Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 398 of 444
Found at i:115635395 original size:13 final size:13
Alignment explanation
Indices: 115635377--115635402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115635367 CTCGATAGGT
115635377 ACACGCCCGTGTG
1 ACACGCCCGTGTG
115635390 ACACGCCCGTGTG
1 ACACGCCCGTGTG
115635403 CAAATGCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:115647262 original size:39 final size:38
Alignment explanation
Indices: 115647206--115647295 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 38
115647196 GTCTAACCCA
*
115647206 ACACACCATGTGGGGATAAAATCAACCCAACCAGCCCT
1 ACACACCAAGTGGGGATAAAATCAACCCAACCAGCCCT
* * *
115647244 ACACACCAAGATGGGGATAATATCGACCCATCCAGCCCT
1 ACACACCAAG-TGGGGATAAAATCAACCCAACCAGCCCT
115647283 ACACACCAAGTGG
1 ACACACCAAGTGG
115647296 TATTGTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
38 12 0.26
39 35 0.74
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.13
Consensus pattern (38 bp):
ACACACCAAGTGGGGATAAAATCAACCCAACCAGCCCT
Found at i:115647720 original size:17 final size:18
Alignment explanation
Indices: 115647698--115647735 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
115647688 GTGTGGTTCA
*
115647698 CCCGTGTGTCCTACAC-G
1 CCCGTGTGGCCTACACAG
115647715 CCCGTGTGGCCTACACAG
1 CCCGTGTGGCCTACACAG
115647733 CCC
1 CCC
115647736 AAATGGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.13, C:0.45, G:0.24, T:0.18
Consensus pattern (18 bp):
CCCGTGTGGCCTACACAG
Found at i:115654850 original size:29 final size:29
Alignment explanation
Indices: 115654817--115655005 Score: 299
Period size: 29 Copynumber: 6.6 Consensus size: 29
115654807 GTGACGAGAT
115654817 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
115654846 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
115654875 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
115654904 TGGCACTAAGTGTGCGTGCTGGAAACATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
115654933 TGGCAC-AAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
115654961 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
115654990 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
115655006 AGTTCGGAGG
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
28 26 0.18
29 122 0.82
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:115655024 original size:86 final size:87
Alignment explanation
Indices: 115654818--115655007 Score: 283
Period size: 86 Copynumber: 2.2 Consensus size: 87
115654808 TGACGAGATT
* *
115654818 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
1 GGCACTAAGTGTGCGAGCTGGAAACATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
** * *
115654883 AGTGTGCGTGCTGGAAATATAT
66 AGTGTGCAAGCTGGAAAAATAC
* *
115654905 GGCACTAAGTGTGCGTGCTGGAAACATATGGCAC-AAGTGTGCGTGCTGGAAATATTTGGCACTA
1 GGCACTAAGTGTGCGAGCTGGAAACATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
115654969 AGTGTGCAAGCTGGAAAAATAC
66 AGTGTGCAAGCTGGAAAAATAC
**
115654991 GGCACTGGGTGTGCGAG
1 GGCACTAAGTGTGCGAG
115655008 TTCGGAGGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 61 0.65
87 33 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (87 bp):
GGCACTAAGTGTGCGAGCTGGAAACATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
AGTGTGCAAGCTGGAAAAATAC
Found at i:115655052 original size:115 final size:116
Alignment explanation
Indices: 115654817--115655063 Score: 286
Period size: 115 Copynumber: 2.1 Consensus size: 116
115654807 GTGACGAGAT
** * *
115654817 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACT
* * *
115654882 AAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAACATA
66 AAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCGAGCTGGAAACATA
*
115654933 TGGCAC-AAGTGTGCGTGCTGGAAATATTTGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACT
1 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACT
** * * * ** * *
115654997 GGGTGTGCGAGTTCGG-AGGGTATGGCACTGTGTGTGCGAGCT-TAAA-TTA
66 AAGTGTGCGAGCT-GGAAAGATATGGCACTAAGTGTGCGAGCTGGAAACATA
115655046 CGTGGCACTAAGTGTGCG
1 --TGGCACTAAGTGTGCG
115655064 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
113 2 0.02
114 3 0.03
115 88 0.80
116 17 0.15
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (116 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACT
AAGTGTGCGAGCTGGAAAGATATGGCACTAAGTGTGCGAGCTGGAAACATA
Found at i:115658589 original size:45 final size:46
Alignment explanation
Indices: 115658538--115658636 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 46
115658528 CATCTCATTG
* * * *
115658538 GAGCTTACCGTTTTAGCTC-GTATGAGCCTACTG-TTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATA-GAACCTACTGATTCAGCTCAATA
* *
115658583 GAGCTTACTGATTCAGCTCAATAGAACTTACTGATTCAGCTCAATA
1 GAGCTTACCGATTCAGCTCAATAGAACCTACTGATTCAGCTCAATA
115658629 GAGCTTAC
1 GAGCTTAC
115658637 TGTTCATCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 24 0.52
46 22 0.48
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (46 bp):
GAGCTTACCGATTCAGCTCAATAGAACCTACTGATTCAGCTCAATA
Found at i:115658601 original size:23 final size:22
Alignment explanation
Indices: 115658561--115658642 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 22
115658551 TAGCTCGTAT
*
115658561 GAGCCTACTGTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATA
115658583 GAGCTTACTGATTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
*
115658606 GAACTTACTGATTCAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
115658629 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
115658643 TCAGCTCAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
22 13 0.23
23 43 0.77
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:115667800 original size:31 final size:31
Alignment explanation
Indices: 115667755--115667831 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
115667745 TTTGGAGAGT
* * * *
115667755 CACATACCTGTGTGGGTAAGCCTTGTGGTCA
1 CACATGCCCGTGTGGGTAAGCCATGTGATCA
* *
115667786 CACATGCCCTTGTGGGTAGGCCATGTGATCA
1 CACATGCCCGTGTGGGTAAGCCATGTGATCA
115667817 CACATGCCCGTGTGG
1 CACATGCCCGTGTGG
115667832 CTTGGGACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.30, T:0.26
Consensus pattern (31 bp):
CACATGCCCGTGTGGGTAAGCCATGTGATCA
Found at i:115682154 original size:13 final size:13
Alignment explanation
Indices: 115682138--115682165 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
115682128 TTTTCTTTGA
115682138 GTAATTACTTTTC
1 GTAATTACTTTTC
115682151 GTAATTACTTTTC
1 GTAATTACTTTTC
115682164 GT
1 GT
115682166 TTTGAGCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (13 bp):
GTAATTACTTTTC
Found at i:115689919 original size:10 final size:10
Alignment explanation
Indices: 115689904--115689935 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
115689894 ATTCATTCTC
115689904 TTTTCTTTTT
1 TTTTCTTTTT
115689914 TTTTCTTTTTT
1 TTTTC-TTTTT
115689925 TTTTCTTTTT
1 TTTTCTTTTT
115689935 T
1 T
115689936 GGTTTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:115689925 original size:11 final size:11
Alignment explanation
Indices: 115689904--115689935 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
115689894 ATTCATTCTC
115689904 TTTTC-TTTTT
1 TTTTCTTTTTT
115689914 TTTTCTTTTTT
1 TTTTCTTTTTT
115689925 TTTTCTTTTTT
1 TTTTCTTTTTT
115689936 GGTTTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:115691054 original size:25 final size:26
Alignment explanation
Indices: 115691025--115691076 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
115691015 AATATATATA
*
115691025 TATATAATGAG-AAATAACATTTATT
1 TATATAAAGAGAAAATAACATTTATT
*
115691050 TATATAAAGAGAAAATAATATTTATT
1 TATATAAAGAGAAAATAACATTTATT
115691076 T
1 T
115691077 TTCTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (26 bp):
TATATAAAGAGAAAATAACATTTATT
Found at i:115692059 original size:22 final size:20
Alignment explanation
Indices: 115692035--115692075 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
115692025 CTTCTTTCCA
115692035 AAAAAACAAAAAAACACCTCC
1 AAAAAACAAAAAAA-ACCTCC
115692056 AAAAAACAAAAAAAACCTCC
1 AAAAAACAAAAAAAACCTCC
115692076 TCCAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAAACAAAAAAAACCTCC
Found at i:115692068 original size:23 final size:22
Alignment explanation
Indices: 115692031--115692082 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
115692021 TAACCTTCTT
*
115692031 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAAAAAAAAAACACC
* *
115692053 TCCAAAAAACAAAAAAAACCTCC
1 TCCAAAAAA-AAAAAAAAACACC
115692076 TCCAAAA
1 TCCAAAA
115692083 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAAACACC
Found at i:115692101 original size:23 final size:21
Alignment explanation
Indices: 115692037--115692105 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
115692027 TCTTTCCAAA
**
115692037 AAAACAAAAAAACACCTCC-AA
1 AAAACAAAAAAA-ACCTCCTCC
115692058 AAAACAAAAAAAACCTCCTCC
1 AAAACAAAAAAAACCTCCTCC
* *
115692079 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AAACCTCCTCC
115692102 AAAA
1 AAAA
115692106 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.15
21 20 0.49
22 2 0.05
23 13 0.32
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (21 bp):
AAAACAAAAAAAACCTCCTCC
Found at i:115692270 original size:4 final size:4
Alignment explanation
Indices: 115692261--115692287 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
115692251 GGCCAAGGTT
115692261 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
115692288 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:115692640 original size:44 final size:44
Alignment explanation
Indices: 115692591--115692775 Score: 142
Period size: 44 Copynumber: 4.2 Consensus size: 44
115692581 TGCTTTACTG
* * *
115692591 TAAGCACAGGAATGTCAGATTTGTTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGAATGTCAGATCTGTTATCTTCAACTTGTTCCCTA
* ** * ** * *
115692635 TAAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTACTTCACTG
1 TAAGCACAGGAATGTCAGAT-CTGTTATCTTC-AACTTGTTCCCTA
* * * *
115692679 TAAGCACAGGAATGTTAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 TAAGCACAGGAATGTCAGATCTGTTATCTTCAACT-TGTTCCCTA
* * * * *
115692723 TAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGAATGTCAGATCTGTTATCTTCAACTTGTTCCCTA
115692767 TAAGCACAG
1 TAAGCACAG
115692776 AGATTATAAG
Statistics
Matches: 105, Mismatches: 30, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 84 0.80
45 10 0.10
46 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TAAGCACAGGAATGTCAGATCTGTTATCTTCAACTTGTTCCCTA
Found at i:115692720 original size:88 final size:88
Alignment explanation
Indices: 115692571--115692736 Score: 226
Period size: 88 Copynumber: 1.9 Consensus size: 88
115692561 GATATCCGCT
* * * * * * * *
115692571 ATCTTTGATCTGCTTTACTGTAAGCACAGGAATGTCAGATTTGTTGTTTTCAACTTGTTCCCTAT
1 ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTAT
115692636 AAGCACAGGGATGTCATGCTGAA
66 AAGCACAGGGATGTCATGCTGAA
* *
115692659 ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-CGTTCCCTA
115692723 TAAGCACAGGGATG
65 TAAGCACAGGGATG
115692737 CCAAATCTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
87 1 0.01
88 66 0.99
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (88 bp):
ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTAT
AAGCACAGGGATGTCATGCTGAA
Found at i:115692813 original size:59 final size:59
Alignment explanation
Indices: 115692721--115692834 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
115692711 ATCCGTTCCC
*
115692721 TATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGAGAT
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGAT
*
115692780 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTTCCTATAAGCACAG
1 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
115692835 GGATGCCATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (59 bp):
TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGAGAT
Found at i:115692874 original size:44 final size:43
Alignment explanation
Indices: 115692780--115693580 Score: 458
Period size: 44 Copynumber: 18.3 Consensus size: 43
115692770 GCACAGAGAT
* * * *
115692780 TATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTGTTTCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* *
115692824 TATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
* * * * * *
115692868 TGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATCCGTTCCC
1 TATAAGCACAGGGATGCCATG--CTGATATCTTTGATCTGTTCCC
* * *
115692912 TATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* * *
115692956 TATAAGCACA-GGATGCCAAAT-CTGATGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* * *
115692999 TATAAGCACAGGGATGCCATGATGAAATCTTTGATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
* * * * * *
115693043 TGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATTTGTTCCC
1 TATAAGCACAGGGATGCCATG--CTGATATCTTTGATCTGTTCCC
* * *
115693087 TATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* ** *
115693131 TATAAGCACA-GGATGCCATGCTGAAATCTTCAATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
* * * * *
115693174 TGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATCTGTTCCC
1 TATAAGCACAGGGATGCCATG--CTGATATCTTTGATCTGTTCCC
* * * *
115693218 TATAAGCA-AGGGATGCCAAAT-CTGCTGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* *
115693261 TATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
* * * * * *
115693305 TGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATTTGTTCCC
1 TATAAGCACAGGGATGCCATG--CTGATATCTTTGATCTGTTCCC
* * *
115693349 TATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* * *
115693393 TATAAGCACAGGGATGCCATGCTGAAATATTTGATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
* * * * * *
115693437 TGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATTTGTTCCC
1 TATAAGCACAGGGATGCCATG--CTGATATCTTTGATCTGTTCCC
* * * * * *
115693481 TATAAGCACAGGGATCCCAAAT-TTGTTGT-TTTCAACTTGTTCCC
1 TATAAGCACAGGGATGCC--ATGCTGATATCTTTGATC-TGTTCCC
* * *
115693525 TATAAGCACAGGGATGCCATGCTGAAATCTTAGATCTGCTTCAC
1 TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTG-TTCCC
*
115693569 TGTAAGCACAGG
1 TATAAGCACAGG
115693581 AATGTCAGAT
Statistics
Matches: 581, Mismatches: 125, Indels: 102
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.00
42 21 0.04
43 144 0.25
44 345 0.59
45 65 0.11
46 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
TATAAGCACAGGGATGCCATGCTGATATCTTTGATCTGTTCCC
Found at i:115693087 original size:175 final size:175
Alignment explanation
Indices: 115692780--115693607 Score: 840
Period size: 175 Copynumber: 4.7 Consensus size: 175
115692770 GCACAGAGAT
*
115692780 TATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTTCCTATAAGCACAGGGATGCCATG
1 TATAAGCACA-GGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
*
115692845 CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTC
65 CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTC
*
115692910 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
130 CCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
*
115692956 TATAAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGA
1 TATAAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
*
115693021 TGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCC
66 TGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCC
*
115693086 CTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCC
131 CTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
** * * * * *
115693131 TATAAGCACAGGATGCC--ATGCTGAAATCTTCAA-TCTGCTTCACTGTAAGCACAGGAATGTCA
1 TATAAGCACAGGATGCCAAAT-CTGATGTTTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCA
** * * * * * * * * *
115693193 -GATCTGCTATCTTCGATCTG-TTCCCTATAAGCA-AGGGATGCCAAATCTGCTGTTTTC-AACT
63 TG--CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-
* * * *
115693254 TGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCAC
125 TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTTG-TTCCC
* * * * * * * *
115693305 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
1 TATAAGCACAGG-ATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCC--A
** * * * * * * ** * *
115693370 T-CTGATGT-TTTCAACTTG-TTCCCTATAAGCACAGGGATG-C-CATGCTGAAATATTTGATCT
63 TGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAGAT-CTGCTATCTTCGATCT
* * * * * * * * *
115693430 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
126 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
* * *
115693481 TATAAGCACAGGGATCCCAAATTTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
1 TATAAGCACA-GGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
* *
115693546 CTGAAATCTTAGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGGTCTG
65 CTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTG
115693608 CTCCTCTGCA
Statistics
Matches: 536, Mismatches: 86, Indels: 59
0.79 0.13 0.09
Matches are distributed among these distances:
172 2 0.00
173 11 0.02
174 85 0.16
175 268 0.50
176 140 0.26
177 26 0.05
178 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (175 bp):
TATAAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
TGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCC
CTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTTGTTCCC
Found at i:115693426 original size:132 final size:132
Alignment explanation
Indices: 115692948--115693602 Score: 1199
Period size: 132 Copynumber: 5.0 Consensus size: 132
115692938 TGTTTTCAAC
115692948 TTGTTCCCTATAAGCACA-GGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
115693012 ATGCCATGATGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
115693077 AT
131 AT
115693079 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACA-GG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
**
115693143 ATGCCATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
115693208 AT
131 AT
* *
115693210 CTGTTCCCTATAAGCA-AGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
115693274 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
115693339 AT
131 AT
115693341 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
115693406 ATGCCATGCTGAAATATTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
115693471 AT
131 AT
* * *
115693473 TTGTTCCCTATAAGCACAGGGATCCCAAATTTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
115693538 ATGCCATGCTGAAATCTTAGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
115693603 GTCTGCTCCT
Statistics
Matches: 506, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
130 44 0.09
131 181 0.36
132 281 0.56
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
AT
Found at i:115693913 original size:42 final size:42
Alignment explanation
Indices: 115693856--115694394 Score: 312
Period size: 42 Copynumber: 12.4 Consensus size: 42
115693846 CTATTTCCCA
* *
115693856 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCATCTGTTACCCT
* * * *
115693898 ACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCA-TCTGTTACCCT
* * **
115693943 ACTGCTTAGGGGTTTAAG-GCTTGTAAA-TCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCATC-TGTTACCCT
* * *
115693985 ACTGCTTAGGGGGTTAAAGCCCATCAT-T--TTTTATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG---ATC-TGTAAATTCATCTGTTACCCT
* * *
115694029 ACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCA-TCTGTTACCCT
* * **
115694074 ACTGCTTAGGGGTTTAAG-GCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCATC-TGTTACCCT
** * ** *
115694117 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTC-ATCTGTTACCCT
** *
115694161 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCAATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTC-ATCTGTTACCCT
** *
115694204 ACTGCTTA-GGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTC-ATCTGTTACCCT
* * * *
115694246 ACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTC-ATCTGTTACCCT
* * * * * *
115694288 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTC-ATCTGTTACCCT
*
115694332 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCA-TCTGTTACCCT
* *
115694377 ATTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
115694395 GCTTGTGAAT
Statistics
Matches: 393, Mismatches: 70, Indels: 65
0.74 0.13 0.12
Matches are distributed among these distances:
39 1 0.00
40 4 0.01
41 3 0.01
42 120 0.31
43 74 0.19
44 92 0.23
45 96 0.24
46 1 0.00
47 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (42 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATTCATCTGTTACCCT
Found at i:115694023 original size:131 final size:132
Alignment explanation
Indices: 115693888--115694217 Score: 522
Period size: 131 Copynumber: 2.5 Consensus size: 132
115693878 GTAAATTCAA
* * * *
115693888 CTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* **
115693953 GGTTTAAGGCTTGTAAA-TCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
115694017 AT
131 AT
* *
115694019 CTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
115694084 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
115694149 AT
131 AT
* ** *
115694151 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCAATCTGTTTCCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
115694214 GGTT
66 GGTT
115694218 AAGATCTTCA
Statistics
Matches: 183, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
130 29 0.16
131 77 0.42
132 77 0.42
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
AT
Found at i:115694264 original size:85 final size:86
Alignment explanation
Indices: 115693888--115694394 Score: 366
Period size: 87 Copynumber: 5.8 Consensus size: 86
115693878 GTAAATTCAA
* * * * * *
115693888 CTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCAGTCTGTTACCCTACTGCTTAGG
* * * ** *
115693953 GGTTTAAG-GCTT-GTAAATCG-G
64 GGCTTAAGACCTTCAT-CTTCGAT
* ** * * * * *
115693974 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTA-TCTGTTTCCCTACTACTTAG
1 C-TGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCA-TCTTCAGTCTGTTACCCTACTGCTTAG
* * * *
115694038 GGGGTTAAGATCTGTAAATCTTC-AGC
63 GGGCTTAAGACCT-T-CATCTTCGA-T
* * * * * ** *
115694064 CAGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTC-GGCTTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCAGTC-TGTTACCCTACTGCTTAGG
* * *
115694127 GGGTTAAAGCCCATCATCTTCGAT
64 GGCTT-AAGACCTTCATCTTCGAT
* *
115694151 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCAATCTGTTTCCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCAGTCTGTTACCCTACTGCTTAGGGG
*
115694216 -TTAAGATCTTCATCTTCGAT
66 CTTAAGACCTTCATCTTCGAT
* * * * * * *
115694236 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGTCTGTTACCCTACCGATTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCAGTCTGTTACCCTACTGCTTAGGGG
* *
115694300 TTTAAGACCCTTCGTCTTCGAT
66 CTTAAGA-CCTTCATCTTCGAT
* * *
115694322 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCAGTCTGTTACCCTACTGCTTAGG
115694387 GGCTTAAG
64 GGCTTAAG
115694395 GCTTGTGAAT
Statistics
Matches: 332, Mismatches: 68, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
84 23 0.07
85 53 0.16
86 71 0.21
87 90 0.27
88 37 0.11
89 56 0.17
90 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (86 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCAGTCTGTTACCCTACTGCTTAGGGG
CTTAAGACCTTCATCTTCGAT
Found at i:115694355 original size:303 final size:305
Alignment explanation
Indices: 115693803--115694406 Score: 794
Period size: 303 Copynumber: 2.0 Consensus size: 305
115693793 AATTTCCAGC
* *
115693803 TGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
1 TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
* * *
115693868 GTTAAGATCTGTAAATTCAACTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGC
66 GTTAAGATCTGTAAATTCAACTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
* * * *
115693933 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATCGGCTTGTTACCCTACTGCTTAGGGGG
131 CTGTTACCCTACTGCTTAGGGGTATAAGGCTTGCAAATCGGCTTGTTACCCTACCGATTAGGGGG
* **
115693998 TTAAAGCCCATCATTTTTTATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAG
196 TTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAG
*
115694063 CCAGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCGGCT
261 CCAGTTACCCTACTGCTTAGGGGCTTAAGGCTTGTAAATTCGGCT
* * * *
115694108 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
** * *
115694173 GTTAAGATCT-TCATCTTCAATCTGTTTCCCTACTGCTTA-GGGGTTAAGATCT-T-CATCTTC-
66 GTTAAGATCTGT-AAATTCAA-CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCA
* * * *
115694233 GATCTGTTTCCCTACTGCTTAGGGAG-ATAA-GATCTGCAATTCGG-TCTGTTACCCTACCGATT
129 G-CCTGTTACCCTACTGCTTAGGG-GTATAAGGCT-TGCAAATCGGCT-TGTTACCCTACCGATT
* * * *
115694295 A-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
190 AGGGGGTTAAAG-CCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAA
* * *
115694359 TCTTCAGCCTGTTACCCTATTGCTTAGGGGCTTAAGGCTTGTGAATTC
254 TCTTCAGCCAGTTACCCTACTGCTTAGGGGCTTAAGGCTTGTAAATTC
115694407 ACTGATTCTA
Statistics
Matches: 260, Mismatches: 32, Indels: 16
0.84 0.10 0.05
Matches are distributed among these distances:
302 13 0.05
303 142 0.55
304 3 0.01
305 86 0.33
306 16 0.06
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (305 bp):
TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
GTTAAGATCTGTAAATTCAACTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGC
CTGTTACCCTACTGCTTAGGGGTATAAGGCTTGCAAATCGGCTTGTTACCCTACCGATTAGGGGG
TTAAAGCCCATCATCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAG
CCAGTTACCCTACTGCTTAGGGGCTTAAGGCTTGTAAATTCGGCT
Found at i:115694564 original size:66 final size:66
Alignment explanation
Indices: 115694458--115694584 Score: 245
Period size: 66 Copynumber: 1.9 Consensus size: 66
115694448 TCTATGCTTA
115694458 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
115694523 G
66 G
*
115694524 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
115694585 TATATGAATG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:115695697 original size:8 final size:8
Alignment explanation
Indices: 115695686--115695734 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
115695676 TTTTTTAGAA
115695686 TTTTTTTG
1 TTTTTTTG
115695694 TTTTTTT-
1 TTTTTTTG
115695701 TTGTTTTTG
1 TT-TTTTTG
115695710 TGTTTTTGTG
1 T-TTTTT-TG
115695720 TTTTTTT-
1 TTTTTTTG
115695727 TTTTTTTG
1 TTTTTTTG
115695735 CCTTTGCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
7 9 0.25
8 13 0.36
9 10 0.28
10 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:115695740 original size:6 final size:6
Alignment explanation
Indices: 115695731--115695766 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
115695721 TTTTTTTTTT
115695731 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
115695767 ATATAACGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:115698572 original size:19 final size:20
Alignment explanation
Indices: 115698548--115698594 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
115698538 AGTGAAAGTT
115698548 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
115698567 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
115698587 -AATGCAAA
1 TAATGCAAA
115698595 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:115701159 original size:39 final size:40
Alignment explanation
Indices: 115700994--115701160 Score: 91
Period size: 39 Copynumber: 4.1 Consensus size: 40
115700984 TAATAAGAAT
* *
115700994 AATATTAAAGTAAAGTAA-AC---AATAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
* * *
115701030 AATATATATATATGTATA-TAATAGAAATACACACTACTATATAATAA
1 AATAT-TA-A-AT-TAAAGTAATACAAA-A-ACAATACTATAT-AT-A
* * * *
115701077 TAATAATAAA-TATAGAAATACAAAAAGCAA-A-TATAATAAA
1 -AATATTAAATTAAAGTAATACAAAAA-CAATACTAT-ATATA
115701117 AATATTAAATTAAAGTAATA-AAAAACAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
115701156 AATAT
1 AATAT
115701161 ATATATATGT
Statistics
Matches: 98, Mismatches: 14, Indels: 35
0.67 0.10 0.24
Matches are distributed among these distances:
36 5 0.05
37 2 0.02
38 4 0.04
39 27 0.28
40 16 0.16
41 4 0.04
42 4 0.04
43 7 0.07
44 8 0.08
45 11 0.11
46 3 0.03
47 3 0.03
48 4 0.04
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (40 bp):
AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
Found at i:115701424 original size:3 final size:3
Alignment explanation
Indices: 115701411--115701496 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
115701401 GAGGGCATAT
115701411 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
115701455 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
115701497 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:115701435 original size:12 final size:12
Alignment explanation
Indices: 115701411--115701493 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
115701401 GAGGGCATAT
115701411 ATAATAT-AATA
1 ATAATATAAATA
115701422 ATAATATAAATA
1 ATAATATAAATA
115701434 ATAATATATACATGA
1 ATAATATA-A-AT-A
115701449 GA-AATA-ATAATA
1 -ATAATATA-AATA
115701461 ATAATATAAATA
1 ATAATATAAATA
* *
115701473 ATAGTAAAAATA
1 ATAATATAAATA
*
115701485 ATAAAATAA
1 ATAATATAA
115701494 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:115701455 original size:21 final size:18
Alignment explanation
Indices: 115701416--115701496 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
115701406 CATATATAAT
*
115701416 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
115701434 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
115701455 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
115701473 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
115701490 ATAATAA
1 ATAATAA
115701497 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:115701484 original size:27 final size:27
Alignment explanation
Indices: 115701411--115701497 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
115701401 GAGGGCATAT
* *
115701411 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
115701437 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
115701461 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
115701488 A-AATAATAAA
1 ATAAT-ATAAA
115701498 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:115701850 original size:21 final size:22
Alignment explanation
Indices: 115701826--115701917 Score: 82
Period size: 22 Copynumber: 4.2 Consensus size: 22
115701816 CTTCTTTCCA
115701826 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
*
115701847 AAAAAACAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
**
115701869 --AAAACAAAGAACAATCCTTCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
* * *
115701892 AAAAAACCAAAAACCCACCTCT
1 AAAAAACAAAAAAACCACCTCC
115701914 AAAA
1 AAAA
115701918 CAAAGTCTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
20 8 0.14
21 16 0.28
22 17 0.29
23 8 0.14
24 2 0.03
25 7 0.12
ACGTcount: A:0.59, C:0.30, G:0.01, T:0.10
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:115701850 original size:22 final size:23
Alignment explanation
Indices: 115701822--115701872 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
115701812 TAACCTTCTT
115701822 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAACAAAAAAACCACC
*
115701844 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAACCACC
115701866 TCCAAAA
1 TCCAAAA
115701873 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACCACC
Found at i:115701895 original size:23 final size:20
Alignment explanation
Indices: 115701828--115701895 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
115701818 TCTTTCCAAA
*
115701828 AAAACAAAAAAA-CACCTCC
1 AAAACAAAAAAACCTCCTCC
115701847 AAAAAACAAAAAAACCTCCTCC
1 --AAAACAAAAAAACCTCCTCC
*
115701869 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
115701892 AAAA
1 AAAA
115701896 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 14 0.34
22 8 0.20
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:115702059 original size:4 final size:4
Alignment explanation
Indices: 115702050--115702076 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
115702040 GGCCAAGGTT
115702050 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
115702077 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:115707061 original size:20 final size:20
Alignment explanation
Indices: 115707036--115707075 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
115707026 TTCAAAGTCT
115707036 GAATCTGAACATGAGCAACA
1 GAATCTGAACATGAGCAACA
115707056 GAATCTGAACATGAGCAACA
1 GAATCTGAACATGAGCAACA
115707076 TCTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
GAATCTGAACATGAGCAACA
Found at i:115709311 original size:27 final size:29
Alignment explanation
Indices: 115709259--115709319 Score: 90
Period size: 27 Copynumber: 2.1 Consensus size: 29
115709249 ATGGATTTAA
115709259 ATTACTTATTATTGAAGTAAATAGATATTT
1 ATTACTTATTATT-AAGTAAATAGATATTT
*
115709289 ATTATTTATTATT-AGTAAA-AGATATTT
1 ATTACTTATTATTAAGTAAATAGATATTT
115709316 ATTA
1 ATTA
115709320 ATTAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.40
28 6 0.20
30 12 0.40
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (29 bp):
ATTACTTATTATTAAGTAAATAGATATTT
Found at i:115710665 original size:39 final size:39
Alignment explanation
Indices: 115710617--115710763 Score: 204
Period size: 39 Copynumber: 3.8 Consensus size: 39
115710607 TTAATAGGGG
*
115710617 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* * *
115710656 TAAATTACTGTATTGAATAATTGATAGCTATTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* * *
115710695 TAAACTACTGCAATGAATATTTGATAGTTACTGAATAAC
1 TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
* * *
115710734 TAAATTACTGTATTGAATAACTGATTGTTA
1 TAAACTACTGTATTGAATAATTGATAGTTA
115710764 TTGATTAAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (39 bp):
TAAACTACTGTATTGAATAATTGATAGTTACTGAATAAC
Found at i:115710743 original size:78 final size:78
Alignment explanation
Indices: 115710617--115710767 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
115710607 TTAATAGGGG
* * *
115710617 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAATTGATA
1 TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
115710682 GCTATTGAATAAC
66 GCTATTGAATAAC
* *
115710695 TAAACTACTGCAATGAATATTTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATT
1 TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
*
115710760 GTTATTGA
66 GCTATTGA
115710768 TTAAATATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (78 bp):
TAAACTACTGCAATGAATAATTGATAGTTACTGAATAACTAAATTACTGTATTGAATAACTGATA
GCTATTGAATAAC
Found at i:115714973 original size:61 final size:61
Alignment explanation
Indices: 115714865--115714994 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 61
115714855 GGAAATTTAT
* * * *
115714865 CATTAAGCCTTTTAAATTTTTTAATAATTTTAATTAGGGCTCTAAAATTTTTAAAAATTCTC
1 CATTAAGCCTTTAAAATATTTTAATAATTTTAATTAGGACTCCAAAATTTTTAAAAATTC-C
* *
115714927 C-TTAAGCCTTTAAAAATATTTTAA-AATTTTAATTA-GATTACCAAAATTTTTAGAAATTCC
1 CATTAAGCCTTT-AAAATATTTTAATAATTTTAATTAGGACT-CCAAAATTTTTAAAAATTCC
115714987 CATTAAGC
1 CATTAAGC
115714995 TCCTAAAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
60 4 0.07
61 44 0.75
62 11 0.19
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (61 bp):
CATTAAGCCTTTAAAATATTTTAATAATTTTAATTAGGACTCCAAAATTTTTAAAAATTCC
Found at i:115715145 original size:2 final size:2
Alignment explanation
Indices: 115715138--115715170 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
115715128 CTTTATTATC
115715138 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
115715171 TACATTCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115719751 original size:29 final size:29
Alignment explanation
Indices: 115719710--115719805 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 29
115719700 ATTTTATTAT
*
115719710 ATTTCATTTATAAATGATACCAAAATATAA
1 ATTTCATTAATAAATGATA-CAAAATATAA
* ** *
115719740 ATTT-ATTAATAAA--ATATATTATATTAT
1 ATTTCATTAATAAATGATACAAAATA-TAA
* *
115719767 ATTTCATTTATGAATGATACAAAATATAA
1 ATTTCATTAATAAATGATACAAAATATAA
115719796 ATTT-ATTAAT
1 ATTTCATTAAT
115719806 TTAAATAATA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
26 4 0.08
27 9 0.18
28 12 0.24
29 14 0.28
30 11 0.22
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTCATTAATAAATGATACAAAATATAA
Found at i:115719812 original size:57 final size:57
Alignment explanation
Indices: 115719691--115719805 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
115719681 CTTTAAAATG
*
115719691 ATAAAATATATTTTATTATATTTCATTTATAAATGATACCAAAATATAAATTTATTA
1 ATAAAATATATTATATTATATTTCATTTATAAATGATACCAAAATATAAATTTATTA
*
115719748 ATAAAATATATTATATTATATTTCATTTATGAATGATA-CAAAATATAAATTTATTA
1 ATAAAATATATTATATTATATTTCATTTATAAATGATACCAAAATATAAATTTATTA
115719804 AT
1 AT
115719806 TTAAATAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 20 0.36
57 36 0.64
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (57 bp):
ATAAAATATATTATATTATATTTCATTTATAAATGATACCAAAATATAAATTTATTA
Found at i:115721185 original size:25 final size:25
Alignment explanation
Indices: 115721138--115721185 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
115721128 ATAAACAGTT
* *
115721138 TAATATATTTTTATTATTTATATTA
1 TAATATATTTTAATTATTCATATTA
115721163 TAATATATATTTAATT-TTCATAT
1 TAATATAT-TTTAATTATTCATAT
115721186 AATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATATATTTTAATTATTCATATTA
Found at i:115724923 original size:6 final size:6
Alignment explanation
Indices: 115724914--115724964 Score: 66
Period size: 6 Copynumber: 8.0 Consensus size: 6
115724904 ATAGTTATAG
*
115724914 TTTTAT TTTTAT CTTTAT TTTTAT TTTTAT TTTTAGTT GTTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T -TTTTAT TTTTAT
115724965 GTTCTTAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 33 0.82
7 1 0.03
8 1 0.03
9 5 0.12
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:115724935 original size:42 final size:39
Alignment explanation
Indices: 115724883--115724964 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
115724873 TGAGTTTATT
* *
115724883 TCTTTTTTTTTCTTTTTAGTTATAGTTATAGTTTTATTTTTA
1 TCTTTATTTTTATTTTTAGTTATAG-T-T-GTTTTATTTTTA
* *
115724925 TCTTTATTTTTATTTTTATTTTTAGTTGTTTTATTTTTA
1 TCTTTATTTTTATTTTTAGTTATAGTTGTTTTATTTTTA
115724964 T
1 T
115724965 GTTCTTAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.36
40 1 0.03
41 1 0.03
42 21 0.58
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (39 bp):
TCTTTATTTTTATTTTTAGTTATAGTTGTTTTATTTTTA
Found at i:115732904 original size:6 final size:6
Alignment explanation
Indices: 115732877--115732933 Score: 69
Period size: 6 Copynumber: 9.0 Consensus size: 6
115732867 GTTTAAGAAC
*
115732877 ATAAAA ATTAAATA ACTAAAA ATAAAA ATAAAG ATAAAA ATAAAA ATAAAA
1 ATAAAA A-TAAA-A A-TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
115732928 CTAAAA
1 ATAAAA
115732934 TGAAAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 33 0.73
7 6 0.13
8 6 0.13
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:115733825 original size:23 final size:23
Alignment explanation
Indices: 115733795--115733838 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
115733785 TAGTGCCCGG
115733795 CTTGTCATGGGTCGACATCACGT
1 CTTGTCATGGGTCGACATCACGT
115733818 CTTGTCATGGGTCGACATCAC
1 CTTGTCATGGGTCGACATCAC
115733839 TTGCTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (23 bp):
CTTGTCATGGGTCGACATCACGT
Found at i:115734699 original size:5 final size:5
Alignment explanation
Indices: 115734689--115734763 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
115734679 AAAATATAGG
* * *
115734689 AATAA AATAA AATAA ATTAA TATAACA AATAA GCATAA TAA-ATA AAT-A
1 AATAA AATAA AATAA AATAA AAT-A-A AATAA -AATAA -AATA-A AATAA
115734737 AATAA AGATAA AATAA AATAA AATAA A
1 AATAA A-ATAA AATAA AATAA AATAA A
115734764 GAAAGAAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
4 4 0.07
5 36 0.64
6 13 0.23
7 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:115734747 original size:21 final size:21
Alignment explanation
Indices: 115734693--115734765 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 21
115734683 TATAGGAATA
* *
115734693 AAATAAA-ATAAATTAATATAAC
1 AAATAAAGAT-AATAAATA-AAT
115734715 AAAT-AAGCATAATAAATAAAT
1 AAATAAAG-ATAATAAATAAAT
115734736 AAATAAAGAT-A-AAATAAAAT
1 AAATAAAGATAATAAAT-AAAT
115734756 AAAATAAAGA
1 -AAATAAAGA
115734766 AAGAAAAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 4 0.09
20 5 0.11
21 19 0.43
22 14 0.32
23 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (21 bp):
AAATAAAGATAATAAATAAAT
Found at i:115737969 original size:14 final size:15
Alignment explanation
Indices: 115737952--115737985 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
115737942 TGTAAAAATT
*
115737952 TAAAATAAAA-CAAA
1 TAAAATAAAATAAAA
115737966 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
115737981 TAAAA
1 TAAAA
115737986 ATAGCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAAATAAAATAAAA
Found at i:115737971 original size:5 final size:5
Alignment explanation
Indices: 115737952--115737985 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
115737942 TGTAAAAATT
*
115737952 TAAAA TAAAA -CAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
115737986 ATAGCTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:115740356 original size:59 final size:59
Alignment explanation
Indices: 115740270--115740387 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
115740260 ACATCGAAGT
*
115740270 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAACATATTCAAAAA
1 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
* * * * * *
115740329 AACTTCTATTTTATTAGATTAAGCAATATAAAAATAATTTGTACAAAAATATTCAAAAA
1 AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
115740388 TAAATCAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (59 bp):
AACTCCTAATTTATTAAATGAAACAATATAAAAATAATTTGCACAAAAATATTCAAAAA
Found at i:115745246 original size:17 final size:18
Alignment explanation
Indices: 115745223--115745262 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
115745213 TAAATTTACA
115745223 AAAATAA-AATAAAAAAT
1 AAAATAATAATAAAAAAT
* *
115745240 GAAATAATATTAAAAAAT
1 AAAATAATAATAAAAAAT
115745258 AAAAT
1 AAAAT
115745263 TAACTCTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATAATAATAAAAAAT
Found at i:115753498 original size:43 final size:43
Alignment explanation
Indices: 115753449--115753535 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
115753439 ACTTGTAGTT
115753449 AGTATCGCCTAACCTCTTGTGCCATAGCTTAGACTTATCTAAG
1 AGTATCGCCTAACCTCTTGTGCCATAGCTTAGACTTATCTAAG
115753492 AGTATCGCCTAACCTCTTGTGCCATAGCTTAGACTTATCTAAG
1 AGTATCGCCTAACCTCTTGTGCCATAGCTTAGACTTATCTAAG
115753535 A
1 A
115753536 CTGTTATGTA
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:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (43 bp):
AGTATCGCCTAACCTCTTGTGCCATAGCTTAGACTTATCTAAG
Found at i:115763053 original size:40 final size:40
Alignment explanation
Indices: 115762960--115763096 Score: 179
Period size: 40 Copynumber: 3.5 Consensus size: 40
115762950 ACTAAGATCT
* * *
115762960 GAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-CCC
1 GAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCC
*
115762999 GAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCC
1 GAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCC
* *
115763039 GAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTCCC
1 GAAGGCATTCGTGCGAGTTACTA-AACCCGGGTTAAGTCCC
* *
115763079 GAAGGCATTTGAGCGAGT
1 GAAGGCATTCGTGCGAGT
115763097 CGTTATATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 32 0.37
40 46 0.53
41 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (40 bp):
GAAGGCATTCGTGCGAGTTACTAAACCCGGGTTAAGTCCC
Found at i:115765960 original size:13 final size:13
Alignment explanation
Indices: 115765942--115765966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
115765932 TGTGGGTGCA
115765942 CACGGTCGTGTCG
1 CACGGTCGTGTCG
115765955 CACGGTCGTGTC
1 CACGGTCGTGTC
115765967 TGGCATTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:115772491 original size:29 final size:29
Alignment explanation
Indices: 115772441--115772500 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
115772431 ACTAATTAAA
* *
115772441 TTAATTAACCAAACATAACCTAGTGGAAT
1 TTAACTAACCAAACATAACCTAATGGAAT
* * *
115772470 TTAACTAACCTAAGATATCCTAATGGAAT
1 TTAACTAACCAAACATAACCTAATGGAAT
115772499 TT
1 TT
115772501 CCTATTCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAACTAACCAAACATAACCTAATGGAAT
Found at i:115773127 original size:19 final size:19
Alignment explanation
Indices: 115773090--115773129 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
115773080 AAAAATATTA
*
115773090 TATTAATTTTAATTGATTT
1 TATTAATTTTAATTAATTT
115773109 TATTAA-TTTAATTTAATTT
1 TATTAATTTTAA-TTAATTT
115773128 TA
1 TA
115773130 CTTGATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTAATTTTAATTAATTT
Found at i:115774277 original size:15 final size:15
Alignment explanation
Indices: 115774257--115774288 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
115774247 TATGCATGCA
*
115774257 AAATATAAAAGACAT
1 AAATATAAAAGAAAT
115774272 AAATATAAAAGAAAT
1 AAATATAAAAGAAAT
115774287 AA
1 AA
115774289 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGAAAT
Found at i:115774748 original size:21 final size:21
Alignment explanation
Indices: 115774712--115774765 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
115774702 AAATGGTAGC
*
115774712 AAAATAGTAA-AAAACAATAA
1 AAAATAGCAACAAAACAATAA
*
115774732 AAAATAGCAACAAAACAGTAA
1 AAAATAGCAACAAAACAATAA
* *
115774753 AAAAAAACAACAA
1 AAAATAGCAACAA
115774766 CAAAAAACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.74, C:0.11, G:0.06, T:0.09
Consensus pattern (21 bp):
AAAATAGCAACAAAACAATAA
Found at i:115774759 original size:13 final size:13
Alignment explanation
Indices: 115774743--115774782 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
115774733 AAATAGCAAC
115774743 AAAACAGTAAAAA
1 AAAACAGTAAAAA
** *
115774756 AAAACAACAACAA
1 AAAACAGTAAAAA
115774769 AAAACAGTAAAAA
1 AAAACAGTAAAAA
115774782 A
1 A
115774783 CCAACAATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.78, C:0.12, G:0.05, T:0.05
Consensus pattern (13 bp):
AAAACAGTAAAAA
Found at i:115774766 original size:24 final size:25
Alignment explanation
Indices: 115774730--115774782 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
115774720 AAAAAACAAT
* *
115774730 AAAAAATAGCAAC-AAAACAGTAAA
1 AAAAAACAACAACAAAAACAGTAAA
115774754 AAAAAACAACAACAAAAAACAGTAAA
1 AAAAAACAACAAC-AAAAACAGTAAA
115774780 AAA
1 AAA
115774783 CCAACAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
26 14 0.56
ACGTcount: A:0.75, C:0.13, G:0.06, T:0.06
Consensus pattern (25 bp):
AAAAAACAACAACAAAAACAGTAAA
Found at i:115780241 original size:22 final size:22
Alignment explanation
Indices: 115780215--115780262 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
115780205 ATATTTATAA
115780215 TGATAGAAAAAAACTCTATTTG
1 TGATAGAAAAAAACTCTATTTG
* *
115780237 TGATATAGAAAAACTCTATTTG
1 TGATAGAAAAAAACTCTATTTG
115780259 TGAT
1 TGAT
115780263 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (22 bp):
TGATAGAAAAAAACTCTATTTG
Found at i:115783047 original size:46 final size:46
Alignment explanation
Indices: 115782997--115783172 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115782987 TGGTTGAGCA
115782997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115783043 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115783088 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115783136 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115783173 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115783153 original size:93 final size:93
Alignment explanation
Indices: 115782994--115783165 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115782984 GGATGGTTGA
* *
115782994 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115783059 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115783087 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115783152 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115783166 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115790613 original size:46 final size:46
Alignment explanation
Indices: 115790563--115790738 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
115790553 TGGTTGAGCA
115790563 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115790609 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
115790654 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
115790702 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
115790739 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:115790719 original size:93 final size:93
Alignment explanation
Indices: 115790560--115790731 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
115790550 GGATGGTTGA
* *
115790560 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115790625 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
115790653 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
115790718 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
115790732 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:115792377 original size:2 final size:2
Alignment explanation
Indices: 115792370--115792401 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
115792360 GCATTCCTTT
115792370 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115792402 AAATGTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115792683 original size:7 final size:7
Alignment explanation
Indices: 115792670--115792713 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
115792660 CTATGCTCAC
115792670 ATTTAAT
1 ATTTAAT
*
115792677 TTTTAAT
1 ATTTAAT
115792684 ATTTAAT
1 ATTTAAT
115792691 ATTTAAT
1 ATTTAAT
115792698 ATTTAAT
1 ATTTAAT
115792705 ATTT-AT
1 ATTTAAT
115792711 ATT
1 ATT
115792714 CAAATTTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 5 0.14
7 30 0.86
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTAAT
Found at i:115793653 original size:33 final size:33
Alignment explanation
Indices: 115793611--115793677 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
115793601 CAACTCCATC
115793611 GCTTGATAATTACGGACGTTCATTGTTCTAAAT
1 GCTTGATAATTACGGACGTTCATTGTTCTAAAT
115793644 GCTTGATAATTACGGACGTTCATTGTTCTAAAT
1 GCTTGATAATTACGGACGTTCATTGTTCTAAAT
115793677 G
1 G
115793678 TGGCTTGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (33 bp):
GCTTGATAATTACGGACGTTCATTGTTCTAAAT
Found at i:115795435 original size:13 final size:13
Alignment explanation
Indices: 115795417--115795442 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115795407 TTATATATAA
115795417 TATATAAAAGAAG
1 TATATAAAAGAAG
115795430 TATATAAAAGAAG
1 TATATAAAAGAAG
115795443 GTTCCCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
TATATAAAAGAAG
Found at i:115796522 original size:16 final size:18
Alignment explanation
Indices: 115796503--115796538 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
115796493 ATAACTCATG
115796503 TAAAAAAT-TAA-TAGGA
1 TAAAAAATGTAATTAGGA
115796519 T-AAAAATGTAATTAGGA
1 TAAAAAATGTAATTAGGA
115796536 TAA
1 TAA
115796539 TTGAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.35
16 4 0.24
17 6 0.35
18 1 0.06
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (18 bp):
TAAAAAATGTAATTAGGA
Found at i:115796523 original size:15 final size:17
Alignment explanation
Indices: 115796505--115796538 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
115796495 AACTCATGTA
115796505 AAAAAT-TAA-TAGGAT
1 AAAAATGTAATTAGGAT
115796520 AAAAATGTAATTAGGAT
1 AAAAATGTAATTAGGAT
115796537 AA
1 AA
115796539 TTGAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 3 0.18
17 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (17 bp):
AAAAATGTAATTAGGAT
Found at i:115799052 original size:6 final size:6
Alignment explanation
Indices: 115799041--115799068 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
115799031 GTTTGAAACC
115799041 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
115799069 GCAGAAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:115801803 original size:29 final size:28
Alignment explanation
Indices: 115801756--115801810 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
115801746 ATCCGATATA
115801756 CTGATATTATGGCCCGAAGCCAAATCAG
1 CTGATATTATGGCCCGAAGCCAAATCAG
*
115801784 CTGATATTCATGGCCTGAAGCCAAATC
1 CTGATATT-ATGGCCCGAAGCCAAATC
115801811 GGTATAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (28 bp):
CTGATATTATGGCCCGAAGCCAAATCAG
Found at i:115811462 original size:46 final size:50
Alignment explanation
Indices: 115811390--115811494 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 50
115811380 GACAGGACAG
* * * *
115811390 GACAGAAATGAGCCATGTAAGTCCATA-T-CA-A-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATCTAAGCCCATATTACATATATATATGGCATTGGA
*
115811436 GACAGGAATGAGCCATCTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATCTAAGCCCATATTACATATATATATGGCATTGGA
115811486 GACAGGAAT
1 GACAGGAAT
115811495 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 24 0.48
47 1 0.02
48 1 0.02
49 1 0.02
50 23 0.46
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (50 bp):
GACAGGAATGAGCCATCTAAGCCCATATTACATATATATATGGCATTGGA
Found at i:115817263 original size:1 final size:1
Alignment explanation
Indices: 115817257--115817281 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
115817247 CACTACACAC
115817257 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
115817282 GTGTAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:115821170 original size:4 final size:4
Alignment explanation
Indices: 115821161--115821189 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
115821151 TTACCACCAA
115821161 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
115821190 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:115822232 original size:6 final size:6
Alignment explanation
Indices: 115822218--115822249 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
115822208 AAGAGAAAAT
*
115822218 AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
115822250 TAAAGGGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:115822239 original size:18 final size:17
Alignment explanation
Indices: 115822198--115822249 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
115822188 ATAAATCTTC
115822198 AAAAATAAATAAGAGAAAA
1 AAAAATAAA-AAGA-AAAA
*
115822217 TAAAATAAAAAGAAAAA
1 AAAAATAAAAAGAAAAA
*
115822234 GAAAAAGAAAAAGAAA
1 -AAAAATAAAAAGAAA
115822250 TAAAGGGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 17 0.59
19 8 0.28
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAA
Found at i:115827662 original size:12 final size:11
Alignment explanation
Indices: 115827636--115827662 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
115827626 TTTTTAATGG
115827636 TTTTTATTAAC
1 TTTTTATTAAC
115827647 TTTTTATTAAC
1 TTTTTATTAAC
115827658 TTTTT
1 TTTTT
115827663 GAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATTAAC
Found at i:115830277 original size:58 final size:56
Alignment explanation
Indices: 115830190--115830335 Score: 161
Period size: 55 Copynumber: 2.6 Consensus size: 56
115830180 GAATGAATTG
* * * * * *
115830190 AAATAGAGAAATGGAAAACATTCAGGAAATTATTATGGTTTTCTCCTAAATTAAAATGA
1 AAATAGAGAAATGG-AATCATT-TGGAAATGAATATGGTTTTCT-CAAAATGAAAATGA
*
115830249 AAATAGAGAAAATGGAATCATTTGGAAATGAATGTGGTTTTCTCAAAATGAAAATGA
1 AAATAGAG-AAATGGAATCATTTGGAAATGAATATGGTTTTCTCAAAATGAAAATGA
*
115830306 AAAT-GAGAAAT-GAATTCATTTAGAAATGAA
1 AAATAGAGAAATGGAA-TCATTTGGAAATGAA
115830336 CAAGGAATTC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
54 3 0.04
55 18 0.23
56 3 0.04
57 16 0.21
58 17 0.22
59 14 0.18
60 6 0.08
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (56 bp):
AAATAGAGAAATGGAATCATTTGGAAATGAATATGGTTTTCTCAAAATGAAAATGA
Found at i:115830347 original size:55 final size:57
Alignment explanation
Indices: 115830237--115830351 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 57
115830227 GTTTTCTCCT
* * *** **
115830237 AAATTAAAATGAAAATAGAGAAAATGGAATCATTTGGAAATGAATGTGGTTTTCTCA
1 AAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAACAAGGAATTCTCA
115830294 AAATGAAAATGAAAAT-GAG-AAAT-GAATTCATTTAGAAATGAACAAGGAATTCTCA
1 AAATGAAAATGAAAATAGAGAAAATGGAA-TCATTTAGAAATGAACAAGGAATTCTCA
115830349 AAA
1 AAA
115830352 ATGATTGGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
54 3 0.06
55 29 0.58
56 3 0.06
57 15 0.30
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.26
Consensus pattern (57 bp):
AAATGAAAATGAAAATAGAGAAAATGGAATCATTTAGAAATGAACAAGGAATTCTCA
Found at i:115832521 original size:2 final size:2
Alignment explanation
Indices: 115832514--115832543 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
115832504 TATAATTTTA
115832514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115832544 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115832548 original size:2 final size:2
Alignment explanation
Indices: 115832543--115832569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
115832533 TATATATATA
115832543 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
115832570 AAATTGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:115841233 original size:27 final size:28
Alignment explanation
Indices: 115841176--115841245 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
115841166 AAACTTGTAC
*
115841176 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
115841204 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
115841231 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
115841246 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:115841256 original size:27 final size:27
Alignment explanation
Indices: 115841176--115841257 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
115841166 AAACTTGTAC
* * *
115841176 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
115841204 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
115841231 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
115841258 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:115845849 original size:67 final size:66
Alignment explanation
Indices: 115845778--115846160 Score: 369
Period size: 67 Copynumber: 5.8 Consensus size: 66
115845768 AAAAAGCCCG
*
115845778 TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTT
1 TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTT
115845843 C
66 C
* * * ** * *
115845844 ATCAGGACATTAAACATGGGATAAAATGTATAAGACTATAGCTTAACTATAGAAACAT--AGAGT
1 -TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGT
*
115845907 CC
65 TC
* * * * *
115845909 TCCAAGACATTAAACATGGGGAAAAATGTGTAAGACCATAACTCGACCATGACAACATAGAGAGT
1 T-CAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGT
*
115845974 CC
65 TC
* * * * * * *
115845976 GTCAGGACATTAAACATGGGGTATATTATGTAAGACGATAGCTCGACTATGGAAACATTGAAAG-
1 -TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGT
115846040 TC
65 TC
* * * * * * *
115846042 TGCCAGAACATTAAACATGGGGTATATTGTGTAAGACTATAGCTCGGCTATGGCAACATAAAAAG
1 T--CAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAG
115846107 TTGC
64 TT-C
* * *** *
115846111 -CAAGACATTAAGCATGGGGTATGGTGTGTAAGACCATAGCTTGACTATGG
1 TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGG
115846161 GGGAGCCTAC
Statistics
Matches: 259, Mismatches: 49, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
64 1 0.00
65 51 0.20
66 43 0.17
67 161 0.62
68 2 0.01
69 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (66 bp):
TCAGGACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTT
C
Found at i:115845981 original size:132 final size:133
Alignment explanation
Indices: 115845782--115846101 Score: 412
Period size: 132 Copynumber: 2.4 Consensus size: 133
115845772 AGCCCGTCAG
*
115845782 GACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTTCATC
1 GACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCCATC
* * * *
115845847 AGGACATTAAACATGGGATAAAATGTATAAGACTATAGCTTAACTATAGAAACA-T-AGAGTCCT
66 AGGACATTAAACATGGGATAAAATATATAAGACGATAGCTCAACTATAGAAACATTGAAAGT-CT
115845910 -CCAA
130 GCC-A
* * * * * *
115845914 GACATTAAACATGGGGAAAAATGTGTAAGACCATAACTCGACCATGACAACATAGAGAGTCCGTC
1 GACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCCATC
* * * * * *
115845979 AGGACATTAAACATGGGGTATATTATGTAAGACGATAGCTCGACTATGGAAACATTGAAAGTCTG
66 AGGACATTAAACATGGGATAAAATATATAAGACGATAGCTCAACTATAGAAACATTGAAAGTCTG
115846044 CCA
131 CCA
* * *
115846047 GAACATTAAACATGGGGTATATTGTGTAAGACTATAGCTCGGCTATGGCAACATA
1 G-ACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATA
115846102 AAAAGTTGCC
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 103 0.65
133 5 0.03
134 51 0.32
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (133 bp):
GACATTAAACATGGGGTAAAATGTGTAAGACCATAGCTCGGCTATGGCAACATAGAGAGTCCATC
AGGACATTAAACATGGGATAAAATATATAAGACGATAGCTCAACTATAGAAACATTGAAAGTCTG
CCA
Found at i:115849524 original size:47 final size:45
Alignment explanation
Indices: 115849461--115849587 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 45
115849451 CATCTCGTAA
*
115849461 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAA-T-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCG--T-AAGTGG
* * * *
115849507 CCGATGCCATGTTCCAGACATGGTCTTACAATGGCTCTCGTAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTAA-GTGG
115849555 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
115849588 TCAGAATAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
45 2 0.03
46 18 0.26
47 27 0.40
48 21 0.31
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTAAGTGG
Found at i:115851359 original size:22 final size:23
Alignment explanation
Indices: 115851334--115851379 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
115851324 CAACCAAATC
115851334 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
115851356 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
115851379 A
1 A
115851380 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:115851385 original size:23 final size:23
Alignment explanation
Indices: 115851341--115851385 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
115851331 ATCAATTCAA
*
115851341 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
115851364 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
115851386 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:115854655 original size:14 final size:14
Alignment explanation
Indices: 115854636--115854664 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
115854626 GTCGGCATAT
115854636 GATTTTTGACGATC
1 GATTTTTGACGATC
115854650 GATTTTTGACGATC
1 GATTTTTGACGATC
115854664 G
1 G
115854665 GAAGCTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (14 bp):
GATTTTTGACGATC
Found at i:115859133 original size:22 final size:23
Alignment explanation
Indices: 115859108--115859153 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
115859098 CAACCAAATC
115859108 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
115859130 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
115859153 A
1 A
115859154 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:115859159 original size:23 final size:23
Alignment explanation
Indices: 115859115--115859159 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
115859105 ATCAATTCAA
*
115859115 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
115859138 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
115859160 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:115862009 original size:48 final size:47
Alignment explanation
Indices: 115861927--115862039 Score: 156
Period size: 48 Copynumber: 2.4 Consensus size: 47
115861917 GGCCATTACA
** *
115861927 GTAGCCAAATCAAGGTAACTTATCTCGGAGTACCTATACCATGTCCCC
1 GTAGCCAAATCAAGGTAACTTATCTCAAAATACCTATACCATGT-CCC
*
115861975 GTAGCCAAATCAAGGTAACTCT-TCTCAAAATACCTATATCATGTCCC
1 GTAGCCAAATCAAGGTAACT-TATCTCAAAATACCTATACCATGTCCC
*
115862022 GCAGCCAAATCAAGGTAA
1 GTAGCCAAATCAAGGTAA
115862040 TATTCGCACC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
47 20 0.34
48 38 0.64
49 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
GTAGCCAAATCAAGGTAACTTATCTCAAAATACCTATACCATGTCCC
Found at i:115871767 original size:28 final size:28
Alignment explanation
Indices: 115871724--115871807 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
115871714 GGTCGTGTGT
* * *
115871724 CCCCTATTTTTCAGATTTTATAGTTTTG
1 CCCCTATTTTTTAGATTTTACAGTTTTA
* *
115871752 CCCTTATTTTTTAGATTTTACAATTTTA
1 CCCCTATTTTTTAGATTTTACAGTTTTA
*
115871780 CCCCTATTTTTTAAAATTTTACAGTTTT
1 CCCCTATTTTTT-AGATTTTACAGTTTT
115871808 TGTAACACCC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 34 0.72
29 13 0.28
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.55
Consensus pattern (28 bp):
CCCCTATTTTTTAGATTTTACAGTTTTA
Found at i:115871853 original size:18 final size:18
Alignment explanation
Indices: 115871830--115871871 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
115871820 TACTCGTATC
115871830 CGAGGCCGGGCTAAGGTA
1 CGAGGCCGGGCTAAGGTA
115871848 CGAGGCCGGGCTAAGGTA
1 CGAGGCCGGGCTAAGGTA
115871866 CGAGGC
1 CGAGGC
115871872 GTGACCAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.24, G:0.45, T:0.10
Consensus pattern (18 bp):
CGAGGCCGGGCTAAGGTA
Found at i:115872509 original size:2 final size:2
Alignment explanation
Indices: 115872502--115872536 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
115872492 AAGACTAGTC
115872502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
115872537 CATGTCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:115875463 original size:25 final size:27
Alignment explanation
Indices: 115875409--115875472 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
115875399 TTTTAAGCTA
**
115875409 TTACAGTTTTGCCCCTATTTTTCATTTT
1 TTACA-TTTTGCCCCTATTTTTCAAATT
115875437 TTACATTTT-CCCCTA-TTTTCAAATT
1 TTACATTTTGCCCCTATTTTTCAAATT
115875462 TTACAATTTTG
1 TTAC-ATTTTG
115875473 TCTGCACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 12 0.38
26 11 0.34
27 4 0.12
28 5 0.16
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (27 bp):
TTACATTTTGCCCCTATTTTTCAAATT
Found at i:115875463 original size:26 final size:26
Alignment explanation
Indices: 115875409--115875472 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
115875399 TTTTAAGCTA
*
115875409 TTACAGTTTTGCCCCTATTTTTCATTTT
1 TTACA-TTTTGCCCCTATTTTTCA-ATT
115875437 TTACATTTT-CCCCTA-TTTTCAAATT
1 TTACATTTTGCCCCTATTTTTC-AATT
115875462 TTACAATTTTG
1 TTAC-ATTTTG
115875473 TCTGCACCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 11 0.34
26 12 0.38
27 4 0.12
28 5 0.16
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (26 bp):
TTACATTTTGCCCCTATTTTTCAATT
Found at i:115875978 original size:22 final size:22
Alignment explanation
Indices: 115875953--115876024 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
115875943 GTCTGCACCG
115875953 ATTAGTGGTTTATCCACATCGA
1 ATTAGTGGTTTATCCACATCGA
* * **
115875975 ATTAGCAGCTTTTATCTGCATC-A
1 ATTAG-TG-GTTTATCCACATCGA
* * *
115875998 ATTAGTGGTTTACCCACACCGT
1 ATTAGTGGTTTATCCACATCGA
115876020 ATTAG
1 ATTAG
115876025 CAACTTTAAT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 8 0.22
22 11 0.31
23 7 0.19
24 10 0.28
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
ATTAGTGGTTTATCCACATCGA
Found at i:115876002 original size:45 final size:45
Alignment explanation
Indices: 115875944--115876031 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
115875934 TAGCAGTTTG
* * * *
115875944 TCTGCACCGATTAGTGGTTTATCCACATCGAATTAGCAGCTTTTA
1 TCTGCACCAATTAGTGGTTTACCCACACCGAATTAGCAACTTTTA
* *
115875989 TCTGCATCAATTAGTGGTTTACCCACACCGTATTAGCAACTTT
1 TCTGCACCAATTAGTGGTTTACCCACACCGAATTAGCAACTTT
115876032 AATATGCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (45 bp):
TCTGCACCAATTAGTGGTTTACCCACACCGAATTAGCAACTTTTA
Found at i:115880929 original size:26 final size:26
Alignment explanation
Indices: 115880900--115880951 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
115880890 AAAAAAAAAG
115880900 AAAATAGCAAGAAAATAA-TTTTTTTTA
1 AAAATAGCAA-AAAA-AAGTTTTTTTTA
*
115880927 AAAATAGTAAAAAAAAGTTTTTTTT
1 AAAATAGCAAAAAAAAGTTTTTTTT
115880952 GTTTTCGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 2 0.09
26 12 0.52
27 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (26 bp):
AAAATAGCAAAAAAAAGTTTTTTTTA
Found at i:115881252 original size:19 final size:20
Alignment explanation
Indices: 115881228--115881282 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
115881218 TGATTGTCAA
115881228 AAAAATATATATTAAAA-GT
1 AAAAATATATATTAAAATGT
* *
115881247 AAAAAT-TATTTTTAAAATTT
1 AAAAATATA-TATTAAAATGT
115881267 AAAAA-A-ATATTAAAAT
1 AAAAATATATATTAAAAT
115881283 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 10 0.33
19 14 0.47
20 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAAATATATATTAAAATGT
Found at i:115881689 original size:13 final size:13
Alignment explanation
Indices: 115881661--115881726 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
115881651 AGTTTGTCAA
115881661 TGCTTTT-AATAAG
1 TGCTTTTGAA-AAG
*
115881674 TGCATTTGAAAAG
1 TGCTTTTGAAAAG
* *
115881687 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
115881700 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
115881713 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
115881726 T
1 T
115881727 TTAATTTAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
13 40 0.95
14 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:115892747 original size:35 final size:35
Alignment explanation
Indices: 115892720--115892885 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
115892710 CATGGCAAAG
*
115892720 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
115892755 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
115892790 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
115892830 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
115892865 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
115892886 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:115892839 original size:75 final size:75
Alignment explanation
Indices: 115892720--115892890 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
115892710 CATGGCAAAG
** *
115892720 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
115892779 CCATACTGAGC
65 CCATACCGAGC
115892790 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
115892855 CATACCGAGT
66 CATACCGAGC
**
115892865 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
115892891 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:115900231 original size:35 final size:35
Alignment explanation
Indices: 115900204--115900369 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
115900194 CATGGCAAAG
*
115900204 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
115900239 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
115900274 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
115900314 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
115900349 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
115900370 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:115900323 original size:75 final size:75
Alignment explanation
Indices: 115900204--115900374 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
115900194 CATGGCAAAG
** *
115900204 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
115900263 CCATACTGAGC
65 CCATACCGAGC
115900274 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
115900339 CATACCGAGT
66 CATACCGAGC
**
115900349 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
115900375 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:115912212 original size:20 final size:19
Alignment explanation
Indices: 115912187--115912354 Score: 133
Period size: 20 Copynumber: 8.4 Consensus size: 19
115912177 ATAGATTCAC
115912187 AATTTTTAAATAATTTTTAA
1 AATTTTT-AATAATTTTTAA
* *
115912207 AATTTTTAATAATTACTTAC
1 AATTTTTAATAATT-TTTAA
115912227 AATTTTTAATAATTATTTGAA
1 AATTTTTAATAATT-TTT-AA
* *
115912248 ACTTTTT-A-AATTTTTAT
1 AATTTTTAATAATTTTTAA
115912265 AATTTTTAATAATTTTTACA
1 AATTTTTAATAATTTTTA-A
* *
115912285 AATTCTAAATAATGTTTTATA
1 AATTTTTAATAAT-TTTTA-A
* * *
115912306 ATTTTTTTATAATTTTAAA
1 AATTTTTAATAATTTTTAA
* *
115912325 ATATTTTTAACAATATTTAA
1 A-ATTTTTAATAATTTTTAA
115912345 TAATTATTTA
1 -AATT-TTTA
115912355 CAATATTTAT
Statistics
Matches: 118, Mismatches: 21, Indels: 17
0.76 0.13 0.11
Matches are distributed among these distances:
17 7 0.06
18 4 0.03
19 21 0.18
20 59 0.50
21 27 0.23
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (19 bp):
AATTTTTAATAATTTTTAA
Found at i:115912213 original size:10 final size:9
Alignment explanation
Indices: 115912187--115912354 Score: 86
Period size: 10 Copynumber: 16.9 Consensus size: 9
115912177 ATAGATTCAC
115912187 AATTTTTAAA
1 AATTTTT-AA
115912197 TAATTTTTAA
1 -AATTTTTAA
115912207 AATTTTTAA
1 AATTTTTAA
* *
115912216 TAATTACTTAC
1 -AATT-TTTAA
115912227 AATTTTTAA
1 AATTTTTAA
115912236 TAATTATTTGAA
1 -AATT-TTT-AA
*
115912248 ACTTTTT-A
1 AATTTTTAA
*
115912256 AATTTTTAT
1 AATTTTTAA
115912265 AATTTTTAA
1 AATTTTTAA
115912274 TAATTTTTACA
1 -AATTTTTA-A
* *
115912285 AATTCTAAA
1 AATTTTTAA
115912294 TAATGTTTTATA
1 -AAT-TTTTA-A
* *
115912306 ATTTTTTTAT
1 A-ATTTTTAA
*
115912316 AATTTTAAA
1 AATTTTTAA
115912325 ATATTTTTAA
1 A-ATTTTTAA
*
115912335 CAATATTTAA
1 -AATTTTTAA
115912345 TAATTATTTA
1 -AATT-TTTA
115912355 CAATATTTAT
Statistics
Matches: 121, Mismatches: 21, Indels: 30
0.70 0.12 0.17
Matches are distributed among these distances:
8 7 0.06
9 27 0.22
10 52 0.43
11 31 0.26
12 4 0.03
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:115912312 original size:58 final size:60
Alignment explanation
Indices: 115912196--115912334 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 60
115912186 CAATTTTTAA
* *
115912196 ATAATTTTTAAAATTTTTAATAATTACTTACAATTTTTAATAATTATTTGAAA-CTTTTT
1 ATAATTTTTAAAATTTTTAATAATTACTTACAATTCTAAATAATTATTTGAAATCTTTTT
* * *
115912255 A-AATTTTTATAATTTTTAATAATT-TTTACAAATTCTAAATAATGT-TTT-ATAATTTTTTT
1 ATAATTTTTAAAATTTTTAATAATTACTTAC-AATTCTAAATAAT-TATTTGA-AATCTTTTT
*
115912314 ATAATTTTAAAATATTTTTAA
1 ATAATTTTTAAA-ATTTTTAA
115912335 CAATATTTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
57 5 0.07
58 38 0.57
59 8 0.12
60 8 0.12
61 8 0.12
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (60 bp):
ATAATTTTTAAAATTTTTAATAATTACTTACAATTCTAAATAATTATTTGAAATCTTTTT
Found at i:115918756 original size:29 final size:29
Alignment explanation
Indices: 115918724--115918781 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
115918714 TACAATTAGG
115918724 AATATTTTTTAGATGAAAATTGCAACATT
1 AATATTTTTTAGATGAAAATTGCAACATT
115918753 AATATTTTTTAGATGAAAATTGCAACATT
1 AATATTTTTTAGATGAAAATTGCAACATT
115918782 CTTTTAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (29 bp):
AATATTTTTTAGATGAAAATTGCAACATT
Done.