Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 55
Found at i:7179832 original size:83 final size:81
Alignment explanation
Indices: 7179745--7180103 Score: 386
Period size: 83 Copynumber: 4.3 Consensus size: 81
7179735 TAAAATACTA
* * *
7179745 TACTTTAGTGGCGTTTATATACAAACGCCGCTAAAGAATCGTACTATAGTGGCATTTTTTATATA
1 TACTTTAGTGGCGTTT-TATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC-TTTTTTATACA
*
7179810 AATGCCGCTATTA-ACTCG
64 AACGCCGCTA-TAGACTCG
* * * * **
7179828 TACTTTAGTGGCGTTTTTACACAAATGCCGCTATAGACTCGTACTTTAATGGCGATTTTATACAA
1 TACTTTAGTGGCG-TTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCTTTTTTATACAA
*
7179893 ACGCCGCTATAGACTAG
65 ACGCCGCTATAGACTCG
* * *
7179910 TA-TTGTTGTGGCGTTTTAATACAAAACGCCGCTATAA-ACTCGTACTTTAGTGGCGTTTTTACA
1 TACTT-TAGTGGCGTTTT-ATAC-AAACGCCGCTA-AAGACTCGTACTTTAGTGGCTTTTTTATA
* *
7179973 CAAACGCCGCTATAGACACA
62 CAAACGCCGCTATAGACTCG
* * *
7179993 TACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACTCATACTTTAGTGG-TGTTTTTATAC
1 TACTTTAGTGGCGTTTT-ATA-CAAACGCCGCTAAAGACTCGTACTTTAGTGGCT-TTTTTATAC
*
7180057 AAACGCCGCTATAGACGCG
63 AAACGCCGCTATAGACTCG
7180076 TACTTTAGTGGC-TTTTAATACCAAACGC
1 TACTTTAGTGGCGTTTT-ATA-CAAACGC
7180104 TGCAATTGTC
Statistics
Matches: 238, Mismatches: 28, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
81 8 0.03
82 50 0.21
83 173 0.73
84 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (81 bp):
TACTTTAGTGGCGTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCTTTTTTATACAAA
CGCCGCTATAGACTCG
Found at i:7179896 original size:124 final size:122
Alignment explanation
Indices: 7179744--7180091 Score: 423
Period size: 124 Copynumber: 2.8 Consensus size: 122
7179734 GTAAAATACT
* * *
7179744 ATACTTTAGTGGCGTTTATATACAAACGCCGCTAAAGAATCGTACTATAGTGGCATTTTTTATAT
1 ATACTTTAGTGGCGTTT-TATACAAACGCCGCTATAGACTCGTACTATAGTGGC-TTTTTTATAA
* * *
7179809 AAATGCCGCTATTAACTCGTACTTTAGTGGCGTTTTTACACAAATGCCGCTATAGACTC
64 AAACGCCGCTATTAACTCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACAC
* * * * * * * *
7179868 GTACTTTAATGGCGATTTTATACAAACGCCGCTATAGACTAGTATTGTTGTGGCGTTTTAATACA
1 ATACTTTAGTGGCG-TTTTATACAAACGCCGCTATAGACTCGTACTATAGTGGCTTTTTTATA-A
*
7179933 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACAC
64 AAACGCCGCTATTAACTCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACAC
* * *
7179992 ATACTTTTGTGGCGTTTTAATACCAAACGCCGCTATAGACTCATACTTTAGTGG-TGTTTTTATA
1 ATACTTTAGTGGCGTTTT-ATA-CAAACGCCGCTATAGACTCGTACTATAGTGGCT-TTTTTATA
* *
7180056 CAAACGCCGCTA-TAGACGCGTACTTTAGTGGC-TTTT
63 AAAACGCCGCTATTA-ACTCGTACTTTAGTGGCGTTTT
7180092 AATACCAAAC
Statistics
Matches: 190, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
123 16 0.08
124 138 0.73
125 36 0.19
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (122 bp):
ATACTTTAGTGGCGTTTTATACAAACGCCGCTATAGACTCGTACTATAGTGGCTTTTTTATAAAA
ACGCCGCTATTAACTCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACAC
Found at i:7183979 original size:43 final size:42
Alignment explanation
Indices: 7183916--7184044 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 42
7183906 AGGTAATTAA
* * *
7183916 CGGCGTTTGTATCCATAAACACCGCTATAGTTATGACCTTTTG
1 CGGCGTTTGT-TTCAAAAACACCGCTATAGTTATGACATTTTG
* *
7183959 CGGCGTTTGTGTTCAAAAACACCGCTATAGATCTGACATTTTG
1 CGGCGTTTGT-TTCAAAAACACCGCTATAGTTATGACATTTTG
* *
7184002 CGGCGTTT-TTTCTAAAAACACCGCTATAGATCATGACTTTTTG
1 CGGCGTTTGTTTC-AAAAACACCGCTATAG-TTATGACATTTTG
7184045 TAGTGTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.04
42 17 0.23
43 54 0.73
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (42 bp):
CGGCGTTTGTTTCAAAAACACCGCTATAGTTATGACATTTTG
Found at i:7184058 original size:43 final size:43
Alignment explanation
Indices: 7183932--7184058 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 43
7183922 TTGTATCCAT
* *
7183932 AAACACCGCTATAG-TTATGACCTTTTGCGGCGTTTGTGTTC-AA
1 AAACACCGCTATAGATCATGACATTTTGCGGCGTTT-T-TTCTAA
7183975 AAACACCGCTATAGATC-TGACATTTTGCGGCGTTTTTTCTAA
1 AAACACCGCTATAGATCATGACATTTTGCGGCGTTTTTTCTAA
* ** *
7184017 AAACACCGCTATAGATCATGACTTTTTGTAGTGTTTTTTCTA
1 AAACACCGCTATAGATCATGACATTTTGCGGCGTTTTTTCTA
7184059 GAAATGCCGT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.04
42 20 0.27
43 51 0.68
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (43 bp):
AAACACCGCTATAGATCATGACATTTTGCGGCGTTTTTTCTAA
Found at i:7186132 original size:18 final size:18
Alignment explanation
Indices: 7186108--7186174 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
7186098 CCATGATAAA
7186108 CAATATCATACATAATAG
1 CAATATCATACATAATAG
* * * *
7186126 TAATATCAAAGCCATGATAAA
1 CAATATCATA--CATAAT-AG
7186147 CAATATCATACATAATAGG
1 CAATATCATACATAATA-G
7186166 C-ATATCATA
1 CAATATCATA
7186175 TTCTTTTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 17 0.46
19 6 0.16
20 5 0.14
21 9 0.24
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.27
Consensus pattern (18 bp):
CAATATCATACATAATAG
Found at i:7186134 original size:39 final size:39
Alignment explanation
Indices: 7186090--7186164 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
7186080 CTCATGATTT
7186090 TATCAAAACCATGATAAACAATATCATACATAATAGTAA
1 TATCAAAACCATGATAAACAATATCATACATAATAGTAA
*
7186129 TATCAAAGCCATGATAAACAATATCATACATAATAG
1 TATCAAAACCATGATAAACAATATCATACATAATAG
7186165 GCATATCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (39 bp):
TATCAAAACCATGATAAACAATATCATACATAATAGTAA
Found at i:7186153 original size:21 final size:20
Alignment explanation
Indices: 7186090--7186154 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
7186080 CTCATGATTT
7186090 TATCAAAACCATGATAAACAA
1 TATC-AAACCATGATAAACAA
* * **
7186111 TATCATA-CATAAT-AGTAA
1 TATCAAACCATGATAAACAA
7186129 TATCAAAGCCATGATAAACAA
1 TATCAAA-CCATGATAAACAA
7186150 TATCA
1 TATCA
7186155 TACATAATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 7 0.21
21 12 0.36
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (20 bp):
TATCAAACCATGATAAACAA
Found at i:7186316 original size:18 final size:18
Alignment explanation
Indices: 7186265--7186336 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
7186255 ACTTTCATAT
* *
7186265 TTCAAAACTCATTCTGAGA
1 TTCAAAACTTATT-TCAGA
* *
7186284 TTCAGAACTTGTTTCAGA
1 TTCAAAACTTATTTCAGA
*
7186302 CTCAAAACTTATTTCAGA
1 TTCAAAACTTATTTCAGA
*
7186320 TTCATAACTTAATTTCA
1 TTCAAAACTT-ATTTCA
7186337 TATTATAGCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
18 27 0.63
19 16 0.37
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (18 bp):
TTCAAAACTTATTTCAGA
Found at i:7186336 original size:37 final size:37
Alignment explanation
Indices: 7186266--7186336 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
7186256 CTTTCATATT
* *
7186266 TCAAAACTCATTCTGAGATTCAGAACTTGTTTCAGAC
1 TCAAAACTCATTCTCAGATTCAGAACTTATTTCAGAC
* *
7186303 TCAAAACTTATT-TCAGATTCATAACTTAATTTCA
1 TCAAAACTCATTCTCAGATTCAGAACTT-ATTTCA
7186337 TATTATAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (37 bp):
TCAAAACTCATTCTCAGATTCAGAACTTATTTCAGAC
Found at i:7186348 original size:18 final size:19
Alignment explanation
Indices: 7186281--7186354 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 19
7186271 ACTCATTCTG
* *
7186281 AGATTCAGAACTT-GTTTC
1 AGATTCATAACTTAATTTC
* *
7186299 AGACTCAAAACTT-ATTTC
1 AGATTCATAACTTAATTTC
7186317 AGATTCATAACTTAATTTC
1 AGATTCATAACTTAATTTC
* * *
7186336 ATATT-ATAGCTTATTTTC
1 AGATTCATAACTTAATTTC
7186354 A
1 A
7186355 AGTTCATGGC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 38 0.81
19 9 0.19
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (19 bp):
AGATTCATAACTTAATTTC
Found at i:7189259 original size:30 final size:30
Alignment explanation
Indices: 7189224--7189281 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
7189214 ACACCTAAAT
7189224 TTTAAAAATTA-TACTTTTGGTCCCTAAACC
1 TTTAAAAATTACT-CTTTTGGTCCCTAAACC
*
7189254 TTTAAAAATTACTTTTTTGGTCCCTAAA
1 TTTAAAAATTACTCTTTTGGTCCCTAAA
7189282 TTTTTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTAAAAATTACTCTTTTGGTCCCTAAACC
Found at i:7190424 original size:14 final size:13
Alignment explanation
Indices: 7190402--7190439 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
7190392 ATTTTCTATA
7190402 TTAATTATAATTC
1 TTAATTATAATTC
*
7190415 TTATATTATAAATC
1 TTA-ATTATAATTC
7190429 TTAATTATAAT
1 TTAATTATAAT
7190440 CATTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTATAATTC
Found at i:7190445 original size:13 final size:12
Alignment explanation
Indices: 7190402--7190445 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
7190392 ATTTTCTATA
7190402 TTAATTATAATTC
1 TTAATTATAA-TC
7190415 TTATATTATAAATC
1 TTA-ATTAT-AATC
7190429 TTAATTATAATC
1 TTAATTATAATC
7190441 ATTAA
1 -TTAA
7190446 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 10 0.36
15 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATTATAATC
Found at i:7190758 original size:19 final size:18
Alignment explanation
Indices: 7190723--7190774 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
7190713 CTGAGAAATT
*
7190723 TTGAGAATATAG-GGAAA
1 TTGAGAATTTAGAGGAAA
7190740 TTGAGAATTTAGAGAGAAA
1 TTGAGAATTTAGAG-GAAA
*
7190759 TTGGAAAATTTAGAGG
1 TT-GAGAATTTAGAGG
7190775 GAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 7 0.23
20 11 0.37
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (18 bp):
TTGAGAATTTAGAGGAAA
Found at i:7190770 original size:20 final size:19
Alignment explanation
Indices: 7190736--7190773 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7190726 AGAATATAGG
*
7190736 GAAATTGAGAATTTAGAGA
1 GAAATTGAAAATTTAGAGA
7190755 GAAATTGGAAAATTTAGAG
1 GAAATT-GAAAATTTAGAG
7190774 GGAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (19 bp):
GAAATTGAAAATTTAGAGA
Found at i:7190787 original size:46 final size:45
Alignment explanation
Indices: 7190694--7190787 Score: 102
Period size: 46 Copynumber: 2.0 Consensus size: 45
7190684 TTGATTTTAT
* * *
7190694 TTGAGAATTTAGAGGGAAACTGAGAAATTTTGAGAATATAGGGAAA
1 TTGAGAATTTAGAGAGAAACTGAGAAATTTAGAGAATATA-GAAAA
*
7190740 TTGAGAATTTAGAGAGAAATTG-GAAAATTTAGAGGGAATATA-AAAA
1 TTGAGAATTTAGAGAGAAACTGAG-AAATTTAGA--GAATATAGAAAA
7190786 TT
1 TT
7190788 TGGGAAGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.02
46 33 0.80
48 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.26, T:0.28
Consensus pattern (45 bp):
TTGAGAATTTAGAGAGAAACTGAGAAATTTAGAGAATATAGAAAA
Found at i:7192025 original size:16 final size:16
Alignment explanation
Indices: 7192004--7192039 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
7191994 AGGATTCGCT
7192004 TCTTCTTATGGCTTGC
1 TCTTCTTATGGCTTGC
7192020 TCTTCTTATGGCTTGC
1 TCTTCTTATGGCTTGC
7192036 TCTT
1 TCTT
7192040 AAGGAGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.25, G:0.17, T:0.53
Consensus pattern (16 bp):
TCTTCTTATGGCTTGC
Found at i:7192898 original size:20 final size:20
Alignment explanation
Indices: 7192873--7192913 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
7192863 TAGGGAGAGG
7192873 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
7192893 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
7192913 A
1 A
7192914 AATGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:7198176 original size:20 final size:20
Alignment explanation
Indices: 7198151--7198212 Score: 115
Period size: 20 Copynumber: 3.1 Consensus size: 20
7198141 ATAGGGAGAG
*
7198151 TATTGAAATGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
7198171 TATTGAAAGGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
7198191 TATTGAAAGGTTAAGACCTT
1 TATTGAAAGGTTAAGACCTT
7198211 TA
1 TA
7198213 AAAGAAATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (20 bp):
TATTGAAAGGTTAAGACCTT
Found at i:7205355 original size:20 final size:20
Alignment explanation
Indices: 7205330--7205369 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7205320 ATTAACGTTG
* *
7205330 CGAAATTCGCGTTGTGAAAA
1 CGAAATTCGCATTGCGAAAA
7205350 CGAAATTCGCATTGCGAAAA
1 CGAAATTCGCATTGCGAAAA
7205370 TTTCCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (20 bp):
CGAAATTCGCATTGCGAAAA
Found at i:7217005 original size:21 final size:21
Alignment explanation
Indices: 7216980--7217029 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
7216970 AAGAAGCAGG
7216980 GAAACAAGAGCAAAAGCAAAC
1 GAAACAAGAGCAAAAGCAAAC
7217001 GAAACAAGAGCAAAAGCAAAC
1 GAAACAAGAGCAAAAGCAAAC
*
7217022 GGAACAAG
1 GAAACAAG
7217030 CACAGCAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.60, C:0.18, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAACAAGAGCAAAAGCAAAC
Found at i:7218095 original size:38 final size:38
Alignment explanation
Indices: 7218042--7218118 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
7218032 CCCTTAAACT
* *
7218042 TGACAAAAAAATAATTTAGCCCTTCTGTCATATAACCA
1 TGACAAAAAAATAATTTAGACATTCTGTCATATAACCA
*
7218080 TGACAAAAAATTAATTTAGACATTCTGTCATATAACCA
1 TGACAAAAAAATAATTTAGACATTCTGTCATATAACCA
7218118 T
1 T
7218119 TCATTGAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (38 bp):
TGACAAAAAAATAATTTAGACATTCTGTCATATAACCA
Found at i:7218542 original size:24 final size:24
Alignment explanation
Indices: 7218474--7218542 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
7218464 CAATTTAAAT
7218474 TTTAAACTATAATAAAAATA-CAA
1 TTTAAACTATAATAAAAATATCAA
* * *
7218497 --AAATATTATATATGAAATATATCAA
1 TTTAA-ACTATA-AT-AAAAATATCAA
7218522 TTTAAACTATAATAAAAATAT
1 TTTAAACTATAATAAAAATAT
7218543 AAAAATACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 11
0.67 0.12 0.22
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 2 0.06
24 13 0.38
25 5 0.15
26 5 0.15
27 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (24 bp):
TTTAAACTATAATAAAAATATCAA
Found at i:7218591 original size:18 final size:17
Alignment explanation
Indices: 7218529--7218579 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
7218519 CAATTTAAAC
*
7218529 TATAATAAAAATATAAAAA
1 TATAATAAAAATAT--AAT
*
7218548 TACAAATAAAAATATAAT
1 TA-TAATAAAAATATAAT
7218566 TATAATAAAAATAT
1 TATAATAAAAATAT
7218580 GTTTGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.39
18 4 0.14
19 2 0.07
20 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAATAAAAATATAAT
Found at i:7218801 original size:20 final size:20
Alignment explanation
Indices: 7218778--7218822 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
7218768 GCAAATTTGT
*
7218778 AATTCACAACACATAAGTCA
1 AATTCACAACACAGAAGTCA
*
7218798 AATTCCCAACACAGAAGTCA
1 AATTCACAACACAGAAGTCA
7218818 AATTC
1 AATTC
7218823 GTAAAGCGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (20 bp):
AATTCACAACACAGAAGTCA
Found at i:7219011 original size:22 final size:22
Alignment explanation
Indices: 7218986--7219049 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
7218976 GCGACATCTG
*
7218986 TCCCCATCTCCGACGAAATTCA
1 TCCCCATCTCCGACGAAATCCA
* *
7219008 TCCCCATCTCCGGCGAAATCCG
1 TCCCCATCTCCGACGAAATCCA
*
7219030 TCCCTATCTCCGACGAAATC
1 TCCCCATCTCCGACGAAATC
7219050 TGTCTATCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.22
Consensus pattern (22 bp):
TCCCCATCTCCGACGAAATCCA
Found at i:7219058 original size:20 final size:21
Alignment explanation
Indices: 7218991--7219060 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 21
7218981 ATCTGTCCCC
* * *
7218991 ATCTCCGACGAAATTCATCCCC
1 ATCTCCGACGAAATCCGT-CCT
*
7219013 ATCTCCGGCGAAATCCGTCCCT
1 ATCTCCGACGAAATCCGT-CCT
*
7219035 ATCTCCGACGAAATCTGT-CT
1 ATCTCCGACGAAATCCGTCCT
7219055 ATCTCC
1 ATCTCC
7219061 ATCTCTCAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.19
22 34 0.81
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (21 bp):
ATCTCCGACGAAATCCGTCCT
Found at i:7219392 original size:19 final size:19
Alignment explanation
Indices: 7219368--7219419 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
7219358 AAATCGCAAC
7219368 GCGATTTTAGTTTCACGTT
1 GCGATTTTAGTTTCACGTT
*
7219387 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCACGTT
*
7219406 GCGAATTTAAGTTT
1 GCG-ATTTTAGTTT
7219420 TAGAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCACGTT
Found at i:7221177 original size:21 final size:21
Alignment explanation
Indices: 7221153--7221202 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7221143 TGGTGCATGG
*
7221153 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
7221174 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
7221195 CGCGATGA
1 CGTGATGA
7221203 CAATGGTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:7221385 original size:12 final size:12
Alignment explanation
Indices: 7221359--7221400 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7221349 TTTTTCGACA
7221359 TTATTTATTTG-T
1 TTATTTA-TTGAT
7221371 TTATTTATTGAT
1 TTATTTATTGAT
* *
7221383 TTATGTATTAAT
1 TTATTTATTGAT
7221395 TTATTT
1 TTATTT
7221401 TTAGCGGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:7221626 original size:21 final size:21
Alignment explanation
Indices: 7221540--7221620 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
7221530 GCCTGATTCA
7221540 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* *
7221561 CCTATCATCCTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
7221582 CGT-TCCACCATTCAAGAGGCC
1 CCTGT-CATCGTTCAAGAGGCC
7221603 CCTGTCATCGTTCAAGAG
1 CCTGTCATCGTTCAAGAG
7221621 CTCCCTCCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 48 0.96
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:7223011 original size:13 final size:14
Alignment explanation
Indices: 7222985--7223018 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7222975 GAAATTGATA
7222985 TATTTGTAAAAGTT
1 TATTTGTAAAAGTT
7222999 TATTTGT-AAAGTT
1 TATTTGTAAAAGTT
*
7223012 GATTTGT
1 TATTTGT
7223019 TTAATTGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (14 bp):
TATTTGTAAAAGTT
Found at i:7223074 original size:64 final size:64
Alignment explanation
Indices: 7223000--7223147 Score: 235
Period size: 64 Copynumber: 2.3 Consensus size: 64
7222990 GTAAAAGTTT
7223000 ATTTGT-AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
* * * ***
7223063 ATTTGTAAAAGTTGATTTGTTTAATTTATGTGTAAATAATTGTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
7223127 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
7223148 GTTTTAAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
63 6 0.08
64 72 0.92
ACGTcount: A:0.28, C:0.01, G:0.18, T:0.53
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:7223297 original size:20 final size:20
Alignment explanation
Indices: 7223208--7223290 Score: 103
Period size: 20 Copynumber: 4.2 Consensus size: 20
7223198 AGTACATTTA
7223208 CGCAACGCGAAAGTCAAATT
1 CGCAACGCGAAAGTCAAATT
* *** *
7223228 TGCGTTGCGATAGTCAAATT
1 CGCAACGCGAAAGTCAAATT
7223248 CGCAACGCGAAAGTCAAATT
1 CGCAACGCGAAAGTCAAATT
* *
7223268 CGTAACGCGAAAGACAAATT
1 CGCAACGCGAAAGTCAAATT
7223288 CGC
1 CGC
7223291 GTTGCGATTT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (20 bp):
CGCAACGCGAAAGTCAAATT
Found at i:7223365 original size:20 final size:20
Alignment explanation
Indices: 7223340--7223392 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
7223330 TCACAACGCA
7223340 AATTTGACTTTCGTGTTGCG
1 AATTTGACTTTCGTGTTGCG
7223360 AATTTGACTTTCGTGTTGCG
1 AATTTGACTTTCGTGTTGCG
7223380 AATTTGACTTTCG
1 AATTTGACTTTCG
7223393 CAACAATCGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (20 bp):
AATTTGACTTTCGTGTTGCG
Found at i:7226055 original size:12 final size:12
Alignment explanation
Indices: 7226034--7226067 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7226024 GGTTGTGGGT
*
7226034 TTTGAGATTGTG
1 TTTGATATTGTG
7226046 TTTGATATTGTG
1 TTTGATATTGTG
*
7226058 TTTGGTATTG
1 TTTGATATTG
7226068 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:7226899 original size:40 final size:40
Alignment explanation
Indices: 7226854--7226963 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
7226844 ACTAAAACCT
*
7226854 GTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAA-TCGA
1 GTTGCGAAATTAAAATTCGAGTTGCGAATTC-AAAATTCGA
** * ** *
7226894 GTTGCGAAAACAAAATTCGCGTTGCGAAAACAAAATTCGC
1 GTTGCGAAATTAAAATTCGAGTTGCGAATTCAAAATTCGA
7226934 GTTGCG-AATTCAGAAA-TCGAGTTGCGAATT
1 GTTGCGAAATT-A-AAATTCGAGTTGCGAATT
7226964 TGGAATTCAG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
39 6 0.11
40 47 0.84
41 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGAGTTGCGAATTCAAAATTCGA
Found at i:7227031 original size:20 final size:20
Alignment explanation
Indices: 7226866--7227044 Score: 103
Period size: 20 Copynumber: 8.9 Consensus size: 20
7226856 TGCGAAATTA
*
7226866 AAATTCGTGTTGCGAATTCG
1 AAATTCGCGTTGCGAATTCG
* * ** *
7226886 AAAATCGAGTTGCGAAAACA
1 AAATTCGCGTTGCGAATTCG
** *
7226906 AAATTCGCGTTGCGAAAACA
1 AAATTCGCGTTGCGAATTCG
7226926 AAATTCGCGTTGCGAATTCAG
1 AAATTCGCGTTGCGAATTC-G
* *
7226947 AAA-TCGAGTTGCGAATTTG
1 AAATTCGCGTTGCGAATTCG
* * *
7226966 GAATTCAGTGTTGCGAATTTGG
1 AAATTC-GCGTTGCGAA-TTCG
* *** *
7226988 AAAATCGCAACGCGATTTAC-
1 AAATTCGCGTTGCGAATT-CG
*
7227008 AGATTCGCGTTGCGAATTCG
1 AAATTCGCGTTGCGAATTCG
* *
7227028 AGA-TCGCTTTGCGAATT
1 AAATTCGCGTTGCGAATT
7227045 TGTTGGTCAT
Statistics
Matches: 123, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
19 17 0.14
20 82 0.67
21 17 0.14
22 7 0.06
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (20 bp):
AAATTCGCGTTGCGAATTCG
Found at i:7231186 original size:17 final size:17
Alignment explanation
Indices: 7231161--7231194 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7231151 CCGGTTTCGG
7231161 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
*
7231178 TTTTTAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
7231195 ATAAAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:7231629 original size:13 final size:13
Alignment explanation
Indices: 7231608--7231662 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
7231598 AAGTTCGATA
*
7231608 AATTCAAATACTT
1 AATTGAAATACTT
7231621 AATTGAAATACTT
1 AATTGAAATACTT
* *
7231634 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
7231648 AATTGAAATACTT
1 AATTGAAATACTT
7231661 AA
1 AA
7231663 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:7231744 original size:32 final size:33
Alignment explanation
Indices: 7231648--7231746 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
7231638 AACTCAACAT
* * *
7231648 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
7231681 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
7231714 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
7231746 A
1 A
7231747 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:7231765 original size:21 final size:21
Alignment explanation
Indices: 7231741--7231780 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7231731 ACTTCAAGTT
7231741 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
7231762 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
7231781 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:7234090 original size:12 final size:12
Alignment explanation
Indices: 7234073--7234118 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
7234063 TTCGGATAAA
7234073 AACCGGTTTTTT
1 AACCGGTTTTTT
7234085 AACCGGTTTTTTT
1 AACCGG-TTTTTT
7234098 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
7234112 ATCCGGT
1 AACCGGT
7234119 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:7234103 original size:15 final size:14
Alignment explanation
Indices: 7234072--7234111 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
7234062 TTTCGGATAA
7234072 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
7234085 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
7234098 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
7234112 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:7237425 original size:18 final size:19
Alignment explanation
Indices: 7237390--7237426 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7237380 CACGGAATGT
7237390 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
7237410 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
7237427 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:7246672 original size:51 final size:51
Alignment explanation
Indices: 7246596--7246705 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 51
7246586 CATAATACAT
* * * *
7246596 CAACACAAGATGTTCAACACAAACATATTACACAAAAGTATTAAGACTTGA
1 CAACACAAGATATTCAACACAAACATACTACACAAAAGTATCAAGACTTAA
* *
7246647 CAACACAAGATATTCTAA-ATAAACATACTACACAAAAGTATCAAGTCTTAA
1 CAACACAAGATATTC-AACACAAACATACTACACAAAAGTATCAAGACTTAA
7246698 CAACACAA
1 CAACACAA
7246706 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 50 0.96
52 2 0.04
ACGTcount: A:0.51, C:0.21, G:0.07, T:0.21
Consensus pattern (51 bp):
CAACACAAGATATTCAACACAAACATACTACACAAAAGTATCAAGACTTAA
Found at i:7253518 original size:30 final size:30
Alignment explanation
Indices: 7253482--7253542 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
7253472 ACCGAGGATC
7253482 AATGCTCATTGTTGGAACGAAAGTTTTCAG
1 AATGCTCATTGTTGGAACGAAAGTTTTCAG
7253512 AATGCTCATTGTTGGAACGAAAGTTTTCAG
1 AATGCTCATTGTTGGAACGAAAGTTTTCAG
7253542 A
1 A
7253543 GGAGGAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (30 bp):
AATGCTCATTGTTGGAACGAAAGTTTTCAG
Found at i:7258513 original size:2 final size:2
Alignment explanation
Indices: 7258506--7258531 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7258496 CTATTATGTC
7258506 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7258532 TAAAATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7259358 original size:32 final size:31
Alignment explanation
Indices: 7259296--7259359 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
7259286 TTTTTTTGAG
**
7259296 AAAATATAAATTAAACCCTTTAAATTTTTAA
1 AAAATATAAATTAAACCCTTTAAAAATTTAA
*
7259327 AAAATTATAATTTAAA-CCTTTAAAAAATTTAA
1 AAAA-TATAAATTAAACCCTTT-AAAAATTTAA
7259359 A
1 A
7259360 GTTTTAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (31 bp):
AAAATATAAATTAAACCCTTTAAAAATTTAA
Found at i:7260039 original size:16 final size:15
Alignment explanation
Indices: 7260014--7260043 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7260004 TAAAATAAAA
7260014 TATTCTTAATAATCC
1 TATTCTTAATAATCC
7260029 TATTCCTTAATAATC
1 TATT-CTTAATAATC
7260044 TTTTATTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTCTTAATAATCC
Found at i:7260297 original size:14 final size:13
Alignment explanation
Indices: 7260269--7260311 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
7260259 ATCTTATATA
7260269 ATTTTAATATTTT
1 ATTTTAATATTTT
7260282 ATTTTAATATTTT
1 ATTTTAATATTTT
* *
7260295 -TATTAATAATTT
1 ATTTTAATATTTT
7260307 ATTTT
1 ATTTT
7260312 CATCTTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTAATATTTT
Found at i:7263118 original size:2 final size:2
Alignment explanation
Indices: 7263111--7263139 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7263101 AGAAGGCATA
7263111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7263140 AAGTCCGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7264518 original size:29 final size:29
Alignment explanation
Indices: 7264476--7264552 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
7264466 ACGGACCAGC
* * * *
7264476 ATAGGTCGTCATGCACGTCCGGCGTCCTT
1 ATAGGTTGCCATGCACGCCCGACGTCCTT
*
7264505 ATAGGTTGCCATGCAAGCCCGACGTCCTT
1 ATAGGTTGCCATGCACGCCCGACGTCCTT
*
7264534 ATAGGTTGCCATACACGCC
1 ATAGGTTGCCATGCACGCC
7264553 ACCGTCCAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.19, C:0.31, G:0.25, T:0.25
Consensus pattern (29 bp):
ATAGGTTGCCATGCACGCCCGACGTCCTT
Found at i:7265168 original size:21 final size:21
Alignment explanation
Indices: 7265143--7265186 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7265133 AATCTAGTTA
7265143 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
7265164 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
7265185 AT
1 AT
7265187 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:7265196 original size:28 final size:30
Alignment explanation
Indices: 7265163--7265225 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
7265153 TAGTATAAAT
7265163 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
7265191 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
7265221 TATTA
1 TATTA
7265226 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:7265734 original size:17 final size:17
Alignment explanation
Indices: 7265709--7265769 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7265699 TATAATTTCC
*
7265709 GTTTTAAAAAATATTGT
1 GTTTAAAAAAATATTGT
* *
7265726 GTTTAAAAATATTTAGTGTT
1 GTTTAAAAA-A-ATATTG-T
*
7265746 GTTTTAAAAAAATATTTT
1 G-TTTAAAAAAATATTGT
7265764 GTTTAA
1 GTTTAA
7265770 TTTATATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 13 0.38
18 3 0.09
19 7 0.21
20 3 0.09
21 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
GTTTAAAAAAATATTGT
Found at i:7265773 original size:22 final size:23
Alignment explanation
Indices: 7265730--7265773 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
7265720 TATTGTGTTT
**
7265730 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
7265753 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
7265774 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:7270378 original size:23 final size:21
Alignment explanation
Indices: 7270347--7270388 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
7270337 TTTCTTTAAA
7270347 ATATAATATTATGAATATATTTT
1 ATATAATATT-TG-ATATATTTT
*
7270370 ATATTATATTTGATATATT
1 ATATAATATTTGATATATT
7270389 AAATAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATATAATATTTGATATATTTT
Found at i:7273990 original size:7 final size:6
Alignment explanation
Indices: 7273969--7274011 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
7273959 ATTAACACCT
**
7273969 TTTGCA TTTGCA TTTAGCA TTTGCA TTTTTA TTTGCA -TTGCA T
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTTGCA TTTGCA T
7274012 GTATTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (6 bp):
TTTGCA
Found at i:7273990 original size:13 final size:13
Alignment explanation
Indices: 7273972--7273996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7273962 AACACCTTTT
7273972 GCATTTGCATTTA
1 GCATTTGCATTTA
7273985 GCATTTGCATTT
1 GCATTTGCATTT
7273997 TTATTTGCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
GCATTTGCATTTA
Found at i:7279143 original size:37 final size:37
Alignment explanation
Indices: 7279092--7279286 Score: 209
Period size: 37 Copynumber: 5.3 Consensus size: 37
7279082 GGAGATTGGG
*
7279092 GCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAA
1 GCAAA-TCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* *
7279130 GCAAATCCATCTTAAGCCTTCATCGAAGAATAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * * *
7279167 GTGATAT--ATCCTAAGCCTTCACCGAAGTGTAGTGAA
1 G-CAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * *
7279203 GCAAATCCATCTTAAGCCTTAACTGAAGAATAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * * *
7279240 GCAAATCCATTTTAAGCCTTCTCGGAAGAGT-GTTGGA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAG-TGAA
7279277 GCAAA-CCATC
1 GCAAATCCATC
7279287 AGATAATCAG
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
35 3 0.02
36 31 0.24
37 88 0.68
38 8 0.06
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (37 bp):
GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
Found at i:7279191 original size:73 final size:73
Alignment explanation
Indices: 7279105--7279240 Score: 238
Period size: 73 Copynumber: 1.9 Consensus size: 73
7279095 AAGTCAATCT
*
7279105 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCA-TCGAAGAATAGTGAAGT
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAACT-GAAGAATAGTGAAGT
7279169 GATATATCC
65 GATATATCC
*
7279178 TAAGCCTTCACCGAAGTGTAGTGAAGCAAATCCATCTTAAGCCTTAACTGAAGAATAGTGAAG
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAACTGAAGAATAGTGAAG
7279241 CAAATCCATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 59 0.98
74 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (73 bp):
TAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAACTGAAGAATAGTGAAGTG
ATATATCC
Found at i:7279286 original size:73 final size:73
Alignment explanation
Indices: 7279101--7279286 Score: 227
Period size: 73 Copynumber: 2.5 Consensus size: 73
7279091 GGCAAAGTCA
*
7279101 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCATCGAAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAATCGAAGAATAGTGA
* *
7279166 AGTGATAT
66 AGTCAAAT
* *
7279174 ATCCTAAGCCTTCACCGAAGTGTAGTGAAGCAAATCCATCTTAAGCCTTAA-CTGAAGAATAGTG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAATC-GAAGAATAGTG
7279238 AAG-CAAAT
65 AAGTCAAAT
* * * *
7279246 CCATTTTAAGCCTTCTCGGAAGAGT-GTTGGAGCAAA-CCATC
1 --ATCTTAAGCCTTCACCGAAGAGTAG-TGAAGCAAATCCATC
7279287 AGATAATCAG
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
72 4 0.04
73 68 0.69
74 26 0.27
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (73 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTAATCGAAGAATAGTGA
AGTCAAAT
Found at i:7279845 original size:56 final size:56
Alignment explanation
Indices: 7279636--7280798 Score: 388
Period size: 55 Copynumber: 21.1 Consensus size: 56
7279626 TAAGGAAAAT
* * * *
7279636 GAAGATTGTTCGAGTTCCATAC-TCACT-AAAGAAAGAGGGAGTGAACCCATTTTCA
1 GAAGATTATTCGAGTTCTATACTTC-CTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
* * * * *
7279691 GAAGATTATTTGAGTTTTATACTTACTGAAAGAAAGAGGGA-TCGAGCTCGTTT---
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGT-GAACCCGTTTGCA
* * * * *
7279744 GAAGATT-TTTGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTATGAA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
7279798 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
* * * *
7279854 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGTGGGAGCGAACCCATTTGTA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
** * * * * * **
7279910 GAAGATCGTCCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAG-CAGACACGATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * * * * **
7279965 GAAGATTGTTCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAG-CAGACACGATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * * * * **
7280020 GAAGATTGTTCGAG-TCTTATAC-TCTCTGAAA-AAATAGGGAGCGAACACGATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
* * * * * **
7280075 GAAGATTGTTCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAG-CATACACGATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * * * **
7280130 GAAGATTGTTCGAG-TCTTATAC-TCTCTGAAAG-AATAGGGAGCGAACAC-TATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGAACCCGT-TTGCA
* * * * * **
7280185 GAAGATTGTTCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAG-CAGACACGATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * * * * ** **
7280240 GAAGGTTATTCGAG-TCTTATAC-TCTCTG-AAGAAATAAGGAG-CAGACACAATTGTT
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * * ** * * *
7280295 GAAGATTGTTTGAG-TCTTATA-TTCTCTG-AAGAAATAGGGA-CCAGACACGATTGTTA
1 GAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTG-CA
* * * **** ***
7280351 -AAGATTGTTCGAGTAT-TATAC-TCTCTG-AAGAAATAGGGAG-CATACATAATTATT
1 GAAGATTATTCGAGT-TCTATACTTC-CTGAAAGAAAGAGGGAGTGA-ACCCGTTTGCA
* * ** * *
7280405 GAAGATCT-TCCGAG-TCTTATAC-TCTCTG-AAGAAATAGGGAGCAAACACGATT--A
1 GAAGAT-TATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
** * * * * * **
7280458 -TTGATTGTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACTCGTTCACA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGA-AAGAGGGAGTGAACCCGTTTGCA
* * * * * * *
7280513 GAAAATTGTTCGAGTTCTATACTCCCTGAAAGGAATAGGGAGCGAACCCGTTTTCA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
* * * * *
7280569 GAAGATTGTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACTCGTTTGCA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGA-AAGAGGGAGTGAACCCGTTTGCA
* * * * * *
7280625 GAAGATTGTTTGAGTTATATA-TTCCCTGAAACG-AATAGGGAGCGAA-CCGTTTACA
1 GAAGATTATTCGAGTTCTATACTT-CCTGAAA-GAAAGAGGGAGTGAACCCGTTTGCA
* * * * * * *
7280680 GAAGATTGTTCGAGTTCTATACTCCCTGAAAGGAATAGGGAGCGAACCCATTTGTA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
* * * * * *
7280736 GTAGATTGTTCGAGTTCTATACTCCCTGAAA-AGAATAGGGAGCGAACCCGTTTTCA
1 GAAGATTATTCGAGTTCTATACTTCCTGAAAGA-AAGAGGGAGTGAACCCGTTTGCA
7280792 GAAGATT
1 GAAGATT
7280799 TCTTGAGTCT
Statistics
Matches: 958, Mismatches: 99, Indels: 101
0.83 0.09 0.09
Matches are distributed among these distances:
51 20 0.02
52 34 0.04
53 29 0.03
54 17 0.02
55 531 0.55
56 326 0.34
57 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (56 bp):
GAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
Found at i:7279969 original size:55 final size:55
Alignment explanation
Indices: 7279905--7280778 Score: 878
Period size: 55 Copynumber: 15.9 Consensus size: 55
7279895 GCGAACCCAT
* * *
7279905 TTGTAGAAGATCGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
7279960 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
*
7280015 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAAAAATAGGGAGC-GAACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAG-ACACGA
*
7280070 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
*
7280125 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGC-GAACACTA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAG-ACACGA
7280180 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * * *
7280235 TTGTTGAAGGTTATTCGAGTCTTATACTCTCTGAAGAAATAAGGAGCAGACACAA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * *
7280290 TTGTTGAAGATTGTTTGAGTCTTATATTCTCTGAAGAAATAGGGACCAGACACGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * * **
7280345 TTGTTAAAGATTGTTCGAGTATTATACTCTCTGAAGAAATAGGGAGCATACATAA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * *
7280400 TTATTGAAGATCT-TCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGA
1 TTGTTGAAGAT-TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
* * * *
7280455 TTATT---GATTGTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC-GAACTCG-
1 TTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGCAG-ACACGA
*** * * * *
7280507 TTCACAGAAAATTGTTCGAGT-TCTATACTCCCTGAAAGGAATAGGGAGC-GAACCCG-
1 TT-GTTGAAGATTGTTCGAGTCT-TATACTCTCTG-AAGAAATAGGGAGCAG-ACACGA
* * * *
7280563 TT-TTCAGAAGATTGTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC-GAACTCGT
1 TTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGCAG-ACACGA
** * * * *
7280620 TTGCAGAAGATTGTTTGAGT-TATATATTCCCTGAA-ACGAATAGGGAGC-GA-ACCGT
1 TTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGA--AATAGGGAGCAGACA-CGA
*** * * *
7280675 TTACAGAAGATTGTTCGAGT-TCTATACTCCCTGAAAGGAATAGGGAGC-GA-ACCCA
1 TTGTTGAAGATTGTTCGAGTCT-TATACTCTCTG-AAGAAATAGGGAGCAGACA-CGA
* * * *
7280730 TTTGTAGTAGATTGTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC
1 -TTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGC
7280779 GAACCCGTTT
Statistics
Matches: 722, Mismatches: 70, Indels: 53
0.85 0.08 0.06
Matches are distributed among these distances:
51 2 0.00
52 24 0.03
53 15 0.02
54 2 0.00
55 506 0.70
56 169 0.23
57 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (55 bp):
TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA
Found at i:7280048 original size:110 final size:110
Alignment explanation
Indices: 7279742--7280778 Score: 925
Period size: 110 Copynumber: 9.4 Consensus size: 110
7279732 TCGAGCTCGT
* * * * **
7279742 TTGAAGATT-TTTGAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAACCCG-TATGAAGAAGA
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACACGAT-TGTTGAAGA
* * * * *
7279803 TTATTCGAGT-TCTATACT-TCCTGAAAGAAAGAGGGAGTGAACCCGTTTG
63 TTGTTCGAGTCT-TATACTCT-CTG-AAGAAATAGGGAGCGAACACGATTG
** * * *
7279852 CAGAAGATTATTCGAGT-TCTATACT-TCCTGAAAGAAAGT-GGGAGC-GA-ACCCATTTGTAGA
1 TTGAAGATTGTTCGAGTCT-TATACTCT-CTG-AAGAAA-TAGGGAGCAGACA-CGA-TTGTTGA
* *
7279912 AGATCGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGC-AGACACGATTG
60 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCGA-ACACGATTG
7279963 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
*
7280028 TTCGAGTCTTATACTCTCTGAAAAAATAGGGAGCGAACACGATTG
66 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCGAACACGATTG
*
7280073 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
*
7280138 TTCGAGTCTTATACTCTCTGAA-AGAATAGGGAGCGAACACTATTG
66 TTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCGAACACGATTG
* *
7280183 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGGTTA
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
* *
7280248 TTCGAGTCTTATACTCTCTGAAGAAATAAGGAGC-AGACACAATTG
66 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCGA-ACACGATTG
* * * *
7280293 TTGAAGATTGTTTGAGTCTTATATTCTCTGAAGAAATAGGGACCAGACACGATTGTTAAAGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
* ** *
7280358 TTCGAGTATTATACTCTCTGAAGAAATAGGGAGC-ATACATAATTA
66 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCGA-ACACGATTG
* * *
7280403 TTGAAGATCT-TCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTATT---GATT
1 TTGAAGAT-TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATT
* * * *
7280464 GTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGCGAACTCG-TTCA
65 GTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGCGAACACGATT-G
** * * * *
7280511 CAGAAAATTGTTCGAGT-TCTATACTCCCTGAAAGGAATAGGGAGC-GAACCCG-TT-TTCAGAA
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTG-AAGAAATAGGGAGCAG-ACACGATTGTT--GAA
* * * *
7280572 GATTGTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGCGAACTCGTTTG
61 GATTGTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGCGAACACGATTG
** * * * * ***
7280623 CAGAAGATTGTTTGAGT-TATATATTCCCTGAA-ACGAATAGGGAGC-GA-ACCGTTTACAGAAG
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGA--AATAGGGAGCAGACA-CGATTGTTGAAG
* * *
7280684 ATTGTTCGAGT-TCTATACTCCCTGAAAGGAATAGGGAGCGAAC-CCATTTG
62 ATTGTTCGAGTCT-TATACTCTCTG-AAGAAATAGGGAGCGAACACGA-TTG
* * * *
7280734 TAGTAGATTGTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGC
7280779 GAACCCGTTT
Statistics
Matches: 807, Mismatches: 78, Indels: 83
0.83 0.08 0.09
Matches are distributed among these distances:
106 1 0.00
107 31 0.04
108 36 0.04
109 21 0.03
110 428 0.53
111 156 0.19
112 129 0.16
113 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (110 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTG
TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCGAACACGATTG
Found at i:7280104 original size:165 final size:165
Alignment explanation
Indices: 7279691--7280778 Score: 954
Period size: 165 Copynumber: 6.6 Consensus size: 165
7279681 CCCATTTTCA
* * * * * * *
7279691 GAAGATTATTTGAGTTTTATACT-TACTGAAAGAAAGAGGGATCGAGCTCG--T-TTGAAGATT-
1 GAAGATTGTTCGAGTTCTATACTCT-CTGAAAGAAATAGGGAGCGAACACGATTGTTGAAGATTG
* * * * ** *
7279751 TTTGAGT-TCTATACTCCCTGAAGAAAGAGGGAGC-GAACCCG-TATGAAGAAGATTATTCGAGT
65 TTCGAGTCT-TATACTCTCTGAAGAAATAGGGAGCAG-ACACGAT-TGTTGAAGATTGTTCGAGT
* * * * **
7279813 -TCTATACT-TCCTGAAAGAAAGAGGGAGTGAACCCGTTTGCA
127 CT-TATACTCT-CTGAAAG-AATAGGGAGCG-ACACGATTGTT
* * *
7279854 GAAGATTATTCGAGTTCTATACT-TCCTGAAAGAAAGT-GGGAGCGAAC-CCATTTGTAGAAGAT
1 GAAGATTGTTCGAGTTCTATACTCT-CTGAAAGAAA-TAGGGAGCGAACACGA-TTGTTGAAGAT
* *
7279916 CGTCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTC
63 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTC
7279981 TTATACTCTCTG-AAGAAATAGGGAGCAGACACGATTGTT
128 TTATACTCTCTGAAAG-AATAGGGAGC-GACACGATTGTT
7280020 GAAGATTGTTCGAG-TCTTATACTCTCTGAAA-AAATAGGGAGCGAACACGATTGTTGAAGATTG
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAAGAAATAGGGAGCGAACACGATTGTTGAAGATTG
*
7280083 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTGAAGATTGTTCGAGTCTT
65 TTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTT
*
7280148 ATACTCTCTGAAAGAATAGGGAGCGAACACTATTGTT
130 ATACTCTCTGAAAGAATAGGGAGCG-ACACGATTGTT
*
7280185 GAAGATTGTTCGAG-TCTTATACTCTCTG-AAGAAATAGGGAGC-AGACACGATTGTTGAAGGTT
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAAGAAATAGGGAGCGA-ACACGATTGTTGAAGATT
* * * *
7280247 ATTCGAGTCTTATACTCTCTGAAGAAATAAGGAGCAGACACAATTGTTGAAGATTGTTTGAGTCT
64 GTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCT
* *
7280312 TATATTCTCTG-AAGAAATAGGGACCAGACACGATTGTT
129 TATACTCTCTGAAAG-AATAGGGAGC-GACACGATTGTT
* ** *
7280350 AAAGATTGTTCGAGTAT-TATACTCTCTG-AAGAAATAGGGAGC-ATACATAATTATTGAAGATC
1 GAAGATTGTTCGAGT-TCTATACTCTCTGAAAGAAATAGGGAGCGA-ACACGATTGTTGAAGAT-
* * *
7280412 T-TCCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAAACACGATTATT---GATTGTTCGAGT-
63 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTC
* * ***
7280472 TCTATACTCCCTGAAAAGAATAGGGAGCGAACTCG-TTCACA
128 T-TATACTCTCTG-AAAGAATAGGGAGCG-ACACGATT-GTT
* * * *
7280513 GAAAATTGTTCGAGTTCTATACTCCCTGAAAGGAATAGGGAGCGAACCCG-TT-TTCAGAAGATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAAGAAATAGGGAGCGAACACGATTGTT--GAAGATT
* * * * ** *
7280576 GTTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC-GAACTCGTTTGCAGAAGATTGTTTGAG
64 GTTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGCAG-ACACGATTGTTGAAGATTGTTCGAG
* * * ***
7280639 T-TATATATTCCCTGAAACGAATAGGGAGCGA-ACCGTTTACA
126 TCT-TATACTCTCTGAAA-GAATAGGGAGCGACA-CGATTGTT
* * * * *
7280680 GAAGATTGTTCGAGTTCTATACTCCCTGAAAGGAATAGGGAGCGAAC-CCATTTGTAGTAGATTG
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAAGAAATAGGGAGCGAACACGA-TTGTTGAAGATTG
* *
7280744 TTCGAGT-TCTATACTCCCTGAAAAGAATAGGGAGC
65 TTCGAGTCT-TATACTCTCTGAAGA-AATAGGGAGC
7280779 GAACCCGTTT
Statistics
Matches: 795, Mismatches: 82, Indels: 92
0.82 0.08 0.09
Matches are distributed among these distances:
161 1 0.00
162 27 0.03
163 80 0.10
164 51 0.06
165 376 0.47
166 59 0.07
167 157 0.20
168 43 0.05
169 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (165 bp):
GAAGATTGTTCGAGTTCTATACTCTCTGAAAGAAATAGGGAGCGAACACGATTGTTGAAGATTGT
TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
TACTCTCTGAAAGAATAGGGAGCGACACGATTGTT
Found at i:7283372 original size:13 final size:14
Alignment explanation
Indices: 7283354--7283387 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
7283344 ATTGTGTGCG
7283354 TTTTATAATTTT-T
1 TTTTATAATTTTGT
7283367 TTTTATAATTTTGT
1 TTTTATAATTTTGT
7283381 TTTTATA
1 TTTTATA
7283388 GTTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTATAATTTTGT
Found at i:7284211 original size:14 final size:13
Alignment explanation
Indices: 7284192--7284240 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 13
7284182 CATTTAAATG
7284192 ATAAACGAACAAA
1 ATAAACGAACAAA
*
7284205 CATAAACGAACATA
1 -ATAAACGAACAAA
*
7284219 ATAAATGAAC---
1 ATAAACGAACAAA
7284229 ATAAACGAACAA
1 ATAAACGAACAA
7284241 CACAAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.30
13 9 0.30
14 12 0.40
ACGTcount: A:0.63, C:0.16, G:0.08, T:0.12
Consensus pattern (13 bp):
ATAAACGAACAAA
Found at i:7284228 original size:13 final size:13
Alignment explanation
Indices: 7284192--7284232 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7284182 CATTTAAATG
*
7284192 ATAAACGAACAAA
1 ATAAACGAACATA
7284205 CATAAACGAACATA
1 -ATAAACGAACATA
*
7284219 ATAAATGAACATA
1 ATAAACGAACATA
7284232 A
1 A
7284233 ACGAACAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.63, C:0.15, G:0.07, T:0.15
Consensus pattern (13 bp):
ATAAACGAACATA
Found at i:7284247 original size:23 final size:23
Alignment explanation
Indices: 7284203--7284247 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7284193 TAAACGAACA
*
7284203 AACATAAACGAACATAATAAATG
1 AACATAAACGAACATAACAAATG
7284226 AACATAAACGAACA-ACACAAAT
1 AACATAAACGAACATA-ACAAAT
7284248 ACAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.62, C:0.18, G:0.07, T:0.13
Consensus pattern (23 bp):
AACATAAACGAACATAACAAATG
Found at i:7285244 original size:14 final size:14
Alignment explanation
Indices: 7285225--7285252 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7285215 TAGTGACGTC
7285225 AAGTAATTATACAA
1 AAGTAATTATACAA
7285239 AAGTAATTATACAA
1 AAGTAATTATACAA
7285253 TAAATAACGA
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:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
AAGTAATTATACAA
Found at i:7286168 original size:137 final size:137
Alignment explanation
Indices: 7285922--7286191 Score: 540
Period size: 137 Copynumber: 2.0 Consensus size: 137
7285912 AAAACTAAGA
7285922 CATACTAAAAGTGTTCATGTCATGCTCAAGTTATCTGATAATTGCAATAGTGAGTATACTCGTAT
1 CATACTAAAAGTGTTCATGTCATGCTCAAGTTATCTGATAATTGCAATAGTGAGTATACTCGTAT
7285987 ACTGCACTCTCTACTCTATGGTAGACATCATGGTGCTGTTGAGGGTCTGCATCTCGAAGCTCACA
66 ACTGCACTCTCTACTCTATGGTAGACATCATGGTGCTGTTGAGGGTCTGCATCTCGAAGCTCACA
7286052 CACAAGC
131 CACAAGC
7286059 CATACTAAAAGTGTTCATGTCATGCTCAAGTTATCTGATAATTGCAATAGTGAGTATACTCGTAT
1 CATACTAAAAGTGTTCATGTCATGCTCAAGTTATCTGATAATTGCAATAGTGAGTATACTCGTAT
7286124 ACTGCACTCTCTACTCTATGGTAGACATCATGGTGCTGTTGAGGGTCTGCATCTCGAAGCTCACA
66 ACTGCACTCTCTACTCTATGGTAGACATCATGGTGCTGTTGAGGGTCTGCATCTCGAAGCTCACA
7286189 CAC
131 CAC
7286192 CCTTTTAGTC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (137 bp):
CATACTAAAAGTGTTCATGTCATGCTCAAGTTATCTGATAATTGCAATAGTGAGTATACTCGTAT
ACTGCACTCTCTACTCTATGGTAGACATCATGGTGCTGTTGAGGGTCTGCATCTCGAAGCTCACA
CACAAGC
Found at i:7302681 original size:18 final size:18
Alignment explanation
Indices: 7302658--7302709 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
7302648 TATGTGATAT
*
7302658 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCGGGACATA
7302676 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
7302694 GTAGTCATTCGGGACA
1 GTGGTCCTTCGGGACA
7302710 AATTCTACGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:7310326 original size:16 final size:16
Alignment explanation
Indices: 7310305--7310354 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
7310295 GCCACTAATG
7310305 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
7310321 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
*
7310337 TTTATAGATTTTAACT
1 TTTATAGATTTCAACT
7310353 TT
1 TT
7310355 CAGTCTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTATAGATTTCAACT
Found at i:7310638 original size:12 final size:13
Alignment explanation
Indices: 7310617--7310646 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
7310607 ATTCGAATTG
7310617 AATTTCAAATTTT
1 AATTTCAAATTTT
7310630 AATTT-AAATTTT
1 AATTTCAAATTTT
7310642 AATTT
1 AATTT
7310647 TTCGCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTTCAAATTTT
Found at i:7311491 original size:16 final size:16
Alignment explanation
Indices: 7311470--7311519 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
7311460 GCCACTAATG
7311470 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
7311486 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
*
7311502 TTTATAGATTTTAACT
1 TTTATAGATTTCAACT
7311518 TT
1 TT
7311520 CAGTCTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTATAGATTTCAACT
Found at i:7314696 original size:16 final size:15
Alignment explanation
Indices: 7314677--7314726 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
7314667 GCAAAAATCA
7314677 AAAAAAGAAAAGAAGC
1 AAAAAAGAAAAGAA-C
7314693 AAAAAAGAAGAA-AAC
1 AAAAAAGAA-AAGAAC
7314708 AAAAAAG-AAAGAAC
1 AAAAAAGAAAAGAAC
7314722 AAAAA
1 AAAAA
7314727 TCAAAAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.28
15 8 0.25
16 11 0.34
17 2 0.06
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAC
Found at i:7314703 original size:14 final size:14
Alignment explanation
Indices: 7314677--7314726 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
7314667 GCAAAAATCA
7314677 AAAAAAGAAAAGAAGC
1 AAAAAAG-AAAGAA-C
*
7314693 AAAAAAGAAGAAAAC
1 AAAAAAGAA-AGAAC
7314708 AAAAAAGAAAGAAC
1 AAAAAAGAAAGAAC
7314722 AAAAA
1 AAAAA
7314727 TCAAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 9 0.29
15 12 0.39
16 10 0.32
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAGAAC
Found at i:7314732 original size:19 final size:18
Alignment explanation
Indices: 7314668--7314733 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
7314658 ACAAATAGGG
7314668 CAAAAATCAAAAAAAGAA
1 CAAAAATCAAAAAAAGAA
* *
7314686 -AAGAAGC-AAAAAAGAA
1 CAAAAATCAAAAAAAGAA
* *
7314702 GAAAACA-AAAAAGAAAGAA
1 CAAAA-ATCAAAA-AAAGAA
7314721 CAAAAATCAAAAA
1 CAAAAATCAAAAA
7314734 GAAAAAGGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 9 0.24
17 8 0.22
18 6 0.16
19 14 0.38
ACGTcount: A:0.77, C:0.09, G:0.11, T:0.03
Consensus pattern (18 bp):
CAAAAATCAAAAAAAGAA
Found at i:7314732 original size:26 final size:25
Alignment explanation
Indices: 7314668--7314740 Score: 60
Period size: 26 Copynumber: 2.8 Consensus size: 25
7314658 ACAAATAGGG
7314668 CAAAAATCAAAAAAAGAAAAGAAGCAA
1 CAAAAATC-AAAAAA-AAAAGAAGCAA
**
7314695 -AAAAGAAGAAAACAAAAAAGAAAG-AA
1 CAAAA-ATCAAAA-AAAAAAG-AAGCAA
7314721 CAAAAATCAAAAAGAAAAAG
1 CAAAAATCAAAAA-AAAAAG
7314741 GGACAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.03
26 26 0.70
27 10 0.27
ACGTcount: A:0.77, C:0.08, G:0.12, T:0.03
Consensus pattern (25 bp):
CAAAAATCAAAAAAAAAAGAAGCAA
Found at i:7315379 original size:22 final size:22
Alignment explanation
Indices: 7315351--7315401 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7315341 CCCCATCAAT
7315351 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
7315373 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
7315395 CCTTTGA
1 CCTTTGA
7315402 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:7316259 original size:64 final size:64
Alignment explanation
Indices: 7316176--7316526 Score: 519
Period size: 64 Copynumber: 5.5 Consensus size: 64
7316166 ATTAGACTCG
* ** * *
7316176 AGACAGCACAAGTTCAACTTCACAACGAAGGGATCGTTGGTTGTCAACAAAGTTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
7316240 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* * *
7316304 AGACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCGACAAAAATTTCCCAGTATC
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AAAATTTCCCAGTTTC
*
7316369 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
* * *
7316433 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAAC-AA-AATTTCCCAGTTT
7316498 C
64 C
* * *
7316499 AG--AGC-CAATTTCAACTTCACATCGAAGG
1 AGACAACACAAGTTCAACTTCACAACGAAGG
7316527 ATATTGGACT
Statistics
Matches: 266, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
63 21 0.08
64 168 0.63
65 63 0.24
66 14 0.05
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (64 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
Found at i:7316395 original size:129 final size:129
Alignment explanation
Indices: 7316176--7316526 Score: 539
Period size: 129 Copynumber: 2.7 Consensus size: 129
7316166 ATTAGACTCG
** * *
7316176 AGACAGCACAAGTTCAACTTCACAACGAAGGGATCGTTGGTTGTCAAC-AAAGTTTCCCAGTTTC
1 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTTCCCAGTTTC
*
7316240 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTC
66 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
* * * *
7316304 AGACAACACAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCGACAAAAATTTCCCAGTATC
1 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTTCCCAGTTTC
7316369 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
66 AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
* *
7316433 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCAATTT
1 AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAA-AATTTCCCAGTTT
* * *
7316498 CAG--AGC-CAATTTCAACTTCACATCGAAGG
65 CAGACAACACAAGTTCAACTTCACAACGAAGG
7316527 ATATTGGACT
Statistics
Matches: 203, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 21 0.10
128 44 0.22
129 124 0.61
130 14 0.07
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (129 bp):
AGACAGCACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAAATTTCCCAGTTTC
AGACAACACAAGTTCAACTTCACAACGAAGGGGCCGCTGGTTGTCAACAAAATTTCCCAGTTTA
Found at i:7316618 original size:106 final size:106
Alignment explanation
Indices: 7316441--7317686 Score: 1897
Period size: 106 Copynumber: 11.9 Consensus size: 106
7316431 TAAGACAGCA
* * *
7316441 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* *
7316506 ATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAATG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
7316547 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
7316612 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
7316653 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* *
7316718 ATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
7316759 CAAGTTCAACTTCACAACGAAGGGGCCGCTGGCTGTCAACAAATAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
7316824 ATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
7316865 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
7316930 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
7316971 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
7317036 ATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
7317077 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
7317142 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
7317183 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-----C---TTC----TCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
7317236 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
7317277 CAAGTTCAACTTCACGACGAAGGGACCGCTGATTGTCAATAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
*
7317342 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
7317383 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * *
7317448 AGTTTCAACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACA
66 A-TTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACG
* * * * *
7317490 CAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--C-A-TTCAGAGTCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * *
7317549 ATTTCAAGTTCACAGCGAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
7317590 CAAGTTCAACTTCAC-AGCGAAGGGACGGATGGTTGTCAACAAACAATTTCCCGA-TTCTAGAGC
1 CAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC-AGAGC
*
7317653 CAATTTCAACTTCAC-GACGGAGGATATTGGACTC
64 CAATTTCAACTTCACAG-CGAAGGATATTGGACTC
7317687 GGAACAATGC
Statistics
Matches: 1050, Mismatches: 67, Indels: 46
0.90 0.06 0.04
Matches are distributed among these distances:
94 87 0.08
98 3 0.00
99 2 0.00
100 68 0.06
101 14 0.01
102 9 0.01
103 1 0.00
104 1 0.00
105 9 0.01
106 787 0.75
107 69 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:7317205 original size:43 final size:43
Alignment explanation
Indices: 7317144--7317299 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
7317134 CAGAGCCAAT
7317144 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*** ** * * *
7317187 TTCAACTTCAC-GACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAAT
1 TTCAACTTCACAG-CGAA-GGA-TATTGG-ACTC--CAGACAA---CGCAAG
7317238 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
1 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
7317281 TTCAACTTCAC-GACGAAGG
1 TTCAACTTCACAG-CGAAGG
7317300 GACCGCTGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
42 2 0.02
43 36 0.42
44 3 0.03
45 3 0.03
46 8 0.09
48 8 0.09
49 3 0.03
50 3 0.03
51 19 0.22
52 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:7318028 original size:81 final size:80
Alignment explanation
Indices: 7317896--7318131 Score: 274
Period size: 81 Copynumber: 2.9 Consensus size: 80
7317886 AAGACCTTCG
* * * *
7317896 AGTTCGGCTACGCTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC
7317961 TGCCAAAGACCCTTA
66 TGCCAAAGACCCTTA
* * * * * * * *
7317976 AGTTCGATTACACTCAGCTTCAGGGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGT
1 AGTTCGACTACACTCAGCTCCA-AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTAT
* *
7318041 CTGCCAACAAAAGACCTTTG
65 CTG-C--C-AAAGACCCTTA
* * *
7318061 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAATCGAGAAGGGTTATC
1 AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC
7318126 TGCCAA
66 TGCCAA
7318132 CAAATTAGTC
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
80 20 0.16
81 38 0.30
82 1 0.01
83 1 0.01
84 38 0.30
85 28 0.22
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (80 bp):
AGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC
TGCCAAAGACCCTTA
Found at i:7318118 original size:84 final size:83
Alignment explanation
Indices: 7317866--7318135 Score: 330
Period size: 84 Copynumber: 3.3 Consensus size: 83
7317856 TCAAACTCAA
* * * * *
7317866 AGAAGGATTATCTGTCAACAAAGACCTTCGAGTTCGGCTACGCTCAGCTCCAAAGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
7317931 GCAGCATAGCTTAAGTCG
66 GCAGCATAGCTTAAGTCG
* * * * * * * *
7317949 AGAAGGGCTATCTG-C--CAAAGACCCTTAAGTTCGATTACACTCAGCTTCAGGGGCATATCATT
1 AGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCA-AGGCACATCATT
* * *
7318011 TGCAGCACAACTTAAGTCT
65 TGCAGCATAGCTTAAGTCG
*
7318030 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
7318095 TGCAGAATAGCTTAAATCG
65 TGCAGCATAGCTTAAGTCG
7318114 AGAAGGGTTATCTGCCAACAAA
1 AGAAGGGTTATCTGCCAACAAA
7318136 TTAGTCGAGT
Statistics
Matches: 152, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
80 27 0.18
81 37 0.24
82 2 0.01
83 15 0.10
84 43 0.28
85 28 0.18
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCG
Found at i:7319454 original size:16 final size:16
Alignment explanation
Indices: 7319433--7319482 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
7319423 GCCACTAATG
7319433 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
7319449 TTTATAGATTTCAACT
1 TTTATAGATTTCAACT
*
7319465 TTTATAGATTTTAACT
1 TTTATAGATTTCAACT
7319481 TT
1 TT
7319483 CAGTCTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (16 bp):
TTTATAGATTTCAACT
Found at i:7320635 original size:15 final size:16
Alignment explanation
Indices: 7320599--7320637 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7320589 ACAGAGCCTC
*
7320599 AATCATTCAGCATTTG
1 AATCATTCAACATTTG
*
7320615 AATCATTCAACGTTT-
1 AATCATTCAACATTTG
7320630 AATCATTC
1 AATCATTC
7320638 TGAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (16 bp):
AATCATTCAACATTTG
Found at i:7321383 original size:2 final size:2
Alignment explanation
Indices: 7321378--7321442 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
7321368 GCAATTCGCA
7321378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7321420 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
7321443 CCGGCCATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7322317 original size:13 final size:13
Alignment explanation
Indices: 7322281--7322307 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7322271 TGAAATCTTC
7322281 ATCTGAATTAATT
1 ATCTGAATTAATT
7322294 ATCTGAATTAATT
1 ATCTGAATTAATT
7322307 A
1 A
7322308 ATTGGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATCTGAATTAATT
Found at i:7322532 original size:36 final size:36
Alignment explanation
Indices: 7322492--7322566 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
7322482 ATATATTATC
7322492 TTATAATCATTTTAAACTAATTAAAATAAATAAAAT
1 TTATAATCATTTTAAACTAATTAAAATAAATAAAAT
* *
7322528 TTATAATTATTTTAAATTAATTAAAATAAATAAAAT
1 TTATAATCATTTTAAACTAATTAAAATAAATAAAAT
7322564 TTA
1 TTA
7322567 GTGACATGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (36 bp):
TTATAATCATTTTAAACTAATTAAAATAAATAAAAT
Found at i:7325066 original size:18 final size:18
Alignment explanation
Indices: 7325039--7325078 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7325029 TTTTAATAAT
7325039 AAATACATAAAAAATTTA
1 AAATACATAAAAAATTTA
* * *
7325057 AAATATATAAATATTTTA
1 AAATACATAAAAAATTTA
7325075 AAAT
1 AAAT
7325079 TTCATAGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATACATAAAAAATTTA
Found at i:7325230 original size:18 final size:19
Alignment explanation
Indices: 7325195--7325231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7325185 CACGGAATGT
7325195 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
7325215 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
7325232 GAATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:7338660 original size:174 final size:174
Alignment explanation
Indices: 7338365--7338712 Score: 639
Period size: 174 Copynumber: 2.0 Consensus size: 174
7338355 AGCGGCGTTA
7338365 TGATGTCCATAACATCGGGTCCAAAACCACCATCGGTTTCCTCGGTAAAATAAATCCTAACTCAA
1 TGATGTCCATAACATCGGGTCCAAAACCACCATCGGTTTCCTCGGTAAAATAAATCCTAACTCAA
7338430 AAAGAGTTTCGGTTCTTGAAGTTTTGGAACCAAGCCTTAGCCTAATCGTTCTCAAACTATTG-CA
66 AAAGAGTTTCGGTTCTTGAAGTTTTGGAACCAAGCCTTAGCCTAATCGTTCTCAAACTATTGCCA
7338494 AGCGGTTGTGTCGGTT-G-GAGCCGGTCTTGAGCGCACCATTTT
131 AGCGGTTGTGTCGGTTGGAGAGCCGGTCTTGAGCGCACCATTTT
7338536 TGATGTCCATAACATCGGGTCCAAAACCACCATCGGTTTCCTCGGTAAAAATAAATCCTAACTCA
1 TGATGTCCATAACATCGGGTCCAAAACCACCATCGGTTTCCTCGGT-AAAATAAATCCTAACTC-
*
7338601 AAAAAGAGTTTTCGGTTCTTGAAGTTTTGGAACCAAGCCTTAGCCTCATCGTTCTCAAACTATTG
64 AAAAAGAG-TTTCGGTTCTTGAAGTTTTGGAACCAAGCCTTAGCCTAATCGTTCTCAAACTATTG
7338666 CCAAGCGGTTGTGTCGGTTGGAGAGCCGGTCTTGAGCGCACCATTTT
128 CCAAGCGGTTGTGTCGGTTGGAGAGCCGGTCTTGAGCGCACCATTTT
7338713 CAGTGTTTTG
Statistics
Matches: 170, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
171 46 0.27
172 17 0.10
173 8 0.05
174 55 0.32
175 18 0.11
176 1 0.01
177 25 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (174 bp):
TGATGTCCATAACATCGGGTCCAAAACCACCATCGGTTTCCTCGGTAAAATAAATCCTAACTCAA
AAAGAGTTTCGGTTCTTGAAGTTTTGGAACCAAGCCTTAGCCTAATCGTTCTCAAACTATTGCCA
AGCGGTTGTGTCGGTTGGAGAGCCGGTCTTGAGCGCACCATTTT
Found at i:7338854 original size:19 final size:20
Alignment explanation
Indices: 7338832--7338875 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7338822 GAGAAAAGGT
7338832 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
7338851 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
7338871 AAAAG
1 AAAAG
7338876 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:7348269 original size:24 final size:24
Alignment explanation
Indices: 7348225--7348271 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7348215 ATAAAGAACC
*
7348225 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
7348249 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
7348272 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:7352553 original size:17 final size:18
Alignment explanation
Indices: 7352520--7352553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7352510 CCGCTACTAG
7352520 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
7352538 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
7352554 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:7355654 original size:9 final size:9
Alignment explanation
Indices: 7355642--7355667 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7355632 ATTCTCGGTC
7355642 TTCTTCTTG
1 TTCTTCTTG
7355651 TTCTTCTTG
1 TTCTTCTTG
7355660 TTCTTCTT
1 TTCTTCTT
7355668 ATTGCTATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.08, T:0.69
Consensus pattern (9 bp):
TTCTTCTTG
Found at i:7356702 original size:31 final size:31
Alignment explanation
Indices: 7356664--7356726 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
7356654 AAATGATCCC
7356664 TCATGTTATAATATATTAATCAATAGATTTT
1 TCATGTTATAATATATTAATCAATAGATTTT
7356695 TCATGTTATAATATATTAATCAATAGATTTT
1 TCATGTTATAATATATTAATCAATAGATTTT
7356726 T
1 T
7356727 TCAGAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (31 bp):
TCATGTTATAATATATTAATCAATAGATTTT
Found at i:7356737 original size:31 final size:31
Alignment explanation
Indices: 7356671--7356737 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
7356661 CCCTCATGTT
**
7356671 ATAATATATTAATCAATAGATTTTTCATGTT
1 ATAATATATTAATCAATAGATTTTTCATGAA
7356702 ATAATATATTAATCAATAGATTTTTTCA-GAA
1 ATAATATATTAATCAATAGA-TTTTTCATGAA
7356733 ATAAT
1 ATAAT
7356738 GGGGTGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (31 bp):
ATAATATATTAATCAATAGATTTTTCATGAA
Found at i:7356823 original size:26 final size:26
Alignment explanation
Indices: 7356787--7356840 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
7356777 CTGATTCTAG
*
7356787 TAGCTAATTTGACCAATTAATTTGAT
1 TAGCTAATTTGACAAATTAATTTGAT
* * *
7356813 TAGCTGATTTGAGAAATTGATTTGAT
1 TAGCTAATTTGACAAATTAATTTGAT
7356839 TA
1 TA
7356841 ATTGTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (26 bp):
TAGCTAATTTGACAAATTAATTTGAT
Found at i:7356935 original size:17 final size:17
Alignment explanation
Indices: 7356913--7356963 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
7356903 TAAGGGTATG
7356913 ATACATTTAGTTGTTA-A
1 ATACATTTAGTT-TTATA
*
7356930 ATACATATATGTTTTATA
1 ATACATTTA-GTTTTATA
7356948 ATAC-TTTAGTCTTTAT
1 ATACATTTAGT-TTTAT
7356964 TGAGATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 8 0.28
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (17 bp):
ATACATTTAGTTTTATA
Found at i:7362046 original size:18 final size:18
Alignment explanation
Indices: 7362012--7362049 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7362002 GATATTGAGG
*
7362012 GTAGTGAAAATATTGGCA
1 GTAGTGAAAATACTGGCA
*
7362030 GTAGTGAAAATGCTGGCA
1 GTAGTGAAAATACTGGCA
7362048 GT
1 GT
7362050 GGGCCTGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (18 bp):
GTAGTGAAAATACTGGCA
Found at i:7362420 original size:57 final size:57
Alignment explanation
Indices: 7362332--7362441 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
7362322 TGAAGAAGGT
* *
7362332 ACTGGTTTGGGCTCAGCAAAAGTAAACGAGGCAGATTTACCTGGTCAAAACAGAAGA
1 ACTGGTTTGGGCTCAACAAAAGAAAACGAGGCAGATTTACCTGGTCAAAACAGAAGA
* * * *
7362389 ACTGGTTTGGGCTCAACAGAAGAAAATGAGGCAGATTTACTTGGTGAAAACAG
1 ACTGGTTTGGGCTCAACAAAAGAAAACGAGGCAGATTTACCTGGTCAAAACAG
7362442 TGAGGATGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (57 bp):
ACTGGTTTGGGCTCAACAAAAGAAAACGAGGCAGATTTACCTGGTCAAAACAGAAGA
Found at i:7363007 original size:26 final size:26
Alignment explanation
Indices: 7362977--7363034 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
7362967 GTGTTGAGCA
7362977 TGAATGTAGTAAATTGTATGATTATG
1 TGAATGTAGTAAATTGTATGATTATG
7363003 TGAATGTAGTAAATTGTATGATTATG
1 TGAATGTAGTAAATTGTATGATTATG
7363029 TGAATG
1 TGAATG
7363035 CATTGAGGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (26 bp):
TGAATGTAGTAAATTGTATGATTATG
Found at i:7366839 original size:2 final size:2
Alignment explanation
Indices: 7366832--7366857 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7366822 AATCATACAC
7366832 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7366858 TTAATTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7367646 original size:41 final size:41
Alignment explanation
Indices: 7367550--7367740 Score: 292
Period size: 41 Copynumber: 4.6 Consensus size: 41
7367540 GATTCGCAAC
* * *
7367550 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATTTGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAAA-TCGTT
* *
7367592 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAAATCGTT
*
7367633 GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAAATCGTT
* **
7367674 GCGATAGGCGAAGTTCGCGTTGCGATTAATTACAAATATTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAAATCGTT
7367715 GCGATAGGCGAAGTTCGCGTTGCGAT
1 GCGATAGGCGAAGTTCGCGTTGCGAT
7367741 AGGCGAAGTT
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 105 0.74
42 36 0.26
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAAATCGTT
Found at i:7367696 original size:103 final size:102
Alignment explanation
Indices: 7367629--7367843 Score: 288
Period size: 103 Copynumber: 2.1 Consensus size: 102
7367619 CATTCCAAAT
* * *
7367629 CGTTGCGATAGGCGAAGTTCGCGTTGCGATTAATTCCAATTCGTTGCGATAGGCGAAGTTCGCGT
1 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTCCAAATCGTTGCGACAGGCGAAGTTCGCGT
* *
7367694 TGCGATTAATTACAAATATTTGCGATAGGCGAAGTTCG
66 TGCGA-TAAGTACAAATATTCGCGATAGGCGAAGTTCG
*
7367732 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCGT
1 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTCCAAATCGTTGCGACAGGCGAAGTTCGCGT
* * * * * *
7367797 TGCGATTCATTCCAATTCGTT-GCGACAGGCGAAGTTCG
66 TGCGA-TAAGTACAAAT-ATTCGCGATAGGCGAAGTTCG
7367835 CGTTGCGAT
1 CGTTGCGAT
7367844 TCATTCCAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 100 0.98
104 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (102 bp):
CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTCCAAATCGTTGCGACAGGCGAAGTTCGCGT
TGCGATAAGTACAAATATTCGCGATAGGCGAAGTTCG
Found at i:7367738 original size:62 final size:62
Alignment explanation
Indices: 7367670--7367802 Score: 212
Period size: 62 Copynumber: 2.1 Consensus size: 62
7367660 AATTCCAATT
* * *
7367670 CGTTGCGATAGGCGAAGTTCGCGTTGCGATTAATTACAAATATTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTACAAATAGTTGCGACAGGCGAAGTTCG
* * *
7367732 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTACAAATAGTTGCGACAGGCGAAGTTCG
7367794 CGTTGCGAT
1 CGTTGCGAT
7367803 TCATTCCAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (62 bp):
CGTTGCGATAGGCGAAGTTCGCGTTGCAATTAATTACAAATAGTTGCGACAGGCGAAGTTCG
Found at i:7367750 original size:144 final size:144
Alignment explanation
Indices: 7367589--7367854 Score: 469
Period size: 144 Copynumber: 1.8 Consensus size: 144
7367579 TTCCAAATTT
* * *
7367589 GTTGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTT
1 GTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCGTT
*
7367654 GCGATTAATTCCAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTAATTACAAATATTTGCGA
66 GCGATTAATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTAATTACAAATATTTGCGA
7367719 TAGGCGAAGTTCGC
131 TAGGCGAAGTTCGC
7367733 GTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCGTT
1 GTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCGTT
* * *
7367798 GCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAAT
66 GCGATTAATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTAATTACAAAT
7367855 TCGTTGTTGC
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 115 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (144 bp):
GTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAATCGTTGCGACAGGCGAAGTTCGCGTT
GCGATTAATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTAATTACAAATATTTGCGA
TAGGCGAAGTTCGC
Found at i:7367777 original size:41 final size:41
Alignment explanation
Indices: 7367732--7367860 Score: 222
Period size: 41 Copynumber: 3.1 Consensus size: 41
7367722 GCGAAGTTCG
* *
7367732 CGTTGCGATAGGCGAAGTTCGCGTTGCAATTCATTCCAAAT
1 CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAAT
*
7367773 CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAATT
1 CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAAT
7367814 CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATT
1 CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-T
7367856 CGTTG
1 CGTTG
7367861 TTGCATTTGT
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
41 77 0.93
42 6 0.07
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (41 bp):
CGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAAT
Found at i:7367859 original size:21 final size:21
Alignment explanation
Indices: 7367794--7367860 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
7367784 GCGAAGTTCG
7367794 CGTTGCGATTCATTCC-AATT
1 CGTTGCGATTCATTCCAAATT
** * *
7367814 CGTTGCGA--CAGGCGAAGTT
1 CGTTGCGATTCATTCCAAATT
7367833 CGCGTTGCGATTCATTCCAAATT
1 --CGTTGCGATTCATTCCAAATT
7367856 CGTTG
1 CGTTG
7367861 TTGCATTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 9
0.67 0.16 0.18
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 8 0.24
21 13 0.38
23 7 0.21
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (21 bp):
CGTTGCGATTCATTCCAAATT
Found at i:7368715 original size:41 final size:42
Alignment explanation
Indices: 7368650--7368825 Score: 275
Period size: 41 Copynumber: 4.2 Consensus size: 42
7368640 GCAATATTTG
* *
7368650 GACTATTGCAACAAATTTGGAATGAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
* *
7368692 GCCTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTGC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
7368733 GACTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
* *
7368774 GCCTATCACAAACGAATTTGGAATGAATCGCAACGCGAACTTC
1 GACTATCGC-AACGAATTTGGAATGAATCGCAACGCGAACTTC
7368817 GACTATCGC
1 GACTATCGC
7368826 GTTGCGAATC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 69 0.57
42 16 0.13
43 35 0.29
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTC
Found at i:7368721 original size:20 final size:20
Alignment explanation
Indices: 7368696--7368765 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
7368686 AACTTCGCCT
7368696 ATCGCAACGAATTGGAATGA
1 ATCGCAACGAATTGGAATGA
* *
7368716 ATCGCAACGCGAACTGCGACT--
1 ATCGCAA--CGAATTG-GAATGA
*
7368737 ATCGCAACGATTTGGAATGA
1 ATCGCAACGAATTGGAATGA
7368757 ATCGCAACG
1 ATCGCAACG
7368766 CGAACTTCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 3 0.08
19 5 0.12
20 16 0.40
21 7 0.17
22 6 0.15
23 3 0.08
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAATTGGAATGA
Found at i:7368742 original size:21 final size:21
Alignment explanation
Indices: 7368675--7368745 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
7368665 TTTGGAATGA
* *
7368675 ATCGCAACGCGAACTTCGCCT
1 ATCGCAACGCGAACTGCGACT
* *
7368696 ATCGCAA--CGAATTG-GAAT
1 ATCGCAACGCGAACTGCGACT
7368714 GAATCGCAACGCGAACTGCGACT
1 --ATCGCAACGCGAACTGCGACT
7368737 ATCGCAACG
1 ATCGCAACG
7368746 ATTTGGAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.05
19 5 0.13
20 7 0.18
21 16 0.41
22 6 0.15
23 3 0.08
ACGTcount: A:0.31, C:0.30, G:0.23, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAACTGCGACT
Found at i:7370082 original size:2 final size:2
Alignment explanation
Indices: 7370075--7370103 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7370065 TTTTAACTTT
7370075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7370104 GTTATAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7371063 original size:16 final size:18
Alignment explanation
Indices: 7371036--7371069 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7371026 TTTCCATGTA
7371036 TTGAATATTTG-AAGTAG
1 TTGAATATTTGAAAGTAG
7371053 TTGAA-ATTTGAAAGTAG
1 TTGAATATTTGAAAGTAG
7371070 CTTTCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
TTGAATATTTGAAAGTAG
Found at i:7373513 original size:3 final size:3
Alignment explanation
Indices: 7373505--7373541 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
7373495 CATTAACAAC
7373505 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7373542 GGGCAGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.