Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 75 of 153
Found at i:23807959 original size:24 final size:24
Alignment explanation
Indices: 23807932--23807982 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23807922 CCTGCCAGAC
*
23807932 CATCAACCATTATTGCAGTAGTAG
1 CATCAACCATCATTGCAGTAGTAG
* *
23807956 CATCAGCCCTCATTGCAGTAGTAG
1 CATCAACCATCATTGCAGTAGTAG
23807980 CAT
1 CAT
23807983 TCGCACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (24 bp):
CATCAACCATCATTGCAGTAGTAG
Found at i:23809898 original size:34 final size:34
Alignment explanation
Indices: 23809849--23809913 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
23809839 TCCTTCTAGC
*
23809849 ATACATATAATGTATTCAACAATTGATAATAGTT
1 ATACATATAACGTATTCAACAATTGATAATAGTT
* *
23809883 ATACGTATAACGTATTCAACAATTGGTAATA
1 ATACATATAACGTATTCAACAATTGATAATA
23809914 ACTATACAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (34 bp):
ATACATATAACGTATTCAACAATTGATAATAGTT
Found at i:23809920 original size:34 final size:34
Alignment explanation
Indices: 23809849--23809921 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
23809839 TCCTTCTAGC
* **
23809849 ATACATATAATGTATTCAACAATTGATAATAGTT
1 ATACATATAACGTATTCAACAATTGATAATAACT
* *
23809883 ATACGTATAACGTATTCAACAATTGGTAATAACT
1 ATACATATAACGTATTCAACAATTGATAATAACT
23809917 ATACA
1 ATACA
23809922 AGCATAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (34 bp):
ATACATATAACGTATTCAACAATTGATAATAACT
Found at i:23810448 original size:60 final size:57
Alignment explanation
Indices: 23810374--23810546 Score: 197
Period size: 60 Copynumber: 3.0 Consensus size: 57
23810364 TGATATTAAG
* *
23810374 GCTTAACTTTTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCACATTGA
1 GCTTGACTTTTTTTTA-TCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTGA
* *
23810432 GCTTGGACTTCTTTTTTTATCCAAGTTAGTCTTTTAACTT-AGCAATTATTCTCACATTGA
1 GCTT-GAC-T-TTTTTTTATCCAAGTTAGTCATTGAACTTGA-CAATTATTCTCACATTGA
** * * * *
23810492 GCTTGA-AATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTG
1 GCTTGACTTTTTTTTATCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTG
23810547 GAGGCATAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
56 39 0.39
57 1 0.01
58 4 0.04
59 5 0.05
60 42 0.42
61 8 0.08
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (57 bp):
GCTTGACTTTTTTTTATCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTGA
Found at i:23810534 original size:56 final size:57
Alignment explanation
Indices: 23810383--23810546 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 57
23810373 GGCTTAACTT
* **
23810383 TTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCACATTGAGCTTGGACTTCT
1 TTTTTTA-TCCAAGTTAGTCATTGAAC-TGACAATTATTCTCACATTGAGCTTGGA--TAA
* * *
23810444 TTTTTTATCCAAGTTAGTCTTTTAACTTAGCAATTATTCTCACATTGAGCTT-GA-AA
1 TTTTTTATCCAAGTTAGTCATTGAACTGA-CAATTATTCTCACATTGAGCTTGGATAA
* * *
23810500 TTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTG
1 TTTTTTATCCAAGTTAGTCATTGAACT-GACAATTATTCTCACATTG
23810547 GAGGCATAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
56 39 0.43
57 1 0.01
59 4 0.04
60 39 0.43
61 7 0.08
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTTTTATCCAAGTTAGTCATTGAACTGACAATTATTCTCACATTGAGCTTGGATAA
Found at i:23810779 original size:263 final size:264
Alignment explanation
Indices: 23810297--23810781 Score: 651
Period size: 263 Copynumber: 1.8 Consensus size: 264
23810287 ATATAAGAAA
*
23810297 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTTGGGCCTAAACTTGGCAAGTG
1 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
* *
23810362 TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCAC
66 TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAACTTGACAATTATTCTCAC
** * ** * * *
23810427 ATTGAGCTTGGACTTCTTTTTTTATCCAAGTTAGTCTTTTAACTTAGCAATTATTCTCACATTGA
131 ATTGAGCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACATTGA
23810492 GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
196 GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
23810557 TTAT
261 TTAT
* ** * *
23810561 TATTT-TTTACAACATTATAATAAAAAGGGTTAATGCATTGGTTGGGGTCTAAACTT-GTAAGTG
1 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
* * * *
23810624 TTCCT-ATATTAAGGTTTAACTTTTTTTTAGTCCAAGTTTGTATTTAAACTTTG-TAATTATTCT
66 TT--TGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAAC-TTGACAATTATTCT
23810687 CACATTGAGGC-TAAAC-T-TTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACA
128 CACATTGA-GCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACA
* * * *
23810749 TTGTGGCTTGAACCTTTTTTTTCCAAGTTAGTC
192 TTG-AGCTTGAA-ATTTTTTATCAAAGTTAGTC
23810782 CACGATATTT
Statistics
Matches: 191, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
261 42 0.22
262 16 0.08
263 122 0.64
264 11 0.06
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (264 bp):
TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAACTTGACAATTATTCTCAC
ATTGAGCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACATTGA
GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
TTAT
Found at i:23812838 original size:27 final size:26
Alignment explanation
Indices: 23812808--23812940 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 26
23812798 CACGTTAGGC
23812808 CGAAATACCCTTATAGGGTAAAATGAT
1 CGAAATACCC-TATAGGGTAAAATGAT
* *
23812835 CGAAATACCCCTGTAGAGTAAAATGA-
1 CGAAATA-CCCTATAGGGTAAAATGAT
23812861 CTGAAATACCCTATAGGGTAAAATGAT
1 C-GAAATACCCTATAGGGTAAAATGAT
*
23812888 CGAAATACCCCTGTAGGGTAAAATGAT
1 CGAAATA-CCCTATAGGGTAAAATGAT
*
23812915 CGAAATACACCCATAGGGTAAAATGA
1 CGAAATAC-CCTATAGGGTAAAATGA
23812941 CTGTTATACC
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
26 24 0.26
27 67 0.71
28 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (26 bp):
CGAAATACCCTATAGGGTAAAATGAT
Found at i:23812890 original size:53 final size:53
Alignment explanation
Indices: 23812808--23812940 Score: 214
Period size: 53 Copynumber: 2.5 Consensus size: 53
23812798 CACGTTAGGC
23812808 CGAAATACCCTTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGA-
1 CGAAATACCC-TATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
*
23812861 CTGAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGGGTAAAATGAT
1 C-GAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
*
23812915 CGAAATACACCCATAGGGTAAAATGA
1 CGAAATAC-CCTATAGGGTAAAATGA
23812941 CTGTTATACC
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
53 49 0.65
54 26 0.35
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (53 bp):
CGAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
Found at i:23812949 original size:27 final size:26
Alignment explanation
Indices: 23812809--23812956 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 26
23812799 ACGTTAGGCC
*
23812809 GAAATACCCTTATAGGGTAAAATGA-T
1 GAAATACCC-CATAGGGTAAAATGACT
* *
23812835 CGAAATACCCCTGTAGAGTAAAATGACT
1 -GAAATACCCC-ATAGGGTAAAATGACT
*
23812863 GAAATACCCTATAGGGTAAAATGA-T
1 GAAATACCCCATAGGGTAAAATGACT
*
23812888 CGAAATACCCCTGTAGGGTAAAATGA-T
1 -GAAATACCCC-ATAGGGTAAAATGACT
23812915 CGAAATACACCCATAGGGTAAAATGACT
1 -GAAATAC-CCCATAGGGTAAAATGACT
**
23812943 GTTATACCCC-TAGG
1 GAAATACCCCATAGG
23812957 AGATGGAATG
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
25 5 0.05
26 24 0.23
27 70 0.67
28 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACT
Found at i:23834564 original size:15 final size:15
Alignment explanation
Indices: 23834546--23834578 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23834536 CAAATGCCAA
23834546 AATAATAAATACAAC
1 AATAATAAATACAAC
*
23834561 AATAATAAATACATC
1 AATAATAAATACAAC
23834576 AAT
1 AAT
23834579 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:23834980 original size:28 final size:28
Alignment explanation
Indices: 23834951--23835012 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
23834941 ATACGTCTAA
*
23834951 ATACAAAAATATTTATTAAAAAAATAAAAT
1 ATACAAAAATATTCA-T-AAAAAATAAAAT
*
23834981 ATAGAAAAATATTCATAAAAAATAAATAT
1 ATACAAAAATATTCATAAAAAATAAA-AT
23835010 ATA
1 ATA
23835013 TACATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 6 0.21
30 13 0.45
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
ATACAAAAATATTCATAAAAAATAAAAT
Found at i:23835000 original size:29 final size:30
Alignment explanation
Indices: 23834955--23835012 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
23834945 GTCTAAATAC
*
23834955 AAAAATATTTATTAAAAAAATAAA-ATATAG
1 AAAAATATTCATT-AAAAAATAAATATATAG
23834985 AAAAATATTCA-TAAAAAATAAATATATA
1 AAAAATATTCATTAAAAAATAAATATATA
23835013 TACATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 6 0.23
30 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAAATATTCATTAAAAAATAAATATATAG
Found at i:23835029 original size:27 final size:28
Alignment explanation
Indices: 23834999--23835059 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
23834989 ATATTCATAA
*
23834999 AAAATAAAT-AT-ATATACATATGTAGAT
1 AAAATAAATAATAAT-TACATATATAGAT
*
23835026 AAAAT-AATAATAATTACATATATATAT
1 AAAATAAATAATAATTACATATATAGAT
23835053 AAAATAA
1 AAAATAA
23835060 TTACATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATAAATAATAATTACATATATAGAT
Found at i:23835261 original size:6 final size:6
Alignment explanation
Indices: 23835250--23835281 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
23835240 GCGGCGGACC
23835250 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
23835282 TGTGTAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:23836709 original size:44 final size:44
Alignment explanation
Indices: 23836661--23836776 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
23836651 CTAATCCACT
* * *
23836661 CCACTACAACTTTAGGGAGATAGGA-TTTTTTCATTCAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTTCTT-ATTCAGTCTACC
* *
23836705 CCACTATAA-TTTCAAGGGA-ATAAGACTTTCTTATTCAGTCTACT
1 CCACTACAACTTT--AGGGAGATAAGACTTTCTTATTCAGTCTACC
*
23836749 CCACTACAACTTCAGGGAGATAAGACTT
1 CCACTACAACTTTAGGGAGATAAGACTT
23836777 ACGCGATCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
43 8 0.13
44 40 0.67
45 12 0.20
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
CCACTACAACTTTAGGGAGATAAGACTTTCTTATTCAGTCTACC
Found at i:23837490 original size:72 final size:72
Alignment explanation
Indices: 23837357--23837502 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 72
23837347 TGCTATTTTT
* * * *
23837357 AACCTGTTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTATTGGTGCA
1 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
23837422 GGAAGGC
66 GGAAGGC
* * **
23837429 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTTTTGGTTTA
1 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
23837494 GGAAGGC
66 GGAAGGC
23837501 AA
1 AA
23837503 GATCTGTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (72 bp):
AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
GGAAGGC
Found at i:23837585 original size:88 final size:88
Alignment explanation
Indices: 23837442--23837603 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
23837432 CTGCTCCGCT
*** **
23837442 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTTTTGGTTTAGGAAGGCAAGATC
1 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
23837507 TGTTATCTTTAACCTACTTCGCA
66 TGTTATCTTTAACCTACTTCGCA
*
23837530 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGCCGGTGCAGGAAGGCAAGATC
1 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
23837595 TGTTATCTT
66 TGTTATCTT
23837604 CACTGATCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
TGTTATCTTTAACCTACTTCGCA
Found at i:23841413 original size:24 final size:21
Alignment explanation
Indices: 23841374--23841417 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
23841364 TATATTTCAA
23841374 AAAGAAAAAAAACAAATAAAT
1 AAAGAAAAAAAACAAATAAAT
23841395 AAAGAATAATAAAACCAAATAAA
1 AAAGAA-AA-AAAA-CAAATAAA
23841418 ATTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 4 0.20
24 8 0.40
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (21 bp):
AAAGAAAAAAAACAAATAAAT
Found at i:23842559 original size:16 final size:16
Alignment explanation
Indices: 23842529--23842579 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
23842519 AATTAATTGA
*
23842529 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
23842544 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
* *
23842560 ATTATTAGTCTTTTATT
1 TTTATTAGTC-ATTATT
23842577 TTT
1 TTT
23842580 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:23842586 original size:7 final size:8
Alignment explanation
Indices: 23842570--23842597 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
23842560 ATTATTAGTC
23842570 TTTTATTT
1 TTTTATTT
23842578 TTTTATTT
1 TTTTATTT
23842586 TTTTATTT
1 TTTTATTT
23842594 TTTT
1 TTTT
23842598 CTCTTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:23847763 original size:25 final size:25
Alignment explanation
Indices: 23847709--23847768 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
23847699 AGTTCAGATC
23847709 CAAAAAAAAAAATCAAAGTCAAAAGT
1 CAAAAAAAAAAATC-AAGTCAAAAGT
23847735 -AAAAAAGGAAAAATC-AGTC-AAAGT
1 CAAAAAA--AAAAATCAAGTCAAAAGT
*
23847759 CAAAATAAAA
1 CAAAAAAAAA
23847769 TATGAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 3 0.10
24 5 0.17
25 15 0.50
27 7 0.23
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (25 bp):
CAAAAAAAAAAATCAAGTCAAAAGT
Found at i:23850744 original size:415 final size:415
Alignment explanation
Indices: 23849974--23850805 Score: 1655
Period size: 415 Copynumber: 2.0 Consensus size: 415
23849964 TAACATGTCC
23849974 CTATTTTGTAAAGAAGACCTTTTTCAGAGGAGCACTGATCCTGAGTGAGATTGCTAATCCTATAA
1 CTATTTTGTAAAGAAGACCTTTTTCAGAGGAGCACTGATCCTGAGTGAGATTGCTAATCCTATAA
23850039 ACTCAGATCCAATCAAGAAAAACTTCCTTTAAAAAAGAAAAAAGGACCGCAAAGGGCACTTTTAG
66 ACTCAGATCCAATCAAGAAAAACTTCCTTTAAAAAAGAAAAAAGGACCGCAAAGGGCACTTTTAG
23850104 TCAAAAAAAATGGAAAAACAAAAAAAAAGAAAATGGAGAGGCTAAGGGGGAAAACCCGTAAAGGG
131 TCAAAAAAAATGGAAAAACAAAAAAAAAGAAAATGGAGAGGCTAAGGGGGAAAACCCGTAAAGGG
23850169 CACCTTAGGCCAAAGGGGATTTGAGTTGAAAACCCGAAAAGGGCGGCTCAAATATTGATTAAAGA
196 CACCTTAGGCCAAAGGGGATTTGAGTTGAAAACCCGAAAAGGGCGGCTCAAATATTGATTAAAGA
23850234 GGGGCATGAGGTGATCAGAGCAACTCGAATTTTGATCATATTGGGGCATGTGGTAATCTTGTTAA
261 GGGGCATGAGGTGATCAGAGCAACTCGAATTTTGATCATATTGGGGCATGTGGTAATCTTGTTAA
23850299 TGCCTGAATCAACAGGAAAGGATAGGTGACATCTTGGGGCATCGACAAAGCATTGTAGATCTCCT
326 TGCCTGAATCAACAGGAAAGGATAGGTGACATCTTGGGGCATCGACAAAGCATTGTAGATCTCCT
23850364 AAACACATGTCAAACTCAAAATGGT
391 AAACACATGTCAAACTCAAAATGGT
23850389 CTATTTTGTAAAGAAGACCTTTTTCAGAGGAGCACTGATCCTGAGTGAGATTGCTAATCCTATAA
1 CTATTTTGTAAAGAAGACCTTTTTCAGAGGAGCACTGATCCTGAGTGAGATTGCTAATCCTATAA
23850454 ACTCAGATCCAATCAAGAAAAACTTCCTTTAAAAAAGAAAAAAGGACCGCAAAGGGCACTTTTAG
66 ACTCAGATCCAATCAAGAAAAACTTCCTTTAAAAAAGAAAAAAGGACCGCAAAGGGCACTTTTAG
23850519 TCAAAAAAAATGGAAAAACAAAAAAAAAGAAAATGGAGAGGCTAAGGGGGAAAACCCGTAAAGGG
131 TCAAAAAAAATGGAAAAACAAAAAAAAAGAAAATGGAGAGGCTAAGGGGGAAAACCCGTAAAGGG
*
23850584 CACCTTAGGCCAAAGGGGATTTGAGTTGAAAACCCGAAAAGGGCGGCTCAAATATTGATTAAAGT
196 CACCTTAGGCCAAAGGGGATTTGAGTTGAAAACCCGAAAAGGGCGGCTCAAATATTGATTAAAGA
23850649 GGGGCATGAGGTGATCAGAGCAACTCGAATTTTGATCATATTGGGGCATGTGGTAATCTTGTTAA
261 GGGGCATGAGGTGATCAGAGCAACTCGAATTTTGATCATATTGGGGCATGTGGTAATCTTGTTAA
23850714 TGCCTGAATCAACAGGAAAGGATAGGTGACATCTTGGGGCATCGACAAAGCATTGTAGATCTCCT
326 TGCCTGAATCAACAGGAAAGGATAGGTGACATCTTGGGGCATCGACAAAGCATTGTAGATCTCCT
23850779 AAACACATGTCAAACTCAAAATGGT
391 AAACACATGTCAAACTCAAAATGGT
23850804 CT
1 CT
23850806 TCAGAAAGTT
Statistics
Matches: 416, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
415 416 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (415 bp):
CTATTTTGTAAAGAAGACCTTTTTCAGAGGAGCACTGATCCTGAGTGAGATTGCTAATCCTATAA
ACTCAGATCCAATCAAGAAAAACTTCCTTTAAAAAAGAAAAAAGGACCGCAAAGGGCACTTTTAG
TCAAAAAAAATGGAAAAACAAAAAAAAAGAAAATGGAGAGGCTAAGGGGGAAAACCCGTAAAGGG
CACCTTAGGCCAAAGGGGATTTGAGTTGAAAACCCGAAAAGGGCGGCTCAAATATTGATTAAAGA
GGGGCATGAGGTGATCAGAGCAACTCGAATTTTGATCATATTGGGGCATGTGGTAATCTTGTTAA
TGCCTGAATCAACAGGAAAGGATAGGTGACATCTTGGGGCATCGACAAAGCATTGTAGATCTCCT
AAACACATGTCAAACTCAAAATGGT
Found at i:23851996 original size:46 final size:46
Alignment explanation
Indices: 23851918--23852037 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
23851908 GTAGATCGCA
* * * *
23851918 TCAGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
*
23851964 TCAGATCTTATCTCCCTGAGATTATAGCGGAATAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
*
23852010 TTAGATCTTATCTCCCTGAGATTACAGC
1 TCAGATCTTATCTCCCTGAGATTACAGC
23852038 AGAGCAGATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
Found at i:23852106 original size:44 final size:42
Alignment explanation
Indices: 23852058--23852174 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 42
23852048 GAAGCTAGTA
*
23852058 ATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAGG
1 ATCCTATCTCACTGAGATTACAGTGGAGTAGATT-AAAT-AAGG
** * ** *
23852102 ATCCTATCTCTTTGA-AGTTACAGTAGAGTAGATTGCATCAGG
1 ATCCTATCTCACTGAGA-TTACAGTGGAGTAGATTAAATAAGG
* *
23852144 -TCTTATCTCACTGAGATTACAGTGGAATAGA
1 ATCCTATCTCACTGAGATTACAGTGGAGTAGA
23852175 CCGAAGAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.40
42 4 0.07
43 3 0.05
44 29 0.48
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (42 bp):
ATCCTATCTCACTGAGATTACAGTGGAGTAGATTAAATAAGG
Found at i:23852173 original size:221 final size:220
Alignment explanation
Indices: 23851790--23852195 Score: 672
Period size: 221 Copynumber: 1.8 Consensus size: 220
23851780 TGAAGAGTTC
* *
23851790 TAGATCTTATCTCCCTAAGATTACAGCGGATCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
* * * *
23851855 TACAGTGGAGCGGATTAAAATCAAGGATCTTGTCTTTCGGAAGTTACGGTAGAGTAGATCGCATC
66 TACAGTGGAGCAGATTAAAATAAAGGATCTTCTCTTTC-GAAGTTACAGTAGAGTAGATCGCATC
*
23851920 AGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA
130 AGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGA
23851985 TTATAGCGGAATAGACCAAAGAATTT
195 TTATAGCGGAATAGACCAAAGAATTT
*
23852011 TAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
* *
23852076 TACAGTGGAGTAGATTAAAATAAAGGATCCTATCTCTTT-GAAGTTACAGTAGAGTAGATTGCAT
66 TACAGTGGAGCAGATTAAAATAAAGGAT-CT-TCTCTTTCGAAGTTACAGTAGAGTAGATCGCAT
23852140 CAGGTCTTATCTCAC-TGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTAT
129 CAGGTCTTATCTC-CTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTAT
23852196 TTTCCCTGGC
Statistics
Matches: 172, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
221 163 0.95
222 3 0.02
223 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (220 bp):
TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
TACAGTGGAGCAGATTAAAATAAAGGATCTTCTCTTTCGAAGTTACAGTAGAGTAGATCGCATCA
GGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGAT
TATAGCGGAATAGACCAAAGAATTT
Found at i:23852273 original size:50 final size:50
Alignment explanation
Indices: 23852219--23852802 Score: 372
Period size: 50 Copynumber: 11.7 Consensus size: 50
23852209 GCAGTGGAAT
*
23852219 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
23852269 AGATTAAAGCTACAAT-AGTGAATCTTATTTCCCAGGCAGTGCAGTGGAAT
1 AGATTAAAGCCAC-ATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
*
23852319 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
23852369 AGATTAAAGCTACAAT-AGTGAATCTTATTTCCCAGGCAGTGCAGTGGAAT
1 AGATTAAAGCCAC-ATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
23852419 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * * * * * **
23852469 AGACTAAAGCCATAGCGGTGAGTGTTACTTCCCTGGCAATACAGTGAAGC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * **
23852519 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAGG
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** * * * * * **
23852569 GGGTTAAAGTCACAAT-AACGAATCTCACTCTCTCAGCCAGTGCAG-TAGAGC
1 AGATTAAAGCCAC-ATCAGTGAATCTTACT-TCCCCGACATTGCAGTTA-AAA
* * *** * *
23852620 AGATTAAAGCCACAAT-GGTGAATCTTGCTTTTTCGACATTGTAGCTAAAA
1 AGATTAAAGCCAC-ATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** * * * *
23852670 AGATTAAAGCTACAACAGTGAATCTTACTT-CCCAAGCGGTGTAATGGAACA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGA-CATTGCAGT-TAAAA
* *
23852721 A-ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
23852770 AGATTAAAGCTACAGCGGCGAATCTTACTTCCC
1 AGATTAAAGCCACATCAGTGAATCTTACTTCCC
23852803 TAGCAGTGCA
Statistics
Matches: 396, Mismatches: 125, Indels: 26
0.72 0.23 0.05
Matches are distributed among these distances:
49 10 0.03
50 338 0.85
51 48 0.12
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACATCAGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:23852314 original size:100 final size:100
Alignment explanation
Indices: 23852189--23852877 Score: 749
Period size: 100 Copynumber: 6.9 Consensus size: 100
23852179 AGAATTACAG
* * *
23852189 ATCTTATTTTCCCTGGCAGTGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
1 ATCTTA-TTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*
23852254 ACATTGCAGTTAAAAAGATTAAAGCTACAATAGTGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
* *
23852290 ATCTTATTTCCCAGGCAGTGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA
1 ATCTTATTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
*
23852355 CATTGCAGTTAAAAAGATTAAAGCTACAATAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
* * *
23852390 ATCTTATTTCCCAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
1 ATCTTATTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
* * * * *
23852455 CATTGCAGTTAAAAAGACTAAAGCCATAGCGGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
* * * * * * * *
23852490 GTGTTACTTCCCTGGCAATACAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCG
1 ATCTTATTTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG
*** * * **
23852554 ACATTGCAGTTAAGGGGGTTAAAG-TCACAATAACGA
65 ACATTGCAGTTAAAAAGATTAAAGCT-ACAACAGTGA
* * * * * * ***
23852590 ATCTCACTCTCTCAGCCAGTGCAGTAGAGCAGATTAAAGCCACAAT-GGTGAATCTTGCTTTTTC
1 ATCTTA-TTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
* *
23852654 GACATTGTAGCTAAAAAGATTAAAGCTACAACAGTGA
64 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
* * * * * *
23852691 ATCTTACTTCCCAAGCGGTGTAATGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
1 ATCTTATTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
* * *
23852756 CATTGCAGTTAAAAAGATTAAAGCTACAGCGGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
* * * * *
23852791 ATCTTACTTCCCTA-GCAGTGCAGTGGAACGGATTAAAGCTACAAT-GGCGAATCTTGCTTCCTC
1 ATCTTATTTCCC-AGGCAGTGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCC
** **
23852854 GACATCACAGTTAAGCAGATTAAA
64 GACATTGCAGTTAAAAAGATTAAA
23852878 ATTGTGAGTT
Statistics
Matches: 493, Mismatches: 86, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
99 5 0.01
100 403 0.82
101 81 0.16
102 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
ATCTTATTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAACAGTGA
Found at i:23852875 original size:50 final size:47
Alignment explanation
Indices: 23852238--23852877 Score: 199
Period size: 50 Copynumber: 12.8 Consensus size: 47
23852228 CCACATCAGT
* * *
23852238 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGT
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
** * * * * * *
23852288 GAATCTTATTTCCCAGGCAGTGCAGTGGAATAGATTAAAGCCAC-ATCAGT
1 GAATCTTGCTTCCC-GACA-TGCAGT-TAACAGATTAAAGCTACAAT-GGC
* * *
23852338 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGT
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
** * * * * *
23852388 GAATCTTATTTCCCAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGC
1 GAATCTTGCTTCCC-GACA-TGCAGT-TAACAGATTAAAGCTACAATGGC
* * * * ** *
23852438 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCATAGCGGT
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
* * * * * * * * *
23852488 GAGTGTTACTTCCCTGGCAATACAGTGAAGCAGATTAAAGCCACAACGGT
1 GAATCTTGCTTCCC-GAC-ATGCAGTTAA-CAGATTAAAGCTACAATGGC
** * **
23852538 GAATCTTGCTTTCCCGACATTGCAGTTAAGGGGGTTAAAG-TCACAATAAC
1 GAATCTTGC-TTCCCGACA-TGCAGTTAA-CAGATTAAAGCT-ACAATGGC
** * * * *
23852588 GAATCTCACTCTCTCAGCCAGTGCAG-TAGAGCAGATTAAAGCCACAATGGT
1 GAATCTTGCT-TC-CCGACA-TGCAGTTA-A-CAGATTAAAGCTACAATGGC
** * * * ** *
23852639 GAATCTTGCTTTTTCGACATTGTAGCTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTGC-TTCCCGACA-TGCAG-TTAACAGATTAAAGCTACAATGGC
* * * * * * * * *
23852689 GAATCTTACTTCCCAAGCGGTGTAATGGAACAAATTAAAGCCAC-ATCGGT
1 GAATCTTGCTTCCCGA-C-ATGCAGT-TAACAGATTAAAGCTACAAT-GGC
* **
23852739 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAGCGGC
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
* * * *
23852789 GAATCTTACTTCCCTAGCAGTGCAGTGGAACGGATTAAAGCTACAATGGC
1 GAATCTTGCTTCCCGA-CA-TGCAGT-TAACAGATTAAAGCTACAATGGC
*
23852839 GAATCTTGCTTCCTCGACATCACAGTTAAGCAGATTAAA
1 GAATCTTGCTTCC-CGACAT-GCAGTTAA-CAGATTAAA
23852878 ATTGTGAGTT
Statistics
Matches: 434, Mismatches: 120, Indels: 72
0.69 0.19 0.12
Matches are distributed among these distances:
49 28 0.06
50 352 0.81
51 52 0.12
52 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (47 bp):
GAATCTTGCTTCCCGACATGCAGTTAACAGATTAAAGCTACAATGGC
Found at i:23853153 original size:26 final size:25
Alignment explanation
Indices: 23853098--23853171 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
23853088 CATATATTTC
* * *
23853098 AAAAAGAAAAAAAACAAAT-AAATA
1 AAAAATAATAAAACCAAATAAAATA
23853122 AAAAATAATAAAACCAAATAAAATTA
1 AAAAATAATAAAACCAAATAAAA-TA
* * *
23853148 ATAAATAATAGAATCCAATTAAAA
1 AAAAATAATA-AAACCAAATAAAA
23853172 GTCCATTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.39
25 3 0.07
26 11 0.27
27 11 0.27
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAATAATAAAACCAAATAAAATA
Found at i:23857492 original size:15 final size:15
Alignment explanation
Indices: 23857474--23857506 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23857464 CAAATGCCAA
23857474 AATAATAAATACAAC
1 AATAATAAATACAAC
*
23857489 AATAATAAATACATC
1 AATAATAAATACAAC
23857504 AAT
1 AAT
23857507 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:23857929 original size:29 final size:32
Alignment explanation
Indices: 23857884--23857943 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
23857874 GTATAAATAC
*
23857884 AAAAATATTTATTAAAAAA-ATAAA-ATATAG
1 AAAAATATTCATTAAAAAATATAAATATATAG
23857914 AAAAATATTCA-TAAAAAATATAAATATATA
1 AAAAATATTCATTAAAAAATATAAATATATA
23857944 TACATATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
30 15 0.56
31 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (32 bp):
AAAAATATTCATTAAAAAATATAAATATATAG
Found at i:23857944 original size:23 final size:23
Alignment explanation
Indices: 23857905--23857949 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23857895 TTAAAAAAAT
*
23857905 AAAATATAGAAAAATATTCATAA
1 AAAATATAGAAAAATATACATAA
*
23857928 AAAATATA-AATATATATACATA
1 AAAATATAGAA-AAATATACATA
23857950 TGTAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATATAGAAAAATATACATAA
Found at i:23858188 original size:6 final size:6
Alignment explanation
Indices: 23858177--23858202 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23858167 GCGACGGACC
23858177 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
23858203 TGTGCAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:23860810 original size:5 final size:5
Alignment explanation
Indices: 23860802--23860827 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23860792 GAGATGGAAT
23860802 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
23860828 ATATTTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:23867328 original size:157 final size:157
Alignment explanation
Indices: 23867162--23867471 Score: 548
Period size: 157 Copynumber: 2.0 Consensus size: 157
23867152 ATAAGAATAT
*
23867162 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
23867227 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
23867292 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
23867319 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
23867384 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
* * *
23867449 TAATCATTTACCCAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
23867472 ATGCTAAGGG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:23867535 original size:16 final size:16
Alignment explanation
Indices: 23867514--23867544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23867504 TCCATTATGC
23867514 TATTACACCTCTATTT
1 TATTACACCTCTATTT
*
23867530 TATTACGCCTCTATT
1 TATTACACCTCTATT
23867545 CCAATACAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTACACCTCTATTT
Found at i:23871419 original size:6 final size:6
Alignment explanation
Indices: 23871403--23871433 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
23871393 CATTATCAGG
23871403 ATATCAA ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA
23871434 GAATGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:23872400 original size:41 final size:41
Alignment explanation
Indices: 23872308--23872401 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
23872298 TGTTTTGTAG
* * * *
23872308 GTCTTGAGACTTAGGGGTTATGTTTCGAGACCTATCCTCAT
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTATCCTCAT
* *
23872349 GTCTCCAGACTTAGGGGGTATGTCTAGATACCTAGTCGC-C-T
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTA-TC-CTCAT
23872390 GTCTCGAGACTT
1 GTCTCGAGACTT
23872402 TGGGTCTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 40 0.91
42 3 0.07
43 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTATCCTCAT
Found at i:23875829 original size:19 final size:20
Alignment explanation
Indices: 23875778--23875829 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
23875768 TTTGGGTCTT
*
23875778 GGTCTCAATTTTTGGTTCTCA
1 GGTC-CAATTTTTGATTCTCA
* *
23875799 GTTCCAACTTTTGATT-TCA
1 GGTCCAATTTTTGATTCTCA
23875818 GGTCCAATTTTT
1 GGTCCAATTTTT
23875830 AAGTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 13 0.50
20 10 0.38
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (20 bp):
GGTCCAATTTTTGATTCTCA
Found at i:23877840 original size:43 final size:43
Alignment explanation
Indices: 23877726--23877841 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
23877716 TATGCGTTTT
* * *
23877726 CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATCA
** *
23877769 TGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGA-TCTGTGATCA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATCA
*
23877812 CATGTAAGACCACGTATGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
23877842 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.05
43 53 0.91
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATCA
Found at i:23883771 original size:18 final size:21
Alignment explanation
Indices: 23883748--23883785 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
23883738 TTGTCCAGCT
23883748 TGATCA-A-GTCTTG-CTATA
1 TGATCACAGGTCTTGTCTATA
23883766 TGATCACAGGTCTTGTCTAT
1 TGATCACAGGTCTTGTCTAT
23883786 GTATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 1 0.06
20 6 0.35
21 4 0.24
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
TGATCACAGGTCTTGTCTATA
Found at i:23889431 original size:587 final size:587
Alignment explanation
Indices: 23888319--23889496 Score: 2196
Period size: 587 Copynumber: 2.0 Consensus size: 587
23888309 AAAGAAAACT
* *
23888319 TAAAGTATGAAAACCTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGTCG
1 TAAAGTATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
23888384 TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
66 TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
*
23888449 CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTCTTTGTGTCACAACA
131 CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAACA
*
23888514 TTAACGACAGTATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
196 TTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
23888579 TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
261 TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
*
23888644 TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAGGCCTCATTCGG
326 TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCGG
* *
23888709 CCCCTAAGGTCGATAAAAGACTCAAACTACACTTTTTACTGAATTTACCTAAACTAATAAAACAT
391 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
23888774 GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
456 GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
*
23888839 ACACCAAATTATGACAGATCAAACTCCCCCACGCTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
521 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
23888904 AA
586 AA
23888906 TAAAGTATGAAAAACTATCATT-ATACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCC
1 TAAAGTATGAAAAACTATCATTCA-ACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCC
* *
23888970 GTCGTCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACAC
65 GTCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACAC
*
23889035 CCTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGTTACGACACCATAGTATTTGTGTCACAAC
130 CCTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAAC
*
23889100 ATTAACGACAATATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGA
195 ATTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGA
* *
23889165 ATTTTTCTCATTATGTTGCGATATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTC
260 ATTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTC
*
23889230 TTATGCCTTTGAATGGTCTCCTGCACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCG
325 TTATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCG
23889295 GCCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACA
390 GCCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACA
*
23889360 TGACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGC
455 TGACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGC
23889425 TACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCA
520 TACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCA
23889490 AAA
585 AAA
23889493 TAAA
1 TAAA
23889497 ATAAAAGCAT
Statistics
Matches: 574, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
586 1 0.00
587 573 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (587 bp):
TAAAGTATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAACA
TTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCGG
CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
AA
Found at i:23892465 original size:21 final size:20
Alignment explanation
Indices: 23892437--23892475 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23892427 GAAATTAGGG
*
23892437 TTTGAAGAATTTTGAGATAA
1 TTTGAAGAATTTAGAGATAA
*
23892457 TTTGAAAGAGTTTAGAGAT
1 TTTG-AAGAATTTAGAGAT
23892476 TGAAAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGAAGAATTTAGAGATAA
Found at i:23905603 original size:17 final size:17
Alignment explanation
Indices: 23905571--23905604 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23905561 GATAAGTATA
**
23905571 TATTGTCATTGGATTTT
1 TATTGTCATTACATTTT
23905588 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
23905605 CATATTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:23906158 original size:2 final size:2
Alignment explanation
Indices: 23906151--23906188 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
23906141 CTTATTCCAA
* *
23906151 AT AT AT AT AT AT AT AT AT AT AT A- AT GT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23906189 CTTAGTATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23912146 original size:12 final size:12
Alignment explanation
Indices: 23912129--23912190 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
23912119 AATTTAATAG
23912129 ATTTAATATTAA
1 ATTTAATATTAA
23912141 ATTTAATA-TAA
1 ATTTAATATTAA
23912152 TATTT-ATATTGATA
1 -ATTTAATATT-A-A
23912166 AGTATT-ATATT-A
1 A-T-TTAATATTAA
23912178 ATTTAATATTAA
1 ATTTAATATTAA
23912190 A
1 A
23912191 GTGATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.05
11 12 0.29
12 17 0.40
13 2 0.05
14 2 0.05
15 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:23912185 original size:58 final size:58
Alignment explanation
Indices: 23912071--23912185 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 58
23912061 AATGATTATC
*
23912071 TTAATATTAAATTAAATTAATATTTATCTTATAGAAAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATTAATATTTA--TTATAGAAAAATATTATATTAATTTAATAGAT
* * * *
23912131 TTAATATTAAATTTAATATAATATTTA-TATTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAAT-TAATATTTATTATAGAAAAATATTATATTAATTTAATA
23912186 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 24 0.49
60 16 0.33
61 9 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (58 bp):
TTAATATTAAATTAAATTAATATTTATTATAGAAAAATATTATATTAATTTAATAGAT
Found at i:23913930 original size:5 final size:5
Alignment explanation
Indices: 23913922--23914004 Score: 67
Period size: 5 Copynumber: 16.6 Consensus size: 5
23913912 CTTTAATATT
* * * ** *
23913922 TCATA TCATA TCATA TCATA TCATA TCATA ACGTA ACGGA TCATG TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* * ***
23913972 TCATA TCATA CCATT TTGGA TCATA TCATA TCA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCA
23914005 CATAATGTCC
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (5 bp):
TCATA
Found at i:23913965 original size:30 final size:30
Alignment explanation
Indices: 23913931--23914004 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
23913921 TTCATATCAT
*
23913931 ATCATATCATATCATATCATAACGTAACGG
1 ATCATATCATATCATATCATAACATAACGG
* * ***
23913961 ATCATGTCATATCATATCATACCATTTTGG
1 ATCATATCATATCATATCATAACATAACGG
23913991 ATCATATCATATCA
1 ATCATATCATATCA
23914005 CATAATGTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (30 bp):
ATCATATCATATCATATCATAACATAACGG
Found at i:23914350 original size:19 final size:18
Alignment explanation
Indices: 23914326--23914362 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
23914316 TGCAAATCAC
*
23914326 AACATATCACATTATCAAA
1 AACATATAACA-TATCAAA
23914345 AACATATAACATATCAAA
1 AACATATAACATATCAAA
23914363 GTGTCTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (18 bp):
AACATATAACATATCAAA
Found at i:23915032 original size:20 final size:22
Alignment explanation
Indices: 23914995--23915039 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
23914985 AAGAAGAAGG
23914995 AGAAAAGAAAAGAAAATAAAGA
1 AGAAAAGAAAAGAAAATAAAGA
*
23915017 AGAAAAG-AAA-AAAATAGAGA
1 AGAAAAGAAAAGAAAATAAAGA
23915037 AGA
1 AGA
23915040 GAGGGAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AGAAAAGAAAAGAAAATAAAGA
Found at i:23920256 original size:14 final size:14
Alignment explanation
Indices: 23920237--23920275 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
23920227 TTACACACAT
23920237 ATATAAATATTATA
1 ATATAAATATTATA
23920251 ATAT-AA-A--ATA
1 ATATAAATATTATA
23920261 ATATAAATATTATA
1 ATATAAATATTATA
23920275 A
1 A
23920276 ACAATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 2 0.10
13 2 0.10
14 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATAAATATTATA
Found at i:23920269 original size:16 final size:16
Alignment explanation
Indices: 23920235--23920276 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23920225 TCTTACACAC
*
23920235 ATATATAAATATTATA
1 ATATATAAATAATATA
23920251 ATATA-AAATAATATAA
1 ATATATAAATAATAT-A
23920267 ATATTATAAA
1 ATA-TATAAA
23920277 CAATTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 2 0.09
18 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATAAATAATATA
Found at i:23921258 original size:17 final size:16
Alignment explanation
Indices: 23921216--23921262 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
23921206 ACTTATTCAC
23921216 TTTAATATTAAATTAA
1 TTTAATATTAAATTAA
* *
23921232 TATAAGTATTAGATTAAA
1 TTTAA-TATTAAATT-AA
23921250 TTTAATATTAAAT
1 TTTAATATTAAAT
23921263 CTATTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 4 0.16
17 15 0.60
18 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTAATATTAAATTAA
Found at i:23924132 original size:26 final size:26
Alignment explanation
Indices: 23924096--23924150 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23924086 TACACTTAGA
23924096 AATATCCCTAAAAGTGTCGTATAAGG
1 AATATCCCTAAAAGTGTCGTATAAGG
23924122 AATATCCCTAAAAGTGTCGTATAAGG
1 AATATCCCTAAAAGTGTCGTATAAGG
23924148 AAT
1 AAT
23924151 CAACTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (26 bp):
AATATCCCTAAAAGTGTCGTATAAGG
Found at i:23926469 original size:42 final size:41
Alignment explanation
Indices: 23926390--23926566 Score: 230
Period size: 42 Copynumber: 4.2 Consensus size: 41
23926380 TCCAGCACTT
* * * *
23926390 AGCCTGCTAGACATATAGTTTGA-AATGTTTCAACGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTC-ACGGCATTA
23926431 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCATCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCA-CGGCATTA
* * *
23926473 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCA-CGGCATTA
* *
23926515 AGCCTGCTAGACGTAAAGTCTGATCTTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCAC-GGCATTA
23926557 AGCCTGCTAG
1 AGCCTGCTAG
23926567 GCGCTAAGCC
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 22 0.18
42 98 0.82
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACGGCATTA
Found at i:23926518 original size:84 final size:83
Alignment explanation
Indices: 23926390--23926566 Score: 257
Period size: 84 Copynumber: 2.1 Consensus size: 83
23926380 TCCAGCACTT
* * *
23926390 AGCCTGCTAGACATATAGTTTGAAATGTTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
*
23926455 ATTGTTTCA-TCGGCATTA
66 ATTGTTTCACT-GGCAATA
* * *
23926473 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACATAAAGTCTGAAA-TATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGA
*
23926538 TCTTGTTTCACTGGCAATA
65 TATTGTTTCACTGGCAATA
23926557 AGCCTGCTAG
1 AGCCTGCTAG
23926567 GCGCTAAGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
83 21 0.25
84 61 0.73
85 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (83 bp):
AGCCTGCTAGACATAAAGTCTGAAATATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
ATTGTTTCACTGGCAATA
Found at i:23937414 original size:6 final size:6
Alignment explanation
Indices: 23937405--23937459 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
23937395 AATTACACTC
23937405 TTTATT TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
23937452 TTTATT TT
1 TTTATT TT
23937460 GTAGGTAGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:23937735 original size:22 final size:22
Alignment explanation
Indices: 23937704--23937751 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23937694 AGAAAAAAAA
23937704 CCTAACCTTTCACCCATCAAAT
1 CCTAACCTTTCACCCATCAAAT
* * *
23937726 CCTAAGCTTTCACCTATCACAT
1 CCTAACCTTTCACCCATCAAAT
23937748 CCTA
1 CCTA
23937752 GCCATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.40, G:0.02, T:0.29
Consensus pattern (22 bp):
CCTAACCTTTCACCCATCAAAT
Found at i:23940732 original size:12 final size:12
Alignment explanation
Indices: 23940715--23940739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23940705 ATGCAATATA
23940715 TCCTTCATTATT
1 TCCTTCATTATT
23940727 TCCTTCATTATT
1 TCCTTCATTATT
23940739 T
1 T
23940740 TTTGTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCCTTCATTATT
Found at i:23946155 original size:42 final size:42
Alignment explanation
Indices: 23946068--23946241 Score: 233
Period size: 42 Copynumber: 4.2 Consensus size: 42
23946058 GACACTTAGT
* * * * *
23946068 CTGCTAGACATATAGTCTGA-AATGTTTCGCCGGCATTAAGT
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
*
23946109 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAATC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * *
23946151 CTGCTAGACGTAAAGTCTAAAATTATTTCACCGGCATTAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * *
23946193 CTGCTAAACGTAAAGTCTGATATTGTTTCACTGGCAATAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
23946235 CTGCTAG
1 CTGCTAG
23946242 GCGCTAAGCC
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 18 0.16
42 97 0.84
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
Found at i:23947183 original size:4 final size:4
Alignment explanation
Indices: 23947174--23947204 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
23947164 TACAATAGAT
23947174 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
23947205 TTGATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:23950030 original size:43 final size:43
Alignment explanation
Indices: 23949967--23950150 Score: 269
Period size: 43 Copynumber: 4.3 Consensus size: 43
23949957 TTGGGATTCA
* *
23949967 TGTAAGACTATAGCTAGGCTATTGGCATCAATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
* **
23950010 TGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
**
23950053 TGTAAGACCATAGCTGGGCTATTGGCATTGATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
** *
23950096 TGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATTTCCA
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTT-CG
23950140 TGTAAGACCAT
1 TGTAAGACCAT
23950151 GATTGGGACA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 117 0.91
44 12 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
Found at i:23950067 original size:86 final size:86
Alignment explanation
Indices: 23949913--23950150 Score: 284
Period size: 86 Copynumber: 2.8 Consensus size: 86
23949903 TCCAAAGTCG
** * * * * *
23949913 ATTTGAGATCCCGTATAAGATCATA-TCTGGGATA-TGGCAATGATTTGGGA-TTCATGTAAGAC
1 ATTTGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATTGATTTGAGATTTCATGTAAGAC
*
23949975 TATAGCTAGGCTATTGGCATCA
65 CATAGCTAGGCTATTGGCATCA
*
23949997 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCGTGTAAGACC
1 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCATGTAAGACC
* **
23950062 ATAGCTGGGCTATTGGCATTG
66 ATAGCTAGGCTATTGGCATCA
* ** **
23950083 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATTTCCATGTAAGAC
1 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTT-CATGTAAGAC
23950148 CAT
65 CAT
23950151 GATTGGGACA
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 27 0.20
85 15 0.11
86 78 0.59
87 12 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (86 bp):
ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCATGTAAGACC
ATAGCTAGGCTATTGGCATCA
Found at i:23950168 original size:129 final size:127
Alignment explanation
Indices: 23949912--23950150 Score: 325
Period size: 129 Copynumber: 1.9 Consensus size: 127
23949902 TTCCAAAGTC
* * * *
23949912 GATTTGAGATCCCGTATAAGATCATATCTGGGATATGGCAATGATTTGGGATTCATGTAAGACTA
1 GATTTGAGATCCCGTATAAGACCATAGCTGGGATATGGCAATGATTTGAGATTCATGTAAGACCA
** *
23949977 TAGCTAGGCTATTGGCATCAATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATT
66 TAGCTAGGCTATTGGCATCAATACGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATT
** * * * *
23950039 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATTGATTTGAGATTTCGTGTAAGAC
1 GATTTGAGATCCCGTATAAGACCATAGCTGGGATA-TGGCAATGATTTGAGA-TTCATGTAAGAC
*
23950104 CATAGCTGGGCTATTGGCATCAATACGAGATTTCCATGTAAGACCAT
64 CATAGCTAGGCTATTGGCATCAATACGAGATTT-CATGTAAGACCAT
23950151 GATTGGGACA
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 29 0.31
128 14 0.15
129 40 0.42
130 12 0.13
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (127 bp):
GATTTGAGATCCCGTATAAGACCATAGCTGGGATATGGCAATGATTTGAGATTCATGTAAGACCA
TAGCTAGGCTATTGGCATCAATACGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATT
Found at i:23960193 original size:14 final size:14
Alignment explanation
Indices: 23960174--23960201 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23960164 ACATCATACT
23960174 ATAAAATCAATAAC
1 ATAAAATCAATAAC
23960188 ATAAAATCAATAAC
1 ATAAAATCAATAAC
23960202 TTGAGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAATCAATAAC
Found at i:23962986 original size:7 final size:7
Alignment explanation
Indices: 23962976--23963001 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23962966 ATTATTTTTA
23962976 ATTTAAT
1 ATTTAAT
23962983 ATTTAAT
1 ATTTAAT
23962990 ATTTAAT
1 ATTTAAT
23962997 ATTTA
1 ATTTA
23963002 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:23963005 original size:24 final size:25
Alignment explanation
Indices: 23962978--23963025 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
23962968 TATTTTTAAT
* *
23962978 TTAATATTTAATAT-TTAATATTTA
1 TTAAAATTTAATATATAAATATTTA
*
23963002 TTAAAATTTTATATATAAATATTT
1 TTAAAATTTAATATATAAATATTT
23963026 TAACATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAAAATTTAATATATAAATATTTA
Found at i:23966348 original size:20 final size:19
Alignment explanation
Indices: 23966307--23966348 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
23966297 CCTTTCAAAT
*
23966307 TTTCTTATTTTCATTTGGA
1 TTTCTTATTTTCATTTGCA
23966326 TTTCATTATTTTCCATTT-CA
1 TTTC-TTATTTT-CATTTGCA
23966346 TTT
1 TTT
23966349 ACTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTCTTATTTTCATTTGCA
Found at i:23968379 original size:43 final size:42
Alignment explanation
Indices: 23968325--23968687 Score: 395
Period size: 43 Copynumber: 8.5 Consensus size: 42
23968315 AGCGCCGTTT
* *
23968325 TTTTCCACAAACGCCGCTAAAGAT-AATAACCTTTAGCGGCGC
1 TTTTCCACAAACGCCGCTATAGATCAA-GACCTTTAGCGGCGC
* * *
23968367 TTTTTCCACAAACACTGCTATAGATCAAGATCTTTAGCGGCGC
1 -TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * * * *
23968410 TTTTTACACAAATGCCGCTATAGCTAAAGACCTTTAGCAGCAGT
1 -TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGC-GC
* * * *
23968454 TTTTACACAAACGCCGCTGTAAATTAAGACCTTTAGCGGCGC
1 TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
*
23968496 TTTTCTCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCAC
1 TTTTC-CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * * *
23968539 TTTTCCAACGAATGCCTCTATAGCTCAAGATCTTTAGCGGCGC
1 TTTTCC-ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * *
23968582 TTTTCCAACAAACGTCGCTATAGCTCAAGACCTTTAGCGACAC
1 TTTTCC-ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* *
23968625 TTTTCTCACAAACGTCGCTATAGATCAAGACCTTTAACGGCGC
1 TTTTC-CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
23968668 TTTTCACACAAACGCCGCTA
1 TTTTC-CACAAACGCCGCTA
23968688 ATAACATATC
Statistics
Matches: 270, Mismatches: 45, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 6 0.02
43 260 0.96
44 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
Found at i:23968760 original size:30 final size:32
Alignment explanation
Indices: 23968724--23968785 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
23968714 ATAATATTTA
23968724 TTTCTATGATAAATATT-A-TTT-AAATTAAAT
1 TTTCTATGA-AAATATTAACTTTAAAATTAAAT
*
23968754 TTTCTATGAAAATTTTAACTTTAAAATTAAAT
1 TTTCTATGAAAATATTAACTTTAAAATTAAAT
23968786 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 3 0.11
32 9 0.32
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTCTATGAAAATATTAACTTTAAAATTAAAT
Found at i:23968811 original size:34 final size:39
Alignment explanation
Indices: 23968767--23968852 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
23968757 CTATGAAAAT
* *
23968767 TTTAACTTTAAAA-TT-AAAT-ATAAA-AAATAA-TTAA
1 TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
*
23968801 TTTAAATTTAAAATTTAAAATAATAAATTAATAACATAA
1 TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
*
23968840 TTAAAATTTAAAA
1 TTTAAATTTAAAA
23968853 GTTAGAACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
34 12 0.28
35 2 0.05
36 4 0.09
37 5 0.12
38 5 0.12
39 15 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (39 bp):
TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
Found at i:23968985 original size:43 final size:43
Alignment explanation
Indices: 23968919--23969002 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
23968909 ACATATGCAA
* * *
23968919 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
23968962 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATC
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATC
23969003 AAAGATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:23974475 original size:33 final size:33
Alignment explanation
Indices: 23974433--23974504 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
23974423 AATCTAAATT
* ** *
23974433 CTAAACCCTAACCCGACCTTGAATCCCTAATCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
23974466 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
23974499 CTAAAC
1 CTAAAC
23974505 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.44, G:0.04, T:0.17
Consensus pattern (33 bp):
CTAAACCCTAACCCAACCCAGAATCCCTAACCC
Found at i:23974575 original size:15 final size:16
Alignment explanation
Indices: 23974549--23974580 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23974539 ATCTAAATTT
23974549 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
23974565 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
23974580 A
1 A
23974581 CTGATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:23974614 original size:7 final size:7
Alignment explanation
Indices: 23974594--23974633 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
23974584 ATATTAACAT
*
23974594 CTAACCT
1 CTAACCC
23974601 CTAACCC
1 CTAACCC
23974608 CTAACCC
1 CTAACCC
*
23974615 TTAACCC
1 CTAACCC
*
23974622 CTAGCCC
1 CTAACCC
23974629 CTAAC
1 CTAAC
23974634 ACATAAACCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.50, G:0.03, T:0.20
Consensus pattern (7 bp):
CTAACCC
Found at i:23975610 original size:41 final size:41
Alignment explanation
Indices: 23975373--23975609 Score: 277
Period size: 41 Copynumber: 5.9 Consensus size: 41
23975363 TTTTATTATT
* ** *
23975373 ATTAGCGGCG-TTTTTTTAAAACGCCGCTAAAGGTCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
23975413 ATTAGCGACGCTT-TATC---AATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAGGCCAGAGC
* *
23975451 ATTAGCGGCGCTTCTTCAAAAACGCCTCTGAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
23975492 ATTAGCGGCGCTACATCAAAAACGCTGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
23975533 ATTAGCGGCGCTTTTTAAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
23975574 ATTAGCGGCGCTTCTTCAATAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
23975610 CCAAAAACTC
Statistics
Matches: 167, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 33 0.20
39 1 0.01
40 10 0.06
41 123 0.74
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:23975780 original size:40 final size:39
Alignment explanation
Indices: 23975646--23975780 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 39
23975636 GGGCTTAGGC
*
23975646 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTA-AAAAGCGCCGCTAATGCTCTA
* * * *
23975684 TTTTTAGCGGTGTTTTCCAAAAAGCCCCACTAATGCTCTA
1 TTTTTAGCGGCGTTTT-TAAAAAGCGCCGCTAATGCTCTA
** *
23975724 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
23975764 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
23975781 TGTCCAAATG
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 13 0.16
39 19 0.24
40 47 0.59
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:23975803 original size:12 final size:12
Alignment explanation
Indices: 23975786--23975811 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23975776 TTTTTTGTCC
23975786 AAATGCCGCTAA
1 AAATGCCGCTAA
23975798 AAATGCCGCTAA
1 AAATGCCGCTAA
23975810 AA
1 AA
23975812 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:23976901 original size:4 final size:4
Alignment explanation
Indices: 23976887--23976924 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
23976877 ATAACCAAAC
*
23976887 AAAG AACG AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
23976925 ATAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:23981856 original size:17 final size:17
Alignment explanation
Indices: 23981829--23981869 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
23981819 CATGAGATAG
23981829 AAAAA-AATAA-GGAAA
1 AAAAAGAATAAGGGAAA
23981844 AAAACAGAATAAGGGAAA
1 AAAA-AGAATAAGGGAAA
23981862 AAAAAGAA
1 AAAAAGAA
23981870 GAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 1 0.04
17 9 0.39
18 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAGAATAAGGGAAA
Found at i:24010951 original size:8 final size:8
Alignment explanation
Indices: 24010942--24010971 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
24010932 TAGAATATGT
*
24010942 ATGAATGT
1 ATGAATGC
24010950 ATGAATGC
1 ATGAATGC
24010958 ATGAATGC
1 ATGAATGC
24010966 ATGAAT
1 ATGAAT
24010972 TTGCCATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (8 bp):
ATGAATGC
Found at i:24017892 original size:27 final size:27
Alignment explanation
Indices: 24017853--24018522 Score: 649
Period size: 27 Copynumber: 25.1 Consensus size: 27
24017843 AATGGGCCTC
* *
24017853 TAAAATGACCGAAATACCCTCGAT-GGG
1 TAAAATGATCGAAATACCC-CCATAGGG
*
24017880 TAAAATGATCGAAATACCCTCGA-AGGG
1 TAAAATGATCGAAATACCC-CCATAGGG
* * * *
24017907 TAAAGTTA-CTAAAATACCCTCGA-AGGG
1 TAAAATGATC-GAAATACCC-CCATAGGG
* * *
24017934 TAAAATTA-CAAATATACCCTCGAT-GGG
1 TAAAATGATCGAA-ATACCC-CCATAGGG
* *
24017961 TAAAATTA-CTGAAATACCCTCA-ATGGG
1 TAAAATGATC-GAAATACCCCCATA-GGG
** *
24017988 T-AAATTTTC--AATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018012 TAAAATGA-CTAAAATACCCCCATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
* * * *
24018039 TAAAATGACCAAAATA-CTCCATATGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
24018065 TAAAATTATCGAAATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
** *
24018092 TAAAATGA-CTGAAATATTCCTATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
24018119 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
**
24018146 TAAAATGATCGAAATACCTTCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * *
24018173 TAAAATGACCGAAACACCCCCATAGGA
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018200 T-AAATGACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
**
24018226 TAAAATGATCGAAATACCTTCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * *
24018253 TAAAATGACCGAAACACCCCCATAGGA
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018280 T-AAATGACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
**
24018306 TAAAATGATCGAAATACCTTCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * *
24018333 TAAAATGACCGAAACACCCCCATAGGA
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018360 T-AAATGACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018386 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018413 TAAAATGA-C-AAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
24018438 TAGAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
24018465 AAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * * *
24018492 TAAAATAACCAAAATACCCCCATCGGG
1 TAAAATGATCGAAATACCCCCATAGGG
24018519 TAAA
1 TAAA
24018523 GTGACTGTTA
Statistics
Matches: 552, Mismatches: 69, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
24 13 0.02
25 28 0.05
26 106 0.19
27 401 0.73
28 4 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:24018080 original size:53 final size:54
Alignment explanation
Indices: 24017997--24018527 Score: 653
Period size: 53 Copynumber: 9.9 Consensus size: 54
24017987 GTAAATTTTC
* * *
24017997 AATACCCCCATAAGGTAAAATGA-CTAAAATACCCCCATAGGGTAAAATGACCAA
1 AATACCCCCATAGGGTAAAATGATC-GAAATACCCCCATAGGGTAAAATGACCGA
* * * * *
24018051 AATA-CTCCATATGGTAAAATTATCGAAATACCCCCATAAGGTAAAATGACTGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
** * *
24018104 AATATTCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
** * * *
24018158 AATACCTTCATAGGGTAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
**
24018211 AATACCCCCATAGGGTAAAATGATCGAAATACCTTCATAGGGTAAAATGACCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * * *
24018265 AACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
** * * *
24018318 AATACCTTCATAGGGTAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
*
24018371 AATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGA-C-A
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * * * *
24018423 AATACCCCTATAGGGTAGAATGATCGAAATACCCCTATAGGGAAAAATGATCGA
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
* * * * *
24018477 AATACCCCCATAGGGTAAAATAACCAAAATACCCCCATCGGGTAAAGTGAC
1 AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGAC
24018528 TGTTATATCC
Statistics
Matches: 407, Mismatches: 63, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
52 48 0.12
53 182 0.45
54 177 0.43
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
AATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCGA
Found at i:24018097 original size:80 final size:81
Alignment explanation
Indices: 24017853--24018527 Score: 725
Period size: 80 Copynumber: 8.4 Consensus size: 81
24017843 AATGGGCCTC
* * * * *
24017853 TAAAATGACCGAAATACCCTCGAT-GGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAGTTA-
1 TAAAATGACCGAAATACCC-CCATAGGGTAAAATGACCGAAATACCC-CCATAGGGTAAAATGAT
* *
24017915 CTAAAATACCCTCGA-AGGG
64 C-GAAATACCC-CCATAGGG
* * * * * * **
24017934 TAAAATTA-CAAATATACCCTCGAT-GGGTAAAATTACTGAAATACCCTCA-ATGGGT-AAATTT
1 TAAAATGACCGAA-ATACCC-CCATAGGGTAAAATGACCGAAATACCCCCATA-GGGTAAAATGA
*
24017995 TC--AATACCCCCATAAGG
63 TCGAAATACCCCCATAGGG
** * * * *
24018012 TAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATA-CTCCATATGGTAAAATTATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
*
24018076 AAATACCCCCATAAGG
66 AAATACCCCCATAGGG
* ** * *
24018092 TAAAATGACTGAAATATTCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
**
24018157 AAATACCTTCATAGGG
66 AAATACCCCCATAGGG
* *
24018173 TAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
**
24018237 AAATACCTTCATAGGG
66 AAATACCCCCATAGGG
* *
24018253 TAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
**
24018317 AAATACCTTCATAGGG
66 AAATACCCCCATAGGG
* *
24018333 TAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
*
24018397 AAATACCCCTATAGGG
66 AAATACCCCCATAGGG
* * * * *
24018413 TAAAATGA-C-AAATACCCCTATAGGGTAGAATGATCGAAATACCCCTATAGGGAAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
24018476 AAATACCCCCATAGGG
66 AAATACCCCCATAGGG
* * * *
24018492 TAAAATAACCAAAATACCCCCATCGGGTAAAGTGAC
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
24018528 TGTTATATCC
Statistics
Matches: 523, Mismatches: 57, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
77 11 0.02
78 61 0.12
79 58 0.11
80 278 0.53
81 115 0.22
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
AAATACCCCCATAGGG
Found at i:24018139 original size:107 final size:108
Alignment explanation
Indices: 24017853--24018529 Score: 656
Period size: 107 Copynumber: 6.4 Consensus size: 108
24017843 AATGGGCCTC
* * * *
24017853 TAAAATGACCGAAATACCCTCGAT-GGGTAAAATGA-TCGAAATACCCTCGA-AGGGTAAAGTTA
1 TAAAATGACCGAAATACCC-CCATAGGGTAAAATGACT-GAAATACCC-CTATAGGGTAAAATGA
* * * * *
24017915 -CTAAAATACCCTCGA-AGGGTAAAATTA-CAAATATACCCTCGAT-GGG
63 TC-GAAATACCC-CCATAGGGTAAAATGACCGAA-ATACCC-CCATAGGG
* * * * ** * *
24017961 TAAAATTACTGAAATACCCTCA-ATGGGT-AAAT--TTTCAATACCCCCATAAGGTAAAATGA-C
1 TAAAATGACCGAAATACCCCCATA-GGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGATC
* * * *
24018021 TAAAATACCCCCATAGGGTAAAATGACCAAAATA-CTCCATATGG
65 -GAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
* * * **
24018065 TAAAATTATCGAAATACCCCCATAAGGTAAAATGACTGAAATATTCCTATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGATCG
* **
24018130 AAATACCCCCATAGGGTAAAATGATCGAAATACCTTCATAGGG
66 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
* * * *
24018173 TAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGATCG
** * *
24018237 AAATACCTTCATAGGGTAAAATGACCGAAACACCCCCATAGGA
66 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
* *
24018280 T-AAATGACCGAAATACCCCCATAGGGTAAAATGA-TCGAAATA-CCTTCATAGGGTAAAATGAC
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACT-GAAATACCCCT-ATAGGGTAAAATGAT
* *
24018342 CGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGG
64 CGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
* * *
24018386 TAAAATGATCGAAATACCCCTATAGGGTAAAATGAC--AAATACCCCTATAGGGTAGAATGATCG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGATCG
* * *
24018449 AAATACCCCTATAGGGAAAAATGATCGAAATACCCCCATAGGG
66 AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
* * * *
24018492 TAAAATAACCAAAATACCCCCATCGGGTAAAGTGACTG
1 TAAAATGACCGAAATACCCCCATAGGGTAAAATGACTG
24018530 TTATATCCCT
Statistics
Matches: 472, Mismatches: 75, Indels: 44
0.80 0.13 0.07
Matches are distributed among these distances:
103 3 0.01
104 29 0.06
105 79 0.17
106 112 0.24
107 196 0.42
108 53 0.11
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (108 bp):
TAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGATCG
AAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGG
Found at i:24019294 original size:27 final size:27
Alignment explanation
Indices: 24019256--24019445 Score: 195
Period size: 27 Copynumber: 7.1 Consensus size: 27
24019246 TTACACTGTT
* * **
24019256 ATGATCGAAATACCCTGATAAGGTTGA
1 ATGACCGAAATACCCTCATAAGGTAAA
*
24019283 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* * *
24019310 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* * *
24019337 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
*
24019364 ATGACTGAAATACCC-CATAAGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* *
24019390 ATGACTGAAATACCCTCAT-AGTGTAGA
1 ATGACCGAAATACCCTCATAAG-GTAAA
** * *
24019417 ATGACTTAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
24019444 AT
1 AT
24019446 AACTGTTATT
Statistics
Matches: 145, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 27 0.19
27 117 0.81
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
ATGACCGAAATACCCTCATAAGGTAAA
Found at i:24019340 original size:54 final size:54
Alignment explanation
Indices: 24019262--24019445 Score: 237
Period size: 54 Copynumber: 3.4 Consensus size: 54
24019252 TGTTATGATC
** **
24019262 GAAATACCCTGATAAGGTTGAATGACCGAAATACCCTCATAGGGTAAAATGA-T
1 GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* * *
24019315 CGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACT
1 -GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* * *
24019370 GAAATA-CCCCATAAGGTAAAATGACTGAAATACCCTCATAGTGTAGAATGACT
1 GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* *
24019423 TAAATACCCCCATAGGGTAAAAT
1 GAAATACCCCCATAAGGTAAAAT
24019446 AACTGTTATT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 46 0.41
54 66 0.58
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (54 bp):
GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
Found at i:24019428 original size:80 final size:81
Alignment explanation
Indices: 24019256--24019450 Score: 243
Period size: 80 Copynumber: 2.4 Consensus size: 81
24019246 TTACACTGTT
** * ** * *
24019256 ATGATCGAAATACCCTGATAAGGTTGAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAAT
1 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATCGAAAT
24019321 ACCCCCATAGGGTAAA
66 ACCCCCATAGGGTAAA
24019337 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC-CATAAGGTAAAATGA-CTGAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATC-GAAA
* * *
24019400 TACCCTCATAGTGTAGA
65 TACCCCCATAGGGTAAA
* *
24019417 ATGA-CTTAAATACCCCCATAGGGTAAAATAACTG
1 ATGATC-GAAATACCCCCATAGGGTAAAATGACTG
24019451 TTATTTCCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 62 0.62
81 36 0.36
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (81 bp):
ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATCGAAAT
ACCCCCATAGGGTAAA
Found at i:24026993 original size:28 final size:28
Alignment explanation
Indices: 24026953--24027011 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
24026943 CATCAGGTGA
24026953 GAAAAAACGATATATGAAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
* * *
24026981 GAAAAAATGATATGTGTAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
24027009 GAA
1 GAA
24027012 TTGGTTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (28 bp):
GAAAAAACGATATATGAAATGGTTATAT
Found at i:24027050 original size:40 final size:41
Alignment explanation
Indices: 24026963--24027052 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
24026953 GAAAAAACGA
* * *
24026963 TATATGAAATGGTTATATGAAAAAATGATATGTGTAATGGT
1 TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
*
24027004 TATATGAATTGGTTACATGGAAAAATGAT-TATGTAATGGT
1 TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
24027044 TATATGAAT
1 TATATGAAT
24027053 AAGTTATGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 19 0.42
41 26 0.58
ACGTcount: A:0.40, C:0.01, G:0.21, T:0.38
Consensus pattern (41 bp):
TATATGAATTGGTTACATGAAAAAATGATATATGTAATGGT
Found at i:24033777 original size:21 final size:21
Alignment explanation
Indices: 24033752--24033795 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24033742 AACATTACGG
*
24033752 CACCAAACTACTATGTCATGA
1 CACCAAACTACTATGTCACGA
* *
24033773 CACCACACTCCTATGTCACGA
1 CACCAAACTACTATGTCACGA
24033794 CA
1 CA
24033796 TGGACAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.20
Consensus pattern (21 bp):
CACCAAACTACTATGTCACGA
Found at i:24037043 original size:40 final size:39
Alignment explanation
Indices: 24036959--24037143 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
24036949 TTGAATGATG
* * * *
24036959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
24036999 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
24037039 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24037078 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
**
24037119 -CCGGGCTATCTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
24037144 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24037095 original size:79 final size:80
Alignment explanation
Indices: 24036959--24037143 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
24036949 TTGAATGATG
* *
24036959 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
24037023 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
24037038 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
24037101 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* **
24037118 ACCGGGCTATCTCCCGAAGGCATTTG
1 TCCGGGCTA-AGCCCGAAGGCATTTG
24037144 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:24037165 original size:79 final size:79
Alignment explanation
Indices: 24037012--24037166 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
24037002 GGACTAAGAT
* * **
24037012 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
24037077 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* **
24037091 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATCTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGGCATTTGAACGAGTTA-C
*
24037154 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
24037167 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:24059423 original size:20 final size:21
Alignment explanation
Indices: 24059374--24059424 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
24059364 GTATCGATCC
24059374 GGTATCGATA-ATTTTCTTAA
1 GGTATCGATATATTTTCTTAA
*
24059394 GGTACCGATATATTTTC-TAA
1 GGTATCGATATATTTTCTTAA
*
24059414 GGTATTGATAT
1 GGTATCGATAT
24059425 TCCTGCTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (21 bp):
GGTATCGATATATTTTCTTAA
Found at i:24062126 original size:66 final size:66
Alignment explanation
Indices: 24062049--24062175 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 66
24062039 TGTGAAAAAT
*** *
24062049 TTAACACAATTTTAGAACCAAAGAAGACACGGTCATGTGACTGAATGACACACTCATGTGACAGA
1 TTAACACAATTTTAGAACCAAAGAAGACACAACCATGTGACTGAATGACACACCCATGTGACAGA
24062114 A
66 A
* * *
24062115 TTAACACAATTTTAGAAGCAGAGAAGACACAACCATGTGACTGAATGATACACCCATGTGA
1 TTAACACAATTTTAGAACCAAAGAAGACACAACCATGTGACTGAATGACACACCCATGTGA
24062176 TAGTGATGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (66 bp):
TTAACACAATTTTAGAACCAAAGAAGACACAACCATGTGACTGAATGACACACCCATGTGACAGA
A
Found at i:24063373 original size:31 final size:32
Alignment explanation
Indices: 24063337--24063401 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
24063327 CTTAGATAAT
24063337 TTTAAAG-GGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGGTTTTATTAGGATTCAATTACTC
* *
24063368 TTTAAAGAGTTTTTATTAGGATTGAATTACTC
1 TTTAAAGAGGTTTTATTAGGATTCAATTACTC
24063400 TT
1 TT
24063402 GTAATTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 7 0.23
32 24 0.77
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGGTTTTATTAGGATTCAATTACTC
Found at i:24069548 original size:31 final size:32
Alignment explanation
Indices: 24069512--24069576 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
24069502 CTTAGATAAT
24069512 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
24069543 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
24069575 TT
1 TT
24069577 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:24071798 original size:40 final size:40
Alignment explanation
Indices: 24071761--24071946 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
24071751 GCTACTCGTT
* *
24071761 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
24071801 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
24071841 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
24071881 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
24071922 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24071947 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:24074268 original size:50 final size:50
Alignment explanation
Indices: 24074193--24074292 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
24074183 TCCGAAAATT
24074193 TTACTTTCACCGAGCTCGGTCCAAAACAATAGTGTACGGCATTTACGACC
1 TTACTTTCACCGAGCTCGGTCCAAAACAATAGTGTACGGCATTTACGACC
24074243 TTACTTTCACCGAGCTCGGTCCAAAACAATAGTGTACGGCATTTACGACC
1 TTACTTTCACCGAGCTCGGTCCAAAACAATAGTGTACGGCATTTACGACC
24074293 GTACAAAGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TTACTTTCACCGAGCTCGGTCCAAAACAATAGTGTACGGCATTTACGACC
Found at i:24083854 original size:40 final size:40
Alignment explanation
Indices: 24083749--24083861 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
24083739 GCTCCTCGTT
* * *
24083749 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTTATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
24083789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
24083829 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
24083862 TCTCTGGTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:24083934 original size:40 final size:41
Alignment explanation
Indices: 24083870--24083989 Score: 140
Period size: 40 Copynumber: 3.0 Consensus size: 41
24083860 TATCTCTGGT
* *
24083870 TATAGTTA-TTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 TATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* *
24083910 TTTAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 TATAGTAACTTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA
* * *
24083950 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGA
24083990 CATCATTCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
39 3 0.04
40 53 0.79
41 11 0.16
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
TATAGTAACTTCGCACAAATGCCTTCGGGACTTAGCCCGGA
Found at i:24083935 original size:95 final size:95
Alignment explanation
Indices: 24083772--24083950 Score: 358
Period size: 95 Copynumber: 1.9 Consensus size: 95
24083762 GACATAGCCC
24083772 GGTTATAGTTATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
1 GGTTATAGTTATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
24083837 TTCGGATCTTAGTCCGGATTTAGTATCTCT
66 TTCGGATCTTAGTCCGGATTTAGTATCTCT
24083867 GGTTATAGTTATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
1 GGTTATAGTTATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
24083932 TTCGGATCTTAGTCCGGAT
66 TTCGGATCTTAGTCCGGAT
24083951 ATGGTCACTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (95 bp):
GGTTATAGTTATTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCC
TTCGGATCTTAGTCCGGATTTAGTATCTCT
Found at i:24092281 original size:19 final size:20
Alignment explanation
Indices: 24092257--24092317 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
24092247 ATATGAAGGA
24092257 GAGACACAC-CCGTGTGACT
1 GAGACACACACCGTGTGACT
*
24092276 GAGACACACGACCGTGTGGCT
1 GAGACACAC-ACCGTGTGACT
*
24092297 AAGACACACACCTGTGTGACT
1 GAGACACACACC-GTGTGACT
24092318 AGGTTACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 9 0.25
20 3 0.08
21 24 0.67
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGACACACACCGTGTGACT
Found at i:24098600 original size:24 final size:24
Alignment explanation
Indices: 24098567--24098620 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
24098557 TATTTATACA
* *
24098567 ATTTTATATATCAAATATTAAATT
1 ATTTTATATATAAAAAATTAAATT
* *
24098591 ATTTTTTATATAAAAAATTAAAAT
1 ATTTTATATATAAAAAATTAAATT
24098615 -TTTTAT
1 ATTTTAT
24098621 TTAAAACTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTTATATATAAAAAATTAAATT
Found at i:24106860 original size:4 final size:4
Alignment explanation
Indices: 24106851--24106882 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
24106841 TTAATAAAAT
24106851 ATTA ATTA ATTA A-TA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
24106883 AAATATCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:24106865 original size:19 final size:19
Alignment explanation
Indices: 24106841--24106887 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
24106831 ACTAAAAATC
24106841 TTAATAAA-ATATTAATTAA
1 TTAATAAATA-ATTAATTAA
*
24106860 TTAATAATTAATTAATTAA
1 TTAATAAATAATTAATTAA
24106879 TTAA-AAATA
1 TTAATAAATA
24106888 TCACAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATAAATAATTAATTAA
Found at i:24106876 original size:15 final size:15
Alignment explanation
Indices: 24106851--24106879 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24106841 TTAATAAAAT
24106851 ATTAATTAATTAATA
1 ATTAATTAATTAATA
24106866 ATTAATTAATTAAT
1 ATTAATTAATTAAT
24106880 TAAAAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATTAATTAATA
Found at i:24111287 original size:24 final size:25
Alignment explanation
Indices: 24111259--24111305 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24111249 TCATATTTTT
*
24111259 AAAATGATAATA-TGTAAAAGAATA
1 AAAATGATAAAATTGTAAAAGAATA
*
24111283 AAAATTATAAAATTGTAAAAGAA
1 AAAATGATAAAATTGTAAAAGAA
24111306 ATTCTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.26
Consensus pattern (25 bp):
AAAATGATAAAATTGTAAAAGAATA
Found at i:24112565 original size:11 final size:11
Alignment explanation
Indices: 24112543--24112628 Score: 75
Period size: 11 Copynumber: 7.5 Consensus size: 11
24112533 ATTTTAAAAA
*
24112543 TTAAAAA-AAT
1 TTAAAAATATT
24112553 TTAAAAAGTATT
1 TTAAAAA-TATT
24112565 TTAAAAATATT
1 TTAAAAATATT
* **
24112576 TTAAAATTAAAAAA
1 TT-AAA--AATATT
* *
24112590 TAAAAAAAATT
1 TTAAAAATATT
24112601 TTAAAAATATT
1 TTAAAAATATT
24112612 TTAAAAATATT
1 TTAAAAATATT
24112623 TTAAAA
1 TTAAAA
24112629 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.11
11 36 0.58
12 12 0.19
13 3 0.05
14 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:24112600 original size:47 final size:47
Alignment explanation
Indices: 24112538--24112640 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
24112528 AATTTATTTT
*
24112538 AAAAATTAAAAAAA-TTTAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAAATTTTAAAAA-TATTTTAAAAATATTTTAAAATTA
24112585 AAAAATAAAAAAAATTTTAAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAAATTTTAAAAATATTTTAAAAATATTTTAAAATTA
24112632 AAAAATAAA
1 AAAAATAAA
24112641 TATATTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
47 46 0.85
48 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (47 bp):
AAAAATAAAAAAAATTTTAAAAATATTTTAAAAATATTTTAAAATTA
Found at i:24117311 original size:13 final size:13
Alignment explanation
Indices: 24117293--24117332 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
24117283 AGTTCTTCAT
24117293 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
24117306 TGCTTTTTAGAAG
1 TGCTTTTGAAAAG
24117319 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
24117332 T
1 T
24117333 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24122018 original size:21 final size:19
Alignment explanation
Indices: 24121993--24122040 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
24121983 GTTGATTAAT
* *
24121993 TTAATTAATTATGTTTTTATC
1 TTAATTAATCAT-ATTTTA-C
24122014 TTAATTAATCATATTTTAC
1 TTAATTAATCATATTTTAC
24122033 TTAATTAA
1 TTAATTAA
24122041 GCAACAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.36
20 5 0.20
21 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATTAATCATATTTTAC
Found at i:24124989 original size:12 final size:12
Alignment explanation
Indices: 24124972--24124996 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24124962 CAGAGGCTAT
24124972 TAACAATATTTA
1 TAACAATATTTA
24124984 TAACAATATTTA
1 TAACAATATTTA
24124996 T
1 T
24124997 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:24127863 original size:21 final size:22
Alignment explanation
Indices: 24127815--24127867 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
24127805 CTTGGGTCAT
* *
24127815 ATGGCCGTGTGCCTCCCTTTAC
1 ATGGGCGTGTGCCTCCCTTCAC
*
24127837 ACGGGCGTGTGCCT-CCTTCAC
1 ATGGGCGTGTGCCTCCCTTCAC
24127858 ATGGGCGTGT
1 ATGGGCGTGT
24127868 AGACCCTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.09, C:0.32, G:0.30, T:0.28
Consensus pattern (22 bp):
ATGGGCGTGTGCCTCCCTTCAC
Found at i:24129837 original size:4 final size:4
Alignment explanation
Indices: 24129828--24129859 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
24129818 TCATAATATT
24129828 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
24129860 GCAGACATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:24131258 original size:36 final size:36
Alignment explanation
Indices: 24131206--24131282 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
24131196 AAATTAATAC
* * *
24131206 AGTTCGTCATATTAATATAGA-TCACCAATTTAACAT
1 AGTTCGCCATAATAATATA-ATTCACCAAGTTAACAT
*
24131242 AGTTCGCCATAATAATATAATTTACCAAGTTAACAT
1 AGTTCGCCATAATAATATAATTCACCAAGTTAACAT
*
24131278 GGTTC
1 AGTTC
24131283 ACAATATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (36 bp):
AGTTCGCCATAATAATATAATTCACCAAGTTAACAT
Found at i:24137644 original size:27 final size:26
Alignment explanation
Indices: 24137593--24137646 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
24137583 TTTAAAGTTA
* *
24137593 ACATATATTATTATTTTGAATTTATC
1 ACATATATTATTATTTTAAAATTATC
24137619 ACATATTATTATT-TTTTAAAAATTATC
1 ACATA-TATTATTATTTT-AAAATTATC
24137646 A
1 A
24137647 TCAAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (26 bp):
ACATATATTATTATTTTAAAATTATC
Found at i:24138009 original size:15 final size:15
Alignment explanation
Indices: 24137971--24138009 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
24137961 TTACTTGTAA
*
24137971 TTTTAAATGATTTTT
1 TTTTAATTGATTTTT
*
24137986 TTTAAAATTGATTTTT
1 TTT-TAATTGATTTTT
24138002 TTTTAATT
1 TTTTAATT
24138010 CGTTTCATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTTAATTGATTTTT
Done.