: A:0.12, C:0.15, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTCGTTATCTTTC
Found at i:2076521 original size:9 final size:9
Alignment explanation
Indices: 2076507--2076773 Score: 74
Period size: 9 Copynumber: 28.7 Consensus size: 9
2076497 AAGGTAATGG
2076507 AAATAAAGA
1 AAATAAAGA
2076516 AAATAAAGA
1 AAATAAAGA
2076525 AAATAAA-A
1 AAATAAAGA
* *
2076533 TAAAGAAGGAA
1 -AAATAAAG-A
*
2076544 AAACAAATG-
1 AAATAAA-GA
* *
2076553 GAATAAATA
1 AAATAAAGA
2076562 AAAT-AAGA
1 AAATAAAGA
*
2076570 TAAA-GAA-A
1 -AAATAAAGA
2076578 AAATAAAGTA
1 AAATAAAG-A
2076588 AAGATAAA-A
1 AA-ATAAAGA
* *
2076597 AAGTAAATA
1 AAATAAAGA
*
2076606 AAATAGATAAA
1 AAATA-A-AGA
2076617 AAATGAAAGA
1 AAAT-AAAGA
*
2076627 AATAAAAATGA
1 AA-ATAAA-GA
*
2076638 AAATAAATA
1 AAATAAAGA
*
2076647 AAATAAATA
1 AAATAAAGA
*
2076656 AAATAAATA
1 AAATAAAGA
2076665 AAAT--A-A
1 AAATAAAGA
2076671 AAATAAA-A
1 AAATAAAGA
*
2076679 CAAA-AAATA
1 -AAATAAAGA
2076688 AATATAAAGATA
1 AA-ATAAAG--A
2076700 TAAATAAAGA
1 -AAATAAAGA
2076710 TAAATAAAAAGA
1 -AAAT--AAAGA
*
2076722 AAAAATAAGA
1 AAATA-AAGA
*
2076732 ATAAAATAAGA
1 A-AATA-AAGA
*
2076743 AAA-AAA-T
1 AAATAAAGA
**
2076750 AAATTTAGA
1 AAATAAAGA
2076759 AAATAAAGA
1 AAATAAAGA
2076768 AAATAA
1 AAATAA
2076774 TAAAGGAAAA
Statistics
Matches: 201, Mismatches: 25, Indels: 64
0.69 0.09 0.22
Matches are distributed among these distances:
6 5 0.02
7 7 0.03
8 21 0.10
9 85 0.42
10 36 0.18
11 32 0.16
12 13 0.06
13 2 0.01
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.16
Consensus pattern (9 bp):
AAATAAAGA
Found at i:2076563 original size:4 final size:4
Alignment explanation
Indices: 2076554--2076717 Score: 60
Period size: 4 Copynumber: 39.5 Consensus size: 4
2076544 AAACAAATGG
*
2076554 AATA AATAA AATA AGATA AAGA AA-A AATA AAGTAA AGATA AA-A AAGTA
1 AATA AAT-A AATA A-ATA AATA AATA AATA AA-T-A A-ATA AATA AA-TA
* *
2076602 AATAA AATA GATA AA-A AATGA AAGA AAT- AA-A AATGAA AATA AATAA
1 AAT-A AATA AATA AATA AAT-A AATA AATA AATA AAT--A AATA AAT-A
*
2076648 AATA AATAA AATA AATA AA-A TAA-A AATA AA-A CAAAA AATA AAT- -ATA
1 AATA AAT-A AATA AATA AATA -AATA AATA AATA -AATA AATA AATA AATA
* *
2076694 AAGA TATA AATAA AGATA AATA AA
1 AATA AATA AAT-A A-ATA AATA AA
2076718 AAGAAAAAAT
Statistics
Matches: 125, Mismatches: 10, Indels: 50
0.68 0.05 0.27
Matches are distributed among these distances:
2 2 0.02
3 17 0.14
4 62 0.50
5 34 0.27
6 9 0.07
7 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:2076567 original size:5 final size:5
Alignment explanation
Indices: 2076557--2076853 Score: 121
Period size: 5 Copynumber: 56.6 Consensus size: 5
2076547 CAAATGGAAT
* * * *
2076557 AAATA AAATA AGATA AAGAAA AAATA AAGTA AAGATA AAAAA GTAAATA
1 AAATA AAATA AAATA AA-ATA AAATA AAATA AA-ATA AAATA --AAATA
* *
2076606 AAATA GATAA-A AAATG AAA-G AAATAA AAATGA AAAT- AAATA AAAT-
1 AAATA -A-AATA AAATA AAATA AAAT-A AAAT-A AAATA AAATA AAATA
*
2076651 AAATA AAAT- AAATA AAATAA AAATAA AACAAA AAATA AATATA AAGATA
1 AAATA AAATA AAATA AAAT-A AAAT-A AA-ATA AAATA AA-ATA AA-ATA
* *
2076700 TAAATA AAGAT- AAATA AAA-A GAA-A AAATA AGAATA AAATA AGAAAA
1 -AAATA AA-ATA AAATA AAATA AAATA AAATA A-AATA AAATA A-AATA
* * **
2076746 AAATA AATTTAGA AAATA AAGAAA ATAATA AAGGA AAAT- -AATA AAAT-
1 AAATA AA---ATA AAATA AA-ATA A-AATA AAATA AAATA AAATA AAATA
* * * * * *
2076793 CAATGA AAATA AAACA AAACA AAATAA AAATA AAACA AAACA AAATA AAAAA
1 AAAT-A AAATA AAATA AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA
2076845 GAAATA AAA
1 -AAATA AAA
2076854 AAACAAAAAA
Statistics
Matches: 226, Mismatches: 34, Indels: 64
0.70 0.10 0.20
Matches are distributed among these distances:
3 3 0.01
4 29 0.13
5 109 0.48
6 71 0.31
7 10 0.04
8 4 0.02
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:2076640 original size:6 final size:6
Alignment explanation
Indices: 2076626--2076752 Score: 77
Period size: 6 Copynumber: 21.2 Consensus size: 6
2076616 AAAATGAAAG
* *
2076626 AAATAA AAATGA AAATAA ATAA-AA TAAATAA AATAAATA AAATAA AAATAA
1 AAATAA AAATAA AAATAA A-AATAA -AAATAA AA-ATA-A AAATAA AAATAA
* * * * *
2076677 AACA-AA AAATAA ATATAA AGATAT AAATAA AGAT-- AAATAA AAAGAAA
1 AA-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA
* *
2076724 AAATAA GAAT-A AAATAA GAA-AA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
2076753 TTTAGAAAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
4 3 0.03
5 9 0.10
6 62 0.67
7 15 0.16
8 3 0.03
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:2076782 original size:13 final size:12
Alignment explanation
Indices: 2076554--2076790 Score: 92
Period size: 11 Copynumber: 19.5 Consensus size: 12
2076544 AAACAAATGG
*
2076554 AATAAATAAAAT
1 AATAAAGAAAAT
2076566 AAGATAAAGAAAA-
1 -A-ATAAAGAAAAT
2076579 AATAAAGTAAAGAT
1 AATAAAG-AAA-AT
* *
2076593 AAAAAAGTAAAT
1 AATAAAGAAAAT
*
2076605 AA-AATAGATAAAA
1 AATAA-AGA-AAAT
2076618 AATGAAAG-AAAT
1 AAT-AAAGAAAAT
2076630 AA-AAATGAAAAT
1 AATAAA-GAAAAT
2076642 AAATAAA-ATAAAT
1 -AATAAAGA-AAAT
*
2076655 AAAATAAATAAAAT
1 --AATAAAGAAAAT
* *
2076669 AA-AAATAAAAC
1 AATAAAGAAAAT
2076680 AA-AAA-ATAAAT
1 AATAAAGA-AAAT
*
2076691 -ATAAAG-ATAT
1 AATAAAGAAAAT
2076701 AAATAAAGATAAAT
1 -AATAAAGA-AAAT
2076715 AA-AAAGAAAA-
1 AATAAAGAAAAT
2076725 AAT-AAGAATAA-
1 AATAAAGAA-AAT
*
2076736 AAT-AAGAAAAA
1 AATAAAGAAAAT
* *
2076747 AATAAATTTAGAA-
1 AATAAA--GAAAAT
2076760 AATAAAGAAAAT
1 AATAAAGAAAAT
2076772 AATAAAGGAAAAT
1 AATAAA-GAAAAT
2076785 AATAAA
1 AATAAA
2076791 ATCAATGAAA
Statistics
Matches: 180, Mismatches: 14, Indels: 60
0.71 0.06 0.24
Matches are distributed among these distances:
10 17 0.09
11 47 0.26
12 41 0.23
13 35 0.19
14 37 0.21
15 3 0.02
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (12 bp):
AATAAAGAAAAT
Found at i:2076824 original size:21 final size:20
Alignment explanation
Indices: 2076798--2076871 Score: 89
Period size: 21 Copynumber: 3.7 Consensus size: 20
2076788 AAAATCAATG
*
2076798 AAAATAAAACAAAACAAAAT
1 AAAAAAAAACAAAACAAAAT
2076818 AAAAATAAAACAAAACAAAAT
1 AAAAA-AAAACAAAACAAAAT
* *
2076839 AAAAAAGAAA-TAAA-AAAAC
1 AAAAAA-AAACAAAACAAAAT
2076858 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
2076872 TTAAAAACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.06
19 13 0.28
20 8 0.17
21 23 0.49
ACGTcount: A:0.84, C:0.08, G:0.01, T:0.07
Consensus pattern (20 bp):
AAAAAAAAACAAAACAAAAT
Found at i:2076861 original size:5 final size:5
Alignment explanation
Indices: 2076798--2076871 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
2076788 AAAATCAATG
* * * *
2076798 AAAAT AAAAC AAAAC AAAATA AAAAT AAAAC AAAAC AAAAT AAAA- AAGAA-
1 AAAAC AAAAC AAAAC AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AA-AAC
*
2076848 ATAAA- AAAAC AAAAA AAAAC AAAA
1 A-AAAC AAAAC AAAAC AAAAC AAAA
2076872 TTAAAAACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
4 5 0.09
5 48 0.83
6 5 0.09
ACGTcount: A:0.84, C:0.08, G:0.01, T:0.07
Consensus pattern (5 bp):
AAAAC
Found at i:2076877 original size:21 final size:21
Alignment explanation
Indices: 2076626--2076878 Score: 71
Period size: 22 Copynumber: 11.0 Consensus size: 21
2076616 AAAATGAAAG
* *
2076626 AAATAAAAATGAAAAT-AAATA
1 AAATAAAAA-CAAAATAAAAAA
*
2076647 AAATAAATAAAATAAATAAAATAA
1 AAATAAA-AACA-AAATAAAA-AA
*
2076671 AAATAAAACAAAAAATAAATATAA
1 AAATAAAA-ACAAAATAAA-A-AA
*
2076695 AGATATAAATAAAGATAAATAAAAAGAAA
1 A-A-AT-AA-AAACA-AAAT--AAA-AAA
* *
2076724 AAATAAGAATAAAATAAGAAAA
1 AAATAAAAACAAAATAA-AAAA
* *
2076746 AAATAAATTTAGAAAATAAAGAAA
1 AAATAAA--AACAAAATAAA-AAA
**
2076770 ATAAT-AAAGGAAAATAATAAAA
1 A-AATAAAAACAAAATAA-AAAA
* * * * *
2076792 TCAATGAAAATAAAACAAAACA
1 -AAATAAAAACAAAATAAAAAA
* * *
2076814 AAATAAAAATAAAACAAAACA
1 AAATAAAAACAAAATAAAAAA
2076835 AAATAAAAA-AGAAATAAAAAAA
1 AAATAAAAACA-AAAT-AAAAAA
* *
2076857 CAAAAAAAAACAAAATTAAAAA
1 -AAATAAAAACAAAATAAAAAA
2076879 CAAGAAAAGT
Statistics
Matches: 185, Mismatches: 22, Indels: 49
0.72 0.09 0.19
Matches are distributed among these distances:
20 1 0.01
21 39 0.21
22 44 0.24
23 35 0.19
24 35 0.19
25 7 0.04
26 4 0.02
27 6 0.03
28 7 0.04
29 3 0.02
30 4 0.02
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAATAAAAACAAAATAAAAAA
Found at i:2077015 original size:6 final size:6
Alignment explanation
Indices: 2076933--2077016 Score: 52
Period size: 6 Copynumber: 14.3 Consensus size: 6
2076923 AGGAAACAAA
* * *
2076933 AATAA- AATAA- AATAA- AAGTAAG AATAAA AATAAT -ATATAT AATTAT
1 AATAAT AATAAT AATAAT AA-TAAT AATAAT AATAAT AATA-AT AATAAT
* * *
2076979 AATAAC AATAAT GATAAT AAAAAT GAA-AAT AATAAT AA
1 AATAAT AATAAT AATAAT AATAAT -AATAAT AATAAT AA
2077017 AAGAAACCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
5 17 0.27
6 41 0.64
7 6 0.09
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (6 bp):
AATAAT
Found at i:2078222 original size:16 final size:16
Alignment explanation
Indices: 2078201--2078237 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2078191 TAATGTGTAA
*
2078201 ATAATAAATATATTAT
1 ATAATAAATACATTAT
*
2078217 ATAATATATACATTAT
1 ATAATAAATACATTAT
2078233 ATAAT
1 ATAAT
2078238 CATATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAATAAATACATTAT
Found at i:2079278 original size:124 final size:122
Alignment explanation
Indices: 2078923--2079279 Score: 459
Period size: 124 Copynumber: 2.9 Consensus size: 122
2078913 GTCGATCTGT
** * * *
2078923 TGGGCACGATATCCTTCGTTTTGAATTTGAAATCGTGGATGGCT-ACTT-TGTGAAGGTGAGCTT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGATCA-TTCTGTGAAGTTGAGCTT
* * * *
2078986 GGAATTGGATATCATTCGTTGTGAAGTT-AAGATCCAATCTAGAGATGGATGCTACTTG
65 TGAATTGGATATCCTTCGTTGTGAAGTTGAA-ATCCAATCTAGAGTTGGATGCTACTTC
* * * *
2079044 TGGGCATGATATCCTTCGTCGTTAAGTTGAAATCGTGTATGGATCCTTCATTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGATCATTC--TGTGAAGTTGAGCT
* * *
2079109 TTGAATTGGATATCCTTCGTTGTGTAGTTGAAATCCAATCTAGAGTTGTATGCTGCTTC
64 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGTTGGATGCTACTTC
* *
2079168 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGGTTCATTCGGTGTGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGATCATTC--TGTGAAGTTGAGCT
* *
2079233 TTGAATTGGATATCCTTCATTGTGAAGTTGAAATCTAATCTAGAGTT
64 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGTT
2079280 ATATTGCTTC
Statistics
Matches: 204, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
121 39 0.19
124 163 0.80
125 2 0.01
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (122 bp):
TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGATCATTCTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGTTGGATGCTACTTC
Found at i:2089541 original size:25 final size:27
Alignment explanation
Indices: 2089503--2089556 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 27
2089493 ACAAAAGCAC
* *
2089503 AAAGTAAGATAATAAAAAAA-TG-ATG
1 AAAGTAAAAGAATAAAAAAACTGCATG
2089528 AAAGTAAAAGAATAAAAAAACTGCATG
1 AAAGTAAAAGAATAAAAAAACTGCATG
2089555 AA
1 AA
2089557 TAGGGTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.72
26 2 0.08
27 5 0.20
ACGTcount: A:0.65, C:0.04, G:0.15, T:0.17
Consensus pattern (27 bp):
AAAGTAAAAGAATAAAAAAACTGCATG
Found at i:2090453 original size:4 final size:4
Alignment explanation
Indices: 2090444--2090751 Score: 96
Period size: 4 Copynumber: 72.2 Consensus size: 4
2090434 AAGGTAATGA
* * * *
2090444 AAAT AAAT AAAGA AAAT AAAAT AAA- GAAT GAA- AAAC AAAT GAAAT AAAT
1 AAAT AAAT AAA-T AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT
* *
2090493 AAAAT AAGAT AAAA AAAGT AAAGAT AAA- AAAGT AAAT AAAAT AGAT AAAAT
1 -AAAT AA-AT AAAT AAA-T -AA-AT AAAT AAA-T AAAT -AAAT AAAT -AAAT
* * * * *
2090544 AAAGAT AAAGA AAAT GAAAGA AAAA AAAT GAAAAT AAAT ATAAA AAAT ATA-
1 -AA-AT AAA-T AAAT -AAA-T AAAT AAAT -AA-AT AAAT A-AAT AAAT AAAT
* *
2090595 AAAT AAAT AAAAT AAAT AAAA AAAT AAA- AAA- AAA- AATAT AAAG AAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT
* **
2090642 AAAT AAAG ATAA- AAAT AAA- AAAT AAAAT AAGG AAAT AAAT AAAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
2090690 AAAT AAAG AAA- ATAAT AAAG AAAA ATAAT AAAAT CAAT GAAAAT AATAA
1 AAAT AAAT AAAT A-AAT AAAT AAAT A-AAT -AAAT AAAT --AAAT AA-AT
2090739 AAAT AAAT AAAT A
1 AAAT AAAT AAAT A
2090752 TGATGTTATA
Statistics
Matches: 234, Mismatches: 34, Indels: 72
0.69 0.10 0.21
Matches are distributed among these distances:
3 23 0.10
4 126 0.54
5 73 0.31
6 11 0.05
7 1 0.00
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:2090462 original size:9 final size:9
Alignment explanation
Indices: 2090448--2090704 Score: 92
Period size: 9 Copynumber: 28.7 Consensus size: 9
2090438 TAATGAAAAT
2090448 AAATAAAGA
1 AAATAAAGA
2090457 AAATAAA-A
1 AAATAAAGA
* *
2090465 TAAAGAATGAA
1 -AAATAAAG-A
*
2090476 AAACAAATG-
1 AAATAAA-GA
*
2090485 AAATAAATA
1 AAATAAAGA
2090494 AAAT-AAGA
1 AAATAAAGA
*
2090502 TAAAAAAAGTA
1 -AAATAAAG-A
2090513 AAGATAAA-A
1 AA-ATAAAGA
* *
2090522 AAGTAAATA
1 AAATAAAGA
* *
2090531 AAATAGATA
1 AAATAAAGA
2090540 AAATAAAG-
1 AAATAAAGA
2090548 --ATAAAGA
1 AAATAAAGA
2090555 AAATGAAAGA
1 AAAT-AAAGA
*
2090565 AAAAAAATGA
1 AAATAAA-GA
*
2090575 AAATAAATA
1 AAATAAAGA
* *
2090584 TAAAAAATATA
1 -AAATAA-AGA
*
2090595 AAATAAATA
1 AAATAAAGA
*
2090604 AAATAAATA
1 AAATAAAGA
*
2090613 AAA-AAATA
1 AAATAAAGA
*
2090621 AAA-AAAAA
1 AAATAAAGA
2090629 AATATAAAG-
1 AA-ATAAAGA
*
2090638 AAATAAATA
1 AAATAAAGA
2090647 AAGATAAA-A
1 AA-ATAAAGA
* *
2090656 ATAAAAAATA
1 A-AATAAAGA
*
2090666 AAAT-AAGG
1 AAATAAAGA
*
2090674 AAATAAA-T
1 AAATAAAGA
*
2090682 AAATAAA-T
1 AAATAAAGA
2090690 AAATAAAGA
1 AAATAAAGA
2090699 AAATAA
1 AAATAA
2090705 TAAAGAAAAA
Statistics
Matches: 195, Mismatches: 28, Indels: 50
0.71 0.10 0.18
Matches are distributed among these distances:
6 6 0.03
8 48 0.25
9 84 0.43
10 47 0.24
11 10 0.05
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (9 bp):
AAATAAAGA
Found at i:2090518 original size:15 final size:14
Alignment explanation
Indices: 2090498--2090528 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
2090488 TAAATAAAAT
2090498 AAGATAAAAAAAGTA
1 AAGAT-AAAAAAGTA
2090513 AAGATAAAAAAGTA
1 AAGATAAAAAAGTA
2090527 AA
1 AA
2090529 TAAAATAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AAGATAAAAAAGTA
Found at i:2090578 original size:20 final size:18
Alignment explanation
Indices: 2090443--2090749 Score: 170
Period size: 18 Copynumber: 16.7 Consensus size: 18
2090433 AAAGGTAATG
*
2090443 AAAATAAATAAAGAAAAT
1 AAAATAAATAAAAAAAAT
* *
2090461 AAAATAAAGAATGAAAAA-
1 AAAATAAATAA-AAAAAAT
* *
2090479 CAAATGAAATAAATAAAAT
1 AAAAT-AAATAAAAAAAAT
*
2090498 AAGATAAA-AAAAGTAAAGAT
1 AAAATAAATAAAA--AAA-AT
* *
2090518 AAAA-AAGTAAATAAAAT
1 AAAATAAATAAAAAAAAT
* * *
2090535 -AGATAAAATAAAGATAAAG
1 AAAAT-AAATAAA-AAAAAT
*
2090554 AAAATGAAAGAAAAAAAAT
1 AAAAT-AAATAAAAAAAAT
2090573 GAAAATAAATATAAAAAATAT
1 -AAAATAAATA-AAAAAA-AT
*
2090594 AAAATAAATAAAATAAAT
1 AAAATAAATAAAAAAAAT
2090612 AAAA-AAATAAAAAAAA-
1 AAAATAAATAAAAAAAAT
* *
2090628 AAATATAAA-GAAATAAAT
1 AAA-ATAAATAAAAAAAAT
2090646 AAAGATAAA-AATAAAAAAT
1 AAA-ATAAATAA-AAAAAAT
2090665 AAAATAAGGA-AATAAATAAAT
1 AAAATAA--ATAA-AAA-AAAT
*
2090686 -AAATAAATAAAGAAAAT
1 AAAATAAATAAAAAAAAT
* *
2090703 --AATAAAGAAAAATAAT
1 AAAATAAATAAAAAAAAT
* * *
2090719 AAAATCAATGAAAATAAT
1 AAAATAAATAAAAAAAAT
2090737 AAAAATAAATAAA
1 -AAAATAAATAAA
2090750 TATGATGTTA
Statistics
Matches: 224, Mismatches: 40, Indels: 49
0.72 0.13 0.16
Matches are distributed among these distances:
16 18 0.08
17 27 0.12
18 68 0.30
19 54 0.24
20 51 0.23
21 6 0.03
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAAAAAAAT
Found at i:2090722 original size:9 final size:9
Alignment explanation
Indices: 2090564--2090749 Score: 65
Period size: 9 Copynumber: 20.3 Consensus size: 9
2090554 AAAATGAAAG
*
2090564 AAAAAAAAT
1 AAAAATAAT
*
2090573 GAAAATAAAT
1 AAAAAT-AAT
2090583 ATAAAA-AAT
1 A-AAAATAAT
2090592 ATAAAATAA-
1 A-AAAATAAT
2090601 ATAAAATAAAT
1 A-AAAAT-AAT
2090612 AAAAA-AAT
1 AAAAATAAT
2090620 -AAAA-AA-
1 AAAAATAAT
2090626 AAAAAT-AT
1 AAAAATAAT
*
2090634 AAAGA-AAT
1 AAAAATAAT
2090642 AAATAA-AGAT
1 AAA-AATA-AT
2090652 AAAAATAA-
1 AAAAATAAT
*
2090660 AAAATAAAAT
1 AAAA-ATAAT
2090670 AAGGAAATAA-
1 AA--AAATAAT
*
2090680 ATAAATAA-
1 AAAAATAAT
*
2090688 ATAAATAA-
1 AAAAATAAT
2090696 AGAAAATAAT
1 A-AAAATAAT
*
2090706 AAAGAAAAAT
1 AAA-AATAAT
2090716 AATAAAATCAAT
1 -A-AAAAT-AAT
*
2090728 GAAAATAAT
1 AAAAATAAT
2090737 AAAAATAAAT
1 AAAAAT-AAT
2090747 AAA
1 AAA
2090750 TATGATGTTA
Statistics
Matches: 141, Mismatches: 13, Indels: 45
0.71 0.07 0.23
Matches are distributed among these distances:
7 11 0.08
8 31 0.22
9 44 0.31
10 37 0.26
11 11 0.08
12 7 0.05
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (9 bp):
AAAAATAAT
Found at i:2090738 original size:91 final size:86
Alignment explanation
Indices: 2090443--2090745 Score: 199
Period size: 86 Copynumber: 3.3 Consensus size: 86
2090433 AAAGGTAATG
* *
2090443 AAAATAAATAAAGAAAATAAAATAAAGAATGAAAAACAAATGAAATAAATA-AAATAAGATAAAA
1 AAAAAAAATAAAG-AAAT-AAATAAA-AAT-AAAAATAAA--AAATAAATATAAA-AA-AT-AAA
* *
2090507 AAAGTAAAGATAAA-AAAGTAAATAAAATAGATAA
57 AAA-TAAATA-AAATAAAG-AAA-AAAATA-AAAA
* * * * * *
2090541 AATAAAGATAAAGAAAATGAA-AGAAA-AAAAAT-GAAAATAAATATAAAAAATATAAAATAAAT
1 AAAAAAAATAAAG-AAATAAATAAAAATAAAAATAAAAAATAAATATAAAAAATAAAAAATAAAT
*
2090603 AAAATAAATAAAAAAATAAAAA
65 AAAATAAAGAAAAAAATAAAAA
* * *
2090625 AAAAAATATAAAGAAATAAATAAAGATAAAAATAAAAAATAAA-ATAAGGAAATAAATAAATAAA
1 AAAAAAAATAAAGAAATAAATAAAAATAAAAATAAAAAATAAATATAA-AAAATAAA-AAATAAA
*
2090689 T-AAATAAAGAAAATAATAAAGAAA
64 TAAAATAAAGAAAAAAAT-AA-AAA
*
2090713 AATAATAAAATCAATGAAA-ATAATAAAAATAAA
1 AA-AA-AAAAT-AAAGAAATA-AATAAAAATAAA
2090746 TAAATATGAT
Statistics
Matches: 168, Mismatches: 24, Indels: 33
0.75 0.11 0.15
Matches are distributed among these distances:
83 6 0.04
84 17 0.10
85 16 0.10
86 34 0.20
87 18 0.11
88 10 0.06
89 4 0.02
90 16 0.10
91 20 0.12
92 1 0.01
93 5 0.03
95 2 0.01
96 2 0.01
97 2 0.01
98 15 0.09
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (86 bp):
AAAAAAAATAAAGAAATAAATAAAAATAAAAATAAAAAATAAATATAAAAAATAAAAAATAAATA
AAATAAAGAAAAAAATAAAAA
Found at i:2090769 original size:31 final size:30
Alignment explanation
Indices: 2090729--2090807 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
2090719 AAAATCAATG
* * **
2090729 AAAATAATAAAAATAAATA-AATATGATGTT
1 AAAAAAATAAAAATAAA-ACAAAATGAAATT
*
2090759 ATAATAAATAAAAATAAAACAAAATGAAATT
1 A-AAAAAATAAAAATAAAACAAAATGAAATT
2090790 AAAAAAATAAAAATAAAA
1 AAAAAAATAAAAATAAAA
2090808 ATAAAACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (30 bp):
AAAAAAATAAAAATAAAACAAAATGAAATT
Found at i:2090770 original size:4 final size:4
Alignment explanation
Indices: 2090575--2090751 Score: 98
Period size: 4 Copynumber: 43.2 Consensus size: 4
2090565 AAAAAAATGA
* * *
2090575 AAAT AAAT ATAAA AAAT ATA- AAAT AAAT AAAAT AAAT AAAA AAAT AAA-
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
* *
2090623 AAA- AAA- AATAT AAAG AAAT AAAT AAAG ATAA- AAAT AAA- AAAT AAAAT
1 AAAT AAAT AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT -AAAT
** * * *
2090670 AAGG AAAT AAAT AAAT AAAT AAAT AAAG AAA- ATAAT AAAG AAAA ATAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT A-AAT
* *
2090719 AAAAT CAAT GAAAAT AATAA AAAT AAAT AAAT A
1 -AAAT AAAT --AAAT AA-AT AAAT AAAT AAAT A
2090752 TGATGTTATA
Statistics
Matches: 136, Mismatches: 21, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
3 16 0.12
4 92 0.68
5 24 0.18
6 4 0.03
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:2090825 original size:12 final size:12
Alignment explanation
Indices: 2090792--2090825 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2090782 ATGAAATTAA
*
2090792 AAAAATAAAAAT
1 AAAAATAAAAAC
2090804 AAAAAT-AAAAC
1 AAAAATAAAAAC
2090815 AAAAATAAAAA
1 AAAAATAAAAA
2090826 TATAAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:2090825 original size:30 final size:29
Alignment explanation
Indices: 2090759--2090831 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
2090749 ATATGATGTT
* **
2090759 ATAATAAATAAAAATAAAACAAAATGAAA
1 ATAAAAAATAAAAATAAAACAAAACAAAA
* *
2090788 TTAAAAAAATAAAAATAAAAATAAAACAAAA
1 AT-AAAAAATAAAAAT-AAAACAAAACAAAA
2090819 ATAAAAATATAAA
1 ATAAAAA-ATAAA
2090832 CAAGAAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 1 0.03
30 17 0.49
31 17 0.49
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (29 bp):
ATAAAAAATAAAAATAAAACAAAACAAAA
Found at i:2091004 original size:22 final size:23
Alignment explanation
Indices: 2090979--2091034 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
2090969 AACCCAACAT
** *
2090979 AAAAATAAATGGTAAAAAATTAA
1 AAAAATAAATAATAAAAAATAAA
2091002 AAAAATAAA-AATAAAAAATAAA
1 AAAAATAAATAATAAAAAATAAA
*
2091024 AAAAGTAAATA
1 AAAAATAAATA
2091035 TATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAATAAATAATAAAAAATAAA
Found at i:2091034 original size:13 final size:13
Alignment explanation
Indices: 2091001--2091025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2090991 TAAAAAATTA
2091001 AAAAAATAAAAAT
1 AAAAAATAAAAAT
2091014 AAAAAATAAAAA
1 AAAAAATAAAAA
2091026 AAGTAAATAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:2097932 original size:15 final size:15
Alignment explanation
Indices: 2097912--2097942 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2097902 CTCCCGAAGA
2097912 GCACTTGTCGTGGCT
1 GCACTTGTCGTGGCT
2097927 GCACTTGTCGTGGCT
1 GCACTTGTCGTGGCT
2097942 G
1 G
2097943 AAATGGACGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.35, T:0.32
Consensus pattern (15 bp):
GCACTTGTCGTGGCT
Found at i:2098056 original size:14 final size:15
Alignment explanation
Indices: 2098037--2098071 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2098027 ACCCTAAATT
2098037 GAAAAAAAAG-AAAA
1 GAAAAAAAAGAAAAA
*
2098051 GAAAAAAGAGAAAAA
1 GAAAAAAAAGAAAAA
2098066 GAAAAA
1 GAAAAA
2098072 GAAATAAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:2099013 original size:65 final size:65
Alignment explanation
Indices: 2098908--2099153 Score: 375
Period size: 65 Copynumber: 3.8 Consensus size: 65
2098898 GCCACACAAT
* * * **
2098908 TTACTCAAGATTAGATTTCAACTTCACAACGAAGGGTATCCAACTCAAATACAATGTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGCCAATGTGGTGAAAC
* * * *
2098973 TTACTTAAGATTGGATTTTAACTTCATGACGAATGATATCCAACTCAAAGCCAATGTGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGCCAATGTGGTGAAAC
* *
2099038 TTACTCAAGATTGGATTTCAACTTCACTACGAAGGATATCCAACTCAAAGCCAATATGGTGAAAC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGCCAATGTGGTGAAAC
* *
2099103 TTACTCAAGATTGGATTTCAACTTCACGACGGAGGGTATCCAACTCAAAGC
1 TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGC
2099154 TCAACTTCAC
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 163 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (65 bp):
TTACTCAAGATTGGATTTCAACTTCACGACGAAGGATATCCAACTCAAAGCCAATGTGGTGAAAC
Found at i:2100466 original size:18 final size:17
Alignment explanation
Indices: 2100435--2100749 Score: 152
Period size: 18 Copynumber: 18.1 Consensus size: 17
2100425 TTATTTTTAC
*
2100435 TATTATTTTCCTTTATTT
1 TATT-TTTTTCTTTATTT
2100453 TATTTTTTCTCTTTATTT
1 TATTTTTT-TCTTTATTT
*
2100471 TA-TTTTTTATTTATCTT
1 TATTTTTTTCTTTAT-TT
* **
2100488 TATCTTCAT-TTTATTT
1 TATTTTTTTCTTTATTT
* *
2100504 AATTCTTTATCTTTA--T
1 TATT-TTTTTCTTTATTT
2100520 TATTTATTTTCTTTATATT
1 TATTT-TTTTCTTTAT-TT
*
2100539 TATTATTTAT-TTTATTT
1 TATT-TTTTTCTTTATTT
2100556 TATTTTATTTATCTTTA-TT
1 TA-TTT-TTT-TCTTTATTT
* *
2100575 TATTTATTTATTTATCTT
1 TATTTTTTTCTTTAT-TT
* *
2100593 TATCTTTATCTTTATCTT
1 TATTTTTTTCTTTAT-TT
2100611 TATTTTTATT-TTTATTT
1 TATTTTT-TTCTTTATTT
*
2100628 T-TATTTTT-TTTATTT
1 TATTTTTTTCTTTATTT
*
2100643 TA-TTTTAT-TTTA-TT
1 TATTTTTTTCTTTATTT
* *
2100657 TATTTTTATCTTTACTT
1 TATTTTTTTCTTTATTT
*
2100674 TATCTATTTTTATTT-TCTT
1 TAT-T-TTTTTCTTTAT-TT
*
2100693 TATCTTTATTTTCTTTATCT
1 TA--TTT-TTTTCTTTATTT
* *
2100713 CATTTTCTTTATTTCATTT
1 TATTTT-TTTCTTT-ATTT
* *
2100732 TCTTTATTTCTTTATTT
1 TATTTTTTTCTTTATTT
2100749 T
1 T
2100750 CATTATCTTT
Statistics
Matches: 232, Mismatches: 35, Indels: 61
0.71 0.11 0.19
Matches are distributed among these distances:
14 4 0.02
15 25 0.11
16 35 0.15
17 43 0.19
18 76 0.33
19 32 0.14
20 15 0.06
21 2 0.01
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTTTCTTTATTT
Found at i:2100490 original size:22 final size:22
Alignment explanation
Indices: 2100446--2100648 Score: 160
Period size: 22 Copynumber: 9.4 Consensus size: 22
2100436 ATTATTTTCC
* *
2100446 TTTATTTTATTTTTTCTCTTTAT
1 TTTATTTT-TTATTTATCTTTAT
2100469 TTTATTTTTTATTTATCTTTAT
1 TTTATTTTTTATTTATCTTTAT
*
2100491 CTTCA--TTTTATTTAATTCTTTAT
1 -TTTATTTTTTATTT-A-TCTTTAT
*
2100514 CTTTATTATTTATTT-TCTTTA-
1 -TTTATTTTTTATTTATCTTTAT
*
2100535 --TATTTATTATTTAT-TTTAT
1 TTTATTTTTTATTTATCTTTAT
2100554 TTTA--TTTTATTTATCTTTA-
1 TTTATTTTTTATTTATCTTTAT
2100573 TTTATTTATTTATTTATCTTTAT
1 TTTATTT-TTTATTTATCTTTAT
* * *
2100596 CTTTATCTTTATCTTTATTTTTAT
1 -TTTAT-TTTTTATTTATCTTTAT
*
2100620 TTT-TATTTTTATTT-TTTTTAT
1 TTTAT-TTTTTATTTATCTTTAT
2100641 TTTATTTT
1 TTTATTTT
2100649 ATTTTATTTA
Statistics
Matches: 149, Mismatches: 14, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
18 14 0.09
19 14 0.09
20 4 0.03
21 24 0.16
22 42 0.28
23 25 0.17
24 17 0.11
25 9 0.06
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTATTTTTTATTTATCTTTAT
Found at i:2100528 original size:4 final size:4
Alignment explanation
Indices: 2100464--2100589 Score: 64
Period size: 4 Copynumber: 29.2 Consensus size: 4
2100454 ATTTTTTCTC
* *
2100464 TTTA TTTTA TTT- TTTA TTTA TCTTTA TCTTCA TTTTA TTTA ATTC TTTA
1 TTTA -TTTA TTTA TTTA TTTA --TTTA T-TT-A -TTTA TTTA TTTA TTTA
*
2100513 TCTT- TATTA TTTA TTT- TCTT- TATA TTTA -TTA TTTA TTTTA TTTTA
1 T-TTA T-TTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA -TTTA -TTTA
2100558 TTTTA TTTA TCTTTA TTTA TTTA TTTA TTTA T
1 -TTTA TTTA --TTTA TTTA TTTA TTTA TTTA T
2100590 CTTTATCTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 29
0.74 0.05 0.21
Matches are distributed among these distances:
3 8 0.08
4 56 0.56
5 24 0.24
6 11 0.11
7 1 0.01
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:2100695 original size:70 final size:68
Alignment explanation
Indices: 2100522--2100704 Score: 77
Period size: 68 Copynumber: 2.7 Consensus size: 68
2100512 ATCTTTATTA
* *
2100522 TTTATTTTCTTTATATTTA--TTATTTATTTTATTTTATTTTATTTATCTTTA--TTTA-TTTAT
1 TTTATTTT-TTTATTTTTATTTTATTTATTTTATTTT-TTTTATTTATTTTTATCTTTACTTTAT
*
2100582 TTATT
64 CTATT
* * * *
2100587 TATCTTTATCTTTATCTTTATCTTTATTT-TTATT-TTTATTTTTATTT-TTTTTAT-TTTATTT
1 TTTATTT-T-TTTATTTTTAT-TTTATTTATT-TTATTT-TTTTTATTTATTTTTATCTTTACTT
2100648 TAT-T-TT
61 TATCTATT
* * * *
2100654 ATTTA--TTTTTATCTTTACTTTATCTATTTTTATTTTCTTTATCTTTATTTT
1 -TTTATTTTTTTATTTTTATTTTATTTA-TTTTATTTT-TTT-TATTTATTTT
2100705 CTTTATCTCA
Statistics
Matches: 94, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
63 6 0.06
64 13 0.14
65 14 0.15
66 16 0.17
67 11 0.12
68 20 0.21
69 14 0.15
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (68 bp):
TTTATTTTTTTATTTTTATTTTATTTATTTTATTTTTTTTATTTATTTTTATCTTTACTTTATCT
ATT
Found at i:2100698 original size:6 final size:5
Alignment explanation
Indices: 2100446--2100704 Score: 146
Period size: 6 Copynumber: 49.6 Consensus size: 5
2100436 ATTATTTTCC
* * * *
2100446 TTTAT TTTAT TTT-T TCT-C TTTAT TTTAT TTTTT ATTTAT CTTTAT CTTCAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT -TTTAT -TTTAT
* *
2100497 TTTAT TTAATT CTTTAT CTTTATT ATTTAT TTT-C TTTAT ATTTATT ATTTAT
1 TTTAT TTTA-T -TTTAT -TTTA-T -TTTAT TTTAT TTTAT -TTTA-T -TTTAT
2100549 TTTAT TTTAT TTTA- TTTAT CTTTA- TTTA- TTTA- TTTA- TTTAT CTTTAT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT
2100596 CTTTAT CTTTAT CTTTATT TTTATT TTTATT TTTAT TTT-T TTTAT TTTAT
1 -TTTAT -TTTAT -TTTA-T TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT
* * *
2100646 TTTAT TTTA- TTTATT TTTAT CTTTAC TTTA- TCTATT TTTAT TTT-C
1 TTTAT TTTAT TTTA-T TTTAT -TTTAT TTTAT TTTA-T TTTAT TTTAT
2100691 TTTAT CTTTAT TTT
1 TTTAT -TTTAT TTT
2100705 CTTTATCTCA
Statistics
Matches: 214, Mismatches: 19, Indels: 42
0.78 0.07 0.15
Matches are distributed among these distances:
4 42 0.20
5 72 0.34
6 85 0.40
7 15 0.07
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:2100741 original size:22 final size:22
Alignment explanation
Indices: 2100678--2100764 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
2100668 TTACTTTATC
* * *
2100678 TATTTTTATTTTC-TTTATCTT
1 TATTTTCATTATCTTTTTTCTT
* *
2100699 TATTTTCTTTATCTCATTTTCTT
1 TATTTTCATTATCT-TTTTTCTT
*
2100722 TA-TTTCATTTTCTTTATTTCTT
1 TATTTTCATTATCTTT-TTTCTT
2100744 TATTTTCATTATCTTTTTTCT
1 TATTTTCATTATCTTTTTTCT
2100765 CTCTTTAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 11 0.21
22 22 0.42
23 20 0.38
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTCATTATCTTTTTTCTT
Found at i:2100745 original size:70 final size:67
Alignment explanation
Indices: 2100522--2100746 Score: 199
Period size: 70 Copynumber: 3.2 Consensus size: 67
2100512 ATCTTTATTA
*
2100522 TTTATTTTCTTTA--TATTTATTATTTATTTTATTTTATTTTATTTATCTTTATTTATTTATTTA
1 TTTATTTTCTTTATCTATTT-TTATTT-TTTTATTTTATTTTATTTATCTAT-TTTATTTATTTA
2100585 TTTATC
63 TTT-TC
* * *
2100591 TTTATCTTTATCTTTATCTTTATTTTTATTTTTAT-TTTTATTTTTTTTATTTTATTTTATTTTA
1 TTTA--TTT-TCTTTATC--TATTTTTATTTTTTTATTTTATTTTATTTA-TCTATTTTA-TTTA
2100655 TTTATTTT-
59 TTTATTTTC
* * * * *
2100663 TATCTTTACTTTATCTATTTTTATTTTCTTTATCTTTATTTTCTTTATCTCATTTTCTTTATTTC
1 TTTATTTTCTTTATCTATTTTTATTTT-TTTAT-TTTATTTTATTTATCT-ATTTTATTTATTT-
2100728 ATTTTC
62 ATTTTC
2100734 TTTA-TTTCTTTAT
1 TTTATTTTCTTTAT
2100747 TTTCATTATC
Statistics
Matches: 127, Mismatches: 14, Indels: 29
0.75 0.08 0.17
Matches are distributed among these distances:
67 12 0.09
68 2 0.02
69 21 0.17
70 33 0.26
71 5 0.04
72 8 0.06
73 18 0.14
74 17 0.13
75 6 0.05
76 5 0.04
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (67 bp):
TTTATTTTCTTTATCTATTTTTATTTTTTTATTTTATTTTATTTATCTATTTTATTTATTTATTT
TC
Found at i:2101657 original size:22 final size:23
Alignment explanation
Indices: 2101624--2101670 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2101614 GATGTTACTT
*
2101624 TTCCTTTTATTATATTGCTTTTA
1 TTCCTTTTATTATATTGATTTTA
*
2101647 TTCC-TTTATTATTTTGATTTTA
1 TTCCTTTTATTATATTGATTTTA
2101669 TT
1 TT
2101671 TTATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.68
Consensus pattern (23 bp):
TTCCTTTTATTATATTGATTTTA
Found at i:2121650 original size:22 final size:22
Alignment explanation
Indices: 2121625--2121669 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2121615 TCCCTTAGTT
2121625 AAGTCTTTAGTTACAAACATTA
1 AAGTCTTTAGTTACAAACATTA
2121647 AAGTCTTTAGTTACAAACATTA
1 AAGTCTTTAGTTACAAACATTA
2121669 A
1 A
2121670 TTTACAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (22 bp):
AAGTCTTTAGTTACAAACATTA
Found at i:2121920 original size:32 final size:32
Alignment explanation
Indices: 2121884--2121946 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
2121874 ATTGGGTATA
* *
2121884 AGAGCCAACCTAAGGGAT-TATCTTGGGGCCTG
1 AGAGCCAACCTAAGAG-TGTACCTTGGGGCCTG
*
2121916 AGAGCCTACCTAAGAGTGTACCTTGGGGCCT
1 AGAGCCAACCTAAGAGTGTACCTTGGGGCCT
2121947 AAAAGCTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (32 bp):
AGAGCCAACCTAAGAGTGTACCTTGGGGCCTG
Found at i:2121975 original size:32 final size:32
Alignment explanation
Indices: 2121934--2122020 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
2121924 CCTAAGAGTG
* *
2121934 TACCTTGGGGCCTAAAAGCTTACCCAAGGGAA
1 TACCTTGGGGCCTAAAAGCCTACCCAAGGAAA
* * * *
2121966 TACCATGGGGCTTTACAGCCTACCCAAGGAAA
1 TACCTTGGGGCCTAAAAGCCTACCCAAGGAAA
*
2121998 TACCTTGGGGCCTCAAAGCCTAC
1 TACCTTGGGGCCTAAAAGCCTAC
2122021 ACTAGTCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (32 bp):
TACCTTGGGGCCTAAAAGCCTACCCAAGGAAA
Found at i:2124355 original size:2 final size:2
Alignment explanation
Indices: 2124350--2124408 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
2124340 CTATATACTT
2124350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2124391 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2124409 AACACATGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2125352 original size:39 final size:40
Alignment explanation
Indices: 2125294--2125371 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 40
2125284 GAAAAGTCTA
*
2125294 TTGGGAGTTAGAGTGTTTTATTGTGAAATTAAGA-TTCTC
1 TTGGGAGTTAGAGTATTTTATTGTGAAATTAAGAGTTCTC
*
2125333 TTGGGAGTTAGAGTATTTTATTGTGAATTTAAGAGTTCT
1 TTGGGAGTTAGAGTATTTTATTGTGAAATTAAGAGTTCT
2125372 TGGAAGATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 32 0.89
40 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (40 bp):
TTGGGAGTTAGAGTATTTTATTGTGAAATTAAGAGTTCTC
Found at i:2125383 original size:38 final size:39
Alignment explanation
Indices: 2125288--2125383 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
2125278 GGAATTGAAA
* * * *
2125288 AGTCTATTGGGAGTTAGAGTGTTTTATTGTGAAATTAAG
1 AGTCTCTTGGAAGATAGAGTATTTTATTGTGAAATTAAG
* * * *
2125327 ATTCTCTTGGGAGTTAGAGTATTTTATTGTGAATTTAAG
1 AGTCTCTTGGAAGATAGAGTATTTTATTGTGAAATTAAG
2125366 AGT-TCTTGGAAGATAGAG
1 AGTCTCTTGGAAGATAGAG
2125384 AGTGTTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 13 0.26
39 37 0.74
ACGTcount: A:0.28, C:0.04, G:0.27, T:0.41
Consensus pattern (39 bp):
AGTCTCTTGGAAGATAGAGTATTTTATTGTGAAATTAAG
Found at i:2129546 original size:39 final size:37
Alignment explanation
Indices: 2129503--2129606 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 37
2129493 AGGAATGGGG
*
2129503 GAAAGGAGAAGGGACACCGCAAAGGAAAAAGAAAGAGGA
1 GAAAGGAGAAGGGACACCGCAAAGGAAAAA-AAAGA-AA
* *
2129542 GAAAGGAGAAGGGACACTG-AATAGGGAAAAAAAATAAA
1 GAAAGGAGAAGGGACACCGCAA-A-GGAAAAAAAAGAAA
* *
2129580 AAAAGGAGGAGGGAACACCGCAAAGGA
1 GAAAGGAGAAGGG-ACACCGCAAAGGA
2129607 GGAGAACGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
38 17 0.31
39 29 0.53
40 9 0.16
ACGTcount: A:0.54, C:0.10, G:0.34, T:0.03
Consensus pattern (37 bp):
GAAAGGAGAAGGGACACCGCAAAGGAAAAAAAAGAAA
Found at i:2131323 original size:85 final size:85
Alignment explanation
Indices: 2131180--2131387 Score: 292
Period size: 85 Copynumber: 2.4 Consensus size: 85
2131170 ACGACACACG
* * * * * *
2131180 AATGTGTGTCATCTT-TTTTAATGATGTGTGCTTCAATGACACGCAATGTAAGTCATACATCCGT
1 AATGTGTGTCATCTTCATTT-ATGACGAGGGCTTCAATGACACACAATGTAAGTCATACATCCAT
*
2131244 GTCATAAACTTATGACATAAA
65 GTCATAAACTTATGACACAAA
* *
2131265 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGTAAGTCATACATGCATG
1 AATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACACAATGTAAGTCATACATCCATG
* *
2131330 TCATAAATTTATGACACACA
66 TCATAAACTTATGACACAAA
*
2131350 AATGTGTGTCATCTTCATTTATGACGAGGGATTCAATG
1 AATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATG
2131388 GCGCTTAATG
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
85 107 0.97
86 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (85 bp):
AATGTGTGTCATCTTCATTTATGACGAGGGCTTCAATGACACACAATGTAAGTCATACATCCATG
TCATAAACTTATGACACAAA
Found at i:2131412 original size:13 final size:13
Alignment explanation
Indices: 2131394--2131423 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2131384 AATGGCGCTT
2131394 AATGTGCGTCATA
1 AATGTGCGTCATA
*
2131407 AATGTGTGTCATA
1 AATGTGCGTCATA
2131420 AATG
1 AATG
2131424 CACGTCATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (13 bp):
AATGTGCGTCATA
Found at i:2131417 original size:85 final size:85
Alignment explanation
Indices: 2131180--2131422 Score: 272
Period size: 85 Copynumber: 2.9 Consensus size: 85
2131170 ACGACACACG
* * * * * * * *
2131180 AATGTGTGTCATCTT-TTTTAATGATGTGTGCTTCAATGACACGCAATGTAAGTCATACATCCGT
1 AATGTGTGTCATCTTCATTT-ATGACGAGGGATTCAATGACACACAATGTAAGTCATAAATGCGT
* *
2131244 GTCATAAACTTATGACATAAA
65 GTCATAAATTTATGACACAAA
* * * *
2131265 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATGTAAGTCATACATGCATG
1 AATGTGTGTCATCTTCATTTATGACGAGGGATTCAATGACACACAATGTAAGTCATAAATGCGTG
*
2131330 TCATAAATTTATGACACACA
66 TCATAAATTTATGACACAAA
* * ** ** *
2131350 AATGTGTGTCATCTTCATTTATGACGAGGGATTCAATGGCGCTTAATGTGCGTCATAAATGTGTG
1 AATGTGTGTCATCTTCATTTATGACGAGGGATTCAATGACACACAATGTAAGTCATAAATGCGTG
2131415 TCATAAAT
66 TCATAAAT
2131423 GCACGTCATA
Statistics
Matches: 136, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
85 133 0.98
86 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (85 bp):
AATGTGTGTCATCTTCATTTATGACGAGGGATTCAATGACACACAATGTAAGTCATAAATGCGTG
TCATAAATTTATGACACAAA
Found at i:2139806 original size:27 final size:27
Alignment explanation
Indices: 2139749--2139816 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
2139739 GAGCTCAGGA
* * * *
2139749 TATTTTGGTCATTTTAGAGTTTAAAGT
1 TATTTTAGTCACTTTAGAGTTCAAAGG
*
2139776 TATTTTAGTCACTTTAGAGTTCAAGGG
1 TATTTTAGTCACTTTAGAGTTCAAAGG
*
2139803 TATTTCAGTC-CTTT
1 TATTTTAGTCACTTT
2139817 CATTTAATCC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.49
Consensus pattern (27 bp):
TATTTTAGTCACTTTAGAGTTCAAAGG
Found at i:2147686 original size:30 final size:30
Alignment explanation
Indices: 2147645--2147716 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
2147635 GTAAAAATGG
* * *
2147645 TAAAATTTTAATTTGACCTCT-GAATTTAGA
1 TAAAATATTAATTTGACCT-TACAATTTACA
2147675 TAAAATATTAATTTGACCTTACAATTTACA
1 TAAAATATTAATTTGACCTTACAATTTACA
*
2147705 TAAAATAGTAAT
1 TAAAATATTAAT
2147717 CTAACTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (30 bp):
TAAAATATTAATTTGACCTTACAATTTACA
Found at i:2148060 original size:18 final size:19
Alignment explanation
Indices: 2148036--2148080 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2148026 TAGCACTGTT
2148036 AAATGAGA-GAA-AATAGA
1 AAATGAGATGAACAATAGA
*
2148053 AGAATGAGATTAACAATAGA
1 A-AATGAGATGAACAATAGA
2148073 AAATGAGA
1 AAATGAGA
2148081 AGATATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 7 0.29
19 9 0.38
20 7 0.29
ACGTcount: A:0.60, C:0.02, G:0.22, T:0.16
Consensus pattern (19 bp):
AAATGAGATGAACAATAGA
Found at i:2149140 original size:24 final size:24
Alignment explanation
Indices: 2149113--2149229 Score: 164
Period size: 24 Copynumber: 4.9 Consensus size: 24
2149103 ACATAATTTG
* * *
2149113 TGTCAAGTATCATATAAAAATCCA
1 TGTCAAGTATCAGATCAGAATCCA
*
2149137 TGTCAAGTATTAGATCAGAATCCA
1 TGTCAAGTATCAGATCAGAATCCA
*
2149161 AGTCAAGTATCAGATCAGAATCCA
1 TGTCAAGTATCAGATCAGAATCCA
*
2149185 TGTC-AGATATCAGATTAGAATCCA
1 TGTCAAG-TATCAGATCAGAATCCA
2149209 TGTCAAGTATCAGATCAGAAT
1 TGTCAAGTATCAGATCAGAAT
2149230 TCAAGTCGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 78 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (24 bp):
TGTCAAGTATCAGATCAGAATCCA
Found at i:2151747 original size:21 final size:21
Alignment explanation
Indices: 2151723--2151796 Score: 123
Period size: 21 Copynumber: 3.5 Consensus size: 21
2151713 GTCGGGTTGG
2151723 AACCGGTCAAAACAGATTTAA
1 AACCGGTCAAAACAGATTTAA
2151744 AACCGGTCAAAACAGATTTAA
1 AACCGGTCAAAACAGATTTAA
2151765 AACCGGTCAAAACAG-TTTGAA
1 AACCGGTCAAAACAGATTT-AA
*
2151786 AACCGATCAAA
1 AACCGGTCAAA
2151797 CCGATCATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.18
Consensus pattern (21 bp):
AACCGGTCAAAACAGATTTAA
Found at i:2161952 original size:17 final size:16
Alignment explanation
Indices: 2161932--2161964 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2161922 TTATTTTGAT
2161932 GTTATTATTATTATTTG
1 GTTATTATT-TTATTTG
2161949 GTTATTATTTTATTTG
1 GTTATTATTTTATTTG
2161965 TTTGTATTCA
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:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
GTTATTATTTTATTTG
Found at i:2168488 original size:31 final size:30
Alignment explanation
Indices: 2168447--2168609 Score: 94
Period size: 31 Copynumber: 5.5 Consensus size: 30
2168437 CGTCCGAAAC
2168447 ATTAT-TTATTATATAATATACATTATATAT
1 ATTATATTATTATATAATAT-CATTATATAT
* * * *
2168477 ATTATATTATTATAGTATTATTATTATCTAGC
1 ATTATATTATTATA-TAATATCATTATATA-T
* *
2168509 A-TATATTATAATAGT-ATAT-ATTAT-TGT
1 ATTATATTATTATA-TAATATCATTATATAT
*
2168536 ATTTTATTATTAT-T-ATAT-ATTATATTAT
1 ATTATATTATTATATAATATCATTATA-TAT
* *
2168564 TTTATATTATTGTAT--TATCATTATATATT
1 ATTATATTATTATATAATATCATTATATA-T
*
2168593 ATTGTTATATATTATAT
1 ATT-ATAT-TATTATAT
2168610 TAAAATATAT
Statistics
Matches: 105, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
26 10 0.10
27 1 0.01
28 27 0.26
29 15 0.14
30 11 0.10
31 35 0.33
32 6 0.06
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (30 bp):
ATTATATTATTATATAATATCATTATATAT
Found at i:2168489 original size:3 final size:3
Alignment explanation
Indices: 2168476--2168611 Score: 67
Period size: 3 Copynumber: 46.7 Consensus size: 3
2168466 ACATTATATA
* * * *
2168476 TAT TA- TAT TAT TA- TAG TAT TAT TAT TAT CTAG CAT ATAT TA- TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
2168520 TAG TAT ATAT TAT T-G TAT T-T TAT TAT TAT TAT ATAT TA- TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * *
2168564 T-T TA- TAT TAT T-G TAT TAT CAT TAT ATAT TAT TGT TAT ATAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT
2168607 TAT TA
1 TAT TA
2168612 AAATATATTC
Statistics
Matches: 102, Mismatches: 15, Indels: 32
0.68 0.10 0.21
Matches are distributed among these distances:
2 18 0.18
3 68 0.67
4 16 0.16
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:2168611 original size:18 final size:18
Alignment explanation
Indices: 2168447--2168609 Score: 102
Period size: 18 Copynumber: 8.7 Consensus size: 18
2168437 CGTCCGAAAC
*
2168447 ATTATTTATTATATAATAT
1 ATTA-TTATTATATATTAT
*
2168466 A-CATTA-TATATATTAT
1 ATTATTATTATATATTAT
*
2168482 ATTATTA-TA-GTATTATT
1 ATTATTATTATATATTA-T
**
2168499 ATTATCTAGCATATATTAT
1 ATTAT-TATTATATATTAT
* *
2168518 AATAGTATATATTATTGTATTTT
1 -AT--TAT-TATTA-TATATTAT
2168541 ATTATTATTATATATTAT
1 ATTATTATTATATATTAT
*
2168559 ATTATT-TTATATTATTGT
1 ATTATTATTATA-TATTAT
*
2168577 ATTATCATTATATATTATT
1 ATTATTATTATATATTA-T
*
2168596 GTTATATATTATAT
1 ATTAT-TATTATAT
2168610 TAAAATATAT
Statistics
Matches: 113, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
16 15 0.13
17 20 0.18
18 29 0.26
19 18 0.16
20 17 0.15
22 8 0.07
23 6 0.05
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTATTATTATATATTAT
Found at i:2168611 original size:31 final size:31
Alignment explanation
Indices: 2168523--2168669 Score: 96
Period size: 31 Copynumber: 4.9 Consensus size: 31
2168513 ATTATAATAG
*
2168523 TATATATTATTG-TAT-T-TTATTATTATTAT
1 TATATATTATTGTTATATATTA-TATTATCAT
*
2168552 ATATTATATTATT-TTATATTATTGTATTATCAT
1 -TA-TATATTATTGTTATA-TATTATATTATCAT
* *
2168585 TATATATTATTGTTATATATTATATTA-AAA
1 TATATATTATTGTTATATATTATATTATCAT
* * * *
2168615 TATATTCTTATAGTTATA-AATATA-TACCAT
1 TATA-TATTATTGTTATATATTATATTATCAT
* *
2168645 T-TATATTATTATTA-GTATTATATTA
1 TATATATTATTGTTATATATTATATTA
2168670 ATATTTTTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
28 13 0.14
29 6 0.07
30 14 0.15
31 41 0.45
32 7 0.08
33 9 0.10
34 2 0.02
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (31 bp):
TATATATTATTGTTATATATTATATTATCAT
Found at i:2179987 original size:2 final size:2
Alignment explanation
Indices: 2179980--2180009 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2179970 GCATGTGTTA
2179980 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
2180010 TATGTTCGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2189033 original size:90 final size:90
Alignment explanation
Indices: 2188880--2189055 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
2188870 TAACACACCG
** * *
2188880 TTTTATATCCAAGTTACCCTAATCATACTAGGTTTTTTACTATTTCAGATTAATTAAATCTATAT
1 TTTTATATCCAAGTTACCCTAATCATACTAGGGATTTTACTATTTCAAATTAAGTAAATCTATAT
* *
2188945 TTAATTAATTATAATTTAATAATCC
66 TTAATTAATTAAAATTAAATAATCC
* * *
2188970 TTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTTAAATTAAGTAAATCTATAT
1 TTTTATATCCAAGTTACCCTAATCATACTAGGGATTTTACTATTTCAAATTAAGTAAATCTATAT
2189035 TTAATTAATTAAAATTAAATA
66 TTAATTAATTAAAATTAAATA
2189056 TTCGAGATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (90 bp):
TTTTATATCCAAGTTACCCTAATCATACTAGGGATTTTACTATTTCAAATTAAGTAAATCTATAT
TTAATTAATTAAAATTAAATAATCC
Found at i:2195578 original size:90 final size:89
Alignment explanation
Indices: 2195425--2195599 Score: 287
Period size: 90 Copynumber: 2.0 Consensus size: 89
2195415 TAACACACCT
*
2195425 TTTTATATCAAAGTTACCCTAATCATATTAGGGTTTTTTTATTTCAAATTAATTAAATATATATT
1 TTTTATATCAAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATT
* *
2195490 TAATTAATTGGAATTTAATAATCC
66 TAATTAATTGAAATTAAATAATCC
* * *
2195514 TTTTATTTCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATAT
1 TTTTATATCAAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATATAT
2195579 TTAATTAATTGAAATTAAATA
65 TTAATTAATTGAAATTAAATA
2195600 TTCAGGATTT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 31 0.39
90 48 0.61
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (89 bp):
TTTTATATCAAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATT
TAATTAATTGAAATTAAATAATCC
Found at i:2197108 original size:29 final size:27
Alignment explanation
Indices: 2197076--2197138 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
2197066 ATAGGGGGTC
*
2197076 AAAAAAATACAGAGAGTATTCATAAACAT
1 AAAAAAAT--AGAGAGCATTCATAAACAT
*
2197105 AAAAAAATAGAGAGCATTCATCAACAT
1 AAAAAAATAGAGAGCATTCATAAACAT
2197132 AAAAAAA
1 AAAAAAA
2197139 GCCAGAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.75
29 8 0.25
ACGTcount: A:0.62, C:0.11, G:0.10, T:0.17
Consensus pattern (27 bp):
AAAAAAATAGAGAGCATTCATAAACAT
Found at i:2197145 original size:27 final size:27
Alignment explanation
Indices: 2197088--2197145 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
2197078 AAAAATACAG
* * *
2197088 AGAGTATTCATAAACATAAAAAAATAG
1 AGAGCATTCATAAACATAAAAAAAGAC
* *
2197115 AGAGCATTCATCAACATAAAAAAAGCC
1 AGAGCATTCATAAACATAAAAAAAGAC
2197142 AGAG
1 AGAG
2197146 ATAACCATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (27 bp):
AGAGCATTCATAAACATAAAAAAAGAC
Found at i:2199099 original size:17 final size:19
Alignment explanation
Indices: 2199064--2199103 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
2199054 CGTATACATC
*
2199064 AAATTTTTTGTTTTAATTA
1 AAATTATTTGTTTTAATTA
2199083 AAATTATTT-TTTT-ATTA
1 AAATTATTTGTTTTAATTA
2199100 AAAT
1 AAAT
2199104 GACAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
AAATTATTTGTTTTAATTA
Found at i:2204364 original size:42 final size:41
Alignment explanation
Indices: 2204298--2204400 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 41
2204288 ACTTAGTAAG
* ** *
2204298 TCCTTTGGGCCATCAATAATTCTTTTGAGC-ATGATGATTAAA
1 TCCTTCGGGCCATTTATAAGTCTTTTGAGCTA-GATGA-TAAA
* * * *
2204340 TCCTTTGGGTCATTTGTAAGTCTTTTGAGCTAGATGATAAG
1 TCCTTCGGGCCATTTATAAGTCTTTTGAGCTAGATGATAAA
2204381 TCCTTCGGGCCATTTATAAG
1 TCCTTCGGGCCATTTATAAG
2204401 ACCTTCAGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 20 0.39
42 30 0.59
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (41 bp):
TCCTTCGGGCCATTTATAAGTCTTTTGAGCTAGATGATAAA
Found at i:2204652 original size:41 final size:42
Alignment explanation
Indices: 2204562--2204652 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
2204552 AAGTCCTTCG
* * ***
2204562 GGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCTTTTG
1 GGCCATCTGTAAGCCTTTCGAGCAAGATGATTAAATCTTCCA
* *
2204604 GGTCATCTGTAAGCCTTTCGATCAAGATGA-TAAATCTTCCA
1 GGCCATCTGTAAGCCTTTCGAGCAAGATGATTAAATCTTCCA
2204645 GGCCATCT
1 GGCCATCT
2204653 ATAATACCTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 15 0.37
42 26 0.63
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (42 bp):
GGCCATCTGTAAGCCTTTCGAGCAAGATGATTAAATCTTCCA
Found at i:2204749 original size:257 final size:256
Alignment explanation
Indices: 2204293--2205517 Score: 1427
Period size: 257 Copynumber: 4.7 Consensus size: 256
2204283 TTCTTACTTA
* * * * * *
2204293 GTAAGTCCTTTGGGCCATCAATAATTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATTTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATCTGTA
* * * * * * *
2204358 AGTCTTTTGAGCTAGATGATAAGTCCTTCGGGCCATTTATAAGACCTTCAGGCACGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGT-CTTCAGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCA
* *
2204423 CATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTTTCATTTAGTATTTTCAGAAAGTTAAA
130 CATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAGTGAAA
* *
2204488 TTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCCAGTAAACCATTTCCAAAATCG
195 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATCG
*
2204550 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCTTTTGGGTCATCTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATCTGTA
* * * * *
2204615 AGCCTTTCGATCAAGATGATAAATCTTCCAGGCCATCTATAATACCTTCGGGTAGGATGTTCTCA
66 AGTCTTTCGAGCAAGATGATAAGTCTT-CAGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCA
**
2204680 CATGAATTTGAAAAATGAGAAAGCGTTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAGTGAAA
130 CATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAGTGAAA
* * * * *
2204745 TTTTTGAAAAGTAAGAAAGCGATTTTCAAAGTTTCTTACCTAGTAAATTATTTTCAAAATTG
195 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATCG
* * * * * * *** *
2204807 GTAAGTCATTCGGGCCATCAATAAGTCTTTCTAGTATGATGATTAAATACTTCAAGTCATCTGTC
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATCTGTA
* *
2204872 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTC-TTCAGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCA
* * * *
2204937 CATGAATTTGAAAAATGAGAAAGCAATTTCCAAATTTTATCATTTAGTATTTTTCTA-AAAGT-T
130 CATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAGTA-TTTTC-AGAAAGTGA
* * * * *
2205000 AATTTTTTAAAAGTAAGAAAAACGATTTCAAAAGTTTCTTACCCAATAAACTATTTCCAAAATTG
193 AATTTTTGAAAAGTAAG-AAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATCG
* *
2205065 GTAAGTCCTTC-GGCTATCAGTAAGTCTTTTGAGCATA-ATGATTAAATCCTTTGGGTCATCTGT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA-AGATGATTAAATCCTTTGGGTCATCTGT
* * *
2205128 CAGGCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCTAGAAGACTTTCGGGCCATCTATAAGA
65 AAGTCTTTCGAGCAAGATGATAAGT-C-T-------TC------A------GGCCATCTATAAGA
* * * ** * *
2205193 CCTTCAGGCAGAATGTTTTCATGTGATTTTCAAAAAATGAGAAAGTC-ATTTTCAAAGTTTCTCA
109 CCTTCGGGTAGGATGTTTTCACATGAATTT-GAAAAATGAGAAAG-CAATTTTCAAAGTTTCTCA
* * *
2205257 TTTAGTATTTTCAGAAAGTGAAATTTTTAAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTCA
172 TTTAGTATTTTCAGAAAGTGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCA
*
2205322 GTAGACTATTTCCAAAATCG
237 GTAAACTATTTCCAAAATCG
* * * *
2205342 GTAAGTCTTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATGATTAAATCTTTTGGGTCATATGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATCTGTA
* * * * *
2205407 AGTCTTTCGAGCGACATGATAAGTCTTTC-GAGCTATCTGTAAGATCTTCGGGTAGGATGTTTTC
66 AGTCTTTCGAGCAAGATGATAAGTC-TTCAG-GCCATCTATAAGACCTTCGGGTAGGATGTTTTC
*
2205471 ACATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTGTCATTTA
129 ACATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTA
2205518 AAATAATAAA
Statistics
Matches: 815, Mismatches: 119, Indels: 68
0.81 0.12 0.07
Matches are distributed among these distances:
256 4 0.00
257 490 0.60
258 98 0.12
259 1 0.00
265 2 0.00
270 2 0.00
276 1 0.00
277 101 0.12
278 115 0.14
279 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (256 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATCTGTA
AGTCTTTCGAGCAAGATGATAAGTCTTCAGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCAC
ATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAGTGAAAT
TTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCAAAATCG
Found at i:2205180 original size:20 final size:20
Alignment explanation
Indices: 2205155--2205193 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2205145 TGATAAGTCC
2205155 TTCGGGCCATCTAGAAGACT
1 TTCGGGCCATCTAGAAGACT
*
2205175 TTCGGGCCATCTATAAGAC
1 TTCGGGCCATCTAGAAGAC
2205194 CTTCAGGCAG
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:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (20 bp):
TTCGGGCCATCTAGAAGACT
Found at i:2205313 original size:277 final size:278
Alignment explanation
Indices: 2204898--2205436 Score: 703
Period size: 278 Copynumber: 1.9 Consensus size: 278
2204888 TGATAAGTCA
* * * *
2204898 TTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACATGAATTTGAAAAATGAGAAAGCAA
1 TTCGGGCCATCCATAAGACCTTCAGGCAGAATGTTTTCACATGAATTTAAAAAATGAGAAAGCAA
* * *
2204963 TTTCCAAATTTTATCATTTAGTATTTTTCTAAAAGTTAATTTTTTAAAAGTAAGAAAAACGATTT
66 TTTCCAAAGTTTATCATTTAGTATTTTTCTAAAAGTAAATTTTTAAAAAGTAAGAAAAACGATTT
* * *
2205028 CAAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTC-GGCTATCAGTAAGTCT
131 CAAAAGTTTCTTACCCAATAAACTATTTCCAAAATCGGTAAGTCCTTCGGGCCATCAGTAAGCCT
* * * * *
2205092 TTTGAGCATA-ATGATTAAATCCTTTGGGTCATCTGTCAGGCTTTTGAGCAAGATGATAAGTCCT
196 TTCGAGCA-AGATGATTAAATCCTTTGGGTCATATGTAAGGCTTTCGAGCAACATGATAAGTCCT
2205156 TCGGGCCATCTAGAAGACT
260 TCGGGCCATCTAGAAGACT
* ** *
2205175 TTCGGGCCATCTATAAGACCTTCAGGCAGAATGTTTTCATGTGATTTTCAAAAAATGAGAAAGTC
1 TTCGGGCCATCCATAAGACCTTCAGGCAGAATGTTTTCACATGAATTT-AAAAAATGAGAAAG-C
* * **
2205240 -ATTTTCAAAGTTTCTCATTTAGTA-TTTTC-AGAAAGTGAAATTTTTAAAAAGTAAG-AAAGTG
64 AATTTCCAAAGTTTATCATTTAGTATTTTTCTA-AAAGT-AAATTTTTAAAAAGTAAGAAAAACG
* * * * *
2205301 ATTTCCAAAGTTTCTTACTCAGTAGACTATTTCCAAAATCGGTAAGTCTTTCGGGCCATCAGTAA
127 ATTTCAAAAGTTTCTTACCCAATAAACTATTTCCAAAATCGGTAAGTCCTTCGGGCCATCAGTAA
* * *
2205366 GCCTTTCGAGCAAGATGATTAAATCTTTTGGGTCATATGTAAGTCTTTCGAGCGACATGATAAGT
192 GCCTTTCGAGCAAGATGATTAAATCCTTTGGGTCATATGTAAGGCTTTCGAGCAACATGATAAGT
*
2205431 CTTTCG
257 CCTTCG
2205437 AGCTATCTGT
Statistics
Matches: 224, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
276 1 0.00
277 102 0.46
278 120 0.54
279 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (278 bp):
TTCGGGCCATCCATAAGACCTTCAGGCAGAATGTTTTCACATGAATTTAAAAAATGAGAAAGCAA
TTTCCAAAGTTTATCATTTAGTATTTTTCTAAAAGTAAATTTTTAAAAAGTAAGAAAAACGATTT
CAAAAGTTTCTTACCCAATAAACTATTTCCAAAATCGGTAAGTCCTTCGGGCCATCAGTAAGCCT
TTCGAGCAAGATGATTAAATCCTTTGGGTCATATGTAAGGCTTTCGAGCAACATGATAAGTCCTT
CGGGCCATCTAGAAGACT
Found at i:2205909 original size:45 final size:45
Alignment explanation
Indices: 2205848--2205947 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
2205838 TATTGTCTTT
* * *
2205848 CTCGTGAAGAGAAGTCAATCTTTTAGTGTTGT-CTTCCATGACTTC
1 CTCGTGAAGAGAAGTCAATATTTTAATGTTATCCTT-CATGACTTC
* * *
2205893 CTCGTGAAGAGGAGTCAATATTTTAATGTTATCCTTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATATTTTAATGTTATCCTTCATGACTTC
2205938 CTCGTGAAGA
1 CTCGTGAAGA
2205948 ATAACTGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
45 45 0.94
46 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (45 bp):
CTCGTGAAGAGAAGTCAATATTTTAATGTTATCCTTCATGACTTC
Found at i:2206087 original size:45 final size:44
Alignment explanation
Indices: 2205974--2206238 Score: 158
Period size: 45 Copynumber: 5.9 Consensus size: 44
2205964 ATTTTCATTA
* * * * *
2205974 TTGACTTTCTCGTGAAGAGGAGTTAATCTTTTAGTGTTGTCATTC
1 TTGACTTTCTCGTAAAGAGAAG-TAAACTTTTAGTGATGTTATTC
* * * ** ** *
2206019 TTTATTTTATCGGGAAGTCAAGTAAACATATTAGTGATGTTATTC
1 TTGACTTTCTCGTAAAGAGAAGTAAAC-TTTTAGTGATGTTATTC
* * * *
2206064 TTGACTTTCTCGTGAAGAGAAGTACAACCTTTTAGTGGTCTTGTTC
1 TTGACTTTCTCGTAAAGAGAAGTA-AA-CTTTTAGTGATGTTATTC
* * * * *
2206110 TTTACTCTCTCTTAAAGAGGAA-TCAATCTTTTAGTG-TTTTCATTC
1 TTGACTTTCTCGTAAAGA-GAAGT-AAACTTTTAGTGATGTT-ATTC
* * * * *
2206155 TTGACTTTCTCGAAAAGGGAAGTCAATA-TTTTATTGTTGTGATTC
1 TTGACTTTCTCGTAAAGAGAAGT-AA-ACTTTTAGTGATGTTATTC
* *
2206200 TTGACTTTCTCATAAAGAGAAGTCAACCTTTTAGTGATG
1 TTGACTTTCTCGTAAAGAGAAGT-AAACTTTTAGTGATG
2206239 ACATTTTCAA
Statistics
Matches: 167, Mismatches: 43, Indels: 20
0.73 0.19 0.09
Matches are distributed among these distances:
44 10 0.06
45 119 0.71
46 33 0.20
47 5 0.03
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (44 bp):
TTGACTTTCTCGTAAAGAGAAGTAAACTTTTAGTGATGTTATTC
Found at i:2206154 original size:136 final size:135
Alignment explanation
Indices: 2205988--2206235 Score: 325
Period size: 136 Copynumber: 1.8 Consensus size: 135
2205978 CTTTCTCGTG
* * * * ** *
2205988 AAGAGGAGTTAATCTTTTAGTGTTGTCATTCTTTATTTTATCGGGAAGTCAAGTAAACATATTAG
1 AAGAGGAATCAATCTTTTAGTGTTGTCATTCTTGACTTTATCGAAAAGGCAAGTAAACATATTAG
* * *
2206053 TGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTACAACCTTTTAGTGGTCTTGTTCTTTACTCT
66 TGATGTGATTCTTGACTTTCTCATAAAGAGAAGT-CAACCTTTTAGTGGTCTTGTTCTTTACTCT
2206118 CTCTTA
130 CTCTTA
* * * * * * *
2206124 AAGAGGAATCAATCTTTTAGTGTTTTCATTCTTGACTTTCTCGAAAAGGGAAGTCAATATTTTAT
1 AAGAGGAATCAATCTTTTAGTGTTGTCATTCTTGACTTTATCGAAAAGGCAAGTAAACATATTAG
*
2206189 TGTTGTGATTCTTGACTTTCTCATAAAGAGAAGTCAACCTTTTAGTG
66 TGATGTGATTCTTGACTTTCTCATAAAGAGAAGTCAACCTTTTAGTG
2206236 ATGACATTTT
Statistics
Matches: 94, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
135 13 0.14
136 81 0.86
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (135 bp):
AAGAGGAATCAATCTTTTAGTGTTGTCATTCTTGACTTTATCGAAAAGGCAAGTAAACATATTAG
TGATGTGATTCTTGACTTTCTCATAAAGAGAAGTCAACCTTTTAGTGGTCTTGTTCTTTACTCTC
TCTTA
Found at i:2207174 original size:134 final size:134
Alignment explanation
Indices: 2206946--2207534 Score: 596
Period size: 134 Copynumber: 4.4 Consensus size: 134
2206936 TAAGAGAAGG
* * *
2206946 AAATTACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTCCTCGAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTTCTCAAGTCTGA
* * * * *
2207011 TCTCCCCTAAAAACTAGTAGAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTAAAGAGCAGCG
66 TCTCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAGTAGCG
2207076 AATC
131 AATC
* * * * * * * * *
2207080 AAATTATGTTCAATTCAATCTTTCCTCAAGAGCAGTGAAGTTGATCAAATTTTTCTCAAGTCTGA
1 AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTTCTCAAGTCTGA
* * * * * * *
2207145 TCTCCCCTAAAGAGTAATGGAGTAGATTCTTCTTATTTCAAATTTGATCTTCCTAAAGTGTAACG
66 TCTCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAGTAGCG
2207210 -ATGC
131 AAT-C
* * * * *
2207214 AAATCACGTTTGATTCAATCTTCCCTAAAGAGTAGCAAAGTGGATCAAAGTTTTCTCAAGTTTGA
1 AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTTCTCAAGTCTGA
* * * * *
2207279 TCTCCTCTAAAGAGTAGTGGAGCAGATTCTTTTTATTTCAGATTTAGTCTTCCTAAAGAGTAGCA
66 TCTCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAGTAGCG
2207344 AAGT-
131 AA-TC
* * * * *
2207348 AAATCAAGTTCGATTCAGTCTTCCCTGAAGAGTAGTGAAGTGCATCAAAAAATTTT-T-GAGTCT
1 AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATC--AAAATTTTCTCAAGTCT
* * * * * * *
2207411 AATAT-CCCTAAAGAGTAGCGTAGCAAATTCTTCTTCTTTCAGATTTGGTCTTCCTGAAG-TTAA
64 GATCTCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAGT-A
* *
2207474 GAGAAGC
128 GCGAATC
* * * * * * *
2207481 AAATCAAGTTTGATTCAATCTTCTCTCAAGAGTATCGAAGTGAATCAGAATTTT
1 AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTT
2207535 TTCGAGATCT
Statistics
Matches: 372, Mismatches: 76, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
131 7 0.02
132 1 0.00
133 91 0.24
134 263 0.71
135 2 0.01
136 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (134 bp):
AAATCACGTTCGATTCAATCTTCCCTGAAGAGTAGCGAAGTGGATCAAAATTTTCTCAAGTCTGA
TCTCCCCTAAAGAGTAGTGGAGCAAATTCTTCTTATTTCAGATTTGGTCTTCCTAAAGAGTAGCG
AATC
Found at i:2208546 original size:17 final size:17
Alignment explanation
Indices: 2208520--2208556 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2208510 TGAAAAGATG
*
2208520 TAAATCTTTTAAAACCA
1 TAAATATTTTAAAACCA
2208537 TAAATATTTTAAAACCA
1 TAAATATTTTAAAACCA
2208554 TAA
1 TAA
2208557 CGGGACTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATATTTTAAAACCA
Found at i:2210943 original size:21 final size:20
Alignment explanation
Indices: 2210914--2210953 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2210904 TATACTTTTT
*
2210914 GGTCACAGTCAATGGTCAAC
1 GGTCACAGTCAACGGTCAAC
2210934 GGTCAACAGTCAACGGTCAA
1 GGTC-ACAGTCAACGGTCAA
2210954 TGAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (20 bp):
GGTCACAGTCAACGGTCAAC
Found at i:2211013 original size:19 final size:19
Alignment explanation
Indices: 2210991--2211044 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2210981 CACGTGGCTC
*
2210991 GGCTCGACTCAAACT-GCTT
1 GGCTCGACTCAAA-TGGCAT
2211010 GGCTCGACTCAAATGGCAT
1 GGCTCGACTCAAATGGCAT
*
2211029 GGCTCGGCTCAAATGG
1 GGCTCGACTCAAATGG
2211045 ATCCCATGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (19 bp):
GGCTCGACTCAAATGGCAT
Found at i:2211037 original size:24 final size:20
Alignment explanation
Indices: 2210985--2211041 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
2210975 TCGGTCCACG
2210985 TGGCTCGGCTCGACTCAAAC
1 TGGCTCGGCTCGACTCAAAC
*
2211005 T-GCTTGGCTCGACTCAAA-
1 TGGCTCGGCTCGACTCAAAC
*
2211023 TGGCAT-GGCTCGGCTCAAA
1 TGGC-TCGGCTCGACTCAAA
2211042 TGGATCCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 30 0.91
20 2 0.06
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (20 bp):
TGGCTCGGCTCGACTCAAAC
Found at i:2211880 original size:41 final size:42
Alignment explanation
Indices: 2211797--2211880 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
2211787 CCATCAGTAT
* * * *
2211797 GTCTTTCAAGCATGATGTTTAAATTCTTCGAGTCATCTATAA
1 GTCTTTCAAGCAAGATGTATAAATTCTTCGAGCCATCCATAA
* *
2211839 GTCTTTCAAGCAAGATG-ATAAGTTCTTCGGGCCATCCATAA
1 GTCTTTCAAGCAAGATGTATAAATTCTTCGAGCCATCCATAA
2211880 G
1 G
2211881 ATGATCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 20 0.56
42 16 0.44
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (42 bp):
GTCTTTCAAGCAAGATGTATAAATTCTTCGAGCCATCCATAA
Found at i:2212601 original size:240 final size:238
Alignment explanation
Indices: 2211770--2212659 Score: 1124
Period size: 239 Copynumber: 3.7 Consensus size: 238
2211760 GGTTTCTTGA
* * * * *
2211770 TTAGTAAGTCATTTAGGCCATCAGTATGTCTTTCAAGCATGATGTTTAAATTCTTCGAGTCATCT
1 TTAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCGGGTCATCT
* * *** *
2211835 ATAAGTCTTTCAAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGATGATCGGGCAGGATGTGT
66 ATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
* * * * **
2211900 TCACATTATTTTCAAAAAATAAGAATGTTATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAA
131 TCACATGATTTTC-GAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAA
* * *
2211965 CTGACGTTTCTGAAAAGTAAGAAAACTATTTCCAAAGTTTTATAC
195 CTGACTTTTCTGAAAAGTAAGAAAACGATTTCCAAAGTTCT-TAC
* ** * *
2212010 TTAGTAAGTCCTTCAAGCCATCAGTAAGTCTTTTGAGCATGATCTTTAAATCCTTCGGGTCTTCT
1 TTAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCGGGTCATCT
* ** *
2212075 ATAAGTCTTTCGAGCAAGATGATAAGTCATTTTGGCCATCCATAAGA-CTTCGGGCATGATGTTT
66 ATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
* * * * * * *
2212139 TCACATGATTTTTGAAAATGAGCAAGCCATTTCCAAAGTTTATAATTAAAATCTTTTCTGAAAGA
131 TCACATGATTTTCGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTCT-AAAAA
* * *
2212204 CCGACTTTTCTGAAAAGTAAGAAAATGATTTCCAAATTTTCTTAC
195 CTGACTTTTCTGAAAAGTAAGAAAACGATTTCCAAA-GTTCTTAC
* * * * * *
2212249 TTAGTAAGTCTTTCAGGACATCAATAAGTATATCAAGCATGATGTTTAAATCCTTTGGGTCATCT
1 TTAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCGGGTCATCT
* * *
2212314 ATAAGTGTTTCGAGCAAGATGATAAGTACTTTGGGCCATCCATAAGACCTTCAGGGCAGGATGTT
66 ATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGGCAGGATGTT
* *
2212379 TTCACATGATTTTCGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATATTTTCTCAAAT
130 TTCACATGATTTTCGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTCT-AAAA
2212444 ACTGACTTTT-TCGAAAAGTAAGAAAACGATTTCCAAAGTTCTTAC
194 ACTGACTTTTCT-GAAAAGTAAGAAAACGATTTCCAAAGTTCTTAC
* *
2212489 TTAG-AGAGTCCTTC-GGTCCATCAGTAAATCTTTCGAGCATGATGTTTAAAT-CTATCGGGTCA
1 TTAGTA-AGTCCTTCAGG-CCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCT-TCGGGTCA
* * * * *
2212551 TCTATAAGTGTTTTGAGCAAGATTATAAGTCCTTCGGGCCATCCATAAGACCTTCAGACAGGATG
63 TCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATG
* *
2212616 TTTTCATATGATTTTCGAAAATGAGAAAGCGATTTCCAAAGTTT
128 TTTTCACATGATTTTCGAAAATGAGAAAGCAATTTCCAAAGTTT
2212660 TTTACTTAGT
Statistics
Matches: 561, Mismatches: 81, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
238 37 0.07
239 215 0.38
240 209 0.37
241 100 0.18
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (238 bp):
TTAGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGTTTAAATCCTTCGGGTCATCT
ATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
TCACATGATTTTCGAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTCTAAAAAC
TGACTTTTCTGAAAAGTAAGAAAACGATTTCCAAAGTTCTTAC
Found at i:2214752 original size:2 final size:2
Alignment explanation
Indices: 2214745--2214776 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2214735 GCATGTGTTA
2214745 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
2214777 TATGTTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2223286 original size:2 final size:2
Alignment explanation
Indices: 2223281--2223317 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
2223271 CACGTGTGTG
2223281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
2223318 GTCTTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2224915 original size:3 final size:3
Alignment explanation
Indices: 2224907--2225071 Score: 134
Period size: 3 Copynumber: 51.7 Consensus size: 3
2224897 TAGTATTTTA
* * *
2224907 AAT AAT AAT AAT AAT AAT AAG AACT ACT AAT AATT AAT AAA AAT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AA-T
* * * *
2224955 AAT AAT AAT AAT AGT AAAT AAT AAT AAT AAAT ACT GAT AAA AATT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT
* * *
2225003 GAT AAT AAT AATT AAT ATTT ATT AAT AAT -AT CAAT AAT AAT AAAT AAT
1 AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT
2225051 AAT AAT AAT AATT AAT AAT AA
1 AAT AAT AAT AA-T AAT AAT AA
2225072 GCAATAGAAA
Statistics
Matches: 132, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
2 2 0.02
3 103 0.78
4 27 0.20
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2224951 original size:13 final size:12
Alignment explanation
Indices: 2224905--2225071 Score: 86
Period size: 13 Copynumber: 13.2 Consensus size: 12
2224895 AATAGTATTT
2224905 TAAATAATAATAA
1 TAAA-AATAATAA
* *
2224918 TAATAATAAGAA
1 TAAAAATAATAA
**
2224930 CTACTAATAATTAA
1 -TAAAAATAA-TAA
2224944 TAAAAATAAGTAA
1 TAAAAATAA-TAA
* *
2224957 TAATAATAATAG
1 TAAAAATAATAA
2224969 T--AAATAATAA
1 TAAAAATAATAA
* *
2224979 TAATAAATACTGA
1 TAA-AAATAATAA
*
2224992 TAAAAATTAATGA
1 TAAAAA-TAATAA
*
2225005 TAATAATAATTAA
1 TAAAAATAA-TAA
** *
2225018 TATTTATTAATAA
1 TA-AAAATAATAA
**
2225031 TATCAATAATAA
1 TAAAAATAATAA
2225043 TAAATAATAATAA
1 TAAA-AATAATAA
*
2225056 TAATAATTAATAA
1 TAA-AAATAATAA
2225069 TAA
1 TAA
2225072 GCAATAGAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
10 8 0.07
12 26 0.21
13 79 0.65
14 8 0.07
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:2225066 original size:16 final size:16
Alignment explanation
Indices: 2224907--2225071 Score: 128
Period size: 16 Copynumber: 10.5 Consensus size: 16
2224897 TAGTATTTTA
2224907 AATAATAATAATAA-T
1 AATAATAATAATAATT
* *
2224922 AATAAGAACTACTAA-T
1 AATAATAA-TAATAATT
* *
2224938 AATTAATAAAAATAAGT
1 AA-TAATAATAATAATT
*
2224955 AATAATAATAAT-AGT
1 AATAATAATAATAATT
*
2224970 -A-AATAATAATAATA
1 AATAATAATAATAATT
* * *
2224984 AATACTGATAAAAATT
1 AATAATAATAATAATT
*
2225000 AATGATAATAATAATT
1 AATAATAATAATAATT
* *
2225016 AATATTTATTAATAA-T
1 AATA-ATAATAATAATT
*
2225032 -ATCAATAATAATAAAT
1 AAT-AATAATAATAATT
2225048 AATAATAATAATAATT
1 AATAATAATAATAATT
2225064 AATAATAA
1 AATAATAA
2225072 GCAATAGAAA
Statistics
Matches: 118, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
13 9 0.08
14 2 0.02
15 21 0.18
16 68 0.58
17 18 0.15
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAATAATAATAATT
Found at i:2225077 original size:10 final size:10
Alignment explanation
Indices: 2224907--2225077 Score: 71
Period size: 10 Copynumber: 18.1 Consensus size: 10
2224897 TAGTATTTTA
2224907 AATAAT-AAT
1 AATAATCAAT
2224916 AATAAT-AAT
1 AATAATCAAT
* *
2224925 AAGAA-CTACT
1 AATAATC-AAT
*
2224935 AATAATTAAT
1 AATAATCAAT
*
2224945 AAAAAT-AAGT
1 AATAATCAA-T
2224955 AATAAT-AAT
1 AATAATCAAT
* *
2224964 AATAGTAAAT
1 AATAATCAAT
2224974 AATAAT-AAT
1 AATAATCAAT
* *
2224983 AAATACT-GAT
1 -AATAATCAAT
*
2224993 AA-AA--ATT
1 AATAATCAAT
*
2225000 AATGAT-AAT
1 AATAATCAAT
*
2225009 AATAATTAAT
1 AATAATCAAT
* * *
2225019 ATTTATTAAT
1 AATAATCAAT
2225029 AAT-ATCAAT
1 AATAATCAAT
*
2225038 AATAATAAAT
1 AATAATCAAT
2225048 AATAAT-AAT
1 AATAATCAAT
*
2225057 AATAATTAAT
1 AATAATCAAT
*
2225067 AATAAGCAAT
1 AATAATCAAT
2225077 A
1 A
2225078 GAAATAGCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
7 3 0.02
8 2 0.02
9 50 0.39
10 72 0.57
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (10 bp):
AATAATCAAT
Found at i:2226719 original size:5 final size:5
Alignment explanation
Indices: 2226709--2226747 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
2226699 CATTTTCTCT
*
2226709 TTTTC TTTTC TTTTC TTTTC TTGATC TTTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTT
2226748 TCTCTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.73
6 4 0.13
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:2226729 original size:15 final size:14
Alignment explanation
Indices: 2226708--2226758 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
2226698 TCATTTTCTC
2226708 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
*
2226722 TCTTTTCTTGATCTTT
1 T-TTTTCTT-TTCTTT
2226738 TTTTTCTTTTTCTCTT
1 TTTTTC-TTTTCT-TT
2226754 TTTTT
1 TTTTT
2226759 TCATGTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 15 0.48
16 15 0.48
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:2236847 original size:16 final size:16
Alignment explanation
Indices: 2236826--2236873 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
2236816 TAAATTTAAG
2236826 TAAAATAGAATAAAAT
1 TAAAATAGAATAAAAT
*
2236842 TAAAATAAAATAACAA-
1 TAAAATAGAATAA-AAT
*
2236858 AAAAATAGAATAAAAT
1 TAAAATAGAATAAAAT
2236874 ATTACTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 23 0.85
17 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (16 bp):
TAAAATAGAATAAAAT
Found at i:2236850 original size:5 final size:5
Alignment explanation
Indices: 2236826--2236874 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
2236816 TAAATTTAAG
* * *
2236826 TAAAA TAGAA TAAAA TTAAAA TAAAA TAACAA AAAAA TAGAA TAAAA TA
1 TAAAA TAAAA TAAAA -TAAAA TAAAA TAA-AA TAAAA TAAAA TAAAA TA
2236875 TTACTATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:2237376 original size:6 final size:6
Alignment explanation
Indices: 2237367--2238142 Score: 1036
Period size: 6 Copynumber: 129.5 Consensus size: 6
2237357 ATAAATAATA
* * * * * *
2237367 ATACAT ATACAT GTACGT ATACAT AT-CGT ATACGT ACACAT ATACGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * * ** * * *
2237414 ATACGT ATACGT ATACGT ATACGT ATATGT TTACGT TTACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
** * * *
2237462 ATACAT ATATGT TTACGT TTACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237510 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * *
2237558 ATACAT ATACAT ATACAT ATACAT AGACAT ATACAT ACATAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237606 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237654 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237702 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237750 ATACAT ACATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT --ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237800 ATACAT ATACAT ATACAT ATAC-- ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * *
2237846 ATACAT ATACAT ATACAT ATACAT ATACAT ATACGT ATACGT ATACGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * * * * * *
2237894 ATACGT ATACGT ATACGT ATACGT ATACGT ATACGT ATACGT ATACGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* *
2237942 ATACAT ATACCT ATACGT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
2237990 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * ** * *
2238038 ATACGT ATATAT ATACGT ATACAT ATATGT ATACGT ATACAT ATACGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
* * * ** ** * *
2238086 ATACGT ATACGT ATACGT ATATGT ATATGT ATACAT ATACGT ATACGT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
*
2238134 ATACGT ATA
1 ATACAT ATA
2238143 TGTATAGGTA
Statistics
Matches: 719, Mismatches: 46, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
4 4 0.01
5 4 0.01
6 705 0.98
8 6 0.01
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:2239547 original size:6 final size:6
Alignment explanation
Indices: 2238724--2239530 Score: 1424
Period size: 6 Copynumber: 136.7 Consensus size: 6
2238714 GGAGTGTTAT
* * * *
2238724 ATATAC GTATAC GTATAC ATATAC ATATAC ATATAC GTATAC GTATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
*
2238772 GTATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2238820 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2238868 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2238916 ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2238962 ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239008 ATATAC ATATAC ATATAC ATAT-- ATATAC ATATAC AT-TAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239053 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239099 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239147 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239195 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239243 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239291 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239339 ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239385 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* * * *
2239431 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAT AGATAT ACATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
* *
2239479 ATATAC ATATAC ATATAC GTATAC ATATAC GTATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
2239527 ATAT
1 ATAT
2239531 GTATACGTAT
Statistics
Matches: 775, Mismatches: 13, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
4 24 0.03
5 5 0.01
6 746 0.96
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:2240143 original size:6 final size:6
Alignment explanation
Indices: 2240124--2240780 Score: 1025
Period size: 6 Copynumber: 109.8 Consensus size: 6
2240114 TGGGGAGTGT
* *
2240124 TACATA TACGTA TACATA TACATA TACCTA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2240172 TACATA TATATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2240220 TACATATA TACGTA TAC-TA TACATA TACATA TAC-GA TACGTA TACGTA
1 TAC--ATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2240268 TACGTA TACATA TACATA TACATA TACGTA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2240316 TACATA TACATA TACATA TACATA TACGTA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2240364 TACATA TACATA TACATA TACATA TACGTA TACATA TACGTA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240412 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240460 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240508 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240556 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240604 TACATA TACATA TAC--A TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2240650 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2240698 TACATA TACATA TACGTA TACATA TACGTA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2240746 TACGTA TACGTA TACGTA TACGTA TACGTA TACAT
1 TACATA TACATA TACATA TACATA TACATA TACAT
2240781 TAACCAATCC
Statistics
Matches: 621, Mismatches: 24, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
4 4 0.01
5 9 0.01
6 602 0.97
8 6 0.01
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2241358 original size:6 final size:6
Alignment explanation
Indices: 2241343--2242286 Score: 1497
Period size: 6 Copynumber: 159.3 Consensus size: 6
2241333 TGGGGAGTGT
* *
2241343 TACATA TACGTA TACGTA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241391 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
2241439 TACATA TACATA TACATA TACATA TACATA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2241487 TACGTA TACATA TACATA TAC--A TACGTA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2241533 TACATA TACATA TACATA TACATA TACGTA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2241581 TACGTA TACATA TACATA TACCTA TACATA TACGTA TACATA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2241629 TACATA TACATA TACATA TACATA TACATA TACTTA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241675 TACATA TACATA TACATATA TACATA TACATA TAC--A TACATA TACATA
1 TACATA TACATA TAC--ATA TACATA TACATA TACATA TACATA TACATA
2241723 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241771 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241819 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241865 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2241913 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC--ATA
2241963 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2242011 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2242059 TAC-TA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2242106 TACATA TACATA TACATA TAC--A TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2242152 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2242198 TACATA TA-ATA -ACATA TACATA TACGTA TA-GTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2242243 TACGTA TACGTA TACGTA TACGTA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TA
2242287 TGTATACGTA
Statistics
Matches: 901, Mismatches: 17, Indels: 40
0.94 0.02 0.04
Matches are distributed among these distances:
4 25 0.03
5 16 0.02
6 848 0.94
8 12 0.01
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2242892 original size:6 final size:6
Alignment explanation
Indices: 2242877--2243542 Score: 1163
Period size: 6 Copynumber: 112.3 Consensus size: 6
2242867 TGGGGAGTGT
* * * *
2242877 TACATA TACGTA TACGTA TACATA TACATA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
2242925 TACGTA TACGTA TACGTA TACATA TACATA TAC--A TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2242971 TACATA TACATACA TACATA TACATA TAC--A TACATA TACATA TACATA
1 TACATA TACAT--A TACATA TACATA TACATA TACATA TACATA TACATA
2243019 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243067 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243115 TACATA TACATA TACATA TACATA TACATA TAC--A TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243161 TACATA TAC--A TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243207 TACATA TACATA TACATA TACATA TAC--A TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243253 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243301 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243349 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243397 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243445 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2243493 TACATA TACATA TACGTA TACATA TACGTA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2243541 TA
1 TA
2243543 TGTATACGTA
Statistics
Matches: 640, Mismatches: 8, Indels: 24
0.95 0.01 0.04
Matches are distributed among these distances:
4 20 0.03
6 614 0.96
8 6 0.01
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2244154 original size:6 final size:6
Alignment explanation
Indices: 2244139--2244612 Score: 655
Period size: 6 Copynumber: 80.8 Consensus size: 6
2244129 TGGGGAGTGT
* *
2244139 TACATA TACGTA TACGTA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2244187 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2244235 TACATA TAC--A TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * * *
2244281 TACCTA TACGTA TACGTA TACGTA TACGTA TACATA TACATA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2244329 TACATA TACGTA TACATA TACGTA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2244377 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2244425 -ACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC---
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2244469 TACATA TACATA TAC--A TACATA TAC--A TACATA TACGTA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * * *
2244513 TACATA TAC-TA TACGTA TACGTA TACGTA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * * * *
2244560 TACGTA TACGTA TACGTA TACGTA TACATA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2244608 TACAT
1 TACAT
2244613 TAACCAATCC
Statistics
Matches: 441, Mismatches: 16, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
3 3 0.01
4 12 0.03
5 10 0.02
6 416 0.94
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2245191 original size:6 final size:6
Alignment explanation
Indices: 2245176--2245964 Score: 1331
Period size: 6 Copynumber: 132.3 Consensus size: 6
2245166 TGGGGAGTGT
* *
2245176 TACATA TACGTA TACGTA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245224 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
2245272 TACATA TACATA TACGTA TACATA TACATA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2245320 TACGTA TACGTA TACATA TACATA TACATA TACGTA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2245368 TACGTA TACGTA TACCTA TACATA TACATA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2245416 TACGTA TACGTA TACATA TACATA TACATA TATACA TACGTA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245464 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245512 TAC--A TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245558 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245606 TACATA TACATA TACATA TACATA TACATA TACATA TAC--A TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245652 TACATA TAC--A TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245698 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245746 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245794 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC-TA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245841 TACATA TACATA TACATATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TAC--ATA TACATA TACATA TACATA TACATA TACATA
2245891 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2245939 TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TA
2245965 TGTATATGTA
Statistics
Matches: 757, Mismatches: 17, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
4 12 0.02
5 5 0.01
6 734 0.97
8 6 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2246559 original size:6 final size:6
Alignment explanation
Indices: 2246544--2246858 Score: 499
Period size: 6 Copynumber: 52.8 Consensus size: 6
2246534 TGGGGAGTGT
* * * * *
2246544 TACATA TACGTA TACGTA TACATA TACCTA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2246592 TACGTA TACATA TACATA TACATA TACATA TACATA TACTTA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2246640 TACATA TACATA TACATA TACATA TAC--A TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2246686 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2246734 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2246782 TACATA TACATA TACATA TACATA TACATA TACGTA TACATA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2246830 TACGTA TACGTA TACGTA TACGTA TACAT
1 TACATA TACATA TACATA TACATA TACAT
2246859 TAACCAATCC
Statistics
Matches: 295, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
4 4 0.01
6 291 0.99
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:2247630 original size:873 final size:867
Alignment explanation
Indices: 2245674--2247731 Score: 3601
Period size: 873 Copynumber: 2.4 Consensus size: 867
2245664 CATATACATA
* *
2245674 TACATATACATATACATATACATATACATATACATATACATATACATATACATATACATATACAT
1 TACATATACGTATACGTATACATATACATATACATATACATATACATATACATATACATATACAT
2245739 ATACATATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
66 ATACATATACATATACATATACATATACATATACATATACATATACATATACATATAC-TATACA
2245804 TATACATATACATATACATATACATATACATATACTATACATATACATATAC-ATA-TATACATA
130 TATACATATACATATACATATACATATACATATACTATACATATACATATACTATACTATACATA
2245867 TACATATACATATACATATACATATACATATACATATACATATACATATACATATACATATACAT
195 TACATATACA-ATACATATACATATACATATACATATACATATACATATACATATACATATACAT
* * *
2245932 ATACATATACATATACATATACATATACATATATGTATATGTATAGGTATACATTAACCAATCCT
259 ATACATATACATATACATATACATATACATATACGTATACGTATACGTATACATTAACCAATCCT
2245997 CTCTCCCCGTCGAGGAAGATAACCTCACAAACCACATCTCCTACCACCATAAATTACTGGCCACG
324 CTCTCCCCGTCGAGGAAGATAACCTCACAAACCACATCTCCTACCACCATAAATTACTGGCCACG
2246062 AGTGAGCGAACGAAACCAATACTCATTCTTTAGAAAAACCTAAAACGACCTCACATTTGACTATT
389 AGTGAGCGAACGAAACCAATACTCATTCTTTAGAAAAACCTAAAACGACCTCACATTTGACTATT
2246127 TTATACCAAAAACTCGAAGAAAAGAGGTATTTACCTCTAACGAGGTGGCATTTTCTACGCCGATG
454 TTATACCAAAAACTCGAAGAAAAGAGGTATTTACCTCTAACGAGGTGGCATTTTCTACGCCGAT-
2246192 AGAGCACAACGATGGTTGCCAATGAAAACGTAAGTCATTTTCTCCTCGAAATGGATCATTTCCTT
518 --AGCACAACGATGGTTGCCAATGAAAACGTAAGTCATTTTCTCCTCGAAATGGATCATTTCCTT
2246257 CTGTTTATACTTTGTTATTTTTTTATTTTTATTTGTTGTGTTTTACTCTAAAAACCTCGTCGAAT
581 CTGTTTATACTTTGTTATTTTTTTATTTTTATTTGTTGTGTTTTACTCTAAAAACCTCGTCGAAT
2246322 TTATTGCTTCTTCTATTGATTTATGGTGTTTTTCAGGTGAAATCATGAGATCATTCTCGTAGGGG
646 TTATTGCTTCTTCTATTGATTTATGGTGTTTTTCAGGTGAAATCATGAGATCATTCTCGTAGGGG
2246387 TTGGTTTCCCTATATTTGAGTTGGTGAAATCCCAGATTTTTTGAGATTTTTACGATTCTTTATTG
711 TTGGTTTCCCTATATTTGAGTTGGTGAAATCCCAGATTTTTTGAGATTTTTACGATTCTTTATTG
2246452 AGTTTTTAGATTGATTTGGTTGATTTCCTGATTTGGGTTGTTTTTCCTACTGCATGGCCAGATTT
776 AGTTTTTAGATTGATTTGGTTGATTTCCTGATTTGGGTTGTTTTTCCTACTGCATGGCCAGATTT
2246517 TGATGACGAGGATGACTTGGGGAGTGT
841 TGATGACGAGGATGACTTGGGGAGTGT
* * * *
2246544 TACATATACGTATACGTATACATATACCTATACATATACGTATACGTATACGTATACATATACAT
1 TACATATACGTATACGTATACATATACATATACATATACATATACATATACATATACATATACAT
*
2246609 ATACATATACATATACATATACTTATACATATACATATACATATACATATACATATAC-ATACAT
66 ATACATATACATATACATATACATATACATATACATATACATATACATATACATATACTATACAT
2246673 ATACATATACATATACATATACATATACATATACATATACATATACATATACATATACATATACA
131 ATACATATACATATACATATACATATACATATAC-TATACATATACATATAC-TATAC-TATACA
2246738 TATACATATACATATACATATACATATACATATACATATACATATACATATACATATACATATAC
193 TATACATATACA-ATACATATACATATACATATACATATACATATACATATACATATACATATAC
* * *
2246803 ATATACATATACGTATACATATACGTATACGTATACGTATACGTATACGTATACATTAACCAATC
257 ATATACATATACATATACATATACATATACATATACGTATACGTATACGTATACATTAACCAATC
*
2246868 CTCTCTCCCCGTCGAGGAAGATAACCTCACAAACCACATCTCCTACCACCATAAATTGCTGGCCA
322 CTCTCTCCCCGTCGAGGAAGATAACCTCACAAACCACATCTCCTACCACCATAAATTACTGGCCA
2246933 CGAGTGAGCGAACGAAACCAATACTCATTCTTTAGAACCCCAAAACCTAAAACGACCTCACATTT
387 CGAGTGAGCGAACGAAACCAATACTCATTCTTTAG-A----AAAACCTAAAACGACCTCACATTT
2246998 GACTATTTTATACCAAAAACTCGAAGAAAAGAGGTATTTACCTCTAACGAGGTGGCATTTTCTAC
447 GACTATTTTATACCAAAAACTCGAAGAAAAGAGGTATTTACCTCTAACGAGGTGGCATTTTCTAC
2247063 GCCGAT-GCACAACGATGGTTGCCAATG-AAACGTAAGTCATTTTCTCCTCGAAATGGATCATTT
512 GCCGATAGCACAACGATGGTTGCCAATGAAAACGTAAGTCATTTTCTCCTCGAAATGGATCATTT
2247126 CCTTCTGTTTATACTTTGTTATTTTTTTATTTTTATTTGTTGTGTTTTACTCTAAAAACCTCGTC
577 CCTTCTGTTTATACTTTGTTATTTTTTTATTTTTATTTGTTGTGTTTTACTCTAAAAACCTCGTC
*
2247191 GAATTTATTGCTTCTTCTCTTGATTTATGGTGTTTTTCAGGTGAAATCATGAGATCATTCTCGTA
642 GAATTTATTGCTTCTTCTATTGATTTATGGTGTTTTTCAGGTGAAATCATGAGATCATTCTCGTA
*
2247256 GGGGTTGGTTTCCCTATATTTGAGTTGGTGAAATCCCAGATTTTTTGAGATTTTTATGATTCTTT
707 GGGGTTGGTTTCCCTATATTTGAGTTGGTGAAATCCCAGATTTTTTGAGATTTTTACGATTCTTT
2247321 ATTGAGTTTTTAGATTGATTTGGTTGATTTCCTGATTTGGGTTGTTTTTCCTACTGCATGGCCAG
772 ATTGAGTTTTTAGATTGATTTGGTTGATTTCCTGATTTGGGTTGTTTTTCCTACTGCATGGCCAG
2247386 ATTTTGATGACGAGGATGACTTGGGGAGTGT
837 ATTTTGATGACGAGGATGACTTGGGGAGTGT
2247417 TACATATACGTATACGTATACATATACATATACATATACATATACATATACATATACATATACAT
1 TACATATACGTATACGTATACATATACATATACATATACATATACATATACATATACATATACAT
* * * *
2247482 ATACATATACATATACGTATACATATACATATACATATACGTATACGTATACGTATACGTATACA
66 ATACATATACATATACATATACATATACATATACATATACATATACATATACATATAC-TATACA
* * *
2247547 TATACATATACATATACGTATACGTATACGTATACGTATACATATACATATACGTATACGTATAC
130 TATACATATACATATACATATACATATACATATAC-TATACATATACATATAC-TATAC-TATAC
* * * *
2247612 GTATACGTATAC-ATACATATACATATAC--ATACATATACGTATACATATACGTATACATACAT
192 ATATACATATACAATACATATACATATACATATACATATACATATACATATACATATACAT--AT
* * * *
2247674 ATATATACATATACATATACATATACATATACATATACATATACATATACATATACAT
255 ACATATACATATACATATACATATACATATACATATACGTATACGTATACGTATACAT
2247732 ACATACATAT
Statistics
Matches: 1132, Mismatches: 42, Indels: 25
0.94 0.04 0.02
Matches are distributed among these distances:
868 40 0.04
869 17 0.02
870 116 0.10
871 31 0.03
873 737 0.65
874 22 0.02
875 74 0.07
878 95 0.08
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (867 bp):
TACATATACGTATACGTATACATATACATATACATATACATATACATATACATATACATATACAT
ATACATATACATATACATATACATATACATATACATATACATATACATATACATATACTATACAT
ATACATATACATATACATATACATATACATATACTATACATATACATATACTATACTATACATAT
ACATATACAATACATATACATATACATATACATATACATATACATATACATATACATATACATAT
ACATATACATATACATATACATATACATATACGTATACGTATACGTATACATTAACCAATCCTCT
CTCCCCGTCGAGGAAGATAACCTCACAAACCACATCTCCTACCACCATAAATTACTGGCCACGAG
TGAGCGAACGAAACCAATACTCATTCTTTAGAAAAACCTAAAACGACCTCACATTTGACTATTTT
ATACCAAAAACTCGAAGAAAAGAGGTATTTACCTCTAACGAGGTGGCATTTTCTACGCCGATAGC
ACAACGATGGTTGCCAATGAAAACGTAAGTCATTTTCTCCTCGAAATGGATCATTTCCTTCTGTT
TATACTTTGTTATTTTTTTATTTTTATTTGTTGTGTTTTACTCTAAAAACCTCGTCGAATTTATT
GCTTCTTCTATTGATTTATGGTGTTTTTCAGGTGAAATCATGAGATCATTCTCGTAGGGGTTGGT
TTCCCTATATTTGAGTTGGTGAAATCCCAGATTTTTTGAGATTTTTACGATTCTTTATTGAGTTT
TTAGATTGATTTGGTTGATTTCCTGATTTGGGTTGTTTTTCCTACTGCATGGCCAGATTTTGATG
ACGAGGATGACTTGGGGAGTGT
Found at i:2248156 original size:6 final size:6
Alignment explanation
Indices: 2247417--2248155 Score: 1194
Period size: 6 Copynumber: 124.3 Consensus size: 6
2247407 TGGGGAGTGT
* *
2247417 TACATA TACGTA TACGTA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2247465 TACATA TACATA TACATA TACATA TACATA TACGTA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * *
2247513 TACATA TACGTA TACGTA TACGTA TACGTA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * * *
2247561 TACGTA TACGTA TACGTA TACGTA TACATA TACATA TACGTA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
2247609 TACGTA TACGTA TAC--A TACATA TACATA TAC--A TACATA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* *
2247653 TACATA TACGTA TACATACA TATATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACAT--A TACATA TACATA TACATA TACATA TACATA
2247703 TACATA TACATA TACATA TACATA TACATACA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACAT--A TACATA TACATA TACATA
2247753 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2247801 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2247849 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2247895 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2247943 TACATA TAC--A TACATA TACATA -ACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2247988 TACATA TACATA TACATA TACATA TAC--A TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2248034 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2248082 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2248130 TACATA TACATA TACATA TATATA TA
1 TACATA TACATA TACATA TACATA TA
2248156 TGTATAGGTA
Statistics
Matches: 702, Mismatches: 16, Indels: 30
0.94 0.02 0.04
Matches are distributed among these distances:
4 20 0.03
5 5 0.01
6 666 0.95
8 11 0.02
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2248746 original size:6 final size:6
Alignment explanation
Indices: 2248731--2249309 Score: 866
Period size: 6 Copynumber: 100.3 Consensus size: 6
2248721 TGGGGAGTGT
* *
2248731 TACATA TACGTA TACGTA TACATA TACATA TACATA TAC--A TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * * * *
2248777 TACATA TACATA TACGTA TACGTA TACGTA TACGTA TACATA TACGTA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
* * *
2248825 TACGTA TACGTA TACGTA TAC--A TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2248871 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2248919 TACATA TACATA TACATA TACATA TAC-TA TACATA TAC--A TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2248964 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2249012 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2249058 TACATA TACATA TACATA TAC--A TACATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2249102 TACATA TACATA TACATA TACATA TAC--A TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
*
2249148 TACATA TAC--A TACATA TACATA TAC--A TACATA TACATA TATATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2249192 TACATA TACATA TACATACA TACATA TACATA TAC--A TACATA TACATA
1 TACATA TACATA TACAT--A TACATA TACATA TACATA TACATA TACATA
2249240 TACATA TACATA TACATA TACATA T-CATA TACATA TACATA TAC--A
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
2249285 TAC-TA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TA
2249310 TGTATATGTA
Statistics
Matches: 540, Mismatches: 7, Indels: 52
0.90 0.01 0.09
Matches are distributed among these distances:
4 44 0.08
5 14 0.03
6 476 0.88
8 6 0.01
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:2250202 original size:3 final size:3
Alignment explanation
Indices: 2250194--2250343 Score: 95
Period size: 3 Copynumber: 46.7 Consensus size: 3
2250184 CAGTATTTTA
* * *
2250194 AAT AAT AAT AAT AAT AAG AACT AAA AAT AATT AAT AAC AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AA-T AAT
* * * * * *
2250242 AAT AAT AAT AAT ATAT ACT GAT AAC AATT GAT AAT AATT AAT ATTT ATT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AA-T AAT AAT AA-T AAT A-AT AAT
* *
2250291 AAT AA- GAT CAAT AAT CAAT AAT AAT AAT AACT AAT AAT AACC AAT AAT
1 AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT
2250339 AAT AA
1 AAT AA
2250344 GTTTTAGACA
Statistics
Matches: 115, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
2 1 0.01
3 87 0.76
4 27 0.23
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2250235 original size:13 final size:12
Alignment explanation
Indices: 2250194--2250343 Score: 63
Period size: 13 Copynumber: 11.9 Consensus size: 12
2250184 CAGTATTTTA
*
2250194 AATAATAATAAT
1 AATAATAATAAC
* *
2250206 AATAAGAACTAAA
1 AATAATAA-TAAC
2250219 AATAATTAATAAC
1 AATAA-TAATAAC
*
2250232 AATAAGTAATAAT
1 AATAA-TAATAAC
2250245 AATAATAAT-A-
1 AATAATAATAAC
* * *
2250255 TATACTGATAAC
1 AATAATAATAAC
* *
2250267 AATTGATAATAATT
1 AA-TAATAATAA-C
* * *
2250281 AATATTTATTAAT
1 AATA-ATAATAAC
*
2250294 AA-GATCAATAATC
1 AATAAT-AATAA-C
*
2250307 AATAATAATAAT
1 AATAATAATAAC
2250319 AACTAATAATAACC
1 AA-TAATAATAA-C
2250333 AATAATAATAA
1 AATAATAATAA
2250344 GTTTTAGACA
Statistics
Matches: 102, Mismatches: 24, Indels: 23
0.68 0.16 0.15
Matches are distributed among these distances:
10 6 0.06
11 3 0.03
12 18 0.18
13 62 0.61
14 13 0.13
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.31
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:2250313 original size:10 final size:9
Alignment explanation
Indices: 2250300--2250343 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
2250290 TAATAAGATC
2250300 AATAATCAAT
1 AATAAT-AAT
2250310 AATAATAAT
1 AATAATAAT
2250319 AACTAATAAT
1 AA-TAATAAT
*
2250329 AACCAATAAT
1 AA-TAATAAT
2250339 AATAA
1 AATAA
2250344 GTTTTAGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (9 bp):
AATAATAAT
Found at i:2252855 original size:18 final size:17
Alignment explanation
Indices: 2252795--2252853 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
2252785 TATGTATATC
2252795 TTTCAAAAA--ATATGT
1 TTTCAAAAACTATATGT
*
2252810 TTTCAAAAACTATATATT
1 TTTCAAAAACTATAT-GT
*
2252828 TTTTAAAAACTATATGT
1 TTTCAAAAACTATATGT
*
2252845 CTTCAAAAA
1 TTTCAAAAA
2252854 ACCATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.25
17 12 0.33
18 15 0.42
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (17 bp):
TTTCAAAAACTATATGT
Found at i:2252881 original size:38 final size:37
Alignment explanation
Indices: 2252836--2252999 Score: 151
Period size: 37 Copynumber: 4.5 Consensus size: 37
2252826 TTTTTTAAAA
*
2252836 ACTATATGTCTTCAAAAAACCATTTTAAAAAACTATAT
1 ACTATATGTTTTCAAAAAA-CATTTTAAAAAACTATAT
2252874 ACTATATGTTTTC-AAAAACATTTTTAAAAAACTATAT
1 ACTATATGTTTTCAAAAAACA-TTTTAAAAAACTATAT
* * * * * *
2252911 ATTATACG-TTTAAAAAATACGTTTTCAAAAATTATATT
1 ACTATATGTTTTCAAAAA-ACATTTTAAAAAACTATA-T
* * *
2252949 A-TATATGTGTT-AAAAAATA-TTT-GAAAACTATAT
1 ACTATATGTTTTCAAAAAACATTTTAAAAAACTATAT
*
2252982 ACTATACGTTTTCAAAAA
1 ACTATATGTTTTCAAAAA
2253000 TGTGTTTTCA
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
33 2 0.02
34 16 0.15
35 8 0.08
36 6 0.06
37 54 0.52
38 18 0.17
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (37 bp):
ACTATATGTTTTCAAAAAACATTTTAAAAAACTATAT
Found at i:2262089 original size:20 final size:20
Alignment explanation
Indices: 2262061--2262098 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2262051 GCAATTTTAA
2262061 TTATGGCATCCTTTCATGCC
1 TTATGGCATCCTTTCATGCC
*
2262081 TTATTGCATCCTTTCATG
1 TTATGGCATCCTTTCATG
2262099 TTGTAGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (20 bp):
TTATGGCATCCTTTCATGCC
Found at i:2262206 original size:24 final size:24
Alignment explanation
Indices: 2262168--2262227 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
2262158 TAAAAAAATC
2262168 AGTTTTT-AAATATATATAATATAA
1 AGTTTTTGAAA-ATATATAATATAA
*
2262192 AGTTTTTGAAAATATATAATATAT
1 AGTTTTTGAAAATATATAATATAA
2262216 AGTTTTTGAAAA
1 AGTTTTTGAAAA
2262228 CATTTTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (24 bp):
AGTTTTTGAAAATATATAATATAA
Found at i:2268447 original size:76 final size:76
Alignment explanation
Indices: 2268295--2268447 Score: 193
Period size: 76 Copynumber: 2.0 Consensus size: 76
2268285 CGCTCGAAAG
* * * * *
2268295 AAGACATTTCATTTGACTCAAGATTATTTTATTTAAAACAAGATTTGTCTCGCTTGAGACGGTTT
1 AAGACATTTCATTTCACTCAAGATCATTTTATTTAAAACAAAATTTGTCCCGCTTGAGACAGTTT
*
2268360 CTACTCGAAAT
66 CTACTCCAAAT
* * *
2268371 AAGACATTTCATTTCACTCAAGATCATTTT-TCTTAAAAGAACAATTTTTCCCGCTTGAGATAGT
1 AAGACATTTCATTTCACTCAAGATCATTTTAT-TTAAAACAA-AATTTGTCCCGCTTGAGACAGT
2268435 TTC-ACTCCAAAT
64 TTCTACTCCAAAT
2268447 A
1 A
2268448 TAATATTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.02
76 45 0.68
77 20 0.30
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (76 bp):
AAGACATTTCATTTCACTCAAGATCATTTTATTTAAAACAAAATTTGTCCCGCTTGAGACAGTTT
CTACTCCAAAT
Found at i:2268467 original size:39 final size:39
Alignment explanation
Indices: 2268414--2268592 Score: 204
Period size: 39 Copynumber: 4.6 Consensus size: 39
2268404 TAAAAGAACA
* * * *
2268414 ATTTT-TCCCGCTTGAGATAGTTTCACTCCAAATATAAT
1 ATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAG
* * *
2268452 ATTTTATCTTGCTTGAGATAGTTTCACTCGAAACAGAAG
1 ATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAG
2268491 ATTTTATCTCGCTTGAGATAGTTTTC-CTCAAAATAGAAG
1 ATTTTATCTCGCTTGAGATAG-TTTCACTCAAAATAGAAG
* *
2268530 ATTTTATCTCGCTTGAGATAGTTTTC-CTTAAAAAAAGAA-
1 ATTTTATCTCGCTTGAGATAG-TTTCAC-TCAAAATAGAAG
* *
2268569 ATTTTATCTCACTTGAGATGGTTT
1 ATTTTATCTCGCTTGAGATAGTTT
2268593 TTATTAAAAC
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 8 0.06
39 104 0.83
40 13 0.10
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (39 bp):
ATTTTATCTCGCTTGAGATAGTTTCACTCAAAATAGAAG
Found at i:2268515 original size:20 final size:20
Alignment explanation
Indices: 2268453--2268554 Score: 52
Period size: 20 Copynumber: 5.2 Consensus size: 20
2268443 AAATATAATA
*
2268453 TTTTATCTTGCTTGAGATAG
1 TTTTATCTCGCTTGAGATAG
* ****
2268473 TTTCA-CTCGAAACAGA-AG
1 TTTTATCTCGCTTGAGATAG
2268491 ATTTTATCTCGCTTGAGATAG
1 -TTTTATCTCGCTTGAGATAG
* ***
2268512 TTTT-CCTCAAAAT-AGA-AG
1 TTTTATCTC-GCTTGAGATAG
2268530 ATTTTATCTCGCTTGAGATAG
1 -TTTTATCTCGCTTGAGATAG
2268551 TTTT
1 TTTT
2268555 CCTTAAAAAA
Statistics
Matches: 55, Mismatches: 19, Indels: 16
0.61 0.21 0.18
Matches are distributed among these distances:
18 4 0.07
19 21 0.38
20 26 0.47
21 4 0.07
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (20 bp):
TTTTATCTCGCTTGAGATAG
Found at i:2268645 original size:75 final size:76
Alignment explanation
Indices: 2268535--2268825 Score: 369
Period size: 76 Copynumber: 3.9 Consensus size: 76
2268525 AGAAGATTTT
* * * * ** *
2268535 ATCTCGCTTGAGATAGTTTT-CCTTAAAAAAAGAAATTTTATCTCACTTGAGATGGTTTTTATTA
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTCACTTGAGATGGTTTTTCTTA
**
2268599 AAACCATTTTC
66 AAACCAACTTC
* * * *
2268610 ATCTCAATTGAGACAG-TTTCCCTTGAAACAAGAAATTGAATCTCAATTGAGATGATTTTTCTAA
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTCACTTGAGATGGTTTTTCTTA
2268674 AAACCAACTTC
66 AAACCAACTTC
* * * *
2268685 GTCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTAATTTGAGATGGGTTTTCTTA
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTCACTTGAGATGGTTTTTCTTA
2268750 AAACCAACTTC
66 AAACCAACTTC
*
2268761 ATCTCACTTGGGACAGTTTTCCCTTGAAAC-A-AAATCT--ATCTCACTTGAGATGGTTTTTCTT
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAAT-TGAATCTCACTTGAGATGGTTTTTCTT
2268822 AAAA
65 AAAA
2268826 GCCTTGTGAC
Statistics
Matches: 188, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
73 25 0.13
74 7 0.04
75 74 0.39
76 82 0.44
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (76 bp):
ATCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTCACTTGAGATGGTTTTTCTTA
AAACCAACTTC
Found at i:2268654 original size:39 final size:40
Alignment explanation
Indices: 2268610--2268737 Score: 110
Period size: 39 Copynumber: 3.3 Consensus size: 40
2268600 AACCATTTTC
2268610 ATCTCAATTGAGACAG-TTTCCCTTGAAACAAGAAATTGA
1 ATCTCAATTGAGACAGATTTCCCTTGAAACAAGAAATTGA
* ** * *
2268649 ATCTCAATTGAGA-TGATTTTTC-T-AAA-AACCAACTTCG-
1 ATCTCAATTGAGACAGATTTCCCTTGAAACAA-GAAATT-GA
* *
2268686 -TCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGA
1 ATCTCAATTGAGACAGATTTCCCTTGAAACAAGAAATTGA
2268725 ATCT-AATTTGAGA
1 ATCTCAA-TTGAGA
2268738 TGGGTTTTCT
Statistics
Matches: 66, Mismatches: 13, Indels: 19
0.67 0.13 0.19
Matches are distributed among these distances:
36 13 0.20
37 12 0.18
38 5 0.08
39 25 0.38
40 11 0.17
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (40 bp):
ATCTCAATTGAGACAGATTTCCCTTGAAACAAGAAATTGA
Found at i:2268762 original size:151 final size:148
Alignment explanation
Indices: 2268536--2268825 Score: 368
Period size: 151 Copynumber: 1.9 Consensus size: 148
2268526 GAAGATTTTA
* * ** * *
2268536 TCTCGCTTGAGATAGTTTTCCTTAAAAAAAGAAATTTTATCTCACTTGAGATGGTTTTTATTAAA
1 TCTCACTTGAGACAGTTTTCCTTAAAAAAAGAAATTGAATCTAACTTGAGATGGGTTTTATTAAA
**
2268601 ACCATTTTCATCTCAATTGAGACAG-TTTCCCTTGAAACAAGAAAT-TGAATCTCAATTGAGATG
66 ACCAACTTCATCTCAATTGAGACAGTTTTCCCTTGAAAC-A-AAATCT--ATCTCAATTGAGATG
2268664 ATTTTTCTAAAAACCAACTTCG
127 ATTTTTCTAAAAACCAACTTCG
* * * *
2268686 TCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGAATCTAATTTGAGATGGGTTTTCTTAA
1 TCTCACTTGAGACAGTTTT-CCTTAAAAAAAGAAATTGAATCTAACTTGAGATGGGTTTTATTAA
* * * *
2268751 AACCAACTTCATCTCACTTGGGACAGTTTTCCCTTGAAACAAAATCTATCTCACTTGAGATGGTT
65 AACCAACTTCATCTCAATTGAGACAGTTTTCCCTTGAAACAAAATCTATCTCAATTGAGATGATT
*
2268816 TTTCTTAAAA
130 TTTCTAAAAA
2268826 GCCTTGTGAC
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
149 25 0.21
150 21 0.17
151 61 0.51
152 13 0.11
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (148 bp):
TCTCACTTGAGACAGTTTTCCTTAAAAAAAGAAATTGAATCTAACTTGAGATGGGTTTTATTAAA
ACCAACTTCATCTCAATTGAGACAGTTTTCCCTTGAAACAAAATCTATCTCAATTGAGATGATTT
TTCTAAAAACCAACTTCG
Found at i:2268817 original size:37 final size:37
Alignment explanation
Indices: 2268610--2268810 Score: 108
Period size: 37 Copynumber: 5.4 Consensus size: 37
2268600 AACCATTTTC
*
2268610 ATCTCAATTGAGACAG-TTTCCCTTGAAACAAGAAATTGA
1 ATCTCACTTGAGACAGTTTTCCCTTGAAAC-A-AAATT-A
* * * ** * * *
2268649 ATCTCAATTGAGA-TGATTTT-TCTAAAAACCAACTTC
1 ATCTCACTTGAGACAG-TTTTCCCTTGAAACAAAATTA
*
2268685 GTCTCACTTGAGACAGTTTTCCCTTGAAACAAGAAATTGA
1 ATCTCACTTGAGACAGTTTTCCCTTGAAAC-A-AAATT-A
* * ** * * * *
2268725 ATCTAATTTGAGATGGGTTTT--CTTAAAACCAACTTC
1 ATCTCACTTGAGA-CAGTTTTCCCTTGAAACAAAATTA
*
2268761 ATCTCACTTGGGACAGTTTTCCCTTGAAACAAAATCT-
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAAAT-TA
2268798 ATCTCACTTGAGA
1 ATCTCACTTGAGA
2268811 TGGTTTTTCT
Statistics
Matches: 117, Mismatches: 34, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
35 5 0.04
36 25 0.21
37 37 0.32
38 2 0.02
39 30 0.26
40 13 0.11
41 5 0.04
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (37 bp):
ATCTCACTTGAGACAGTTTTCCCTTGAAACAAAATTA
Found at i:2269345 original size:136 final size:127
Alignment explanation
Indices: 2269126--2269463 Score: 356
Period size: 136 Copynumber: 2.6 Consensus size: 127
2269116 ACATTTCCAG
* * *
2269126 TGGAGAGTTCATAATGAGAAGAACTCA-TCCAATGAAGGAGAAGAAGTTCATAATGAGAATAACT
1 TGGAGAGTTCATAATGAGAAGAACTCATTACAA--AGGGAGAAGAAGTTCATAATGAGAAGAACT
* * * * * * *
2269190 TATTCGATCTATTGCTCGATTCATAACATTTCAAATCAGCGATGCCTCACTTGAGGGATTAACAC
64 TGTTCAACCTATTACTCGATTCACAACATGTCAAATCAGCGACGCCTCACTTGAGGG---AACA-
2269255 TTCAAA
125 -TC--A
* *
2269261 TGGAGAGTTCATAATGAGAAGAACTCATTTGACAAAGGGAGAAGAAGTTTATAATGAGAAGACCT
1 TGGAGAGTTCATAATGAGAAGAACTCA-TT-ACAAAGGGAGAAGAAGTTCATAATGAGAAGAACT
* * ** * * *
2269326 TGTTCAACCTATTACTCGATTCACGACATGTCGAATCAGTTACGTCTCGCTTGAGGGAATATCA
64 TGTTCAACCTATTACTCGATTCACAACATGTCAAATCAGCGACGCCTCACTTGAGGGAACATCA
* *
2269390 TGGAGAGTTCATAATGAGAAGAACTCA-TCCAATTAGGGAGAAAAAGTTCATAATGAGAAGAACT
1 TGGAGAGTTCATAATGAGAAGAACTCATTACAA--AGGGAGAAGAAGTTCATAATGAGAAGAACT
2269454 TGTTCAACCT
64 TGTTCAACCT
2269464 TGAAACAATA
Statistics
Matches: 175, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
126 3 0.02
127 1 0.01
128 37 0.21
129 28 0.16
131 2 0.01
133 3 0.02
135 27 0.15
136 70 0.40
137 1 0.01
138 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (127 bp):
TGGAGAGTTCATAATGAGAAGAACTCATTACAAAGGGAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTATTACTCGATTCACAACATGTCAAATCAGCGACGCCTCACTTGAGGGAACATCA
Found at i:2269691 original size:118 final size:119
Alignment explanation
Indices: 2269482--2269723 Score: 312
Period size: 118 Copynumber: 2.0 Consensus size: 119
2269472 TATTTCTAGA
2269482 GGAGACTTCATAATGAGAAGAACACATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
1 GGAGACTTCATAATGAGAAGAACACATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
* *
2269547 GTTCAACCTTTGTTCGATTCCATCACAAAATGAGGTAGATCAACATTTTCCAGT
66 GTTCAACCTTGGTTCGATTCCATCACAAAAGGAGGTAGATCAACATTTTCCAGT
* ** * * * *
2269601 GGAGAGTTCATAATGAGAAGAACTTAT-CTA-ATGAGGGAGAATAAGTTTATAATGAGAAGAGCT
1 GGAGACTTCATAATGAGAAGAACACATCCGACA-GAGGGAGAAAAAGTTCATAATGAGAAGAACT
* * * *
2269664 TGTT-AATCCTTGGGTT-GATTCTATCACATAAGGAGGTGGATCAATATTTTCCAGT
65 TGTTCAA-CCTT-GGTTCGATTCCATCACAAAAGGAGGTAGATCAACATTTTCCAGT
2269719 GGAGA
1 GGAGA
2269724 TTTTTGATCG
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
117 3 0.03
118 77 0.72
119 27 0.25
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (119 bp):
GGAGACTTCATAATGAGAAGAACACATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAACTT
GTTCAACCTTGGTTCGATTCCATCACAAAAGGAGGTAGATCAACATTTTCCAGT
Found at i:2272376 original size:13 final size:13
Alignment explanation
Indices: 2272358--2272388 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2272348 TATTGTATGC
2272358 AAATAAAAAAATA
1 AAATAAAAAAATA
*
2272371 AAATAAAAAACTA
1 AAATAAAAAAATA
2272384 AAATA
1 AAATA
2272389 GAAACTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:2278485 original size:21 final size:19
Alignment explanation
Indices: 2278452--2278492 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
2278442 AGCATCAAGG
*
2278452 TCTTTGTGGAGGCCATGAAA
1 TCTTTGTCGAGGCCAT-AAA
2278472 TCTTTCGTCGAGGCCATAAA
1 TCTTT-GTCGAGGCCATAAA
2278492 T
1 T
2278493 TCCTGCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (19 bp):
TCTTTGTCGAGGCCATAAA
Found at i:2281262 original size:128 final size:128
Alignment explanation
Indices: 2280956--2281322 Score: 468
Period size: 128 Copynumber: 2.8 Consensus size: 128
2280946 CATCACAAAT
* * *
2280956 AGAGTTGGATCATCATCAACATTTTT-CTCAATTCTATCACAGAATGAGGTAGATCAGTATCAAC
1 AGAGTTGGATCATCATCAAC-TTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCAAC
* * * **
2281020 ATCTCGTTCGACTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTGCTCAAATCCTTCGCA
65 ATCTCGTTCGATTCCATCACAGAAGGAGATGGATCGACA---TT-TTTCGCTCAAATCCAACGCA
2281085 GAA
126 GAA
* * * * * * *
2281088 GGAGTTGGATCAACATCAACTTTTTGATCGATTCTATCACATAAGGAGGTAGGTCAGCACCGACA
1 AGAGTTGGATCATCATCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCAACA
* * *
2281153 TTTCGTTCGATTCCATCACAAAAGGAGATGGATCGACATTTTTCGCTCAAATCCAACGTAGAA
66 TCTCGTTCGATTCCATCACAGAAGGAGATGGATCGACATTTTTCGCTCAAATCCAACGCAGAA
*
2281216 AGAGATGGATCATCATCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGAT-ATGCATCAAC
1 AGAGTTGGATCATCATCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCA-GCATCAAC
* * *
2281280 ATCTCGTTCTATTCCATCACAGAAGGAGATAGATCGACGTTTT
65 ATCTCGTTCGATTCCATCACAGAAGGAGATGGATCGACATTTT
2281323 CATCCATTAC
Statistics
Matches: 202, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
127 1 0.00
128 111 0.55
129 2 0.01
131 5 0.02
132 83 0.41
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (128 bp):
AGAGTTGGATCATCATCAACTTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAGCATCAACA
TCTCGTTCGATTCCATCACAGAAGGAGATGGATCGACATTTTTCGCTCAAATCCAACGCAGAA
Found at i:2284102 original size:37 final size:38
Alignment explanation
Indices: 2284061--2284139 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
2284051 CCGCCCGGGC
*
2284061 GAAAAACGGTGTCGACA-ATATATAATATATAGTTTTT
1 GAAAAACGGTGTCAACATATATATAATATATAGTTTTT
* * * *
2284098 G-AAAACGTTTTTAATATATATATAATATATAGTTTTT
1 GAAAAACGGTGTCAACATATATATAATATATAGTTTTT
2284135 GAAAA
1 GAAAA
2284140 TATATATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 10 0.29
37 22 0.63
38 3 0.09
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (38 bp):
GAAAAACGGTGTCAACATATATATAATATATAGTTTTT
Found at i:2284126 original size:35 final size:35
Alignment explanation
Indices: 2284077--2284231 Score: 118
Period size: 35 Copynumber: 4.6 Consensus size: 35
2284067 CGGTGTCGAC
*
2284077 AATATATA-AT-ATATAGTTTTTGAAAACGTTTTT
1 AATATATATATAATATAGTTTTTGAAAACATTTTT
2284110 AATATATATATAATATATAGTTTTTG-AAA-A----T
1 AATATATATAT-A-ATATAGTTTTTGAAAACATTTTT
* *
2284141 -ATATATA-AT-ATTTAGTTTTTGAAAACATTTTG
1 AATATATATATAATATAGTTTTTGAAAACATTTTT
*
2284173 AAAATATATA-ATATATAGTTTTTGAAAACATTTTT
1 AATATATATATA-ATATAGTTTTTGAAAACATTTTT
* *
2284208 GAAAACATATATAAAATATAGTTT
1 ---AATATATATATAATATAGTTT
2284232 AAATTGTTTT
Statistics
Matches: 97, Mismatches: 7, Indels: 31
0.72 0.05 0.23
Matches are distributed among these distances:
26 11 0.11
27 3 0.03
28 1 0.01
29 2 0.02
30 7 0.07
31 1 0.01
33 14 0.14
34 3 0.03
35 21 0.22
36 3 0.03
37 12 0.12
38 18 0.19
39 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
AATATATATATAATATAGTTTTTGAAAACATTTTT
Done.