Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 66 of 235
Found at i:22549183 original size:26 final size:26
Alignment explanation
Indices: 22549147--22549304 Score: 316
Period size: 26 Copynumber: 6.1 Consensus size: 26
22549137 TAAGAAAAGT
22549147 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549173 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549199 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549225 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549251 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549277 TAGATAAATAAAAATAAATAGAAATA
1 TAGATAAATAAAAATAAATAGAAATA
22549303 TA
1 TA
22549305 ATAGTAGTAA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 132 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (26 bp):
TAGATAAATAAAAATAAATAGAAATA
Found at i:22563191 original size:24 final size:25
Alignment explanation
Indices: 22563136--22563197 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
22563126 TTATATTATA
22563136 AAAATATTAT-TTAATTAAAACATT
1 AAAATATTATATTAATTAAAACATT
*
22563160 ATAA-ATTATATTAATT-AAA-ATT
1 AAAATATTATATTAATTAAAACATT
22563182 AAAGATATTATATTAA
1 AAA-ATATTATATTAA
22563198 AGGAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 5 0.15
23 9 0.27
24 19 0.58
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATATTATATTAATTAAAACATT
Found at i:22563744 original size:22 final size:22
Alignment explanation
Indices: 22563719--22563779 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
22563709 CTTGAATAGA
*
22563719 TATTTATTATATTTATT-ATTAT
1 TATTTATTATATTAATTGA-TAT
22563741 TATTTAATTA-ATTAATTGATAT
1 TATTT-ATTATATTAATTGATAT
22563763 TATATTATTATATTAAT
1 TAT-TTATTATATTAAT
22563780 GAATAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 21 0.62
23 13 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTATTATATTAATTGATAT
Found at i:22563789 original size:35 final size:37
Alignment explanation
Indices: 22563723--22563791 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
22563713 AATAGATATT
* * *
22563723 TATTATATTTATTATTATTATTTAATTAATTAATTGA
1 TATTATATTTATTATTATTAATGAATAAATTAATTGA
22563760 TATTATA-TTATTA-TATTAATGAATAAATTAAT
1 TATTATATTTATTATTATTAATGAATAAATTAAT
22563792 AAATTGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.55
36 6 0.21
37 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (37 bp):
TATTATATTTATTATTATTAATGAATAAATTAATTGA
Found at i:22564141 original size:11 final size:11
Alignment explanation
Indices: 22564125--22564154 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
22564115 CAAAGTTTTC
22564125 TTGAAATTAAG
1 TTGAAATTAAG
22564136 TTGAAATTAAG
1 TTGAAATTAAG
22564147 TTGAAATT
1 TTGAAATT
22564155 TTGAAAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (11 bp):
TTGAAATTAAG
Found at i:22569672 original size:28 final size:28
Alignment explanation
Indices: 22569635--22569688 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
22569625 ACTGAGCAAT
22569635 TTGCTCAACGTATGATTTGTTTTCTCTG
1 TTGCTCAACGTATGATTTGTTTTCTCTG
* *
22569663 TTGCTGAACGTATGGTTTGTTTTCTC
1 TTGCTCAACGTATGATTTGTTTTCTC
22569689 CATCGTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (28 bp):
TTGCTCAACGTATGATTTGTTTTCTCTG
Found at i:22569812 original size:27 final size:27
Alignment explanation
Indices: 22569774--22569827 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
22569764 CATATATTTA
22569774 TGTTAAAGTGTGGTATGTACCTAGTTT
1 TGTTAAAGTGTGGTATGTACCTAGTTT
22569801 TGTTAAAGTGTGGTATGTACCTAGTTT
1 TGTTAAAGTGTGGTATGTACCTAGTTT
22569828 AGGTAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (27 bp):
TGTTAAAGTGTGGTATGTACCTAGTTT
Found at i:22569834 original size:27 final size:27
Alignment explanation
Indices: 22569777--22569834 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
22569767 ATATTTATGT
* *
22569777 TAAAGTGTGGTATGTACCTAGTTTTGT
1 TAAAGTGTGGTATGTACCTAGTTTAGG
22569804 TAAAGTGTGGTATGTACCTAGTTTAGG
1 TAAAGTGTGGTATGTACCTAGTTTAGG
22569831 TAAA
1 TAAA
22569835 CTTTTGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (27 bp):
TAAAGTGTGGTATGTACCTAGTTTAGG
Found at i:22571940 original size:22 final size:20
Alignment explanation
Indices: 22571899--22571942 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22571889 CATACAAAAT
*
22571899 ATGCCAAAAAGGCTAACAAA
1 ATGCCAAAAAGGCAAACAAA
*
22571919 ATGCCACAAAGGCCAAATCAAA
1 ATGCCAAAAAGG-CAAA-CAAA
22571941 AT
1 AT
22571943 ACTATAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 3 0.15
22 6 0.30
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (20 bp):
ATGCCAAAAAGGCAAACAAA
Found at i:22575048 original size:17 final size:17
Alignment explanation
Indices: 22575028--22575063 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22575018 TAATTAGTTA
22575028 AATT-AATTAATTTTCTC
1 AATTAAATT-ATTTTCTC
22575045 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
22575062 AA
1 AA
22575064 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:22575567 original size:21 final size:21
Alignment explanation
Indices: 22575543--22575584 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22575533 CTTAACCTTT
22575543 TTTGGGATAAAATTCGTTATC
1 TTTGGGATAAAATTCGTTATC
*
22575564 TTTGGGATAAAATTTGTTATC
1 TTTGGGATAAAATTCGTTATC
22575585 CCAATGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTGGGATAAAATTCGTTATC
Found at i:22586264 original size:20 final size:20
Alignment explanation
Indices: 22586239--22586281 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
22586229 AAAAGAAAAG
22586239 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
22586259 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
22586279 AAA
1 AAA
22586282 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:22588566 original size:22 final size:22
Alignment explanation
Indices: 22588538--22588581 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22588528 TTTTGAACCA
22588538 TTACCATTTCATACCAAATCCC
1 TTACCATTTCATACCAAATCCC
* *
22588560 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCATACCAAATCCC
22588582 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACCATTTCATACCAAATCCC
Found at i:22595937 original size:40 final size:40
Alignment explanation
Indices: 22595839--22596008 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
22595829 TCCTCGTTCA
* * *
22595839 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
22595878 AATGCCTTCGGGACATAACCAGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* *
22595918 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
22595958 AATGCCTTCAGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
22595998 AAGGCCTTCGG
1 AATGCCTTCGG
22596009 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 34 0.30
40 80 0.70
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:22605383 original size:42 final size:42
Alignment explanation
Indices: 22605324--22605407 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
22605314 GTTTCAAACA
*
22605324 CTTTTGTATCAAGTACATACGTAAGGTAAGCATTGCAACCCT
1 CTTTTGTATCAAGTACATACGCAAGGTAAGCATTGCAACCCT
* *
22605366 CTTTTGTATCAAGTACATATGCAAGGTAAGGATTGCAACCCT
1 CTTTTGTATCAAGTACATACGCAAGGTAAGCATTGCAACCCT
22605408 TTCTTACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (42 bp):
CTTTTGTATCAAGTACATACGCAAGGTAAGCATTGCAACCCT
Found at i:22608482 original size:47 final size:47
Alignment explanation
Indices: 22608419--22608892 Score: 714
Period size: 47 Copynumber: 10.1 Consensus size: 47
22608409 GAAATGATAG
*
22608419 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
22608466 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22608513 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
22608560 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22608607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
22608654 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22608701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
22608748 TAAGGCCTAATAGCCGATGTGATGAATGCGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22608795 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
22608842 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22608889 TAAG
1 TAAG
22608893 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 44, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 383 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:22608892 original size:94 final size:94
Alignment explanation
Indices: 22608419--22608841 Score: 837
Period size: 94 Copynumber: 4.5 Consensus size: 94
22608409 GAAATGATAG
22608419 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
22608484 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
22608513 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
22608578 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
22608607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
22608672 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
22608701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
22608766 GTGATGAATGCGAAAGTGTATATATGTAA
66 GTGATGAATGCGAAAGTGTATATATGTAA
*
22608795 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
22608842 CGGGGCCGAG
Statistics
Matches: 328, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 328 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
GTGATGAATGCGAAAGTGTATATATGTAA
Found at i:22632446 original size:20 final size:21
Alignment explanation
Indices: 22632404--22632445 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
22632394 AAGGATTTCT
22632404 ACCAAAGTTTTTAAAATTAAA
1 ACCAAAGTTTTTAAAATTAAA
*
22632425 ACCAAAGTTTTTGAAATTAAA
1 ACCAAAGTTTTTAAAATTAAA
22632446 CTTATCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (21 bp):
ACCAAAGTTTTTAAAATTAAA
Found at i:22636298 original size:26 final size:26
Alignment explanation
Indices: 22636269--22636346 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
22636259 TATCCGAAGC
22636269 TCCTGATTAAAGGCTCTTTGTGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
* * * *
22636295 TCCTAATTAAAAGTTCTTTGTGAACT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
* *
22636321 TCCTGATT-ATGGCTC-TTATGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
22636345 TC
1 TC
22636347 TCGTTATATA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
24 9 0.21
25 4 0.10
26 29 0.69
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (26 bp):
TCCTGATTAAAGGCTCTTTGTGAGCT
Found at i:22636426 original size:25 final size:27
Alignment explanation
Indices: 22636378--22636434 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
22636368 CTTCCCGATA
22636378 GGCTCTTTGTGAGCTTTCTAATTA-AT
1 GGCTCTTTGTGAGCTTTCTAATTATAT
*
22636404 GGCTTTTTGTGAG-TTTCCT-ATTATAT
1 GGCTCTTTGTGAGCTTT-CTAATTATAT
22636430 GGCTC
1 GGCTC
22636435 GAGAGAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (27 bp):
GGCTCTTTGTGAGCTTTCTAATTATAT
Found at i:22640014 original size:19 final size:19
Alignment explanation
Indices: 22639990--22640027 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22639980 TATTAAATTC
22639990 ACATAACCAAACCAATATG
1 ACATAACCAAACCAATATG
*
22640009 ACATAACTAAACCAATATG
1 ACATAACCAAACCAATATG
22640028 TTAATATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.24, G:0.05, T:0.18
Consensus pattern (19 bp):
ACATAACCAAACCAATATG
Found at i:22641963 original size:45 final size:44
Alignment explanation
Indices: 22641752--22641966 Score: 210
Period size: 45 Copynumber: 4.9 Consensus size: 44
22641742 ATATCATACA
* ** *
22641752 ATGCCAACGTCCCAGACGTGGTCTTACATGTTATCTCATATCA--
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATAT-ATG
*
22641795 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC-AAATCA-A-ATATA
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCACATATATG
* ** * * * *
22641836 ATGCCGATATCCCAGACATGGTCTTACACGTAACCACTTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATAT-G
*
22641881 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCACATATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATA-TG
*
22641926 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATAT
22641967 TGAAATCCTA
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 24 0.17
42 10 0.07
43 23 0.16
44 5 0.04
45 74 0.53
46 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATG
Found at i:22642343 original size:13 final size:14
Alignment explanation
Indices: 22642325--22642354 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
22642315 TATGAACACT
22642325 TATGTTTT-TATTA
1 TATGTTTTATATTA
22642338 TATGTTTTATATTA
1 TATGTTTTATATTA
22642352 TAT
1 TAT
22642355 TAACTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TATGTTTTATATTA
Found at i:22646567 original size:388 final size:388
Alignment explanation
Indices: 22645851--22646631 Score: 1544
Period size: 388 Copynumber: 2.0 Consensus size: 388
22645841 CAAATGATTC
22645851 AAATAATATGAGACTATTATGTTGTCTATAAGCTTAATGAGGGAGATAGTTTGTCTTAATTGTCG
1 AAATAATATGAGACTATTATGTTGTCTATAAGCTTAATGAGGGAGATAGTTTGTCTTAATTGTCG
22645916 AAGTAAGATTGACTCCCAAAAATAGAGATATAAATGTGATTGTTTAGACTAACAATACATTAAAT
66 AAGTAAGATTGACTCCCAAAAATAGAGATATAAATGTGATTGTTTAGACTAACAATACATTAAAT
22645981 AAGACTCAAGTTAAATTTACCTGAAATCCATTTAAGGATTTATGCACATGTAAAGTTGTCACAAT
131 AAGACTCAAGTTAAATTTACCTGAAATCCATTTAAGGATTTATGCACATGTAAAGTTGTCACAAT
22646046 GTGCTAGAAAAGTACCTAGCAATAGCAAACTAGACATGGAAACCTATTGGAGCACATGTTGGCTA
196 GTGCTAGAAAAGTACCTAGCAATAGCAAACTAGACATGGAAACCTATTGGAGCACATGTTGGCTA
22646111 AAATCATTAAAACTAATCCTAAAATGAATTTAGAAAAAATCATTAAAACTAAATATTGGTCTTAT
261 AAATCATTAAAACTAATCCTAAAATGAATTTAGAAAAAATCATTAAAACTAAATATTGGTCTTAT
*
22646176 TTTCAAAATTTGGATTTGAGAGTAATATTTCGTATAAAATTGTAGCATTCTTATATATCTAAA
326 TTTCAAAATTTGGATTTGAGAGTAATATTTCGTATAAAATTGTAGCATTCCTATATATCTAAA
22646239 AAATAATATGAGACTATTATGTTGTCTATAAGCTTAATGAGGGAGATAGTTTGTCTTAATTGTCG
1 AAATAATATGAGACTATTATGTTGTCTATAAGCTTAATGAGGGAGATAGTTTGTCTTAATTGTCG
22646304 AAGTAAGATTGACTCCCAAAAATAGAGATATAAATGTGATTGTTTAGACTAACAATACATTAAAT
66 AAGTAAGATTGACTCCCAAAAATAGAGATATAAATGTGATTGTTTAGACTAACAATACATTAAAT
*
22646369 AAGACTCAAGTTAAATTTACCTTAAATCCATTTAAGGATTTATGCACATGTAAAGTTGTCACAAT
131 AAGACTCAAGTTAAATTTACCTGAAATCCATTTAAGGATTTATGCACATGTAAAGTTGTCACAAT
22646434 GTGCTAGAAAAGTACCTAGCAATAGCAAACTAGACATGGAAACCTATTGGAGCACATGTTGGCTA
196 GTGCTAGAAAAGTACCTAGCAATAGCAAACTAGACATGGAAACCTATTGGAGCACATGTTGGCTA
22646499 AAATCATTAAAACTAATCCTAAAATGAATTTAGAAAAAATCATTAAAACTAAATATTGGTCTTAT
261 AAATCATTAAAACTAATCCTAAAATGAATTTAGAAAAAATCATTAAAACTAAATATTGGTCTTAT
22646564 TTTCAAAATTTGGATTTGAGAGTAATATTTCGTATAAAATTGTAGCATTCCTATATATCTAAA
326 TTTCAAAATTTGGATTTGAGAGTAATATTTCGTATAAAATTGTAGCATTCCTATATATCTAAA
22646627 AAATA
1 AAATA
22646632 TATCCTACAG
Statistics
Matches: 391, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
388 391 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (388 bp):
AAATAATATGAGACTATTATGTTGTCTATAAGCTTAATGAGGGAGATAGTTTGTCTTAATTGTCG
AAGTAAGATTGACTCCCAAAAATAGAGATATAAATGTGATTGTTTAGACTAACAATACATTAAAT
AAGACTCAAGTTAAATTTACCTGAAATCCATTTAAGGATTTATGCACATGTAAAGTTGTCACAAT
GTGCTAGAAAAGTACCTAGCAATAGCAAACTAGACATGGAAACCTATTGGAGCACATGTTGGCTA
AAATCATTAAAACTAATCCTAAAATGAATTTAGAAAAAATCATTAAAACTAAATATTGGTCTTAT
TTTCAAAATTTGGATTTGAGAGTAATATTTCGTATAAAATTGTAGCATTCCTATATATCTAAA
Found at i:22647169 original size:76 final size:76
Alignment explanation
Indices: 22647006--22647170 Score: 242
Period size: 76 Copynumber: 2.2 Consensus size: 76
22646996 TAATCTAATT
*
22647006 TCTAAATTAACATCTAATGAAATCTATGAAAACTTAAAATCTAAATTCTACAACTTAAAAATGAA
1 TCTAAATTAAAATCTAATGAAATCTATGAAAACTTAAAATCTAAATTCTACAACTTAAAAATGAA
*
22647071 ACAAATCCAGC
66 ACAAATCCAAC
* * * * * *
22647082 TCTAAACTAAAATCTAATTAAATTTATTAAAACTTAAAATCTAAATTCTAGAGC-TAAAAATGAA
1 TCTAAATTAAAATCTAATGAAATCTATGAAAACTTAAAATCTAAATTCTACAACTTAAAAATGAA
22647146 ACAAATCCAAC
66 ACAAATCCAAC
22647157 TCTAAATTTAAAAT
1 TCTAAA-TTAAAAT
22647171 ATGAGAATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 26 0.33
76 53 0.67
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (76 bp):
TCTAAATTAAAATCTAATGAAATCTATGAAAACTTAAAATCTAAATTCTACAACTTAAAAATGAA
ACAAATCCAAC
Found at i:22661360 original size:28 final size:28
Alignment explanation
Indices: 22661320--22661398 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
22661310 GCAATCAAAT
* * *
22661320 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
22661348 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22661376 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
22661399 CAAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:22664777 original size:14 final size:13
Alignment explanation
Indices: 22664751--22664797 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
22664741 TTTGTTTCAT
22664751 TTTTATTTATAT-
1 TTTTATTTATATA
*
22664763 TTATATTTATATA
1 TTTTATTTATATA
* *
22664776 TTTTTATTTGTTTA
1 -TTTTATTTATATA
22664790 TTTTATTT
1 TTTTATTT
22664798 TATTAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.38
13 8 0.28
14 10 0.34
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTATTTATATA
Found at i:22665946 original size:26 final size:26
Alignment explanation
Indices: 22665905--22665955 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
22665895 ATGCGACAAA
22665905 TAAAAATTGAGAAAAAAGT-CAAAAG
1 TAAAAATTGAGAAAAAAGTACAAAAG
22665930 TAAAAA-TGAGAAGAAAAAGTACAAAA
1 TAAAAATTGAG-A-AAAAAGTACAAAA
22665956 TAGAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.17
25 7 0.30
26 7 0.30
27 5 0.22
ACGTcount: A:0.67, C:0.04, G:0.16, T:0.14
Consensus pattern (26 bp):
TAAAAATTGAGAAAAAAGTACAAAAG
Found at i:22665966 original size:19 final size:20
Alignment explanation
Indices: 22665924--22665967 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
22665914 AGAAAAAAGT
22665924 CAAAAGTAAAAATGAGAAGA
1 CAAAAGTAAAAATGAGAAGA
22665944 -AAAAGTACAAAAT-AGAA-A
1 CAAAAGTA-AAAATGAGAAGA
22665962 CAAAAG
1 CAAAAG
22665968 AACTATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 16 0.73
20 5 0.23
ACGTcount: A:0.68, C:0.07, G:0.16, T:0.09
Consensus pattern (20 bp):
CAAAAGTAAAAATGAGAAGA
Found at i:22665966 original size:20 final size:19
Alignment explanation
Indices: 22665925--22665966 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
22665915 GAAAAAAGTC
*
22665925 AAAAGTAAAAATGAGAAGA
1 AAAAGTAAAAATGAGAACA
22665944 AAAAGTACAAAAT-AGAAACA
1 AAAAGTA-AAAATGAG-AACA
22665964 AAA
1 AAA
22665967 GAACTATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAAGTAAAAATGAGAACA
Found at i:22670008 original size:29 final size:29
Alignment explanation
Indices: 22669971--22670028 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
22669961 GAAGACGATC
22669971 ACTTATTTCCCTATAAATAGATGGCATTG
1 ACTTATTTCCCTATAAATAGATGGCATTG
*
22670000 ACTTTTTTCCCTATAAATAGATGGCATTG
1 ACTTATTTCCCTATAAATAGATGGCATTG
22670029 GTAGAGCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (29 bp):
ACTTATTTCCCTATAAATAGATGGCATTG
Found at i:22676085 original size:44 final size:44
Alignment explanation
Indices: 22676008--22676092 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
22675998 CATGTATCAC
* * * *
22676008 ATCCATTATGAACTCGGACCACCTCAGCAAGCTCGGATGCTCGT
1 ATCCATAATGAACTCGGACCAACTCAACAAGCTCAGATGCTCGT
* *
22676052 ATCCATAATGAACTCGGACCAACTTAACGAGCTCAGATGCT
1 ATCCATAATGAACTCGGACCAACTCAACAAGCTCAGATGCT
22676093 TCACATATAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAACAAGCTCAGATGCTCGT
Found at i:22676120 original size:45 final size:45
Alignment explanation
Indices: 22676061--22676175 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
22676051 TATCCATAAT
*
22676061 GAACTCGGACCAACTTAACGAGCTCAGATGCT-TCACATATA-CTAC
1 GAACTCGGACCAACTCAACGAGCTCAGAT-CTCTCACATATATC-AC
* * * * *
22676106 GAACTTGGGCCAACTCAACAAGTTCAGATTTCTCACATATATCAC
1 GAACTCGGACCAACTCAACGAGCTCAGATCTCTCACATATATCAC
22676151 GAACTCGGACCAACTCAACGAGCTC
1 GAACTCGGACCAACTCAACGAGCTC
22676176 GGAATTCTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
44 1 0.02
45 56 0.97
46 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.22
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACGAGCTCAGATCTCTCACATATATCAC
Found at i:22676401 original size:14 final size:16
Alignment explanation
Indices: 22676369--22676407 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
22676359 ATTTACATAA
*
22676369 CATATATCACATATTT
1 CATATATCACATATGT
22676385 CATATATCAC-T-TGT
1 CATATATCACATATGT
22676399 CATATATCA
1 CATATATCA
22676408 TAATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACATATGT
Found at i:22676446 original size:20 final size:20
Alignment explanation
Indices: 22676408--22676446 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22676398 TCATATATCA
* *
22676408 TAATTTTCTTGCATTTCATG
1 TAATATTCTTGCATGTCATG
*
22676428 TAATATTCTTTCATGTCAT
1 TAATATTCTTGCATGTCAT
22676447 ATTTCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (20 bp):
TAATATTCTTGCATGTCATG
Found at i:22682198 original size:41 final size:40
Alignment explanation
Indices: 22682106--22682213 Score: 155
Period size: 40 Copynumber: 2.6 Consensus size: 40
22682096 TTGACGAAAA
*
22682106 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAAATAGC
* *
22682146 TTCAGCTATGTATGGCATTTAGTGTGCAAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGC--GATTCAAAATAGC
22682187 TTCGGCTATGTATTGGCACTTAGTGTG
1 TTCGGCTATGTA-TGGCACTTAGTGTG
22682214 TGAGAATTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
40 25 0.42
41 18 0.30
42 17 0.28
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAAATAGC
Found at i:22690902 original size:79 final size:80
Alignment explanation
Indices: 22690791--22690975 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
22690781 GCTACTCGTT
* * * *
22690791 CAAATGCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAACCC
* * *
22690854 AGATTTAGTGAC-TCGCA
63 AGATATAGTCACTTAGCA
* ** *
22690871 CCAAAGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGTACAAATGCCTTCAGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCAG
22690935 ATATAGTCACTTAGCA
65 ATATAGTCACTTAGCA
22690951 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
22690976 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.02
79 58 0.65
80 25 0.28
81 4 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCAGATCTTAACCCAGA
TATAGTCACTTAGCA
Found at i:22690975 original size:40 final size:40
Alignment explanation
Indices: 22690772--22690975 Score: 195
Period size: 40 Copynumber: 5.1 Consensus size: 40
22690762 TGGAATTTAA
** *
22690772 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
22690812 CTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
22690852 CCAGATTTAGTGACTCGCACCAAA-GCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCA-CAAATGCCTTCGGGACTTAGC
* * *
22690891 CCGGA-ATTAGTAACTCGTACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
22690931 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
22690971 CCGGA
1 CCGGA
22690976 CATCATTCGA
Statistics
Matches: 132, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
38 5 0.04
39 26 0.20
40 87 0.66
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:22698980 original size:79 final size:79
Alignment explanation
Indices: 22698838--22699018 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 79
22698828 TACTCGTTCA
* ** *
22698838 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAAGACTTAACCCGGAT
1 AATGCCTTCGGG-CTTAGCCCGAATATAGTAACTCACACAAATGCCTTCAAGACTTAACCCGGAT
* * *
22698903 TTAGTGAC-TCGCACC
65 ATAGTCACTTAGCA-C
* **
22698918 AATGCCTTCGGGCTTAGCCCAGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGCTTAGCCC-GAATATAGTAACTCACACAAATGCCTTCAAGA-CTTAACCCGGA
22698981 TATAGTCACTTAGCAC
64 TATAGTCACTTAGCAC
* *
22698997 AAAGCCTTCAGGACTTAGCCCG
1 AATGCCTTC-GGGCTTAGCCCG
22699019 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 55 0.65
80 28 0.33
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGAATATAGTAACTCACACAAATGCCTTCAAGACTTAACCCGGATA
TAGTCACTTAGCAC
Found at i:22699020 original size:40 final size:39
Alignment explanation
Indices: 22698836--22699020 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 39
22698826 GCTACTCGTT
* * *
22698836 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTAGCA
* * * * *
22698876 CAAATGCCTTCAAGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTAGCA
* * *
22698916 CCAATGCCTTCGGGCTTAGCCCAGA-ATTAGTAACTCA-CA
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAACT-AGCA
* *
22698955 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TAGCA
22698996 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
22699021 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 31 0.26
40 75 0.64
41 11 0.09
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:22708081 original size:36 final size:36
Alignment explanation
Indices: 22708034--22708105 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
22708024 GATTAGGTCG
*
22708034 TGTAGTCCATACAGGCGTGTGGGTCCATTTTCTAAA
1 TGTAGGCCATACAGGCGTGTGGGTCCATTTTCTAAA
22708070 TGTAGGCCATACAGGCGTGTGGGTCCATTTTCTAAA
1 TGTAGGCCATACAGGCGTGTGGGTCCATTTTCTAAA
22708106 AATTTTCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (36 bp):
TGTAGGCCATACAGGCGTGTGGGTCCATTTTCTAAA
Found at i:22715701 original size:42 final size:42
Alignment explanation
Indices: 22715654--22715752 Score: 171
Period size: 42 Copynumber: 2.4 Consensus size: 42
22715644 CCACCGGTAT
*
22715654 TTGTAGATAAACTACAAGAAATATGTGGATAAACCACTAAAA
1 TTGTAGATAAACTACAAGAAATATGTGGATAAACCACCAAAA
* *
22715696 TTGTAGATAAAGTGCAAGAAATATGTGGATAAACCACCAAAA
1 TTGTAGATAAACTACAAGAAATATGTGGATAAACCACCAAAA
22715738 TTGTAGATAAACTAC
1 TTGTAGATAAACTAC
22715753 CAGAGTCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (42 bp):
TTGTAGATAAACTACAAGAAATATGTGGATAAACCACCAAAA
Found at i:22715754 original size:20 final size:21
Alignment explanation
Indices: 22715654--22715752 Score: 94
Period size: 22 Copynumber: 4.7 Consensus size: 21
22715644 CCACCGGTAT
22715654 TTGTAGATAAACTACAAGAAA
1 TTGTAGATAAACTACAAGAAA
* * *
22715675 TATGTGGATAAACCACTA-AAA
1 T-TGTAGATAAACTACAAGAAA
* *
22715696 TTGTAGATAAAGTGCAAGAAA
1 TTGTAGATAAACTACAAGAAA
* * *
22715717 TATGTGGATAAACCACCA-AAA
1 T-TGTAGATAAACTACAAGAAA
22715738 TTGTAGATAAACTAC
1 TTGTAGATAAACTAC
22715753 CAGAGTCTTT
Statistics
Matches: 60, Mismatches: 15, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
20 23 0.38
21 13 0.22
22 24 0.40
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (21 bp):
TTGTAGATAAACTACAAGAAA
Found at i:22718406 original size:60 final size:60
Alignment explanation
Indices: 22718336--22718455 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
22718326 GCTGTTTTAA
*
22718336 TACCATGAATATTCGGTTAAGCTTAATTATGGTTAAAAATGGTTAATTTGCATTTTTTTT
1 TACCATGAATATTCAGTTAAGCTTAATTATGGTTAAAAATGGTTAATTTGCATTTTTTTT
22718396 TACCATGAATATTCAGTTAAGCTTAATTATGGTTAAAAATGGTTAATTTGCATTTTTTTT
1 TACCATGAATATTCAGTTAAGCTTAATTATGGTTAAAAATGGTTAATTTGCATTTTTTTT
22718456 AGCTCAGGGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (60 bp):
TACCATGAATATTCAGTTAAGCTTAATTATGGTTAAAAATGGTTAATTTGCATTTTTTTT
Found at i:22718587 original size:54 final size:53
Alignment explanation
Indices: 22718540--22718641 Score: 177
Period size: 54 Copynumber: 1.9 Consensus size: 53
22718530 TTAAAATGAA
**
22718540 TAGAATATGAATTGTAATAGTTGAATTTGATTGATTAGATCAAGTTAAGCCTCG
1 TAGAATATGAATTGTAATAGTTGAATTTGATTGATTAGATC-AGTTAAGAATCG
22718594 TAGAATATGAATTGTAATAGTTGAATTTGATTGATTAGATCAGTTAAG
1 TAGAATATGAATTGTAATAGTTGAATTTGATTGATTAGATCAGTTAAG
22718642 CCTCGTACGA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 7 0.15
54 41 0.85
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (53 bp):
TAGAATATGAATTGTAATAGTTGAATTTGATTGATTAGATCAGTTAAGAATCG
Found at i:22718895 original size:28 final size:28
Alignment explanation
Indices: 22718855--22718933 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
22718845 GCAATCAAAT
* *
22718855 ATGGTACTCAGTGTGCGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22718883 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22718911 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
22718934 CAAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:22719254 original size:40 final size:42
Alignment explanation
Indices: 22719106--22719253 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 42
22719096 CGGGCTTCGG
* *
22719106 GCCTAGCAGGCTAAAATGCCAGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTAAAATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * *
22719149 GCCTAGCAGG-TGAAATGCTGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
22719190 GTCTAGCAGGCT-TCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAAATGCCGGTGAATGAATTCGGGCTTAAA
*
22719230 ACCTAGCAGGCT-AAATGCCGGTGA
1 GCCTAGCAGGCTAAAATGCCGGTGA
22719254 TTTGATAAAA
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
40 31 0.38
41 28 0.35
42 12 0.15
43 10 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (42 bp):
GCCTAGCAGGCTAAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:22724524 original size:40 final size:40
Alignment explanation
Indices: 22724443--22724578 Score: 197
Period size: 40 Copynumber: 3.4 Consensus size: 40
22724433 CAACCAAGTA
* * * *
22724443 CCTTCGGGATTTAGCCGGA-CATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATG
22724482 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
22724522 CCTTCGGGACTTAGCCC-AGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGA-TTATAGTAACTCGCACAAATG
22724562 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
22724579 AGTTATCATC
Statistics
Matches: 90, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 19 0.21
40 71 0.79
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
Found at i:22724579 original size:40 final size:40
Alignment explanation
Indices: 22724469--22724584 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
22724459 GGACATAGCT
*
22724469 ACTCGCTCAAATGCCTTCGGGACTTAGCCC-GATTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAG-TTATAGTA
22724509 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
22724549 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
22724585 CATCCGAATA
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 73 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
Found at i:22727429 original size:44 final size:44
Alignment explanation
Indices: 22727366--22727453 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
22727356 AATATTTACA
*
22727366 GAGTGGCAAAATGATGGTATTAAAGTTTCGTTGCAAAATTTTAT
1 GAGTGGCAAAAAGATGGTATTAAAGTTTCGTTGCAAAATTTTAT
22727410 GAGTGGCAAAAAGATGGTATTAAAGTTTCGTTGCAAAATTTTAT
1 GAGTGGCAAAAAGATGGTATTAAAGTTTCGTTGCAAAATTTTAT
22727454 CATTTCGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (44 bp):
GAGTGGCAAAAAGATGGTATTAAAGTTTCGTTGCAAAATTTTAT
Found at i:22728231 original size:45 final size:45
Alignment explanation
Indices: 22728167--22728254 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
22728157 AGAAGTTGGA
*
22728167 ATATCAGGGGCAAAAATGTAATTTTTCCATAAAATAATTTATGAT
1 ATATCAAGGGCAAAAATGTAATTTTTCCATAAAATAATTTATGAT
*
22728212 ATATCAAGGGCAAAAATGTAATTTTTCCATAAAATGATTTATG
1 ATATCAAGGGCAAAAATGTAATTTTTCCATAAAATAATTTATG
22728255 GGCTGTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (45 bp):
ATATCAAGGGCAAAAATGTAATTTTTCCATAAAATAATTTATGAT
Found at i:22728711 original size:28 final size:28
Alignment explanation
Indices: 22728671--22728749 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
22728661 GCAATCAAAT
* * *
22728671 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22728699 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
22728727 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
22728750 CAAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:22728949 original size:199 final size:199
Alignment explanation
Indices: 22728700--22729074 Score: 723
Period size: 199 Copynumber: 1.9 Consensus size: 199
22728690 ATATTGAGAA
*
22728700 TGGCACTTAGTGTGTGAGATATTGAGAATGACACTTAGTGTGCAAAATATCAAATGATTCAAAGG
1 TGGCACTTAGTGTGCGAGATATTGAGAATGACACTTAGTGTGCAAAATATCAAATGATTCAAAGG
*
22728765 GCAATTATAAATTGTGATTGAATGATTAAATAGAGTAAAGTGAATAGGTAAACATGCTATATTAT
66 GCAATTATAAATTGTGATTGAATGATTAAATAGAGTAAAGTGAACAGGTAAACATGCTATATTAT
22728830 ATGAATTGTTTATGAGACGACTTTATAATGGTGATATTCGGGCTTTCCTGACGACATATCGGCAA
131 ATGAATTGTTTATGAGACGACTTTATAATGGTGATATTCGGGCTTTCCTGACGACATATCGGCAA
22728895 AATG
196 AATG
22728899 TGGCACTTAGTGTGCGAGATATTGAGAATGACACTTAGTGTGCAAAATATCAAATGATTCAAAGG
1 TGGCACTTAGTGTGCGAGATATTGAGAATGACACTTAGTGTGCAAAATATCAAATGATTCAAAGG
*
22728964 GCTATTATAAATTGTGATTGAATGATTAAATAGAGTAAAGTGAACAGGTAAACATGCTATATTAT
66 GCAATTATAAATTGTGATTGAATGATTAAATAGAGTAAAGTGAACAGGTAAACATGCTATATTAT
22729029 ATGAATTGTTTATGAGACGACTTTATAATGGTGATATTCGGGCTTT
131 ATGAATTGTTTATGAGACGACTTTATAATGGTGATATTCGGGCTTT
22729075 GAGCCTAGCA
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
199 173 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (199 bp):
TGGCACTTAGTGTGCGAGATATTGAGAATGACACTTAGTGTGCAAAATATCAAATGATTCAAAGG
GCAATTATAAATTGTGATTGAATGATTAAATAGAGTAAAGTGAACAGGTAAACATGCTATATTAT
ATGAATTGTTTATGAGACGACTTTATAATGGTGATATTCGGGCTTTCCTGACGACATATCGGCAA
AATG
Found at i:22729161 original size:43 final size:42
Alignment explanation
Indices: 22729108--22729188 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
22729098 TGAATAATAT
** *
22729108 TATCAGGCTTCGGGTCTAGCAGGCTAAAATGCCAGTGAAATGA
1 TATCAGGCTTCAAGCCTAGCAGGC-AAAATGCCAGTGAAATGA
* *
22729151 TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCAGTGAA
1 TATCAGGCTTCAAGCCTAGCAGGCAAAATGCCAGTGAA
22729189 TGAGTTCAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 13 0.39
43 20 0.61
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (42 bp):
TATCAGGCTTCAAGCCTAGCAGGCAAAATGCCAGTGAAATGA
Found at i:22731499 original size:47 final size:47
Alignment explanation
Indices: 22731437--22731785 Score: 554
Period size: 47 Copynumber: 7.4 Consensus size: 47
22731427 TCATTCGGGA
* * *
22731437 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
22731484 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
22731531 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
22731578 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
22731625 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
22731674 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
22731721 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
22731768 CTTATCACATATACACAC
1 CTTATCACATATATACAC
22731786 CTTGTACATC
Statistics
Matches: 278, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 234 0.84
49 44 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:22731706 original size:143 final size:143
Alignment explanation
Indices: 22731437--22731780 Score: 584
Period size: 143 Copynumber: 2.4 Consensus size: 143
22731427 TCATTCGGGA
* *
22731437 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* * *
22731500 ACCTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACA
66 ACCTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
22731565 TTGGCCATTAGGC
131 TTGGCCATTAGGC
*
22731578 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
* *
22731643 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
66 ACCTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
*
22731708 TTGGCCATTCGGC
131 TTGGCCATTAGGC
*
22731721 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
22731781 CACACCTTGT
Statistics
Matches: 190, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 52 0.27
143 138 0.73
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
ACCTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATACACACTTTCACATTCATCACA
TTGGCCATTAGGC
Found at i:22734858 original size:182 final size:182
Alignment explanation
Indices: 22734551--22734878 Score: 629
Period size: 182 Copynumber: 1.8 Consensus size: 182
22734541 GGGTGTCACA
22734551 ATTTTTCTAGGTTTTTCATGAGTTCTCGGTTGGGTCCTGAACCACCCCGGATGTATGTTTTGGGC
1 ATTTTTCTAGGTTTTTCATGAGTTCTCGGTTGGGTCCTGAACCACCCCGGATGTATGTTTTGGGC
*
22734616 GTCGTAAGCCCGTATATGGGACAGATTGCATGTGAAAAGAAAAGTTTTTAAATTGAACAAAATTT
66 GTCCTAAGCCCGTATATGGGACAGATTGCATGTGAAAAGAAAAGTTTTTAAATTGAACAAAATTT
22734681 TATGGCCCGATTTTTGACTGAGCATACGGGCGTGTGAAGCCTTAAGCAAGAG
131 TATGGCCCGATTTTTGACTGAGCATACGGGCGTGTGAAGCCTTAAGCAAGAG
22734733 ATTTTTCTAGGTTTTTCATGAGTTCTCGGTTGGGTCCTGAACCACCCCGGATGTATGTTTTGGGC
1 ATTTTTCTAGGTTTTTCATGAGTTCTCGGTTGGGTCCTGAACCACCCCGGATGTATGTTTTGGGC
* *
22734798 GTCCTAAGCCCGTATATGGGACAGATTGCGTGTGAAAATAAAAGTTTTTAAATTGAACAAAATTT
66 GTCCTAAGCCCGTATATGGGACAGATTGCATGTGAAAAGAAAAGTTTTTAAATTGAACAAAATTT
22734863 TATGGCCCGATTTTTG
131 TATGGCCCGATTTTTG
22734879 TGTGATTGAT
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 143 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (182 bp):
ATTTTTCTAGGTTTTTCATGAGTTCTCGGTTGGGTCCTGAACCACCCCGGATGTATGTTTTGGGC
GTCCTAAGCCCGTATATGGGACAGATTGCATGTGAAAAGAAAAGTTTTTAAATTGAACAAAATTT
TATGGCCCGATTTTTGACTGAGCATACGGGCGTGTGAAGCCTTAAGCAAGAG
Found at i:22737746 original size:27 final size:27
Alignment explanation
Indices: 22737716--22737893 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22737706 ATATTGAGTC
* * * *
22737716 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
22737743 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22737770 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
22737798 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
22737825 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
22737852 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
22737879 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22737894 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:22737855 original size:82 final size:81
Alignment explanation
Indices: 22737737--22737892 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22737727 TGCTATATAA
* *
22737737 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
22737802 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
22737819 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
22737883 CACTTAGTGC
65 CACTTAGTGC
22737893 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:22741399 original size:79 final size:81
Alignment explanation
Indices: 22741297--22741480 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
22741287 GCTCCTCGTT
* *
22741297 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
22741359 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
22741377 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
22741441 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
22741457 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22741481 CAGCATTCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 14 0.15
79 57 0.63
80 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:22741414 original size:39 final size:40
Alignment explanation
Indices: 22741297--22741480 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
22741287 GCTCCTCGTT
*
22741297 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
22741337 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
22741377 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * * *
22741416 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ATC-TCGCA
22741457 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22741481 CAGCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 50 0.40
40 65 0.52
41 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:22749346 original size:79 final size:81
Alignment explanation
Indices: 22749244--22749427 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
22749234 GCTCCTCGTT
* *
22749244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
22749306 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
22749324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
22749388 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
22749404 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22749428 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:22749361 original size:39 final size:41
Alignment explanation
Indices: 22749244--22749427 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
22749234 GCTCCTCGTT
* *
22749244 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
22749284 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
22749324 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
22749363 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
22749404 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22749428 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:22752450 original size:40 final size:40
Alignment explanation
Indices: 22752393--22752615 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
22752383 CCAGCATGAT
* *
22752393 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
* * **
22752433 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
* * * **
22752473 TGCTCTTTGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
* * * *
22752513 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACAAA
* *
22752554 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACAAA
22752595 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
22752616 CATCATTCGA
Statistics
Matches: 154, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 130 0.84
41 21 0.14
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAAA
Found at i:22752605 original size:120 final size:120
Alignment explanation
Indices: 22752385--22752615 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 120
22752375 ACACGTCACC
* * *
22752385 AGCATGATTGCTCTTCGGGATTTAGCACGGATATATCACTAGCACAAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACAAATGCTCTTCGGAACTTAG
* * *
22752450 CCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACATCGCT
66 CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * * * *
22752505 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTA
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATA-TAACTAGCACAAATGCTCTTCGGAACTTA
* **
22752569 GTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
65 GCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
22752616 CATCATTCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
120 68 0.72
121 21 0.22
122 5 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACAAATGCTCTTCGGAACTTAG
CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:22752960 original size:29 final size:29
Alignment explanation
Indices: 22752921--22752999 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
22752911 CTTAATAATC
*
22752921 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22752951 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22752980 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22753000 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22754942 original size:37 final size:37
Alignment explanation
Indices: 22754892--22754970 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22754882 TTATTACGAA
* * *
22754892 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22754929 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22754966 GTCTT
1 GTCTT
22754971 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:22755234 original size:47 final size:47
Alignment explanation
Indices: 22755089--22755279 Score: 267
Period size: 47 Copynumber: 4.1 Consensus size: 47
22755079 CCCTTCGGGA
* * * * * * *
22755089 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22755136 CCTGTCACATATATACACTTTCACATTCA-CACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22755182 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22755229 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22755276 CTTA
1 CTTA
22755280 CTATCATTTC
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 39 0.31
47 88 0.69
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22755248 original size:93 final size:94
Alignment explanation
Indices: 22755089--22755279 Score: 267
Period size: 93 Copynumber: 2.0 Consensus size: 94
22755079 CCCTTCGGGA
* * * * * * *
22755089 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
22755154 TTTCACATTCA-CACATCGACCATTAGGC
66 TTTCACATTCATCACATCGACCATTAGGC
* * * *
22755182 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
22755247 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGACCATTAGGC
22755276 CTTA
1 CTTA
22755280 CTATCATTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 65 0.76
94 20 0.24
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGACCATTAGGC
Found at i:22757694 original size:30 final size:30
Alignment explanation
Indices: 22757639--22757695 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
22757629 CTTTTCAAAA
* * *
22757639 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGAACCAAATTTTTAT
*
22757669 TATTTACGAAAAGAGGAACCAAATTTT
1 TATTTACAAAAAGAGGAACCAAATTTT
22757696 AAAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGGAACCAAATTTTTAT
Found at i:22764938 original size:114 final size:114
Alignment explanation
Indices: 22764731--22764958 Score: 366
Period size: 114 Copynumber: 2.0 Consensus size: 114
22764721 GTGATGGCAT
* *
22764731 TCGAGTTGATCCAAGTAAGATCTCTGCTATCGTTGAATGCAAACCACCTAAAAATGTAACCAAGG
1 TCGAGTTGATCCAAGTAAGATCTCTACTATCATTGAATGCAAACCACCTAAAAATGTAACCAAGG
* * *
22764796 TTAGAAGCTTTTTAGGCTTAGCCGGTTACTACCGAAGATTTGTTAAAGG
66 TTAGAAGATTTTTAGGCTTAGCCAGTTACTACCGAAGATTTGTGAAAGG
* **
22764845 TCGAGTTGATCCAAGTAAGATCTCTACTATCATTGAATGGAAACCACCTAAAAATGTAACTGAGG
1 TCGAGTTGATCCAAGTAAGATCTCTACTATCATTGAATGCAAACCACCTAAAAATGTAACCAAGG
* *
22764910 TTAGAAGATTTTTGGGCTTGGCCAGTTACTACCGAAGATTTGTGAAAGG
66 TTAGAAGATTTTTAGGCTTAGCCAGTTACTACCGAAGATTTGTGAAAGG
22764959 ATTCTCCATG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (114 bp):
TCGAGTTGATCCAAGTAAGATCTCTACTATCATTGAATGCAAACCACCTAAAAATGTAACCAAGG
TTAGAAGATTTTTAGGCTTAGCCAGTTACTACCGAAGATTTGTGAAAGG
Found at i:22774316 original size:26 final size:26
Alignment explanation
Indices: 22774287--22774338 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
22774277 CCTTAGAAGA
*
22774287 ATAAACATGCACTAATTAAGTATTGT
1 ATAAACATGCACTAATTAAATATTGT
*
22774313 ATAAACATGCACTGATTAAATATTGT
1 ATAAACATGCACTAATTAAATATTGT
22774339 GTTCATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (26 bp):
ATAAACATGCACTAATTAAATATTGT
Found at i:22787332 original size:4 final size:4
Alignment explanation
Indices: 22787317--22787349 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
22787307 TTTAATAAAG
22787317 TAAT TAAAT TAAT TAAT TAAT TAAT TAAT TAAT
1 TAAT T-AAT TAAT TAAT TAAT TAAT TAAT TAAT
22787350 ATTTTAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:22788181 original size:30 final size:27
Alignment explanation
Indices: 22788130--22788210 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 27
22788120 AGGTGAATCA
*
22788130 GAATATTTCCTCCATATATATATATCG
1 GAATATTTCCTCCACATATATATATCG
**
22788157 GAATATTTCCTCCCTCACATATATATATAT
1 GAATATTTCCT--C-CACATATATATATCG
* *
22788187 GTATATATCCT-CACATATATATAT
1 GAATATTTCCTCCACATATATATAT
22788211 ATATTATCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 13 0.28
27 11 0.24
29 1 0.02
30 21 0.46
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.41
Consensus pattern (27 bp):
GAATATTTCCTCCACATATATATATCG
Found at i:22817937 original size:40 final size:40
Alignment explanation
Indices: 22817870--22818046 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
22817860 GCCCAAGTAT
*
22817870 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
22817909 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
22817949 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
22817989 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
22818029 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
22818047 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:22843367 original size:34 final size:34
Alignment explanation
Indices: 22843281--22843368 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 34
22843271 GTACTGAATT
* * * *
22843281 GGGCTAAGTCCCGCACTAATATTGCTACTGATAT
1 GGGCTAAGGCCCACACTGATATTGCTACTGATAA
22843315 GGGCTAAGGCCCACACTGATATTGCTACTGATAA
1 GGGCTAAGGCCCACACTGATATTGCTACTGATAA
* *
22843349 GGGCTTAGGCCCAGACTGAT
1 GGGCTAAGGCCCACACTGAT
22843369 CAACACTGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATATTGCTACTGATAA
Found at i:22845675 original size:27 final size:27
Alignment explanation
Indices: 22845645--22845797 Score: 207
Period size: 27 Copynumber: 5.7 Consensus size: 27
22845635 ACCCAAATAT
*
22845645 CCTCAATTTATAAAATTACCGTTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
* *
22845672 CCTCGATTTACAAAATTACAGTTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
* *
22845699 CTTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
* *
22845726 CCTCGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
* *
22845753 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCGTTTTAC
* *
22845780 CCTCAATTTACAAAATTA
1 CCTCGATTTATAAAATTA
22845798 TTAATACACC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
CCTCGATTTATAAAATTACCGTTTTAC
Found at i:22845708 original size:54 final size:54
Alignment explanation
Indices: 22845645--22845798 Score: 229
Period size: 54 Copynumber: 2.9 Consensus size: 54
22845635 ACCCAAATAT
* *
22845645 CCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTA-CAGTTTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATC-GTTTTAC
* * *
22845699 CTTCGATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTAC
* *
22845753 CCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTAT
1 CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTAT
22845799 TAATACACCA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 88 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (54 bp):
CCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTAC
Found at i:22845713 original size:81 final size:81
Alignment explanation
Indices: 22845624--22845794 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
22845614 GTACCCCTGG
*
22845624 TTTATAAAACTACCCA-AATATCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
1 TTTATAAAACTA-CCATAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
* *
22845688 TA-CAGTTTTACCTTCGA
65 TACCA-TTTTACCCTCAA
* ** * * * * *
22845705 TTTATAAAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATT
1 TTTATAAAACTACCATAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATT
22845770 ACCATTTTACCCTCAA
66 ACCATTTTACCCTCAA
*
22845786 TTTACAAAA
1 TTTATAAAA
22845795 TTATTAATAC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.04
81 71 0.93
82 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (81 bp):
TTTATAAAACTACCATAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATT
ACCATTTTACCCTCAA
Found at i:22845835 original size:81 final size:81
Alignment explanation
Indices: 22845750--22845942 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 81
22845740 ATTATCGTTT
* *** * *
22845750 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAAAATTATTAATACACCATTGGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACTAAAACACCATTGGTT
22845815 TACAAAATTACCAAAA
66 TACAAAATTACCAAAA
* * ** * *
22845831 TACCCTCGA-TTAGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGT
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTCAATTTACAAAATTACTAAAACACCATTGGT
**
22845895 TTGTAAAATTACCAAAA
65 TTACAAAATTACCAAAA
* *
22845912 TACCCTTGATTTATAAAA-TACCGAAATACCC
1 TACCCTCGATTTATAAAATTACCAAAATACCC
22845943 CTATAGGGTA
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 15 0.16
81 76 0.81
82 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.33
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTCAATTTACAAAATTACTAAAACACCATTGGTT
TACAAAATTACCAAAA
Found at i:22845944 original size:27 final size:27
Alignment explanation
Indices: 22845601--22845942 Score: 181
Period size: 27 Copynumber: 12.7 Consensus size: 27
22845591 CCCCCAGTTG
* * *
22845601 TAAAATTACCAAAGTACCCCTGGTTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * * **
22845628 TAAAACTACCCAAATATCCTCAATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
**** *
22845655 TAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* ***
22845682 CAAAATTA-CAGTTTTA-CCTTCGATTTA
1 TAAAATTACCA-AAATACCCTT-GATTTA
*** *
22845709 TAAAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* * **** *
22845736 TAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* *** **
22845763 TAGAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* ** * * * *
22845790 CAAAATTATTAATACACCATTGGTTTA
1 TAAAATTACCAAAATACCCTTGATTTA
* *
22845817 CAAAATTACCAAAATACCCTCGA-TTA
1 TAAAATTACCAAAATACCCTTGATTTA
*
22845843 GTAAAATTACCAAAATACCCTT-AGTTTG
1 -TAAAATTACCAAAATACCCTTGA-TTTA
* * *
22845871 TAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGATTTA
22845898 TAAAATTACCAAAATACCCTTGATTTA
1 TAAAATTACCAAAATACCCTTGATTTA
*
22845925 TAAAA-TACCGAAATACCC
1 TAAAATTACCAAAATACCC
22845943 CTATAGGGTA
Statistics
Matches: 254, Mismatches: 53, Indels: 17
0.78 0.16 0.05
Matches are distributed among these distances:
26 20 0.08
27 227 0.89
28 7 0.03
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.35
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGATTTA
Found at i:22845965 original size:27 final size:27
Alignment explanation
Indices: 22845934--22846174 Score: 299
Period size: 27 Copynumber: 8.9 Consensus size: 27
22845924 ATAAAATACC
*
22845934 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
22845961 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
22845988 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
22846015 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
22846042 GAAATACCCCTATAGGGTTA-AATTACT
1 GAAATACCCCTGTAGGG-TAGAATTACT
*
22846069 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
22846096 GAAATACCCTTGTAGGGTAGAAATA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
22846122 CGAAATACCCCTGTAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * * *
22846149 CGAGATACCCATGTGGGGTAAAATTA
1 -GAAATACCCCTGTAGGGTAGAATTA
22846175 TCATTTTTCC
Statistics
Matches: 186, Mismatches: 25, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 182 0.98
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:22845993 original size:80 final size:80
Alignment explanation
Indices: 22845818--22845996 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 80
22845808 ATTGGTTTAC
*
22845818 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCTTAG-TGGTAAAATTACTAA
**
22845883 AATACCCTTGGTTTGT
65 AATACCCTTGGTGGGT
* * *
22845899 AAAATTACCAAAATACCCTTGATTTA-TAAAA-TACCGAAATACCCCTATAG-GGTAGAATTACT
1 AAAATTACCAAAATACCCTCGA-TTAGTAAAATTACCAAAATA-CCCT-TAGTGGTAAAATTACT
22845961 AAAATACCCTT-GTAGGGT
63 AAAATACCCTTGGT-GGGT
*
22845979 AGAAA-TACCGAAATACCC
1 A-AAATTACCAAAATACCC
22845997 CTGTAGGGTA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
79 2 0.02
80 45 0.52
81 33 0.38
82 6 0.07
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCTTAGTGGTAAAATTACTAAA
ATACCCTTGGTGGGT
Found at i:22845998 original size:54 final size:54
Alignment explanation
Indices: 22845930--22846158 Score: 336
Period size: 54 Copynumber: 4.2 Consensus size: 54
22845920 ATTTATAAAA
* * *
22845930 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* *
22845984 TACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
22846038 TACCGAAATACCCCTATAGGGTTA-AATTACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTATAGGG-TAGAATTACTGAAATACCCCTGTAGGGTAGAAT
* * *
22846092 TACCGAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTATAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAAT
* *
22846146 TATCGAGATACCC
1 TACCGAAATACCC
22846159 ATGTGGGGTA
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
53 3 0.02
54 155 0.97
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
TACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
Found at i:22849944 original size:40 final size:40
Alignment explanation
Indices: 22849623--22849932 Score: 516
Period size: 40 Copynumber: 7.8 Consensus size: 40
22849613 GATGATAACG
*
22849623 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
22849663 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
22849703 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
22849743 GGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
22849783 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
22849823 AGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
22849863 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
22849903 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22849933 AGCTATATCC
Statistics
Matches: 257, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 255 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:22862699 original size:274 final size:273
Alignment explanation
Indices: 22862206--22862756 Score: 1012
Period size: 274 Copynumber: 2.0 Consensus size: 273
22862196 ATATTTTTAT
22862206 TGTAAAATATGCATATGTATAATTAATAAACACTTCTCTATTTAATTAAAAAAATAAAAATAGTG
1 TGTAAAATATGCATATGTATAATTAATAAACACTTCTCTATTTAATTAAAAAAATAAAAATAGTG
22862271 GCCAAATAAAATACTATAAGGTAATACTCATGACTCTTAAAATATGTGAAAATAGAATAAATTAT
66 GCCAAATAAAATACTATAAGGTAATACTCATGACTCTTAAAATATGTGAAAATAGAATAAATTAT
*
22862336 CTTAAAAAAGGCTACAGTCATCGCACAAATAATTTATTGATTCAATATATTGAATATGATTGATA
131 CTTAAAAAAGGCTACAGCCATCGCACAAATAATTTATTGATTCAATATATTGAATATGATTGATA
* *
22862401 ATTTTGAATTAAGAAATCTGATAGATTATACAAATTTTTAAACACTCAAAATTATAATTACTAAT
196 ATTTTGAATTAAGAAATCTGATAGATTATAAAAAATTTTAAACACTCAAAATTATAATTACTAAT
22862466 TTGAAACTTTTGC
261 TTGAAACTTTTGC
*
22862479 TGTATAATATGCATATGTATAATTAATAAACACTTCTCTATTTAATTAAAAAAATAAAAAATAGT
1 TGTAAAATATGCATATGTATAATTAATAAACACTTCTCTATTTAATTAAAAAAAT-AAAAATAGT
*
22862544 GGCCAAATAAAATCCTATAAGGTAATACTCATGACTCTTAAAATATGTGAAAATAGAATAAATTA
65 GGCCAAATAAAATACTATAAGGTAATACTCATGACTCTTAAAATATGTGAAAATAGAATAAATTA
* * *
22862609 TCTTAAAAAAGGCTACAGCCATCGGACAAATGATTTATTGGTTCAATATATTGAATATGATTGAT
130 TCTTAAAAAAGGCTACAGCCATCGCACAAATAATTTATTGATTCAATATATTGAATATGATTGAT
22862674 AATTTTGAATTAAGAAATCTGATAGATTATAAAAAATTTTAAACACTCAAAATTATAATTACTAA
195 AATTTTGAATTAAGAAATCTGATAGATTATAAAAAATTTTAAACACTCAAAATTATAATTACTAA
*
22862739 TTTGAAACTTTTTC
260 TTTGAAACTTTTGC
22862753 TGTA
1 TGTA
22862757 GAGAAAATGA
Statistics
Matches: 268, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
273 54 0.20
274 214 0.80
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (273 bp):
TGTAAAATATGCATATGTATAATTAATAAACACTTCTCTATTTAATTAAAAAAATAAAAATAGTG
GCCAAATAAAATACTATAAGGTAATACTCATGACTCTTAAAATATGTGAAAATAGAATAAATTAT
CTTAAAAAAGGCTACAGCCATCGCACAAATAATTTATTGATTCAATATATTGAATATGATTGATA
ATTTTGAATTAAGAAATCTGATAGATTATAAAAAATTTTAAACACTCAAAATTATAATTACTAAT
TTGAAACTTTTGC
Found at i:22863992 original size:12 final size:12
Alignment explanation
Indices: 22863975--22864001 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22863965 TTTTTTTCAT
22863975 AGTAGATAAACC
1 AGTAGATAAACC
22863987 AGTAGATAAACC
1 AGTAGATAAACC
22863999 AGT
1 AGT
22864002 TTAGACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (12 bp):
AGTAGATAAACC
Found at i:22865154 original size:43 final size:43
Alignment explanation
Indices: 22864955--22865152 Score: 216
Period size: 43 Copynumber: 4.6 Consensus size: 43
22864945 TAATTTTTTA
* *
22864955 AAAGGTCATGATTTTTAGTGGCGTTTGTGGGAAAAGCGTCGCT
1 AAAGGTCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
** * * *
22864998 AAAGGTTGTGTTTTTTAGCGGCGTTGGTGGGAAAAGCGTCGCT
1 AAAGGTCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * * *
22865041 AAAGGTCGTGTTTTTTAGCGGCATTAGTGGGAAAAGCGCCACT
1 AAAGGTCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
** * * * *
22865084 AAAGGTCATGACCTTTAGCGACATTTTTGGTAAAAGCGCCGCT
1 AAAGGTCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
22865127 AAAGATCATGACTTTTAGCGGCGTTT
1 AAAGGTCATGATTTTTAGCGGCGTTT
22865153 TTTTCATAAA
Statistics
Matches: 132, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
AAAGGTCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:22873095 original size:30 final size:31
Alignment explanation
Indices: 22873025--22873107 Score: 134
Period size: 30 Copynumber: 2.7 Consensus size: 31
22873015 TCAATCTCAA
22873025 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
22873055 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
22873085 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
22873108 ACTGTAAATG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 27 0.55
31 22 0.45
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:22878221 original size:224 final size:223
Alignment explanation
Indices: 22877828--22878276 Score: 747
Period size: 224 Copynumber: 2.0 Consensus size: 223
22877818 TCCTATAAGG
22877828 TGCATTGGACACTGGAGCTGTTCCAGGTAACAAGTCGATTCCGAACTTGACTTCTCTGTGTGGAG
1 TGCATTGGACACTGGAGCTGTTCCAGGTAACAAGTCGATTCCGAACTTGACTTCTCTGTGTGGAG
*
22877893 CTAATCCAGGAAGTTCCTCCGGAAATACATCTTGAAATTCTTTAATGGTCCTAACCAACTCCACA
66 CTAAACCAGGAAGTTCCTCCGGAAATACATCTTGAAATTCTTTAATGGTCCTAACCAACTCCACA
* ** *
22877958 GTTATCCCTTCAAGTTCAGCTTGACTTATGAAGGCCAAGAACGCCTCACAACCTTTCCGAATCAA
131 GTTATCCCCTCAAGTTCAGCTTGACTTACAAAGGCCAAGAACGCCTCACAACCTTTCAGAATCAA
* * *
22878023 CTTCTCGGCCCTTAAAGCTGAGACAATAT
196 CTTCTCAGCCCTTAAA-CCGAGACAACAT
*
22878052 TGCATTGGACACTGGAGCTGTTCCAGGTAACAAGTCGATTCCGAACTTGACTTCTCTGTTTGGAG
1 TGCATTGGACACTGGAGCTGTTCCAGGTAACAAGTCGATTCCGAACTTGACTTCTCTGTGTGGAG
* *
22878117 GTAAACCAGGAAGTTCCTCCGGAAATACATCTTGAAATTCTTTAATGGTCCTAACCGACTCCACA
66 CTAAACCAGGAAGTTCCTCCGGAAATACATCTTGAAATTCTTTAATGGTCCTAACCAACTCCACA
* * *
22878182 GTTATCCCCTCAGGTT-TGACTTGACTTACAAATGCCAAGAACGCCTCACAACCTTTCAGAATCA
131 GTTATCCCCTCAAGTTCAG-CTTGACTTACAAAGGCCAAGAACGCCTCACAACCTTTCAGAATCA
22878246 ACTTCTCAGCCCTTAAACCGAGACAACAT
195 ACTTCTCAGCCCTTAAACCGAGACAACAT
22878275 TG
1 TG
22878277 GACAAATAGT
Statistics
Matches: 210, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
223 13 0.06
224 197 0.94
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (223 bp):
TGCATTGGACACTGGAGCTGTTCCAGGTAACAAGTCGATTCCGAACTTGACTTCTCTGTGTGGAG
CTAAACCAGGAAGTTCCTCCGGAAATACATCTTGAAATTCTTTAATGGTCCTAACCAACTCCACA
GTTATCCCCTCAAGTTCAGCTTGACTTACAAAGGCCAAGAACGCCTCACAACCTTTCAGAATCAA
CTTCTCAGCCCTTAAACCGAGACAACAT
Found at i:22881183 original size:24 final size:25
Alignment explanation
Indices: 22881150--22881202 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22881140 GGCCTAGCCT
22881150 TTTTTAAT-AACTAGGGC-AATGCCC
1 TTTTTAATAAACTAGGGCAAAT-CCC
* *
22881174 TTTTTGATAAACTGGGGCAAATCCC
1 TTTTTAATAAACTAGGGCAAATCCC
22881199 TTTT
1 TTTT
22881203 CAGTAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 15 0.60
26 3 0.12
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (25 bp):
TTTTTAATAAACTAGGGCAAATCCC
Found at i:22882620 original size:183 final size:183
Alignment explanation
Indices: 22882312--22882677 Score: 687
Period size: 183 Copynumber: 2.0 Consensus size: 183
22882302 GATTGGCCAC
22882312 CAAAACGTGAAGGGAAAAAGAAGGTTGCTGGTCAATAAAGAATCGACACCACCAAGCTTCACAGG
1 CAAAACGTGAAGGGAAAAAGAAGGTTGCTGGTCAATAAAGAATCGACACCACCAAGCTTCACAGG
22882377 TTCGGCTTTTTGCGGCTTTTCGGCAGATGTGGAGGTAAGGAAAGAAGTAGTAGGTGAACGGAAGG
66 TTCGGCTTTTTGCGGCTTTTCGGCAGATGTGGAGGTAAGGAAAGAAGTAGTAGGTGAACGGAAGG
* ** *
22882442 GAGTAGTGGGCTGGTTTTGGAGAAAAGAAAAGGAAGGAATGCTGGATGTAAGG
131 GAGTAGTGGCCTACTTTTGGAGAAAAGAAAAGCAAGGAATGCTGGATGTAAGG
*
22882495 CAAAACGTGAAGGGAGAAAGAAGGTTGCTGGTCAATAAAGAATCGACACCACCAAGCTTCACAGG
1 CAAAACGTGAAGGGAAAAAGAAGGTTGCTGGTCAATAAAGAATCGACACCACCAAGCTTCACAGG
22882560 TTCGGCTTTTTGCGGCTTTTCGGCAGATGTGGAGGTAAGGAAAGAAGTAGTAGGTGAACGGAAGG
66 TTCGGCTTTTTGCGGCTTTTCGGCAGATGTGGAGGTAAGGAAAGAAGTAGTAGGTGAACGGAAGG
22882625 GAGTAGTGGCCTACTTTTGGAGAAAAGAAAAGCAAGGAATGCTGGATGTAAGG
131 GAGTAGTGGCCTACTTTTGGAGAAAAGAAAAGCAAGGAATGCTGGATGTAAGG
22882678 GTGGTAGATT
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (183 bp):
CAAAACGTGAAGGGAAAAAGAAGGTTGCTGGTCAATAAAGAATCGACACCACCAAGCTTCACAGG
TTCGGCTTTTTGCGGCTTTTCGGCAGATGTGGAGGTAAGGAAAGAAGTAGTAGGTGAACGGAAGG
GAGTAGTGGCCTACTTTTGGAGAAAAGAAAAGCAAGGAATGCTGGATGTAAGG
Found at i:22887457 original size:17 final size:17
Alignment explanation
Indices: 22887437--22887478 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
22887427 AATTCCATAT
*
22887437 CTATTTGATACCTATAG
1 CTATTAGATACCTATAG
22887454 CTATTAGATACCTATAG
1 CTATTAGATACCTATAG
22887471 CTATTAGA
1 CTATTAGA
22887479 ATCCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (17 bp):
CTATTAGATACCTATAG
Found at i:22890719 original size:61 final size:61
Alignment explanation
Indices: 22890648--22890773 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 61
22890638 ATACATATTT
*
22890648 CATATGTCCACATATGTTCATATACTTACCTTTCATTCTCAATCATGATATACATTTCACA
1 CATATGTCCACATATGTTCATATACTTACCTTTCATTCTCAATCATGATATACATTTCAAA
22890709 CATATGTCCACATATGTTCATATACTTACCTTTCATTCTCAATCATGATATACATTTCAAA
1 CATATGTCCACATATGTTCATATACTTACCTTTCATTCTCAATCATGATATACATTTCAAA
22890770 CATA
1 CATA
22890774 CCTGAATCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.39
Consensus pattern (61 bp):
CATATGTCCACATATGTTCATATACTTACCTTTCATTCTCAATCATGATATACATTTCAAA
Found at i:22890955 original size:44 final size:42
Alignment explanation
Indices: 22890895--22890997 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 42
22890885 TCCCAGACGT
* * *
22890895 GGTCCTACATGTAATCAAATATCGTTGCC-ACTGTCCCAAACAA
1 GGTCTTACATGAAATCAAATA-CGATGCCGA-TGTCCCAAACAA
* *
22890938 GGTCTTTACATGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTC-TTACATGAAATCAAATACGATGCCGATGTCCCAAACAA
22890981 GGTCTTACATGTAAATC
1 GGTCTTACATG-AAATC
22890998 TCGAATCGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
42 7 0.13
43 29 0.56
44 16 0.31
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCGATGTCCCAAACAA
Found at i:22890973 original size:43 final size:43
Alignment explanation
Indices: 22890895--22891049 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 43
22890885 TCCCAGACGT
* * *
22890895 GGTCCTACATGTAATCAAATATCGTTGCCACTGTCCCAAACAA
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAA
* *
22890938 GGTCTTTACATGAAATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTC-TTACATGAAATCAAATATCGATGCC-ACTGTCCCAAACAA
** * * **
22890981 GGTCTTACATGTAAATCTCGA-ATCGATACCAAC-GTCCCAGACTT
1 GGTCTTACATG-AAATC-AAATATCGATGCC-ACTGTCCCAAACAA
* *
22891025 GGTCTTACACGAAATCACATATCGA
1 GGTCTTACATGAAATCAAATATCGA
22891050 AAATCCTATG
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 8 0.09
43 40 0.43
44 44 0.48
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAA
Found at i:22903627 original size:69 final size:66
Alignment explanation
Indices: 22903550--22903698 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 66
22903540 CATCATGTGT
* * * *
22903550 ACAAGAGAGCTACAAGACATCATGATGTAGCTAGGGTCGCATGGGTGATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CAT-AT-ATGTAGCTA-GGTCGCATGCGTGATACCAGTGAAGGACACC
22903613 ATGTAG
61 ATGTAG
* * *
22903619 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
22903684 AG
65 AG
22903686 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
22903699 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
64 15 0.21
65 9 0.13
66 4 0.06
67 27 0.39
68 2 0.03
69 13 0.19
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:22927023 original size:45 final size:45
Alignment explanation
Indices: 22926957--22927046 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22926947 TAAGCCTAAT
*
22926957 TATATTCATATGGCTCGTGAGGCCCAAATCACCTGTATATGGCCC
1 TATATTCATATGGCTCATGAGGCCCAAATCACCTGTATATGGCCC
22927002 TATATTCATATGGCTCATGAGGCCCAAATCACCTGTATATGGCCC
1 TATATTCATATGGCTCATGAGGCCCAAATCACCTGTATATGGCCC
22927047 ATTAGGCCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
TATATTCATATGGCTCATGAGGCCCAAATCACCTGTATATGGCCC
Found at i:22927047 original size:20 final size:20
Alignment explanation
Indices: 22926977--22927047 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
22926967 TGGCTCGTGA
22926977 GGCCCAAATCACCTGTATAT
1 GGCCCAAATCACCTGTATAT
* **
22926997 GGCCCTATATTCATATGGCTCATGA-
1 GGCCC-A-AATCACCT-G-T-AT-AT
22927022 GGCCCAAATCACCTGTATAT
1 GGCCCAAATCACCTGTATAT
22927042 GGCCCA
1 GGCCCA
22927048 TTAGGCCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 1 0.03
20 13 0.34
21 2 0.05
22 6 0.16
23 6 0.16
24 2 0.05
25 7 0.18
26 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (20 bp):
GGCCCAAATCACCTGTATAT
Found at i:22927053 original size:29 final size:29
Alignment explanation
Indices: 22927009--22927083 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
22926999 CCCTATATTC
* * *
22927009 ATATGGCTCATGAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
22927038 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
22927067 TTATGGCCCGTTAGGCC
1 ATATGGCCCATTAGGCC
22927084 TAGCCACATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:22927338 original size:8 final size:8
Alignment explanation
Indices: 22927307--22927358 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
22927297 GTAGCCAAAC
22927307 TTTCGGCT
1 TTTCGGCT
*
22927315 TTTCGACAT
1 TTTCGGC-T
22927324 TTT-GGCT
1 TTTCGGCT
22927331 TTTCGGCT
1 TTTCGGCT
* *
22927339 TTTCAGCA
1 TTTCGGCT
*
22927347 TTTCGGTT
1 TTTCGGCT
22927355 TTTC
1 TTTC
22927359 AGTATTTCGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (8 bp):
TTTCGGCT
Found at i:22927348 original size:24 final size:24
Alignment explanation
Indices: 22927307--22927358 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22927297 GTAGCCAAAC
*
22927307 TTTCGGCTTTTCGACATTTTGGCT
1 TTTCGGCTTTTCGACATTTCGGCT
*
22927331 TTTCGGCTTTTC-AGCATTTCGGTT
1 TTTCGGCTTTTCGA-CATTTCGGCT
22927355 TTTC
1 TTTC
22927359 AGTATTTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.08, C:0.21, G:0.19, T:0.52
Consensus pattern (24 bp):
TTTCGGCTTTTCGACATTTCGGCT
Found at i:22927350 original size:16 final size:16
Alignment explanation
Indices: 22927331--22927373 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
22927321 CATTTTGGCT
22927331 TTTCGGCTTTTCAGCA
1 TTTCGGCTTTTCAGCA
* *
22927347 TTTCGGTTTTTCAGTA
1 TTTCGGCTTTTCAGCA
*
22927363 TTTCGCCTTTT
1 TTTCGGCTTTT
22927374 GCCGATACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:22928603 original size:16 final size:16
Alignment explanation
Indices: 22928582--22928615 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22928572 AGAAAATTCA
22928582 GGATTTCAGGATTCTT
1 GGATTTCAGGATTCTT
*
22928598 GGATTTCAGGATTTTT
1 GGATTTCAGGATTCTT
22928614 GG
1 GG
22928616 GGCGTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.29, T:0.44
Consensus pattern (16 bp):
GGATTTCAGGATTCTT
Found at i:22938813 original size:57 final size:56
Alignment explanation
Indices: 22938752--22938869 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 56
22938742 CACATACCTA
* *
22938752 TATATGGCCCACTAGACCC-AATTATATTCACATGGCCCATTAGACCCAAATCATAAT
1 TATATGGCCCACTAGACCCAAATCACATTCACATGG-CCATTAGACCCAAATCA-AAT
** * * * *
22938809 TATATGGCCCTTTAGGCCCAAATCACATTTATATGGCCATTAGACCCAAATCACAT
1 TATATGGCCCACTAGACCCAAATCACATTCACATGGCCATTAGACCCAAATCAAAT
22938865 TATAT
1 TATAT
22938870 TCATGCTCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
56 7 0.13
57 33 0.63
58 12 0.23
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (56 bp):
TATATGGCCCACTAGACCCAAATCACATTCACATGGCCATTAGACCCAAATCAAAT
Found at i:22938860 original size:28 final size:29
Alignment explanation
Indices: 22938752--22938869 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
22938742 CACATACCTA
* * *
22938752 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGACCCAAATCACATT
* * * *
22938780 CACATGGCCCATTAGACCCAAATCATAAT
1 TATATGGCCCATTAGACCCAAATCACATT
* *
22938809 TATATGGCCCTTTAGGCCCAAATCACATT
1 TATATGGCCCATTAGACCCAAATCACATT
22938838 TATATGG-CCATTAGACCCAAATCACA-T
1 TATATGGCCCATTAGACCCAAATCACATT
22938865 TATAT
1 TATAT
22938870 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
27 6 0.08
28 33 0.43
29 37 0.49
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGACCCAAATCACATT
Found at i:22939108 original size:8 final size:8
Alignment explanation
Indices: 22939081--22939123 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
22939071 ATAGCCAAAC
*
22939081 TTTCAGCT
1 TTTCGGCT
* *
22939089 TTTCGACA
1 TTTCGGCT
22939097 TTTCGGCT
1 TTTCGGCT
22939105 TTTCGGCT
1 TTTCGGCT
*
22939113 TTTCGACT
1 TTTCGGCT
22939121 TTT
1 TTT
22939124 TCCGATCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.09, C:0.23, G:0.16, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:22953587 original size:76 final size:76
Alignment explanation
Indices: 22953461--22953613 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
22953451 CTATATTTCT
* *
22953461 CAATAGATTTATTCAAGATCCTCCTTTTGTTTCATTATTTCAATAAAAATATTACATGCAAAATC
1 CAATAGATTTATTCAAGATCCTCATTTTATTTCATTATTTCAATAAAAATATTACATGCAAAATC
22953526 GTTGTCGACCA
66 GTTGTCGACCA
*
22953537 CAATAGATTTATTCAAGATCCTCATTTTATTTCATTATTTCAATAAAAATATTGCATGCAAAATC
1 CAATAGATTTATTCAAGATCCTCATTTTATTTCATTATTTCAATAAAAATATTACATGCAAAATC
22953602 GTTGTCGACCA
66 GTTGTCGACCA
22953613 C
1 C
22953614 TTTTATTATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (76 bp):
CAATAGATTTATTCAAGATCCTCATTTTATTTCATTATTTCAATAAAAATATTACATGCAAAATC
GTTGTCGACCA
Found at i:22964041 original size:27 final size:27
Alignment explanation
Indices: 22964010--22964187 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22964000 TAAATTGTAC
22964010 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22964037 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22964063 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22964091 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22964119 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22964146 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22964173 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22964188 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22964124 original size:82 final size:81
Alignment explanation
Indices: 22964011--22964166 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22964001 AAATTGTACA
* *
22964011 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22964075 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22964092 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22964157 TGCGAGTTGA
65 TGCGAATTGA
22964167 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22964178 original size:82 final size:81
Alignment explanation
Indices: 22964007--22964187 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22963997 GATTAAATTG
* *
22964007 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22964072 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22964088 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22964152 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22964170 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22964188 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22972104 original size:27 final size:27
Alignment explanation
Indices: 22972073--22972250 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22972063 TAAATTGTAC
22972073 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22972100 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22972126 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22972154 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22972182 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22972209 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22972236 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22972251 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22972187 original size:82 final size:81
Alignment explanation
Indices: 22972074--22972229 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22972064 AAATTGTACA
* *
22972074 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22972138 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22972155 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22972220 TGCGAGTTGA
65 TGCGAATTGA
22972230 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22972241 original size:82 final size:81
Alignment explanation
Indices: 22972070--22972250 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22972060 GATTAAATTG
* *
22972070 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22972135 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22972151 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22972215 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22972233 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22972251 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22974590 original size:33 final size:33
Alignment explanation
Indices: 22974547--22974616 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
22974537 GGCTAGCCAA
* *
22974547 TATAAGGGCTTAAATGGTATACTTATTCTTTTG
1 TATAAAGGCTTAAATGGTATAATTATTCTTTTG
*
22974580 TATAAAGGCTTAAATTGTATAATTATTCTTTTG
1 TATAAAGGCTTAAATGGTATAATTATTCTTTTG
22974613 TATA
1 TATA
22974617 TGGCCATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.47
Consensus pattern (33 bp):
TATAAAGGCTTAAATGGTATAATTATTCTTTTG
Found at i:22976098 original size:104 final size:104
Alignment explanation
Indices: 22975918--22976125 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
22975908 GAGTTAATTG
22975918 GTGAGGGACTAAATTGCAAAAATTGTAAAAGTTGGGTTAATTGTGTAATTTTGAAATCTGAAGGG
1 GTGAGGGACTAAATTGCAAAAATTGTAAAAGTTGGGTTAATTGTGTAATTTTGAAATCTGAAGGG
22975983 TATAAATTGTGAAGTGGACTCAAATTGAAATATATGCTA
66 TATAAATTGTGAAGTGGACTCAAATTGAAATATATGCTA
22976022 GTGAGGGACTAAATTGCAAAAATTGTAAAAGTTGGGTTAATTGTGTAATTTTGAAATCTGAAGGG
1 GTGAGGGACTAAATTGCAAAAATTGTAAAAGTTGGGTTAATTGTGTAATTTTGAAATCTGAAGGG
22976087 TATAAATTGTGAAGTGGACTCAAATTGAAATATATGCTA
66 TATAAATTGTGAAGTGGACTCAAATTGAAATATATGCTA
22976126 ATGAATGAAA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.33
Consensus pattern (104 bp):
GTGAGGGACTAAATTGCAAAAATTGTAAAAGTTGGGTTAATTGTGTAATTTTGAAATCTGAAGGG
TATAAATTGTGAAGTGGACTCAAATTGAAATATATGCTA
Found at i:22976611 original size:117 final size:116
Alignment explanation
Indices: 22976399--22976616 Score: 328
Period size: 117 Copynumber: 1.9 Consensus size: 116
22976389 GTTTTGTGGC
* *
22976399 TAAAGATGAATTGACGGATAAAACTATAATTGAGTTATCGCACTATAAACGTAAGACCATGGTTG
1 TAAAGATGAATTGACGGATAAAACCATAACTGAGTTATCGCACTATAAACGTAAGACCATGGTTG
*
22976464 GACCATGTCAATATTTATATGTAAGACCATAATTGGGTTATGACATTAATG
66 GACCATGGCAATATTTATATGTAAGACCATAATTGGGTTATGACATTAATG
* * * *
22976515 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTT
1 TAAA-GATGAATTGACGGATAAAACCATAACTGAGTTATCGCACTATAAACGTAAGACCATGGTT
* * * *
22976580 GGACCATGGCAGTGTTTATATGTAAGGCCATAGTTGG
65 GGACCATGGCAATATTTATATGTAAGACCATAATTGG
22976617 ACTATGGCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
116 4 0.04
117 86 0.96
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (116 bp):
TAAAGATGAATTGACGGATAAAACCATAACTGAGTTATCGCACTATAAACGTAAGACCATGGTTG
GACCATGGCAATATTTATATGTAAGACCATAATTGGGTTATGACATTAATG
Found at i:22981405 original size:20 final size:20
Alignment explanation
Indices: 22981380--22981419 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22981370 TAAATATTTT
22981380 TTTCTATGAAAATTGAGTAA
1 TTTCTATGAAAATTGAGTAA
22981400 TTTCTATGAAAATTGAGTAA
1 TTTCTATGAAAATTGAGTAA
22981420 AATTTAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (20 bp):
TTTCTATGAAAATTGAGTAA
Found at i:22992847 original size:39 final size:40
Alignment explanation
Indices: 22992752--22992974 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
22992742 TTGAATGATG
*
22992752 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
22992790 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
22992831 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22992870 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22992909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22992948 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22992975 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:22992938 original size:79 final size:81
Alignment explanation
Indices: 22992752--22992974 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
22992742 TTGAATGATG
* * *
22992752 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
22992813 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
22992831 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
22992893 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
22992909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
22992973 TG
66 TG
22992975 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Done.