Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 206 of 344
Found at i:68382508 original size:140 final size:140
Alignment explanation
Indices: 68382295--68382922 Score: 1114
Period size: 140 Copynumber: 4.5 Consensus size: 140
68382285 TCAATTTTTT
*
68382295 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCCCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
68382359 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
68382424 TTGAACAACATAAA
127 TTGAACAACATAAA
* * *
68382438 TTGAAAACAGAAATTGAAAATACCACAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATAAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
68382503 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
68382568 ACAACATAAA
131 ACAACATAAA
* *
68382578 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAC
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68382643 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
68382708 ACAACGTAAA
131 ACAACATAAA
68382718 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
68382783 CTGATTTTGAAAAAGTAGAACTTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
68382848 ACAACGTAAA
131 ACAACATAAA
*
68382858 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
68382923 TTGAAATTAA
Statistics
Matches: 468, Mismatches: 16, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
139 3 0.01
140 437 0.93
142 22 0.05
143 6 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACATAAA
Found at i:68382579 original size:54 final size:55
Alignment explanation
Indices: 68382479--68382584 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 55
68382469 GACCTGAGGC
* *
68382479 TCAACTCACCTCTCGCAATATAAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * * *
68382533 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATAAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
68382585 CAGAAATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 32 0.74
55 11 0.26
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATAAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:68382591 original size:13 final size:13
Alignment explanation
Indices: 68382564--68382597 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
68382554 GAGTTGATTC
*
68382564 TTGAACAACATAAA
1 TTGAA-AACAGAAA
68382578 TTGAAAACAGAAA
1 TTGAAAACAGAAA
68382591 TTGAAAA
1 TTGAAAA
68382598 TACCTTAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:68382719 original size:54 final size:54
Alignment explanation
Indices: 68382619--68382724 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
68382609 GACCTGAGGC
*
68382619 TCAACTCACCTCTCGCAATATGACCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGACCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
** *
68382673 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGACCTGATT-TTGAA-AAAGTAAAATTGAAAA
68382725 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGACCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:68382990 original size:72 final size:71
Alignment explanation
Indices: 68382855--68383020 Score: 219
Period size: 72 Copynumber: 2.3 Consensus size: 71
68382845 TGAACAACGT
* * *
68382855 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACAATAT
*
68382920 GAGTTG
66 GACTTG
* *
68382926 AAATTAAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCT-AGCAAT
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCA-CAAT
68382990 ATGACTTG
64 ATGACTTG
**
68382998 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
68383021 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
71 13 0.15
72 67 0.80
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACAATAT
GACTTG
Found at i:68383115 original size:122 final size:124
Alignment explanation
Indices: 68382895--68383141 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
68382885 GCGTGACCTG
* *
68382895 AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGTG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGTG
68382960 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGACTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGACTTGATTTTG-AAAACAAAAATTAAA
* * * * *
68383020 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGTG
1 AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGTG
* * *
68383082 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGACTTGATTTTGAAAACAAAAATTAAA
68383141 A
1 A
68383142 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.14
122 62 0.55
123 7 0.06
124 1 0.01
125 26 0.23
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGTG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGACTTGATTTTGAAAACAAAAATTAAA
Found at i:68383163 original size:71 final size:70
Alignment explanation
Indices: 68383020--68383194 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
68383010 AAAAATTAAA
* * * * * **
68383020 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGTGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
68383084 CCCCG
66 CCCCG
*
68383089 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
68383154 GTCTTG
65 GCCCCG
68383160 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
68383195 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:68391492 original size:12 final size:12
Alignment explanation
Indices: 68391472--68391507 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
68391462 TGGGTTATGC
*
68391472 AATGTATGAATG
1 AATGCATGAATG
68391484 AATGCATGAATG
1 AATGCATGAATG
68391496 AATGCATGAATG
1 AATGCATGAATG
68391508 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:68393611 original size:18 final size:18
Alignment explanation
Indices: 68393568--68393614 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
68393558 GCCAAGGGGG
* *
68393568 GTCGGTCACTGGTCGATC
1 GTCGGTCGCCGGTCGATC
68393586 GTCGGTCGCCGGTCGATC
1 GTCGGTCGCCGGTCGATC
68393604 GTCGGTCGCCG
1 GTCGGTCGCCG
68393615 CCCGTCGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.06, C:0.32, G:0.38, T:0.23
Consensus pattern (18 bp):
GTCGGTCGCCGGTCGATC
Found at i:68404560 original size:17 final size:17
Alignment explanation
Indices: 68404538--68404591 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
68404528 TTTAGGATAA
68404538 ATTTTGATTGGTTTATG
1 ATTTTGATTGGTTTATG
68404555 ATTTTGA-T-G---A--
1 ATTTTGATTGGTTTATG
68404565 ATTTTGATTGGTTTATG
1 ATTTTGATTGGTTTATG
68404582 ATTTTGATTG
1 ATTTTGATTG
68404592 ATATATCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.07
15 2 0.07
16 1 0.03
17 17 0.57
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.57
Consensus pattern (17 bp):
ATTTTGATTGGTTTATG
Found at i:68404567 original size:27 final size:27
Alignment explanation
Indices: 68404537--68404589 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
68404527 ATTTAGGATA
68404537 AATTTTGATTGGTTTATGATTTTGATG
1 AATTTTGATTGGTTTATGATTTTGATG
68404564 AATTTTGATTGGTTTATGATTTTGAT
1 AATTTTGATTGGTTTATGATTTTGAT
68404590 TGATATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.57
Consensus pattern (27 bp):
AATTTTGATTGGTTTATGATTTTGATG
Found at i:68407353 original size:30 final size:30
Alignment explanation
Indices: 68407296--68407353 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
68407286 CACGAGCTAC
* *
68407296 CACATGGGCGTGTGGCCAGCCCATGTGGCT
1 CACATGGGCGTATGGCCAACCCATGTGGCT
*
68407326 CACATGGGCGTAT-GCTCAACCCGTGTGG
1 CACATGGGCGTATGGC-CAACCCATGTGG
68407354 GAATGGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (30 bp):
CACATGGGCGTATGGCCAACCCATGTGGCT
Found at i:68409181 original size:6 final size:6
Alignment explanation
Indices: 68409172--68409237 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
68409162 GGAGTTTAAT
* * * * *
68409172 AAAATA AAAATA AACAGA AAAAT- AAAATT AAAATT AAAATT AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
68409219 AAGATA AAGAT- AAAATA AA
1 AAAATA AAAATA AAAATA AA
68409238 TGAGATGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
5 9 0.18
6 42 0.82
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:68409197 original size:23 final size:22
Alignment explanation
Indices: 68409169--68409233 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
68409159 AAAGGAGTTT
68409169 AATAAAATAAAAATAAACAGAAA
1 AATAAAATAAAAATAAA-AGAAA
* **
68409192 AATAAAATTAAAATTAAAATTAA
1 AATAAAA-TAAAAATAAAAGAAA
*
68409215 AATAAAGATAAAGATAAAA
1 AATAAA-ATAAAAATAAAA
68409234 TAAATGAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 25 0.71
24 10 0.29
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (22 bp):
AATAAAATAAAAATAAAAGAAA
Found at i:68409198 original size:17 final size:16
Alignment explanation
Indices: 68409172--68409237 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
68409162 GGAGTTTAAT
*
68409172 AAAATAAAAATAAACAGA
1 AAAAT-AAAATAAA-ATA
68409190 AAAATAAAATTAAAATTA
1 AAAATAAAA-TAAAA-TA
*
68409208 AAATTAAAATAAAGATA
1 AAAATAAAATAAA-ATA
*
68409225 AAGATAAAATAAA
1 AAAATAAAATAAA
68409238 TGAGATGGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 22 0.54
18 19 0.46
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:68409204 original size:12 final size:11
Alignment explanation
Indices: 68409169--68409237 Score: 75
Period size: 12 Copynumber: 6.0 Consensus size: 11
68409159 AAAGGAGTTT
68409169 AATAAAATAAA
1 AATAAAATAAA
*
68409180 AATAAACAGAAA
1 AATAAA-ATAAA
68409192 AATAAAATTAAA
1 AATAAAA-TAAA
* *
68409204 ATTAAAATTAA
1 AATAAAATAAA
68409215 AATAAAGATAAA
1 AATAAA-ATAAA
*
68409227 GATAAAATAAA
1 AATAAAATAAA
68409238 TGAGATGGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
11 20 0.42
12 28 0.58
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.20
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:68410909 original size:3 final size:3
Alignment explanation
Indices: 68410901--68410955 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
68410891 TTACCAAACG
*
68410901 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AA- AAT AAT AAT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
68410949 AGT AAT A
1 AAT AAT A
68410956 TTGAAAATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:68421260 original size:19 final size:19
Alignment explanation
Indices: 68421238--68421278 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
68421228 ATTAGTAAAC
68421238 AAAATGAAAAAGAAAAAAG
1 AAAATGAAAAAGAAAAAAG
*
68421257 AAAATGAAAAGGAAAAAAG
1 AAAATGAAAAAGAAAAAAG
68421276 AAA
1 AAA
68421279 TTTGTTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (19 bp):
AAAATGAAAAAGAAAAAAG
Found at i:68423335 original size:43 final size:43
Alignment explanation
Indices: 68423280--68423366 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
68423270 ATATCATACA
**
68423280 ATGCCAATGTCCCAGAC-GTGGTCTTACAT-GTAGCCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
*
68423323 ATGCCACTGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
68423366 A
1 A
68423367 AAACAGAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 37 0.95
44 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:68431867 original size:26 final size:26
Alignment explanation
Indices: 68431829--68431912 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
68431819 CATGAAATTC
* *
68431829 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
68431855 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
68431881 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
68431907 TTATCA
1 TTATCA
68431913 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:68437860 original size:11 final size:10
Alignment explanation
Indices: 68437833--68437885 Score: 61
Period size: 11 Copynumber: 5.0 Consensus size: 10
68437823 TGACCTTTCC
68437833 AAGGTATGGG
1 AAGGTATGGG
*
68437843 TAGGTATGGG
1 AAGGTATGGG
68437853 AAAGGTATGGG
1 -AAGGTATGGG
68437864 TAAGGTATGGG
1 -AAGGTATGGG
*
68437875 CAAGGAATGGG
1 -AAGGTATGGG
68437886 TATATTCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:68437872 original size:22 final size:22
Alignment explanation
Indices: 68437833--68437887 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
68437823 TGACCTTTCC
68437833 AAGGTATGGGT-AGGTATGGGA
1 AAGGTATGGGTAAGGTATGGGA
*
68437854 AAGGTATGGGTAAGGTATGGGC
1 AAGGTATGGGTAAGGTATGGGA
*
68437876 AAGGAATGGGTA
1 AAGGTATGGGTA
68437888 TATTCTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.31, C:0.02, G:0.45, T:0.22
Consensus pattern (22 bp):
AAGGTATGGGTAAGGTATGGGA
Found at i:68441963 original size:18 final size:18
Alignment explanation
Indices: 68441922--68441996 Score: 89
Period size: 18 Copynumber: 4.2 Consensus size: 18
68441912 ATCCCAACTA
* * *
68441922 CTGTATACGTGAACAGTA
1 CTGTATACGTAAATAGTG
68441940 CTGTATACGTAAATAGTG
1 CTGTATACGTAAATAGTG
*
68441958 -TCGTATATGTAAATAGTG
1 CT-GTATACGTAAATAGTG
*
68441976 CTGTATACGTGAATAGTG
1 CTGTATACGTAAATAGTG
68441994 CTG
1 CTG
68441997 CAAATGGTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.02
18 47 0.96
19 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (18 bp):
CTGTATACGTAAATAGTG
Found at i:68442562 original size:11 final size:12
Alignment explanation
Indices: 68442546--68442578 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
68442536 TATGGGTAGA
68442546 TATGGG-AAGGG
1 TATGGGCAAGGG
68442557 TATGGGCAA-GG
1 TATGGGCAAGGG
68442568 TATGGGCAAGG
1 TATGGGCAAGG
68442579 AATGGGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.27, C:0.06, G:0.48, T:0.18
Consensus pattern (12 bp):
TATGGGCAAGGG
Found at i:68443689 original size:43 final size:43
Alignment explanation
Indices: 68443628--68443714 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
68443618 AGCGAGAAGA
68443628 AAGAGAAGAAGCAAGAGAATGGTTTGCTAAGAGAGACGAAATT
1 AAGAGAAGAAGCAAGAGAATGGTTTGCTAAGAGAGACGAAATT
68443671 AAGAGAAGAAGCAAGAGAATGGTTTGCTAAGAGAGACGAAATT
1 AAGAGAAGAAGCAAGAGAATGGTTTGCTAAGAGAGACGAAATT
68443714 A
1 A
68443715 CACATACTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.47, C:0.07, G:0.30, T:0.16
Consensus pattern (43 bp):
AAGAGAAGAAGCAAGAGAATGGTTTGCTAAGAGAGACGAAATT
Found at i:68443891 original size:32 final size:32
Alignment explanation
Indices: 68443854--68443935 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 32
68443844 GAAATTTTAG
*
68443854 TTTGTTAGATTTTGAAATTATTATGTCTTAAA
1 TTTGTTAGATATTGAAATTATTATGTCTTAAA
* * * *
68443886 TTTGTTAAATATTGAATTTATTATGTTTTAAG
1 TTTGTTAGATATTGAAATTATTATGTCTTAAA
* *
68443918 CTTGTTGGATATTGAAAT
1 TTTGTTAGATATTGAAAT
68443936 GATTGACAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.30, C:0.02, G:0.15, T:0.52
Consensus pattern (32 bp):
TTTGTTAGATATTGAAATTATTATGTCTTAAA
Found at i:68445730 original size:93 final size:93
Alignment explanation
Indices: 68445571--68445836 Score: 451
Period size: 93 Copynumber: 2.9 Consensus size: 93
68445561 CGCCCATAAG
* * *
68445571 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
68445636 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
68445664 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
68445729 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
68445757 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
68445822 ACAAGTTCGGATGCC
66 ACGAGTTCGGATGCC
68445837 CAAATATCCT
Statistics
Matches: 163, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:68445832 original size:46 final size:46
Alignment explanation
Indices: 68445564--68445832 Score: 257
Period size: 46 Copynumber: 5.8 Consensus size: 46
68445554 TGTAACCCGC
* * *
68445564 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* * *
68445610 CCATAGGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACAT
* * *
68445660 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
*
68445703 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACAT
* * *
68445753 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* *
68445796 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
68445833 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 23, Indels: 36
0.76 0.10 0.15
Matches are distributed among these distances:
42 5 0.03
43 7 0.04
44 3 0.02
45 4 0.02
46 90 0.49
47 56 0.31
48 3 0.02
49 3 0.02
50 6 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:68453458 original size:21 final size:20
Alignment explanation
Indices: 68453426--68453464 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
68453416 CAAAGGCATC
*
68453426 CAAAAAGAAAAACAAAAGTA
1 CAAAAAGAAAAAAAAAAGTA
*
68453446 CAAAAATAGAAAAAAAAAG
1 CAAAAAGA-AAAAAAAAAG
68453465 GAAAAGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.05
Consensus pattern (20 bp):
CAAAAAGAAAAAAAAAAGTA
Found at i:68454019 original size:26 final size:27
Alignment explanation
Indices: 68453988--68454057 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
68453978 TTGAAACCTT
*
68453988 AAAAAATCAAGAAAAAAAGAAT-AAAAA
1 AAAAAATCAA-AAAAAAAGAATCAATAA
*
68454015 TAAAAAATC-AAAAAAAAGAATCAAT-T
1 -AAAAAATCAAAAAAAAAGAATCAATAA
68454041 AAAAAATCAAAAAAAAA
1 AAAAAATCAAAAAAAAA
68454058 AGAAAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 8 0.21
26 19 0.50
27 3 0.08
28 8 0.21
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (27 bp):
AAAAAATCAAAAAAAAAGAATCAATAA
Found at i:68454043 original size:25 final size:26
Alignment explanation
Indices: 68453986--68454056 Score: 99
Period size: 25 Copynumber: 2.7 Consensus size: 26
68453976 CCTTGAAACC
68453986 TTAAAAAATCAAGAAAAAAAGAATAAAA
1 TTAAAAAATC-A-AAAAAAAGAATAAAA
* *
68454014 ATAAAAAATCAAAAAAAAGAAT-CAA
1 TTAAAAAATCAAAAAAAAGAATAAAA
68454039 TTAAAAAATCAAAAAAAA
1 TTAAAAAATCAAAAAAAA
68454057 AAGAAAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.47
26 11 0.28
27 1 0.03
28 9 0.22
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (26 bp):
TTAAAAAATCAAAAAAAAGAATAAAA
Found at i:68455893 original size:177 final size:176
Alignment explanation
Indices: 68455486--68456244 Score: 1011
Period size: 177 Copynumber: 4.3 Consensus size: 176
68455476 AAAGATGGCA
* ** * * * *
68455486 AATCTTATCTCCATGTATCGACAACAGAACAGATTTAAGCCATTGGCTTTATCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAGGTAG
** * * * * *
68455551 CAAGAGAGCAGGTTGGCGATTGTAGTCTTATTTTCCTGAGGTAGCAAGAAAGCAGACTGAAAATT
66 CAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTG-AGATT
* *
68455616 -ACAGATCTTATCTCCC-AAGCAGTAGTGGAGCAGATCG-AGGATAGTG
130 GA-AGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGCA-GATGGTG
* *
68455662 AATCTTATCTCCATGAATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTTTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAGGTAG
68455727 CAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGGATT
66 CAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGA-GATT
*
68455792 GAAGATCTTATCTTCCTAGGCAGTAGTGGAGCAGATCGCAGATGGTG
130 GAAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGCAGATGGTG
*
68455839 AATTTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAGGTAG
* *
68455904 CAAGAGAGCAGGTTGAAAATGGTAGTCTTATCTTCCTAAGGTAGCAAGGAAGTAGACTGACGATT
66 CAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGA-GATT
* * *
68455969 GAATATCTTATCTCCCTAGGCAATAGTGGAGCAGATTGCAGATGGTG
130 GAAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGCAGATGGTG
* ** * * *
68456016 AATCTTATCTACATGTATCGGCAATGGAGCAGATTTTTGCTA-TCAGCCTAATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACT-GGCCTTATCTCTCTGAGGTA
* * *
68456080 GCAAGAGAGCAGGTTGAAGA-AG-AGTCTTATCTTTCTGAGGTAGCAA-TAA--AG-C--AGATT
65 GCAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGATT
**
68456137 GAAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGTGGATGGTG
130 GAAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGCAGATGGTG
* * * * *
68456184 AATCTTATCTCCATATATCGGCATTGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAG
68456245 TTGTCGAGCA
Statistics
Matches: 524, Mismatches: 53, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
168 98 0.19
169 2 0.00
171 1 0.00
172 2 0.00
174 2 0.00
175 23 0.04
176 127 0.24
177 268 0.51
178 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (176 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACTGGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGAAGATGGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAGATTG
AAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGCAGATGGTG
Found at i:68456266 original size:85 final size:85
Alignment explanation
Indices: 68456165--68456329 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 85
68456155 GGCAGTAGTG
** ** * *
68456165 GAGCAGATCGTGGATGGTGAATCTTATCTCCATATATCGGCATTGGAACAGATTTTAGCCACTAG
1 GAGCAGATCGAAGATGGCAAATCTTATCTCCATATATCGGCAATAGAACAGATTTTAGCCACTAG
68456230 CCTTATCTCTCTGAGTTGTC
66 CCTTATCTCTCTGAGTTGTC
* * *
68456250 GAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTTAGCCACTAG
1 GAGCAGATCGAAGATGGCAAATCTTATCTCCATATATCGGCAATAGAACAGATTTTAGCCACTAG
68456315 CCTTATCTCTCTGAG
66 CCTTATCTCTCTGAG
68456330 GTAGCAAGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
GAGCAGATCGAAGATGGCAAATCTTATCTCCATATATCGGCAATAGAACAGATTTTAGCCACTAG
CCTTATCTCTCTGAGTTGTC
Found at i:68456498 original size:262 final size:253
Alignment explanation
Indices: 68455997--68456505 Score: 671
Period size: 262 Copynumber: 2.0 Consensus size: 253
68455987 GGCAATAGTG
* * ** * * *
68455997 GAGCAGATTGCAGATGGTGAATCTTATCTACATGTATCGGCAATGGAGCAGATTTTTGCTATCAG
1 GAGCAGATCGAAGATGGCAAATCTTATCTACATGTATCGGCAATAGAGCAGATTTTAGCCATCAG
* *
68456062 CCTAATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAGAGTCTTATCTTTCTGAGGTAGCAAT
66 CCTAATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAGAGTCTTATCTTCCTGAGGTAGCAAG
* * * *
68456127 AAAGCAGATTGAAGATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGTGGATGGTGAATCTTAT
131 AAAGCAGATTGAAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAGGATGGCGAATCTTAT
* *
68456192 CTCCATATATCGGCATTGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGAGTTGTC
196 CTCCATATATCAGCAATGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGAGTTGTC
* *
68456250 GAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTTAGCCA-CTA
1 GAGCAGATCGAAGATGGCAAATCTTATCTACATGTATCGGCAATAGAGCAGATTTTAGCCATC-A
* * * * *
68456314 GCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGATGATTGTAGTTTTATCTTCCTGAGGTAGC
65 GCCTAATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA-AG-AGTCTTATCTTCCTGAGGTAGC
* *
68456379 AAGGAAGCAGACTGAAGATTGAAGATCTTATCGCCCTAAGTAGTTGTGGAGCAGATCGAGGATGG
128 AA-GAA--AG-C---AGATTGAAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAGGATGG
* *
68456444 CGAATCTTATCTCCATGTA-CTAGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGA
186 CGAATCTTATCTCCATATATC-AGCAATGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGA
68456506 TGTAGCAAGA
Statistics
Matches: 219, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
252 1 0.00
253 89 0.41
254 1 0.00
255 22 0.10
256 2 0.01
258 2 0.01
259 1 0.00
261 1 0.00
262 100 0.46
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (253 bp):
GAGCAGATCGAAGATGGCAAATCTTATCTACATGTATCGGCAATAGAGCAGATTTTAGCCATCAG
CCTAATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAGAGTCTTATCTTCCTGAGGTAGCAAG
AAAGCAGATTGAAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAGGATGGCGAATCTTAT
CTCCATATATCAGCAATGGAACAGATTTTAGCCACTAGCCTTATCTCTCTGAGTTGTC
Found at i:68456554 original size:177 final size:176
Alignment explanation
Indices: 68456243--68456618 Score: 549
Period size: 177 Copynumber: 2.1 Consensus size: 176
68456233 TATCTCTCTG
* * * *
68456243 AGTTGTCGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTTAG
1 AGTTGTGGAGCAGATCGAGGATGGCAAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTTAG
* * * *
68456308 CCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGATGATTGTAGTTTTATCTTCCTGA
66 CCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGCTGACGATTGTAGTCTTATCTTCCTGA
* *
68456373 GGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCGCCCTAAGT
131 GGTAGCAAAGAAGCAGACTGAAGATTGAAGATC-TATCGCCCTAAGC
* *
68456420 AGTTGTGGAGCAGATCGAGGATGGCGAATCTTATCTCCATGTA-CTAGCAATGGAGCAGATTTTA
1 AGTTGTGGAGCAGATCGAGGATGGCAAATCTTATCTCCATGTATC-AGCAATAGAGCAGATTTTA
* *
68456484 GCCACTAGCCTTATCTCTCTGATGTAGCAAGAGAGCAGGCTGGCGATTGTAGTCTTATCTT-CTA
65 GCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGCTGACGATTGTAGTCTTATCTTCCT-
* **
68456548 GAGGTAGCAAATAAGCAGACTGAAGATTGAAGATCTATTTCCCTAAGC
129 GAGGTAGCAAAGAAGCAGACTGAAGATTGAAGATCTATCGCCCTAAGC
*
68456596 AGTTGTGGAGCAGATTGAGGATG
1 AGTTGTGGAGCAGATCGAGGATG
68456619 ACGACCCTAA
Statistics
Matches: 179, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
176 35 0.20
177 144 0.80
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (176 bp):
AGTTGTGGAGCAGATCGAGGATGGCAAATCTTATCTCCATGTATCAGCAATAGAGCAGATTTTAG
CCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGCTGACGATTGTAGTCTTATCTTCCTGA
GGTAGCAAAGAAGCAGACTGAAGATTGAAGATCTATCGCCCTAAGC
Found at i:68459672 original size:19 final size:17
Alignment explanation
Indices: 68459650--68459781 Score: 58
Period size: 19 Copynumber: 7.4 Consensus size: 17
68459640 ATAATAAAAT
68459650 AATATATAATTTATAATAA
1 AATA-ATAA-TTATAATAA
**
68459669 AATAA-AA-TATAA-GG
1 AATAATAATTATAATAA
*
68459683 AATAAT-ATATATAGTAA
1 AATAATAAT-TATAATAA
68459700 AATATATAATGTATAATAA
1 AATA-ATAAT-TATAATAA
* * * *
68459719 AACTTATAAATAAAATGTAT
1 AA-TAATAATTATAA--TAA
*
68459739 AATAATAA-TATAATAT
1 AATAATAATTATAATAA
68459755 AATGAATAATGTATAATAAA
1 AAT-AATAAT-TATAAT-AA
68459775 AATAATA
1 AATAATA
68459782 TATATACTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
14 6 0.07
15 5 0.06
16 10 0.12
17 11 0.13
18 11 0.13
19 34 0.40
20 9 0.10
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (17 bp):
AATAATAATTATAATAA
Found at i:68459687 original size:22 final size:22
Alignment explanation
Indices: 68459638--68459689 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
68459628 CACCATTAAA
* *
68459638 GAATAATAAAATAATATATAAT
1 GAATAATAAAATAAAATATAAG
**
68459660 TTATAATAAAATAAAATATAAG
1 GAATAATAAAATAAAATATAAG
68459682 GAATAATA
1 GAATAATA
68459690 TATATAGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
GAATAATAAAATAAAATATAAG
Found at i:68459739 original size:13 final size:12
Alignment explanation
Indices: 68459707--68459764 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
68459697 TAAAATATAT
68459707 AATGTATAATAA
1 AATGTATAATAA
68459719 AACT-TATAAATAA
1 AA-TGTAT-AATAA
68459732 AATGTATAATAA
1 AATGTATAATAA
*
68459744 TAA--TATAATAT
1 -AATGTATAATAA
*
68459755 AATGAATAAT
1 AATGTATAAT
68459765 GTATAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 16 0.42
13 13 0.34
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:68459741 original size:25 final size:29
Alignment explanation
Indices: 68459705--68459783 Score: 98
Period size: 25 Copynumber: 2.9 Consensus size: 29
68459695 AGTAAAATAT
68459705 ATAATGTATAATAAAACT-T-ATA-AAT-A
1 ATAATGTATAATAAAA-TATAATATAATGA
68459731 A-AATGTATAATAATAATATAATATAATGA
1 ATAATGTATAATAA-AATATAATATAATGA
68459760 ATAATGTATAATAAAA-ATAATATA
1 ATAATGTATAATAAAATATAATATA
68459784 TATACTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
25 13 0.28
26 4 0.09
27 3 0.06
28 11 0.23
29 4 0.09
30 12 0.26
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (29 bp):
ATAATGTATAATAAAATATAATATAATGA
Found at i:68462660 original size:17 final size:17
Alignment explanation
Indices: 68462638--68462670 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
68462628 GTGGAGGTAA
*
68462638 AAGGATTTGATGATGAG
1 AAGGATTTGATAATGAG
68462655 AAGGATTTGATAATGA
1 AAGGATTTGATAATGA
68462671 CTTTCTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
AAGGATTTGATAATGAG
Found at i:68465506 original size:32 final size:30
Alignment explanation
Indices: 68465468--68465611 Score: 84
Period size: 32 Copynumber: 4.6 Consensus size: 30
68465458 ACGGCCAAGA
68465468 TTGATACTGATATGGGCTAGGCCCAGTATAC
1 TTGATACTGATATGGGCTAGGCCCAGT-TAC
*
68465499 TCTGATACTG-TAAAGGGCTATGGCCCAG--A-
1 T-TGATACTGAT-ATGGGCTA-GGCCCAGTTAC
* *
68465528 TTAATATTGATATGGGCTAAGGCCCAGTTAAC
1 TTGATACTGATATGGGCT-AGGCCCAGTT-AC
* *
68465560 TCTGATTTCTGA-ATAGGGCTTAGACCCAGTATAGC
1 T-TGA-TACTGATAT-GGGC-TAGGCCCAGT-TA-C
*
68465595 TTGA-ACTGATTTGGGCT
1 TTGATACTGATATGGGCT
68465612 CTGGTTGGGA
Statistics
Matches: 87, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
28 19 0.22
29 3 0.03
30 1 0.01
31 4 0.05
32 24 0.28
33 12 0.14
34 20 0.23
35 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGATACTGATATGGGCTAGGCCCAGTTAC
Found at i:68465563 original size:61 final size:61
Alignment explanation
Indices: 68465417--68465579 Score: 183
Period size: 60 Copynumber: 2.7 Consensus size: 61
68465407 AACTGTGTTA
* * * *
68465417 ATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCAAGATTGATACTG
1 ATATGGGCTAGGCCCAGTATACTCTGATAC-TGTAATAGGGCTACGGCCAAGATTAATACTG
* * *
68465477 ATATGGGCTAGGCCCAGTATACTCTGATACTGTAA-AGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATACTCTGATACTGTAATAGGGCTACGGCCAAGATTAATACTG
*
68465537 ATATGGGCTAAGGCCCAGT-TAACTCTGATTTCTG-AATAGGGCT
1 ATATGGGCT-AGGCCCAGTAT-ACTCTGA-TACTGTAATAGGGCT
68465580 TAGACCCAGT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
60 50 0.56
61 27 0.30
62 12 0.13
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (61 bp):
ATATGGGCTAGGCCCAGTATACTCTGATACTGTAATAGGGCTACGGCCAAGATTAATACTG
Found at i:68470215 original size:60 final size:60
Alignment explanation
Indices: 68470115--68470253 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 60
68470105 AACTGTGTTA
* * *
68470115 ATATGGGCAAGGCCCAATATATCTCAACTTGTAATAGGGCTACGG-CCAGGATTGATACTG
1 ATATGGGCTAGGCCCAGTATATCTCAACTTGTAATAGGGCTACGGCCCA-GATTAATACTG
* * * *
68470175 ATATGGGCTAGGCCCAGTATACTCTGATAC-TGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* *
68470235 AAATAGGCTAAGGCCCAGT
1 ATATGGGCT-AGGCCCAGT
68470254 TAACTCTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
60 43 0.65
61 21 0.32
62 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAGTATATCTCAACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:68474032 original size:18 final size:15
Alignment explanation
Indices: 68474016--68474200 Score: 112
Period size: 15 Copynumber: 11.8 Consensus size: 15
68474006 ATTTTTTATG
68474016 TTATATAATTATTTTA
1 TTATAT-ATTATTTTA
68474032 TTATATATTATTTATA
1 TTATATATTATTT-TA
*
68474048 TTATTTA-TA-TTTA
1 TTATATATTATTTTA
*
68474061 TTATGTATTATTTT-
1 TTATATATTATTTTA
* *
68474075 TCATAAATTATTATTA
1 TTATATATTATT-TTA
* * *
68474091 TTTTACATTATTAT-
1 TTATATATTATTTTA
68474105 TTATATATTATTTATATA
1 TTATATATTA-TT-T-TA
*
68474123 TTATATATT-TATTAA
1 TTATATATTAT-TTTA
68474138 TTATATATTATATATTA
1 TTATATATTAT-T-TTA
*
68474155 TATATATACTT-TTATA
1 T-TATATA-TTATTTTA
*
68474171 TTATACATTATAATTATA
1 TTATATATTAT--TT-TA
68474189 TTATATATTATT
1 TTATATATTATT
68474201 ATGTCATTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.06
14 23 0.17
15 33 0.25
16 32 0.24
17 7 0.05
18 28 0.21
19 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (15 bp):
TTATATATTATTTTA
Found at i:68474042 original size:7 final size:7
Alignment explanation
Indices: 68474016--68474199 Score: 97
Period size: 7 Copynumber: 26.6 Consensus size: 7
68474006 ATTTTTTATG
68474016 TTATATAA
1 TTATAT-A
*
68474024 TTATTTTA
1 TTA-TATA
68474032 TTATATA
1 TTATATA
68474039 TTATTTATA
1 TTA--TATA
*
68474048 TTATTTA
1 TTATATA
*
68474055 -TATTTA
1 TTATATA
*
68474061 TTATGTA
1 TTATATA
*
68474068 TTAT-TT
1 TTATATA
*
68474074 TTCATAAA
1 TT-ATATA
68474082 TTAT-TA
1 TTATATA
68474088 TTAT-T-
1 TTATATA
*
68474093 TTACATTA
1 TTATA-TA
*
68474101 TTATTTA
1 TTATATA
68474108 -TATATTA
1 TTATA-TA
68474115 TTTATATA
1 -TTATATA
68474123 TTATATA
1 TTATATA
68474130 TT-TATTAA
1 TTATA-T-A
68474138 TTATATA
1 TTATATA
68474145 TTATATA
1 TTATATA
68474152 TTATATA
1 TTATATA
68474159 -TATACT-
1 TTATA-TA
68474165 TT-TATA
1 TTATATA
*
68474171 TTATACA
1 TTATATA
68474178 TTATA-A
1 TTATATA
68474184 -T-TATA
1 TTATATA
68474189 TTATATA
1 TTATATA
68474196 TTAT
1 TTAT
68474200 TATGTCATTT
Statistics
Matches: 141, Mismatches: 13, Indels: 45
0.71 0.07 0.23
Matches are distributed among these distances:
4 2 0.01
5 6 0.04
6 30 0.21
7 70 0.50
8 18 0.13
9 15 0.11
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:68474135 original size:33 final size:32
Alignment explanation
Indices: 68474030--68474202 Score: 133
Period size: 33 Copynumber: 5.3 Consensus size: 32
68474020 ATAATTATTT
* *
68474030 TATTATATATTATTTATATTATTTATATTTATTATG
1 TATTAT-TATT-TATATATTATTTATA--TATTATA
* *
68474066 TATTATT-TTTCATAAATTA-TTAT-TATTTTA
1 TATTATTATTT-ATATATTATTTATATATTATA
*
68474096 CATTATTATTTATATATTATTTATATATTATA
1 TATTATTATTTATATATTATTTATATATTATA
* *
68474128 TATTTATTAATTATATATTATATAT-TATATATA
1 TA-TTATTATTTATATATTATTTATATAT-TATA
* *
68474161 TACTT-TTATATTATACATTA-TAATTATATTATA
1 TA-TTATTAT-TTATATATTATTTA-TATATTATA
68474194 TATTATTAT
1 TATTATTAT
68474203 GTCATTTTTA
Statistics
Matches: 112, Mismatches: 15, Indels: 23
0.75 0.10 0.15
Matches are distributed among these distances:
30 18 0.16
31 7 0.06
32 16 0.14
33 53 0.47
34 11 0.10
35 1 0.01
36 6 0.05
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (32 bp):
TATTATTATTTATATATTATTTATATATTATA
Found at i:68474168 original size:73 final size:73
Alignment explanation
Indices: 68474023--68474199 Score: 188
Period size: 73 Copynumber: 2.4 Consensus size: 73
68474013 ATGTTATATA
* *
68474023 ATTATTTTATTATATATTATTTATATTATT-TATATTTATTATGTATTATTTTTCATAAATTATT
1 ATTATTAT-TTATATATTATTTATA-TATTATATATTTATTATGTATTATTATTCATAAATTATT
68474087 ATTATTTTAC
64 ATTATTTTAC
*
68474097 ATTATTATTTATATATTATTTATATATTATATATTTATTA---ATTATATATT-ATATATTATAT
1 ATTATTATTTATATATTATTTATATATTATATATTTATTATGTATTAT-TATTCATAAATTAT-T
*
68474158 ATATACTTTTAT
64 AT-TA-TTTTAC
*
68474170 ATTA-TACATTATA-ATTATATTATATATTAT
1 ATTATTA-TTTATATATTAT-TTATATATTAT
68474200 TATGTCATTT
Statistics
Matches: 91, Mismatches: 5, Indels: 15
0.82 0.05 0.14
Matches are distributed among these distances:
70 13 0.14
71 6 0.07
72 13 0.14
73 52 0.57
74 7 0.08
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (73 bp):
ATTATTATTTATATATTATTTATATATTATATATTTATTATGTATTATTATTCATAAATTATTAT
TATTTTAC
Found at i:68474212 original size:44 final size:48
Alignment explanation
Indices: 68474097--68474215 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 48
68474087 ATTATTTTAC
* *
68474097 ATTAT-TATT-TATATATTATTTATATATTATATATTTATTAATTATAT
1 ATTATATATTATATATA-TATTTTTATATTATACATTTATTAATTATAT
*
68474144 ATTATATATTATATATATACTTTTATATTATACA-TTA-TAA-T-TAT
1 ATTATATATTATATATATATTTTTATATTATACATTTATTAATTATAT
*
68474188 ATTATATATTAT-TATGTCATTTTTATAT
1 ATTATATATTATATATAT-ATTTTTATAT
68474216 CCATTTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
43 4 0.06
44 24 0.38
45 1 0.02
46 3 0.05
47 8 0.12
48 18 0.28
49 6 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (48 bp):
ATTATATATTATATATATATTTTTATATTATACATTTATTAATTATAT
Found at i:68474534 original size:15 final size:14
Alignment explanation
Indices: 68474486--68474536 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
68474476 CCAATATCTT
68474486 TTATATTTTTATGTAA
1 TTAT-TTTTTAT-TAA
68474502 TTATTATTCTTA-TAA
1 TTATT-TT-TTATTAA
68474517 TTATTTTTTATTATA
1 TTATTTTTTATTA-A
68474532 TTATT
1 TTATT
68474537 AAATATCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
13 3 0.10
14 4 0.13
15 15 0.48
16 6 0.19
17 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TTATTTTTTATTAA
Found at i:68486238 original size:210 final size:210
Alignment explanation
Indices: 68485876--68486515 Score: 922
Period size: 210 Copynumber: 3.1 Consensus size: 210
68485866 CTTCATTGGG
* * * *
68485876 GCAGATCCAAAATGACAGAT-TT-TATCTCTATATTCGGCGGGGAACAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
*
68485939 ATTTGGCTTTCGCGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
*
68486004 GAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
68486069 TATGTTTACGCTGAAA
196 GATGTTTACGCTG-AA
68486085 G-AGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * *
68486149 ATTTGGCTTTCATGTGTTTACGATGAAGCAAACCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
68486214 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
68486279 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
68486294 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCAGCGGGGAGCAGATCAAAGATATAGCCG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * *
68486359 ATTTGGCTTTCACATGTTTAC-----AGCAAATCTAAGATGATTTGGCATCTTTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
* ** * * * * * *
68486419 GAACAAATCGAAGTCTGGCATCTCCACATTCAATGG-GGAGAAGATACATGGCAGATCTGATCTT
131 GAACAAATCGAAGTCTGGCATTTCCAC-TTTGATGGAAG-GCAGACACATAGCAGATCTCACCTT
* *
68486483 CAGACGATTA-GACTGAA
194 CAGATGTTTACG-CTGAA
68486500 GCAAGATCCAAGATGA
1 GC-AGATCCAAGATGA
68486516 TTTGGTATTC
Statistics
Matches: 394, Mismatches: 30, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
205 63 0.16
206 41 0.10
207 13 0.03
208 17 0.04
209 6 0.02
210 254 0.64
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:68488402 original size:30 final size:30
Alignment explanation
Indices: 68488368--68488632 Score: 80
Period size: 30 Copynumber: 9.3 Consensus size: 30
68488358 AATCTAACCC
68488368 TATATATTTATCATTATTATTATTATTATA
1 TATATATTTATCATTATTATTATTATTATA
*
68488398 TATATATTT-TACATTGTTATT-TGT-TT-TA
1 TATATATTTAT-CATTATTATTAT-TATTATA
* * *
68488426 T-T-TTTTTAACCTTATT-TT-TTATGT-TA
1 TATATATTTATCATTATTATTATTAT-TATA
*
68488452 TATA-A-TTAT-TTTATTA-TA-TATTAT-
1 TATATATTTATCATTATTATTATTATTATA
*
68488476 T-TATA-TTATTATTA-T-TTATTATGTAT-
1 TATATATTTATCATTATTATTATTAT-TATA
* *
68488502 TAT-T-TTTCATAAATTATTATTATT-TTACA
1 TATATATTT-AT-CATTATTATTATTATTATA
*
68488531 T-TATTATTTATATATTATTATTA-TATTATA
1 TATA-TATTTAT-CATTATTATTATTATTATA
* * *
68488561 TATTTATTAATTATATATTATATATTA-TATA
1 TATATATTTATCAT-TATTAT-TATTATTATA
* * *
68488592 TATACACTTTTAT-ATTATACATTATAATTATA
1 TATATA--TTTATCATTAT-TATTATTATTATA
68488624 TTATATATT
1 -TATATATT
68488633 ATTATGTCAT
Statistics
Matches: 179, Mismatches: 21, Indels: 69
0.67 0.08 0.26
Matches are distributed among these distances:
23 2 0.01
24 11 0.06
25 20 0.11
26 23 0.13
27 5 0.03
28 10 0.06
29 11 0.06
30 55 0.31
31 23 0.13
32 10 0.06
33 9 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
TATATATTTATCATTATTATTATTATTATA
Found at i:68488465 original size:18 final size:15
Alignment explanation
Indices: 68488449--68488592 Score: 111
Period size: 15 Copynumber: 9.5 Consensus size: 15
68488439 ATTTTTTATG
68488449 TTATATAATTATTTTA
1 TTATAT-ATTATTTTA
68488465 TTATATATTATTTATA
1 TTATATATTATTT-TA
68488481 TTAT-TATTA-TTTA
1 TTATATATTATTTTA
*
68488494 TTATGTATTATTTT-
1 TTATATATTATTTTA
* *
68488508 TCATAAATTATTATTA
1 TTATATATTATT-TTA
* *
68488524 TTTTACATTATTATT-
1 TTATATATTATT-TTA
*
68488539 TATATATTATTATTATA
1 T-TATA-TATTATTTTA
*
68488556 TTATATATT-TATTAA
1 TTATATATTAT-TTTA
*
68488571 TTATATATTA-TATA
1 TTATATATTATTTTA
68488585 TTATATAT
1 TTATATAT
68488593 ATACACTTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
13 6 0.06
14 27 0.26
15 33 0.31
16 32 0.30
17 7 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (15 bp):
TTATATATTATTTTA
Found at i:68488475 original size:7 final size:7
Alignment explanation
Indices: 68488449--68488634 Score: 106
Period size: 7 Copynumber: 26.6 Consensus size: 7
68488439 ATTTTTTATG
68488449 TTATATAA
1 TTATAT-A
*
68488457 TTATTTTA
1 TTA-TATA
68488465 TTATATA
1 TTATATA
68488472 TTATTTATA
1 TTA--TATA
68488481 TTAT-TA
1 TTATATA
*
68488487 TTATTTA
1 TTATATA
*
68488494 TTATGTA
1 TTATATA
*
68488501 TTAT-TT
1 TTATATA
*
68488507 TTCATAAA
1 TT-ATATA
68488515 TTAT-TA
1 TTATATA
68488521 TTAT-T-
1 TTATATA
*
68488526 TTACATTA
1 TTATA-TA
*
68488534 TTATTTA
1 TTATATA
68488541 -TATATTA
1 TTATA-TA
68488548 TTATTATA
1 TTA-TATA
68488556 TTATATA
1 TTATATA
68488563 TT-TATTAA
1 TTATA-T-A
68488571 TTATATA
1 TTATATA
68488578 TTATATA
1 TTATATA
68488585 TTATATA
1 TTATATA
*
68488592 -TATACA
1 TTATATA
*
68488598 CTTTTATA
1 -TTATATA
*
68488606 TTATACA
1 TTATATA
68488613 TTATA-A
1 TTATATA
68488619 -T-TATA
1 TTATATA
68488624 TTATATA
1 TTATATA
68488631 TTAT
1 TTAT
68488635 TATGTCATTT
Statistics
Matches: 142, Mismatches: 16, Indels: 41
0.71 0.08 0.21
Matches are distributed among these distances:
4 2 0.01
5 5 0.04
6 27 0.19
7 68 0.48
8 27 0.19
9 13 0.09
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:68488476 original size:3 final size:3
Alignment explanation
Indices: 68488456--68488588 Score: 87
Period size: 3 Copynumber: 41.7 Consensus size: 3
68488446 ATGTTATATA
68488456 ATT ATT -TT ATT ATAT ATT ATT -TAT ATT ATT ATT ATTT ATT ATGT ATT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT
* * *
68488503 ATT TTT CATAA ATT ATT ATT ATT -TT A-C ATT ATT ATTT ATAT ATT ATT
1 ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT
68488550 ATT A-T ATT ATAT ATTT ATT AATT ATAT ATT ATAT ATT AT
1 ATT ATT ATT AT-T A-TT ATT -ATT AT-T ATT AT-T ATT AT
68488589 ATATATACAC
Statistics
Matches: 106, Mismatches: 6, Indels: 36
0.72 0.04 0.24
Matches are distributed among these distances:
2 8 0.08
3 65 0.61
4 32 0.30
5 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:68488505 original size:64 final size:61
Alignment explanation
Indices: 68488456--68488635 Score: 184
Period size: 68 Copynumber: 2.8 Consensus size: 61
68488446 ATGTTATATA
* *
68488456 ATTATTTTATTATATATTATTTATATTATTATTATT-TATTATGTATTATTTTTCATAAATTATT
1 ATTATTTTA-CAT-TATTATTTATA-TATTATTATTATATTATATATTATTTTT-ATAAATTATT
* *
68488520 ATTATTTTACATTATTATTTATATATTATTATTATATTATATATTTATTAATTATATATTATAT
1 ATTATTTTACATTATTATTTATATATTATTATTATATTATATA-TTATT-TTTATAAATTAT-T
* *
68488584 ATTATATATATACACTT-TTATATTATACATTATAATTATATTATATATTATT
1 ATTAT-T-T-TACA-TTATTAT-TTATATATTATTATTATATTATATATTATT
68488636 ATGTCATTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
61 10 0.10
62 19 0.19
63 15 0.15
64 17 0.17
65 1 0.01
66 1 0.01
67 13 0.13
68 25 0.25
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (61 bp):
ATTATTTTACATTATTATTTATATATTATTATTATATTATATATTATTTTTATAAATTATT
Found at i:68488970 original size:15 final size:14
Alignment explanation
Indices: 68488924--68488972 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 14
68488914 ATATCTTTTA
68488924 TATTTTTTATGTAAT
1 TATTTTTTAT-TAAT
68488939 TATTATTCTTA-TAAT
1 TATT-TT-TTATTAAT
68488954 TATTTTTTATTATAT
1 TATTTTTTATTA-AT
68488969 TATT
1 TATT
68488973 AAATATCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.10
14 4 0.13
15 18 0.60
16 2 0.07
17 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTTTTATTAAT
Found at i:68492826 original size:29 final size:28
Alignment explanation
Indices: 68492783--68492860 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
68492773 TCATGAGATT
68492783 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
68492813 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
68492840 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
68492861 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:68493103 original size:174 final size:174
Alignment explanation
Indices: 68492813--68493140 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
68492803 AAATTGTACA
* *
68492813 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* **
68492878 TGTGCGAACCCAATATATATTTTCTATAAATTCTTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
68492943 TTATGGACAGCGGAAAAGGTAAGTGAGCGAACTTGAAATGCATG
131 TTATGGACAGCGGAAAAGGTAAGTGAGCGAACTTGAAATGCATG
*
68492987 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
68493052 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
*
68493117 TTTTGGACAGCGGAAAAGGTAAGT
131 TTATGGACAGCGGAAAAGGTAAGT
68493141 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
TTATGGACAGCGGAAAAGGTAAGTGAGCGAACTTGAAATGCATG
Found at i:68500978 original size:29 final size:29
Alignment explanation
Indices: 68500936--68501006 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
68500926 CATGAGATTG
* * *
68500936 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAGTATACA
**
68500965 GCACTAAGTGTGCGAGTTTAAAGTATATG
1 GCACTAAGTGTGCGAGTTTAAAGTATACA
68500994 GCACTAAGTGTGC
1 GCACTAAGTGTGC
68501007 ACGGTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAGTATACA
Found at i:68501230 original size:174 final size:174
Alignment explanation
Indices: 68500965--68501292 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
68500955 AAATTGTACA
* *
68500965 GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCACGGTTGATTACTAAACACTATG
**
68501030 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
68501095 TTATGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTATGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
68501139 GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCGCGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCACGGTTGATTACTAAACACTATG
68501204 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
*
68501269 TTTTGGACAGCGGAAAAGGTAAGT
131 TTATGGACAGCGGAAAAGGTAAGT
68501293 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTATATGGCACTAAGTGTGCACGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTAAA
TTATGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:68505740 original size:19 final size:20
Alignment explanation
Indices: 68505718--68505764 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
68505708 TTTTTTATTA
*
68505718 TTTTAAAA-TAATTTTAAAT
1 TTTTAAAAGTAATTTTAAAG
*
68505737 TTTTAAAAGTAATTTTTAAG
1 TTTTAAAAGTAATTTTAAAG
68505757 TTTTAAAA
1 TTTTAAAA
68505765 AGTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTAAAAGTAATTTTAAAG
Found at i:68505755 original size:21 final size:21
Alignment explanation
Indices: 68505718--68505772 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
68505708 TTTTTTATTA
68505718 TTTTAAAA-TAA-TTTTAAAT
1 TTTTAAAAGTAATTTTTAAAT
*
68505737 TTTTAAAAGTAATTTTTAAGT
1 TTTTAAAAGTAATTTTTAAAT
*
68505758 TTTAAAAAGTTAATT
1 TTTTAAAAG-TAATT
68505773 AAATGCTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 8 0.26
20 3 0.10
21 15 0.48
22 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTAAAAGTAATTTTTAAAT
Found at i:68506046 original size:16 final size:16
Alignment explanation
Indices: 68506021--68506059 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
68506011 AAGAGAAGGG
68506021 AAAC-TTTTTAGTTAGA
1 AAACTTTTTTA-TTAGA
68506037 AAA-TTTTTTATTAGA
1 AAACTTTTTTATTAGA
68506052 AAACTTTT
1 AAACTTTT
68506060 ACTCATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (16 bp):
AAACTTTTTTATTAGA
Found at i:68506799 original size:106 final size:106
Alignment explanation
Indices: 68506588--68506800 Score: 275
Period size: 106 Copynumber: 2.0 Consensus size: 106
68506578 AAATATCGCT
* * * *
68506588 AATTAAATCAAATTTTATGAAAAACGCCTTCGTATTTCAAGTTAATCGGGAAGAAAATCATATCT
1 AATTAAATAAAATGTTATGAAAAACGCCTTCGTATTTCAAGTTAATCAGGAAGAAAATCATACCT
* * * *
68506653 CGTAAGTTAGTGTACGATGTCTCAAATTCCCTAAATTAAGA
66 AGTAAGTTAGGGCACGATGTCTCAAATTCCCTAAAATAAGA
* * * * ** *
68506694 AATTAAATAAAATGTTATGAAGAATGTCTTTGTATTTCAAGTTAATCAGGACTAAAATCATGCCT
1 AATTAAATAAAATGTTATGAAAAACGCCTTCGTATTTCAAGTTAATCAGGAAGAAAATCATACCT
68506759 AGTAAGTTAGGGCACGATGTCTCAAATT-CCTAAAAATAAGA
66 AGTAAGTTAGGGCACGATGTCTCAAATTCCCT-AAAATAAGA
68506800 A
1 A
68506801 TACTCTTTTT
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 3 0.03
106 88 0.97
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (106 bp):
AATTAAATAAAATGTTATGAAAAACGCCTTCGTATTTCAAGTTAATCAGGAAGAAAATCATACCT
AGTAAGTTAGGGCACGATGTCTCAAATTCCCTAAAATAAGA
Found at i:68509811 original size:28 final size:28
Alignment explanation
Indices: 68509790--68509848 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
68509780 CAATTTCTTG
68509790 TTCTCGATTTTTTATTTTCAATTGTCAA
1 TTCTCGATTTTTTATTTTCAATTGTCAA
* * *
68509818 TTCTCGATTTTTTATTCTAAATTCTCAA
1 TTCTCGATTTTTTATTTTCAATTGTCAA
68509846 TTC
1 TTC
68509849 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.05, T:0.56
Consensus pattern (28 bp):
TTCTCGATTTTTTATTTTCAATTGTCAA
Found at i:68511628 original size:11 final size:12
Alignment explanation
Indices: 68511612--68511644 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
68511602 GGACCCAAGA
68511612 TGAATTAATTT-
1 TGAATTAATTTG
*
68511623 TGAATTCATTTG
1 TGAATTAATTTG
68511635 TGAATTAATT
1 TGAATTAATT
68511645 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:68513262 original size:44 final size:44
Alignment explanation
Indices: 68513187--68513285 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
68513177 TTTAACATCT
*
68513187 GCACACTTAGTGCTTTAAAAATTAGCCGAAGCTATAATAATTTC
1 GCACACTTAGTACTTTAAAAATTAGCCGAAGCTATAATAATTTC
* * * *
68513231 GCACAATTAGTACTTTAAAGATTATCTGAAGCTATAATAATTTC
1 GCACACTTAGTACTTTAAAAATTAGCCGAAGCTATAATAATTTC
*
68513275 ACACACTTAGT
1 GCACACTTAGT
68513286 GTCATCTCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (44 bp):
GCACACTTAGTACTTTAAAAATTAGCCGAAGCTATAATAATTTC
Found at i:68514969 original size:20 final size:20
Alignment explanation
Indices: 68514941--68514979 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
68514931 TAGAGACTTT
68514941 AACTAAAAAACTCGTCGAAA
1 AACTAAAAAACTCGTCGAAA
*
68514961 AACTTAAAAACTCGTCGAA
1 AACTAAAAAACTCGTCGAA
68514980 TCAAGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (20 bp):
AACTAAAAAACTCGTCGAAA
Found at i:68515541 original size:25 final size:25
Alignment explanation
Indices: 68515494--68515541 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
68515484 TTTATTTTAT
* *
68515494 TTTATTTAATATTAATATTAATATA
1 TTTATTTAATATTAAAATAAATATA
68515519 TTTATTTAATATTAAAATAAATA
1 TTTATTTAATATTAAAATAAATA
68515542 ATAATCTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTATTTAATATTAAAATAAATATA
Found at i:68518251 original size:23 final size:21
Alignment explanation
Indices: 68518225--68518265 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
68518215 AATTAAATTA
68518225 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
68518246 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
68518266 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:68518305 original size:37 final size:36
Alignment explanation
Indices: 68518249--68518428 Score: 96
Period size: 37 Copynumber: 4.7 Consensus size: 36
68518239 TTAGTATTAT
* * *
68518249 ATATTATGATTTTAGTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTATTAAATT-ATATAAGAATATTTA
*** *
68518286 ATATTAAGAATTTATTAAATTATAT-ATTTTATTAAATT
1 ATATTAAGAATTTATTAAATTATATAAGAATATT---TA
* ***
68518324 ATATTTAATAATAATTATTTAAATTATAT-TTTATATTATTA
1 ATA-TTAAGAAT--TTA-TTAAATTATATAAGAATA-T-TTA
* *
68518365 TATATTATG-ATTTAGTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTATTAAATT-ATATAAGAATATTTA
*
68518402 ATATTAATAATTTTATTAAATTATATA
1 ATATTAAGAA-TTTATTAAATTATATA
68518429 TTTAATTAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
35 5 0.05
36 10 0.09
37 33 0.30
38 22 0.20
39 10 0.09
40 2 0.02
41 7 0.06
42 18 0.17
43 1 0.01
44 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
ATATTAAGAATTTATTAAATTATATAAGAATATTTA
Found at i:68518307 original size:16 final size:16
Alignment explanation
Indices: 68518274--68518324 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
68518264 TAAATTCATA
*
68518274 TAAGAATAT-TTAATAT
1 TAAGAATTTATTAA-AT
68518290 TAAGAATTTATTAAAT
1 TAAGAATTTATTAAAT
* *
68518306 TATATATTTTATTAAAT
1 TA-AGAATTTATTAAAT
68518323 TA
1 TA
68518325 TATTTAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
TAAGAATTTATTAAAT
Found at i:68518449 original size:15 final size:17
Alignment explanation
Indices: 68518295--68518444 Score: 61
Period size: 17 Copynumber: 9.0 Consensus size: 17
68518285 AATATTAAGA
68518295 ATTT-ATTAAATTATAT
1 ATTTAATTAAATTATAT
*
68518311 ATTTTATTAAA-T-TAT
1 ATTTAATTAAATTATAT
*
68518326 ATTTAA-T-AATAAT-T
1 ATTTAATTAAATTATAT
* *
68518340 ATTTAAATTATATTTTAT
1 ATTT-AATTAAATTATAT
*
68518358 A-TT-ATTATATATTAT-G
1 ATTTAATTA-A-ATTATAT
*
68518374 ATTT-AGTAAATTCATAT
1 ATTTAATTAAATT-ATAT
** *
68518391 AAGAATATTTAATATTA-AT
1 -A-TTTAATTAA-ATTATAT
*
68518410 AATTTTATTAAATTATAT
1 -ATTTAATTAAATTATAT
68518428 ATTTAATTAAATTATAT
1 ATTTAATTAAATTATAT
68518445 TTAATAATAA
Statistics
Matches: 98, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
13 2 0.02
14 6 0.06
15 18 0.18
16 10 0.10
17 40 0.41
18 10 0.10
19 5 0.05
20 4 0.04
21 3 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAATTATAT
Found at i:68518487 original size:43 final size:42
Alignment explanation
Indices: 68518406--68518607 Score: 122
Period size: 43 Copynumber: 4.9 Consensus size: 42
68518396 TATTTAATAT
* * * *
68518406 TAATAATTTTATTAAATTATATATTTAATTA-AATTATATTTAA
1 TAATAATTATGTTAAATTATAT-TTTAAGTATCA-TATATTTAA
* *
68518449 TAATAATTATGTTAAATTATCTTTTATAGCATCATATA-TT-A
1 TAATAATTATGTTAAATTATATTTTA-AGTATCATATATTTAA
* * * *
68518490 TGAT--TTGA-G-TAAATTCATA---TAAGAAT-AT-TAATTAT
1 TAATAATT-ATGTTAAATT-ATATTTTAAGTATCATATATTTAA
* * * * *
68518525 TAAGAATTTTATTAAATTATATATTTAATTATAATATATTTAA
1 TAATAATTATGTTAAATTATAT-TTTAAGTATCATATATTTAA
68518568 TAATAATTATGTTAAATTATATTTTATAGTATCATATATT
1 TAATAATTATGTTAAATTATATTTTA-AGTATCATATATT
68518608 ATGCTTTGAG
Statistics
Matches: 119, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
33 2 0.02
34 4 0.03
35 6 0.05
36 2 0.02
37 5 0.04
38 12 0.10
39 5 0.04
40 1 0.01
41 9 0.08
42 12 0.10
43 60 0.50
44 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (42 bp):
TAATAATTATGTTAAATTATATTTTAAGTATCATATATTTAA
Found at i:68518540 original size:119 final size:119
Alignment explanation
Indices: 68518240--68518705 Score: 737
Period size: 119 Copynumber: 3.9 Consensus size: 119
68518230 ATTATGATTT
* *
68518240 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA-TTTATTAA
1 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
68518304 ATTATATATTTTATTA-AATTATATTTAATAATAATTAT-TTAAATTATATTTTA
66 ATTATATATTTAATTATAA-TATATTTAATAATAATTATGTTAAATTATATTTTA
* * *
68518357 TATTATTATATATTATGATTT-AGTAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
68518421 ATTATATATTTAATTA-AATTATATTTAATAATAATTATGTTAAATTATCTTTTA
66 ATTATATATTTAATTATAA-TATATTTAATAATAATTATGTTAAATTATATTTTA
*
68518475 TAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTA
1 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTA
68518539 AATTATATATTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTA
65 AATTATATATTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTA
* * *
68518594 TAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
*
68518659 ATTGTATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATTATATA-TTTAATTATAATATATTTAATAATAATTATG-TTAAAT
68518706 ATGATTAAAT
Statistics
Matches: 327, Mismatches: 14, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
116 33 0.10
117 65 0.20
118 36 0.11
119 152 0.46
120 35 0.11
121 6 0.02
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTA
Found at i:68518563 original size:15 final size:15
Alignment explanation
Indices: 68518543--68518588 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
68518533 TTATTAAATT
68518543 ATATATTTAATTATA
1 ATATATTTAATTATA
*
68518558 ATATATTTAATAATA
1 ATATATTTAATTATA
68518573 AT-TATGTTAAATTATA
1 ATATAT-TT-AATTATA
68518589 TTTTATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 18 0.67
16 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:68518688 original size:15 final size:16
Alignment explanation
Indices: 68518663--68518703 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
68518653 TATTAAATTG
*
68518663 TATATTTTAATTATAA
1 TATATTTTAATAATAA
68518679 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
68518694 T-TATGTTTAA
1 TATAT-TTTAA
68518704 ATATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:68518874 original size:39 final size:40
Alignment explanation
Indices: 68518831--68518935 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 40
68518821 TTCCATTATG
68518831 CTATTACACCTCTATTCCATTCAACCAAACACA-AGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACA-ATAGATTTA
* * *
68518870 CTATTACGCCTCTATTCCATTACATTCAACCAAACAATTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACAATAGATTTA
68518915 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
68518936 ACGCCTCTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
43 1 0.02
44 17 0.31
45 17 0.31
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACAATAGATTTA
Found at i:68518929 original size:45 final size:44
Alignment explanation
Indices: 68518829--68518937 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
68518819 TTTTCCATTA
68518829 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * *
68518868 TACTATTACGCCTCTATTCCATTACATTCAACCAAACA-ATTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACA-AGA-T
68518913 TGCTATTACACCTCTATTCCATTAC
1 TGCTATTACACCTCTATTCCATTAC
68518938 GCCTCTAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
43 1 0.02
44 16 0.28
45 24 0.41
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:68518942 original size:16 final size:16
Alignment explanation
Indices: 68518917--68518965 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
68518907 TTGATTTGCT
*
68518917 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
68518933 ATTACGCCTCTAATCC
1 ATTACGCCTCTATTCC
68518949 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
68518965 A
1 A
68518966 ATACAGCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.24, C:0.37, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:68522617 original size:50 final size:49
Alignment explanation
Indices: 68522550--68522682 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 49
68522540 GAAATGTGTC
* **
68522550 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCAT-GAAT-ATGTGAGAGCT
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCATCG-ATGA--TGAGAGCT
* * *
68522600 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCTCGGTGATGATAGCT
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCATCGATGATGAGAGCT
68522649 AGTGTAAGACCACGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCA
68522683 ACTTACCCTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 40 0.54
50 32 0.43
51 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCACGTCTGGGACATGGCATCGGCATCGATGATGAGAGCT
Found at i:68528393 original size:46 final size:46
Alignment explanation
Indices: 68528247--68528420 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
68528237 GTTATTGTGG
* * * *
68528247 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCTTGA-GACGAGA
* ** *
68528293 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGTATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGGCCTTGAGACGAGA
* * *
68528341 GCTAGTGTAAGACATGTTTGAGACATGCATCGACCTTGGGACGTA-A
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCTTGAGACG-AGA
*
68528387 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGC
68528421 TACGAAATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 55 0.52
47 27 0.25
48 23 0.22
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCTTGAGACGAGA
Found at i:68530337 original size:20 final size:20
Alignment explanation
Indices: 68530312--68530353 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
68530302 ATAGGAGGTA
68530312 ATTTCGTTTTTAAATAAAAT
1 ATTTCGTTTTTAAATAAAAT
68530332 ATTTCGTTTTTAAATAAAAT
1 ATTTCGTTTTTAAATAAAAT
68530352 AT
1 AT
68530354 GATTTACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTCGTTTTTAAATAAAAT
Found at i:68533021 original size:49 final size:49
Alignment explanation
Indices: 68532964--68533086 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
68532954 TGTGTCACTA
* * *
68532964 TAAGACCTGTCTAGGACATGGCATTGACAC-CGATAGACGAGAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGACGAAAGCCAGTG
* * * *
68533013 TAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTCGATAGACGAAAGCCAGTG
*
68533062 TAAGACCTGTTTGGGACATGGCATC
1 TAAGACCTGTCTGGGACATGGCATC
68533087 AACTTTGACG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGACCTCGATAGACGAAAGCCAGTG
Found at i:68554071 original size:11 final size:11
Alignment explanation
Indices: 68554055--68554083 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
68554045 CCGTTTTGTC
68554055 CGTTTTTGGCT
1 CGTTTTTGGCT
68554066 CGTTTTTGGCT
1 CGTTTTTGGCT
68554077 C-TTTTTG
1 CGTTTTTG
68554084 ACTCTTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.00, C:0.17, G:0.24, T:0.59
Consensus pattern (11 bp):
CGTTTTTGGCT
Found at i:68555955 original size:6 final size:5
Alignment explanation
Indices: 68555918--68556007 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
68555908 TATGTCTTTC
* *
68555918 AAAAT AAAAT AATAA- AATAAT AAAATT GAAAT GAAAAT AAAAAT CAAAAG
1 AAAAT AAAAT AA-AAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT
*
68555968 AAAA- AGAAAA ATAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT A-AAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAA
68556008 ACAATTAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
4 1 0.01
5 45 0.62
6 26 0.36
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:68556021 original size:33 final size:33
Alignment explanation
Indices: 68555918--68556022 Score: 103
Period size: 33 Copynumber: 3.2 Consensus size: 33
68555908 TATGTCTTTC
*
68555918 AAAATAAAAT--AATAAAATAATAAAATTGAAAT
1 AAAATAAAATAAAATAAAATAAAAAAATT-AAAT
* *
68555950 GAAAATAAAAATCAAAAGAAAA-AGAAAAA-TAAAT
1 -AAAAT-AAAAT-AAAATAAAATAAAAAAATTAAAT
68555984 AAAATAAAATAAAATAAAATAAAAACAATTAAA-
1 AAAATAAAATAAAATAAAATAAAAA-AATTAAAT
68556017 AAAATA
1 AAAATA
68556023 GGAGGATTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
31 8 0.13
32 9 0.15
33 18 0.30
34 13 0.22
35 1 0.02
36 5 0.08
37 6 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (33 bp):
AAAATAAAATAAAATAAAATAAAAAAATTAAAT
Found at i:68556594 original size:22 final size:23
Alignment explanation
Indices: 68556569--68556611 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
68556559 TTGTCCCTAG
68556569 CACGCCCGTGGTTTT-CTATCCC
1 CACGCCCGTGGTTTTCCTATCCC
*
68556591 CACGCCCGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
68556612 AAGTTGTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.09, C:0.40, G:0.16, T:0.35
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCC
Found at i:68557942 original size:55 final size:53
Alignment explanation
Indices: 68557869--68558026 Score: 176
Period size: 55 Copynumber: 3.0 Consensus size: 53
68557859 AATTGGTTTC
* * * *
68557869 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-A
* * * * *
68557924 TAAGGCAAAGGTCCCATGTAAGATCATGCCAAGGCATGGCATTGGTGAA-TTCA
1 TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGGT-AAGTTCA
* *
68557977 TAAGGCAATGATACCATATAAGACCATGTCAAGACATGGCA-TGGTAAGTT
1 TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT
68558027 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
51 2 0.02
52 6 0.07
53 35 0.41
54 1 0.01
55 39 0.46
56 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (53 bp):
TAAGGCAAAGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCA
Found at i:68558286 original size:16 final size:16
Alignment explanation
Indices: 68558265--68558295 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68558255 ATAAATTTGA
68558265 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
68558281 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
68558296 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:68565578 original size:53 final size:53
Alignment explanation
Indices: 68565395--68565649 Score: 202
Period size: 55 Copynumber: 4.8 Consensus size: 53
68565385 ATTAGGGTTT
* * * * *
68565395 AAGGATACCGTGTGAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
68565450 AAGGAAATCATGTAAGACCATGTCAAGACGTGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* *
68565505 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAA-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTCATAAGGC
* * *
68565558 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* ** * *
68565607 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
68565650 GTACCCGCGT
Statistics
Matches: 165, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 10 0.06
53 41 0.25
54 8 0.05
55 61 0.37
56 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:68570300 original size:21 final size:22
Alignment explanation
Indices: 68570274--68570317 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
68570264 GGGTTTGTTT
*
68570274 TAATTAACTAA-TTATTTAAAG
1 TAATTAACTAATTTAATTAAAG
68570295 TAATTAACTAATTTAATTAAAG
1 TAATTAACTAATTTAATTAAAG
68570317 T
1 T
68570318 GAAGAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATTAACTAATTTAATTAAAG
Found at i:68571376 original size:10 final size:10
Alignment explanation
Indices: 68571344--68571377 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
68571334 CGTTTTGTCC
68571344 CTTTTTGGCT
1 CTTTTTGGCT
68571354 CGTTTTTGGCT
1 C-TTTTTGGCT
*
68571365 CTTTTTGACT
1 CTTTTTGGCT
68571375 CTT
1 CTT
68571378 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:68578563 original size:3 final size:3
Alignment explanation
Indices: 68578557--68578660 Score: 77
Period size: 3 Copynumber: 34.7 Consensus size: 3
68578547 AAGGGAAAAT
* ** * * * *
68578557 ATA ATA ATA GTA ACG ATA ATA AGA ATA ATA ACA ATA ATA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
68578605 AAA ATA AAA ATA ATTA A-A A-A AGTA ATA ATA ATA ATA ACA ATA GTA
1 ATA ATA ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
68578650 ATA ATA ATA AT
1 ATA ATA ATA AT
68578661 GTTAAATAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
2 4 0.05
3 68 0.88
4 5 0.06
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:68579822 original size:26 final size:26
Alignment explanation
Indices: 68579792--68579842 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
68579782 TTTGGGCCCT
*
68579792 TTTGGGCTTAGGGTTTAGTTGGGTTG
1 TTTGGGCTTAGGGTTTAGTTAGGTTG
* *
68579818 TTTGGGGTTTGGGTTTAGTTAGGTT
1 TTTGGGCTTAGGGTTTAGTTAGGTT
68579843 TTGGGTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.08, C:0.02, G:0.41, T:0.49
Consensus pattern (26 bp):
TTTGGGCTTAGGGTTTAGTTAGGTTG
Found at i:68580612 original size:45 final size:44
Alignment explanation
Indices: 68580561--68580657 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
68580551 GTTCTATTGT
* *
68580561 AACTTCAGGGAAATAAGATTAGCTGCCTTCAGTCTGCTCCGCTGC
1 AACTTCAGGGAAATAAGACT-GCTGCCTTCAGTCTGCTCCACTGC
* * * * *
68580606 AACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGTTCCACTGC
1 AACTTCAGGGAAATAAGACTGCTGCCTTCAGTCTGCTCCACTGC
68580650 AACTTCAG
1 AACTTCAG
68580658 AAAGATAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 28 0.62
45 17 0.38
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (44 bp):
AACTTCAGGGAAATAAGACTGCTGCCTTCAGTCTGCTCCACTGC
Found at i:68580649 original size:143 final size:143
Alignment explanation
Indices: 68580253--68580959 Score: 839
Period size: 143 Copynumber: 5.0 Consensus size: 143
68580243 GATAGGATTA
* * * * * ** * *
68580253 GTAGCTTCAATCTGCTCCACTGCGATTTCAGGGAGATGGGATTTGCTGCCTTCAGTCTGCTCCGC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
* * * * * *
68580318 TGTAACTTTAGGGAGATGAGGCTGGCGGCTTCAATCTACTCCACTGCAGCTTCAGGAAGATAAGA
66 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
*
68580383 TTCACCATAATTT
131 TCCACCATAATTT
* * * * *
68580396 ATAGCTTTAATATGTTCCACTACAA-TGTCAGGGAAA-AAAATTTGCTGTCTTCAGTCTGCTCCG
1 GTAGCTTTAATCTGTTCCACTGCAACT-TCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCG
* * *
68580459 CTGCAACTTCATGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATAAG
65 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
68580524 ATCCACCATAATTT
130 ATCCACCATAATTT
* * * *
68580538 GTAGCTTTAATCTGTTCTATTGTAACTTCAGGGAAATAAGATTAGCTGCCTTCAGTCTGCTCCGC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
* * *
68580603 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGTTCCACTGCAACTTCAGAAAGATAAGA
66 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
*
68580668 TTCACCATAATTT
131 TCCACCATAATTT
* * * * * * *
68580681 GTAGCTTTAATCTATTCCACTGCGATTTTAGGGAAATAAGATTCA-CTGTCTTCAGTTTGTTTCG
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT-AGCTGTCTTCAGTCTGCTCCG
* * *
68580745 CTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATTTGCTCCACTGCAACTTCAAGAAGATAAG
65 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
*
68580810 ATCCGCCATAATTT
130 ATCCACCATAATTT
* * * * *
68580824 GTACCTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTGGC-GTCTTC-GATCTACTCC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTAGCTGTCTTCAG-TCTGCTCC
* * * * * * * *
68580887 ACTGCAACTTTAGGGAGATAAGACTAGTTGCTTCAATATGCTCCACTGCAACTTCAAGAAGACAA
64 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
68580952 GATCCACC
129 GATCCACC
68580960 GTCTTCGATC
Statistics
Matches: 482, Mismatches: 75, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
142 122 0.25
143 356 0.74
144 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
TCCACCATAATTT
Found at i:68580793 original size:44 final size:44
Alignment explanation
Indices: 68580745--68580953 Score: 141
Period size: 44 Copynumber: 4.5 Consensus size: 44
68580735 GTTTGTTTCG
* * *
68580745 CTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATTTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTTCAATCTGCTCCA
* ** *
68580789 CTGCAACTTCAAGAAGATAAGATCCGCCATAATTTGTACCTTCAATCTGTTCCA
1 CTGCAACTTCAGGAAGATAAGA-----C-T-A---GTGGCTTCAATCTGCTCCA
* * * * *
68580843 CTGCAACTTCAGGAAAATAAGATTTG-GCGTCTTCGATCTACTCCA
1 CTGCAACTTCAGGAAGATAAGACTAGTG-G-CTTCAATCTGCTCCA
* * * *
68580888 CTGCAACTTTAGGGAGATAAGACTAGTTGCTTCAATATGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTAGTGGCTTCAATCTGCTCCA
* *
68580932 CTGCAACTTCAAGAAGACAAGA
1 CTGCAACTTCAGGAAGATAAGA
68580954 TCCACCGTCT
Statistics
Matches: 123, Mismatches: 29, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
44 50 0.41
45 34 0.28
48 1 0.01
49 1 0.01
50 1 0.01
51 1 0.01
54 35 0.28
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CTGCAACTTCAGGAAGATAAGACTAGTGGCTTCAATCTGCTCCA
Found at i:68580890 original size:45 final size:45
Alignment explanation
Indices: 68580839--68580987 Score: 131
Period size: 45 Copynumber: 3.3 Consensus size: 45
68580829 TTCAATCTGT
* * *
68580839 TCCACTGCAACTTCAGGAAAATAAGATTTGGCGTCTTCGATCTAC
1 TCCACTGCAACTTCAGGAAGATAAGATTAGCCGTCTTCGATCTAC
* * * ** * * *
68580884 TCCACTGCAACTTTAGGGAGATAAGACTAGTTG-CTTCAATATGC
1 TCCACTGCAACTTCAGGAAGATAAGATTAGCCGTCTTCGATCTAC
* * *
68580928 TCCACTGCAACTTCAAGAAGACAAGATCCA-CCGTCTTCGATCTAC
1 TCCACTGCAACTTCAGGAAGATAAGAT-TAGCCGTCTTCGATCTAC
* *
68580973 TCCATTGGAACTTCA
1 TCCACTGCAACTTCA
68580988 AAGAGATAAG
Statistics
Matches: 79, Mismatches: 23, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
44 31 0.39
45 48 0.61
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGAAGATAAGATTAGCCGTCTTCGATCTAC
Found at i:68580994 original size:89 final size:89
Alignment explanation
Indices: 68580828--68580998 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 89
68580818 TAATTTGTAC
* * * * ****
68580828 CTTCAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTTGGCGTCTTCGATCTACTCCACTGCA
1 CTTCAATATGCTCCACTGCAACTTCAAGAAAACAAGATCCACCGTCTTCGATCTACTCCACTGCA
* **
68580893 ACTTTAGGGAGATAAGACTAGTTG
66 ACTTCAAAGAGATAAGACTAGTTG
* * *
68580917 CTTCAATATGCTCCACTGCAACTTCAAGAAGACAAGATCCACCGTCTTCGATCTACTCCATTGGA
1 CTTCAATATGCTCCACTGCAACTTCAAGAAAACAAGATCCACCGTCTTCGATCTACTCCACTGCA
68580982 ACTTCAAAGAGATAAGA
66 ACTTCAAAGAGATAAGA
68580999 TCTACAACCT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (89 bp):
CTTCAATATGCTCCACTGCAACTTCAAGAAAACAAGATCCACCGTCTTCGATCTACTCCACTGCA
ACTTCAAAGAGATAAGACTAGTTG
Found at i:68582118 original size:19 final size:19
Alignment explanation
Indices: 68582096--68582179 Score: 88
Period size: 19 Copynumber: 4.5 Consensus size: 19
68582086 CGCCTTGGCC
68582096 TCTTCTTTTTCTTTTCTTT
1 TCTTCTTTTTCTTTTCTTT
*
68582115 TCTT-TTTTCTTTTTTCTTT
1 TCTTCTTTT-TCTTTTCTTT
68582134 TCTT-TTTTTCTTTTTCTTT
1 TCTTCTTTTTC-TTTTCTTT
*
68582153 T-TTC-TTTTCTATTCTTT
1 TCTTCTTTTTCTTTTCTTT
68582170 T-TTCTCTTTT
1 TCTTCT-TTTT
68582180 TTGTTTTACC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
17 11 0.19
18 12 0.21
19 34 0.60
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (19 bp):
TCTTCTTTTTCTTTTCTTT
Found at i:68582124 original size:7 final size:7
Alignment explanation
Indices: 68582098--68582208 Score: 93
Period size: 7 Copynumber: 15.3 Consensus size: 7
68582088 CCTTGGCCTC
68582098 TTCTTTT
1 TTCTTTT
*
68582105 TCTTTTCTT
1 T-TCTT-TT
68582114 TTCTTTT
1 TTCTTTT
68582121 TTCTTTT
1 TTCTTTT
68582128 TTCTTTT
1 TTCTTTT
*
68582135 CT-TTTT
1 TTCTTTT
68582141 TTC-TTT
1 TTCTTTT
68582147 TTCTTTT
1 TTCTTTT
68582154 TTCTTTTCT
1 TTC-TTT-T
68582163 ATTCTTTT
1 -TTCTTTT
68582171 TTCTCTTT
1 TTCT-TTT
68582179 TT-TGTTT
1 TTCT-TTT
* *
68582186 TACCTTT
1 TTCTTTT
68582193 TTCTTTT
1 TTCTTTT
*
68582200 TACTTTT
1 TTCTTTT
68582207 TT
1 TT
68582209 TAAGTGAAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
6 11 0.13
7 48 0.57
8 15 0.18
9 7 0.08
10 3 0.04
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.80
Consensus pattern (7 bp):
TTCTTTT
Found at i:68582124 original size:12 final size:12
Alignment explanation
Indices: 68582101--68582199 Score: 103
Period size: 13 Copynumber: 7.8 Consensus size: 12
68582091 TGGCCTCTTC
68582101 TTTTTCTTTTCT
1 TTTTTCTTTTCT
68582113 TTTCTT-TTTTCT
1 TTT-TTCTTTTCT
68582125 TTTTTCTTTTCTT
1 TTTTTCTTTTC-T
68582138 TTTTTCTTTTTCT
1 TTTTTC-TTTTCT
68582151 TTTTTCTTTTCT
1 TTTTTCTTTTCT
68582163 ATTCTTT-TTTCTCT
1 -TT-TTTCTTT-TCT
* *
68582177 TTTTTGTTTTACC
1 TTTTTCTTTT-CT
68582190 TTTTTCTTTT
1 TTTTTCTTTT
68582200 TACTTTTTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
11 2 0.03
12 27 0.36
13 36 0.47
14 11 0.14
ACGTcount: A:0.02, C:0.16, G:0.01, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:68582141 original size:26 final size:25
Alignment explanation
Indices: 68582101--68582208 Score: 119
Period size: 26 Copynumber: 4.2 Consensus size: 25
68582091 TGGCCTCTTC
*
68582101 TTTTTCTTTTC-TTTTCTTTTTTCT
1 TTTTTCTTTTCTTTTTTTTTTTTCT
68582125 TTTTTCTTTTCTTTTTTTCTTTTTCT
1 TTTTTCTTTTCTTTTTTT-TTTTTCT
* *
68582151 TTTTTCTTTTCTATTCTTTTTTCTCT
1 TTTTTCTTTTCT-TTTTTTTTTTTCT
* * *
68582177 TTTTTGTTTTACCTTTTTCTTTTTACT
1 TTTTTCTTTT--CTTTTTTTTTTTTCT
68582204 TTTTT
1 TTTTT
68582209 TAAGTGAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
24 11 0.15
25 5 0.07
26 34 0.48
27 19 0.27
28 2 0.03
ACGTcount: A:0.03, C:0.16, G:0.01, T:0.81
Consensus pattern (25 bp):
TTTTTCTTTTCTTTTTTTTTTTTCT
Found at i:68586513 original size:18 final size:18
Alignment explanation
Indices: 68586490--68586527 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
68586480 GATTAATTAA
68586490 TGTCATAATGTCAAAAAT
1 TGTCATAATGTCAAAAAT
68586508 TGTCATAATGTCAAAAAT
1 TGTCATAATGTCAAAAAT
68586526 TG
1 TG
68586528 ACAGTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTCATAATGTCAAAAAT
Found at i:68588705 original size:39 final size:40
Alignment explanation
Indices: 68588455--68588717 Score: 246
Period size: 40 Copynumber: 6.6 Consensus size: 40
68588445 TTGAATGCTG
* * * * * *
68588455 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
68588495 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * * *
68588534 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATATTATA
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
68588575 TCCGGGTTAAGTCCCGAAGGCCTTCGTGCGAGATATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
68588615 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
68588655 TCCAGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
68588694 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
68588718 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 36 0.19
40 148 0.76
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:68590565 original size:3 final size:3
Alignment explanation
Indices: 68590559--68590635 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
68590549 AAGGGAAAAT
* * * * * * *
68590559 ATA ATA ATA GTA ACA ATA ATA AGA ATA ATA ACA A-A AAA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
68590606 ATA ATA ATA ATA ATA ACA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
68590636 CTGTTAATTA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:68590603 original size:32 final size:32
Alignment explanation
Indices: 68590564--68590624 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
68590554 AAAATATAAT
68590564 AATAGTAACAATAATAAGAATAATAACAAAAA
1 AATAGTAACAATAATAAGAATAATAACAAAAA
*
68590596 AATAGTAACAATAATAATAATAATAACAA
1 AATAGTAACAATAATAAGAATAATAACAA
68590625 TACTAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (32 bp):
AATAGTAACAATAATAAGAATAATAACAAAAA
Found at i:68591803 original size:26 final size:24
Alignment explanation
Indices: 68591773--68591831 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
68591763 TTTTGGGCCC
*
68591773 TTTTGGGCTTAGGGTTTAGTTAGGT
1 TTTTGGGCTTAGGGTTTAGTT-GGG
* *
68591798 TGTTTGGGGTTTGGGTTTAGTTGGG
1 T-TTTGGGCTTAGGGTTTAGTTGGG
68591823 TTTTGGGCT
1 TTTTGGGCT
68591832 GTTGTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.24
25 4 0.14
26 18 0.62
ACGTcount: A:0.07, C:0.03, G:0.41, T:0.49
Consensus pattern (24 bp):
TTTTGGGCTTAGGGTTTAGTTGGG
Found at i:68592873 original size:12 final size:12
Alignment explanation
Indices: 68592856--68592896 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
68592846 TCCATTTTTA
68592856 TTTTATTTTACT
1 TTTTATTTTACT
**
68592868 TTTTATTTTGTT
1 TTTTATTTTACT
*
68592880 TTTTAGTTTACT
1 TTTTATTTTACT
68592892 TTTTA
1 TTTTA
68592897 CATTCTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTATTTTACT
Found at i:68600079 original size:24 final size:24
Alignment explanation
Indices: 68600047--68600094 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
68600037 TGCTGACTTA
68600047 GGTACAATTCACTTATTTTTCTAT
1 GGTACAATTCACTTATTTTTCTAT
68600071 GGTACAATTCACTTATTTTTCTAT
1 GGTACAATTCACTTATTTTTCTAT
68600095 CTCTGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
GGTACAATTCACTTATTTTTCTAT
Found at i:68613090 original size:40 final size:39
Alignment explanation
Indices: 68613045--68613188 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 39
68613035 GCTCAATTGT
* * *
68613045 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCAC-AATGC
*
68613085 CTTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAA-TGC
68613125 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCAC-AATGC
68613165 CTTCGGGTCTTAGCCCGGATATAT
1 CTTCGGGTCTTAGCCCGGATATAT
68613189 TCAAATGCTC
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAATGC
Found at i:68613153 original size:80 final size:80
Alignment explanation
Indices: 68613038--68613188 Score: 257
Period size: 80 Copynumber: 1.9 Consensus size: 80
68613028 ACCACAAGCT
* * *
68613038 CAATTGTCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGG
1 CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
68613103 ATATATCAACTTGCA
66 ATATATCAACTTGCA
* *
68613118 CAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
1 CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
68613183 ATATAT
66 ATATAT
68613189 TCAAATGCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (80 bp):
CAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGG
ATATATCAACTTGCA
Found at i:68621194 original size:40 final size:40
Alignment explanation
Indices: 68621113--68621374 Score: 418
Period size: 40 Copynumber: 6.6 Consensus size: 40
68621103 CTCAATTGCA
* * *
68621113 TTCGGGTCTTAACCCGG-TATAGCAACTCGCACGAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
* * *
68621152 TTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTTCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
*
68621192 TTCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
* *
68621232 TTCGGGTCTTAGCCTGTATATATCAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
* *
68621272 TTCGGGTCTTAGCCCGGATATATCAACTTGCACAATTGCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
68621312 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
68621352 TTCGGGTCTTAGCCCGGATATAT
1 TTCGGGTCTTAGCCCGGATATAT
68621375 TCAAATGCTC
Statistics
Matches: 205, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
39 16 0.08
40 189 0.92
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
Found at i:68626429 original size:49 final size:49
Alignment explanation
Indices: 68626374--68626491 Score: 119
Period size: 49 Copynumber: 2.4 Consensus size: 49
68626364 GGGCCACAGG
* * **
68626374 GCCATGTGAAATCATATAGATTGTGTGGGTAGACCATATGGACCATGCA
1 GCCATGTGAAATCATATAGATAGCGTGGGTAGACCATATGGACCACACA
* ** * * * * *
68626423 GCCATGTAAAATCATGCAAATAGCGTGGTTAGACCGTGTGGACCACATA
1 GCCATGTGAAATCATATAGATAGCGTGGGTAGACCATATGGACCACACA
*
68626472 ACCATGTGAAATCATATAGA
1 GCCATGTGAAATCATATAGA
68626492 CTGTCCAGGT
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
GCCATGTGAAATCATATAGATAGCGTGGGTAGACCATATGGACCACACA
Found at i:68627219 original size:22 final size:22
Alignment explanation
Indices: 68627181--68627225 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
68627171 ATGGGATATG
* *
68627181 ATATGATTTGGTATGATCTGAT
1 ATATGATTTGCTATGATATGAT
*
68627203 ATATGATTTGCTCTGATATGAT
1 ATATGATTTGCTATGATATGAT
68627225 A
1 A
68627226 AGATATGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (22 bp):
ATATGATTTGCTATGATATGAT
Found at i:68633173 original size:47 final size:46
Alignment explanation
Indices: 68633117--68633293 Score: 187
Period size: 47 Copynumber: 3.8 Consensus size: 46
68633107 ACAACTCTTA
** *
68633117 GCCGATGCATGTCCCAGACACGTCTTACGTTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATC-TCGAC
* *
68633164 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCGAC
* * **
68633210 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCAT-CTCGAC
* * *
68633258 GCCAATGCATGTCCCAGACATGCCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCAC
68633294 ACAAGAAATC
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
46 25 0.22
47 62 0.55
48 25 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.24
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCGAC
Found at i:68633293 original size:94 final size:92
Alignment explanation
Indices: 68632982--68633292 Score: 263
Period size: 94 Copynumber: 3.3 Consensus size: 92
68632972 TTGCTGATGC
* * * *
68632982 CATGTCCCAGACATGGTCTTACATTGGCTATCCTCATCAAGGCCGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCTA-GCCGATGCCATGTCCCAGACATGG
* * * * * * *
68633047 TTTTATACTAGCTCTCGTATATACGT-ACTAATG
62 TCTTACACTGGCACTC--ATA-ATGTGGCCAATG
*** * * *
68633080 CATGTCTTGGACATGTCTTACACTAGCA-CAACTCTTAGCCGATG-CATGTCCCAGACA-CGTCT
1 CATGTCCCAGACATGTCTTACACTGGCATCATCTC-TAGCCGATGCCATGTCCCAGACATGGTCT
** ** * *
68633142 TACGTTGGCTA-TCATCGTCGAGGCCGATG
65 TACACTGGC-ACTCATAAT-GTGGCCAATG
68633171 CATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTA-GCCGATGCCATGTCCCAGACATGGTC
68633236 TTACACTGGCACTCATAATGTGGCCAATG
64 TTACACTGGCACTCATAATGTGGCCAATG
*
68633265 CATGTCCCAGACATGCCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
68633293 CACAAGAAAT
Statistics
Matches: 167, Mismatches: 36, Indels: 24
0.74 0.16 0.11
Matches are distributed among these distances:
90 3 0.02
91 28 0.17
92 12 0.07
93 24 0.14
94 58 0.35
95 19 0.11
96 1 0.01
97 11 0.07
98 11 0.07
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATCTCTAGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGGCACTCATAATGTGGCCAATG
Found at i:68637291 original size:356 final size:355
Alignment explanation
Indices: 68636600--68637308 Score: 1049
Period size: 356 Copynumber: 2.0 Consensus size: 355
68636590 GGTCAAAACG
* * * * *
68636600 CCCATGTGGGGAGGCACGCGCATGTGTGACCATGGATATGGCCATGTGATCGGGCCGTGTAACTC
1 CCCATGTAGAGAGGCACACGCATGTGTGACCAGGGATATGGCCATGTGATCAGGCCGTGTAACTC
** * * *
68636665 TTTGTTCGTTTGTGCTAAAATAGCATACAGGGCAGACATGACCGTGCAAGGGTCTCACGCGCCTG
66 TTTGTTCGTTTGAACTAAAATAGCATACAAGGCAGACACGACCGTGCAAGGGTCTCACGCGCCCG
* * ** * *
68636730 TGTGCCCACCAGAAATGGCAGTGTATCCATGGCAAACGCCAGTTTGGTTAGGCCGTGTGGCAACA
131 TGTGCCCACCAGAAATGACAGTGTATCCATGGCAAACGCCAGTGTGGCCAGGCCGTATGGAAACA
* * * * *
68636795 AATCACATAAACCCTAATTCCCAATTGCACACTCCTGTGTGCCCATGAGACACGGCCGTGTGGAT
196 AATCACATAAACCCTAATTCCCAATCGCACACGCCTATGTGCCCACGAGACACGGCCATGTGGAT
* * * *
68636860 ATCGACAAAAAATCCCCAAATTGGCCACATGAACGTGTGGCACCCAAATTAGTCCAAAAACCCTA
261 ATCAAAAAAAAATCCCCAAATCGGCCACATGAACATGTGGCACCCAAATTAGTCCAAAAACCCTA
*
68636925 AATCTCAAGCGCACACGGCTATGTGAACTA
326 AATCTCAAGCGCACAAGGCTATGTGAACTA
*
68636955 CCCATGTAGAGAGGCACACGCCTGTGTGACCTAGGGATATGGCCATGTGATCAGGCCGTGTAACT
1 CCCATGTAGAGAGGCACACGCATGTGTGACC-AGGGATATGGCCATGTGATCAGGCCGTGTAACT
** * **
68637020 CTTTGTTCGTTTGAACTAAAATAGGGTACAAGGCAGACACGACTGTGTGAGGGTCTCACGCGCCC
65 CTTTGTTCGTTTGAACTAAAATAGCATACAAGGCAGACACGACCGTGCAAGGGTCTCACGCGCCC
** * * *
68637085 GTGTGCCCACCAGGCATGACGGTGTATCCATGGCACACGCCCGTGTGGCCAGGCCGTATGGAAAC
130 GTGTGCCCACCAGAAATGACAGTGTATCCATGGCAAACGCCAGTGTGGCCAGGCCGTATGGAAAC
*
68637150 AAATCACATAAACCCTAATTCCCAATCGTACACGCCTATGTGCCCACGAGACACGGCCATGTGGA
195 AAATCACATAAACCCTAATTCCCAATCGCACACGCCTATGTGCCCACGAGACACGGCCATGTGGA
*
68637215 TATCAAAAAAAAATCCCCAAATCGGCCACATGAACATGTGGCACCCAAATTAGTCCAGAAACCCT
260 TATCAAAAAAAAATCCCCAAATCGGCCACATGAACATGTGGCACCCAAATTAGTCCAAAAACCCT
*
68637280 AAATTTCAAGCGCACAAGGCTATGTGAAC
325 AAATCTCAAGCGCACAAGGCTATGTGAAC
68637309 CGCCCGTGTA
Statistics
Matches: 313, Mismatches: 40, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
355 27 0.09
356 286 0.91
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (355 bp):
CCCATGTAGAGAGGCACACGCATGTGTGACCAGGGATATGGCCATGTGATCAGGCCGTGTAACTC
TTTGTTCGTTTGAACTAAAATAGCATACAAGGCAGACACGACCGTGCAAGGGTCTCACGCGCCCG
TGTGCCCACCAGAAATGACAGTGTATCCATGGCAAACGCCAGTGTGGCCAGGCCGTATGGAAACA
AATCACATAAACCCTAATTCCCAATCGCACACGCCTATGTGCCCACGAGACACGGCCATGTGGAT
ATCAAAAAAAAATCCCCAAATCGGCCACATGAACATGTGGCACCCAAATTAGTCCAAAAACCCTA
AATCTCAAGCGCACAAGGCTATGTGAACTA
Found at i:68638332 original size:14 final size:14
Alignment explanation
Indices: 68638313--68638359 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
68638303 AGTCTCCAAT
68638313 TATAATAAACATGA
1 TATAATAAACATGA
68638327 TATAAT-AA-AT--
1 TATAATAAACATGA
*
68638337 TATAGTAAACATGA
1 TATAATAAACATGA
68638351 TATAATAAA
1 TATAATAAA
68638360 TAAAACATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 5 0.19
11 2 0.07
12 4 0.15
13 2 0.07
14 14 0.52
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (14 bp):
TATAATAAACATGA
Done.