Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 59 of 311
Found at i:17334805 original size:4 final size:4
Alignment explanation
Indices: 17334791--17334830 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
17334781 GTAATGATCG
* * *
17334791 AATA CATA AATA AATA AATA AATT AATG AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
17334831 TAGAAAGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:17335182 original size:25 final size:22
Alignment explanation
Indices: 17335147--17335243 Score: 76
Period size: 25 Copynumber: 4.3 Consensus size: 22
17335137 GATTTAATAC
17335147 ATATA-AC-TAATAATACTAACGA
1 ATATATACATAAT-ATACTAAC-A
*
17335169 TATATATACATAATATACAAAACAAA
1 -ATATATACATAATATAC-TAAC--A
* *
17335195 ATATACACATAATATATTAA-A
1 ATATATACATAATATACTAACA
17335216 ATATATACATAATATACGTAA-A
1 ATATATACATAATATAC-TAACA
17335238 ATATAT
1 ATATAT
17335244 GTAATGTCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
21 16 0.26
22 10 0.16
23 5 0.08
24 8 0.13
25 22 0.35
26 1 0.02
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATATACATAATATACTAACA
Found at i:17335218 original size:21 final size:22
Alignment explanation
Indices: 17335192--17335242 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
17335182 TATACAAAAC
*
17335192 AAAATATACACATAATATA-TT
1 AAAATATACACATAATATACGT
*
17335213 AAAATATATACATAATATACGT
1 AAAATATACACATAATATACGT
17335235 AAAATATA
1 AAAATATA
17335243 TGTAATGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAATATACACATAATATACGT
Found at i:17335959 original size:2 final size:2
Alignment explanation
Indices: 17335952--17335984 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17335942 TTTTAAAGAA
17335952 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
17335985 AAGTTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17336598 original size:19 final size:19
Alignment explanation
Indices: 17336574--17336610 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17336564 AATTGGGCTA
* *
17336574 GGGTTAGGTATTGGGTTTG
1 GGGTTAGGAAATGGGTTTG
17336593 GGGTTAGGAAATGGGTTT
1 GGGTTAGGAAATGGGTTT
17336611 TGATTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (19 bp):
GGGTTAGGAAATGGGTTTG
Found at i:17340879 original size:23 final size:22
Alignment explanation
Indices: 17340837--17340879 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17340827 AAAAAAGAGA
**
17340837 TACTATTTTGTTTTGTTGTTTC
1 TACTATTTTGTTTTACTGTTTC
17340859 TACTATTATTGTTTTACTGTT
1 TACTATT-TTGTTTTACTGTT
17340880 GTATTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.14, C:0.09, G:0.12, T:0.65
Consensus pattern (22 bp):
TACTATTTTGTTTTACTGTTTC
Found at i:17345080 original size:46 final size:46
Alignment explanation
Indices: 17345013--17345187 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
17345003 TGTAACCCGC
*
17345013 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
17345059 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
17345109 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
17345152 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
17345188 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:17345133 original size:93 final size:93
Alignment explanation
Indices: 17345020--17345191 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17345010 CGCCCATAAG
* *
17345020 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17345085 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
17345113 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
17345178 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
17345192 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:17352233 original size:93 final size:93
Alignment explanation
Indices: 17352120--17352291 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17352110 CGCCCATAAG
* *
17352120 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17352185 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
17352213 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17352278 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17352292 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17352288 original size:46 final size:46
Alignment explanation
Indices: 17352113--17352288 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
17352103 TGTAACCCGC
* * *
17352113 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17352159 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
17352209 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17352252 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17352289 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17357582 original size:27 final size:27
Alignment explanation
Indices: 17357548--17357604 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
17357538 ATTGAACACA
17357548 TTACTCAAAGAATTTCCACATGAAACT
1 TTACTCAAAGAATTTCCACATGAAACT
* ***
17357575 TTACTCAAATAATTTCTTTATGAAACT
1 TTACTCAAAGAATTTCCACATGAAACT
17357602 TTA
1 TTA
17357605 ACACATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (27 bp):
TTACTCAAAGAATTTCCACATGAAACT
Found at i:17369357 original size:65 final size:66
Alignment explanation
Indices: 17369215--17369377 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 66
17369205 TTCTTTCTGA
* * * **
17369215 GTGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTACACACAAAGTATACATAACCTTTTCA
17369280 T
66 T
* * * *
17369281 ATGGTATACACAAAGTAGACCTTTCCTTTTCA-A-GTGTACATACAAAGTGTACATAACCTTTTC
1 GTGGTATACACAAAGTATACCTTTCCTTTTCATATG-GTACACACAAAGTATACATAACCTTTTC
17369344 AT
65 AT
**
17369346 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCA
17369378 CATTCGATAG
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 1 0.01
65 53 0.64
66 29 0.35
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (66 bp):
GTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTACACACAAAGTATACATAACCTTTTCA
T
Found at i:17369371 original size:33 final size:33
Alignment explanation
Indices: 17369215--17369377 Score: 202
Period size: 33 Copynumber: 5.0 Consensus size: 33
17369205 TTCTTTCTGA
*
17369215 GTGGTATACACAAAGTATACATTTCCTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
*
17369248 ATGGTATACACAAAGTATACCTTTCCTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
* * *
17369281 ATGGTATACACAAAGTAGACCTTTCCTTTTCAA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
* * * * **
17369314 GT-GTACATACAAAGTGTACATAACCTTTTCAT
1 GTGGTATACACAAAGTATACCTTTCCTTTTCAT
**
17369346 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 GTGGTATACACAAAGTATACCTTTCCTTTTCA
17369378 CATTCGATAG
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
32 24 0.21
33 88 0.79
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (33 bp):
GTGGTATACACAAAGTATACCTTTCCTTTTCAT
Found at i:17369415 original size:29 final size:29
Alignment explanation
Indices: 17369370--17369496 Score: 218
Period size: 29 Copynumber: 4.4 Consensus size: 29
17369360 GTATACCTAA
*
17369370 CCTTTTCACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
17369399 CCTTTTCACATTTGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
17369428 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
17369457 CCTTTTCACATTCGGTAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
17369486 CCTTTTCACAT
1 CCTTTTCACAT
17369497 GGTACACACA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:17375048 original size:40 final size:40
Alignment explanation
Indices: 17375004--17375190 Score: 284
Period size: 40 Copynumber: 4.7 Consensus size: 40
17374994 CCAACCCAAT
* * ** *
17375004 TGCCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
17375044 TGCCTTCGGGACTTAACCTGGAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
17375084 TGCCTTCAGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
17375124 TGCCTTCGGGACTTAACCCGGAAATAACAACTAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
17375164 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
17375191 TCCTCAATTG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:17385288 original size:27 final size:28
Alignment explanation
Indices: 17385258--17385344 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 28
17385248 GTGACGAAGT
17385258 CACCAGATACAGAT-TTTGTGGCATAGC
1 CACCAGATACAGATATTTGTGGCATAGC
* *
17385285 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCATAGC
* *
17385312 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGATATTTGTGGCATAGC
17385339 CACCAG
1 CACCAG
17385345 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.12
27 46 0.88
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATTTGTGGCATAGC
Found at i:17386985 original size:26 final size:26
Alignment explanation
Indices: 17386955--17387062 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
17386945 TGAAATTCCC
17386955 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
17386981 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
*
17387007 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17387033 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17387059 ATCA
1 ATCA
17387063 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17402335 original size:143 final size:143
Alignment explanation
Indices: 17402077--17402345 Score: 468
Period size: 143 Copynumber: 1.9 Consensus size: 143
17402067 AAAAGTGGAG
* * * *
17402077 GGAAACCATCTAGGCCAGAAGCTTTCAGAGGCACCATATCTTTCATTGCCACCTATATTTCTTCC
1 GGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATATTTCCTCC
*
17402142 ATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTTATACTCATTCGAACATTCTTATT
66 ATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACATTCTTATT
17402207 TGTGATAGTGTAA
131 TGTGATAGTGTAA
*
17402220 GGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCA-CTCGTATTTCCTC
1 GGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCT-ATATTTCCTC
17402284 CATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACATTCT
65 CATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACATTCT
17402346 CAAATATTAC
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
142 2 0.02
143 117 0.98
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (143 bp):
GGAAACCATCAAGGCCAAAAGCTTTCAGAGGCACCATATCTTTCACTGCCACCTATATTTCCTCC
ATAGTAAATACCTGCAATAACTTTTCGTTCATGTCATTTGTGATACTCATTCGAACATTCTTATT
TGTGATAGTGTAA
Found at i:17409049 original size:20 final size:20
Alignment explanation
Indices: 17408994--17409049 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
17408984 TCTCCCTTTA
*
17408994 TTTTATTTTTAATGGTTA-TAG
1 TTTTATTTATAAT--TTATTAG
*
17409015 TTTTATTTATTATTTATTAG
1 TTTTATTTATAATTTATTAG
17409035 TTTTCATTTA-AATTT
1 TTTT-ATTTATAATTT
17409050 TTTAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 11 0.37
21 16 0.53
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTATTTATAATTTATTAG
Found at i:17423205 original size:65 final size:65
Alignment explanation
Indices: 17423101--17423229 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
17423091 CCTATAGTTG
*
17423101 AGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGATA
1 AGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGATA
*
17423166 AGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCTTGCAATGTTATTATTATCTGAT
1 AGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGAT
17423230 GCATGGGACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.43
Consensus pattern (65 bp):
AGGTTGACCTAAATGCATGTTTGACTGTTACTATTTACTGCATGCAATGTTATTATTATCTGATA
Found at i:17425013 original size:46 final size:44
Alignment explanation
Indices: 17424963--17425136 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 44
17424953 TATCTCGTAA
*
17424963 CCGATGCATGTCCCAGATATGTCTTACACTAGCTTACATCTCAGGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTT-C-TCTCAGGG
* **
17425009 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCATTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC-TTC-TCTCAGGG
* * *
17425055 CCGATGCCATGTCCCGGACATGGTCTTACACTGGC-TCTCGTAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTCTC-TCA-G-GG
*
17425103 CCTATGCATGTCCCAGACATGTCTTACACTAGCT
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCT
17425137 CACACAAGTG
Statistics
Matches: 108, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 61 0.56
47 27 0.25
48 18 0.17
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTTCTCTCAGGG
Found at i:17425082 original size:94 final size:92
Alignment explanation
Indices: 17424874--17425135 Score: 239
Period size: 94 Copynumber: 2.8 Consensus size: 92
17424864 ACATCGACGC
* * * * * *
17424874 CATGTCCCAAACATGGTCTTACACAAGTTCTAGTATATCTGTGCCGATGCCATGTCCCAGATATT
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTA-ATGTG-GCCGATG-CATGTCCCAGACA-T
* * * **
17424939 GCCTTACACT-G-ACAT-ATCTCGTAACCGATG
61 GTCTTACACTAGCAC-TCGTCTCATTGCCGATG
* *
17424969 CATGTCCCAGATATGTCTTACACTAGCTTACATC-TCA-G-GGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGC-T-C-TCGTAATGTGGCCGATGCATGTCCCAGACATGT
17425031 CTTACACTAGCACTCGTCTCATTGCCGATG
63 CTTACACTAGCACTCGTCTCATTGCCGATG
* * *
17425061 CCATGTCCCGGACATGGTCTTACACTGGCTCTCGTAATGTGGCCTATGCATGTCCCAGACATGTC
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGACATGTC
17425126 TTACACTAGC
64 TTACACTAGC
17425136 TCACACAAGT
Statistics
Matches: 138, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
90 10 0.07
91 16 0.12
92 23 0.17
93 15 0.11
94 57 0.41
95 14 0.10
96 2 0.01
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCACTCGTCTCATTGCCGATG
Found at i:17431320 original size:42 final size:43
Alignment explanation
Indices: 17431268--17431368 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 43
17431258 CCACTATCTT
* * *
17431268 AGACAGGGTCTTACATG-AAATC-AAATGCGATGCAAATGTCCC
1 AGACATGGTCTTACACGTAAATCAAAAT-CGATGCAAACGTCCC
* *
17431310 AGACATGGTCTTACACGTAAATCTAAAATCGATGCCAACGTCCT
1 AGACATGGTCTTACACGTAAATC-AAAATCGATGCAAACGTCCC
**
17431354 AGATTTGGTCTTACA
1 AGACATGGTCTTACA
17431369 AAAAATGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 15 0.31
43 5 0.10
44 25 0.51
45 4 0.08
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (43 bp):
AGACATGGTCTTACACGTAAATCAAAATCGATGCAAACGTCCC
Found at i:17442435 original size:27 final size:26
Alignment explanation
Indices: 17442377--17442428 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17442367 CTTAGCTTTT
17442377 ATGAGCATCCCGATTAAAGGCTCTTC
1 ATGAGCATCCCGATTAAAGGCTCTTC
17442403 ATGAGCATCCCG-TTAAATTGGCTCTT
1 ATGAGCATCCCGATTAAA--GGCTCTT
17442429 TGTGAGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 5 0.21
26 12 0.50
27 7 0.29
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (26 bp):
ATGAGCATCCCGATTAAAGGCTCTTC
Found at i:17452595 original size:57 final size:57
Alignment explanation
Indices: 17452499--17452646 Score: 147
Period size: 57 Copynumber: 2.6 Consensus size: 57
17452489 TGTATACGAG
* * * * * *
17452499 AGGATTACCAGTCCAGGCTAAATCCTTTTTATGATATATGCTCTAAA-GAGCTT-GATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGA-CTTAGATC
* * * * *
17452556 TGGATTACCCGTCCGGGCTAAATCCAATTCATAACATATGCTCGAGAGGATTTATATC
1 AGGATTACCCGTCCGGGCTAAATCC-TTTCATAACATATGCTCGAAAGGACTTAGATC
*
17452614 AGGATTACCCGTTCGGGCTAAATCCTTTCATAA
1 AGGATTACCCGTCCGGGCTAAATCCTTTCATAA
17452647 ATGAGGTCGA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 46 0.62
58 28 0.38
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
AGGATTACCCGTCCGGGCTAAATCCTTTCATAACATATGCTCGAAAGGACTTAGATC
Found at i:17453689 original size:15 final size:16
Alignment explanation
Indices: 17453650--17453689 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17453640 ATTGTTTTCT
17453650 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
* *
17453666 TTGTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
17453681 TTTTCATTT
1 TTTTCATTT
17453690 TTTCAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:17456650 original size:12 final size:12
Alignment explanation
Indices: 17456633--17456659 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17456623 ACCACTAAAG
17456633 CACCTACAAAAA
1 CACCTACAAAAA
17456645 CACCTACAAAAA
1 CACCTACAAAAA
17456657 CAC
1 CAC
17456660 ATTCTAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.37, G:0.00, T:0.07
Consensus pattern (12 bp):
CACCTACAAAAA
Found at i:17478139 original size:34 final size:34
Alignment explanation
Indices: 17478095--17478162 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
17478085 GCACGGTTGA
* *
17478095 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
17478130 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
17478163 TCAAAAATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:17484841 original size:15 final size:16
Alignment explanation
Indices: 17484821--17484859 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17484811 AAGATGACAA
17484821 GAAATCCAAAATA-AG
1 GAAATCCAAAATAGAG
*
17484836 GAAATCCGAAATAGAG
1 GAAATCCAAAATAGAG
17484852 G-AATCCAA
1 GAAATCCAA
17484860 GATACCATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.54, C:0.15, G:0.18, T:0.13
Consensus pattern (16 bp):
GAAATCCAAAATAGAG
Found at i:17485285 original size:17 final size:18
Alignment explanation
Indices: 17485263--17485296 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17485253 TTGAATTAGT
*
17485263 GAAA-TTATGAATTAAAG
1 GAAATTTATAAATTAAAG
17485280 GAAATTTATAAATTAAA
1 GAAATTTATAAATTAAA
17485297 TGGGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
GAAATTTATAAATTAAAG
Found at i:17486554 original size:52 final size:52
Alignment explanation
Indices: 17486472--17486602 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
17486462 GAAAAAGATA
** * * **
17486472 TGATATGTGCGCCAGTATAAGACCAGAGCTGGGCCATGGCATTGGTGCAATG
1 TGATATGTGTTCCCGTATAAGACCATAGCTGGGCCATGGCATCAGTGCAATG
* * **
17486524 TGATATGTGTTCCCGTATAAGACCATAGCTGGGCGATGGCGTCAGTGTGATG
1 TGATATGTGTTCCCGTATAAGACCATAGCTGGGCCATGGCATCAGTGCAATG
17486576 TGATAATGTGATT-CCGTATAAGACCAT
1 TGAT-ATGTG-TTCCCGTATAAGACCAT
17486603 GGTAGGGCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 46 0.69
53 19 0.28
54 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATAGCTGGGCCATGGCATCAGTGCAATG
Found at i:17493091 original size:53 final size:53
Alignment explanation
Indices: 17493021--17493229 Score: 202
Period size: 53 Copynumber: 3.9 Consensus size: 53
17493011 CTTTTCTTTT
* * * *
17493021 TAAACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
17493074 TGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * *
17493127 TCATAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGA
1 T-A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT-A
* * * *
17493183 AAAACTTACGAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
17493230 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 32, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 46 0.38
54 35 0.29
55 39 0.32
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:17498802 original size:10 final size:10
Alignment explanation
Indices: 17498787--17498827 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
17498777 ATTGCATGTT
17498787 TGAATAGAAA
1 TGAATAGAAA
17498797 TGAATAG-AA
1 TGAATAGAAA
*
17498806 CGAATAGAAA
1 TGAATAGAAA
17498816 --AATAGAAA
1 TGAATAGAAA
17498824 TGAA
1 TGAA
17498828 AAAAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.17
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:17499151 original size:26 final size:26
Alignment explanation
Indices: 17499081--17499155 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
17499071 CATATTTTCT
* *
17499081 CAAAATTTTCCTAGGGGTAAAATCGT
1 CAAAATTTTACTAGGGGTAAAATCGC
* **
17499107 CAAAATTTTACCAAAGGTAAAATCGC
1 CAAAATTTTACTAGGGGTAAAATCGC
* *
17499133 CAAAATTTTGCTGGGGGTAAAAT
1 CAAAATTTTACTAGGGGTAAAAT
17499156 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (26 bp):
CAAAATTTTACTAGGGGTAAAATCGC
Found at i:17507025 original size:48 final size:48
Alignment explanation
Indices: 17506811--17507125 Score: 311
Period size: 48 Copynumber: 6.6 Consensus size: 48
17506801 GTAAAATGCT
* *
17506811 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCG-GTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-GTG-GCC
* * * ** *
17506861 GATGCCATGTCCCAAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAA-TGTGGCC
* * * * *
17506907 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGG-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * *
17506954 GATGCCGTGTCCTAGACAGGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
* * * * *** *
17507002 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACAT-ATCAACGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
17507050 GATGCCATGTCCCAGACATGGTCTTACACAT-GCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-TGGCTCTCATAATGTGGCC
17507098 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
17507126 GTAGCACACA
Statistics
Matches: 214, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 33 0.15
47 41 0.19
48 106 0.50
49 4 0.02
50 30 0.14
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:17507069 original size:143 final size:144
Alignment explanation
Indices: 17506811--17507125 Score: 408
Period size: 143 Copynumber: 2.2 Consensus size: 144
17506801 GTAAAATGCT
* *
17506811 GATGCCATGTCCCGGACATGGTCTTACACTGTCTCTCATACATCGGTGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
* * *
17506876 ACATGGTCTTACACTGACATATAACAATGCTGATGCCATGTTCCAAACATGGTCTTACAC-TGGC
66 ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACAT-GC
*
17506940 TCACATATTGAGG-C
130 TCACATAATGAGGCC
* * * *
17506954 GATGCCGTGTCCTAGACAGGGTCTTACACTGGCTCTCATA-AT--GTGGCCGATGCCATGTCTCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGT-GCCGATGCCATGTCCCA
* * *
17507016 GACATGGTCTTACACTAGCACACATATCAACG-TCGATGCCATGTCCCAGACATGGTCTTACACA
65 AACATGGTCTTACACT-G-ACACATAACAACGCT-GATGCCATGTCCCAAACATGGTCTTACACA
* *
17507080 TGCTCTCATAATGTGGCC
127 TGCTCACATAATGAGGCC
17507098 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
17507126 GTAGCACACA
Statistics
Matches: 148, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
140 2 0.01
141 31 0.21
142 4 0.03
143 84 0.57
144 27 0.18
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATAACAACGCTGATGCCATGTCCCAAACATGGTCTTACACATGCT
CACATAATGAGGCC
Found at i:17507085 original size:96 final size:95
Alignment explanation
Indices: 17506811--17507142 Score: 361
Period size: 96 Copynumber: 3.5 Consensus size: 95
17506801 GTAAAATGCT
* * * *
17506811 GATGCCATGTCCCGGACATGGTCTTACACT-GTCTCTCATA-CATCGGTGCCGATGCCATGTCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACACATATCAAC-GT--CGATGCCATGTCCC
* * ** *
17506874 AAACATGGTCTTACACTGAC-AT-ATAACAAT-GCT
62 AGACATGGTCTTACACTG-CTCTCATAA-TGTGGCC
* * * * ** * * *
17506907 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGA-GGCGATGCCGTGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
*
17506971 AGGGTCTTACACTGGCTCTCATAATGTGGCC
66 ATGGTCTTACACT-GCTCTCATAATGTGGCC
*
17507002 GATGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
17507067 ATGGTCTTACACATGCTCTCATAATGTGGCC
66 ATGGTCTTACAC-TGCTCTCATAATGTGGCC
*
17507098 GATGCCATGTCCCAGACATGGTCTTACAGTAGCACACATATCAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAC
17507143 CAAATGTCTT
Statistics
Matches: 199, Mismatches: 29, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
93 28 0.14
94 3 0.02
95 44 0.22
96 122 0.61
97 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGCTCTCATAATGTGGCC
Found at i:17509037 original size:21 final size:21
Alignment explanation
Indices: 17508998--17509037 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17508988 GGACTAAACC
* *
17508998 GAAAACTTTGAGAAGTTTCAA
1 GAAAACTTAGAAAAGTTTCAA
*
17509019 GAAAACTTAGAAAATTTTC
1 GAAAACTTAGAAAAGTTTC
17509038 CCATGGAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
GAAAACTTAGAAAAGTTTCAA
Found at i:17511208 original size:48 final size:46
Alignment explanation
Indices: 17511144--17511310 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
17511134 ACAACAAGCT
* * * *
17511144 GATGCCATGTCTCAGACAAGTCTTACACTAGCTTGT-ATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAG-TTCTCATA--TCAAGGCC
* *
17511193 GATGCATGTCCCAGACATGTCTTACACTAGTTCTCGTATCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGTTCTCATATCAAGGCC
* * **
17511239 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGTTCTCAT-ATCAAGGCC
**
17511285 GATGCATGTCCTTGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
17511311 GTAGCACACA
Statistics
Matches: 102, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
46 67 0.66
47 5 0.05
48 26 0.25
49 4 0.04
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGTTCTCATATCAAGGCC
Found at i:17515006 original size:132 final size:131
Alignment explanation
Indices: 17514857--17515142 Score: 394
Period size: 131 Copynumber: 2.2 Consensus size: 131
17514847 CAAATATTGC
* * * * *
17514857 CTTCGTTTTAAGTAATTTTTAGAAGATATGAACGAAATCTGGAAGGGATACTCGATTATTTTGAG
1 CTTCGTTTGAAG-AATTTTTAAAAGACATGAACGAAATCTCGAAGCGATACTCGATTATTTTGAG
* * * * * *
17514922 CAAACGTGAAATTGTAACCCAACACGTTAGGGCACGATTCCGTGAATTACTAAATATCGAATGTC
65 CAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTC
17514987 GT
130 GT
* * *
17514989 CTTCGTTTGGAAGAA-TTTTAAAAGACATGAATGAAATTTCGAAGCGATATTCGATTATTTTGAG
1 CTTCGTTT-GAAGAATTTTTAAAAGACATGAACGAAATCTCGAAGCGATACTCGATTATTTTGAG
* *
17515053 CAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTT
65 CAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTC
17515118 GT
130 GT
17515120 CTTCGTTTTGAAGAATTTTTAAA
1 CTTCG-TTTGAAGAATTTTTAAA
17515143 GGAATACTTA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
131 112 0.83
132 20 0.15
133 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (131 bp):
CTTCGTTTGAAGAATTTTTAAAAGACATGAACGAAATCTCGAAGCGATACTCGATTATTTTGAGC
AAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAATTACCAAACATCAAATCTCG
T
Found at i:17517862 original size:44 final size:44
Alignment explanation
Indices: 17517798--17518232 Score: 573
Period size: 44 Copynumber: 9.9 Consensus size: 44
17517788 CTGTTATTTC
*** * * * * *
17517798 CGATCTGCTCTTTACCAATACAGAGATGTCAAGTCCGTTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* **
17517842 CGATCTGCTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* *
17517886 TGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
17517930 CGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGCAATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * **
17517974 CGATCTGCTCTCCACCAATACAGAGATGATAAATCTGCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * * **
17518018 TGATCTGCTCTCCGCCAATACAGAAACGCAAAATCTATTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
*
17518062 TGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
17518106 TGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTTCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
* * *
17518150 CGATTTGTTCTCCGCCAATACAGAGACGTCAAATCTGCTATCTT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
*
17518194 CGATCTGCTCTCCGCCAATACAGAGACGCAAAATCTGCT
1 CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
17518233 GGATTCACCA
Statistics
Matches: 343, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 343 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (44 bp):
CGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTT
Found at i:17530172 original size:131 final size:129
Alignment explanation
Indices: 17529823--17530190 Score: 372
Period size: 131 Copynumber: 2.8 Consensus size: 129
17529813 ACCTAAAGGA
* *** * * *
17529823 ATATTCGATTA-TTTGAGCAAACGAG-AATCACAACCCAGCACGATAGGGCATGATTCC-CGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * *
17529885 AAT-CAAAAGCCAAATATTG-CTTCGTTTTAAGTAATTTTTAGAAGATATGAACGAAATCTTGAA
66 -TTCCAAAA-TCAAATCTTGTCTTCGTTTGAAG-AA-TTTTAAAAGACATGAACGAAATCTTGAA
*
17529948 GGG
127 GCG
* * * *
17529951 ATACTCGATTCTTTTGAGCAAATGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGTGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
* * * * * *
17530016 TACTAAATATCGAATGC-CGTGTTCGTTTGGAAGAATTTTAAAAGACATGAATGAAAT-TTCGAA
66 TTCCAAA-ATCAAAT-CTTGTCTTCGTTT-GAAGAATTTTAAAAGACATGAACGAAATCTT-GAA
17530079 GCG
127 GCG
17530082 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
*
17530147 TTCCAAACATCAAATCTTGTCTTCGTTTTGAAGAATTTTTAAAG
66 TTCCAAA-ATCAAATCTTGTCTTCG-TTTGAAGAATTTTAAAAG
17530191 GAATACTTAT
Statistics
Matches: 194, Mismatches: 35, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
128 9 0.05
129 12 0.06
130 29 0.15
131 128 0.66
132 13 0.07
133 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (129 bp):
ATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAGGGCACGATTCCGCGAAT
TTCCAAAATCAAATCTTGTCTTCGTTTGAAGAATTTTAAAAGACATGAACGAAATCTTGAAGCG
Found at i:17535003 original size:43 final size:43
Alignment explanation
Indices: 17534936--17535057 Score: 183
Period size: 43 Copynumber: 2.9 Consensus size: 43
17534926 TTTGAATTCG
* * *
17534936 TTCACCGGCATT-TCGCCAGCTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
* * *
17534978 TTCACCGACATTATAGCCTGCTAGGCTTGAGGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
17535021 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGA
17535058 ATGGTACCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 11 0.16
43 59 0.84
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
Found at i:17540284 original size:14 final size:14
Alignment explanation
Indices: 17540262--17540292 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17540252 ACTAAGAAGA
*
17540262 TAAATATAAATACT
1 TAAAAATAAATACT
17540276 TAAAAATAAATACT
1 TAAAAATAAATACT
17540290 TAA
1 TAA
17540293 GAAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATAAATACT
Found at i:17545779 original size:27 final size:27
Alignment explanation
Indices: 17545760--17545980 Score: 244
Period size: 27 Copynumber: 8.2 Consensus size: 27
17545750 ATTACCAAAG
* *
17545760 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
17545787 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
17545814 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
** * *
17545841 TACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
17545868 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
17545895 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
17545922 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
17545949 TACCTTCGATTTAAAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
17545976 TACCC
1 TACCC
17545981 CTAGGGTGTT
Statistics
Matches: 163, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:17545807 original size:54 final size:54
Alignment explanation
Indices: 17545746--17545980 Score: 310
Period size: 54 Copynumber: 4.4 Consensus size: 54
17545736 CCTCGACTTG
***
17545746 TAAAATTACCAAAGTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTA
* * *
17545800 TAGAATTACCATTTTACCCTCGATTTACAAAATTATCGTTTTACCCTTAATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTA
* * * *
17545854 CAAAATTACTATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTTGATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTA
* * * * *
17545908 TAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTA-CCTTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTT-GATTTA
*
17545962 AAAAATTACCATTTTACCC
1 TAAAATTACCATTTTACCC
17545981 CTAGGGTGTT
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 4 0.03
54 155 0.97
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.41
Consensus pattern (54 bp):
TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTA
Found at i:17546254 original size:27 final size:26
Alignment explanation
Indices: 17546216--17546267 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
17546206 CTCGCTGAAA
*
17546216 TTTGGTGGCTTCGCCACATATATCTGT
1 TTTGGTGACTTCGCCACA-ATATCTGT
*
17546243 TTTGGTGACTTCGTCACAATATCTG
1 TTTGGTGACTTCGCCACAATATCTG
17546268 GCAACCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
TTTGGTGACTTCGCCACAATATCTGT
Found at i:17546305 original size:67 final size:67
Alignment explanation
Indices: 17546197--17546372 Score: 298
Period size: 67 Copynumber: 2.6 Consensus size: 67
17546187 GAGGAAGCGT
* *
17546197 TCTGGCAGCCTCGCTGAAATTTGGTGGCTTCGCCACATATATCTGTTTTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
17546262 TA
66 TA
* *
17546264 TCTGGCAACCTCGCTGCAATTTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
17546329 TA
66 TA
* *
17546331 TCTGGCAGCCTCGCTGCAATCTGCTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCGCTGCAATTTGGTGGCTTCGCCACATATAT
17546373 ATATCTGTTC
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 101 1.00
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATTTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:17546590 original size:6 final size:6
Alignment explanation
Indices: 17546551--17546669 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
17546541 TTGCATTCAC
* * *
17546551 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
17546600 -TCACCTA ATTCTG ATTCTG ATTCTG -TCACCTG ATTTTG ATTCTG ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
17546650 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
17546670 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 6 0.07
6 66 0.79
7 8 0.10
8 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:17546610 original size:25 final size:25
Alignment explanation
Indices: 17546582--17546648 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
17546572 CCTGATACTG
*
17546582 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
17546607 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
17546632 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
17546649 CATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:17546642 original size:31 final size:29
Alignment explanation
Indices: 17546551--17546648 Score: 96
Period size: 31 Copynumber: 3.4 Consensus size: 29
17546541 TTGCATTCAC
* * *
17546551 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGAT--TG
*
17546582 ATTCTGATTCTAATTCTGTCACCT-A---
1 ATTCTGATTCTGATTCTGTCACCTGATTG
17546607 ATTCTGATTCTGATTCTGTCACCTGATTTTG
1 ATTCTGATTCTGATTCTGTCACCTGA--TTG
17546638 ATTCTGATTCT
1 ATTCTGATTCT
17546649 CATTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 23 0.41
26 1 0.02
30 1 0.02
31 31 0.55
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTCACCTGATTG
Found at i:17553156 original size:81 final size:81
Alignment explanation
Indices: 17553039--17553286 Score: 345
Period size: 81 Copynumber: 3.1 Consensus size: 81
17553029 ATTACTGAAA
* ***
17553039 TACCCTCGACTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATT
*
17553104 TACAGAATTACCATTT
66 TATAGAATTACCATTT
* ** *
17553120 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAAAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATT
17553185 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * * *
17553201 TACCCTCGATTTATAAAATTACTATTTTACCCTCGACTTACAGAATTA-CTGTTTTACCCTCTAT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATC-GTTTTACCCTCAAT
*
17553265 TTATAAAATTACCATTT
65 TTATAGAATTACCATTT
17553282 TACCC
1 TACCC
17553287 CTAGGGTGTT
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 148 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTACCCTCAATT
TATAGAATTACCATTT
Found at i:17553173 original size:27 final size:27
Alignment explanation
Indices: 17553039--17553286 Score: 298
Period size: 27 Copynumber: 9.2 Consensus size: 27
17553029 ATTACTGAAA
* ***
17553039 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCATTT
* * * *
17553066 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
* * *
17553093 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
17553120 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* **
17553147 TACCCTCAATTTATAAAATTATTATTT
1 TACCCTCGATTTATAAAATTACCATTT
*
17553174 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
*
17553201 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACCATTT
* * * **
17553228 TACCCTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
*
17553255 TACCCTCTATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
17553282 TACCC
1 TACCC
17553287 CTAGGGTGTT
Statistics
Matches: 188, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:17553619 original size:67 final size:67
Alignment explanation
Indices: 17553505--17553678 Score: 276
Period size: 67 Copynumber: 2.6 Consensus size: 67
17553495 GGAAGCGTTT
* * * *
17553505 TGGCAACCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAATA
17553570 TC
66 TC
* * * *
17553572 TGGTAGCCTCGTTGCAATCTGGTGGCTTCGCTAGATATATCTATTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAATA
17553637 TC
66 TC
17553639 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
1 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAT
17553679 ATATGTTCTG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAATA
TC
Found at i:17553918 original size:25 final size:25
Alignment explanation
Indices: 17553886--17553952 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
17553876 CCTAATACTG
*
17553886 ATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
* *
17553911 ATTTTGATTCTGATTTTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
17553936 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
17553953 CATTTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:17553959 original size:31 final size:30
Alignment explanation
Indices: 17553855--17553952 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
17553845 TTGCTTTCAC
* *
17553855 ATTCTGATTTTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAAT-CTG
*
17553886 ATTCTGATTCTAATTCTGTCACCTAA--T-
1 ATTCTGATTCTGATTCTGTCACCTAATCTG
*
17553913 -TT-TGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAA-TCTG
17553942 ATTCTGATTCT
1 ATTCTGATTCT
17553953 CATTTTGATT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 20 0.36
26 2 0.04
28 2 0.04
30 2 0.04
31 30 0.54
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACCTAATCTG
Found at i:17556855 original size:3 final size:3
Alignment explanation
Indices: 17556844--17556874 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17556834 AAAACTAAAG
17556844 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17556875 AAGGAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:17559769 original size:47 final size:47
Alignment explanation
Indices: 17559709--17559884 Score: 147
Period size: 47 Copynumber: 3.6 Consensus size: 47
17559699 GCATTGGCAC
*
17559709 TAAGACAAAGATACCCTGTAAGACCATGTTTGAAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
* * ** * * **
17559756 TAAGATAAGGATACCATGTAAGACCATGCCAATGCATGACATTG-ATAAGTTCTA
1 TAAGACAAAGATACCATGTAAGACCATG--TTTG-A-AACATGGCAT---TT-GG
*
17559810 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
* * * *
17559857 TAAGATAAGGATATCGTGTAAGACCATG
1 TAAGACAAAGATACCATGTAAGACCATG
17559885 CCAAGACATG
Statistics
Matches: 98, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
47 49 0.50
48 2 0.02
49 2 0.02
50 8 0.08
51 7 0.07
52 2 0.02
53 2 0.02
54 26 0.27
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGG
Found at i:17559776 original size:95 final size:93
Alignment explanation
Indices: 17559574--17559881 Score: 249
Period size: 101 Copynumber: 3.2 Consensus size: 93
17559564 AATTGACGGT
** * *
17559574 TAAGGATACCATGTAAGA-CCATGTCAAGACATGGCATTGG--TAAGGCAAGGAT-CCCGTGTAA
1 TAAGGATACCATGTAAGACCCA--TCAAGATGTGGCATTGGCATAAGACAAAGATACCC-TGTAA
* * * *
17559635 GACCATG--TCAAGACATGGCA-TCGGCATTGA
63 GACCATGTTTGAA-ACATGGCATTTGGTA-AGA
17559665 TTAAGGACT-CCATGTAAGACCGCATCAAGATGTGGCATTGGCACTAAGACAAAGATACCCTGTA
1 -TAAGGA-TACCATGTAAGACC-CATCAAGATGTGGCATTGGCA-TAAGACAAAGATACCCTGTA
17559729 AGACCATGTTTGAAACATGGCATTTGGTAAGA
62 AGACCATGTTTGAAACATGGCATTTGGTAAGA
* *
17559761 TAAGGATACCATGTAAGA-CCATGCCA-ATGCATGACATTGATAAGTTCTATAAGACAAAGATAC
1 TAAGGATACCATGTAAGACCCAT-CAAGATG--TGGCATTG----G--C-ATAAGACAAAGATAC
* *
17559824 CATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA
56 CCTGTAAGACCATGTTTGAAACATGGCATTTGGTAAGA
* *
17559862 TAAGGATATCGTGTAAGACC
1 TAAGGATACCATGTAAGACC
17559882 ATGCCAAGAC
Statistics
Matches: 180, Mismatches: 14, Indels: 34
0.79 0.06 0.15
Matches are distributed among these distances:
92 31 0.17
93 8 0.04
94 6 0.03
95 45 0.25
96 13 0.07
97 7 0.04
99 1 0.01
101 67 0.37
102 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (93 bp):
TAAGGATACCATGTAAGACCCATCAAGATGTGGCATTGGCATAAGACAAAGATACCCTGTAAGAC
CATGTTTGAAACATGGCATTTGGTAAGA
Found at i:17559833 original size:101 final size:100
Alignment explanation
Indices: 17559709--17560155 Score: 375
Period size: 108 Copynumber: 4.3 Consensus size: 100
17559699 GCATTGGCAC
*
17559709 TAAGACAAAGATACCCTGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATACCATG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATACCATG
*
17559774 TAAGACCATGCCAATGCATGACATTGATAAGTTCTA
66 TAAGACCATGCCAA-GCATGGCATTGATAAGTTCTA
* * *
17559810 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCGTG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATACCATG
*
17559875 TAAGACCATGCCAAGACATGGTATTGATAAGTTCTA
66 TAAGACCATGCCAAG-CATGGCATTGATAAGTTCTA
* * * * * * **
17559911 TTAGGCAAGGAAATCATGTAAGACCATG--TCAAGACATGGCATTTATGAGTTACTATAAGGCAA
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAA-ACATGGCA-TT-TG-G-TAAGATAAGG---
* * *
17559974 AGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
58 A--TACCATGTAAGACCATGCCAA-GCATGGCATTGATAAGTTCTA
* * * * **
17560019 TAAGGCAAGGATACCATGTAAGACCATG--TCAAGACATGACATTGATGAGTTACTATAAGGAAA
1 TAAGACAAAGATACCATGTAAGACCATGTTTGAA-ACATGGCATT--TG-G-TAAGATAAGG---
* * *
17560082 AGGTTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
58 A--TACCATGTAAGACCATGCCAA-GCATGGCATTGATAAGTTCTA
* * *
17560127 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAAGATACCATGTAAGACCATGT
17560156 CAAGACATAG
Statistics
Matches: 304, Mismatches: 28, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
99 2 0.01
100 9 0.03
101 118 0.39
102 2 0.01
103 1 0.00
104 8 0.03
107 3 0.01
108 127 0.42
109 33 0.11
110 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (100 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGAAACATGGCATTTGGTAAGATAAGGATACCATG
TAAGACCATGCCAAGCATGGCATTGATAAGTTCTA
Found at i:17560067 original size:108 final size:108
Alignment explanation
Indices: 17559873--17560163 Score: 465
Period size: 108 Copynumber: 2.7 Consensus size: 108
17559863 AAGGATATCG
* * * * * * *
17559873 TGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGCAAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCAT
* * *
17559938 GTCAAGACATGGCATTTATGAGTTACTATAAGGCAAAGGTCCCA
65 GTCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
17559982 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
*
17560047 TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTTCCA
66 TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
*
17560090 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATG
1 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
17560155 TCAAGACAT
66 TCAAGACAT
17560164 AGCAATGGTA
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
108 138 0.81
109 32 0.19
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (108 bp):
TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACCATG
TCAAGACATGACATTGATGAGTTACTATAAGGAAAAGGTCCCA
Found at i:17560179 original size:53 final size:54
Alignment explanation
Indices: 17559863--17560163 Score: 358
Period size: 55 Copynumber: 5.6 Consensus size: 54
17559853 TTGGTAAGAT
* * * * *
17559863 AAGGATATCGTGTAAGACCATGCCAAGACATGGTATTGATAAGTTCTATTAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
17559917 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTTATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
17559972 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
17560025 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
17560081 AAGG-TTCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
17560133 AAGGATACCACGTAAGACCATGTCAAGACAT
1 AAGGATACCATGTAAGACCATGCCAAGACAT
17560164 AGCAATGGTA
Statistics
Matches: 210, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
52 8 0.04
53 70 0.33
54 42 0.20
55 82 0.39
56 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:17560303 original size:16 final size:17
Alignment explanation
Indices: 17560282--17560315 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17560272 TTATTTAATA
17560282 TTGAGATT-GCAAGTAT
1 TTGAGATTAGCAAGTAT
*
17560298 TTGAGATTATCAAGTAT
1 TTGAGATTAGCAAGTAT
17560315 T
1 T
17560316 AAGTAAGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (17 bp):
TTGAGATTAGCAAGTAT
Found at i:17575028 original size:24 final size:21
Alignment explanation
Indices: 17574978--17575027 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
17574968 TTAAGCAGAA
*
17574978 GCTGCTGCAACCTTTTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
17574999 GCTGCTGCAACCTTCTTTCTT
1 GCTGCTGCAACCTTCTTTCTT
17575020 GCTGCTGC
1 GCTGCTGC
17575028 TACAGTACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.08, C:0.32, G:0.18, T:0.42
Consensus pattern (21 bp):
GCTGCTGCAACCTTCTTTCTT
Found at i:17575346 original size:23 final size:23
Alignment explanation
Indices: 17575315--17576553 Score: 910
Period size: 23 Copynumber: 54.1 Consensus size: 23
17575305 AAATAAGTAC
* *
17575315 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
17575338 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
17575361 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
17575384 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
17575408 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
17575430 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
17575452 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
17575475 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
17575498 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
17575521 TTAAGA-ACTTCAATTTACAGCAT
1 TTAA-ACACTTCAATTTACAGCAT
* *
17575544 TTAAACATTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
17575568 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
17575590 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
17575612 TAAAACA-TCTCAATGTCCGGCAA
1 TTAAACACT-TCAATTTACAGCAT
* ** * *
17575635 CTAAACACTTCAATTTTTAGTAC
1 TTAAACACTTCAATTTACAGCAT
* **
17575658 TTAAACACTTCAATTTGCAATAT
1 TTAAACACTTCAATTTACAGCAT
*
17575681 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
17575704 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* **
17575727 TCAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
17575751 TT-AACACTTCAATTTATAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
17575773 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
17575797 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
17575819 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
17575841 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
17575864 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* * *
17575887 TTAAACACTTTAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
17575910 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
17575933 TTAAACACTTCAATTTACGGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
17575956 TCAAATACTTCAATTTACAGCACT
1 TTAAACACTTCAATTTACAGCA-T
17575980 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
17576002 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
17576026 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* * * **
17576048 TTATACACCTCAA-TTATAGCGC
1 TTAAACACTTCAATTTACAGCAT
* * * *
17576070 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
17576093 CTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
17576116 TTTAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
17576139 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
17576163 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
**
17576185 TTAAACACTTCAATTTGTAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
17576209 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
17576231 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
17576253 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * * *
17576276 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
17576299 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
17576322 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
17576345 TTAAACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
17576368 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
17576392 TT-AACACTTTAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
17576414 TAAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
17576438 TT-AACATTTCAATTAACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
17576460 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* *
17576482 -TAAGACA-TCTAAATTT-CTAGCAA
1 TTAA-ACACT-TCAATTTAC-AGCAT
* * * *
17576505 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
17576528 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
17576551 TTA
1 TTA
17576554 CTACTAATAT
Statistics
Matches: 954, Mismatches: 198, Indels: 128
0.75 0.15 0.10
Matches are distributed among these distances:
21 2 0.00
22 121 0.13
23 796 0.83
24 35 0.04
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:17575665 original size:183 final size:182
Alignment explanation
Indices: 17575310--17575956 Score: 577
Period size: 183 Copynumber: 3.5 Consensus size: 182
17575300 ACCCAAAATA
*
17575310 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACAGCATTTAAACACTTCAAT
* * * * *
17575375 TTGCAGCA-TTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACC
66 TTGCAGCACTT-TAACACTTCAATTTACAGCA-TTTAACACCTCAATTAACAACATTAAAACACC
*
17575439 TCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGC
129 TCAATTACAGCAATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGC
*
17575493 AGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACAGCATTTAAACATTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACAGCATTTAAACACTTCAAT
* * * *
17575558 TTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACACCTCAATT-ACAGCGA-TAAAACAT
66 TTGCAGCACTTTAACACT-TCAATTTACAGCATTTA-ACACCTCAATTAACAAC-ATTAAAACAC
* * * ** *
17575620 CTCAATGTCCGGCAACT-AAACA-CTTCAATTTTTAG-TACTTAAACACTTCAATTTGC
128 CTCAAT-TACAGCAA-TAAAACATC-TCAATGTCCAGCAAC-TAAACACTTCAATTTGC
* * * * * *
17575676 AATATTTAAGCACTTCAATTTACAGCATTTAA-ACACTTCAATTTACAGCATTCAAACACTTCAA
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGA-ACTTCAATTTACAGCATTTAAACACTTCAA
* * * ** * * *
17575740 TTTGTAGCACTTTAACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAGCACTT-TAACAT
65 TTTGCAGCACTTTAACACTTCAATTTACAGCATTT-AACACCTCAATTAACAACA-TTAAAACAC
* * * * * * * * *
17575804 CTCAATTAACAACATTTATACACCTCAAT-TACAGCGA-TAAA-ACATCTCAATGTCC
128 CTCAATT-ACAGCAATAAAACATCTCAATGTCCAGCAACTAAACAC-T-TCAATTTGC
* ** * * * *
17575859 AGCAAC-TAAACACTTCAATTTGCAGTACTTAA-ACACTTTAATTTGCAACATTTAAACACTTCA
1 AG-TACTTAAACACTTCAATTTGCAACATTTAAGA-ACTTCAATTTACAGCATTTAAACACTTCA
* *
17575922 ATTTACAGCA-TTTAAACACTTCAATTTACGGCATT
64 ATTTGCAGCACTTT-AACACTTCAATTTACAGCATT
17575957 CAAATACTTC
Statistics
Matches: 385, Mismatches: 57, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
181 2 0.01
182 32 0.08
183 315 0.82
184 34 0.09
185 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (182 bp):
AGTACTTAAACACTTCAATTTGCAACATTTAAGAACTTCAATTTACAGCATTTAAACACTTCAAT
TTGCAGCACTTTAACACTTCAATTTACAGCATTTAACACCTCAATTAACAACATTAAAACACCTC
AATTACAGCAATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGC
Found at i:17575774 original size:229 final size:230
Alignment explanation
Indices: 17575476--17576474 Score: 1266
Period size: 229 Copynumber: 4.4 Consensus size: 230
17575466 GTCCAGCAAC
* * * *
17575476 TAAACACTTCAATTTGCAGTACTT-AAACACTTCAATTTGCAACA-TTTAAGAACTTCAATTTAC
1 TAAACACTTCAATTTACAGCA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTAC
*
17575539 AGCATTTAAACATTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAAT
64 AGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAAT
* ** *
17575604 TACAGCGATAAAACATCTCAATGTCCGGCAACTAAACACTTCAATTTTTAGTACTTAAACACTTC
129 TACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTC
* * * *
17575669 AATTTGCAATATTTAAGCACTTCAATTTACAGCA-TT
194 AATTTACAACATTCAAACACTTCAATTTACAGCACTT
* *
17575705 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTATAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
17575770 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
66 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
* *
17575835 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTTTAA
131 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAA
* *
17575900 TTTGCAACATTTAAACACTTCAATTTACAGCA-TT
196 TTTACAACATTCAAACACTTCAATTTACAGCACTT
* * *
17575934 TAAACACTTCAATTTACGGCATTCAAATACTTCAATTTACAGCACTTTAACACTTCAATTTACAG
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
17575999 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
66 CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
* * * * * *
17576064 TAGCGCTAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAACATTTTAGCACTTCAA
131 CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAA
* *
17576129 TTTACAGCATTCAAACACTTCAATTTGCAGCACTT
196 TTTACAACATTCAAACACTTCAATTTACAGCACTT
* * *
17576164 T-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACA-TCTCAATTAACA
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACA
* * * * ** * * ** * *
17576227 ACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATGT-CCAGCAACTAAACACTTCAA
65 GCATTTAAACACTTCAATTTGCAGC-ACTTTAACATCTCAAT-TAACAACATTTATACACCTCAA
* * * * * * ** * * *
17576289 TTTGCAG-TACTTAAACA-CTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACA
128 -TTACAGCGA-TAAAACATC-TCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACA
*
17576352 CTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTT
190 CTTCAATTTACAACATTCAAACACTTCAATTTACAGCACTT
* * * * *
17576393 T-AACACTTTAATTTACAGCATTAAAACACTTCAATTTGCAGCACTTTAACATTTCAATTAACAA
1 TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
* *
17576457 CATTTATACACCTCAATT
66 CATTTAAACACTTCAATT
17576475 ACAGCGATAA
Statistics
Matches: 692, Mismatches: 67, Indels: 21
0.89 0.09 0.03
Matches are distributed among these distances:
228 36 0.05
229 646 0.93
230 10 0.01
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (230 bp):
TAAACACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAG
CATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTA
CAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAA
TTTACAACATTCAAACACTTCAATTTACAGCACTT
Found at i:17576100 original size:183 final size:183
Alignment explanation
Indices: 17575729--17576397 Score: 814
Period size: 183 Copynumber: 3.7 Consensus size: 183
17575719 TACAGCATTC
* * * *
17575729 AAACACTTCAATTTGTAGCACTTT-AACACTTCAATTTATAGCATTTAAACACTTCAATTTGCAG
1 AAACACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAG
* * * * * **
17575793 CACTTTAACA-TCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAAT
65 CACTTTAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGC-ACTTTAACATCTCAAT
* * ** * * * * * * * * * **
17575855 GT-CCAGCAACTAAACACTTCAATTTGCAG-TACTTAAACA-CTTTAATTTGCAACATTT
128 -TAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATGTCCAGCAACT
* * *
17575912 AAACACTTCAATTTACAGCATTTAAACACTTCAATTTACGGCATTCAAATACTTCAATTTACAGC
1 AAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
17575977 ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
66 ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
* *
17576042 CAACATTTATACACCTCAATTATAGCGCTAAAACATCTCAATGTCCAGCAACT
131 CAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACT
* * * *
17576095 AAACACTTCAATTTGCAACATTTTAGCACTTCAATTTACAGCATTCAAACACTTCAATTTGCAGC
1 AAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
*
17576160 ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACATCTCAATTAA
66 ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
17576225 CAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACT
131 CAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACT
* * * * * *
17576278 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGC
1 AAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
* *
17576343 A-TTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAGCACTTTAACA
66 ACTTT-AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA
17576398 CTTTAATTTA
Statistics
Matches: 424, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
182 6 0.01
183 384 0.91
184 34 0.08
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (183 bp):
AAACACTTCAATTTGCAGCATTTAAACACTTCAATTTACAGCATTCAAACACTTCAATTTACAGC
ACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAA
CAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACT
Found at i:17577491 original size:18 final size:16
Alignment explanation
Indices: 17577442--17577495 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
17577432 GATTATAAAA
17577442 ATAACTCAACATCTTT
1 ATAACTCAACATCTTT
* *
17577458 ATCACTCTTAAGATCTTGT
1 ATAACTC--AACATCTT-T
17577477 ATAAACTCAACATCTTT
1 AT-AACTCAACATCTTT
17577494 AT
1 AT
17577496 TGAAAGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 6 0.20
17 3 0.10
18 14 0.47
19 3 0.10
20 4 0.13
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (16 bp):
ATAACTCAACATCTTT
Found at i:17578853 original size:7 final size:7
Alignment explanation
Indices: 17578851--17578910 Score: 84
Period size: 7 Copynumber: 8.6 Consensus size: 7
17578841 GTTTTTAAGT
*
17578851 TTTTAAT
1 TTTTAAA
*
17578858 TTTTTAA
1 TTTTAAA
*
17578865 TTTTTAA
1 TTTTAAA
17578872 TTTTAAA
1 TTTTAAA
*
17578879 TATTAAA
1 TTTTAAA
17578886 TTTTAAA
1 TTTTAAA
17578893 TTTTAAA
1 TTTTAAA
17578900 TTTTAAA
1 TTTTAAA
17578907 TTTT
1 TTTT
17578911 TTTGAAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
TTTTAAA
Found at i:17578868 original size:14 final size:14
Alignment explanation
Indices: 17578843--17578911 Score: 84
Period size: 14 Copynumber: 4.9 Consensus size: 14
17578833 AATATTAAGT
*
17578843 TTTTAAGTTTTTAA
1 TTTTAAATTTTTAA
*
17578857 TTTTTTAATTTTTAA
1 -TTTTAAATTTTTAA
* *
17578872 TTTTAAATATTAAA
1 TTTTAAATTTTTAA
*
17578886 TTTTAAATTTTAAA
1 TTTTAAATTTTTAA
17578900 TTTTAAATTTTT
1 TTTTAAATTTTT
17578912 TTGAAGATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (14 bp):
TTTTAAATTTTTAA
Found at i:17578937 original size:8 final size:8
Alignment explanation
Indices: 17578837--17578937 Score: 72
Period size: 7 Copynumber: 12.9 Consensus size: 8
17578827 ATATTAAATA
*
17578837 TTAAGTTT
1 TTAAATTT
*
17578845 TTAAGTTT
1 TTAAATTT
17578853 TT-AATTT
1 TTAAATTT
*
17578860 TTTAATTT
1 TTAAATTT
17578868 TT-AA-TT
1 TTAAATTT
*
17578874 TTAAA-TA
1 TTAAATTT
17578881 TTAAA-TT
1 TTAAATTT
17578888 TTAAA-TT
1 TTAAATTT
17578895 TTAAA-TT
1 TTAAATTT
17578902 TTAAATTTTT
1 TTAAA--TTT
17578912 TTGAAGATTT
1 TT-AA-ATTT
17578922 TTATAATTT
1 TTA-AATTT
17578931 TTAAATT
1 TTAAATT
17578938 AACATATAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
6 4 0.05
7 36 0.44
8 21 0.26
9 8 0.10
10 10 0.12
11 2 0.02
12 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (8 bp):
TTAAATTT
Found at i:17579402 original size:22 final size:22
Alignment explanation
Indices: 17579358--17579434 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
17579348 CATAAACCCT
*
17579358 AAACACTAAAACCCTAACTATA
1 AAACACTAAAACCCAAACTATA
*
17579380 AAACACTAAATCCCAAA-TCATA
1 AAACACTAAAACCCAAACT-ATA
* * *
17579402 AACCA-T-AAACCATAAACTTTA
1 AAACACTAAAACC-CAAACTATA
17579423 AAACAC-AAAACC
1 AAACACTAAAACC
17579435 ATAAACTCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
20 4 0.09
21 11 0.26
22 28 0.65
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACACTAAAACCCAAACTATA
Found at i:17579627 original size:50 final size:50
Alignment explanation
Indices: 17579573--17579693 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
17579563 AACTCCTAAT
* * * *
17579573 CCCTAATCCCTAAATCATAAA-CCTTAAATCTTAAAACATAAACCCTGAAC
1 CCCTAATCCCTAAACCATAAATCC-CAAACCTTAAAACATAAACCCTAAAC
* * * *
17579623 CCCTAACCCCTAAACCTTAAATCCCAACCCTTAAAACATAATCCCTAAAC
1 CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
* * *
17579673 CCATAATCCATAAACCTTAAA
1 CCCTAATCCCTAAACCATAAA
17579694 ATAGTAACTC
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 57 0.97
51 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (50 bp):
CCCTAATCCCTAAACCATAAATCCCAAACCTTAAAACATAAACCCTAAAC
Found at i:17579677 original size:15 final size:15
Alignment explanation
Indices: 17579659--17579688 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17579649 ACCCTTAAAA
*
17579659 CATAATCCCTAAACC
1 CATAATCCATAAACC
17579674 CATAATCCATAAACC
1 CATAATCCATAAACC
17579689 TTAAAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:17579693 original size:22 final size:21
Alignment explanation
Indices: 17579659--17579727 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
17579649 ACCCTTAAAA
* *
17579659 CATAATCCCTAAACCCATAATC
1 CATAAACCTTAAACCCATAA-C
**
17579681 CATAAACCTTAAA-ATAGTAAC
1 CATAAACCTTAAACCCA-TAAC
*
17579702 TCATAAACCTTAAACCCTTAAC
1 -CATAAACCTTAAACCCATAAC
17579724 CATA
1 CATA
17579728 TGCCCTAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
CATAAACCTTAAACCCATAAC
Found at i:17595779 original size:33 final size:33
Alignment explanation
Indices: 17595742--17595807 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
17595732 ATGCATGACT
* *
17595742 ACTAGATACATCTATTTTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
17595775 ACTAGATACATCTACTCTAAATACATTCATTAA
1 ACTAGATACATCTACTCTAAATACATTCATTAA
17595808 GTAAAAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.36
Consensus pattern (33 bp):
ACTAGATACATCTACTCTAAATACATTCATTAA
Found at i:17598389 original size:17 final size:17
Alignment explanation
Indices: 17598369--17598418 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
17598359 TAATAAAAAA
17598369 TTTATATTTTTAAAATT
1 TTTATATTTTTAAAATT
**
17598386 TTTA-ATTGTTTTGAATT
1 TTTATATT-TTTAAAATT
17598403 TTTATATTTTTTAAAA
1 TTTATA-TTTTTAAAA
17598419 AATTGCTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 6 0.23
19 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTAAAATT
Found at i:17608666 original size:15 final size:15
Alignment explanation
Indices: 17608646--17608675 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17608636 GTACACTTGC
17608646 CTTAATCGTGATAAT
1 CTTAATCGTGATAAT
17608661 CTTAATCGTGATAAT
1 CTTAATCGTGATAAT
17608676 AAGTTAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
CTTAATCGTGATAAT
Found at i:17609969 original size:38 final size:38
Alignment explanation
Indices: 17609918--17609994 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
17609908 GAACGAGCAG
*
17609918 TTAAATTAAATGGATAACAATCTTCGATCTCAAAACAA
1 TTAAATTAAATGGATAACAATCCTCGATCTCAAAACAA
*
17609956 TTAAATTACATGGATAACAATCCTCGATCTCAAAACAA
1 TTAAATTAAATGGATAACAATCCTCGATCTCAAAACAA
17609994 T
1 T
17609995 CCTTATAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (38 bp):
TTAAATTAAATGGATAACAATCCTCGATCTCAAAACAA
Found at i:17614404 original size:40 final size:40
Alignment explanation
Indices: 17614320--17614504 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
17614310 TTGAATGATG
* * *
17614320 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
17614360 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
17614400 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
*
17614440 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
17614480 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17614505 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.64
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:17614476 original size:79 final size:81
Alignment explanation
Indices: 17614320--17614504 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
17614310 TTGAATGATG
*
17614320 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17614384 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
17614399 TTCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT-CGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
17614461 TTTGTGCGA-ATTACTATA
64 TTTGTGCGAGA-TACTATA
* *
17614479 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17614505 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
78 2 0.02
79 54 0.58
80 30 0.32
81 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:17614526 original size:79 final size:79
Alignment explanation
Indices: 17614321--17614537 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 79
17614311 TGAATGATGT
** * * * *
17614321 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
17614384 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * * *
17614401 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGT
17614466 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
17614480 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
17614538 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.04
79 73 0.63
80 31 0.27
81 7 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:17617619 original size:12 final size:12
Alignment explanation
Indices: 17617585--17617619 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
17617575 TGTACTGGAT
17617585 GACAAAGAATTA
1 GACAAAGAATTA
17617597 GAC-AAGAATTA
1 GACAAAGAATTA
*
17617608 GACAAAGGATTA
1 GACAAAGAATTA
17617620 CTGGGTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (12 bp):
GACAAAGAATTA
Found at i:17622155 original size:79 final size:81
Alignment explanation
Indices: 17622019--17622203 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
17622009 TTGAATGATG
*
17622019 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
17622083 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
17622098 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
17622160 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
17622178 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17622204 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:17622217 original size:40 final size:39
Alignment explanation
Indices: 17622020--17622203 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
17622010 TGAATGATGT
* * *
17622020 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
17622060 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
17622100 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
17622138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
17622179 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
17622204 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:17622225 original size:79 final size:79
Alignment explanation
Indices: 17622020--17622236 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
17622010 TGAATGATGT
** * * * **
17622020 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
17622083 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
17622100 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
17622165 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
17622179 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
17622237 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:17626552 original size:19 final size:19
Alignment explanation
Indices: 17626506--17626553 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
17626496 GTATATATTT
17626506 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
17626524 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
17626543 TAAGTTTTATT
1 TAAATTTTATT
17626554 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:17626615 original size:43 final size:43
Alignment explanation
Indices: 17626567--17626702 Score: 238
Period size: 43 Copynumber: 3.2 Consensus size: 43
17626557 ATTCTAGAAA
* *
17626567 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
17626610 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
17626653 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
17626696 TATTTTC
1 TATTTTC
17626703 CCAATTAGGA
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (43 bp):
TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
Found at i:17629726 original size:19 final size:20
Alignment explanation
Indices: 17629702--17629739 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17629692 GGTACCACCA
17629702 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
17629721 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
17629740 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:17630078 original size:93 final size:93
Alignment explanation
Indices: 17629968--17630138 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
17629958 GCCCCTAAGT
* *
17629968 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17630033 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
17630061 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17630126 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17630139 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17630135 original size:46 final size:46
Alignment explanation
Indices: 17629963--17630135 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
17629953 AACCCGCCCC
* * * *
17629963 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
17630009 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
17630057 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
17630102 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17630136 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:17638370 original size:19 final size:19
Alignment explanation
Indices: 17638324--17638371 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
17638314 GTATATATTT
17638324 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
17638342 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
17638361 TAAGTTTTATT
1 TAAATTTTATT
17638372 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:17638433 original size:43 final size:43
Alignment explanation
Indices: 17638385--17638477 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
17638375 ATTCTAGAAA
*
17638385 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGTGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
17638428 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
17638471 TATTTTC
1 TATTTTC
17638478 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:17639522 original size:19 final size:17
Alignment explanation
Indices: 17639490--17639524 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
17639480 GAATTAGAAT
17639490 TAAATTGAGATTATTTG
1 TAAATTGAGATTATTTG
17639507 TAAATTTGAGGATTATTT
1 TAAA-TTGA-GATTATTT
17639525 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TAAATTGAGATTATTTG
Found at i:17639632 original size:30 final size:30
Alignment explanation
Indices: 17639597--17639691 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
17639587 CTATATCGAT
17639597 TAGTTGGGTGATCAAATTAAAAAAAATTGA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGA
* ** * **
17639627 TAGTTGGGTGATAAAAAGGAAAAAAGA-CAA
1 TAGTTGGGTGAT-CAAATTAAAAAAAATTGA
* *
17639657 TAATTAGGTGATCAAATT-AAAAAAATTGA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGA
17639686 TAGTTG
1 TAGTTG
17639692 AATGATTAAA
Statistics
Matches: 47, Mismatches: 16, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
28 6 0.13
29 8 0.17
30 23 0.49
31 10 0.21
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.27
Consensus pattern (30 bp):
TAGTTGGGTGATCAAATTAAAAAAAATTGA
Found at i:17639726 original size:59 final size:60
Alignment explanation
Indices: 17639597--17639726 Score: 183
Period size: 59 Copynumber: 2.2 Consensus size: 60
17639587 CTATATCGAT
**
17639597 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGGGTGATAAAAAGGAAAAAAGACAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGATAAAAAGGAAAAAAGACAA
* * **
17639657 TAATTAGGTGATCAAATT-AAAAAAATTGATAGTTGAATGATTAAAAAGGAAAGGAG-CAA
1 TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGA-TAAAAAGGAAAAAAGACAA
17639716 TAGTTGGGTGA
1 TAGTTGGGTGA
17639727 CTTGTATTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 32 0.52
60 29 0.48
ACGTcount: A:0.48, C:0.03, G:0.24, T:0.25
Consensus pattern (60 bp):
TAGTTGGGTGATCAAATTAAAAAAAATTGATAGTTGAATGATAAAAAGGAAAAAAGACAA
Found at i:17640098 original size:15 final size:15
Alignment explanation
Indices: 17640078--17640108 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17640068 ACAGCAGCAG
17640078 CAGCAGCAACAACAA
1 CAGCAGCAACAACAA
*
17640093 CAGCAGCAGCAACAA
1 CAGCAGCAACAACAA
17640108 C
1 C
17640109 CCCTTTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.16, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAA
Found at i:17640436 original size:7 final size:7
Alignment explanation
Indices: 17640424--17640450 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17640414 TATGGCACTC
17640424 TGAGTAG
1 TGAGTAG
17640431 TGAGTAG
1 TGAGTAG
17640438 TGAGTAG
1 TGAGTAG
17640445 TGAGTA
1 TGAGTA
17640451 TTGTGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (7 bp):
TGAGTAG
Found at i:17650590 original size:16 final size:17
Alignment explanation
Indices: 17650557--17650597 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
17650547 AATTAAAAGA
17650557 ATAGAAAA-TTGAAGGG
1 ATAGAAAACTTGAAGGG
17650573 ATAGAAAACTTGAA-GG
1 ATAGAAAACTTGAAGGG
*
17650589 ATGGAAAAC
1 ATAGAAAAC
17650598 ATAATTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.51, C:0.05, G:0.27, T:0.17
Consensus pattern (17 bp):
ATAGAAAACTTGAAGGG
Found at i:17652137 original size:64 final size:64
Alignment explanation
Indices: 17652069--17652190 Score: 235
Period size: 64 Copynumber: 1.9 Consensus size: 64
17652059 CTTTCCCACA
17652069 GTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATACTTCCCATG
1 GTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATACTTCCCATG
*
17652133 GTATGAGGGCTTGTTTCATTGAAAATAATACTTCATCCAAGCATTAGAAAACATACTT
1 GTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATACTT
17652191 TTTCGAAACA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (64 bp):
GTATGAGGGCTTGTTTCATTGAAAACAATACTTCATCCAAGCATTAGAAAACATACTTCCCATG
Found at i:17661659 original size:18 final size:18
Alignment explanation
Indices: 17661636--17661672 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
17661626 GACGAGGAAA
*
17661636 CTTGTTGTCCCGATGAGC
1 CTTGTTGTCCCAATGAGC
17661654 CTTGTTGTCCCAATGAGC
1 CTTGTTGTCCCAATGAGC
17661672 C
1 C
17661673 CTAAAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (18 bp):
CTTGTTGTCCCAATGAGC
Found at i:17663052 original size:24 final size:23
Alignment explanation
Indices: 17663025--17663101 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 23
17663015 CTTATTTACT
*
17663025 TTAATTAAATATTTAATTACTTAA
1 TTAATTAAA-ATTTAATGACTTAA
17663049 TTAACTT--AA-TTAA-GACTTAA
1 TTAA-TTAAAATTTAATGACTTAA
*
17663069 TTAATTAAAATTTAATCAC--AA
1 TTAATTAAAATTTAATGACTTAA
*
17663090 TTAATCAAAATT
1 TTAATTAAAATT
17663102 AGTAGAAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.04
20 10 0.22
21 19 0.42
22 5 0.11
23 3 0.07
24 4 0.09
25 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (23 bp):
TTAATTAAAATTTAATGACTTAA
Found at i:17667816 original size:48 final size:48
Alignment explanation
Indices: 17667693--17668018 Score: 325
Period size: 48 Copynumber: 6.7 Consensus size: 48
17667683 AAAAGGGTAA
** *
17667693 AATGCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATACA-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-AT
* ** * * *
17667741 ACGGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAACACATATAAC
1 A--ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
* * * * *
17667791 AATGCCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
* * * * * *
17667839 GAGGCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
* *
17667887 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
* *
17667935 AATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGA-AT-AT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-ACATAAT
* * *
17667982 ACCAGTGCCAATACCATGTCCTAGACATGGTCTTACA
1 A--A-TGCCGATGCCATGTCCCAGACATGGTCTTACA
17668019 TTGACATATA
Statistics
Matches: 232, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
47 3 0.01
48 161 0.69
49 3 0.01
50 65 0.28
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT
Found at i:17667902 original size:96 final size:95
Alignment explanation
Indices: 17667696--17668070 Score: 337
Period size: 96 Copynumber: 3.9 Consensus size: 95
17667686 AGGGTAAAAT
*
17667696 GCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGGTGCCGATGCCATGTC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCAA--G-GCCGATGCCATGTC
** * ** * * *
17667760 CCAGACATGGTCTTACACTAACACATATAACAAT
62 CCAGACATGGTCTTACACTGGCTCGCATATCGAG
* * ** *
17667794 GCCGATGTCATGTTCC-AAACATGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTCCC
1 GCCGATGCCATG-TCCTAGACATGGTCTTACACTGGCTC-CATATCAAGGCCGATGCCATGTCCC
* *
17667858 AGACATGGTTTTACACTGGCTCGCATATTGAG
64 AGACATGGTCTTACACTGGCTCGCATATCGAG
* * *
17667890 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-AATGCCGATGCCATGTTCC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CAT-ATCAAGGCCGATGCCATGTCCC
* * *
17667954 AAACATGGTCTTACACTGGCTCGAATATACCAG
64 AGACATGGTCTTACACTGGCTCGCATAT-CGAG
* * * * * ** **
17667987 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT--ATATCGAGGTTGATGTGATGTCCC
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCCATATCAAGGCCGATGCCATGTCCC
17668050 AGACATGGTCTTACACTGGCT
64 AGACATGGTCTTACACTGGCT
17668071 TTCATATTGC
Statistics
Matches: 227, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
95 5 0.02
96 146 0.64
97 5 0.02
98 66 0.29
99 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCATATCAAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGGCTCGCATATCGAG
Found at i:17667961 original size:144 final size:145
Alignment explanation
Indices: 17667695--17668070 Score: 456
Period size: 144 Copynumber: 2.6 Consensus size: 145
17667685 AAGGGTAAAA
* *
17667695 TGCCGATGCCATGTCCTGGACATGGTCTTACACTGGCTCTCATA-CAACGGTGCCGATGCCATGT
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGA--G-GCCGATGCCATGT
** * * *
17667759 CCCAGACATGGTCTTACACTAACACATATAACAATGCCGATGTCATGTTCCAAACATGGTCTTAC
62 CCCAGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAACATGGTCTTAC
* **
17667824 ACTGGCTCGCATAT-TGAG
127 ACTGGCTCGAATATACCAG
* * * *
17667842 -GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTCGCATATTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-CATATCGAGGCCGATGCCATGTCCC
*
17667906 AGACATGGTCTTACACTGGCTCACATAATAATGCCGATGCCATGTTCCAAACATGGTCTTACACT
65 AGACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACT
17667971 GGCTCGAATATACCAG
130 GGCTCGAATATACCAG
* * * * ** **
17667987 TGCCAATACCATGTCCTAGACATGGTCTTACATTGACAT--ATATCGAGGTTGATGTGATGTCCC
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCCATATCGAGGCCGATGCCATGTCCC
17668050 AGACATGGTCTTACACTGGCT
65 AGACATGGTCTTACACTGGCT
17668071 TTCATATTGC
Statistics
Matches: 197, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
144 125 0.63
145 3 0.02
146 67 0.34
147 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (145 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCATATCGAGGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCACATAACAATGCCGATGCCATGTTCCAAACATGGTCTTACACTG
GCTCGAATATACCAG
Found at i:17676402 original size:22 final size:21
Alignment explanation
Indices: 17676369--17676410 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17676359 CTCTTGAAAC
*
17676369 AGGGGCACACGCCTGTGTGGA
1 AGGGGCACACGCCCGTGTGGA
17676390 AGGGGCGACACGCCCGTGTGG
1 AGGGGC-ACACGCCCGTGTGG
17676411 CCTTCTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.26, G:0.45, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGA
Found at i:17677756 original size:47 final size:47
Alignment explanation
Indices: 17677686--17677820 Score: 189
Period size: 49 Copynumber: 2.8 Consensus size: 47
17677676 CGATGCCGAC
* *
17677686 GCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATCTAAGTCGAT
* *
17677734 GCCATGTCCCAGACAGGTCTTACACTAGCTCTCACTTATCTATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGAT
* *
17677783 GCCATGTCCCAGACAGGTCTTACACTGGCACACACATC
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATC
17677821 ACCCAAATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
47 22 0.28
48 13 0.17
49 43 0.55
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGAT
Found at i:17687468 original size:10 final size:10
Alignment explanation
Indices: 17687450--17687497 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
17687440 ATACGTTGTT
*
17687450 ATTAAATGTG
1 ATTATATGTG
*
17687460 ATTATATGTA
1 ATTATATGTG
*
17687470 ATTATACGTG
1 ATTATATGTG
*
17687480 TTTATATGTG
1 ATTATATGTG
17687490 ATTGATAT
1 ATT-ATAT
17687498 ATGTTGGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 26 0.87
11 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (10 bp):
ATTATATGTG
Found at i:17693146 original size:20 final size:20
Alignment explanation
Indices: 17693113--17693207 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
17693103 ATACATGGGA
17693113 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
17693131 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
17693151 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
*
17693171 TATGATATGCACATGATATT
1 TATGATATGCACATGATATG
* *
17693191 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
17693208 GTATTCATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.12
20 58 0.87
21 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:17693148 original size:11 final size:11
Alignment explanation
Indices: 17693132--17693189 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
17693122 CATGATTGGT
17693132 ATGATATGCAC
1 ATGATATGCAC
*
17693143 ATGATATG--T
1 ATGATATGCAC
* *
17693152 ATAAAATGCAC
1 ATGATATGCAC
*
17693163 ATGATATG--T
1 ATGATATGCAC
17693172 ATGATATGCAC
1 ATGATATGCAC
17693183 ATGATAT
1 ATGATAT
17693190 TTATGAAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
9 14 0.40
11 21 0.60
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17693165 original size:40 final size:40
Alignment explanation
Indices: 17693121--17693207 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
17693111 GATATGATAT
17693121 ACATGAT-TGGTATGATATGCACATGATATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGATATGTATAAAATGC
* *
17693161 ACATGATATGTATGATATGCACATGATATTTATGAAATGC
1 ACATGATATGTATGATATGCACATGATATGTATAAAATGC
*
17693201 ACGTGAT
1 ACATGAT
17693208 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATAAAATGC
Found at i:17693367 original size:25 final size:26
Alignment explanation
Indices: 17693257--17693354 Score: 171
Period size: 26 Copynumber: 3.8 Consensus size: 26
17693247 GAGGAAGTGC
*
17693257 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCT
17693283 AAAAGGGCTTATGCCCCAGTTTACCT
1 AAAAGGGCTTATGCCCCAGTTTACCT
17693309 AAAAGGGCTTATGCCCCAGTTTACC-
1 AAAAGGGCTTATGCCCCAGTTTACCT
*
17693334 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
17693355 ATTAAAAGAG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 20 0.29
26 50 0.71
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCT
Found at i:17695015 original size:18 final size:18
Alignment explanation
Indices: 17694981--17695016 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
17694971 AACATTAGGT
*
17694981 AACTATATAACATAACCA
1 AACTATATAACAGAACCA
*
17694999 AACTATATAATAGAACCA
1 AACTATATAACAGAACCA
17695017 GCTATACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.22
Consensus pattern (18 bp):
AACTATATAACAGAACCA
Found at i:17698784 original size:27 final size:27
Alignment explanation
Indices: 17698746--17698905 Score: 162
Period size: 27 Copynumber: 5.9 Consensus size: 27
17698736 GATTCTCGAC
*
17698746 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *
17698773 TTGTAAAATTACTAAATTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *** *
17698800 TTGTAAAATTATCAAAATACCCCCAAC
1 TTGTAAAATTACCAAAATACCCTTGAT
*
17698827 TTGTAAAATTACTAAAATACCCTTG-T
1 TTGTAAAATTACCAAAATACCCTTGAT
* * *
17698853 AATGTAAAATTACCGAAATATCCTTG-T
1 -TTGTAAAATTACCAAAATACCCTTGAT
**
17698880 AGGGTAAAATTACCAAAATACCCTTG
1 -TTGTAAAATTACCAAAATACCCTTG
17698906 TAGGGTAAAA
Statistics
Matches: 108, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTGAT
Found at i:17698887 original size:81 final size:81
Alignment explanation
Indices: 17698744--17698902 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
17698734 AAGATTCTCG
* * **
17698744 ACTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAATTACCCTTGATTTGTAAAAT
1 ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACGAAATTACCCTTGATGGGTAAAAT
*
17698809 TATCAAAATACCCCCA
66 TACCAAAATACCCCCA
* * *
17698825 ACTTGTAAAATTACTAAAATACCCTTG-TAATGTAAAATTACCGAAA-TATCCTTG-TAGGGTAA
1 ACTTGTAAAATTACCAAAATACCCCTGAT-ATGTAAAATTA-CGAAATTACCCTTGAT-GGGTAA
17698887 AATTACCAAAATACCC
63 AATTACCAAAATACCC
17698903 TTGTAGGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 2 0.03
81 61 0.91
82 4 0.06
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
ACTTGTAAAATTACCAAAATACCCCTGATATGTAAAATTACGAAATTACCCTTGATGGGTAAAAT
TACCAAAATACCCCCA
Found at i:17698906 original size:27 final size:27
Alignment explanation
Indices: 17698829--17698916 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
17698819 CCCCCAACTT
* **
17698829 GTAAAATTACTAAAATACCCTTGTAAT
1 GTAAAATTACCAAAATACCCTTGTAGG
* *
17698856 GTAAAATTACCGAAATATCCTTGTAGG
1 GTAAAATTACCAAAATACCCTTGTAGG
17698883 GTAAAATTACCAAAATACCCTTGTAGG
1 GTAAAATTACCAAAATACCCTTGTAGG
17698910 GTAAAAT
1 GTAAAAT
17698917 GACTGTTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCTTGTAGG
Found at i:17699367 original size:32 final size:32
Alignment explanation
Indices: 17699326--17699413 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
17699316 ATTTACCCAA
* *
17699326 GGCTATGTGCCAATTATATTACCGTCACTGAT
1 GGCTATGTGCCAATTATAATACCGTCACTAAT
** * *
17699358 GGCTATGTGCCAAACATAATACAGTTACTAAT
1 GGCTATGTGCCAATTATAATACCGTCACTAAT
*
17699390 GGCTTTGTGCCAATTATAATACCG
1 GGCTATGTGCCAATTATAATACCG
17699414 CTACTGAAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (32 bp):
GGCTATGTGCCAATTATAATACCGTCACTAAT
Found at i:17700354 original size:20 final size:20
Alignment explanation
Indices: 17700329--17700367 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17700319 GGATTTTCAT
* *
17700329 AATTTTTGAGAATTTGGTAA
1 AATTTTTAAAAATTTGGTAA
17700349 AATTTTTAAAAATTTGGTA
1 AATTTTTAAAAATTTGGTA
17700368 TTTGGTTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTAAAAATTTGGTAA
Found at i:17700993 original size:22 final size:22
Alignment explanation
Indices: 17700967--17701009 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17700957 AAACCAAACC
17700967 ACTACTCCCTTTCTTTTCATCT
1 ACTACTCCCTTTCTTTTCATCT
*
17700989 ACTACTTCCTTTCTTTTCATC
1 ACTACTCCCTTTCTTTTCATC
17701010 ACCCTTGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (22 bp):
ACTACTCCCTTTCTTTTCATCT
Done.