Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 75 of 410
Found at i:21327907 original size:81 final size:81
Alignment explanation
Indices: 21327792--21327989 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
21327782 TACTGAAATG
* * *
21327792 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTCCACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTAGAGAATTACCGTTCCACCCTCGATTTA
*
21327857 CAAAATTACCGTTTTA
66 CAAAATTACCATTTTA
* * **
21327873 CCCTCGATTTATAAAATTACCATTTTACACTCGATTTAGAGAATTTCCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTAGAGAATTACCGTTCCACCCTCGATTTA
*
21327938 CAAAATTATCATTTTA
66 CAAAATTACCATTTTA
* **
21327954 CCCTC-AGTTTACAAAATTACTGTTTTACCCTCGATT
1 CCCTCGA-TTTATAAAATTACCATTTTACCCTCGATT
21327990 GTGAAATTAA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 102 0.99
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATTTTACCCTCGATTTAGAGAATTACCGTTCCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:21328288 original size:27 final size:27
Alignment explanation
Indices: 21328021--21328310 Score: 280
Period size: 27 Copynumber: 10.7 Consensus size: 27
21328011 TGTAGGATAG
21328021 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
21328048 AATTAGCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
21328075 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
21328102 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
21328129 AATTTCCAAAATACCAC-TAGTTTGTGA
1 AATTACCAAAATACC-CTTAGTTTGTAA
* * *
21328156 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * **
21328183 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
21328210 AATTA-TAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
* * * **
21328239 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** * *
21328266 AATTACTGAAATACCCTTAGTTTTTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
21328293 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
21328311 GTAGGATGAA
Statistics
Matches: 220, Mismatches: 37, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 190 0.86
28 9 0.04
29 19 0.09
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:21328372 original size:27 final size:27
Alignment explanation
Indices: 21328342--21328402 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21328332 ACCCCTAATA
21328342 GGTAAAAAGACCGTAAAACCCCTGTAG
1 GGTAAAAAGACCGTAAAACCCCTGTAG
** * * * *
21328369 GGTAAAGTGACCGTAATATCCTTGTAT
1 GGTAAAAAGACCGTAAAACCCCTGTAG
21328396 GGTAAAA
1 GGTAAAA
21328403 TAACGAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAACCCCTGTAG
Found at i:21329298 original size:25 final size:25
Alignment explanation
Indices: 21329213--21329296 Score: 141
Period size: 25 Copynumber: 3.4 Consensus size: 25
21329203 AGGAAGTGCT
21329213 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCG
21329238 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCG
* * *
21329263 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCG
21329288 AAAAGGGCT
1 AAAAGGGCT
21329297 TTCCCTCTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCG
Found at i:21329578 original size:31 final size:31
Alignment explanation
Indices: 21329527--21329671 Score: 204
Period size: 31 Copynumber: 4.7 Consensus size: 31
21329517 CGTTTACAGT
21329527 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21329557 AAAGGCTTCGGCCTAGTGATATCATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21329588 AAAGGCTTCGACCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21329619 AAAGGCTTCGGCCCAATGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
21329650 AAAGGCTTCAGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21329672 TCAAGACTAA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
30 16 0.16
31 87 0.84
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21331336 original size:30 final size:30
Alignment explanation
Indices: 21331302--21331361 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21331292 AACTTGTCTG
21331302 AGCAATCC-TGATATATTGTCACCTTGTGTA
1 AGCAA-CCTTGATATATTGTCACCTTGTGTA
*
21331332 AGCAACCTTGATATATTGTCAGCTTGTGTA
1 AGCAACCTTGATATATTGTCACCTTGTGTA
21331362 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (30 bp):
AGCAACCTTGATATATTGTCACCTTGTGTA
Found at i:21334264 original size:38 final size:38
Alignment explanation
Indices: 21334213--21334304 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
21334203 AGTCCCCGTA
21334213 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
21334251 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
1 CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
21334289 CCAGCCCTACACTCCA
1 CCAGCCCTACACTCCA
21334305 CAGTGGCAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.17
Consensus pattern (38 bp):
CCAGCCCTACACTCCATGTGGGGAATATCTCAACCCAC
Found at i:21352792 original size:27 final size:26
Alignment explanation
Indices: 21352744--21352803 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
21352734 GCGAGGCTGC
*
21352744 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
21352771 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
21352797 CAGATAT
1 CAGATAT
21352804 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21352816 original size:33 final size:32
Alignment explanation
Indices: 21352765--21352828 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
21352755 ACGAAGTCAC
* *
21352765 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
21352797 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
21352829 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:21352892 original size:27 final size:26
Alignment explanation
Indices: 21352844--21352895 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21352834 GCGAGGCTGC
*
21352844 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
21352870 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
21352896 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:21353571 original size:26 final size:25
Alignment explanation
Indices: 21353540--21353596 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
21353530 CAGGGGTAAA
*
21353540 TCGGTAGTCCTACCCTACAGGGTATT
1 TCGGTAATCCTACCCTACAGGGT-TT
* * *
21353566 TTGGTAATTCTACCTTACAGGGTTT
1 TCGGTAATCCTACCCTACAGGGTTT
21353591 TCGGTA
1 TCGGTA
21353597 TCTACAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (25 bp):
TCGGTAATCCTACCCTACAGGGTTT
Found at i:21360564 original size:27 final size:27
Alignment explanation
Indices: 21360541--21360634 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
21360531 CTAGGGTAAA
* * *
21360541 TCGGTAGTCCTACCTTATAGGGGTATT
1 TCGGTAATTCTACCTTACAGGGGTATT
21360568 TCGGTAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCTTACAGGGGTATT
*
21360595 TCGATAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCTTACAGGGGTATT
21360622 TCGGTAATTCTAC
1 TCGGTAATTCTAC
21360635 AACTTATCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCTTACAGGGGTATT
Found at i:21365459 original size:21 final size:22
Alignment explanation
Indices: 21365419--21365460 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21365409 GCCTAAATGG
* *
21365419 TCACACGGGCGTGTTGCCCCTC
1 TCACAAGGACGTGTTGCCCCTC
21365441 TCACAAGGACGTG-TGCCCCT
1 TCACAAGGACGTGTTGCCCCT
21365461 GAGTTAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.14, C:0.38, G:0.26, T:0.21
Consensus pattern (22 bp):
TCACAAGGACGTGTTGCCCCTC
Found at i:21366018 original size:48 final size:48
Alignment explanation
Indices: 21365752--21366021 Score: 229
Period size: 46 Copynumber: 5.7 Consensus size: 48
21365742 ATACCAATGT
* * ** *
21365752 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAATGCCGATGC
* * *
21365802 CATGTCCCAGACATGGTCTTACACTGACAC-C-T-TTATACGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A--TGCCGATGC
* ** *
21365850 CATGTCCCAGACATGGTCTTGCACT--AACACATCTC-ATAGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAT-GCCGATGC
* * * *
21365895 CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGAGGTCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATGCCGATGC
* * *
21365941 CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCCGATGC
21365988 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCAT
21366022 AATGTGGCTG
Statistics
Matches: 179, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
44 9 0.05
45 15 0.08
46 59 0.33
47 18 0.10
48 50 0.28
49 1 0.01
50 27 0.15
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATGCCGATGC
Found at i:21366035 original size:48 final size:47
Alignment explanation
Indices: 21365752--21366061 Score: 198
Period size: 46 Copynumber: 6.6 Consensus size: 47
21365742 ATACCAATGT
* * *
21365752 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATGTG-GCCGATG
* * *
21365801 CCATGTCCCAGACATGGTCTTACACT-GACAC-CTTTATACGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATA-ATGTGGCCGATG
* * * * *
21365849 CCATGTCCCAGACATGGTCTTGCACTAACACATC-TCA--TAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGTGGCCGATG
* * * * *
21365895 CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-CTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATG
* *
21365941 CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTCAA--T-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC--AT-AATGTGGCCGATG
* *
21365987 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG
* *
21366035 CATGTCTCAAACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
21366062 ACACAAATAA
Statistics
Matches: 207, Mismatches: 32, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.05
45 16 0.08
46 58 0.28
47 28 0.14
48 58 0.28
49 2 0.01
50 32 0.15
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG
Found at i:21366035 original size:94 final size:94
Alignment explanation
Indices: 21365752--21366061 Score: 282
Period size: 94 Copynumber: 3.3 Consensus size: 94
21365742 ATACCAATGT
* * *
21365752 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTC-ATGCCGATGCCATGTCCCAGACATG
* * * * *
21365817 GTCTTACACTGACAC-CTTTATACGT-GCCGATG
63 GTCTTACACTGGCTCTC-ATA-ATGTGGCTGATG
* * * *
21365849 CCATGTCCCAGACATGGTCTTGCACTA--ACACATCTCATAGCCGATG-CATGTCCCAAACAT-G
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAT-GCCGATGCCATGTCCCAGACATGG
* *
21365910 TCTTACACTGGCT-TACAT-CTCGAGG-TCGATG
64 TCTTACACTGGCTCT-CATAAT-GTGGCT-GATG
* *
21365941 CATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ATGCCGATGCCATGTCCCAGACATGGT
21366005 CTTACACTGGCTCTCATAATGTGGCTGATG
65 CTTACACTGGCTCTCATAATGTGGCTGATG
* *
21366035 CATGTCTCAAACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
21366062 ACACAAATAA
Statistics
Matches: 173, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
90 10 0.06
91 14 0.08
92 31 0.18
93 30 0.17
94 59 0.34
95 3 0.02
96 1 0.01
98 25 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCATGCCGATGCCATGTCCCAGACATGGTC
TTACACTGGCTCTCATAATGTGGCTGATG
Found at i:21369129 original size:29 final size:29
Alignment explanation
Indices: 21369087--21369157 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
21369077 GACGAGATTA
21369087 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
21369116 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
21369145 GCACTAAGTGTGC
1 GCACTAAGTGTGC
21369158 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:21369173 original size:29 final size:29
Alignment explanation
Indices: 21369087--21369217 Score: 106
Period size: 29 Copynumber: 4.5 Consensus size: 29
21369077 GACGAGATTA
* **
21369087 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
* **
21369116 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
**
21369145 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAACGTATG
* * * *
21369174 GCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGAGCTCGAAA-CGTATG
21369203 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
21369218 AATCGAGTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 85 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTCGAAACGTATG
Found at i:21376921 original size:29 final size:29
Alignment explanation
Indices: 21376879--21376949 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
21376869 GACGAGATTA
21376879 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
21376908 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
21376937 GCACTAAGTGTGC
1 GCACTAAGTGTGC
21376950 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:21376965 original size:29 final size:29
Alignment explanation
Indices: 21376879--21377009 Score: 106
Period size: 29 Copynumber: 4.5 Consensus size: 29
21376869 GACGAGATTA
* **
21376879 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
* **
21376908 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGA-GCTCGAAACGTATG
**
21376937 GCACTAAGTGTGCGAGCTCGAAGGGTATG
1 GCACTAAGTGTGCGAGCTCGAAACGTATG
* * * *
21376966 GCACTATGTGTGCGGGCT-TAAATCGCATG
1 GCACTAAGTGTGCGAGCTCGAAA-CGTATG
21376995 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
21377010 AATCGAGTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.02
29 85 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTCGAAACGTATG
Found at i:21384762 original size:28 final size:29
Alignment explanation
Indices: 21384731--21384790 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
21384721 AATTTTTAAC
*
21384731 AAAAATGTTAATT-AGGAATTAAATTGAG
1 AAAAATGTAAATTGAGGAATTAAATTGAG
* ** *
21384759 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGTAAATTGAGGAATTAAATTGAG
21384788 AAA
1 AAA
21384791 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAATGTAAATTGAGGAATTAAATTGAG
Found at i:21387462 original size:37 final size:37
Alignment explanation
Indices: 21387421--21387492 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
21387411 TTACTTAGAG
*
21387421 ATAATGCATATCATTGGTGGAAAACGTTGACATCGAT
1 ATAATGCATATCATTGGTGGAAAACATTGACATCGAT
21387458 ATAATGCATATCATTGGTGGAAAACATTGACATCG
1 ATAATGCATATCATTGGTGGAAAACATTGACATCG
21387493 GTGGTTCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (37 bp):
ATAATGCATATCATTGGTGGAAAACATTGACATCGAT
Found at i:21389929 original size:30 final size:30
Alignment explanation
Indices: 21389895--21389955 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21389885 TTCTCGAGCC
21389895 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
21389925 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21389955 T
1 T
21389956 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21390321 original size:19 final size:18
Alignment explanation
Indices: 21390282--21390324 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
21390272 CTTTATTATG
21390282 TTTTTGTATTTCAGCATA
1 TTTTTGTATTTCAGCATA
*
21390300 TTTTATGTATTTTAGC-TGA
1 TTTT-TGTATTTCAGCAT-A
21390319 TTTTTG
1 TTTTTG
21390325 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTTCAGCATA
Found at i:21395710 original size:29 final size:28
Alignment explanation
Indices: 21395656--21395710 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
21395646 GAATTTTAAA
* *
21395656 AAAAATGTAAATTAGGGATTACATTGAT
1 AAAAATGTAAATAAGGGATTAAATTGAT
* *
21395684 AAAAGTGTAAATCAAGGGGTTAAATTG
1 AAAAATGTAAAT-AAGGGATTAAATTG
21395711 TGAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (28 bp):
AAAAATGTAAATAAGGGATTAAATTGAT
Found at i:21399971 original size:28 final size:28
Alignment explanation
Indices: 21399939--21400007 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
21399929 AGTGAATCCA
*
21399939 CACACTTAGTGCTATATACATTC-AGCT-G
1 CACACTTAGTGCTATATA-A-TCAAACTCG
21399967 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
21399995 CACACTTAGTGCT
1 CACACTTAGTGCT
21400008 GTACAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 32 0.84
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:21405554 original size:17 final size:18
Alignment explanation
Indices: 21405522--21405558 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
21405512 CGTACATGAG
*
21405522 AGAAACAAAAACAAAGAA
1 AGAAACAAAAAAAAAGAA
21405540 AGAAA-AAAAAAAAAGAA
1 AGAAACAAAAAAAAAGAA
21405557 AG
1 AG
21405559 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAACAAAAAAAAAGAA
Found at i:21405566 original size:17 final size:18
Alignment explanation
Indices: 21405522--21405558 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21405512 CGTACATGAG
*
21405522 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAACAAAGAA
21405540 AGAAAAAAAAA-AAAGAA
1 AGAAAAAAAAACAAAGAA
21405557 AG
1 AG
21405559 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAACAAAGAA
Found at i:21406856 original size:40 final size:40
Alignment explanation
Indices: 21406797--21406903 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
21406787 CAATTGAATG
* * * *
21406797 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
21406837 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
21406877 ACATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
21406904 CGTGCAAGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:21406923 original size:40 final size:39
Alignment explanation
Indices: 21406838--21406964 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 39
21406828 CTGGAAATTA
* * *
21406838 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
21406876 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* * *
21406918 TATCCGGGCTAAGACCCGAGGGCATTCGTGCATGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
21406958 TATCCGG
1 TATCCGG
21406965 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 70 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:21414265 original size:28 final size:29
Alignment explanation
Indices: 21414198--21414298 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
21414188 ATAGTGAATC
*
21414198 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
21414227 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
21414255 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
21414285 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21414299 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:21416818 original size:46 final size:46
Alignment explanation
Indices: 21416765--21416858 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
21416755 CTAGATCCTT
21416765 AAAGACTTCTGTCGAAAATCCAATTGTGGTTCAAGATGAGAAAACA
1 AAAGACTTCTGTCGAAAATCCAATTGTGGTTCAAGATGAGAAAACA
21416811 AAAGACTTCTGTCGAAAATCCAATTGTGGTTCAAGATGAGAAAACA
1 AAAGACTTCTGTCGAAAATCCAATTGTGGTTCAAGATGAGAAAACA
21416857 AA
1 AA
21416859 GGAAAGATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (46 bp):
AAAGACTTCTGTCGAAAATCCAATTGTGGTTCAAGATGAGAAAACA
Found at i:21425784 original size:40 final size:40
Alignment explanation
Indices: 21425713--21425899 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
21425703 GCTACTTGCT
*
21425713 CAAATGCCTTCGGGAC-TAGCCCGGTTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21425752 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
21425792 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21425832 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21425871 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
21425900 CATCCAAATA
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 49 0.37
40 83 0.62
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21425851 original size:79 final size:80
Alignment explanation
Indices: 21425713--21425895 Score: 275
Period size: 79 Copynumber: 2.3 Consensus size: 80
21425703 GCTACTTGCT
* *
21425713 CAAATGCCTTCGGGAC-TAGCCCGGTTATAGTAACTCGGACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21425777 -TTATAGTAACTCA-CA
66 AAT-TAGTAACT-AGCA
*
21425792 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
21425856 AATTAGTCACTAGCA
66 AATTAGTAACTAGCA
21425871 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
21425896 TTATCATCCA
Statistics
Matches: 96, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.62
80 35 0.36
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTAGCA
Found at i:21434590 original size:40 final size:40
Alignment explanation
Indices: 21434522--21434708 Score: 238
Period size: 40 Copynumber: 4.7 Consensus size: 40
21434512 CCTACTTGCT
*
21434522 CAAATGCCTTC-GAGAC-TAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGA-ACTTAGCCCGGTTATAGTAACTCGCA
21434561 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
* * * *
21434601 CAAATGCCTTCGGGACTTAACCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
* * * *
21434641 CAAATGCCTTCGG-GCTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGAACTTAGCCCGGTTA-TAGTAACTCGCA
*
21434680 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGAACTTAGCCCGGTTAT
21434709 CATCCAAATA
Statistics
Matches: 130, Mismatches: 13, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 44 0.34
40 84 0.65
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGAACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21434681 original size:79 final size:80
Alignment explanation
Indices: 21434489--21434704 Score: 262
Period size: 79 Copynumber: 2.7 Consensus size: 80
21434479 AAACCAAGTA
* * * * * * *
21434489 CCTTCGGAATTTAG-CCGGATATACCT-ACTTGCTCAAATGCCTTCGAGAC-TAGCCTGGTTATA
1 CCTTCGGAACTTAGCCCGGATATA-GTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
21434551 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * *
21434567 CCTTCGGAACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
1 CCTTCGGAACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
21434632 TAGCTCGCACAAATG
66 TAACTCGCACAAATG
* *
21434647 CCTTCGG-GCTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGAACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
21434705 TTATCATCCA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 15 0.13
79 72 0.61
80 32 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGAACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:21444819 original size:14 final size:14
Alignment explanation
Indices: 21444800--21444827 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21444790 TTTATGTTGA
21444800 TGACATGTTGATAG
1 TGACATGTTGATAG
21444814 TGACATGTTGATAG
1 TGACATGTTGATAG
21444828 CAACAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TGACATGTTGATAG
Found at i:21447125 original size:76 final size:76
Alignment explanation
Indices: 21446999--21447153 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
21446989 TAGATCTCCT
21446999 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
1 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
21447064 TCATATCCATA
66 TCATATCCATA
* * *
21447075 TAAATATGGTAACTTGATCACACATAAGTTCTTCAAATAAAATCATTGAATGATATTCAACAATA
1 TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
21447140 TCATATCCATA
66 TCATATCCATA
21447151 TAA
1 TAA
21447154 TTGTTCCTCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (76 bp):
TAAATATGGTAACTTGAGCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
TCATATCCATA
Found at i:21449602 original size:39 final size:39
Alignment explanation
Indices: 21449547--21449709 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
21449537 TGTGAATGAA
*
21449547 TGTGCGAATTGCGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
21449586 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
21449625 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
21449664 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
21449704 TGTGCG
1 TGTGCG
21449710 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 98 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:21457426 original size:39 final size:39
Alignment explanation
Indices: 21457372--21457524 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
21457362 GAATGTCGAA
*
21457372 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
21457411 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
21457450 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
21457489 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
21457525 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:21457542 original size:78 final size:78
Alignment explanation
Indices: 21457379--21457553 Score: 244
Period size: 78 Copynumber: 2.2 Consensus size: 78
21457369 GAAGTGATAT
21457379 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
** *
21457444 CGAGCTATGATAT
66 CGAGCTACCATAA
* * *
21457457 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGT
* *
21457522 GCGGGTTACCATAA
65 GCGAGCTACCATAA
*
21457536 CC-GGCTATGTCCCGAAGG
1 CCGGGCTAAG-CCCGAAGG
21457554 TGTTTTGAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
78 53 0.62
79 33 0.38
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:21461410 original size:27 final size:28
Alignment explanation
Indices: 21461380--21461449 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
21461370 ATAATAAGTC
*
21461380 CGCACACTTAGTGCTAAATAATC-AGCT
1 CGCACACTTAGTGCTAAATAATCAAACT
* * *
21461407 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTAAATAATCAAACT
21461435 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21461450 GTACAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTAAATAATCAAACT
Found at i:21469142 original size:48 final size:48
Alignment explanation
Indices: 21469090--21469287 Score: 299
Period size: 48 Copynumber: 4.1 Consensus size: 48
21469080 CTTACACAAA
* * *
21469090 ATCACATATCGATGCCAATGCCATATCCCAGATATGGTATTAAATGGG
1 ATCACATATCGATGCCAATGCCATGTCCCAGACATGGTATTACATGGG
*
21469138 ATCACATATTGATGCCAATGCCATGTCCCAGACATGG-ACTTACATGGG
1 ATCACATATCGATGCCAATGCCATGTCCCAGACATGGTA-TTACATGGG
* *
21469186 ATCACATATCGATGCTAATGCCATGTCCCAGACATGGTCTTACATGGG
1 ATCACATATCGATGCCAATGCCATGTCCCAGACATGGTATTACATGGG
* * *
21469234 ATCACATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATAGG
1 ATCACATATCGATGCCAATGCCATGTCCCAGACATGGTATTACATGGG
21469282 ATCACA
1 ATCACA
21469288 ATGCCATAGC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 137 0.99
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATCACATATCGATGCCAATGCCATGTCCCAGACATGGTATTACATGGG
Found at i:21469190 original size:96 final size:96
Alignment explanation
Indices: 21469059--21469287 Score: 332
Period size: 96 Copynumber: 2.4 Consensus size: 96
21469049 TCTCACCTCG
* * * ** *
21469059 ATGCCATGTCCCAAACATAGCCTTACACAAAATCACATATCGATGCCAATGCCATATCCCAGATA
1 ATGCCATGTCCCAAACATGGACTTACATAGGATCACATATCGATGCCAATGCCATATCCCAGACA
*
21469124 TGGTATTAAATGGGATCACATATTGATGCCA
66 TGGTATTAAATGGGATCACATATCGATGCCA
* * * *
21469155 ATGCCATGTCCCAGACATGGACTTACATGGGATCACATATCGATGCTAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGACTTACATAGGATCACATATCGATGCCAATGCCATATCCCAGACA
* *
21469220 TGGTCTTACATGGGATCACATATCGATGCCA
66 TGGTATTAAATGGGATCACATATCGATGCCA
*
21469251 ATGCCATGTCCCAAACATGGTCTTACATAGGATCACA
1 ATGCCATGTCCCAAACATGGACTTACATAGGATCACA
21469288 ATGCCATAGC
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 117 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGACTTACATAGGATCACATATCGATGCCAATGCCATATCCCAGACA
TGGTATTAAATGGGATCACATATCGATGCCA
Found at i:21469308 original size:37 final size:37
Alignment explanation
Indices: 21469267--21469351 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
21469257 TGTCCCAAAC
*
21469267 ATGGTCTTACATAG-GATCACAATGCCATAGCCTAGCT
1 ATGGTCTTACAT-GTCATCACAATGCCATAGCCTAGCT
* * *
21469304 ATGGTCTTACATGTCATTACGATGTCATAGCCTAGCT
1 ATGGTCTTACATGTCATCACAATGCCATAGCCTAGCT
21469341 ATGGTCTTACA
1 ATGGTCTTACA
21469352 CGTACTTACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.02
37 42 0.98
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (37 bp):
ATGGTCTTACATGTCATCACAATGCCATAGCCTAGCT
Found at i:21483019 original size:46 final size:46
Alignment explanation
Indices: 21482969--21483137 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
21482959 TGAGCATCCA
21482969 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
21483015 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
21483062 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
21483108 AGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
21483138 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.54
47 27 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:21487367 original size:20 final size:20
Alignment explanation
Indices: 21487339--21487378 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21487329 GTCCTCTGTA
* * *
21487339 GTTTGAAAATTTTTCTAAGT
1 GTTTCAAAAATTTCCTAAGT
21487359 GTTTCAAAAATTTCCTAAGT
1 GTTTCAAAAATTTCCTAAGT
21487379 TCTTGGTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
GTTTCAAAAATTTCCTAAGT
Found at i:21489420 original size:20 final size:20
Alignment explanation
Indices: 21489395--21489434 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21489385 ATTTTAGAAA
21489395 AGCTTGTAAAGCTTATCTTG
1 AGCTTGTAAAGCTTATCTTG
21489415 AGCTTGTAAAGCTTATCTTG
1 AGCTTGTAAAGCTTATCTTG
21489435 CTTATGTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
AGCTTGTAAAGCTTATCTTG
Found at i:21489645 original size:24 final size:24
Alignment explanation
Indices: 21489617--21489678 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
21489607 AATGGCTCCG
21489617 ACAGAGTTGAAAGAATTGAAAGCT
1 ACAGAGTTGAAAGAATTGAAAGCT
21489641 ACAGAGTTGAAAGAATTGAAAGCT
1 ACAGAGTTGAAAGAATTGAAAGCT
21489665 --A-AGTTGAAAGAATT
1 ACAGAGTTGAAAGAATT
21489679 AATAGATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 13 0.34
22 1 0.03
24 24 0.63
ACGTcount: A:0.47, C:0.06, G:0.24, T:0.23
Consensus pattern (24 bp):
ACAGAGTTGAAAGAATTGAAAGCT
Found at i:21494399 original size:22 final size:22
Alignment explanation
Indices: 21494373--21494418 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
21494363 AATATTTGGT
21494373 AACTATAGGTATTATGGTTGAG
1 AACTATAGGTATTATGGTTGAG
21494395 AACTATAGGTATTATGGTTGAG
1 AACTATAGGTATTATGGTTGAG
21494417 AA
1 AA
21494419 TTGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (22 bp):
AACTATAGGTATTATGGTTGAG
Found at i:21494836 original size:13 final size:13
Alignment explanation
Indices: 21494818--21494848 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21494808 GCACACAGGC
*
21494818 GTGTGACTTGGTT
1 GTGTGACTTGGCT
21494831 GTGTGACTTGGCT
1 GTGTGACTTGGCT
21494844 GTGTG
1 GTGTG
21494849 GCATAAGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.10, G:0.42, T:0.42
Consensus pattern (13 bp):
GTGTGACTTGGCT
Found at i:21497172 original size:41 final size:41
Alignment explanation
Indices: 21497095--21497304 Score: 316
Period size: 41 Copynumber: 5.1 Consensus size: 41
21497085 AGTGCCGCTC
* *
21497095 ATAGCTGAAGCTATCTCAA-ATCGCACACTAAGTGCCATTT
1 ATAGCTGAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
* *
21497135 ATAGCCGAAGCTATCTCAAGCTCGCACACTAAGTGCCATAT
1 ATAGCTGAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
* *
21497176 ATAGCTGAAGCTATCTCGATCTCACACACTAAGTGCCATAT
1 ATAGCTGAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
*
21497217 ATAGCTGAAGCTATCTCTATCTCGCACACTAAGTGCCATAT
1 ATAGCTGAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
* *
21497258 AT-GGTCGAAGCTATCTCAATCTCGCACACTAAGTGCCACAT
1 ATAGCT-GAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
21497299 ATAGCT
1 ATAGCT
21497305 AATTTGTTGT
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 20 0.13
41 132 0.86
42 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (41 bp):
ATAGCTGAAGCTATCTCAATCTCGCACACTAAGTGCCATAT
Found at i:21508383 original size:29 final size:29
Alignment explanation
Indices: 21508350--21508481 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
21508340 CCTTCGAGCT
** * *
21508350 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
21508379 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21508408 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21508437 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21508466 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21508482 ATCTCGTCAC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21508384 original size:58 final size:58
Alignment explanation
Indices: 21508321--21508481 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
21508311 AATTTAAGCC
* * * * * *
21508321 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
21508379 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
21508437 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
21508482 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 89 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:21516424 original size:29 final size:29
Alignment explanation
Indices: 21516391--21516493 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
21516381 CCTTCGAGCT
** * *
21516391 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
21516420 TGCACACTTAGTGTCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21516449 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21516478 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21516494 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21516425 original size:58 final size:58
Alignment explanation
Indices: 21516362--21516493 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
21516352 AATTTAAGCC
* * * * * *
21516362 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
21516420 TGCACACTTAGTGTCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
21516478 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21516494 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:21520162 original size:46 final size:46
Alignment explanation
Indices: 21520095--21520224 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
21520085 GGACAGGACA
*
21520095 AGACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGG
1 AGACAGGAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGG
* *
21520141 AGACAGGAATAAGCCATGTAAGTCTATATCAGATATATGGCTTTGG
1 AGACAGGAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGG
* *
21520187 AGACAGGAATGAGCCATGTAAGCCCATATTAGATATAT
1 AGACAGGAATGAGCCATGTAAGTCCATATCAGATATAT
21520225 ATATGGCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (46 bp):
AGACAGGAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGG
Found at i:21520277 original size:96 final size:92
Alignment explanation
Indices: 21520095--21520282 Score: 207
Period size: 96 Copynumber: 2.0 Consensus size: 92
21520085 GGACAGGACA
* * *
21520095 AGACAGAAATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAGGAATAAGCCATGT
1 AGACAGAAATGAGCCATGTAAGCCCATATCAGATATATGGCATTAGAGACAGGAATAAGCCATGT
* * * *
21520160 AAGTCTATATCAGATATATGGCTTTGG
66 AAGTCCATATCAGAGACATGGCATTGG
* * * **
21520187 AGACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTAGAGACATGAATAATTC
1 AGACAGAAATGAGCCATGTAAGCCCATATCAG----ATATATGGCATTAGAGACAGGAATAAGCC
*
21520252 ATGTAAGTCCATGTC-GAAGACATGGCATTGG
62 ATGTAAGTCCATATCAG-AGACATGGCATTGG
21520283 CAGGATATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
92 29 0.37
95 1 0.01
96 48 0.62
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (92 bp):
AGACAGAAATGAGCCATGTAAGCCCATATCAGATATATGGCATTAGAGACAGGAATAAGCCATGT
AAGTCCATATCAGAGACATGGCATTGG
Found at i:21528437 original size:18 final size:18
Alignment explanation
Indices: 21528398--21528436 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21528388 TAACAGGGGC
21528398 AAAA-ATGTAATTGTGCT
1 AAAATATGTAATTGTGCT
21528415 AAAATATGTAAATTGTGCT
1 AAAATATGT-AATTGTGCT
21528434 AAA
1 AAA
21528437 TTATATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 4 0.20
19 12 0.60
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (18 bp):
AAAATATGTAATTGTGCT
Found at i:21531852 original size:40 final size:40
Alignment explanation
Indices: 21531769--21531921 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
21531759 TCGAATGATG
* *
21531769 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
21531809 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
21531849 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
21531890 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
21531922 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:21539222 original size:40 final size:40
Alignment explanation
Indices: 21539139--21539291 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
21539129 TCGAATGATG
* *
21539139 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
21539179 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
21539219 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
21539260 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
21539292 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:21543284 original size:41 final size:41
Alignment explanation
Indices: 21543213--21543332 Score: 170
Period size: 41 Copynumber: 3.0 Consensus size: 41
21543203 CTCATAGCTT
**
21543213 AAGCTATCTC-AAATCGCACACTAAGTGCCATACATAGCCG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCATACATAGCCG
* *
21543253 AAGCTATCTCGATCTTGCACACTAAGTGCCATATATAGCCG
1 AAGCTATCTCGATCTCGCACACTAAGTGCCATACATAGCCG
* * *
21543294 AAGCTATCTCGATCTCGTACAGTAAGTGCCACACATAGC
1 AAGCTATCTCGATCTCGCACACTAAGTGCCATACATAGC
21543333 TAATTTGTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 10 0.14
41 60 0.86
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (41 bp):
AAGCTATCTCGATCTCGCACACTAAGTGCCATACATAGCCG
Found at i:21544806 original size:24 final size:25
Alignment explanation
Indices: 21544778--21544884 Score: 87
Period size: 24 Copynumber: 4.3 Consensus size: 25
21544768 GAAGCTACGG
21544778 AGAGCCATTAATGGGAAGCTCAT-A
1 AGAGCCATTAATGGGAAGCTCATGA
* * * *
21544802 TGAGCAAAT-ATCAGGAAGCTC-TGA
1 AGAGCCATTAAT-GGGAAGCTCATGA
**
21544826 AGAGCCATTAACT-GGAAGCTCACAA
1 AGAGCCATTAA-TGGGAAGCTCATGA
* *
21544851 AGAGCCTTTACTTGGGAAGCTCATGA
1 AGAGCCATTA-ATGGGAAGCTCATGA
21544877 AGAGCCAT
1 AGAGCCAT
21544885 ACTTTCGGAC
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
23 3 0.05
24 29 0.47
25 12 0.19
26 18 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (25 bp):
AGAGCCATTAATGGGAAGCTCATGA
Found at i:21546766 original size:30 final size:30
Alignment explanation
Indices: 21546725--21546877 Score: 175
Period size: 30 Copynumber: 5.2 Consensus size: 30
21546715 TTTGCTAAAG
* *
21546725 GATGGTTGAAACCATCCATTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTCTTTAATC
**
21546755 GATGGTCGAAACCATCTATTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTCTTTAATC
* * *
21546785 GATGGTCGAAACCATCCCTTTTC-ATATTT
1 GATGGTCGAAACCATCCCTTTTCTTTAATC
* * *
21546814 GATGGTCGAAGCCATCCCTTTTC-ATATTC
1 GATGGTCGAAACCATCCCTTTTCTTTAATC
** *
21546843 GATGGTCGTCACCATCCCTTTTCTTTAATT
1 GATGGTCGAAACCATCCCTTTTCTTTAATC
21546873 GATGG
1 GATGG
21546878 GCGTCGATAC
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 50 0.47
30 57 0.53
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (30 bp):
GATGGTCGAAACCATCCCTTTTCTTTAATC
Found at i:21546862 original size:58 final size:59
Alignment explanation
Indices: 21546725--21546865 Score: 158
Period size: 58 Copynumber: 2.4 Consensus size: 59
21546715 TTTGCTAAAG
* * * * * * *
21546725 GATGGTTGAAACCATCCATTTTCTTTAATCGATGGTCGAAACCATCTATTTTCTTTAATC
1 GATGGTCGAAACCATCCCTTTTC-ATATTTGATGGTCGAAACCATCCATTTTCTATAATC
* * *
21546785 GATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAGCCATCCCTTTTC-ATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCATTTTCTATAATC
**
21546843 GATGGTCGTCACCATCCCTTTTC
1 GATGGTCGAAACCATCCCTTTTC
21546866 TTTAATTGAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
58 25 0.36
59 23 0.33
60 21 0.30
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (59 bp):
GATGGTCGAAACCATCCCTTTTCATATTTGATGGTCGAAACCATCCATTTTCTATAATC
Found at i:21562032 original size:40 final size:40
Alignment explanation
Indices: 21561977--21562072 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
21561967 TTATTGAATA
*
21561977 ATTGCACTTACGTGCCCTTGTTTGT-ACTGT-GGTACCGCTG
1 ATTGCACTTACGTGCCCTTGTTT-TAACT-TCAGTACCGCTG
* *
21562017 ATTGCACTTATGTGCCCTTGTTTTAACTTCAGTACCTCTG
1 ATTGCACTTACGTGCCCTTGTTTTAACTTCAGTACCGCTG
*
21562057 ATTGCACTTTCGTGCC
1 ATTGCACTTACGTGCC
21562073 TGTAACACCC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.04
40 47 0.96
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCTTGTTTTAACTTCAGTACCGCTG
Found at i:21564350 original size:40 final size:40
Alignment explanation
Indices: 21564295--21564580 Score: 418
Period size: 40 Copynumber: 7.2 Consensus size: 40
21564285 TGAATGATAC
* * *
21564295 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
21564335 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
21564375 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
21564415 CC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
21564454 -CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
21564493 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
21564533 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
21564573 CC-GGCTAA
1 CCGGGCTAA
21564581 ATTCCGAAGA
Statistics
Matches: 224, Mismatches: 19, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
38 1 0.00
39 77 0.34
40 144 0.64
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:21564507 original size:118 final size:118
Alignment explanation
Indices: 21564291--21564580 Score: 440
Period size: 118 Copynumber: 2.4 Consensus size: 118
21564281 CATTTGAATG
* *
21564291 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATAT-CGGGCTAAGACCCGAAGGC
*
21564355 ATTTGTGCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
63 ATTTGTGCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
21564411 ATATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCGGGCTAAGACCCGAAGGCAT
1 ATACCCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCGGGCTAAGACCCGAAGGCAT
21564475 TTGTGCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
65 TTGTGCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * *
21564529 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATACCCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCGGGCTAA
21564581 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
118 81 0.52
119 64 0.41
120 10 0.06
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (118 bp):
ATACCCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCGGGCTAAGACCCGAAGGCATT
TGTGCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:21564589 original size:158 final size:158
Alignment explanation
Indices: 21564296--21564580 Score: 446
Period size: 158 Copynumber: 1.8 Consensus size: 158
21564286 GAATGATACC
* *
21564296 CGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * * *
21564361 GCGAGTTGTTATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGCTAAGAC
66 GCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGCTAAGAC
21564426 CCGAAGGCATTCGTGCGAGTTGTTATAT
131 CCGAAGGCATTCGTGCGAGTTGTTATAT
* *
21564454 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCTGGGCTAAGACCCGAAGGCATTTG
1 CGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTG
* **
21564518 TGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
65 TGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGCTAA
21564581 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
158 112 0.98
159 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (158 bp):
CGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCCGGCTAAGAC
CCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:21572722 original size:40 final size:40
Alignment explanation
Indices: 21572570--21572812 Score: 359
Period size: 40 Copynumber: 6.2 Consensus size: 40
21572560 AATGATACCC
* * *
21572570 GGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCG
21572610 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21572649 GGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21572688 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* *
21572728 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* * ** *
21572768 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
21572807 GGCTAA
1 GGCTAA
21572813 ATTCCGAAGA
Statistics
Matches: 188, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 78 0.41
40 110 0.59
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
Found at i:21572821 original size:79 final size:80
Alignment explanation
Indices: 21572570--21572812 Score: 359
Period size: 79 Copynumber: 3.1 Consensus size: 80
21572560 AATGATACCC
* * *
21572570 GGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAG-CCCGAAGGCATTTGTG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGTG
21572633 CGAGTTGTTATATCCG
65 CGAGTTGTTATATCCG
21572649 GGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
21572713 GAGTTGTTATATCCG
66 GAGTTGTTATATCCG
* * * *
21572728 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
** *
21572793 TTGTGGTTATATCC-
66 GAGTTGTTATATCCG
21572807 GGCTAA
1 GGCTAA
21572813 ATTCCGAAGA
Statistics
Matches: 151, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 23 0.15
79 75 0.50
80 53 0.35
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
GAGTTGTTATATCCG
Found at i:21575196 original size:28 final size:28
Alignment explanation
Indices: 21575164--21575262 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
21575154 TGCATAAGCC
*
21575164 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
21575192 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
21575220 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
21575249 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21575263 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:21582865 original size:28 final size:28
Alignment explanation
Indices: 21582833--21582931 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
21582823 GCCATAAGCC
*
21582833 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
21582861 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
21582889 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
21582918 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21582932 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:21608835 original size:17 final size:18
Alignment explanation
Indices: 21608809--21608842 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21608799 TTTTTGTTTA
21608809 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
21608826 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
21608843 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:21614358 original size:40 final size:40
Alignment explanation
Indices: 21614277--21614458 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
21614267 GATGATAACT
* * **
21614277 GGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCC
1 GGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-TCC
* * * *
21614317 GGGCTAAGTCCCGAAGGTATTCGTACGAGCTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
21614357 GGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
21614396 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
21614436 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
21614459 AGCTAGTGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
39 35 0.29
40 83 0.69
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:21614491 original size:79 final size:80
Alignment explanation
Indices: 21614271--21614475 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
21614261 TGTTCAGATG
*
21614271 ATAACTGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
* * *
21614334 TATTCGTACGAGCTACT
64 CATTCGTACAAGCTACC
* * * * ***
21614351 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* * *
21614415 TTTGTGCAAGTTACC
66 TTCGTACAAGCTACC
21614430 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC
21614476 AGCTAAACCC
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
79 66 0.65
80 32 0.32
81 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTACAAGCTACC
Found at i:21620488 original size:48 final size:48
Alignment explanation
Indices: 21620413--21620649 Score: 219
Period size: 48 Copynumber: 4.9 Consensus size: 48
21620403 AGGGTAAATT
* * *
21620413 GCTGATGCCATGTCCCAGACTTGGTCTTACAGTGGCTCACATGTCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * * *
21620461 GCTAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * *
21620509 GCTGATACCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC-ATT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-G
* * * * *
21620557 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACACATAAT-GTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAG
* *
21620605 G-TCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
21620650 ACTCAAATGT
Statistics
Matches: 156, Mismatches: 28, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
47 3 0.02
48 152 0.97
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
Found at i:21622147 original size:93 final size:93
Alignment explanation
Indices: 21622035--21622206 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21622025 CGCCCATAAG
* *
21622035 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21622100 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
21622128 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21622193 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
21622207 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:21622203 original size:46 final size:46
Alignment explanation
Indices: 21622028--21622203 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21622018 TGTAACCCGC
* * *
21622028 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
21622074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
21622124 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
21622167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
21622204 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:21629699 original size:93 final size:93
Alignment explanation
Indices: 21629587--21629758 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
21629577 CGCCCATAAG
* *
21629587 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21629652 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
21629680 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
21629745 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
21629759 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:21629755 original size:46 final size:46
Alignment explanation
Indices: 21629580--21629755 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
21629570 TGTAACCCGC
* * *
21629580 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
21629626 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
21629676 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
21629719 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
21629756 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:21638553 original size:40 final size:39
Alignment explanation
Indices: 21638391--21638573 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
21638381 CGAATGATGT
* * * *
21638391 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
21638431 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* * * *
21638471 TCGAGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21638508 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21638549 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21638574 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 21 0.18
39 20 0.17
40 67 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21641740 original size:48 final size:47
Alignment explanation
Indices: 21641688--21641864 Score: 128
Period size: 48 Copynumber: 3.7 Consensus size: 47
21641678 ATGTCGAGGC
* *
21641688 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-TATCAATGT
* * * * * * *
21641736 CGATGCTATGTTCCAAACA-GAGTCTCACACTGGCTCTCATAACATTTT
1 CGATGCCATGTCCCAAACATG-GTCTTACACTAGCTCTC-TATCAATGT
* * * * *
21641784 CGATGCGATGTTCCAAACATGGTCTTACACTGGCACAC-AT-AATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCTATCAATGT
* *
21641829 GGCCGGTGCCATGTCCCAGACAT-GTCTTACACTAGC
1 ---CGATGCCATGTCCCAAACATGGTCTTACACTAGC
21641865 ACACATATCA
Statistics
Matches: 102, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 13 0.13
48 84 0.82
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCTATCAATGT
Found at i:21644344 original size:46 final size:47
Alignment explanation
Indices: 21644242--21644364 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 47
21644232 CATTTGTGAG
* *
21644242 AGCTAGTGTAAGACCATGTCTAGGACATGGCATCAACATTGAGACCAGT
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCAACAACATTGAGACCAGT
*
21644291 -GCTAGTGTAAGACATGCCTGGGACATGCAACAAC-TTCGAGA-C-GT
1 AGCTAGTGTAAGACATGTCTGGGACATGCAACAACATT-GAGACCAGT
*
21644335 AAGCTAGTGTAAAACATGTCTGGGACATGC
1 -AGCTAGTGTAAGACATGTCTGGGACATGC
21644365 GTTGGCTACG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
44 2 0.03
45 3 0.05
46 37 0.56
47 12 0.18
48 12 0.18
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (47 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCAACAACATTGAGACCAGT
Found at i:21644377 original size:46 final size:46
Alignment explanation
Indices: 21644242--21644410 Score: 119
Period size: 46 Copynumber: 3.6 Consensus size: 46
21644232 CATTTGTGAG
* * * * *
21644242 AGCTAGTGTAAGACCATGTCTAGGACATGGCATCAAC-ATTGAGACCAGT
1 AGCTAGTGTAA-AACATGTCTGGGACAT-GCAACAACTA-CGAGACGA-T
* * *
21644291 -GCTAGTGTAAGACATGCCTGGGACATGCAACAACTTCGAGACG-T
1 AGCTAGTGTAAAACATGTCTGGGACATGCAACAACTACGAGACGAT
***** *
21644335 AAGCTAGTGTAAAACATGTCTGGGACATGCGTTGGCTACGAGATGAT
1 -AGCTAGTGTAAAACATGTCTGGGACATGCAACAACTACGAGACGAT
* *
21644382 AGCCAGTGTAAGACCATGTCTGGGACATG
1 AGCTAGTGTAA-AACATGTCTGGGACATG
21644411 GCTTCGACTT
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
46 56 0.58
47 29 0.30
48 10 0.10
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGCTAGTGTAAAACATGTCTGGGACATGCAACAACTACGAGACGAT
Found at i:21644410 original size:47 final size:47
Alignment explanation
Indices: 21644246--21644455 Score: 139
Period size: 47 Copynumber: 4.5 Consensus size: 47
21644236 TGTGAGAGCT
* * * * * *
21644246 AGTGTAAGACCATGTCTAGGACATGGCATCAACATTGAGACCAGT--GCT
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGAC-TCGAGA-TA-TAAGCC
* ** * ** *
21644294 AGTGTAAGA-CATGCCTGGGACAT-GCAACAACTTCGAGACGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGAC-TCGAGATATAAGCC
* *
21644340 AGTGTAA-AACATGTCTGGGACAT-GCGTT-GGCTACGAGATGAT-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGC-TTCGACT-CGAGAT-ATAAGCC
*
21644386 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCTTCGACTCGAGATATAAGCC
* *
21644433 AATGTAAGACCGTGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
21644456 CGGCATCGGC
Statistics
Matches: 133, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 55 0.41
47 60 0.45
48 14 0.11
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCTTCGACTCGAGATATAAGCC
Found at i:21645606 original size:22 final size:21
Alignment explanation
Indices: 21645581--21645621 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21645571 TTGGAATGGT
21645581 CACACAGCCATGTTGCCCCTCC
1 CACACAGCCATG-TGCCCCTCC
* *
21645603 CACATAGGCATGTGCCCCT
1 CACACAGCCATGTGCCCCT
21645622 GTGTTAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.20
Consensus pattern (21 bp):
CACACAGCCATGTGCCCCTCC
Found at i:21649811 original size:142 final size:143
Alignment explanation
Indices: 21649582--21649992 Score: 362
Period size: 142 Copynumber: 2.9 Consensus size: 143
21649572 TACGATGCCG
* * * *
21649582 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGACGCCATGTCCCAGACA
* * * *
21649647 GATCTTACACTAACTTTCATATCTCGAGGCTGATGCCGTGTCCCACACAGGTCTTACACTGGCTC
66 GATCTTACACTAACTTTCATATCTCAAGGCTGATG-CATGTCCCAAACAGGTCTTACACTAGCTC
*
21649712 TCATCTATCGATGTCA
130 TCATCT-T-AATGTCA
* *
21649728 ATGCCATGTCCCAGATA-GGTTTTACACTGAC-A-CACAAC-AAG-CTGACGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTC-GACGCCATGTCCCAGAC
* * *
21649788 ATG-TTTTACACTAGCTTGT-ATATCTCAAGGCTGATGCATGTCCCAAACATGTCTTACACTAGC
65 A-GATCTTACACTAACTT-TCATATCTCAAGGCTGATGCATGTCCCAAACAGGTCTTACACTAGC
* *
21649851 TCTCGTCTTAATGTCG
128 TCTCATCTTAATGTCA
* * * * * * * *
21649867 ATG-CATGTCCCAAACAT-GTCTTACACT-AGCTTGTATATCTCAAGGCCGATG-CATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTAGCACA--ACAAAGTCGACGCCATGTCCCAG
** * * * *
21649928 ACATG-TCTTACACTGGCTTGT-ATATCTCAAGGCCGATGCATGTCCCAGACATGTCTTACATTA
63 ACA-GATCTTACACTAACTT-TCATATCTCAAGGCTGATGCATGTCCCAAACAGGTCTTACACTA
21649991 GC
126 GC
21649993 ACACATATCA
Statistics
Matches: 224, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
137 1 0.00
138 21 0.09
139 8 0.04
140 3 0.01
141 31 0.14
142 118 0.53
143 12 0.05
144 2 0.01
145 12 0.05
146 16 0.07
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (143 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTAGCACAACAAAGTCGACGCCATGTCCCAGACA
GATCTTACACTAACTTTCATATCTCAAGGCTGATGCATGTCCCAAACAGGTCTTACACTAGCTCT
CATCTTAATGTCA
Found at i:21649891 original size:94 final size:96
Alignment explanation
Indices: 21649776--21649992 Score: 312
Period size: 94 Copynumber: 2.3 Consensus size: 96
21649766 AAGCTGACGC
* *
21649776 CATGTCCCAGACATGTTTTACACTAGCTTGTATATCTCAAGGCTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAAACATGTC
* * * *
21649841 TTACACTAGC-TCT-CGTCTTAATGTCGATG
66 TTACACTAGCTTCTACATCTCAAGGCCGATG
* *
21649870 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAAACATGTC
* * *
21649935 TTACACTGGCTTGTATATCTCAAGGCCGATG
66 TTACACTAGCTTCTACATCTCAAGGCCGATG
*
21649966 CATGTCCCAGACATGTCTTACATTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21649993 ACACATATCA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
94 70 0.65
95 2 0.02
96 36 0.33
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATGCATGTCCCAAACATGTC
TTACACTAGCTTCTACATCTCAAGGCCGATG
Found at i:21650001 original size:48 final size:48
Alignment explanation
Indices: 21649776--21649992 Score: 312
Period size: 48 Copynumber: 4.6 Consensus size: 48
21649766 AAGCTGACGC
* *
21649776 CATGTCCCAGACATGTTTTACACTAGCTTGTATATCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
* * ** * * *
21649824 CATGTCCCAAACATGTCTTACACTAGC-TCT-CGTCTTAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
*
21649870 CATGTCCCAAACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
*
21649918 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
*
21649966 CATGTCCCAGACATGTCTTACATTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
21649993 ACACATATCA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
46 37 0.25
47 4 0.03
48 107 0.72
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAAGGCCGATG
Found at i:21651748 original size:37 final size:37
Alignment explanation
Indices: 21651698--21651788 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
21651688 TTATTACGAA
21651698 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
21651735 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
21651772 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
21651789 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:21651883 original size:48 final size:48
Alignment explanation
Indices: 21651828--21652027 Score: 328
Period size: 48 Copynumber: 4.2 Consensus size: 48
21651818 TGTTACAACA
*
21651828 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
21651876 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
21651924 TTCACATTAGCCCTTTGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* * * *
21651972 TTCACATTAGTCATTCGGCTTTACCATATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
21652020 TTCACATT
1 TTCACATT
21652028 CATCACATCG
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:21652066 original size:96 final size:93
Alignment explanation
Indices: 21652019--21652255 Score: 357
Period size: 96 Copynumber: 2.5 Consensus size: 93
21652009 CACACATATG
*
21652019 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATATACCTTCACATCATCAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATAT---TTCACATTATCAC
*
21652084 ATCGGCCATTAGGCCTTATCACATATATACTC
63 ATCGGCCATTA-GCCTTATCACATATACACTC
* * *
21652116 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATA-TTTCACATT-ATCACA
*
21652181 TCGGCCATTAGGCCTTATCACATATATACTC
64 TCGGCCATTA-GCCTTATCACATATACACTC
21652212 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
21652256 CTCTTTCACA
Statistics
Matches: 133, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
95 7 0.05
96 80 0.60
97 46 0.35
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (93 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATATTTCACATTATCACATC
GGCCATTAGCCTTATCACATATACACTC
Found at i:21652146 original size:47 final size:47
Alignment explanation
Indices: 21652019--21652265 Score: 388
Period size: 47 Copynumber: 5.1 Consensus size: 47
21652009 CACACATATG
*
21652019 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATATAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA-CT-C
*
21652070 CTTCACA-TCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
21652116 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
21652165 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21652212 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21652259 TTTCACA
1 TTTCACA
21652266 AATTTTAATA
Statistics
Matches: 184, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
46 7 0.04
47 91 0.49
48 7 0.04
49 44 0.24
50 29 0.16
51 6 0.03
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:21656218 original size:40 final size:40
Alignment explanation
Indices: 21655930--21656193 Score: 458
Period size: 40 Copynumber: 6.6 Consensus size: 40
21655920 CCAGCATGAT
* * *
21655930 TGCTCTTCGGGACCTAGCCCGGATACATCA-TAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
21655969 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
21656009 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
21656049 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
21656089 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
21656129 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
21656169 TGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
21656194 TAACCACAAG
Statistics
Matches: 213, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 27 0.13
40 186 0.87
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:21656236 original size:40 final size:40
Alignment explanation
Indices: 21656187--21656274 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
21656177 GGAACTTAGT
* *
21656187 CCGGATATAACCAC-AAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAA-CACAAATGCCTTCGGGTCTTAAC
* * *
21656227 CCGGGTATAACAACTCACACAAATGCCTTCGGGTCTT-AG
1 CCGGATATAACAACTAACACAAATGCCTTCGGGTCTTAAC
21656266 CCGGATATA
1 CCGGATATA
21656275 TTCACTAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 9 0.22
40 31 0.76
41 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTAACACAAATGCCTTCGGGTCTTAAC
Found at i:21656257 original size:120 final size:119
Alignment explanation
Indices: 21655930--21656304 Score: 377
Period size: 120 Copynumber: 3.1 Consensus size: 119
21655920 CCAGCATGAT
* * * * * * * **
21655930 TGCTCTTCGGGACCTAGCCCGGATACATCA-TAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAATTTAACCCGGATA
* * *
21655994 CATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
66 CAACACTAGCACAAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
* * * *
21656049 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAATTTAACCCGGATA
* *
21656114 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CAACACTAGCACAAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*
21656169 TGCTCTTCGGAACTTAGTCCGGATATAACCACAAGCAC-AATTGC-CTTCGG-GTCTTAACCCGG
1 TGCTCTTCGGAACTTAGTCCGGATA-AACCACAAGCACGAA-TGCTCTTCGGAAT-TTAACCCGG
* * ** * * **
21656231 GTATAACAACTCA-CACAAATGC-CTTCGGGTCTTAGCCGGATATATTCACTAGAATAAA
63 ATACAAC-ACT-AGCACAAATGCTCTTCGGAACTTAGCCGGATACA-TCACTAGCACGAA
*
21656289 TGC-CTTCGGGACTTAG
1 TGCTCTTCGGAACTTAG
21656305 CCTGGGTATC
Statistics
Matches: 226, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
119 48 0.21
120 154 0.68
121 23 0.10
122 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (119 bp):
TGCTCTTCGGAACTTAGTCCGGATAAACCACAAGCACGAATGCTCTTCGGAATTTAACCCGGATA
CAACACTAGCACAAATGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAA
Found at i:21658260 original size:37 final size:37
Alignment explanation
Indices: 21658210--21658300 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
21658200 TTATTACGAA
21658210 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
21658247 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
21658284 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
21658301 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:21658395 original size:48 final size:48
Alignment explanation
Indices: 21658340--21658539 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
21658330 TGTTACAACA
*
21658340 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
21658388 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
21658436 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
21658484 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
21658532 TTCACATT
1 TTCACATT
21658540 CATCACATCG
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:21658578 original size:96 final size:95
Alignment explanation
Indices: 21658531--21658765 Score: 371
Period size: 96 Copynumber: 2.5 Consensus size: 95
21658521 CACACATATG
* *
21658531 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATCATCACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTAGCACAT
* * *
21658596 CGGCCATTAGGCCTTATCACATATATACTC
66 CGGCCATTAGCCCATATCACATATACACTC
* *
21658626 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATT-AGCACA
* * *
21658691 TCGGCCATTAGGCCTTATCACATATATACTC
65 TCGGCCATTAGCCCATATCACATATACACTC
21658722 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
21658766 CTCTTTCACA
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 56 0.41
96 81 0.59
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (95 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACCTTCACATTAGCACAT
CGGCCATTAGCCCATATCACATATACACTC
Found at i:21658656 original size:47 final size:47
Alignment explanation
Indices: 21658531--21658775 Score: 411
Period size: 47 Copynumber: 5.1 Consensus size: 47
21658521 CACACATATG
*
21658531 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-CT-C
*
21658580 CTTCACA-TCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
21658626 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
21658675 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21658722 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21658769 TTTCACA
1 TTTCACA
21658776 AATTTAATAT
Statistics
Matches: 186, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
46 7 0.04
47 92 0.49
48 36 0.19
49 51 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:21661709 original size:28 final size:28
Alignment explanation
Indices: 21661677--21661775 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
21661667 GCAATAAGCC
*
21661677 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
21661705 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
21661733 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
21661762 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21661776 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:21669374 original size:28 final size:28
Alignment explanation
Indices: 21669342--21669440 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
21669332 TGCATAAGCC
*
21669342 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
21669370 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
21669398 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
21669427 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21669441 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:21672445 original size:29 final size:29
Alignment explanation
Indices: 21672391--21672547 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
21672381 GTGACGAGAT
21672391 TGGCACTAAGTGTGCGTGCTGG----ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21672416 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21672445 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21672474 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
21672503 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
21672532 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
21672548 AGTTCGGAGG
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.18
29 97 0.82
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21680508 original size:20 final size:20
Alignment explanation
Indices: 21680483--21680520 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21680473 GGTGACGAGA
*
21680483 GCACTAAGTGTGCGTGCTTG
1 GCACTAAGTGTACGTGCTTG
21680503 GCACTAAGTGTACGTGCT
1 GCACTAAGTGTACGTGCT
21680521 GGAAAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (20 bp):
GCACTAAGTGTACGTGCTTG
Found at i:21680562 original size:57 final size:57
Alignment explanation
Indices: 21680501--21680688 Score: 286
Period size: 57 Copynumber: 3.3 Consensus size: 57
21680491 TGTGCGTGCT
*
21680501 TGGCACTAAGTGTACGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATA
*
21680558 TGGCACTAAGTGTGCGTGCTGGAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATA
* ** *
21680615 TGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAA-ATATGGCACTAAGTGTGCGTGCTGGAAATATA
* **
21680673 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
21680689 AGTTCGGAGG
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
57 79 0.66
58 41 0.34
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21680568 original size:29 final size:29
Alignment explanation
Indices: 21680501--21680688 Score: 290
Period size: 29 Copynumber: 6.6 Consensus size: 29
21680491 TGTGCGTGCT
*
21680501 TGGCACTAAGTGTACGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21680529 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21680558 TGGCACTAAGTGTGCGTGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21680586 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21680615 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
21680644 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
21680673 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
21680689 AGTTCGGAGG
Statistics
Matches: 148, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
28 52 0.35
29 96 0.65
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21680630 original size:86 final size:85
Alignment explanation
Indices: 21680501--21680667 Score: 289
Period size: 86 Copynumber: 2.0 Consensus size: 85
21680491 TGTGCGTGCT
21680501 TGGCACTAAGTGTACGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
1 TGGCACTAAGTGTACGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
**
21680566 AGTGTGCGTGCTGGAATATA
66 AGTGTGCAAGCTGGAATATA
* *
21680586 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATTTGGCACT
1 TGGCACTAAGTGTACGTGCTGGAAA-ATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
21680651 AAGTGTGCAAGCTGGAA
65 AAGTGTGCAAGCTGGAA
21680668 AAATACGGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 24 0.31
86 53 0.69
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (85 bp):
TGGCACTAAGTGTACGTGCTGGAAAATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTA
AGTGTGCAAGCTGGAATATA
Found at i:21684450 original size:40 final size:40
Alignment explanation
Indices: 21684406--21684706 Score: 317
Period size: 40 Copynumber: 7.5 Consensus size: 40
21684396 CCAGCATGAT
* *
21684406 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21684446 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21684486 TGCTCTT-GGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
21684525 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * * *
21684565 TGCTCTTCGGAACTTAGTCCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
** * * * * *
21684605 TTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
21684646 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
21684686 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
21684707 GTATCATTCA
Statistics
Matches: 230, Mismatches: 23, Indels: 16
0.86 0.09 0.06
Matches are distributed among these distances:
39 40 0.17
40 174 0.76
41 16 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:21684507 original size:79 final size:80
Alignment explanation
Indices: 21684406--21684589 Score: 325
Period size: 79 Copynumber: 2.3 Consensus size: 80
21684396 CCAGCATGAT
* *
21684406 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
21684471 CATCACTAGCACGAA
66 CATCACTAGCACGAA
*
21684486 TGCTCTT-GGAATTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
21684550 CATCACTAGCACGAA
66 CATCACTAGCACGAA
*
21684565 TGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATA
21684590 TAACCACAAG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 76 0.78
80 22 0.22
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:21686659 original size:37 final size:37
Alignment explanation
Indices: 21686609--21686699 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
21686599 TTATTACGAA
21686609 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
21686646 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
21686683 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
21686700 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:21686794 original size:48 final size:48
Alignment explanation
Indices: 21686739--21686938 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
21686729 TGTTACAACA
*
21686739 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
21686787 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
21686835 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
21686883 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
21686931 TTCACATT
1 TTCACATT
21686939 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:21687053 original size:47 final size:47
Alignment explanation
Indices: 21686930--21687219 Score: 503
Period size: 47 Copynumber: 6.1 Consensus size: 47
21686920 CACACATATG
21686930 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-C
*
21686977 CTTCACA-TCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
21687023 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
21687072 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21687119 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21687166 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
21687213 TTTCACA
1 TTTCACA
21687220 AATTTTAATA
Statistics
Matches: 231, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
46 43 0.19
47 144 0.62
49 44 0.19
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:21687125 original size:96 final size:96
Alignment explanation
Indices: 21686930--21687219 Score: 518
Period size: 96 Copynumber: 3.1 Consensus size: 96
21686920 CACACATATG
21686930 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT--ACCTTCACA-TCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
21686992 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
21687023 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
21687088 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* *
21687119 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
21687182 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
21687213 TTTCACA
1 TTTCACA
21687220 AATTTTAATA
Statistics
Matches: 190, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
93 44 0.23
94 62 0.33
95 9 0.05
96 75 0.39
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:21687176 original size:143 final size:142
Alignment explanation
Indices: 21686931--21687209 Score: 515
Period size: 143 Copynumber: 2.0 Consensus size: 142
21686921 ACACATATGT
21686931 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACCTTCACATCATCACATCGG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACCTTCACATCATCACATCGG
*
21686996 CCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA
66 CCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
21687061 TATATATACACC
131 TATATATACACC
*
21687073 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT-CTTTCACATTCATCACATC
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-TACCTTCACA-TCATCACATC
21687137 GGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
64 GGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
21687202 CATATATA
129 CATATATA
21687210 CTCTTTCACA
Statistics
Matches: 133, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
142 50 0.38
143 83 0.62
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACCTTCACATCATCACATCGG
CCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
TATATATACACC
Found at i:21689937 original size:20 final size:21
Alignment explanation
Indices: 21689912--21689951 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21689902 ACAGTTTCAA
*
21689912 TTATTTCACACA-TTTACAAC
1 TTATTTCACAAACTTTACAAC
*
21689932 TTATTTTACAAACTTTACAA
1 TTATTTCACAAACTTTACAA
21689952 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATTTCACAAACTTTACAAC
Found at i:21691902 original size:2 final size:2
Alignment explanation
Indices: 21691895--21691929 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
21691885 ATGTTATAAA
21691895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21691930 AAACTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21693750 original size:16 final size:16
Alignment explanation
Indices: 21693725--21693778 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
21693715 AGAAATTAGA
*
21693725 AAATTCTATTACTATT
1 AAATTTTATTACTATT
*
21693741 AAATTTTATTCCTATT
1 AAATTTTATTACTATT
** * *
21693757 CTATTTAATTTCTATT
1 AAATTTTATTACTATT
21693773 AAATTT
1 AAATTT
21693779 ATTTATTTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTTATTACTATT
Found at i:21693779 original size:16 final size:16
Alignment explanation
Indices: 21693736--21693796 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
21693726 AATTCTATTA
* *
21693736 CTATTAAATTTTATTC
1 CTATTAAATTTAATTT
**
21693752 CTATTCTATTTAATTT
1 CTATTAAATTTAATTT
21693768 CTATTAAATTT-ATTT
1 CTATTAAATTTAATTT
*
21693783 AT-TTAATATTTAAT
1 CTATTAA-ATTTAAT
21693797 ATTTAATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 4 0.11
15 9 0.25
16 23 0.64
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (16 bp):
CTATTAAATTTAATTT
Found at i:21698798 original size:15 final size:17
Alignment explanation
Indices: 21698768--21698799 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21698758 TTGATACTAG
21698768 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
21698785 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
21698800 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Done.