Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 170 of 333
Found at i:55970832 original size:39 final size:40
Alignment explanation
Indices: 55970675--55970898 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
55970665 GCTCCTCGTT
* * * * *
55970675 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAATTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
55970715 CAAATGCCTTCGGGACTTAACTC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* *
55970755 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
55970795 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
55970834 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
55970875 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55970899 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.31
40 97 0.61
41 11 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:55971995 original size:14 final size:14
Alignment explanation
Indices: 55971976--55972002 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55971966 AGGATGAGCA
55971976 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
55971990 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
55972003 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:55991188 original size:27 final size:27
Alignment explanation
Indices: 55991158--55991335 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
55991148 ATATTGAGCC
* *
55991158 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
55991185 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55991212 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55991240 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55991267 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
55991294 CGCACACATAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
55991321 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55991336 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55991297 original size:82 final size:81
Alignment explanation
Indices: 55991179--55991334 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
55991169 TGCTATATAA
* * *
55991179 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACATAGTGCAACATAGTCAAA-TCGCA
55991244 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55991261 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACATAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACATAGTGCAACATAGTCAAATCGCA
55991325 CACTTAGTGC
65 CACTTAGTGC
55991335 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACATAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55997680 original size:40 final size:40
Alignment explanation
Indices: 55997643--55997828 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
55997633 GCTACTCGTT
* *
55997643 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
55997683 CAATTGCCTTCGGGACTTCACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55997723 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
55997763 CAAATGCCTTCGGGACTTAACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
55997804 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55997829 CATCATTCAA
Statistics
Matches: 135, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 125 0.93
41 10 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56000612 original size:27 final size:27
Alignment explanation
Indices: 56000582--56000733 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
56000572 ATATTAAGTC
* *
56000582 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
56000609 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
56000637 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
56000664 CGCACACTTAGTGCAACATACTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
56000691 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
56000719 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56000734 GTACAATTTA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 68 0.60
28 45 0.40
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:56000650 original size:55 final size:54
Alignment explanation
Indices: 56000582--56000733 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
56000572 ATATTAAGTC
* *
56000582 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
56000637 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATACTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
56000691 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
56000734 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:56000719 original size:82 final size:82
Alignment explanation
Indices: 56000582--56000733 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
56000572 ATATTAAGTC
* * *
56000582 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATACTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
56000647 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
56000664 CGCACACTTAGTGCAACATACTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATACTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
56000729 GTGCT
66 GTGCT
56000734 GTACAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATACTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:56008431 original size:40 final size:40
Alignment explanation
Indices: 56008394--56008539 Score: 188
Period size: 40 Copynumber: 3.6 Consensus size: 40
56008384 GCTACTCGTT
* * *
56008394 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
56008434 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56008474 CAAATGCCTTCGGGACTTAACCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
* *
56008515 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56008540 CATCATTCAA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 85 0.89
41 10 0.11
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56023418 original size:40 final size:40
Alignment explanation
Indices: 56023348--56023565 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
56023338 AAGCCAAGTA
* * * *
56023348 CCTTCGGGATTTA-ACCAGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
56023387 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56023427 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56023467 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** **
56023507 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAACGTAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56023547 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56023566 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56027102 original size:14 final size:13
Alignment explanation
Indices: 56027083--56027113 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
56027073 ATATTTAACC
56027083 TGTTCTTAATTAT
1 TGTTCTTAATTAT
56027096 GTGTTCTTAATTAT
1 -TGTTCTTAATTAT
56027110 TGTT
1 TGTT
56027114 TTGATATCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (13 bp):
TGTTCTTAATTAT
Found at i:56033800 original size:16 final size:16
Alignment explanation
Indices: 56033781--56033817 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
56033771 TTTCATTAAG
56033781 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
56033797 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
56033813 GTTTT
1 TTTTT
56033818 CCTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:56039610 original size:26 final size:26
Alignment explanation
Indices: 56039562--56039611 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
56039552 ATTTAACACC
* * * *
56039562 TAGGGGTATTTTGGTCATTTTTCCCT
1 TAGGGGCATTTCGGTAATATTTCCCT
56039588 TAGGGGCATTTCGGTAATATTTCC
1 TAGGGGCATTTCGGTAATATTTCC
56039612 TCTATTACAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (26 bp):
TAGGGGCATTTCGGTAATATTTCCCT
Found at i:56039954 original size:29 final size:29
Alignment explanation
Indices: 56039897--56039998 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
56039887 TACCTGTGTC
* *
56039897 TGGCCCATTAAGCCC-AATCATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATGT-ATA
*
56039925 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
* *
56039954 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
56039983 TGGCCCATTAGGCCCA
1 TGGCCCATTAGGCCCA
56039999 GTCGCATTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 14 0.22
29 50 0.77
30 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGTATA
Found at i:56039991 original size:58 final size:57
Alignment explanation
Indices: 56039888--56039998 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
56039878 AATTTCACAT
* * *
56039888 ACCTGTGTCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
56039945 ACCTGTATATGGCCTATTAGGCCCAAATCACATTTATATGGCCCATTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
56039999 GTCGCATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:56040092 original size:17 final size:18
Alignment explanation
Indices: 56040070--56040103 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56040060 TACCTATGAT
56040070 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
56040087 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
56040104 TCTGGACCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:56041542 original size:16 final size:17
Alignment explanation
Indices: 56041514--56041552 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
56041504 ACAAAAAAAG
56041514 TTTGGGATTTCGAGATT
1 TTTGGGATTTCGAGATT
56041531 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCGAGATT
56041547 TTTGGG
1 TTTGGG
56041553 GCGTTACAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCGAGATT
Found at i:56043086 original size:40 final size:40
Alignment explanation
Indices: 56043031--56043225 Score: 227
Period size: 40 Copynumber: 4.9 Consensus size: 40
56043021 GGATATAGCT
* * *
56043031 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
56043071 ACTCGCACAATTGCCTTCGGAACTTAGCGCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
56043111 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GGTTATAGTA
* *
56043151 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
56043190 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
56043226 CATCCAAATA
Statistics
Matches: 132, Mismatches: 17, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 30 0.23
40 97 0.73
41 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:56056255 original size:27 final size:28
Alignment explanation
Indices: 56056171--56056268 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
56056161 TAAATTGTAC
*
56056171 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
56056199 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
56056227 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
56056254 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56056269 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:56056279 original size:27 final size:27
Alignment explanation
Indices: 56056171--56056281 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
56056161 TAAATTGTAC
* *
56056171 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
56056199 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
56056227 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
56056254 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
56056281 A
1 A
56056282 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:56062215 original size:38 final size:40
Alignment explanation
Indices: 56062007--56062215 Score: 264
Period size: 38 Copynumber: 5.5 Consensus size: 40
56061997 TCCAAACCAA
* *
56062007 GCCTTCGGG-TTTAG-CC-GATATAGCT-ACTCGCTCAAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAAT
* *
56062044 GCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
56062084 GCCTTCGGGACTTAGCCC--ATATAGTAACTCGCAC-AAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
*
56062121 GCCTTCAGGACTT-GCCCGGATATAGTAACTCG-ACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
56062159 G-CTTCGGGACTTAGCCCGGA-ATTAGT-ACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAAT
56062197 GCCTTCGGG-CTTAGCCCGG
1 GCCTTCGGGACTTAGCCCGG
56062216 TTATCATCCG
Statistics
Matches: 153, Mismatches: 8, Indels: 21
0.84 0.04 0.12
Matches are distributed among these distances:
36 4 0.03
37 42 0.27
38 63 0.41
39 10 0.07
40 34 0.22
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT
Found at i:56069267 original size:40 final size:40
Alignment explanation
Indices: 56069188--56069403 Score: 294
Period size: 40 Copynumber: 5.4 Consensus size: 40
56069178 ACCCAAGCAT
* * * *
56069188 CTTCGGGATTTAG-CCGAATATAAGT-ACTTGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATGC
* *
56069227 CTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
56069267 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
56069307 CTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * *
56069347 TTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
*
56069387 CTTCAGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
56069404 ATTATCATCC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:56076525 original size:40 final size:40
Alignment explanation
Indices: 56076399--56076613 Score: 303
Period size: 40 Copynumber: 5.5 Consensus size: 40
56076389 ACCCAAGCAT
* * * * *
56076399 CTTCGGGATTTAG-CCGAATATACT-ACTTGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
56076437 CTTCAGGACTTAGCCCGGTTATAGTAACTCGCA-AAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
56076476 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
56076516 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * *
56076556 CTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
56076596 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
56076614 TTATCATCCG
Statistics
Matches: 160, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
38 11 0.07
39 46 0.29
40 103 0.64
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:56080633 original size:24 final size:25
Alignment explanation
Indices: 56080566--56080649 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
56080556 AGGAAGTGCA
* * *
56080566 AAAAAGGCTTTTGCCCCAGTATACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
56080591 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
56080617 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
56080640 AAAAGAGGCT
1 AAAAG-GGCT
56080650 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.25
25 8 0.15
26 22 0.42
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:56087074 original size:47 final size:47
Alignment explanation
Indices: 56087011--56087370 Score: 576
Period size: 47 Copynumber: 7.6 Consensus size: 47
56087001 CCCTTCGGGA
* * *
56087011 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
56087058 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
56087105 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56087152 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56087201 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56087248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56087295 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56087344 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56087371 ACCAACCCTT
Statistics
Matches: 292, Mismatches: 17, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
47 202 0.69
49 90 0.31
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56087208 original size:96 final size:94
Alignment explanation
Indices: 56087011--56087370 Score: 594
Period size: 96 Copynumber: 3.8 Consensus size: 94
56087001 CCCTTCGGGA
* * * * *
56087011 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
56087076 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
56087105 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
* *
56087170 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
56087201 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
56087266 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
56087295 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56087360 ACTTTCACATT
64 ACTTTCACATT
56087371 ACCAACCCTT
Statistics
Matches: 247, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
94 92 0.37
96 155 0.63
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:56087210 original size:22 final size:22
Alignment explanation
Indices: 56087182--56087257 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
56087172 TTTCACATTC
56087182 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
56087204 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
56087228 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56087251 ATCACAT
1 ATCACAT
56087258 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56087280 original size:143 final size:143
Alignment explanation
Indices: 56087011--56087370 Score: 643
Period size: 143 Copynumber: 2.5 Consensus size: 143
56087001 CCCTTCGGGA
* * * *
56087011 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56087074 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
56087139 TCGGCCATTAGGC
131 TCGGCCATTAGGC
56087152 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* * *
56087217 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
56087282 TCGGCCATTAGGC
131 TCGGCCATTAGGC
56087295 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56087360 ACTTTCACATT
66 ACTTTCACATT
56087371 ACCAACCCTT
Statistics
Matches: 210, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
141 10 0.05
142 1 0.00
143 199 0.95
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:56087700 original size:40 final size:40
Alignment explanation
Indices: 56087595--56087737 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
56087585 GCTACTCGTT
*
56087595 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56087635 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
56087675 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
56087716 CAAA-GCCTTCGGGACTCAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
56087738 CGACATCATT
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 73 0.82
41 13 0.15
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56089956 original size:28 final size:27
Alignment explanation
Indices: 56089893--56090009 Score: 180
Period size: 27 Copynumber: 4.3 Consensus size: 27
56089883 ATATTAAGTC
* *
56089893 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
56089920 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
56089948 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
56089975 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
56090003 CGCACAC
1 CGCACAC
56090010 GTAGCGCCAA
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
27 48 0.56
28 37 0.44
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56089977 original size:55 final size:55
Alignment explanation
Indices: 56089893--56090009 Score: 198
Period size: 55 Copynumber: 2.1 Consensus size: 55
56089883 ATATTAAGTC
*
56089893 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * *
56089948 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
56090003 CGCACAC
1 CGCACAC
56090010 GTAGCGCCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (55 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:56094463 original size:40 final size:40
Alignment explanation
Indices: 56094431--56094700 Score: 423
Period size: 40 Copynumber: 6.8 Consensus size: 40
56094421 CCAGCATGAT
* * * *
56094431 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
56094471 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
56094511 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56094551 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
56094591 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56094631 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
56094671 TGCTCTTCGGGACTTAGCCCGGATACATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
56094701 TCGTCGAGAC
Statistics
Matches: 214, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:56097175 original size:49 final size:47
Alignment explanation
Indices: 56096925--56097428 Score: 767
Period size: 47 Copynumber: 10.6 Consensus size: 47
56096915 CCCTTCGGGA
* * * * *
56096925 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56096972 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56097019 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56097065 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56097114 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56097161 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTATGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56097208 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56097257 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56097306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56097353 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56097402 CTTATCACATACATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56097429 ACCAACCCTT
Statistics
Matches: 422, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
46 9 0.02
47 232 0.55
48 34 0.08
49 147 0.35
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56097237 original size:96 final size:95
Alignment explanation
Indices: 56096925--56097428 Score: 798
Period size: 96 Copynumber: 5.3 Consensus size: 95
56096915 CCCTTCGGGA
* * * * * * *
56096925 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* *
56096989 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATTGGCCATTCGGC
*
56097019 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
56097083 ACTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATTGGCCATTCGGC
*
56097114 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* ** *
56097178 CTTTCACATTCATCACATCGGCCATTATGT
66 CTTTCACATTCATCACATTGGCCATTCGGC
56097208 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
56097273 ACACTTTCACATTCATCACATTGGCCATTCGGC
63 ACACTTTCACATTCATCACATTGGCCATTCGGC
56097306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
56097371 ACTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATTGGCCATTCGGC
*
56097402 CTTATCACATACATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56097429 ACCAACCCTT
Statistics
Matches: 381, Mismatches: 22, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
93 8 0.02
94 81 0.21
95 79 0.21
96 170 0.45
98 43 0.11
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56097690 original size:40 final size:40
Alignment explanation
Indices: 56097653--56097745 Score: 136
Period size: 40 Copynumber: 2.3 Consensus size: 40
56097643 GCTACTCGTT
*
56097653 CAAATGCCTTCGGGACA-TAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGA-ATTAACCCAGATT-TAGTAACTCGCA
*
56097693 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCAGATTTAGTAACTCGCA
56097733 CAAATGCCTTCGG
1 CAAATGCCTTCGG
56097746 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 1 0.02
40 46 0.94
41 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGAATTAACCCAGATTTAGTAACTCGCA
Found at i:56097759 original size:40 final size:39
Alignment explanation
Indices: 56097620--56097746 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 39
56097610 AAATCACATA
**
56097620 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAA-TTAACCCGGATATAG-TAACTCGCACAAATG
* * *
56097659 CCTTCGGGACA-TAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTC-GGA-ATTAACCCGGATATAGTAACTCGCACAAATG
*
56097699 CCTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTC-GGAATTAACCCGGATATAGTAACTCGCACAAATG
56097739 CCTTCGGA
1 CCTTCGGA
56097747 TCTTAGTCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
39 12 0.16
40 61 0.82
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
CCTTCGGAATTAACCCGGATATAGTAACTCGCACAAATG
Found at i:56102023 original size:43 final size:44
Alignment explanation
Indices: 56101924--56102045 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 44
56101914 ACCAAGATGT
*
56101924 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTAC
* * *
56101967 GAATACGTATAAGACCATGTCTGGGACATTGGCATCAT-TATT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTATTAC
* * *
56102010 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC
56102046 GATATGTGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 62 0.93
44 4 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTAC
Found at i:56102063 original size:43 final size:42
Alignment explanation
Indices: 56101930--56102070 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 42
56101920 ATGTGATTAC
*
56101930 ATGTAAGACCATGTCTGGGACATTGGCATTG-TATT-ATGAAT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAT-AAT
* *
56101971 ACGTATAAGACCATGTCTGGGACATTGGCATC-ATTATTCGAT-TT
1 A--TGTAAGACCATGTCTGGGACATTGGCATCGA-TATT-GATAAT
* *
56102015 CATGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAAT
1 -ATGTAAGACCATGTCTGGGACATTGGCATCGATAT-TGATAAT
56102059 ATGTAAGACCAT
1 ATGTAAGACCAT
56102071 ATTGGGGATA
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
41 1 0.01
43 70 0.85
44 8 0.10
45 1 0.01
46 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGATAAT
Found at i:56103855 original size:46 final size:45
Alignment explanation
Indices: 56103802--56103977 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
56103792 TATTTGGGCA
56103802 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
56103848 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
56103895 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56103941 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56103978 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.63
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56103951 original size:93 final size:93
Alignment explanation
Indices: 56103798--56103969 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56103788 AGGATATTTG
* * *
56103798 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
56103863 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* *
56103891 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
56103956 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
56103970 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:56115088 original size:516 final size:516
Alignment explanation
Indices: 56114110--56115144 Score: 1874
Period size: 516 Copynumber: 2.0 Consensus size: 516
56114100 AAATATTTAA
* *
56114110 TGACGTAAAAAGATTTGAATTTACGATAGAGAAGATGGTTAGAACTGCTAAAAGACTACGAACTT
1 TGACGCAAAAAGATTTGAATTTACGATAGAGAAGATGGTTAGAACTACTAAAAGACTACGAACTT
* **
56114175 GTGATTGATTATCACCCGGGAAAAGTAAATGTGGTTGCTGATGCTTTGAGTCGAAAATCGTTATT
66 GTGATTGATTATCACCCAGGAAAAGTAAATGTGGTTGCCAATGCTTTGAGTCGAAAATCGTTATT
56114240 TGCAATGAATGCTCATTTAGTTCGTTCTGATAATGGTTCAGTTTTAGCTGAATTAAAAGCGAGAC
131 TGCAATGAATGCTCATTTAGTTCGTTCTGATAATGGTTCAGTTTTAGCTGAATTAAAAGCGAGAC
*
56114305 CTTTTTTTTACAATAGATTATTGAAGCTTAGAAGGTTGATAATAAAATTATGGCTAAACGAACTC
196 CTTTTTTTTACAACAGATTATTGAAGCTTAGAAGGTTGATAATAAAATTATGGCTAAACGAACTC
*
56114370 AATGTAATTTTGATTCTGATTCTGAATTTCGAATAGATGATGATGATTGTCTGAGGTTCAGAAAT
261 AATGTAATTTTGATTCTGATTCTGAATTTCGAATAGATGATGATGATTGTATGAGGTTCAGAAAT
56114435 AGACTTTGTGTTCCAAGAAATCTGGATTTCATACAAAAAATTTTGAGTGAAGCTCACAGTAGTAG
326 AGACTTTGTGTTCCAAGAAATCTGGATTTCATACAAAAAATTTTGAGTGAAGCTCACAGTAGTAG
56114500 ATTTTCTATACATCCGGGAAGTACAAAAATGTATAATGATTTGAAACAACTATACTGGTGCCCAG
391 ATTTTCTATACATCCGGGAAGTACAAAAATGTATAATGATTTGAAACAACTATACTGGTGCCCAG
* *
56114565 GAATGAAAAGAGATATTTCTAACTTTGTTTCAAGATGTTTTATTTGTCAGCAAGTTAAAGC
456 GAATGAAAAGAGATATTTCTAACTTCGTTTCAAGATGTTTAATTTGTCAGCAAGTTAAAGC
*
56114626 TGACGCAAAAAGATTTGAATTTACGATAGAGAAGATGGTTAGAACTATTAAAAGACTACGAACTT
1 TGACGCAAAAAGATTTGAATTTACGATAGAGAAGATGGTTAGAACTACTAAAAGACTACGAACTT
** * *
56114691 GTGATTGATTATTTCCCAGGAAAAGTAAATGTGGTTGCCAATGCTTTGAGTCGGAAATTGTTATT
66 GTGATTGATTATCACCCAGGAAAAGTAAATGTGGTTGCCAATGCTTTGAGTCGAAAATCGTTATT
56114756 TGCAATGAATGCTCATTTAGTTC-TGTCTGATAATGGTTCAGTTTTAGCTGAATTAAAAGCGAGA
131 TGCAATGAATGCTCATTTAGTTCGT-TCTGATAATGGTTCAGTTTTAGCTGAATTAAAAGCGAGA
56114820 CCTTTTTTTTACAACAGATTATTGAAGCTTAGAAGGTTGATAATAAAATTATGGCTAAACGAACT
195 CCTTTTTTTTACAACAGATTATTGAAGCTTAGAAGGTTGATAATAAAATTATGGCTAAACGAACT
56114885 CAATGTAATTTTGATTCTGATTCTGAATTTCGAATAGATGATGATGATTGTATGAGGTTCAGAAA
260 CAATGTAATTTTGATTCTGATTCTGAATTTCGAATAGATGATGATGATTGTATGAGGTTCAGAAA
* *
56114950 TAGACTTTGTGTTCCAAGAAATCTGGATTTGATACAAACAATTTTGAGTGAAGCTCACAGTAGTA
325 TAGACTTTGTGTTCCAAGAAATCTGGATTTCATACAAAAAATTTTGAGTGAAGCTCACAGTAGTA
* * *
56115015 GATTTTCTGTACATCCGGGAAGTACAAAAATGTATAATGATTTGAAACAACTATACTGGTGGCCG
390 GATTTTCTATACATCCGGGAAGTACAAAAATGTATAATGATTTGAAACAACTATACTGGTGCCCA
*
56115080 GGAATGAAAAGAGATATTTCTGACTTCGTTTCAAGATGTTTAATTTGTCAGCAAGTTAAAGC
455 GGAATGAAAAGAGATATTTCTAACTTCGTTTCAAGATGTTTAATTTGTCAGCAAGTTAAAGC
56115142 TGA
1 TGA
56115145 ACATCAGGTG
Statistics
Matches: 498, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
515 1 0.00
516 497 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (516 bp):
TGACGCAAAAAGATTTGAATTTACGATAGAGAAGATGGTTAGAACTACTAAAAGACTACGAACTT
GTGATTGATTATCACCCAGGAAAAGTAAATGTGGTTGCCAATGCTTTGAGTCGAAAATCGTTATT
TGCAATGAATGCTCATTTAGTTCGTTCTGATAATGGTTCAGTTTTAGCTGAATTAAAAGCGAGAC
CTTTTTTTTACAACAGATTATTGAAGCTTAGAAGGTTGATAATAAAATTATGGCTAAACGAACTC
AATGTAATTTTGATTCTGATTCTGAATTTCGAATAGATGATGATGATTGTATGAGGTTCAGAAAT
AGACTTTGTGTTCCAAGAAATCTGGATTTCATACAAAAAATTTTGAGTGAAGCTCACAGTAGTAG
ATTTTCTATACATCCGGGAAGTACAAAAATGTATAATGATTTGAAACAACTATACTGGTGCCCAG
GAATGAAAAGAGATATTTCTAACTTCGTTTCAAGATGTTTAATTTGTCAGCAAGTTAAAGC
Found at i:56116186 original size:16 final size:16
Alignment explanation
Indices: 56116165--56116196 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56116155 AAAATTTCTC
56116165 TAGTTAAAGTGATGTG
1 TAGTTAAAGTGATGTG
56116181 TAGTTAAAGTGATGTG
1 TAGTTAAAGTGATGTG
56116197 GCATCGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (16 bp):
TAGTTAAAGTGATGTG
Found at i:56122555 original size:28 final size:27
Alignment explanation
Indices: 56122523--56122616 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 27
56122513 AACTAGTCCT
56122523 TAGCCCATATCAATATCAATCTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCC
*
56122550 ATAGCCCCT-TGCAATATCAGAGTATACTGGGCC
1 -TAGCCCATAT-CAATATC--A--AT-CTGGGCC
* *
56122583 TATCCCATATCAGTATCAATCTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCC
56122610 GTAGCCC
1 -TAGCCC
56122617 TATAACAAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
27 8 0.15
28 21 0.40
30 2 0.04
32 14 0.26
33 8 0.15
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (27 bp):
TAGCCCATATCAATATCAATCTGGGCC
Found at i:56122641 original size:60 final size:60
Alignment explanation
Indices: 56122520--56122655 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
56122510 GTTAACTAGT
*
56122520 CCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTGCAATATCAGAGTATACTGGG
1 CCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAATATCAGAGTATACTGGG
* * * *
56122581 CCTAT-CCCATATCAGTATCAATCTGGGCCGTAG-CCCTATAACAA-GTCA-AGATATATTGGG
1 CCT-TGCCCATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAATATCAGAG-TATACTGGG
56122641 CCTTGCCCATATCAA
1 CCTTGCCCATATCAA
56122656 CACAGTTGGC
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
59 7 0.11
60 50 0.78
61 6 0.09
62 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
CCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAATATCAGAGTATACTGGG
Found at i:56125227 original size:17 final size:17
Alignment explanation
Indices: 56125207--56125245 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
56125197 ATAAATAATG
*
56125207 AAAATAAATGAAT-ATGA
1 AAAATAAAAGAATGAT-A
56125224 AAAATAAAAGAATGATA
1 AAAATAAAAGAATGATA
56125241 AAAAT
1 AAAAT
56125246 CAATAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAATAAAAGAATGATA
Found at i:56128462 original size:30 final size:30
Alignment explanation
Indices: 56128416--56128475 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56128406 TTCCCGAGCC
56128416 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
56128446 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
56128476 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:56142698 original size:40 final size:40
Alignment explanation
Indices: 56142614--56142797 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
56142604 TTGAATGCTG
* * * *
56142614 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
56142653 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
56142694 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
56142734 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
56142774 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56142798 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:56142751 original size:80 final size:81
Alignment explanation
Indices: 56142614--56142794 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
56142604 TTGAATGCTG
* *
56142614 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
56142678 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
56142694 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
56142755 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
56142774 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
56142795 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:56153557 original size:21 final size:22
Alignment explanation
Indices: 56153531--56153572 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
56153521 GTGTGTTTTG
56153531 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGACAAATGC
56153552 ATGTTTATGGTTAGACAAATG
1 ATGTTTATGGTTAGACAAATG
56153573 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGACAAATGC
Found at i:56155743 original size:23 final size:23
Alignment explanation
Indices: 56155700--56155761 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
56155690 CTCGTATGAG
*
56155700 CTTACTGTTT-AGCTCGATAGAA
1 CTTACTGTTTCAGCTCCATAGAA
* * *
56155722 CTTACCGTTTCAGCTCCTTAGAG
1 CTTACTGTTTCAGCTCCATAGAA
56155745 CTTACTGTTATCAGCTC
1 CTTACTGTT-TCAGCTC
56155762 AGGAGGAGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 9 0.27
23 17 0.52
24 7 0.21
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (23 bp):
CTTACTGTTTCAGCTCCATAGAA
Found at i:56157207 original size:8 final size:8
Alignment explanation
Indices: 56157190--56157235 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
56157180 ATGTATCGGC
56157190 AAAAGCCG
1 AAAAGCCG
*
56157198 AAATGCCG
1 AAAAGCCG
56157206 AAAAGCCG
1 AAAAGCCG
*
56157214 AAAAGTCG
1 AAAAGCCG
* *
56157222 AAATGTCG
1 AAAAGCCG
56157230 AAAAGC
1 AAAAGC
56157236 TGAACGTTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.48, C:0.20, G:0.24, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56157223 original size:24 final size:24
Alignment explanation
Indices: 56157190--56157235 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
56157180 ATGTATCGGC
56157190 AAAAGCCGAAATGCCGAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
* *
56157214 AAAAGTCGAAATGTCGAAAAGC
1 AAAAGCCGAAATGCCGAAAAGC
56157236 TGAACGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.24, T:0.09
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:56157490 original size:28 final size:28
Alignment explanation
Indices: 56157450--56157525 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 28
56157440 TGTGAGCATG
*
56157450 AATATGAATGTGACTGGGCCTAAAGGGC
1 AATATGAATGTGATTGGGCCTAAAGGGC
* *
56157478 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATGAATGTGA-TTGGGCCTAAAGGGC
* *
56157507 CATATGAATATGATTGGGC
1 AATATGAATGTGATTGGGC
56157526 TTAGTGGGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (28 bp):
AATATGAATGTGATTGGGCCTAAAGGGC
Found at i:56157533 original size:28 final size:28
Alignment explanation
Indices: 56157450--56157534 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
56157440 TGTGAGCATG
* *
56157450 AATATGAATGTGACTGGGCCTAAAGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
*
56157478 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATGAATGTGA-TTGGGCCTAATGGGC
* * * *
56157507 CATATGAATATGATTGGGCTTAGTGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
56157535 TAGATACAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (28 bp):
AATATGAATGTGATTGGGCCTAATGGGC
Found at i:56164892 original size:39 final size:39
Alignment explanation
Indices: 56164827--56164930 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 39
56164817 AGTTCCGGCA
*
56164827 AGTCCCGAAGGCATTTGTGCGCAGTTACT-AAATCCGGGCT
1 AGTCCCGAAGGCATTTGTGCG-AGTTACTCAAA-CCGAGCT
* *
56164867 AGTCCCGAAGGCAATTGTGCGAGTTACTCTAACCGAGCT
1 AGTCCCGAAGGCATTTGTGCGAGTTACTCAAACCGAGCT
*
56164906 ATGTCCCGAAGGCATTTGAGCGAGT
1 A-GTCCCGAAGGCATTTGTGCGAGT
56164931 AGCTATATCC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 14 0.25
40 43 0.75
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
AGTCCCGAAGGCATTTGTGCGAGTTACTCAAACCGAGCT
Found at i:56183184 original size:43 final size:44
Alignment explanation
Indices: 56183130--56183275 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 44
56183120 ACCGAGATGA
* * * *
56183130 GATTACATGTAAGACTAAGTCTCAGACATTGGCATTG-TATTTT
1 GATTACGTGTAAGACCAAGTCTCAGACATTGGCATCGTTATATT
* * **
56183173 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTTATATT
1 GATTACGTGTAAGACCAAGTCTCAGACATTGGCATCGTTATATT
* * *
56183217 -ATTTCGTGTAAGACCATGT-ACAGGACATTGGCATCG--ATATGT
1 GATTACGTGTAAGACCAAGTCTCA-GACATTGGCATCGTTATAT-T
* *
56183259 GATAACATGTAAGACCA
1 GATTACGTGTAAGACCA
56183276 TATCTGGGAT
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.05
42 1 0.01
43 73 0.88
44 5 0.06
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
GATTACGTGTAAGACCAAGTCTCAGACATTGGCATCGTTATATT
Found at i:56190471 original size:21 final size:20
Alignment explanation
Indices: 56190447--56190485 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56190437 AAAATATGTG
56190447 TTTG-TGGACTAAATTGAATGA
1 TTTGATGGA-TAAA-TGAATGA
56190468 TTTGATGGATAAATGAAT
1 TTTGATGGATAAATGAAT
56190486 AAATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGATGGATAAATGAATGA
Found at i:56190826 original size:43 final size:44
Alignment explanation
Indices: 56190778--56190920 Score: 202
Period size: 43 Copynumber: 3.3 Consensus size: 44
56190768 ACCAAGATGA
*
56190778 GATTACATGTAAGTCCATGTCTGGGACATTGGCATTGTAT-TGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* *
56190821 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGT-TATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * *
56190864 GATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
*
56190907 GATAACATGTAAGA
1 GATTACATGTAAGA
56190921 TCATATTTGG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
Found at i:56193711 original size:43 final size:42
Alignment explanation
Indices: 56193601--56193717 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 42
56193591 TTATTTATGC
* ** * * *
56193601 GTAAGACCATGTCTGGGACATTGATATTGTACTTGATTTCGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGTACTTGATTACAT
* * * *
56193643 GTAAGACCCTGTCTAGGATAG-TGGCATCGATATTTGATTACAT
1 GTAAGACCATGTCTGGGA-CGTTGGCATCG-TACTTGATTACAT
*
56193686 GTAAGACCATGTCTGGGACGTTGGCATAGTAC
1 GTAAGACCATGTCTGGGACGTTGGCATCGTAC
56193718 GAGCTTTTCT
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
42 24 0.42
43 33 0.58
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGTACTTGATTACAT
Found at i:56205051 original size:17 final size:17
Alignment explanation
Indices: 56205029--56205061 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56205019 GGTCGCATGT
56205029 GTAGTACTAAGTGCAGC
1 GTAGTACTAAGTGCAGC
56205046 GTAGTACTAAGTGCAG
1 GTAGTACTAAGTGCAG
56205062 GCTACTATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (17 bp):
GTAGTACTAAGTGCAGC
Found at i:56205212 original size:50 final size:49
Alignment explanation
Indices: 56205046--56205225 Score: 195
Period size: 48 Copynumber: 3.7 Consensus size: 49
56205036 TAAGTGCAGC
* ** * *
56205046 GTAGTACTAAGTGCAGGCTACTATGCATACTTGATAGCTTCGATCACATGT
1 GTAGTA-TAAGTGCAGGCTACTATGCGTACCAGATAG-TTAGGTCACATGT
* * * **
56205097 GTAG--TAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCATGTGT
1 GTAGTATAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGTCACATGT
* * *
56205144 GTAGTA-AAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGT
1 GTAGTATAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGTCACATGT
56205192 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTAGTA-TAAGTGCAGGCTACTATGCGTACCAGA
56205226 GAGCTTCGGT
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
47 13 0.12
48 67 0.62
50 24 0.22
51 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GTAGTATAAGTGCAGGCTACTATGCGTACCAGATAGTTAGGTCACATGT
Found at i:56209478 original size:80 final size:79
Alignment explanation
Indices: 56209394--56209565 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
56209384 GGACTAAGAT
*
56209394 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
56209458 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
56209474 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
56209539 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
56209553 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56209566 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56209545 original size:39 final size:39
Alignment explanation
Indices: 56209341--56209563 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
56209331 TTGAATGCTG
* * * * *
56209341 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
56209381 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
56209420 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
56209461 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
56209501 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
56209540 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56209564 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:56209583 original size:79 final size:80
Alignment explanation
Indices: 56209421--56209598 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
56209411 AGATACAAAT
* * * *
56209421 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56209486 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
56209501 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56209565 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56209580 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56209599 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56228466 original size:23 final size:22
Alignment explanation
Indices: 56228417--56228468 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
56228407 CCTTGTAAAA
* **
56228417 GGAAGCTCACACAGAGCTTTCG
1 GGAAGCTCACAAAGAGCGATCG
56228439 GGAAGCTCACAAAGAGCCGATCG
1 GGAAGCTCACAAAGAG-CGATCG
56228462 GGAAGCT
1 GGAAGCT
56228469 TATCCGGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.13
Consensus pattern (22 bp):
GGAAGCTCACAAAGAGCGATCG
Found at i:56228554 original size:24 final size:25
Alignment explanation
Indices: 56228511--56228568 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
56228501 GCCATAATAG
* *
56228511 GGAAGTTCACAAAGAACCA-TATCA
1 GGAAGCTCACAAAGAACCAGTAGCA
**
56228535 GGAAGCTCACAAAGGGCCATGTAGCA
1 GGAAGCTCACAAAGAACCA-GTAGCA
56228561 GGAAGCTC
1 GGAAGCTC
56228569 TGGATAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.57
26 12 0.43
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (25 bp):
GGAAGCTCACAAAGAACCAGTAGCA
Found at i:56231556 original size:15 final size:17
Alignment explanation
Indices: 56231536--56231579 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
56231526 AGGTTTTCTT
56231536 TTGATGATA-T-CGATA
1 TTGATGATAGTACGATA
56231551 TTGATGATAGTGACGATA
1 TTGATGATAGT-ACGATA
*
56231569 TTGATGCTAGT
1 TTGATGATAGT
56231580 GACACTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
18 15 0.60
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (17 bp):
TTGATGATAGTACGATA
Found at i:56231567 original size:18 final size:18
Alignment explanation
Indices: 56231546--56231591 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
56231536 TTGATGATAT
56231546 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
56231564 CGATATTGATGCTAGTGA
1 CGATATTGATGATAGTGA
56231582 C-ACTATTGAT
1 CGA-TATTGAT
56231592 CGTGACCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:56233426 original size:3 final size:3
Alignment explanation
Indices: 56233418--56233450 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
56233408 GGACATTAGT
56233418 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
56233451 GACTATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:56235069 original size:50 final size:52
Alignment explanation
Indices: 56234940--56235087 Score: 187
Period size: 50 Copynumber: 2.9 Consensus size: 52
56234930 ATCTATTGTG
*
56234940 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
* * * **
56234992 A-ATCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTATCAGAT-GGTT-
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCAGATAACTTC
* *
56235041 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCTTACTAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
56235088 GCTTTGGCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
49 2 0.02
50 39 0.48
51 38 0.47
52 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (52 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTC
Found at i:56237271 original size:40 final size:41
Alignment explanation
Indices: 56237136--56237321 Score: 218
Period size: 41 Copynumber: 4.6 Consensus size: 41
56237126 TACTCGAATG
*
56237136 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACT
* * * *
56237177 ACATCCGGACTAAGATCCGAAGGCTTTTGTGATAAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
* *
56237218 ACATCCGGACTAAGATCCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
* * *
56237258 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAAGCGACT
* *
56237298 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
56237322 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.47
41 67 0.52
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAAGCGACT
Found at i:56242915 original size:21 final size:18
Alignment explanation
Indices: 56242878--56242918 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
56242868 ACAATAAATG
56242878 TAAAAATAATAATAACAA
1 TAAAAATAATAATAACAA
56242896 TAAAAATGAATATTATAACAA
1 TAAAAAT-AATA--ATAACAA
56242917 TA
1 TA
56242919 GATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
21 9 0.45
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAATAATAATAACAA
Found at i:56243556 original size:10 final size:10
Alignment explanation
Indices: 56243521--56243559 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
56243511 TTGTAAGGTG
56243521 AATAAAATTT
1 AATAAAATTT
**
56243531 AATTCAATTT
1 AATAAAATTT
56243541 AA-AAAATTT
1 AATAAAATTT
56243550 AATAAAATTT
1 AATAAAATTT
56243560 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
AATAAAATTT
Found at i:56244055 original size:10 final size:10
Alignment explanation
Indices: 56244040--56244064 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56244030 CAAATCTTTT
56244040 GACTCGATTC
1 GACTCGATTC
56244050 GACTCGATTC
1 GACTCGATTC
56244060 GACTC
1 GACTC
56244065 AACTCGACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (10 bp):
GACTCGATTC
Found at i:56247115 original size:16 final size:17
Alignment explanation
Indices: 56247084--56247116 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56247074 TCCCACAGAT
56247084 ATCAAACATACAGAATA
1 ATCAAACATACAGAATA
*
56247101 ATCAAGCAT-CAGAATA
1 ATCAAACATACAGAATA
56247117 CAGTCTGGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (17 bp):
ATCAAACATACAGAATA
Found at i:56250265 original size:25 final size:25
Alignment explanation
Indices: 56250230--56250344 Score: 196
Period size: 25 Copynumber: 4.6 Consensus size: 25
56250220 TAAGCTTGTT
56250230 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
*
56250255 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
*
56250280 AATTTGTTCTTAATAATTCTGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
56250305 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCCGGTTA
56250330 AATTTGCTT-TTAATA
1 AATTTG-TTCTTAATA
56250345 TTTTATGTTA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
25 83 0.98
26 2 0.02
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (25 bp):
AATTTGTTCTTAATAATTCCGGTTA
Found at i:56250355 original size:50 final size:50
Alignment explanation
Indices: 56250230--56250375 Score: 197
Period size: 50 Copynumber: 2.9 Consensus size: 50
56250220 TAAGCTTGTT
*
56250230 AATTTGTTCTTAATAATTCCGGTTAAATTTGCTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCGGTTA
*
56250280 AATTTGTTCTTAATAATTCTGGTTAAATTTGTTCTTAATAATTCCGGTTA
1 AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCGGTTA
* * * * *
56250330 AATTTGCTT-TTAAT-ATTTTATGTTAAATTTGCCCTTATTATTTCCG
1 AATTTG-TTCTTAATAATTCT-GGTTAAATTTGCTCTTAATAATTCCG
56250376 AATAAGTTAC
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 4 0.05
50 80 0.93
51 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (50 bp):
AATTTGTTCTTAATAATTCTGGTTAAATTTGCTCTTAATAATTCCGGTTA
Found at i:56251264 original size:45 final size:45
Alignment explanation
Indices: 56251196--56251282 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
56251186 ATCGTACAGC
*
56251196 ACTATTCGGACCTTTGAGCCTAGCAGACTATAATGCCGGTGAGAT
1 ACTATTCGGACCTTCGAGCCTAGCAGACTATAATGCCGGTGAGAT
* *
56251241 ACTATTCAGG-CCTTCGAGTCTAGCAGGCTATAATGCCGGTGA
1 ACTATTC-GGACCTTCGAGCCTAGCAGACTATAATGCCGGTGA
56251283 AATGATATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (45 bp):
ACTATTCGGACCTTCGAGCCTAGCAGACTATAATGCCGGTGAGAT
Found at i:56259071 original size:41 final size:40
Alignment explanation
Indices: 56259010--56259152 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 40
56259000 CTCGAATGAT
*
56259010 ATCCGGACTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAC
* *
56259051 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAC
* * * *
56259091 ATCCAGG-CTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATCC-GGACTAAGTCCCGAAGGCATTTGTGCTAGCGACTAC
** *
56259131 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGACTAAGTCCCGAAGGC
56259153 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 29 0.33
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGCGACTAC
Found at i:56259102 original size:40 final size:39
Alignment explanation
Indices: 56259008--56259179 Score: 143
Period size: 40 Copynumber: 4.3 Consensus size: 39
56258998 TACTCGAATG
*
56259008 ATATCCGGACTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGG-CTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
* *
56259049 ACATCCGGACTAAGATCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCTAGCGACT
* * *
56259089 ATATCCAGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
* * * * * **
56259129 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
56259168 ATATCCGGCTAA
1 ATATCCGGCTAA
56259180 ACCCCGAAGA
Statistics
Matches: 109, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 5 0.05
39 16 0.15
40 57 0.52
41 30 0.28
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Found at i:56267009 original size:40 final size:40
Alignment explanation
Indices: 56266915--56267059 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
56266905 TACTCGAATG
* *
56266915 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
56266956 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
56266996 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
56267036 CTATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56267060 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:56298540 original size:40 final size:39
Alignment explanation
Indices: 56298431--56298610 Score: 195
Period size: 40 Copynumber: 4.6 Consensus size: 39
56298421 TATTTGGATG
*
56298431 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACT
* *
56298471 A-ATTCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
56298510 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACT
* * * * *
56298550 ATAATCGAGCTAAGTCCCGAAGGCTTTTGAGCAAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CT
* * *
56298590 ATATCC-GGCTAAATTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAG
56298611 ATACTTGGTT
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
39 47 0.39
40 72 0.61
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACT
Found at i:56298600 original size:79 final size:79
Alignment explanation
Indices: 56298431--56298610 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
56298421 TATTTGGATG
* * *
56298431 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGAGCTAAGCCCGAAGGCAA
* *
56298496 TTGTGCGAGCTACT
66 TTGAGCAAGCTACT
*
56298510 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGAGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGAGCTAAG-CCCGAAGGC
**
56298574 TTTTGAGCAAG-TAGCT
64 AATTGAGCAAGCTA-CT
* * *
56298590 ATATCC-GGCTAAATTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAG
56298611 ATACTTGGTT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
79 62 0.71
80 25 0.29
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGAGCTAAGCCCGAAGGCAA
TTGAGCAAGCTACT
Found at i:56309489 original size:18 final size:20
Alignment explanation
Indices: 56309466--56309509 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
56309456 TGCTGACAGG
56309466 CCGTGTGG-TCA-CACACGC
1 CCGTGTGGCTCATCACACGC
*
56309484 CCGTGTGGCTCATGACACGC
1 CCGTGTGGCTCATCACACGC
56309504 CCGTGT
1 CCGTGT
56309510 CCTCTACCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 3 0.13
20 12 0.52
ACGTcount: A:0.14, C:0.36, G:0.30, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCTCATCACACGC
Found at i:56311442 original size:27 final size:27
Alignment explanation
Indices: 56311411--56311466 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
56311401 ATAACGATGC
56311411 CAATGCCATGTCCCAGACATAGTCTTA
1 CAATGCCATGTCCCAGACATAGTCTTA
* *
56311438 CAATGCCATGTCCTAGACATGGTCTTA
1 CAATGCCATGTCCCAGACATAGTCTTA
56311465 CA
1 CA
56311467 CTGGCTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CAATGCCATGTCCCAGACATAGTCTTA
Found at i:56315749 original size:62 final size:62
Alignment explanation
Indices: 56315678--56315802 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
56315668 TTTGTTACAG
56315678 AAAGATCTGCAAGAACGCTTCCCGTATCTAAAATTTTACTGGAATTGTCTGATTGCAGCCTA
1 AAAGATCTGCAAGAACGCTTCCCGTATCTAAAATTTTACTGGAATTGTCTGATTGCAGCCTA
56315740 AAAGATCTGCAAGAACGCTTCCCGTATCTAAAATTTTACTGGAATTGTCTGATTGCAGCCTA
1 AAAGATCTGCAAGAACGCTTCCCGTATCTAAAATTTTACTGGAATTGTCTGATTGCAGCCTA
56315802 A
1 A
56315803 CTAGTTGCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (62 bp):
AAAGATCTGCAAGAACGCTTCCCGTATCTAAAATTTTACTGGAATTGTCTGATTGCAGCCTA
Found at i:56327203 original size:37 final size:37
Alignment explanation
Indices: 56327153--56327258 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
56327143 GCTCGAATAG
* *
56327153 TCTCCATACGTAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
56327190 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
56327227 TCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
56327259 ATATATTTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:56327457 original size:48 final size:48
Alignment explanation
Indices: 56327399--56327878 Score: 816
Period size: 48 Copynumber: 9.8 Consensus size: 48
56327389 ATATACACAC
* *
56327399 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56327447 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56327495 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56327543 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56327591 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGC--T------TTACCACATATACAT
*
56327647 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56327695 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56327743 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56327791 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56327839 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
56327879 GCACATATAT
Statistics
Matches: 414, Mismatches: 10, Indels: 16
0.94 0.02 0.04
Matches are distributed among these distances:
48 366 0.88
50 1 0.00
54 1 0.00
56 46 0.11
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56327740 original size:200 final size:192
Alignment explanation
Indices: 56327399--56327878 Score: 816
Period size: 200 Copynumber: 2.5 Consensus size: 192
56327389 ATATACACAC
* * *
56327399 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
56327464 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
*
56327529 TACCACATATACATATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
131 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56327591 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATTACCACATATACATATCTCATAC
1 ATCTCATACATATTTCACATTAACCATTCGGC--T------TTACCACATATACATATCTCATAC
**
56327656 ATATTTCACTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
58 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
56327721 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
123 TTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATA
56327786 TACAT
188 TACAT
*
56327791 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
56327856 CACTAGCCATTCGGCTTTACCAC
66 CACTAGCCATTCGGCTTTACCAC
56327879 GCACATATAT
Statistics
Matches: 271, Mismatches: 9, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
192 82 0.30
194 1 0.00
198 1 0.00
200 187 0.69
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (192 bp):
ATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56327832 original size:248 final size:248
Alignment explanation
Indices: 56327399--56327878 Score: 888
Period size: 248 Copynumber: 1.9 Consensus size: 248
56327389 ATATACACAC
*
56327399 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
56327464 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
* *
56327529 TACCACATATACATATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACATATC
131 TACCACATATACATATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATC
*
56327594 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATTACCACATATACAT
196 TCATACATATTTCACACTAGCCATTCGGCTTTACCACATTACCACATATACAT
**
56327647 ATCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
56327712 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
56327777 TACCACATATACATATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATC
131 TACCACATATACATATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATC
*
56327842 TCATATATATTTCACACTAGCCATTCGGCTTTACCAC
196 TCATACATATTTCACACTAGCCATTCGGCTTTACCAC
56327879 GCACATATAT
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
248 224 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (248 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
TACCACATATACATATCTCATACATATTTCACATTAACCATTCGGCTTTACCACATATACATATC
TCATACATATTTCACACTAGCCATTCGGCTTTACCACATTACCACATATACAT
Found at i:56331665 original size:40 final size:40
Alignment explanation
Indices: 56331582--56331801 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
56331572 ACCCAAGTAT
** * *
56331582 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56331620 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56331660 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56331700 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
56331740 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56331780 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56331802 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 127 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56339592 original size:19 final size:19
Alignment explanation
Indices: 56339555--56339592 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56339545 ACCTGTTAGA
*
56339555 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
56339574 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
56339593 TAAATTGCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:56348470 original size:39 final size:40
Alignment explanation
Indices: 56348329--56348437 Score: 209
Period size: 40 Copynumber: 2.7 Consensus size: 40
56348319 TATTCGGATG
56348329 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
56348369 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
56348409 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
56348438 ACCGAGTAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:56358108 original size:49 final size:47
Alignment explanation
Indices: 56358010--56358285 Score: 435
Period size: 47 Copynumber: 5.8 Consensus size: 47
56358000 ATTTAGGATT
*
56358010 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
56358057 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
56358106 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
56358155 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
56358202 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
56358249 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56358286 TCCCGAAGGG
Statistics
Matches: 216, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 121 0.56
49 95 0.44
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:56358184 original size:96 final size:94
Alignment explanation
Indices: 56358010--56358285 Score: 435
Period size: 96 Copynumber: 2.9 Consensus size: 94
56358000 ATTTAGGATT
*
56358010 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56358075 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
56358106 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
56358171 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
* * * * * * *
56358202 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56358267 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
56358286 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 54 0.32
96 69 0.41
98 46 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:56358460 original size:37 final size:37
Alignment explanation
Indices: 56358404--56358482 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
56358394 CCGAGCTCTA
* * *
56358404 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* * *
56358441 AAGATCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56358478 AAGAC
1 AAGAC
56358483 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56361133 original size:40 final size:39
Alignment explanation
Indices: 56361075--56361291 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 39
56361065 GGATGATAAC
* * *
56361075 CGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
56361114 CTAGGCTAAG-CCCTGAAGGCATTTGTGCGAGTTACTATATC
1 C-GGGCTAAGTCCC-GAAGGCATTTGTGCGAGTTACTA-ATT
56361155 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
**
56361195 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
*
56361235 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA-ATT
*
56361275 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
56361292 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 21 0.13
40 133 0.83
41 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:56361212 original size:80 final size:79
Alignment explanation
Indices: 56361070--56361291 Score: 324
Period size: 80 Copynumber: 2.8 Consensus size: 79
56361060 TATTCGGATG
* * *
56361070 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCTAGGCTAAG-CCCTGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC--GGCTAAGTCCC-GAAGG
56361133 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
*
56361150 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC-GGCTAAGTCCCGAAGGCA
56361215 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* *
56361230 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATTCGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATTCGGCTAAGTCCCGAAGG
56361292 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
79 17 0.13
80 107 0.82
81 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:56365168 original size:43 final size:43
Alignment explanation
Indices: 56365098--56365219 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
56365088 AGAAAGCTCG
** * * *
56365098 TATAATGCCAACGTCCTAGACGT-GGTCTTACATGTAATCAAA
1 TATAATGCCAATATCCCAGACATAGGTCTTACATGAAATCAAA
* * *
56365140 TATCAATGCCACTGTCCCAGACA-AGGTCTTACATGAAATTAAA
1 TAT-AATGCCAATATCCCAGACATAGGTCTTACATGAAATCAAA
* *
56365183 TATGATGCCAATATCCCAGACATA-GTCTTACACGAAA
1 TATAATGCCAATATCCCAGACATAGGTCTTACATGAAA
56365220 ATCATAAGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (43 bp):
TATAATGCCAATATCCCAGACATAGGTCTTACATGAAATCAAA
Found at i:56365204 original size:42 final size:44
Alignment explanation
Indices: 56365121--56365219 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 44
56365111 TCCTAGACGT
* * *
56365121 GGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACA-A
1 GGTCTTACATGAAATCAAATATCAATGCCAATATCCCAGACATA
* *
56365164 GGTCTTACATGAAATTAAATAT-GATGCCAATATCCCAGACATA
1 GGTCTTACATGAAATCAAATATCAATGCCAATATCCCAGACATA
*
56365207 -GTCTTACACGAAA
1 GGTCTTACATGAAA
56365220 ATCATAAGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (44 bp):
GGTCTTACATGAAATCAAATATCAATGCCAATATCCCAGACATA
Found at i:56371960 original size:12 final size:12
Alignment explanation
Indices: 56371943--56371974 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
56371933 TCAAATTGTC
56371943 CACATGGGTAGA
1 CACATGGGTAGA
56371955 CACATGGGTAGA
1 CACATGGGTAGA
56371967 CACATGGG
1 CACATGGG
56371975 CATGTGTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (12 bp):
CACATGGGTAGA
Found at i:56374015 original size:47 final size:47
Alignment explanation
Indices: 56373937--56374628 Score: 1075
Period size: 47 Copynumber: 14.6 Consensus size: 47
56373927 CCTTTCGAGA
* * * * * * *
56373937 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
56373984 CCTGTCACAAATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56374031 CTTATCACATATATACACCTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374078 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56374126 CTTATCACATATATACA-TTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374172 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56374221 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56374268 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56374315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374362 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374410 CTTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 C-TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56374458 CTTATCACATAGATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374505 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56374552 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56374601 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
56374629 CACATATACT
Statistics
Matches: 595, Mismatches: 38, Indels: 24
0.91 0.06 0.04
Matches are distributed among these distances:
45 17 0.03
46 27 0.05
47 370 0.62
48 33 0.06
49 148 0.25
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56374218 original size:143 final size:142
Alignment explanation
Indices: 56373937--56374628 Score: 1067
Period size: 143 Copynumber: 4.9 Consensus size: 142
56373927 CCTTTCGAGA
* * * * * * * *
56373937 CTTATCACAT-T-TATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACAAATATAC
1 CTTATCACATATATATACACTTTCACATTCATCAC-ATGGCCATTAGGCCTTATCACATATATAC
* * *
56374000 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCATA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56374065 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
56374078 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTCGGCCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACA
56374143 -TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCAC
*
56374207 ATCGGCTATTAGGC
129 ATCGGCCATTAGGC
*
56374221 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCACATATATAC
*
56374284 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56374349 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
56374362 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA-GCCTTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTAGGCC-TTATCACATATATA
* *
56374426 CACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATAGATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
56374491 ATCGGCTATTAGGC
129 ATCGGCCATTAGGC
56374505 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACA-TGGCCATTAGGCCTTATCAC--ATATAT
*
56374568 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTC
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
56374629 CACATATACT
Statistics
Matches: 515, Mismatches: 23, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
141 159 0.31
142 59 0.11
143 297 0.58
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATATACACTTTCACATTCATCACATGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:56374339 original size:190 final size:190
Alignment explanation
Indices: 56373937--56374628 Score: 1169
Period size: 190 Copynumber: 3.7 Consensus size: 190
56373927 CCTTTCGAGA
* * * * * * * * *
56373937 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACA-A-ATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
56374000 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCATA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56374065 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTCGGC
56374126 CTTATCACATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56374190 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56374255 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
56374315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56374380 ACTTTCACATTCATCACATCGGCTATTA-GCCTTTATCACATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCTATTAGGCC-TTATCACATATATACACTTTCACATTCATCAC
* * * * *
56374444 ATCGGCCATTCGGCCTTATCACATAGATACACTTTCACATTCATCACATCGGCTATTAGGC
130 ATCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
*
56374505 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56374570 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTC
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTC
56374629 CACATATACT
Statistics
Matches: 480, Mismatches: 17, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
188 49 0.10
189 48 0.10
190 380 0.79
191 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:56378503 original size:40 final size:40
Alignment explanation
Indices: 56378435--56378613 Score: 299
Period size: 40 Copynumber: 4.5 Consensus size: 40
56378425 GGATCGGGGT
*
56378435 TTAGCACC-GATATATCACTAGCACGAATGCTCTTCG-GAAC
1 TTAGC-CCGGATACATCACTAGCACGAATGCTCTTCGAG-AC
*
56378475 TTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56378515 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
*
56378555 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56378595 TTAGCCCGGATACATCACT
1 TTAGCCCGGATACATCACT
56378614 CTCAATTCTC
Statistics
Matches: 132, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
Found at i:56380105 original size:47 final size:47
Alignment explanation
Indices: 56380027--56380714 Score: 1103
Period size: 47 Copynumber: 14.6 Consensus size: 47
56380017 CCCTTCGGGA
* * * * * * *
56380027 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56380074 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56380121 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56380167 CTTATCACATATATACAC-TTCACATTCATCACATTGGCCATT-CGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56380212 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56380259 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56380308 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
56380355 CTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56380402 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56380449 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56380498 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56380545 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56380592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56380639 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56380688 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56380715 TCACATATAC
Statistics
Matches: 597, Mismatches: 35, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
44 1 0.00
45 41 0.07
46 41 0.07
47 376 0.63
49 138 0.23
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56380388 original size:143 final size:141
Alignment explanation
Indices: 56380027--56380714 Score: 1103
Period size: 143 Copynumber: 4.9 Consensus size: 141
56380017 CCCTTCGGGA
* * * * * * * * *
56380027 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
56380092 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56380157 GGCCATTAGG-
131 GGCCATTAGGC
* *
56380167 CTTATCACATATATACAC-TTCACATTCATCACATTGGCCATT-CGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
56380230 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
56380295 TCGGCTATTAGGC
129 TCGGCCATTAGGC
**
56380308 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGTAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
56380373 TTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56380438 GGCCATTAGGC
131 GGCCATTAGGC
*
56380449 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
56380514 ACTTTAACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56380579 TCGGCTATTAGGC
129 TCGGCCATTAGGC
56380592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
56380657 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
56380715 TCACATATAC
Statistics
Matches: 513, Mismatches: 26, Indels: 15
0.93 0.05 0.03
Matches are distributed among these distances:
138 54 0.11
139 20 0.04
140 53 0.10
141 110 0.21
142 23 0.04
143 253 0.49
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56380484 original size:190 final size:190
Alignment explanation
Indices: 56380027--56380714 Score: 1188
Period size: 190 Copynumber: 3.6 Consensus size: 190
56380017 CCCTTCGGGA
* * * * * * * * *
56380027 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56380090 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56380155 TCGGCCATTAGG-CTTATCACATATATACAC-TTCACATTCATCACATTGGCCATTC-GC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
56380212 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56380277 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
**
56380342 TCGGCCATTAGGCCTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
56380402 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56380467 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTAACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
56380532 TCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
56380592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56380657 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
56380715 TCACATATAC
Statistics
Matches: 478, Mismatches: 20, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
185 46 0.10
187 84 0.18
188 16 0.03
189 24 0.05
190 308 0.64
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:56384588 original size:40 final size:40
Alignment explanation
Indices: 56384520--56384698 Score: 299
Period size: 40 Copynumber: 4.5 Consensus size: 40
56384510 GGATCGGGGT
*
56384520 TTAGCACC-GATATATCACTAGCACGAATGCTCTTCG-GAAC
1 TTAGC-CCGGATACATCACTAGCACGAATGCTCTTCGAG-AC
*
56384560 TTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56384600 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
*
56384640 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56384680 TTAGCCCGGATACATCACT
1 TTAGCCCGGATACATCACT
56384699 CTCAATTCTC
Statistics
Matches: 132, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
Found at i:56386189 original size:47 final size:47
Alignment explanation
Indices: 56386111--56386803 Score: 1116
Period size: 47 Copynumber: 14.6 Consensus size: 47
56386101 CCCTTCGGGA
* * * * * * *
56386111 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56386158 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56386205 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56386252 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56386301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56386348 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56386397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
56386444 CTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56386491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56386538 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56386587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56386634 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56386681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56386728 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56386777 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56386804 TCACATATAC
Statistics
Matches: 603, Mismatches: 35, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
47 422 0.70
49 181 0.30
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56386409 original size:143 final size:141
Alignment explanation
Indices: 56386111--56386803 Score: 1116
Period size: 143 Copynumber: 4.9 Consensus size: 141
56386101 CCCTTCGGGA
* * * * * * * * *
56386111 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
56386176 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56386241 GGCCATTAGGC
131 GGCCATTAGGC
* *
56386252 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56386317 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
56386382 CATCGGCTATTAGGC
127 CATCGGCCATTAGGC
**
56386397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGTAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
56386462 TTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56386527 GGCCATTAGGC
131 GGCCATTAGGC
*
56386538 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
56386603 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56386668 TCGGCTATTAGGC
129 TCGGCCATTAGGC
56386681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
56386746 ACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
56386804 TCACATATAC
Statistics
Matches: 520, Mismatches: 24, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
141 100 0.19
143 375 0.72
145 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56386486 original size:190 final size:190
Alignment explanation
Indices: 56386111--56386803 Score: 1201
Period size: 190 Copynumber: 3.6 Consensus size: 190
56386101 CCCTTCGGGA
* * * * * * * * *
56386111 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56386174 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56386239 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTCGGC
56386301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56386366 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56386431 TCGGCCATTAGGCCTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
56386491 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56386556 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * * *
56386621 TCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
56386681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56386746 ACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCACATT
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
56386804 TCACATATAC
Statistics
Matches: 483, Mismatches: 18, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
190 383 0.79
192 100 0.21
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:56390680 original size:40 final size:40
Alignment explanation
Indices: 56390612--56390790 Score: 290
Period size: 40 Copynumber: 4.5 Consensus size: 40
56390602 GGATCGGGGT
*
56390612 TTAGCACC-GATATATCACTAGCACGAATGCTCTTCG-GAAC
1 TTAGC-CCGGATACATCACTAGCACGAATGCTCTTCGAG-AC
*
56390652 TTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56390692 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
* *
56390732 TTAGCCCGGATACATGACTAGCATGAATGCTCTTCGAGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
56390772 TTAGCCCGGATACATCACT
1 TTAGCCCGGATACATCACT
56390791 CTCAATTCTC
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.02
40 128 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGAC
Found at i:56392282 original size:47 final size:47
Alignment explanation
Indices: 56392204--56392896 Score: 1116
Period size: 47 Copynumber: 14.6 Consensus size: 47
56392194 CCCTTCGGGA
* * * * * * *
56392204 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56392251 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56392298 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56392345 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56392394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56392441 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56392490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
56392537 CTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56392584 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56392631 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56392680 CTTATCACATATATACACTTTAACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56392727 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56392774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56392821 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56392870 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56392897 TCACATATAC
Statistics
Matches: 602, Mismatches: 36, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
47 420 0.70
49 182 0.30
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56392502 original size:143 final size:141
Alignment explanation
Indices: 56392204--56392896 Score: 1116
Period size: 143 Copynumber: 4.9 Consensus size: 141
56392194 CCCTTCGGGA
* * * * * * * * *
56392204 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
56392269 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56392334 GGCCATTAGGC
131 GGCCATTAGGC
* *
56392345 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
56392410 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
56392475 CATCGGCTATTAGGC
127 CATCGGCCATTAGGC
**
56392490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGTAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
56392555 TTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
56392620 GGCCATTAGGC
131 GGCCATTAGGC
*
56392631 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
56392696 ACTTTAACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56392761 TCGGCTATTAGGC
129 TCGGCCATTAGGC
56392774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
56392839 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
56392897 TCACATATAC
Statistics
Matches: 519, Mismatches: 25, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
141 100 0.19
143 374 0.72
145 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56392579 original size:190 final size:190
Alignment explanation
Indices: 56392204--56392896 Score: 1201
Period size: 190 Copynumber: 3.6 Consensus size: 190
56392194 CCCTTCGGGA
* * * * * * * * *
56392204 CTTATCACATTTATACACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56392267 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56392332 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTCGGC
56392394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56392459 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56392524 TCGGCCATTAGGCCTTATCACATATATGTACTTTCACATTCATCACATCGGCCATTCGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
56392584 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56392649 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTAACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * * *
56392714 TCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
56392774 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56392839 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
56392897 TCACATATAC
Statistics
Matches: 482, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
190 382 0.79
192 100 0.21
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:56398100 original size:40 final size:40
Alignment explanation
Indices: 56398045--56398259 Score: 251
Period size: 40 Copynumber: 5.4 Consensus size: 40
56398035 GATGATAACT
* *
56398045 GGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTA-GTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACATCC
*
56398085 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * *
56398125 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* *
56398165 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
* * *
56398205 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACATCC
* *
56398244 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
56398260 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
38 15 0.10
39 21 0.13
40 117 0.75
41 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
Found at i:56406268 original size:40 final size:40
Alignment explanation
Indices: 56406175--56406389 Score: 271
Period size: 40 Copynumber: 5.4 Consensus size: 40
56406165 GATGATAACA
*
56406175 GGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCC
* *
56406216 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
56406256 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
56406296 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
56406335 GGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
56406374 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
56406390 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.01
38 26 0.17
39 20 0.13
40 82 0.53
41 22 0.14
42 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:56413044 original size:17 final size:17
Alignment explanation
Indices: 56413022--56413056 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
56413012 TTGAATTCCA
*
56413022 AGGTAGTTGGGCAAAGT
1 AGGTAGTTGGGAAAAGT
56413039 AGGTAGTTGGGAAAAGT
1 AGGTAGTTGGGAAAAGT
56413056 A
1 A
56413057 CTTACCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.40, T:0.23
Consensus pattern (17 bp):
AGGTAGTTGGGAAAAGT
Found at i:56416555 original size:28 final size:28
Alignment explanation
Indices: 56416520--56416622 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
56416510 TGGCCCCTTT
* * *
56416520 AGGCCCAATCTCATTCATGTGGGCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
56416548 -GTGCCCAATCACATTCATATGGCCCATC
1 AG-GCCCAATCACATTCATATGGCCCATC
* * * *
56416576 AGGCCCAATCACTTTCATATGTCTCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
56416604 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
56416623 GTCATGCAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
27 1 0.02
28 63 0.97
29 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Done.