Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 77 of 292
Found at i:23599247 original size:8 final size:8
Alignment explanation
Indices: 23599230--23599259 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23599220 AAGGAACAGC
23599230 AAAAGCTG
1 AAAAGCTG
*
23599238 AAAAGTTG
1 AAAAGCTG
23599246 AAAAGCTG
1 AAAAGCTG
23599254 AAAAGC
1 AAAAGC
23599260 CAAAAGCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.13
Consensus pattern (8 bp):
AAAAGCTG
Found at i:23608127 original size:17 final size:18
Alignment explanation
Indices: 23608083--23608124 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23608073 TTCAGAATTA
*
23608083 TGGCCCCATATGCCCGTG
1 TGGCCCCACATGCCCGTG
*
23608101 TGGCCCCACATGCCTGTG
1 TGGCCCCACATGCCCGTG
23608119 TGGCCC
1 TGGCCC
23608125 ACACGCTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (18 bp):
TGGCCCCACATGCCCGTG
Found at i:23612111 original size:43 final size:43
Alignment explanation
Indices: 23611994--23612111 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 43
23611984 TAGGATTCCA
* * * * *
23611994 ATATGTGATT-CGTGTAAGACCACGTCTAGGACATTAGCATTG
1 ATATGTGATTACATGTAAGACCACGTTTGGGACAGTAGCATCG
* *
23612036 ATTTGTGATTTACGA-GTAAGACC-C-TATATGGGACAGTGGCATCG
1 ATATGTGA-TTAC-ATGTAAGACCACGT-T-TGGGACAGTAGCATCG
23612080 ATATGTGATTACATGTAAGACCACGTTTGGGA
1 ATATGTGATTACATGTAAGACCACGTTTGGGA
23612112 TGTTAGCGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
42 9 0.15
43 20 0.33
44 30 0.50
45 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCACGTTTGGGACAGTAGCATCG
Found at i:23619790 original size:40 final size:40
Alignment explanation
Indices: 23619731--23619938 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
23619721 CAGAATACGA
* *
23619731 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTA-GCACAAATGCCTTCGGGTCTTAGC
* * *
23619771 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23619811 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23619851 CCGGATGTAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
23619891 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
23619931 CCGGATAT
1 CCGGATAT
23619939 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
40 139 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACGACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23626060 original size:40 final size:40
Alignment explanation
Indices: 23626016--23626223 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
23626006 TCGAATACGA
*
23626016 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
23626056 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
23626096 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
23626136 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
23626176 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
23626216 CCGGATAT
1 CCGGATAT
23626224 CATTCAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23631895 original size:17 final size:18
Alignment explanation
Indices: 23631873--23631909 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
23631863 TGGCTTGGAA
23631873 AAATAGCCTT-AAAAATT
1 AAATAGCCTTAAAAAATT
23631890 AAATAGCCTTAAAAAATT
1 AAATAGCCTTAAAAAATT
23631908 AA
1 AA
23631910 CACCCCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (18 bp):
AAATAGCCTTAAAAAATT
Found at i:23632860 original size:32 final size:32
Alignment explanation
Indices: 23632824--23632912 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 32
23632814 ATGCGGCTCT
* *
23632824 AAGCCTTCAGTAGCGGTATTATAATTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* * **
23632856 AAGCCATCGGTAACTGTATTATGTTTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* * ** *
23632888 TAGCCATTAGCGACGGTAATATAAT
1 AAGCCATCAGTAACGGTATTATAAT
23632913 CGATACACAG
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTATTATAATTGGCACA
Found at i:23633162 original size:50 final size:50
Alignment explanation
Indices: 23633086--23633259 Score: 267
Period size: 50 Copynumber: 3.5 Consensus size: 50
23633076 GTCCATCGGC
* *
23633086 CCACAGTCGTCTCGTGCGACCTGTGTGACCTTAACAGATAAATACTGGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
*
23633136 CCACAGTCGTCTCATACGACCCGTGTGACCTTAACAGATAAATACTGGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
* * * *
23633186 CCACAGTCGTCTTGTACAACCCGTGTGACCTTAATAGATAAATATTGGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
* *
23633236 CCACAATCGTCTCGTGCGACCCGT
1 CCACAGTCGTCTCGTACGACCCGT
23633260 ACGATCCTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
Found at i:23633536 original size:26 final size:27
Alignment explanation
Indices: 23633507--23633567 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
23633497 CAAAACAGTC
*
23633507 ATTTTACCCTACAAGGGTA-TTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
23633533 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
23633560 ATTTTACA
1 ATTTTACA
23633568 AATTGGGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:23633615 original size:80 final size:81
Alignment explanation
Indices: 23633531--23633711 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 81
23633521 GGGTATTCGA
* * *
23633531 TAATTTTAC-ACTACAAGGGTATTTC-GATAATTTTACAAATTG-GGGGTATTTTAGTAATTTTA
1 TAATTTTACAAAT-CAAGGGTATTTCAG-TAATTTCACAAA-TGAGGGGTATTTCAGTAATTTTA
*
23633593 CAAGTAG-GGGTATTTCAG
63 CAACTAGAGGGTATTTCAG
* * * **
23633611 TAATTTCACAAATCGAGGGTATTTCAGTAATTTCACAAATGAGGGGTATTTCGGTAATTTTGTAA
1 TAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAATGAGGGGTATTTCAGTAATTTTACAA
*
23633676 CTCGAGGGTATTTCAG
66 CTAGAGGGTATTTCAG
*
23633692 TAATTTTACAAATCAGGGGT
1 TAATTTTACAAATCAAGGGT
23633712 CTTCAACTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 51 0.61
81 31 0.37
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
TAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAATGAGGGGTATTTCAGTAATTTTACAA
CTAGAGGGTATTTCAG
Found at i:23633681 original size:54 final size:53
Alignment explanation
Indices: 23633547--23633711 Score: 213
Period size: 54 Copynumber: 3.1 Consensus size: 53
23633537 TACACTACAA
* * * * *
23633547 GGGTATTTCGATAATTTTACAAATTGGGGGTATTTTAGTAATTTTACAAGTAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATAG
* * *
23633600 GGGTATTTCAGTAATTTCACAAATCGAGGGTATTTCAGTAATTTCACAAATGAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAT-AG
** *
23633654 GGGTATTTCGGTAATTTTGTAACTCGAGGGTATTTCAGTAATTTTACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAT-AG
23633708 GGGT
1 GGGT
23633712 CTTCAACTGA
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 43 0.45
54 53 0.55
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATAG
Found at i:23633711 original size:27 final size:27
Alignment explanation
Indices: 23633547--23633711 Score: 176
Period size: 27 Copynumber: 6.1 Consensus size: 27
23633537 TACACTACAA
**
23633547 GGGTATTTC-GATAATTTTACAAATTGG
1 GGGTATTTCAG-TAATTTTACAAATCAG
* *
23633574 GGGTATTTTAGTAATTTTACAAGT-AG
1 GGGTATTTCAGTAATTTTACAAATCAG
*
23633600 GGGTATTTCAGTAATTTCACAAATC-G
1 GGGTATTTCAGTAATTTTACAAATCAG
* *
23633626 AGGGTATTTCAGTAATTTCACAAATGAG
1 -GGGTATTTCAGTAATTTTACAAATCAG
* ** *
23633654 GGGTATTTCGGTAATTTTGTAACTC-G
1 GGGTATTTCAGTAATTTTACAAATCAG
23633680 AGGGTATTTCAGTAATTTTACAAATCAG
1 -GGGTATTTCAGTAATTTTACAAATCAG
23633708 GGGT
1 GGGT
23633712 CTTCAACTGA
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
26 24 0.21
27 88 0.77
28 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCAG
Found at i:23636302 original size:13 final size:13
Alignment explanation
Indices: 23636284--23636308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23636274 AGGCCGTGTG
23636284 AGGGACACGGGCC
1 AGGGACACGGGCC
23636297 AGGGACACGGGC
1 AGGGACACGGGC
23636309 GTGTGCTCAG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:23637101 original size:12 final size:13
Alignment explanation
Indices: 23637083--23637112 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
23637073 TGCAAAAGTG
23637083 GCTTAATCTTAAT
1 GCTTAATCTTAAT
23637096 -CTTAATCTTAAT
1 GCTTAATCTTAAT
23637108 GCTTA
1 GCTTA
23637113 TATGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (13 bp):
GCTTAATCTTAAT
Found at i:23641809 original size:39 final size:39
Alignment explanation
Indices: 23641765--23641927 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
23641755 TGTGTATGAA
23641765 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
23641804 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
**
23641843 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
* ** * *
23641882 TGTGCGAGTTGCGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTATGATATCCGGGCTAAG-CCCGAAGGCAAT
23641922 TGTGCG
1 TGTGCG
23641928 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:23641925 original size:40 final size:39
Alignment explanation
Indices: 23641765--23641957 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
23641755 TGTGTATGAA
* *
23641765 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTACGATATCCGGGCTAAGCCCGAAGGCAAT
* **
23641804 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTACGATATCCGGGCTAAGCCCGAAGGCAAT
* *
23641843 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTACGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
23641882 TGTGCGAGTTGCGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTACGATATCCGGGCTAAG-CCCGAAGGCAAT
* * * *
23641922 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTACGATATCCGGGCTAAG-CCCGAAGG
23641958 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTACGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:23648777 original size:20 final size:20
Alignment explanation
Indices: 23648752--23648789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23648742 GTTTATTCGC
*
23648752 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
23648772 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
23648790 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:23664474 original size:56 final size:57
Alignment explanation
Indices: 23664338--23664467 Score: 219
Period size: 56 Copynumber: 2.3 Consensus size: 57
23664328 TCCCAGATAG
23664338 GGTCTTACTCGCACACATATATC-AGAGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAGAGTCACATATCGATGCCAACGTATAAAACAT
* *
23664394 GGTCTTACTCGCACACATATATCGA-AGTCACATATCGATGCCAACGTTTAAAACGT
1 GGTCTTACTCGCACACATATATCGAGAGTCACATATCGATGCCAACGTATAAAACAT
*
23664450 GGTCTTACTCGTACACAT
1 GGTCTTACTCGCACACAT
23664468 TAATCGATGC
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
56 69 0.99
57 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (57 bp):
GGTCTTACTCGCACACATATATCGAGAGTCACATATCGATGCCAACGTATAAAACAT
Found at i:23666993 original size:56 final size:56
Alignment explanation
Indices: 23666928--23667059 Score: 192
Period size: 56 Copynumber: 2.4 Consensus size: 56
23666918 TCCTAGATAG
* *
23666928 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATACCAACGCATTAAACGT
1 GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACGCATTAAACGT
* * **
23666984 GGTCTTACTCATACACACATATCGGAATCACATATCGATGCCAACTTATTAAACGT
1 GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACGCATTAAACGT
* *
23667040 GGTTTTACTCATAATCACAT
1 GGTCTTACTCATAAACACAT
23667060 GTCGATGCCA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACGCATTAAACGT
Found at i:23667083 original size:43 final size:43
Alignment explanation
Indices: 23667009--23667279 Score: 335
Period size: 43 Copynumber: 6.3 Consensus size: 43
23666999 CACATATCGG
* *** * *
23667009 AATCACATATCGATGCCAACTTATTAAACGTGGTTTTACTCAT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * * *
23667052 AATCACATGTCGATGCCAACGTCCCAGACGTGCTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * * * *
23667095 AATCAAATATCGATGTCAACGTCCTAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
23667138 ACTCACATATTGATGCCAACGTCCCAGACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
* *
23667181 AATCACGTATCGATGCCAACGTCCCAAACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
* * *
23667224 CATCACATATCGATGCCAACATCCCAAATGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
23667267 AATCACATATCGA
1 AATCACATATCGA
23667280 AAATCCTATG
Statistics
Matches: 196, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 196 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACAT
Found at i:23675377 original size:21 final size:21
Alignment explanation
Indices: 23675353--23675392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23675343 ATTGTTTTGG
*
23675353 TTTTATTTATATTTGTATTAA
1 TTTTATTTATAGTTGTATTAA
* *
23675374 TTTTTTTTGTAGTTGTATT
1 TTTTATTTATAGTTGTATT
23675393 TATTCATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (21 bp):
TTTTATTTATAGTTGTATTAA
Found at i:23676080 original size:13 final size:14
Alignment explanation
Indices: 23676043--23676082 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
23676033 TTTAAATTTA
23676043 TAAATAATATATATT
1 TAAATAATAT-TATT
23676058 TGAAATAATATTATT
1 T-AAATAATATTATT
23676073 TAAA-AATATT
1 TAAATAATATT
23676083 CAAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.25
14 3 0.12
15 6 0.25
16 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TAAATAATATTATT
Found at i:23679453 original size:40 final size:40
Alignment explanation
Indices: 23679396--23679581 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
23679386 TCAAATGATG
* * * *
23679396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23679436 TCCGGATTAAGAT-CCGAAAGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
23679476 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
23679516 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
23679557 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
23679582 AATGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23679599 original size:80 final size:80
Alignment explanation
Indices: 23679396--23679612 Score: 223
Period size: 80 Copynumber: 2.7 Consensus size: 80
23679386 TCAAATGATG
** * *
23679396 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGATTAAGATCCGAAAGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-AATGAGTAG-CTATATCCGGGTTAAGATCCGAAAGCAT
23679459 TCGTGCGAGTTACTAAA
64 TCGTGCGAGTTACTAAA
* *** * *
23679476 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAATGAG-TAGCTATATCCGGGTTAAGAT-CCGAAAGCAT
*
23679539 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
*
23679557 -CCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCC-GGTTAA-ACTCCGAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGGTTAAGA-TCCGAA
23679613 GGTACGTGAT
Statistics
Matches: 114, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
79 14 0.12
80 93 0.82
81 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGGTTAAGATCCGAAAGCATTC
GTGCGAGTTACTAAA
Found at i:23694424 original size:28 final size:26
Alignment explanation
Indices: 23694368--23694480 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
23694358 AGCATGGCTG
* *
23694368 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
23694394 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
23694422 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
23694449 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
23694477 CCAG
1 CCAG
23694481 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 38 0.50
28 32 0.42
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:23694453 original size:55 final size:54
Alignment explanation
Indices: 23694368--23694480 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
23694358 AGCATGGCTG
*
23694368 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAACCA
* * * *
23694422 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
23694477 CCAG
1 CCAG
23694481 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 19 0.37
55 33 0.63
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAACCA
Found at i:23695917 original size:24 final size:24
Alignment explanation
Indices: 23695890--23695960 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
23695880 CTAGATTTCC
**
23695890 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
23695914 TCCCTTATCAACTCCTGAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
23695938 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
23695961 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:23702257 original size:27 final size:27
Alignment explanation
Indices: 23702222--23702334 Score: 124
Period size: 27 Copynumber: 4.1 Consensus size: 27
23702212 AGCATGGCTG
* *
23702222 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
23702248 CCAAATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
23702276 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
23702303 CCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
23702331 CCAG
1 CCAG
23702335 GACACTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.07
27 38 0.51
28 31 0.42
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:23702323 original size:55 final size:54
Alignment explanation
Indices: 23702222--23702334 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
23702212 AGCATGGCTG
*
23702222 CCAGAACAGATAATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAACCA
* * * * *
23702276 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAAATACAGATAA-TCGTGGCAGAACCA
23702331 CCAG
1 CCAG
23702335 GACACTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAAATACAGATAATCGTGGCAGAACCA
Found at i:23703700 original size:31 final size:31
Alignment explanation
Indices: 23703662--23703725 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
23703652 CCTTTTCATA
*
23703662 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
23703693 TTTCATATTTCATATGACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
23703724 TT
1 TT
23703726 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:23703971 original size:49 final size:47
Alignment explanation
Indices: 23703918--23704086 Score: 207
Period size: 49 Copynumber: 3.5 Consensus size: 47
23703908 TGCTTTATCA
* *
23703918 TATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTA-TAACTGGGGCATAAGCCCTTTT
*
23703967 TATAACTGGGGCATAAGCCCTTCATCATAACTGGGGCATAAGCCCTTTAT
1 TATAACTGGGGCATAAGCCCTT--TTATAACTGGGGCATAAGCCCTTT-T
* *
23704017 CATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
* *
23704063 AATAACTGAGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
23704087 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
46 22 0.20
47 2 0.02
48 27 0.25
49 33 0.31
50 24 0.22
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
Found at i:23703972 original size:24 final size:24
Alignment explanation
Indices: 23703919--23704086 Score: 207
Period size: 25 Copynumber: 7.0 Consensus size: 24
23703909 GCTTTATCAT
*
23703919 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
23703944 GTAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* *
23703968 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTA
*
23703993 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
23704018 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23704041 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
23704064 ATAACTGAGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23704087 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
23 42 0.33
24 32 0.25
25 54 0.42
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23704048 original size:23 final size:23
Alignment explanation
Indices: 23703940--23704085 Score: 202
Period size: 23 Copynumber: 6.1 Consensus size: 23
23703930 CCTAGCCTCT
* *
23703940 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23703963 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
23703987 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
23704012 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
23704037 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23704060 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23704083 TTT
1 TTT
23704086 TGCACTTCCT
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
23 47 0.42
24 20 0.18
25 45 0.40
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:23704158 original size:9 final size:9
Alignment explanation
Indices: 23704144--23704200 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23704134 ATCTCATGTG
23704144 CATATCATA
1 CATATCATA
*
23704153 CATATCATGTG
1 CATATCA--TA
23704164 CATATCATA
1 CATATCATA
* *
23704173 CATGTCATGTG
1 CATATCA--TA
23704184 CATATCATA
1 CATATCATA
23704193 CATATCAT
1 CATATCAT
23704201 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:23704160 original size:20 final size:20
Alignment explanation
Indices: 23704132--23704202 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
23704122 GCATTTATGA
*
23704132 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23704152 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
23704172 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
23704192 ACATATCATGT
1 ACATATCATGT
23704203 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:23704167 original size:11 final size:11
Alignment explanation
Indices: 23704137--23704191 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
23704127 TATGAACATC
23704137 TCATGTGCATA
1 TCATGTGCATA
*
23704148 TCA--TACATA
1 TCATGTGCATA
23704157 TCATGTGCATA
1 TCATGTGCATA
* *
23704168 TCA--TACATG
1 TCATGTGCATA
23704177 TCATGTGCATA
1 TCATGTGCATA
23704188 TCAT
1 TCAT
23704192 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:23704267 original size:25 final size:25
Alignment explanation
Indices: 23704239--23704286 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23704229 ATATATAAAC
* *
23704239 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAATGGTCATTTTTA
23704264 CCTAGGGGAAAAATGGTCATTTT
1 CCTAGGGGAAAAATGGTCATTTT
23704287 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGAAAAATGGTCATTTTTA
Found at i:23705473 original size:27 final size:27
Alignment explanation
Indices: 23705443--23705506 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
23705433 GGGCATATTC
*
23705443 GTCATTTTACAATACAGGGG-TATTACG
1 GTCATTTTACAATACAGGGGCT-TTACA
* **
23705470 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCATTTTACAATACAGGGGCTTTACA
*
23705497 GTCTTTTTAC
1 GTCATTTTAC
23705507 CTAATAAGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACAATACAGGGGCTTTACA
Found at i:23705656 original size:56 final size:54
Alignment explanation
Indices: 23705558--23705962 Score: 190
Period size: 54 Copynumber: 7.5 Consensus size: 54
23705548 ATGGTAAATC
* * * *
23705558 TACAAACCAAGGGTATTTCAGTAATGTTGTAAACCAATGGTATTTTTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAA-TTT
* * * * * *
23705613 TAGAAAGTCAAGGGTATTTCTGTAATTTTTTAAATCAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAATTT
** * *** *
23705668 TACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAG-GGTATTTTGATAATTT
* ** ** * *
23705722 TACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT-AGCAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGA-TAATTT
* * ** * *
23705776 TACAGA-CCAGGGTATTTTGGTCATTTTGTAAACCAAGGGAATTTT-AGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGA-TAATTT
** * *** * ** *** * *
23705829 TGTAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGGGTAAAATAATAATTC
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAATTT
* * *** * * * ** * *
23705883 TATAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAATTT
* * *
23705937 TACAAGTCGAGGGTATTTCAATAATT
1 TACAAATCAAGGGTATTTCAGTAATT
23705963 GGTAAACTAA
Statistics
Matches: 270, Mismatches: 73, Indels: 15
0.75 0.20 0.04
Matches are distributed among these distances:
53 42 0.16
54 177 0.66
55 15 0.06
56 36 0.13
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTTGATAATTT
Found at i:23705834 original size:27 final size:27
Alignment explanation
Indices: 23705538--23705829 Score: 221
Period size: 27 Copynumber: 10.8 Consensus size: 27
23705528 TTTCACCCTA
* * * *
23705538 CAAGGGTGTTATGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * **
23705565 CAAGGGTATTTCAGTAATGTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
23705592 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
** *
23705621 CAAGGGTATTTCT-GTAATTTTTTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
23705648 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
23705675 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
23705702 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
23705729 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
23705756 CAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
23705783 C-AGGGTATTTTGGTCATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
23705809 CAAGGGAATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
23705830 GTAAATCGAG
Statistics
Matches: 209, Mismatches: 49, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
26 22 0.11
27 159 0.76
28 14 0.07
29 13 0.06
30 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:23705851 original size:27 final size:27
Alignment explanation
Indices: 23705821--23705924 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
23705811 AGGGAATTTT
*
23705821 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
** *
23705848 AGTAATTCTGTAAATTAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
23705875 AATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
23705902 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
23705925 CTTTGGTAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:23707792 original size:24 final size:24
Alignment explanation
Indices: 23707765--23707835 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
23707755 TTAGATTTCC
**
23707765 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
* *
23707789 TCCCTTATCAACTCCTGAATCATA
1 TCCCTTATCAACTCCTAAATCCTA
23707813 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
23707836 CTCCTGATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:23711376 original size:40 final size:40
Alignment explanation
Indices: 23711316--23711479 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
23711306 CGGGATTTAA
* ** *
23711316 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
23711356 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
*
23711396 CTGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
23711436 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
23711476 CCGG
1 CCGG
23711480 GTATCATTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:23719313 original size:40 final size:40
Alignment explanation
Indices: 23719253--23719416 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
23719243 CGGGATTTAA
* ** *
23719253 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
23719293 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
23719333 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
23719373 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
23719413 CCGG
1 CCGG
23719417 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:23719400 original size:80 final size:80
Alignment explanation
Indices: 23719239--23719416 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
23719229 AATTCACGTA
* * * * **
23719239 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
23719303 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
23719318 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
23719382 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
23719398 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23719417 GTATCATTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:23721419 original size:27 final size:29
Alignment explanation
Indices: 23721389--23721473 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
23721379 ACGCAAGAGC
*
23721389 ATATA-GTGAATCT-GCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
23721416 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* ** * *
23721445 ATATATTTTCAGTTTGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
23721474 GTACAATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 5 0.10
28 4 0.08
29 41 0.82
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:23721434 original size:29 final size:29
Alignment explanation
Indices: 23721402--23721473 Score: 126
Period size: 29 Copynumber: 2.5 Consensus size: 29
23721392 TAGTGAATCT
23721402 GCACACTTAGTGCTATATATTTTCAGCTC
1 GCACACTTAGTGCTATATATTTTCAGCTC
* *
23721431 GCACACTTAGTGCTATATATTTTCAGTTT
1 GCACACTTAGTGCTATATATTTTCAGCTC
23721460 GCACACTTAGTGCT
1 GCACACTTAGTGCT
23721474 GTACAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (29 bp):
GCACACTTAGTGCTATATATTTTCAGCTC
Found at i:23725245 original size:43 final size:43
Alignment explanation
Indices: 23725183--23725352 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 43
23725173 GTACAGATTA
* * *
23725183 TACTTTGGTATAT-TCGATGATGCATTGTGTGTTCCAGTATAGT
1 TACTTTGGGATATCT-GATGATGCACTGTGTGTGCCAGTATAGT
* * *
23725226 TACTTTGGGATATCTGATGATGCACTATTTGTGCCAGTATAAT
1 TACTTTGGGATATCTGATGATGCACTGTGTGTGCCAGTATAGT
* * * *
23725269 T-GTTTCGGGATATTTGATGATGCACTGTGTGTACCTGTATAGT
1 TACTTT-GGGATATCTGATGATGCACTGTGTGTGCCAGTATAGT
* ** *
23725312 TGCTTTGATATATCTAATGATGCACTGTGTGTGCCAGTATA
1 TACTTTGGGATATCTGATGATGCACTGTGTGTGCCAGTATA
23725353 TGTGATTCGG
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 3 0.03
43 97 0.93
44 4 0.04
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (43 bp):
TACTTTGGGATATCTGATGATGCACTGTGTGTGCCAGTATAGT
Found at i:23725337 original size:86 final size:86
Alignment explanation
Indices: 23725192--23725352 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 86
23725182 ATACTTTGGT
* * * * *
23725192 ATATTCGATGATGCATTGTGTGTTCCAGTATAGTTACTTTGGGATATCTGATGATGCACTATTTG
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
23725257 TGCCAGTATAATTGTTTCGGG
66 TGCCAGTATAATTGTTTCGGG
* * * * *
23725278 ATATTTGATGATGCACTGTGTGTACCTGTATAGTTGCTTTGATATATCTAATGATGCACTGTGTG
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
23725343 TGCCAGTATA
66 TGCCAGTATA
23725353 TGTGATTCGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (86 bp):
ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
TGCCAGTATAATTGTTTCGGG
Found at i:23725362 original size:86 final size:86
Alignment explanation
Indices: 23725192--23725381 Score: 229
Period size: 86 Copynumber: 2.2 Consensus size: 86
23725182 ATACTTTGGT
* * * * *
23725192 ATATTCGATGATGCATTGTGTGTTCCAGTATAGTTACTTTGGGATATCTGATGATGCACTATTTG
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
*
23725257 TGCCAGTATAATTGTTTCGGG
66 TGCCAGTATAATTGATTCGGG
* * * * *
23725278 ATATTTGATGATGCACTGTGTGTACCTGTATAGTTGCTTTGATATATCTAATGATGCACTGTGTG
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
*
23725343 TGCCAGTAT-ATGTGATTCGGT
66 TGCCAGTATAAT-TGATTCGGG
* *
23725364 TTCATCCGATGATGCACT
1 AT-ATTCGATGATGCACT
23725382 TACGTGCCAG
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 2 0.02
86 72 0.83
87 13 0.15
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (86 bp):
ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTTGAGATATCTAATGATGCACTATGTG
TGCCAGTATAATTGATTCGGG
Found at i:23727799 original size:33 final size:33
Alignment explanation
Indices: 23727762--23727852 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
23727752 ACACTCGTAG
*
23727762 TGCCATAACCCAGTTATGGTCTTATCATTAGGA
1 TGCCATAGCCCAGTTATGGTCTTATCATTAGGA
* *
23727795 TGCCATAGCCCATCTTATAGTCTTATCATTAGGA
1 TGCCATAGCCCA-GTTATGGTCTTATCATTAGGA
* *
23727829 TGTCATAGCCCAGCTATGGTCTTA
1 TGCCATAGCCCAGTTATGGTCTTA
23727853 CACGTATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 20 0.40
34 30 0.60
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (33 bp):
TGCCATAGCCCAGTTATGGTCTTATCATTAGGA
Found at i:23727918 original size:33 final size:33
Alignment explanation
Indices: 23727881--23727956 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
23727871 TGGTCCAACC
* *
23727881 ATGGTCTTACGTTCAC-AGTGCCATAACCCAGTT
1 ATGGTCTTAC-TTCACAAATGCCATAACCCAGCT
23727914 ATGGTCTT--TTCACTAAAATGCCATAACCCAGCT
1 ATGGTCTTACTTCAC--AAATGCCATAACCCAGCT
23727947 ATGGTCTTAC
1 ATGGTCTTAC
23727957 ATTTAAACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 5 0.14
33 31 0.86
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACTTCACAAATGCCATAACCCAGCT
Found at i:23731771 original size:17 final size:17
Alignment explanation
Indices: 23731751--23731786 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23731741 TTGATCATTT
23731751 TTACGTTTTTCCAATTG
1 TTACGTTTTTCCAATTG
*
23731768 TTACGTTTTTCTAATTG
1 TTACGTTTTTCCAATTG
23731785 TT
1 TT
23731787 GCTTAGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (17 bp):
TTACGTTTTTCCAATTG
Found at i:23734000 original size:29 final size:29
Alignment explanation
Indices: 23733868--23734026 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
23733858 ACTCCATTTC
* * **
23733868 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
23733897 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
23733925 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
23733955 GCA-ACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
23733983 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
23734012 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
23734027 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
28 27 0.25
29 81 0.74
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:23736128 original size:2 final size:2
Alignment explanation
Indices: 23736116--23736146 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
23736106 TGTGAATGAG
23736116 AT AT GAT 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
23736147 GTGAATCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23736171 original size:30 final size:30
Alignment explanation
Indices: 23736148--23736208 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
23736138 TATATATATG
23736148 TGAATCA-TGATTAGGTAAAATATAAAAGA
1 TGAATCACTGATTAGGTAAAATATAAAAGA
* *
23736177 TGTATGACTGATTAGGTAAAATATAAAAGA
1 TGAATCACTGATTAGGTAAAATATAAAAGA
23736207 TG
1 TG
23736209 TATGACTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.30
Consensus pattern (30 bp):
TGAATCACTGATTAGGTAAAATATAAAAGA
Found at i:23736209 original size:30 final size:30
Alignment explanation
Indices: 23736155--23736215 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
23736145 ATGTGAATCA
23736155 TGATTAGGTAAAATATAAAAGATGTATGAC
1 TGATTAGGTAAAATATAAAAGATGTATGAC
23736185 TGATTAGGTAAAATATAAAAGATGTATGAC
1 TGATTAGGTAAAATATAAAAGATGTATGAC
23736215 T
1 T
23736216 ATGTGAATGT
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:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (30 bp):
TGATTAGGTAAAATATAAAAGATGTATGAC
Found at i:23741826 original size:49 final size:49
Alignment explanation
Indices: 23741758--23741880 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
23741748 TACATATATG
*
23741758 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
23741807 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
23741856 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
23741881 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:23742026 original size:37 final size:37
Alignment explanation
Indices: 23741983--23742060 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
23741973 GTTCCGGGCG
23741983 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
23742020 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
23742057 AGAC
1 AGAC
23742061 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:23747680 original size:30 final size:31
Alignment explanation
Indices: 23747639--23747702 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
23747629 ATAAATTCAA
*
23747639 AGTTAAAAAAATTGTTTTATTATTAAAATAG
1 AGTTAAAAAAATTATTTTATTATTAAAATAG
23747670 AGTT-AAAAAATTATTTTATTATTAAAATAG
1 AGTTAAAAAAATTATTTTATTATTAAAATAG
23747700 AGT
1 AGT
23747703 CATAGCATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (31 bp):
AGTTAAAAAAATTATTTTATTATTAAAATAG
Found at i:23749107 original size:47 final size:45
Alignment explanation
Indices: 23748817--23749136 Score: 273
Period size: 46 Copynumber: 6.9 Consensus size: 45
23748807 GTGATTTGTG
*** *
23748817 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTGA-GA
* *** * *
23748863 TGAGAGCCAACATAAGACCATGTCTGGGACATCACATCAGCATTGAGA
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TTGAGA
* * * * * * * *
23748911 CGAGTGCTAGTGTAAGACATGTCTAGGATATGCATCAGCCTCGAGA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTTGAGA
** * *
23748957 CATAAGCCAGTGTAAGACATGTCTGGGACATGCGTCGGCTTCGAGA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTT-GAGA
* * *
23749003 CGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAAA
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGA
* *
23749049 TGAT-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA
1 TG-TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTGAGA
*
23749096 TGTGAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
23749137 ACCTTACCCA
Statistics
Matches: 222, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
45 3 0.01
46 109 0.49
47 83 0.37
48 26 0.12
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGA
Found at i:23751989 original size:28 final size:27
Alignment explanation
Indices: 23751926--23751995 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
23751916 ATAGTGAGTC
23751926 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
23751953 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
23751981 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23751996 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:23771242 original size:13 final size:13
Alignment explanation
Indices: 23771224--23771301 Score: 105
Period size: 13 Copynumber: 6.5 Consensus size: 13
23771214 AGATTTTTCT
23771224 TAAATATTATCAC
1 TAAATATTATCAC
23771237 TAAATA--ATC-C
1 TAAATATTATCAC
23771247 TAAATATTATCAC
1 TAAATATTATCAC
23771260 TAAATATTATCAC
1 TAAATATTATCAC
*
23771273 TAAATA--AT-TC
1 TAAATATTATCAC
23771283 TAAATATTATCAC
1 TAAATATTATCAC
23771296 TAAATA
1 TAAATA
23771302 ATTCAAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
10 14 0.25
11 5 0.09
12 5 0.09
13 33 0.58
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:23771271 original size:36 final size:36
Alignment explanation
Indices: 23771224--23771301 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
23771214 AGATTTTTCT
23771224 TAAATATTATCACTAAATAATCCTAAATATTATCAC
1 TAAATATTATCACTAAATAATCCTAAATATTATCAC
*
23771260 TAAATATTATCACTAAATAATTCTAAATATTATCAC
1 TAAATATTATCACTAAATAATCCTAAATATTATCAC
23771296 TAAATA
1 TAAATA
23771302 ATTCAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (36 bp):
TAAATATTATCACTAAATAATCCTAAATATTATCAC
Found at i:23771285 original size:23 final size:23
Alignment explanation
Indices: 23771259--23771309 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
23771249 AATATTATCA
23771259 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
23771282 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
23771305 C-AAAT
1 CTAAAT
23771310 TTAAACTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:23771827 original size:7 final size:7
Alignment explanation
Indices: 23771815--23771853 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
23771805 GATTAATGTT
23771815 AAAATTA
1 AAAATTA
23771822 AAAATTA
1 AAAATTA
23771829 AAAATT-
1 AAAATTA
23771835 AAAA-TA
1 AAAATTA
23771841 AAATATTA
1 AAA-ATTA
23771849 AAAAT
1 AAAAT
23771854 AAATTATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 7 0.24
7 16 0.55
8 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:23771838 original size:20 final size:20
Alignment explanation
Indices: 23771813--23771853 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
23771803 GAGATTAATG
23771813 TTAAAATTAAAA-ATTAAAAA
1 TTAAAA-TAAAATATTAAAAA
23771833 TTAAAATAAAATATTAAAAA
1 TTAAAATAAAATATTAAAAA
23771853 T
1 T
23771854 AAATTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAATAAAATATTAAAAA
Found at i:23771854 original size:14 final size:14
Alignment explanation
Indices: 23771818--23771861 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
23771808 TAATGTTAAA
23771818 ATTAAAAATTAAAA-
1 ATTAAAAA-TAAAAT
23771832 ATT-AAAATAAAAT
1 ATTAAAAATAAAAT
*
23771845 ATTAAAAATAAATT
1 ATTAAAAATAAAAT
23771859 ATT
1 ATT
23771862 GATTGATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 5 0.19
13 7 0.26
14 15 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTAAAAATAAAAT
Found at i:23773535 original size:18 final size:18
Alignment explanation
Indices: 23773512--23773555 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
23773502 CTTCATGTTT
23773512 TTTTTTTAATTTTATGAA
1 TTTTTTTAATTTTATGAA
*
23773530 TTTTTTT-ATTTTTTGAA
1 TTTTTTTAATTTTATGAA
*
23773547 TATTTTTAA
1 TTTTTTTAA
23773556 AGTAAACCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTTTTAATTTTATGAA
Found at i:23773535 original size:19 final size:18
Alignment explanation
Indices: 23773511--23773553 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23773501 ACTTCATGTT
23773511 TTTTTTTTAATTTTATGAA
1 TTTTTTTT-ATTTTATGAA
*
23773530 -TTTTTTTATTTTTTGAA
1 TTTTTTTTATTTTATGAA
*
23773547 TATTTTT
1 TTTTTTT
23773554 AAAGTAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTTTATTTTATGAA
Found at i:23775298 original size:18 final size:17
Alignment explanation
Indices: 23775262--23775300 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
23775252 TAATGCATGA
23775262 TATTTAAAATTGTTTAT
1 TATTTAAAATTGTTTAT
* *
23775279 TATTTAGAATTTTATTAT
1 TATTTAAAATTGT-TTAT
23775297 TATT
1 TATT
23775301 AATGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TATTTAAAATTGTTTAT
Found at i:23778758 original size:28 final size:27
Alignment explanation
Indices: 23778722--23778777 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 27
23778712 GTTAATAATG
23778722 AAGGTTAAATAAGTAATTTAGTAGAATA
1 AAGGTTAAATAAGTAATTTAGTA-AATA
23778750 AAGGTTAAATAAGTAATTTAGTAAATA
1 AAGGTTAAATAAGTAATTTAGTAAATA
23778777 A
1 A
23778778 GTATAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (27 bp):
AAGGTTAAATAAGTAATTTAGTAAATA
Found at i:23780767 original size:29 final size:29
Alignment explanation
Indices: 23780734--23780803 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
23780724 GTAAAGGGAT
23780734 TAAATTTTTAAAAATATAACTACAATG-AC
1 TAAATTTTTAAAAATATAACTAC-ATGAAC
*
23780763 TAAATTCTTT-AAAATATAATTACATGAAC
1 TAAATT-TTTAAAAATATAACTACATGAAC
23780792 TAAATTTTTAAA
1 TAAATTTTTAAA
23780804 TTTCAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 6 0.16
29 28 0.76
30 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAATTTTTAAAAATATAACTACATGAAC
Found at i:23781461 original size:20 final size:19
Alignment explanation
Indices: 23781433--23781478 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23781423 TAATCATATG
23781433 TTTAGTTATTTGTT-TTTTAA
1 TTTAGTTATTT-TTGTTTT-A
*
23781453 TTTATTTATTTTTGTTTTA
1 TTTAGTTATTTTTGTTTTA
23781472 TTTAGTT
1 TTTAGTT
23781479 TTTCACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTAGTTATTTTTGTTTTA
Found at i:23781720 original size:31 final size:31
Alignment explanation
Indices: 23781660--23781720 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
23781650 TAGATATCAC
* **
23781660 ATTAGACATTTTATGAAGGTACATGTACCAT
1 ATTAGACATTTTATGAAAGTACAAATACCAT
*
23781691 ATTAGACATTTTATGAAAGTATAAATACCA
1 ATTAGACATTTTATGAAAGTACAAATACCA
23781721 ACTATGGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (31 bp):
ATTAGACATTTTATGAAAGTACAAATACCAT
Found at i:23781958 original size:22 final size:23
Alignment explanation
Indices: 23781933--23782010 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 23
23781923 AATTCTTAAA
23781933 ATATTAAAAATATTTTTA-ATTG
1 ATATTAAAAATATTTTTATATTG
** * * *
23781955 ATATTTTATATATTGTTATATTT
1 ATATTAAAAATATTTTTATATTG
* *
23781978 AAATTTAAAAATATTTTTACTATTT
1 ATA-TTAAAAATATTTTTA-TATTG
*
23782003 AAATTAAA
1 ATATTAAA
23782011 TTCAGGCGGA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 14 0.33
23 5 0.12
24 16 0.37
25 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (23 bp):
ATATTAAAAATATTTTTATATTG
Found at i:23782009 original size:24 final size:24
Alignment explanation
Indices: 23781964--23782010 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23781954 GATATTTTAT
*
23781964 ATATTGTTATATTTAAATTTAAAA
1 ATATTGTTATATTTAAAATTAAAA
*
23781988 ATATTTTTACTATTT-AAATTAAA
1 ATATTGTTA-TATTTAAAATTAAA
23782011 TTCAGGCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATATTGTTATATTTAAAATTAAAA
Found at i:23787325 original size:23 final size:23
Alignment explanation
Indices: 23787275--23787326 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23787265 TCCAAGTTCA
23787275 TTAAAAAATTAATTTTTTAAATT
1 TTAAAAAATTAATTTTTTAAATT
*
23787298 ATAAAAAA-T-ATTTTTATGAAATT
1 TTAAAAAATTAATTTTT-T-AAATT
23787321 TTAAAA
1 TTAAAA
23787327 TTTTTTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 6 0.24
22 2 0.08
23 17 0.68
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TTAAAAAATTAATTTTTTAAATT
Found at i:23787580 original size:31 final size:30
Alignment explanation
Indices: 23787514--23787577 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
23787504 TTTTGGCCAC
* * *
23787514 TTTAGTCCTAATGTCATCAAATGTTTTCAT
1 TTTAGTCCTAATATCATCAAATATTCTCAT
*
23787544 TTTAGTCCCTAATATTATCAAATATTCTCGAT
1 TTTAGT-CCTAATATCATCAAATATTCTC-AT
23787576 TT
1 TT
23787578 AGTGCTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.21
31 18 0.64
32 4 0.14
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (30 bp):
TTTAGTCCTAATATCATCAAATATTCTCAT
Found at i:23787662 original size:11 final size:11
Alignment explanation
Indices: 23787646--23787670 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23787636 TGTCATACAA
23787646 TGATGTCATAG
1 TGATGTCATAG
23787657 TGATGTCATAG
1 TGATGTCATAG
23787668 TGA
1 TGA
23787671 CATCGTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (11 bp):
TGATGTCATAG
Found at i:23787734 original size:19 final size:18
Alignment explanation
Indices: 23787712--23787787 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
23787702 AAAAATGAAA
*
23787712 AAAAAGTACAAAAATATTT
1 AAAAA-TACAAAAATAATT
23787731 AAAAATA-AAAAATAATT
1 AAAAATACAAAAATAATT
23787748 AAGGAAATA-AAAAATAA--
1 AA--AAATACAAAAATAATT
*
23787765 AAAATTACAAAAA-AATT
1 AAAAATACAAAAATAATT
23787782 AAAAAT
1 AAAAAT
23787788 TTACTAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 6 0.12
16 5 0.10
17 18 0.37
18 2 0.04
19 18 0.37
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAAATACAAAAATAATT
Found at i:23787743 original size:17 final size:18
Alignment explanation
Indices: 23787721--23787764 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
23787711 AAAAAAGTAC
*
23787721 AAAAATATTTAA-AAATA
1 AAAAATAATTAAGAAATA
23787738 AAAAATAATTAAGGAAATA
1 AAAAATAATTAA-GAAATA
23787757 AAAAATAA
1 AAAAATAA
23787765 AAAATTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 11 0.46
19 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAAAATAATTAAGAAATA
Found at i:23787784 original size:26 final size:26
Alignment explanation
Indices: 23787711--23787786 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
23787701 TAAAAATGAA
* * *
23787711 AAAAAAGTACAAAAATATTTAAAAAT
1 AAAAAATTACAAAAAAATTAAAAAAT
* * **
23787737 AAAAAATAATTAAGGAAA-TAAAAAAT
1 AAAAAATTA-CAAAAAAATTAAAAAAT
23787763 AAAAAATTACAAAAAAATTAAAAA
1 AAAAAATTACAAAAAAATTAAAAA
23787787 TTTACTAAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
25 5 0.14
26 28 0.76
27 4 0.11
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAAAATTACAAAAAAATTAAAAAAT
Found at i:23787791 original size:19 final size:19
Alignment explanation
Indices: 23787756--23787797 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23787746 TTAAGGAAAT
23787756 AAAAAATAAAAAATTAC-A
1 AAAAAATAAAAAATTACTA
*
23787774 AAAAAATTAAAAATTTACTA
1 AAAAAA-TAAAAAATTACTA
23787794 AAAA
1 AAAA
23787798 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAATAAAAAATTACTA
Found at i:23787798 original size:29 final size:29
Alignment explanation
Indices: 23787764--23787819 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
23787754 ATAAAAAATA
23787764 AAAAATTACAAAAAAATTA-AAAATTTACT
1 AAAAATTACAAAAAAA-TAGAAAATTTACT
**
23787793 AAAAATTTTAAAAAAATAGAAAATTTA
1 AAAAATTACAAAAAAATAGAAAATTTA
23787820 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAATTACAAAAAAATAGAAAATTTACT
Found at i:23787805 original size:19 final size:19
Alignment explanation
Indices: 23787756--23787807 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
23787746 TTAAGGAAAT
23787756 AAAAAA-TAAAAAATTACA
1 AAAAAATTAAAAAATTACA
*
23787774 AAAAAATTAAAAATTTACTA
1 AAAAAATTAAAAAATTAC-A
**
23787794 AAAATTTTAAAAAA
1 AAAAAATTAAAAAA
23787808 ATAGAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 6 0.21
19 10 0.36
20 12 0.43
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAATTAAAAAATTACA
Found at i:23789879 original size:50 final size:49
Alignment explanation
Indices: 23789767--23789953 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
23789757 TGAGGTCGCA
* * * * *
23789767 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
23789818 TGTGTGGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
23789868 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
23789917 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
23789954 TAGTTTCGGC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 42 0.36
51 29 0.25
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:23791567 original size:129 final size:130
Alignment explanation
Indices: 23791336--23791590 Score: 406
Period size: 129 Copynumber: 2.0 Consensus size: 130
23791326 ATTTAGAAAA
23791336 CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
1 CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
* * *
23791401 ATAGGGCACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCGTTTTAAAGAGTTTTTGAAG
66 ATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAAG
* *
23791466 CATGAGTGAAATT-TCAAAGGAATATTCGATTATTTTGAACAAAC-GGAAATTGCAACCCAGCAT
1 CATGAGTGAAATTCT-AAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
* * **
23791529 GATTGGACATGATTCTTCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTT
65 GATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTT
23791591 AAATGAATAA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
129 74 0.64
130 41 0.36
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (130 bp):
CATGAGTGAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
ATAGGACACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTTGAAG
Found at i:23792589 original size:2 final size:2
Alignment explanation
Indices: 23792582--23792612 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23792572 TATTATAAAG
23792582 TA 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 TA T
23792613 GATAATGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23794262 original size:14 final size:14
Alignment explanation
Indices: 23794245--23794274 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23794235 TAACTTCAGT
*
23794245 CTGCTCTACTGCAA
1 CTGCTCCACTGCAA
23794259 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
23794273 CT
1 CT
23794275 TTAGGGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:23794373 original size:44 final size:44
Alignment explanation
Indices: 23794259--23794376 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 44
23794249 TCTACTGCAA
* * *
23794259 CTGCTCCACTGCAACTTTAGGGAGATATGGTTTGTGTATTTTAT
1 CTGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGTATTTGAT
* * * *
23794303 CTTGCTCTACTACAACTTCAGAGAGATAAGGATTGTG-ATTTCGAT
1 C-TGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGTATTT-GAT
23794348 CTGCTCCACTGCAACTTTAGGGAGATAAG
1 CTGCTCCACTGCAACTTTAGGGAGATAAG
23794377 ATCTGCTAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
44 29 0.48
45 32 0.52
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTTAGGGAGATAAGGATTGTGTATTTGAT
Found at i:23794422 original size:89 final size:86
Alignment explanation
Indices: 23794329--23794735 Score: 386
Period size: 89 Copynumber: 4.6 Consensus size: 86
23794319 TTCAGAGAGA
* * **
23794329 TAAGGATTGTGATTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTAATCTTTGGC
1 TAAGGCTTGTG-TTT-GATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGC-AATCTTCAGC
23794394 CTGTTACCCTACTACTTAGGGGGT
63 CTGTTACCCTACTACTTAGGGGGT
* * * * * * ** * * *
23794418 TAAGGCTCAATGTCTTCGCTTTGCTCCATTACTGC-TTAGGAAGACAAGATCTACAATCTTCGGC
1 TAAGGCT---TGTGTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGC
23794482 CTGTTACCCTACTACTTAGGGGGT
63 CTGTTACCCTACTACTTAGGGGGT
* * * * **
23794506 TAAGGCTCACTGTGTTTGATCTGTTCCACTGTAGCTTCAGGGAGACAAGATCTATAATCTTCAGC
1 TAAGGCT---TGTGTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGC
23794571 CTGTTACCCTACTACTTAGGGGGT
63 CTGTTACCCTACTACTTAGGGGGT
* * * * **
23794595 TAAGGCTTGCTTCTTTGATTTGCTCTACTAC-TGTTTAGGGAGACAAGATCTGCAATCTTCAGCC
1 TAAGGCTTG--TGTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCC
* *
23794659 TGTTACCTTATTACTTAGGGGGT
64 TGTTACCCTACTACTTAGGGGGT
* * *
23794682 TAAGGCTTGCCGTCTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTG
1 TAAGGCTT---GTGTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTG
23794736 TGAATTCACC
Statistics
Matches: 261, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
86 2 0.01
87 57 0.22
88 88 0.34
89 96 0.37
90 13 0.05
91 2 0.01
92 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (86 bp):
TAAGGCTTGTGTTTGATCTGCTCCACTGCAACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTG
TTACCCTACTACTTAGGGGGT
Found at i:23794489 original size:88 final size:88
Alignment explanation
Indices: 23794364--23794734 Score: 406
Period size: 88 Copynumber: 4.2 Consensus size: 88
23794354 CACTGCAACT
* * ** *
23794364 TTAGGGAGATAAGATCTGCTAATCTTTGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAAT
1 TTAGGGAGACAAGATCTAC-AATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACT
* *
23794429 GTCTTCGCTTTGCTCCATTACTGC
65 GTCTTTGATTTGCTCCATTACTGC
* *
23794453 TTAGGAAGACAAGATCTACAATCTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTG
1 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTG
* * *
23794518 TGTTTGATCTGTTCCACTGTA--GC
66 TCTTTGATTTGCTCCA-T-TACTGC
* **
23794541 TTCAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTGCT
1 TT-AGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACT
* * *
23794606 -TCTTTGATTTGCTCTACTACTGT
65 GTCTTTGATTTGCTCCATTACTGC
* * * ** *
23794629 TTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCTTATTACTTAGGGGGTTAAGGCTTGCCG
1 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTG
* * * * **
23794694 TCTTTGATCTGTTCCACTGCAAC
66 TCTTTGATTTGCTCCATTACTGC
23794717 TTCAGGGAGACAAGATCT
1 TT-AGGGAGACAAGATCT
23794735 GTGAATTCAC
Statistics
Matches: 242, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.01
87 57 0.24
88 92 0.38
89 89 0.37
90 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (88 bp):
TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACTG
TCTTTGATTTGCTCCATTACTGC
Found at i:23794676 original size:176 final size:178
Alignment explanation
Indices: 23794336--23794735 Score: 543
Period size: 176 Copynumber: 2.2 Consensus size: 178
23794326 AGATAAGGAT
* * * * **
23794336 TGTGATTTCGATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTGCTAATCTTTGGCCTGTTAC
1 TGTG-TTT-GATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTTCAGCCTGTTAC
* *
23794401 CCTACTACTTAGGGGGTTAAGGCTCAATGTCTTCGCTTTGCTCCATTACTGCTTAGGAAGACAAG
64 CCTACTACTTAGGGGGTTAAGGCTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGAAGACAAG
*
23794466 ATCTACAATCTTCGGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAC
129 ATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAC
* *
23794516 TGTGTTTGATCTGTTCCACTGTAGCTTCAGGGAGACAAGATCT-ATAATCTTCAGCCTGTTACCC
1 TGTGTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTTCAGCCTGTTACCC
*** * * * *
23794580 TACTACTTAGGGGGTTAAGGCTTGCT-TCTTTGATTTGCTCTACTACTGTTTAGGGAGACAAGAT
66 TACTACTTAGGGGGTTAAGGCTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGAAGACAAGAT
* * * **
23794644 CTGCAATCTTCAGCCTGTTACCTTATTACTTAGGGGGTTAAGGCTTGC
131 CTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAC
* *
23794692 CGTCTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTG
1 TGTGTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTG
23794736 TGAATTCACC
Statistics
Matches: 192, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
176 113 0.59
177 41 0.21
178 31 0.16
179 3 0.02
180 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (178 bp):
TGTGTTTGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGATAATCTTCAGCCTGTTACCC
TACTACTTAGGGGGTTAAGGCTCAATGTCTTCGATTTGCTCCACTACTGCTTAGGAAGACAAGAT
CTACAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCAC
Found at i:23795569 original size:52 final size:51
Alignment explanation
Indices: 23795507--23795608 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 51
23795497 CAAACATCCC
*
23795507 TTTGGTCTCAAAGTGCCCTTTGCGAGTTTTCACCTTGGCCTCTCCATTTTTT
1 TTTGGCCTCAAAGTGCCCTTTGCGAGTTTTCACCTTGGCCTCTCC-TTTTTT
* * *
23795559 TTTGGCCTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGCCTTTCCTTTTT
1 TTTGGCCTCAAAGTGCCCTTTGCGAGTTTTCACCTTGGCCTCTCCTTTTT
23795609 AGGTAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 5 0.11
52 41 0.89
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (51 bp):
TTTGGCCTCAAAGTGCCCTTTGCGAGTTTTCACCTTGGCCTCTCCTTTTTT
Found at i:23798034 original size:16 final size:17
Alignment explanation
Indices: 23798004--23798036 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23797994 GTGGTGGAGA
23798004 TGACTCTTGTATGGATT
1 TGACTCTTGTATGGATT
*
23798021 TGACT-TTGTCTGGATT
1 TGACTCTTGTATGGATT
23798037 GATCTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.15, C:0.12, G:0.24, T:0.48
Consensus pattern (17 bp):
TGACTCTTGTATGGATT
Found at i:23806467 original size:130 final size:130
Alignment explanation
Indices: 23806302--23806557 Score: 406
Period size: 130 Copynumber: 2.0 Consensus size: 130
23806292 ATTTAGAAAA
* *
23806302 CATGAGTAAAATTCTAAAGGAACATTCTATTATTTTGAACAAACGGGAAATTGCAACCCAGCACG
1 CATGAGTAAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACG
* *
23806367 GTAGGGCACAATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTGAAAGAGTTTTTGAAG
66 ATAGGGCACAATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTGAAAGAATTTTTGAAG
* * *
23806432 CATGAGTGAAATT-TCAAAGGAATATTCGATTATTTTGAACAAACGGAAAATTGCAATCCAGCAC
1 CATGAGTAAAATTCT-AAAGGAACATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCAC
* * *
23806496 GATTGGGCACGATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTTAAAGAATTTTT
65 GATAGGGCACAATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTGAAAGAATTTTT
23806558 AAATGAATAA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
129 1 0.01
130 114 0.99
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (130 bp):
CATGAGTAAAATTCTAAAGGAACATTCGATTATTTTGAACAAACGGAAAATTGCAACCCAGCACG
ATAGGGCACAATTCCCCGAATTCCCAAACATCGAACGTTGCCTTCATTTGAAAGAATTTTTGAAG
Found at i:23807556 original size:2 final size:2
Alignment explanation
Indices: 23807549--23807575 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23807539 TATTATAAAG
23807549 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 T
23807576 GATAATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23808071 original size:78 final size:78
Alignment explanation
Indices: 23807938--23808094 Score: 260
Period size: 78 Copynumber: 2.0 Consensus size: 78
23807928 GCAATGCGCG
* * *
23807938 ATTAAATGCTTATGCAAATGGGGGGGACTTAACGCGCAATTACCCCTCTCCGCAGAAACGTGCGG
1 ATTAAATGCTTATGCAAATGAGGGGGACTTAACGAGCAATTACCCCTCTCCGCAGAAACGCGCGG
*
23808003 ATCCCAGGGGTAA
66 ATCCCAAGGGTAA
* *
23808016 ATTAAATGCTTATGGAAATGAGGGGGACTTAACGAGCAATTACCCCTCTCTGCAGAAACGCGCGG
1 ATTAAATGCTTATGCAAATGAGGGGGACTTAACGAGCAATTACCCCTCTCCGCAGAAACGCGCGG
23808081 ATCCCAAGGGTAA
66 ATCCCAAGGGTAA
23808094 A
1 A
23808095 GAACCGGATC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (78 bp):
ATTAAATGCTTATGCAAATGAGGGGGACTTAACGAGCAATTACCCCTCTCCGCAGAAACGCGCGG
ATCCCAAGGGTAA
Found at i:23813552 original size:29 final size:29
Alignment explanation
Indices: 23813519--23813621 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
23813509 GTGACGAGAT
23813519 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
23813548 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
23813577 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
23813606 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
23813622 AGCTCGGAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:23821344 original size:29 final size:29
Alignment explanation
Indices: 23821267--23821368 Score: 141
Period size: 29 Copynumber: 3.5 Consensus size: 29
23821257 TGACGAGATC
*
23821267 GGCACTAAGTGTGCGTCCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
23821296 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
23821325 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
23821354 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
23821369 AGCTCGGAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:23823653 original size:5 final size:5
Alignment explanation
Indices: 23823643--23823667 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23823633 CCTGTTATTG
23823643 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
23823668 TGCCAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:23825955 original size:38 final size:38
Alignment explanation
Indices: 23825904--23825980 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
23825894 TTCCTTATCT
* *
23825904 ATTTATGGACTACATATTGAGGACAATGTGTCAACTAA
1 ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
*
23825942 ATTTATGGGCTACACATTGAAGACAATGTGTCAACTAA
1 ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
23825980 A
1 A
23825981 GTGTGGGGGG
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:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (38 bp):
ATTTATGGACTACACATTGAAGACAATGTGTCAACTAA
Found at i:23827412 original size:21 final size:20
Alignment explanation
Indices: 23827364--23827412 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
23827354 ATCTAAAATT
* *
23827364 AATTAAACAATAATCCAGAA
1 AATTAAAAAATAATCCAAAA
*
23827384 AATCTAAAAAATATTTCCAAAA
1 AAT-TAAAAAATA-ATCCAAAA
23827406 AATTAAA
1 AATTAAA
23827413 TTTAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.24
Consensus pattern (20 bp):
AATTAAAAAATAATCCAAAA
Found at i:23841524 original size:23 final size:24
Alignment explanation
Indices: 23841480--23841526 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
23841470 TCCCATTATT
* *
23841480 TGGCTCTTTGTGAGCTTCCTGATA
1 TGGCTCTCTGTGAACTTCCTGATA
23841504 TGGCTCTCT-TGAACTTCCTGATA
1 TGGCTCTCTGTGAACTTCCTGATA
23841527 GATGGCTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
TGGCTCTCTGTGAACTTCCTGATA
Found at i:23842895 original size:25 final size:25
Alignment explanation
Indices: 23842867--23842914 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23842857 CATATTTTGT
23842867 TAAGTGATTT-TTGGTAAAAATGTCA
1 TAAG-GATTTATTGGTAAAAATGTCA
* *
23842892 TAAGGATTTATTTGTGAAAATGT
1 TAAGGATTTATTGGTAAAAATGT
23842915 GAAAATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (25 bp):
TAAGGATTTATTGGTAAAAATGTCA
Found at i:23843477 original size:43 final size:43
Alignment explanation
Indices: 23843422--23843570 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
23843412 TTAACAAGAC
*
23843422 GTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATATT
1 GTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCATATT
* * * * *
23843465 GCGATTACGTGTAAGACCATATTTGGGACATTGGCATCGT-TAT
1 GTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCATAT-T
*
23843508 GTGATTTCGTGTAAGACCATGTCT-AGAACATTGGCATCGATA-T
1 GTGATTACGTGTAAGACCATGTCTGAG-ACATTGGCATC-ATATT
* *
23843551 GTGATAACATGTAAGACCAT
1 GTGATTACGTGTAAGACCAT
23843571 ACTGGGATAT
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.02
43 84 0.97
44 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
GTGATTACGTGTAAGACCATGTCTGAGACATTGGCATCATATT
Found at i:23850215 original size:79 final size:81
Alignment explanation
Indices: 23850106--23850288 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
23850096 TACTCGTTCA
* *
23850106 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
23850169 ATTTAGTAACTCA-CACC
65 ATATAGTAACTCAGCA-C
**
23850186 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
23850249 TATAGTCACTTAGCAC
66 TATAGTAACTCAGCAC
*
23850265 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
23850289 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 62 0.68
80 26 0.29
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTCAGCAC
Found at i:23850288 original size:40 final size:40
Alignment explanation
Indices: 23850104--23850288 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
23850094 GCTACTCGTT
* * *
23850104 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
23850144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* *
23850184 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
23850223 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
23850264 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23850289 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 79 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:23853600 original size:47 final size:47
Alignment explanation
Indices: 23853548--23853842 Score: 466
Period size: 47 Copynumber: 6.3 Consensus size: 47
23853538 ACAAGATATG
23853548 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* *
23853595 TATATGTGATAGGGCCGAGA-GGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGA-ATGGCCAATGTGATGAATGTGAAAGTATA
23853642 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* * * *
23853689 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
23853736 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
* ** * *
23853783 TATATGTGATAGGGCCGAGCGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
*
23853830 TAAATGTGATAAG
1 TATATGTGATAAG
23853843 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
46 1 0.00
47 225 0.99
48 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
Found at i:23853659 original size:94 final size:94
Alignment explanation
Indices: 23853548--23853842 Score: 545
Period size: 94 Copynumber: 3.1 Consensus size: 94
23853538 ACAAGATATG
23853548 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
23853613 GAGGCCAATGTGATGAATGTGAAAGTGTA
66 GAGGCCAATGTGATGAATGTGAAAGTGTA
23853642 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
* *
23853707 GTGGCCAACGTGATGAATGTGAAAGTGTA
66 GAGGCCAATGTGATGAATGTGAAAGTGTA
23853736 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
* *
23853801 GCGGCCAATGTGATGGATGTGAAAGTGTA
66 GAGGCCAATGTGATGAATGTGAAAGTGTA
*
23853830 TAAATGTGATAAG
1 TATATGTGATAAG
23853843 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 195 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.27
Consensus pattern (94 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATGTGATAGGGCCGA
GAGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:23853744 original size:25 final size:25
Alignment explanation
Indices: 23853716--23853792 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
23853706 AGTGGCCAAC
23853716 GTGATGAATGTGAAAGTGTATATAT
1 GTGATGAATGTGAAAGTGTATATAT
* * ***
23853741 GTGAT-AAGGCCG-AA-TGGCCA-AT
1 GTGATGAATG-TGAAAGTGTATATAT
*
23853763 GTGATGAATGTGAAAGTATATATAT
1 GTGATGAATGTGAAAGTGTATATAT
23853788 GTGAT
1 GTGAT
23853793 AGGGCCGAGC
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 7 0.19
25 13 0.36
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (25 bp):
GTGATGAATGTGAAAGTGTATATAT
Found at i:23859359 original size:30 final size:30
Alignment explanation
Indices: 23859323--23859389 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
23859313 CAACTTAGGT
*
23859323 GTGTGGGCCACATAGGCATTCCACATGGGC
1 GTGTGGGCCACATAGGCATTCCACACGGGC
* * *
23859353 GTGTGGGTCGCATGGGCATTCCACACGGGC
1 GTGTGGGCCACATAGGCATTCCACACGGGC
*
23859383 GCGTGGG
1 GTGTGGG
23859390 TTTTTGGGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.40, T:0.19
Consensus pattern (30 bp):
GTGTGGGCCACATAGGCATTCCACACGGGC
Found at i:23865153 original size:155 final size:153
Alignment explanation
Indices: 23864854--23865133 Score: 438
Period size: 156 Copynumber: 1.8 Consensus size: 153
23864844 AGTTTTGATT
* *
23864854 TTTTTTTAAAAAAAAGAGAAAGTTTAGATTTTAAGAAATAAAAATCTATTTTTTTAGTCATTTTA
1 TTTTTTGAAAAAAAAGAGAAAGTTTAGATTTTAAGAAAGAAAAATCTATTTTTTTAGTCATTTTA
* *
23864919 AAGGAACGTTTAATATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAGCTT
66 AAGGAAAGTTTAATATTTTAAAACAAAGTTTTGATTTTTTTTAAACTATTTCAAAATAAAAGCTT
23864984 TAATCTTTAAGAAAAAAATAGTG
131 TAATCTTTAAGAAAAAAATAGTG
* *
23865007 TTTTTTGAAAAAAAAGTGAGAAAGTTTAGATTTTGAA-AGAGAAAAATCTGTTTTTTTAAGTCAT
1 TTTTTTGAAAAAAAA--GAGAAAGTTTAGATTTT-AAGAAAGAAAAATCTATTTTTTT-AGTCAT
*
23865071 TTTAAAGGAAAGTTTAA-ATTTTTAAAACAAAGTTTTGATTTTTTTTAAACTATTTCGAAATAA
62 TTTAAAGGAAAGTTTAATA-TTTTAAAACAAAGTTTTGATTTTTTTTAAACTATTTCAAAATAA
23865134 GGTTTTTCTT
Statistics
Matches: 115, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
153 14 0.12
155 35 0.30
156 66 0.57
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (153 bp):
TTTTTTGAAAAAAAAGAGAAAGTTTAGATTTTAAGAAAGAAAAATCTATTTTTTTAGTCATTTTA
AAGGAAAGTTTAATATTTTAAAACAAAGTTTTGATTTTTTTTAAACTATTTCAAAATAAAAGCTT
TAATCTTTAAGAAAAAAATAGTG
Found at i:23865502 original size:101 final size:100
Alignment explanation
Indices: 23865314--23865514 Score: 366
Period size: 100 Copynumber: 2.0 Consensus size: 100
23865304 GAGAAAGAGG
*
23865314 AAGAAGTTTTTTTTTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
1 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
* *
23865379 TTTTCATTTATAGGTGCTAAAAAGGGATAATTTAT
66 TTTTCATTTATAGGTGCCAAAAAGGGACAATTTAT
23865414 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
1 AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAG-TTTT
23865479 TTTTTCATTTATAGGTGCCAAAAAGGGACAATTTAT
65 TTTTTCATTTATAGGTGCCAAAAAGGGACAATTTAT
23865515 TCCCACCCCC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
100 59 0.61
101 38 0.39
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (100 bp):
AAGAAGTTTTTTTCTTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTT
TTTTCATTTATAGGTGCCAAAAAGGGACAATTTAT
Found at i:23865533 original size:100 final size:100
Alignment explanation
Indices: 23865328--23865533 Score: 295
Period size: 101 Copynumber: 2.0 Consensus size: 100
23865318 AGTTTTTTTT
23865328 TTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTTTTTTCATTTATAGG
1 TTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTTTTTTCATTTATAGG
* * * ***** *
23865393 TGCTAAAAAGGGATAATTTATAAGAAGTTTTTTTC
66 TGCCAAAAAGGGACAATTTATAACAACCCCCTTAC
23865428 TTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTTTTTTTCATTTATAG
1 TTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAG-TTTTTTTTTCATTTATAG
** *
23865493 GTGCCAAAAAGGGACAATTTATTCCCACCCCCTTAC
65 GTGCCAAAAAGGGACAATTTATAACAACCCCCTTAC
23865529 TTTTT
1 TTTTT
23865534 AAATTTATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 46 0.49
101 47 0.51
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (100 bp):
TTTTTTCCTTTGAAAAACAATGAGGTTAAAATGAAAGAATGAATAGTTTTTTTTTCATTTATAGG
TGCCAAAAAGGGACAATTTATAACAACCCCCTTAC
Found at i:23865877 original size:21 final size:19
Alignment explanation
Indices: 23865853--23865912 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
23865843 ACTTGTATAA
23865853 TTTTTATTTATTCTTATTTC
1 TTTTTATTTATT-TTATTTC
*
23865873 GTTTTTATTTATTTTTATGTC
1 -TTTTTATTTA-TTTTATTTC
23865894 TATTTATATTTATTTTATT
1 T-TTT-TATTTATTTTATT
23865913 ATTATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTTTATTTATTTTATTTC
Found at i:23865882 original size:11 final size:10
Alignment explanation
Indices: 23865852--23865922 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
23865842 CACTTGTATA
23865852 ATTTTTATTT
1 ATTTTTATTT
*
23865862 ATTCTTATTT
1 ATTTTTATTT
*
23865872 CGTTTTTATTT
1 -ATTTTTATTT
23865883 ATTTTTATGTCT
1 ATTTTTAT-T-T
*
23865895 ATTTATATTT
1 ATTTTTATTT
23865905 A-TTTTA-TT
1 ATTTTTATTT
*
23865913 ATTATTATTT
1 ATTTTTATTT
23865923 TTACACATTC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 8 0.16
10 20 0.41
11 10 0.20
12 8 0.16
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:23865882 original size:27 final size:26
Alignment explanation
Indices: 23865852--23865922 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 26
23865842 CACTTGTATA
* *
23865852 ATTTTTATTTATTCTTATTTCGTTTTT
1 ATTTTTATTTATTCTTATTT-ATATTT
23865879 ATTTATT-TTTATGTC-TATTTATATTT
1 ATTT-TTATTTAT-TCTTATTTATATTT
*
23865905 A-TTTTA-TTATTATTATTT
1 ATTTTTATTTATTCTTATTT
23865923 TTACACATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 2 0.05
26 5 0.14
27 14 0.38
28 4 0.11
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (26 bp):
ATTTTTATTTATTCTTATTTATATTT
Found at i:23875221 original size:28 final size:28
Alignment explanation
Indices: 23875180--23875236 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23875170 GTAATGAAGA
23875180 AAATGCATGCATTTCATTTTACGAGCCT
1 AAATGCATGCATTTCATTTTACGAGCCT
*
23875208 AAATGCATGTATTTCATTTTACGAGCCT
1 AAATGCATGCATTTCATTTTACGAGCCT
23875236 A
1 A
23875237 GGGACTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (28 bp):
AAATGCATGCATTTCATTTTACGAGCCT
Done.