Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 16 of 290
Found at i:4968285 original size:8 final size:8
Alignment explanation
Indices: 4968254--4968296 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
4968244 TCTTTTGGGT
4968254 TTTTGGCA
1 TTTTGGCA
**
4968262 TTTCAGCA
1 TTTTGGCA
*
4968270 TTTCGGCA
1 TTTTGGCA
4968278 TTTTGGCA
1 TTTTGGCA
*
4968286 TTTTGGGA
1 TTTTGGCA
4968294 TTT
1 TTT
4968297 GCTAATTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (8 bp):
TTTTGGCA
Found at i:4972745 original size:18 final size:18
Alignment explanation
Indices: 4972719--4972774 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
4972709 TTTACACATC
*
4972719 TAGGTCCAACGGGCCCAT
1 TAGGCCCAACGGGCCCAT
**
4972737 TAGGCCCAAATGGCCCAACT
1 TAGGCCCAACGGGCCC-A-T
4972757 T-GGCCCAACGTGGCCCAT
1 TAGGCCCAACG-GGCCCAT
4972775 GACGGCCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.47
19 9 0.30
20 7 0.23
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (18 bp):
TAGGCCCAACGGGCCCAT
Found at i:4977225 original size:18 final size:18
Alignment explanation
Indices: 4977202--4977236 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4977192 TAAAATGATT
4977202 TTTATT-TCTATTTAATTA
1 TTTATTATCT-TTTAATTA
4977220 TTTATTATCTTTTAATT
1 TTTATTATCTTTTAATT
4977237 TTATCACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTATCTTTTAATTA
Found at i:4978276 original size:13 final size:13
Alignment explanation
Indices: 4978258--4978283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4978248 TAGTTTACTG
4978258 AAATTATTATAAT
1 AAATTATTATAAT
4978271 AAATTATTATAAT
1 AAATTATTATAAT
4978284 TATGATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:4985176 original size:27 final size:28
Alignment explanation
Indices: 4985092--4985189 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
4985082 CATGAGATTG
* * *
4985092 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
4985121 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
4985149 GCACTAAGTGTGCGTG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
4985176 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
4985190 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:5002642 original size:27 final size:27
Alignment explanation
Indices: 5002620--5002722 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
5002610 CGATTTGTAG
5002620 AATTACCATTTTACCCCCAATTTACAA
1 AATTACCATTTTACCCCCAATTTACAA
* *
5002647 AATTACCGTTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCCCAATTTACAA
**
5002674 AATTACCATTTTACCTTCAATTTACAA
1 AATTACCATTTTACCCCCAATTTACAA
* * *
5002701 AATTATCGTTTTACCCTCAATT
1 AATTACCATTTTACCCCCAATT
5002723 GTGAAATTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCCCAATTTACAA
Found at i:5002678 original size:54 final size:54
Alignment explanation
Indices: 5002620--5002722 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
5002610 CGATTTGTAG
5002620 AATTACCATTTTACCCCCAATTTACAAAATTACCGTTTTACCCTCAATTTACAA
1 AATTACCATTTTACCCCCAATTTACAAAATTACCGTTTTACCCTCAATTTACAA
** *
5002674 AATTACCATTTTACCTTCAATTTACAAAATTATCGTTTTACCCTCAATT
1 AATTACCATTTTACCCCCAATTTACAAAATTACCGTTTTACCCTCAATT
5002723 GTGAAATTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCCCAATTTACAAAATTACCGTTTTACCCTCAATTTACAA
Found at i:5002744 original size:27 final size:27
Alignment explanation
Indices: 5002721--5002877 Score: 201
Period size: 27 Copynumber: 5.8 Consensus size: 27
5002711 TTACCCTCAA
*
5002721 TTGTGAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
5002748 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
5002775 TTGTAAAATTACCGAAATACCACTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * *
5002802 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
5002829 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAG-T
** *
5002856 TTACAAAATTACAAAAATACCC
1 TTGTAAAATTACCAAAATACCC
5002878 TTGACTTTCT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.03
27 108 0.94
28 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:5002864 original size:81 final size:81
Alignment explanation
Indices: 5002721--5002876 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 81
5002711 TTACCCTCAA
* **
5002721 TTGTGAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTGAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
**
5002786 CCGAAATACCACTAGT
66 CAAAAATACCACTAGT
*
5002802 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAAT
1 TTGTGAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAAT
5002865 TACAAAAATACC
64 TACAAAAATACC
5002877 CTTGACTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 5 0.07
81 62 0.93
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
TTGTGAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA
CAAAAATACCACTAGT
Found at i:5002928 original size:27 final size:27
Alignment explanation
Indices: 5002889--5002940 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
5002879 TGACTTTCTA
5002889 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
5002916 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
5002941 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:5003896 original size:25 final size:24
Alignment explanation
Indices: 5003868--5003937 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
5003858 AGGAAGTGCT
* *
5003868 AAAAGGGCTCTGCCCAAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
5003892 GAAAAGAGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
5003917 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
5003938 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:5003950 original size:24 final size:24
Alignment explanation
Indices: 5003893--5003964 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
5003883 AAGTTTACCG
5003893 AAAAGA-GCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
5003917 AGAAAG-GGCTTTGCCCCAGTTATT
1 A-AAAGAGGCTTTGCCCCAGTTATC
**
5003941 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
5003965 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 24 0.59
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:5004144 original size:42 final size:42
Alignment explanation
Indices: 5004085--5004174 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
5004075 TAGTCTCCCC
*
5004085 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
5004127 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
5004169 AAATGG
1 AAATGG
5004175 CCTAAGGGCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:5004234 original size:31 final size:31
Alignment explanation
Indices: 5004199--5004344 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
5004189 CGTTTACAGT
5004199 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
5004230 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
5004261 AAAGGCTTCGGCCCTA-TCATATGATTTATGA
1 AAAGGCTTCGGCCC-AGTGATATGATTTATGA
* *
5004292 AAAGGCTTCGGCCGAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
5004323 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
5004345 TAAAGACTAA
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.06
31 98 0.93
32 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:5006533 original size:14 final size:14
Alignment explanation
Indices: 5006514--5006541 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5006504 CAAATGGTGT
5006514 CTCCAAATTTTTAA
1 CTCCAAATTTTTAA
5006528 CTCCAAATTTTTAA
1 CTCCAAATTTTTAA
5006542 GGCAAATACA
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:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
CTCCAAATTTTTAA
Found at i:5008511 original size:53 final size:54
Alignment explanation
Indices: 5008427--5008530 Score: 183
Period size: 53 Copynumber: 1.9 Consensus size: 54
5008417 CATTCGGCAC
* *
5008427 TCCCCGAAATGAAACTTGTTGCAGCTTTTACATCTCGACTTTTGATCATCTCAT
1 TCCCCAAAATGAAACTTGTTGCAGCTCTTACATCTCGACTTTTGATCATCTCAT
5008481 TCCCCAAAATGAAA-TTGTTGCAGCTCTTACATCTCGACTTTTGATCATCT
1 TCCCCAAAATGAAACTTGTTGCAGCTCTTACATCTCGACTTTTGATCATCT
5008531 GTACTCCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 35 0.73
54 13 0.27
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (54 bp):
TCCCCAAAATGAAACTTGTTGCAGCTCTTACATCTCGACTTTTGATCATCTCAT
Found at i:5012119 original size:31 final size:31
Alignment explanation
Indices: 5012084--5012145 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
5012074 AAACATGTCT
*
5012084 CACATGGTTCATTTTGCATACATGAACCCTA
1 CACATGGGTCATTTTGCATACATGAACCCTA
5012115 CACATGGGTCATTTTGCATACATGAACCCTA
1 CACATGGGTCATTTTGCATACATGAACCCTA
5012146 GCTTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (31 bp):
CACATGGGTCATTTTGCATACATGAACCCTA
Found at i:5015588 original size:21 final size:23
Alignment explanation
Indices: 5015542--5015597 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
5015532 TTCAAACCTT
*
5015542 TATTTTAATTTTATTTATTTTAA
1 TATTTTAATTTTATTTATTCTAA
5015565 TATTTT-ATTTTA-TTATTCCTATA
1 TATTTTAATTTTATTTATT-CTA-A
5015588 TATTTTAATT
1 TATTTTAATT
5015598 ATTTAACCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 8 0.28
23 13 0.45
24 3 0.10
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTTTAATTTTATTTATTCTAA
Found at i:5018830 original size:42 final size:42
Alignment explanation
Indices: 5018784--5018893 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
5018774 TACCATACCA
* *
5018784 ATGCCATATCCCAGCTATGGTCTTACACGAAATCCCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCCCATATAG
* * * *
5018826 ATGCCATATCCTAGATATGGTCTTACATGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCCCATATAG
*
5018868 ATGCCCTATCCCAGATATGGTCTTAC
1 ATGCCATATCCCAGATATGGTCTTAC
5018894 TCATAGTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCCCATATAG
Found at i:5023285 original size:40 final size:40
Alignment explanation
Indices: 5023225--5023376 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
5023215 CACCAGTTTG
** * * * *
5023225 TGGACAAGCCACCAGTATTGCAGATAAACTGCCAGTACTA
1 TGGACAAGCCACCAAAATTGCAAACAAGCTGCCAGTAATA
* * *
5023265 TGGACAAGCCACCAAAATTGCAAACAAGCTAG-CAATATTG
1 TGGACAAGCCACCAAAATTGCAAACAAGCT-GCCAGTAATA
*
5023305 TGGACAAGCCATCAAAATTGCAAACAAGCTGCCAGTAATA
1 TGGACAAGCCACCAAAATTGCAAACAAGCTGCCAGTAATA
* ***
5023345 TGTGGTCAAGCCACCATTGTTGCAAACAAGCT
1 --TGGACAAGCCACCAAAATTGCAAACAAGCT
5023377 ACTAATAATG
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 64 0.70
41 1 0.01
42 25 0.27
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
TGGACAAGCCACCAAAATTGCAAACAAGCTGCCAGTAATA
Found at i:5023293 original size:20 final size:20
Alignment explanation
Indices: 5023268--5023333 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
5023258 AGTACTATGG
5023268 ACAAGCCACCAAAATTGCAA
1 ACAAGCCACCAAAATTGCAA
* * * ***
5023288 ACAAGCTAGCAATATTGTGG
1 ACAAGCCACCAAAATTGCAA
*
5023308 ACAAGCCATCAAAATTGCAA
1 ACAAGCCACCAAAATTGCAA
5023328 ACAAGC
1 ACAAGC
5023334 TGCCAGTAAT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.15
Consensus pattern (20 bp):
ACAAGCCACCAAAATTGCAA
Found at i:5024789 original size:13 final size:13
Alignment explanation
Indices: 5024771--5024813 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
5024761 TTAGCAATGT
5024771 TTTTAAAAAGTGC
1 TTTTAAAAAGTGC
*
5024784 TTTTAAAAGGTGC
1 TTTTAAAAAGTGC
* **
5024797 TGTGGAAAAGTGC
1 TTTTAAAAAGTGC
5024810 TTTT
1 TTTT
5024814 GAGAAGTATT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAGTGC
Found at i:5025632 original size:169 final size:169
Alignment explanation
Indices: 5025353--5025692 Score: 653
Period size: 169 Copynumber: 2.0 Consensus size: 169
5025343 GTACTTCTGA
5025353 AAAGTAAAAAATCTCAATGAAAAGCAGCTTGTTTAGCACAACTTTTCTTTCAAAAATGCTTTTGG
1 AAAGTAAAAAATCTCAATGAAAAGCAGCTTGTTTAGCACAACTTTTCTTTCAAAAATGCTTTTGG
* *
5025418 GGCCAAAAGTGTTTTTTTAAGCACTACGTAACAAGCCCTTAGTCCAGTATGTTGTTCTCTAACAT
66 GGCCAAAAGTGTTTTTTTAAGCACTACGAAACAAGCCCTTAGTCCAGTATGTTGTTCTCTAACAC
5025483 ATACTCATGTATTGATTTTGACATCCCTATGTCAATGAC
131 ATACTCATGTATTGATTTTGACATCCCTATGTCAATGAC
*
5025522 AAAGTAAAAAATCTCAATGAAAAGCAGTTTGTTTAGCACAACTTTTCTTTCAAAAATGCTTTTGG
1 AAAGTAAAAAATCTCAATGAAAAGCAGCTTGTTTAGCACAACTTTTCTTTCAAAAATGCTTTTGG
5025587 GGCCAAAAGTGTTTTTTTAAGCACTACGAAACAAGCCCTTAGTCCAGTATGTTGTTCTCTAACAC
66 GGCCAAAAGTGTTTTTTTAAGCACTACGAAACAAGCCCTTAGTCCAGTATGTTGTTCTCTAACAC
5025652 ATACTCATGTATTGATTTTGACATCCCTATGTCAATGAC
131 ATACTCATGTATTGATTTTGACATCCCTATGTCAATGAC
5025691 AA
1 AA
5025693 TACTTTGTCA
Statistics
Matches: 168, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 168 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (169 bp):
AAAGTAAAAAATCTCAATGAAAAGCAGCTTGTTTAGCACAACTTTTCTTTCAAAAATGCTTTTGG
GGCCAAAAGTGTTTTTTTAAGCACTACGAAACAAGCCCTTAGTCCAGTATGTTGTTCTCTAACAC
ATACTCATGTATTGATTTTGACATCCCTATGTCAATGAC
Found at i:5028442 original size:43 final size:43
Alignment explanation
Indices: 5028357--5028443 Score: 101
Period size: 43 Copynumber: 2.0 Consensus size: 43
5028347 ATATGTAATT
*
5028357 TCGATATGTGTGTACGAGTAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGTGTACGAGTAAGACCCTGTCTAGGACAGTGGCA
5028400 TCGATATGTG-GCTAC-ATGTAAGACCAC-GTCTAGGAC-GTTGGCA
1 TCGATATGTGTG-TACGA-GTAAGACC-CTGTCTAGGACAG-TGGCA
5028443 T
1 T
5028444 TGTACGATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (43 bp):
TCGATATGTGTGTACGAGTAAGACCCTGTCTAGGACAGTGGCA
Found at i:5030471 original size:15 final size:15
Alignment explanation
Indices: 5030442--5030489 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
5030432 TTCAAAGGGA
*
5030442 AGGAAAAATAGAAAGG
1 AGGAAAAAGA-AAAGG
5030458 AGGAAAAAGAAAAGG
1 AGGAAAAAGAAAAGG
* *
5030473 AGAAGAAAAGGAAAGG
1 AGGA-AAAAGAAAAGG
5030489 A
1 A
5030490 AGGGAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (15 bp):
AGGAAAAAGAAAAGG
Found at i:5041559 original size:39 final size:40
Alignment explanation
Indices: 5041452--5041562 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
5041442 GACCTCGAGT
* * **
5041452 CGATGAGACACTAGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
5041493 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
5041531 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
5041563 AACTATCCGA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
38 19 0.35
39 19 0.35
40 1 0.02
41 14 0.25
42 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:5042725 original size:104 final size:104
Alignment explanation
Indices: 5042545--5042741 Score: 394
Period size: 104 Copynumber: 1.9 Consensus size: 104
5042535 TCGGATACAC
5042545 GGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAAC
1 GGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAAC
5042610 TCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
66 TCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
5042649 GGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAAC
1 GGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAAC
5042714 TCGGACTCAACTCAACGAGTTCGGATGC
66 TCGGACTCAACTCAACGAGTTCGGATGC
5042742 TCAACCATCC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 93 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (104 bp):
GGATAATTTGCACATAAGTGCCTCATATGTAATCAAGAAATCATGTAACCCGCCCCTAAGTGAAC
TCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
Found at i:5051384 original size:40 final size:40
Alignment explanation
Indices: 5051339--5052328 Score: 1811
Period size: 40 Copynumber: 24.8 Consensus size: 40
5051329 GAGAATTGAG
5051339 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051379 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051419 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051459 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051499 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051539 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051579 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051619 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051659 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051699 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051739 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051779 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051819 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051859 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5051899 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
5051939 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
5051979 AGTGATGTATCCGGGCTAAGTCCCGAAGAGAATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
5052019 AGTGATGTATCCCGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5052059 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5052099 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5052139 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5052179 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
5052219 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *** *
5052259 AGTGATATATTCGTG-CTAAACCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
5052299 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAG
5052329 TAATCATGCT
Statistics
Matches: 928, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
39 1 0.00
40 926 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:5054918 original size:13 final size:13
Alignment explanation
Indices: 5054900--5054924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5054890 TAATGGTATA
5054900 TTGAATCCATGAC
1 TTGAATCCATGAC
5054913 TTGAATCCATGA
1 TTGAATCCATGA
5054925 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:5056176 original size:77 final size:77
Alignment explanation
Indices: 5056084--5056237 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
5056074 AATGACTCCG
*
5056084 AAATCCCCTGTTCTGTATTTAGAAAATCATTATAATTTGTGAAAAAATGGTTATAAGATAAAATT
1 AAATCCCCTATTCTGTATTTAGAAAATCATTATAATTTGTGAAAAAATGGTTATAAGATAAAATT
5056149 TATATGCTTAGA
66 TATATGCTTAGA
* *
5056161 AAATCCCCTATTCTGTTTTTAGAAAATCATTATAATTTGTGCAAAAATGGTTATAAGATAAAATT
1 AAATCCCCTATTCTGTATTTAGAAAATCATTATAATTTGTGAAAAAATGGTTATAAGATAAAATT
5056226 TATATGCTTAGA
66 TATATGCTTAGA
5056238 CTCCTTAATG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (77 bp):
AAATCCCCTATTCTGTATTTAGAAAATCATTATAATTTGTGAAAAAATGGTTATAAGATAAAATT
TATATGCTTAGA
Found at i:5057960 original size:62 final size:62
Alignment explanation
Indices: 5057892--5058016 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
5057882 TGTTTGATAA
*
5057892 TATGTCAAATTGTGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCGGCAT
1 TATGTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCGGCAT
*
5057954 TATGTCAAATTATGTGATATATTTGGAAAATGTGAAATACTACCGAGTATCGGTATCGGCAT
1 TATGTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCGGCAT
5058016 T
1 T
5058017 CCGTAGAAGA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (62 bp):
TATGTCAAATTATGTGATATACTTGGAAAATGTGAAATACTACCGAGTATCGGTATCGGCAT
Found at i:5058183 original size:46 final size:46
Alignment explanation
Indices: 5058116--5058291 Score: 157
Period size: 46 Copynumber: 3.8 Consensus size: 46
5058106 TATTTGGGCA
*
5058116 TCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* *
5058162 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * * *
5058207 CATCTGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
5058255 -CCTGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
5058292 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 58 0.55
47 26 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:5058272 original size:93 final size:93
Alignment explanation
Indices: 5058112--5058283 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
5058102 AGGATATTTG
* *
5058112 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
5058177 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
5058205 GGCATCTGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTTA
1 GGCATCCGAACTCATTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGA
5058269 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
5058284 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTAAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:5058915 original size:33 final size:33
Alignment explanation
Indices: 5058878--5059039 Score: 96
Period size: 31 Copynumber: 5.2 Consensus size: 33
5058868 TGAATGAATA
5058878 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
1 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
* * *** *
5058911 ATGTAGC-A-T-TCTGTAGCT-CAAAATG-AAT-A
1 ATGTA-CAATTATTTGTAGTTGCTTCA-GCAATGC
5058940 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
1 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
* * *** *
5058973 ATGTAGC-A-T-TCTGTAGCT-CAAAATG-AAT-A
1 ATGTA-CAATTATTTGTAGTTGCTTCA-GCAATGC
5059002 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
1 ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
5059035 ATGTA
1 ATGTA
5059040 GCATTCTGTA
Statistics
Matches: 89, Mismatches: 24, Indels: 32
0.61 0.17 0.22
Matches are distributed among these distances:
28 2 0.02
29 12 0.13
30 12 0.13
31 32 0.36
32 12 0.13
33 17 0.19
34 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (33 bp):
ATGTACAATTATTTGTAGTTGCTTCAGCAATGC
Found at i:5058940 original size:62 final size:62
Alignment explanation
Indices: 5058870--5059056 Score: 374
Period size: 62 Copynumber: 3.0 Consensus size: 62
5058860 TGTTTGGATG
5058870 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
1 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
5058932 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
1 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
5058994 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
1 AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
5059056 A
1 A
5059057 CCTGAAGACT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 125 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (62 bp):
AATGAATAATGTACAATTATTTGTAGTTGCTTCAGCAATGCATGTAGCATTCTGTAGCTCAA
Found at i:5062026 original size:70 final size:70
Alignment explanation
Indices: 5061852--5061992 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
5061842 ACATTTAGAT
5061852 ACTCTACATTTGAATAATATTTAAATTTAGAATTTTAATATTTATTTATTAAAATTGGGTACAAA
1 ACTCTACATTTGAATAATATTTAAATTTAGAATTTTAATATTTATTTATTAAAATTGGGTACAAA
5061917 AATTA
66 AATTA
*
5061922 ACTCTACATTTGAATAATATTTACATTTAGAATTTTAATATTTATTTATTAAAATTGGGTACAAA
1 ACTCTACATTTGAATAATATTTAAATTTAGAATTTTAATATTTATTTATTAAAATTGGGTACAAA
5061987 AATTA
66 AATTA
5061992 A
1 A
5061993 TTGTTGATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (70 bp):
ACTCTACATTTGAATAATATTTAAATTTAGAATTTTAATATTTATTTATTAAAATTGGGTACAAA
AATTA
Found at i:5071132 original size:18 final size:17
Alignment explanation
Indices: 5071111--5071154 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
5071101 ATTGCATGGG
5071111 ATGCATGGTTCACATGAA
1 ATGCATGGTT-ACATGAA
*
5071129 ATGCATGGGTTGCATGAA
1 ATGCAT-GGTTACATGAA
5071147 ATGCATGG
1 ATGCATGG
5071155 AACGTATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 2 0.08
18 18 0.75
19 4 0.17
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (17 bp):
ATGCATGGTTACATGAA
Found at i:5071201 original size:45 final size:45
Alignment explanation
Indices: 5071151--5071254 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
5071141 CATGAAATGC
* * *
5071151 ATGGAACGTATGGCACGCATGGAGTGCATGAAATACATGTTTTGT
1 ATGGAACGTATGGAACGCATGGAATACATGAAATACATGTTTTGT
** * *
5071196 ATGGAACACATGGAATGCATGGAATACATGAAATCCATGTTTTGT
1 ATGGAACGTATGGAACGCATGGAATACATGAAATACATGTTTTGT
*
5071241 ATGGAATGTATGGA
1 ATGGAACGTATGGA
5071255 GTGCATGCCC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.29
Consensus pattern (45 bp):
ATGGAACGTATGGAACGCATGGAATACATGAAATACATGTTTTGT
Found at i:5071234 original size:18 final size:18
Alignment explanation
Indices: 5071196--5071234 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5071186 CATGTTTTGT
* *
5071196 ATGGAACACATGGAATGC
1 ATGGAACACATGAAATCC
*
5071214 ATGGAATACATGAAATCC
1 ATGGAACACATGAAATCC
5071232 ATG
1 ATG
5071235 TTTTGTATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (18 bp):
ATGGAACACATGAAATCC
Found at i:5072336 original size:22 final size:23
Alignment explanation
Indices: 5072311--5072356 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5072301 CAACCAAATC
5072311 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
5072333 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
5072356 A
1 A
5072357 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:5072362 original size:23 final size:23
Alignment explanation
Indices: 5072318--5072362 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5072308 ATCAATTCAA
*
5072318 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
5072341 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
5072363 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:5099223 original size:13 final size:13
Alignment explanation
Indices: 5099200--5099233 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
5099190 AAACATATTA
5099200 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
5099214 TAAAATTTTGTGT
1 TAAAATTTTGTGT
5099227 TAGAAAT
1 TA-AAAT
5099234 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:5100505 original size:40 final size:40
Alignment explanation
Indices: 5100457--5100582 Score: 218
Period size: 40 Copynumber: 3.2 Consensus size: 40
5100447 GGACTAAGAT
5100457 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
5100497 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
5100537 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
5100576 CCGAAGG
1 CCGAAGG
5100583 TACTTGGATT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 14 0.17
40 68 0.83
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:5105122 original size:24 final size:22
Alignment explanation
Indices: 5105095--5105149 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
5105085 CACTCTCTTC
*
5105095 TTTTCTTTCATTCTTCTATTGTGT
1 TTTTCTTTCACTC-TCT-TTGTGT
*
5105119 TTTTAC-CTCACTCTCTTTGTGT
1 TTTT-CTTTCACTCTCTTTGTGT
5105141 TTTTCTTTC
1 TTTTCTTTC
5105150 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 1 0.04
22 12 0.46
23 3 0.12
24 9 0.35
25 1 0.04
ACGTcount: A:0.07, C:0.22, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTCTTTCACTCTCTTTGTGT
Found at i:5105199 original size:24 final size:22
Alignment explanation
Indices: 5105141--5105201 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 22
5105131 CTCTTTGTGT
5105141 TTTTCTTTCTTT-TTTTTTAAC
1 TTTTCTTTCTTTCTTTTTTAAC
5105162 TTATTCTTTCCTTTCTTCTTTTGAA-
1 TT-TTCTTT-CTTTCTT-TTTT-AAC
5105187 TTTTCTTGTCTTTCT
1 TTTTCTT-TCTTTCT
5105202 CACTTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 4 0.12
24 13 0.38
25 7 0.21
26 2 0.06
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTTCTTTCTTTCTTTTTTAAC
Found at i:5108644 original size:18 final size:18
Alignment explanation
Indices: 5108621--5108663 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
5108611 ATTGTATGGG
*
5108621 ATGCATGGTTTGCATGAA
1 ATGCATGGGTTGCATGAA
*
5108639 ATGCATGGGTTGCATGGA
1 ATGCATGGGTTGCATGAA
5108657 ATGCATG
1 ATGCATG
5108664 AAATGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (18 bp):
ATGCATGGGTTGCATGAA
Found at i:5108646 original size:27 final size:27
Alignment explanation
Indices: 5108616--5108668 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
5108606 AACATATTGT
**
5108616 ATGGGATGCATGGTTTGCATGAAATGC
1 ATGGGATGCATGGAATGCATGAAATGC
*
5108643 ATGGGTTGCATGGAATGCATGAAATG
1 ATGGGATGCATGGAATGCATGAAATG
5108669 TATGTTTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.28
Consensus pattern (27 bp):
ATGGGATGCATGGAATGCATGAAATGC
Found at i:5108678 original size:27 final size:27
Alignment explanation
Indices: 5108622--5108711 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
5108612 TTGTATGGGA
** **
5108622 TGCATGGTTTGCATGAAATGCATGGGT
1 TGCATGGAATGCATGAAATGCATGTTT
*
5108649 TGCATGGAATGCATGAAATGTATGTTT
1 TGCATGGAATGCATGAAATGCATGTTT
*** *
5108676 TGCATGGTGCGCATGGAATGCATGTTT
1 TGCATGGAATGCATGAAATGCATGTTT
5108703 TGCATGGAA
1 TGCATGGAA
5108712 CACATGGAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.24, C:0.11, G:0.31, T:0.33
Consensus pattern (27 bp):
TGCATGGAATGCATGAAATGCATGTTT
Found at i:5108717 original size:27 final size:27
Alignment explanation
Indices: 5108632--5108726 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
5108622 TGCATGGTTT
** *
5108632 GCATGAAATGCATGGGTTGCATGGAAT
1 GCATGAAATGCATGTTTTGCATGGAAC
* **
5108659 GCATGAAATGTATGTTTTGCATGGTGC
1 GCATGAAATGCATGTTTTGCATGGAAC
*
5108686 GCATGGAATGCATGTTTTGCATGGAAC
1 GCATGAAATGCATGTTTTGCATGGAAC
* * *
5108713 ACATGGAGTGCATG
1 GCATGAAATGCATG
5108727 CTCAAACTCG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (27 bp):
GCATGAAATGCATGTTTTGCATGGAAC
Found at i:5112260 original size:22 final size:22
Alignment explanation
Indices: 5112233--5112278 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5112223 TTCTTTTCTA
5112233 TTCTTTATTTAT-TATTATTTTC
1 TTCTTT-TTTATCTATTATTTTC
* *
5112255 TTCTTTTTTTTCTATTTTTTTC
1 TTCTTTTTTATCTATTATTTTC
5112277 TT
1 TT
5112279 TTATAACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTTTTTATCTATTATTTTC
Found at i:5116718 original size:108 final size:108
Alignment explanation
Indices: 5116529--5116744 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
5116519 AAGTAGCCAT
* *
5116529 TTTCGCATACGAGGTAAGTTCATATGTAAATGTTGGTAACATAGTTATTATTTTAAATTTTTTTA
1 TTTCGCATACGAGGTAAGTTCATATGTAAATGTTGGTAACATAGTTATTATTTTAAATGTTTTAA
5116594 TGTTATTTAAATGATATGATAATTATTATGAAATATTATACTC
66 TGTTATTTAAATGATATGATAATTATTATGAAATATTATACTC
5116637 TTTCGCATACGAGGTAAGTTCATATGTAAATGTTGGTAACATAGTTATTATTTTAAATGTTTTAA
1 TTTCGCATACGAGGTAAGTTCATATGTAAATGTTGGTAACATAGTTATTATTTTAAATGTTTTAA
5116702 TGTTATTTAAATGATATGATAATTATTATGAAATATTATACTC
66 TGTTATTTAAATGATATGATAATTATTATGAAATATTATACTC
5116745 GTGATAATTG
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (108 bp):
TTTCGCATACGAGGTAAGTTCATATGTAAATGTTGGTAACATAGTTATTATTTTAAATGTTTTAA
TGTTATTTAAATGATATGATAATTATTATGAAATATTATACTC
Found at i:5116975 original size:46 final size:45
Alignment explanation
Indices: 5116925--5117100 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
5116915 TGTTTGGGCA
5116925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
5116971 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTGGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGAAG
* *
5117018 T-CTAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
5117064 CCCGAGCTCGTTGATTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5117101 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
44 4 0.04
45 1 0.01
46 64 0.62
47 29 0.28
48 1 0.01
49 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:5118228 original size:625 final size:630
Alignment explanation
Indices: 5117027--5118288 Score: 2183
Period size: 625 Copynumber: 2.0 Consensus size: 630
5117017 ATCTAAGCTT
* *
5117027 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATTTGAGTCTGAGTT
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTT
5117092 CACTTATGGGCGGGTTACATGGTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCATG
66 CACTTATGGGCGGGTTACATGGTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCATG
*
5117157 TATCCGAATTATATTCCGATATGTTCAACGGGTAAAATTCTACTCAAATGGAGGAATACTCGAGA
131 TATCCG-A--ATA-T-C-ATA-GTACAACGGGTAAAATTCTACTCAAATGGAGGAATACTCGAGA
*
5117222 TGAAAGGGACGTATTGGTAAGTGTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCG
189 TGAAAGGGACGTATTGGTAAGTGTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCA
* *
5117287 GGTTGAAAATTCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTC
254 GGTTGAAAACTCGATATAACAACAATATGGTAAGATGATAAATGAAAATATGATATGAATGTCTC
* *
5117352 GGTGATAATTATGCAAATGATGTTTTATGTTTGCTTATATAGTTGTGTTACTTGCTATTTGCATG
319 GGTGATAATTATGCAAATGATGTTTTATATTTGCTTATATAGTTATGTTACTTGCTATTTGCATG
* *
5117417 TGAGCTTACTAAGAATTTATGCTTACTCCCTCTTTTTCATTCCTTGTAGTGTTGACAAGCCAGCT
384 TGAACTTACTAAGAATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTGTTGACAAGCCAGCT
5117482 CGGAAATCAGAAACGGTCGGAGGCACGCTCACACTATCCGTATACCATCTTGGCATAATGGCTTG
449 CGGAAATCAGAAACGGTCGGAGGCACGCTCACACTATCCGTATACCATCTTGGCATAATGGCTTG
*
5117547 TATATTTTGAGTATGGCATGTATAGCATTATAATCATTTTGTGTATATGGTCTTATGATATGGTT
514 TATATTTTGAGCATGGCATGTATAGCATTATAATCATTTTGTGTATATGGTCTTATGATATGGTT
5117612 ATGGAGTGGTATGGAAATGCTTGGTAATGATTAGCCATTGGAATGGCTAATA
579 ATGGAGTGGTATGGAAATGCTTGGTAATGATTAGCCATTGGAATGGCTAATA
5117664 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTT
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTT
*
5117729 CACTTATGGGCGGGTTACATGGTAGCTTGGCTACATATGTGGTACTTATGTGCAAACTTTCCATG
66 CACTTATGGGCGGGTTACATGGTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCATG
5117794 TATCCG-A-A-C-TA-TACAACGGGTAAAATTCTACTCAAATGGAGGAATACTCGAGATGAAAGG
131 TATCCGAATATCATAGTACAACGGGTAAAATTCTACTCAAATGGAGGAATACTCGAGATGAAAGG
* *
5117854 GACGTATTGGTAAGTGTTGTGAAATGGATACTTTGAATAGGTATGTACTTAACCCTCAGGTTGAA
196 GACGTATTGGTAAGTGTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAA
* *
5117919 AACTCGATATAACAACAATATGGTAAGATGATAAATGAAAATATGATATGAATGTCTTGGTGATG
261 AACTCGATATAACAACAATATGGTAAGATGATAAATGAAAATATGATATGAATGTCTCGGTGATA
*
5117984 ATTATGCAAATGATGTTTTATATTTGCTTATATGGTTATGTTACTTGCTATTTGCATGTGAACTT
326 ATTATGCAAATGATGTTTTATATTTGCTTATATAGTTATGTTACTTGCTATTTGCATGTGAACTT
* *
5118049 ACTAAGCATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAAAT
391 ACTAAGAATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTGTTGACAAGCCAGCTCGGAAAT
** * * * * *
5118114 TGGGAACGGTTGGAGGCTCGCTCACACTATCCGTGTATCATCTTGGCATAATGGCTTGTATATTT
456 CAGAAACGGTCGGAGGCACGCTCACACTATCCGTATACCATCTTGGCATAATGGCTTGTATATTT
*
5118179 TGAGCATGGCATGTATAGCATTATAATCATTTTGTGTATATGGTCTTATGATATGGTTATTGAGT
521 TGAGCATGGCATGTATAGCATTATAATCATTTTGTGTATATGGTCTTATGATATGGTTATGGAGT
5118244 GGTATGGAAATGCTTGGTAATGATTAGCCATTGGAATGGCTAATA
586 GGTATGGAAATGCTTGGTAATGATTAGCCATTGGAATGGCTAATA
5118289 ATGATCATAT
Statistics
Matches: 598, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
625 460 0.77
627 2 0.00
629 1 0.00
632 1 0.00
633 1 0.00
637 133 0.22
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (630 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTT
CACTTATGGGCGGGTTACATGGTAGCTTGGCTACATATGTGGCACTTATGTGCAAACTTTCCATG
TATCCGAATATCATAGTACAACGGGTAAAATTCTACTCAAATGGAGGAATACTCGAGATGAAAGG
GACGTATTGGTAAGTGTTGTGAAATGAATACTTTGAACAGGTATGTACTTAACCCTCAGGTTGAA
AACTCGATATAACAACAATATGGTAAGATGATAAATGAAAATATGATATGAATGTCTCGGTGATA
ATTATGCAAATGATGTTTTATATTTGCTTATATAGTTATGTTACTTGCTATTTGCATGTGAACTT
ACTAAGAATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTGTTGACAAGCCAGCTCGGAAAT
CAGAAACGGTCGGAGGCACGCTCACACTATCCGTATACCATCTTGGCATAATGGCTTGTATATTT
TGAGCATGGCATGTATAGCATTATAATCATTTTGTGTATATGGTCTTATGATATGGTTATGGAGT
GGTATGGAAATGCTTGGTAATGATTAGCCATTGGAATGGCTAATA
Found at i:5128976 original size:27 final size:27
Alignment explanation
Indices: 5128946--5128999 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5128936 TTCTACAACC
* *
5128946 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
5128973 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
5129000 TCACATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:5130014 original size:21 final size:21
Alignment explanation
Indices: 5129979--5130033 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
5129969 TGTTGTTAAG
* *
5129979 AAGGAAGTTACTGCTGCAGAA
1 AAGGAAGTTGCTGCTGAAGAA
* *
5130000 GAGGAAGTTGTTGCTGAAGAA
1 AAGGAAGTTGCTGCTGAAGAA
*
5130021 AAAGAAGTTGCTG
1 AAGGAAGTTGCTG
5130034 AGAATGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.33, T:0.22
Consensus pattern (21 bp):
AAGGAAGTTGCTGCTGAAGAA
Found at i:5136608 original size:23 final size:23
Alignment explanation
Indices: 5136579--5136622 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5136569 TATACATGAA
5136579 AAATGATGAT-ACATGATATATGG
1 AAATGAT-ATCACATGATATATGG
*
5136602 AAATGATATCACTTGATATAT
1 AAATGATATCACATGATATAT
5136623 TGAAGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGATATCACATGATATATGG
Found at i:5141308 original size:40 final size:40
Alignment explanation
Indices: 5141261--5141504 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
5141251 CGAGATTTAA
* * * *
5141261 CCGGATATAGCT-ACTCGCTCGAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5141301 CCGGATATAGTAACTCGCACAAATGCCTTTGGGACTGAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
5141341 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
5141381 CCGAATATGGTAACTCGCACAAATGCCTTCGGGATTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5141421 CCGGATATAGTAACTCACACAAATGCCTTCGCGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
5141461 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
5141501 CCGG
1 CCGG
5141505 TTATCATCCA
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 184 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5155231 original size:37 final size:37
Alignment explanation
Indices: 5155170--5155248 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
5155160 TTATTACGAA
* * *
5155170 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
5155207 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
5155244 GTCTT
1 GTCTT
5155249 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:5155445 original size:47 final size:47
Alignment explanation
Indices: 5155369--5155510 Score: 167
Period size: 47 Copynumber: 3.0 Consensus size: 47
5155359 CTTCCGGACT
* * * * * * *
5155369 TATCACATTTATACCCTTTTACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
5155416 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
5155463 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGCC
5155511 TTACTATCAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 42 0.51
49 40 0.49
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:5155492 original size:49 final size:49
Alignment explanation
Indices: 5155367--5155513 Score: 185
Period size: 49 Copynumber: 3.1 Consensus size: 49
5155357 CCCTTCCGGA
* * * * * * *
5155367 CTTATCACAT-T-TATACCCTTTTACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5155414 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5155461 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5155510 CTTA
1 CTTA
5155514 CTATCATTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 41 0.48
49 43 0.51
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5161856 original size:23 final size:23
Alignment explanation
Indices: 5161827--5161870 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5161817 AATTCATGAA
5161827 AAATGATGAT-ACATGATATATGG
1 AAATGAT-ATCACATGATATATGG
*
5161850 AAATGATATCACTTGATATAT
1 AAATGATATCACATGATATAT
5161871 TAAAGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGATATCACATGATATATGG
Found at i:5171199 original size:48 final size:48
Alignment explanation
Indices: 5171158--5172098 Score: 1756
Period size: 48 Copynumber: 19.6 Consensus size: 48
5171148 TATCGGTACT
* * * * **
5171158 GATGCCATGTCCCAGACATGGTCTTACACTTGTACAGATATCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171206 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171254 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171302 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171350 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171398 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171446 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171494 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171542 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171590 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171638 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171686 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171734 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171782 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171830 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171878 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171926 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
5171974 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
* * * * * *
5172022 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCTGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-AACGCC
*
5172071 GATGCCATGTCCCAGACATAGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
5172099 TGGGATCTTA
Statistics
Matches: 879, Mismatches: 13, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
48 849 0.97
49 30 0.03
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACGCC
Found at i:5184493 original size:27 final size:27
Alignment explanation
Indices: 5184453--5184619 Score: 174
Period size: 27 Copynumber: 6.2 Consensus size: 27
5184443 AGGAAGCGTC
*
5184453 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
5184480 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
5184507 CTGGTGGCTCTGCCACGATTATCTAAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
5184534 CTGGTGACTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
5184561 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
5184589 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
5184615 CTGGT
1 CTGGT
5184620 AGCCATGCTG
Statistics
Matches: 115, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 6 0.05
27 95 0.83
28 14 0.12
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:5184536 original size:54 final size:54
Alignment explanation
Indices: 5184453--5184619 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
5184443 AGGAAGCGTC
* * * * *
5184453 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
5184507 CTGGTGGCTCTGCCACGATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
* * *
5184561 CTAGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCT-AATCTGGTGACTCTGCCACATATATCTGTT
5184615 CTGGT
1 CTGGT
5184620 AGCCATGCTG
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 84 0.82
55 19 0.18
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTAATCTGGTGACTCTGCCACATATATCTGTT
Found at i:5184619 original size:81 final size:81
Alignment explanation
Indices: 5184453--5184611 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
5184443 AGGAAGCGTC
* * *
5184453 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGACTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
5184518 GCCACGATTATCTAAT
66 GCCACGATTATCTAAT
* * *
5184534 CTGGTGACTCTGCCACATATATCTGTTCTAGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGACTATGCCACAAATATCTGATCTAGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACT
*
5184598 CTGTCAC-ATTATCT
64 CTGCCACGATTATCT
5184612 GTTCTGGTAG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 52 0.75
82 17 0.25
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (81 bp):
CTGGTGACTATGCCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
GCCACGATTATCTAAT
Found at i:5190446 original size:50 final size:50
Alignment explanation
Indices: 5190391--5190490 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
5190381 TGTTTAAATA
5190391 ACATGCATGCAAGTTATGTGTGAAAGAGCGATTTGGTAATAAATCTGCTC
1 ACATGCATGCAAGTTATGTGTGAAAGAGCGATTTGGTAATAAATCTGCTC
*
5190441 ACATGCATGCAAGTTATGTGTGAAAGAGTGATTTGGTAATAAATCTGCTC
1 ACATGCATGCAAGTTATGTGTGAAAGAGCGATTTGGTAATAAATCTGCTC
5190491 GGGACAGCAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (50 bp):
ACATGCATGCAAGTTATGTGTGAAAGAGCGATTTGGTAATAAATCTGCTC
Found at i:5191574 original size:27 final size:27
Alignment explanation
Indices: 5191531--5191696 Score: 172
Period size: 27 Copynumber: 6.1 Consensus size: 27
5191521 AGGAAGCGTC
*
5191531 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
5191558 CTGGTGGCTCTGGCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
** *
5191585 CTGGTGGCTCTGCCATGATTATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* * *
5191612 CTGGTGACTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
5191639 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * *
5191667 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
5191693 CTGG
1 CTGG
5191697 CAGCCATGTT
Statistics
Matches: 114, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 5 0.04
27 94 0.82
28 15 0.13
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:5191613 original size:54 final size:54
Alignment explanation
Indices: 5191531--5191696 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
5191521 AGGAAGCGTC
* * * * *
5191531 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGGCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
*
5191585 CTGGTGGCTCTGCCATGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
*
5191639 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACGATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
5191693 CTGG
1 CTGG
5191697 CAGCCATGTT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 84 0.82
55 19 0.18
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACGATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:5191687 original size:81 final size:81
Alignment explanation
Indices: 5191531--5191696 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
5191521 AGGAAGCGTC
* * *
5191531 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGGCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGACTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
*
5191596 GCCATGATTATCTGAT
66 GCCATCATTATCTGAT
* * *
5191612 CTGGTGACTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAT-TATCTGTATCTGGTGACT
1 CTGGTGACTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-ATATATCTGT-TCTGGTGACT
* *
5191676 CTGTCA-CATTATCTGTT
64 CTGCCATCATTATCTGAT
5191693 CTGG
1 CTGG
5191697 CAGCCATGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (81 bp):
CTGGTGACTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGACTCT
GCCATCATTATCTGAT
Found at i:5195322 original size:33 final size:33
Alignment explanation
Indices: 5195271--5195358 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
5195261 GTTTTCTTTG
**
5195271 TGCCATAGTCCAACTATGGTCTTA-CAAGTGAA
1 TGCCATAACCCAACTATGGTCTTATCAAGTGAA
* **
5195303 TTGCCATAACCCAATTATGGTCTTATCATTTGAA
1 -TGCCATAACCCAACTATGGTCTTATCAAGTGAA
* *
5195337 TGCCATAACCTAGCTATGGTCT
1 TGCCATAACCCAACTATGGTCT
5195359 CACATACAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 40 0.87
34 6 0.13
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (33 bp):
TGCCATAACCCAACTATGGTCTTATCAAGTGAA
Found at i:5197752 original size:39 final size:39
Alignment explanation
Indices: 5197588--5197770 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
5197578 TTGAATGCTG
* * * * * * *
5197588 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
5197628 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
5197668 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
5197708 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
5197747 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
5197771 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:5197790 original size:79 final size:80
Alignment explanation
Indices: 5197624--5197805 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
5197614 GCTAAGTGAA
* * * *
5197624 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
5197688 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
5197704 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
5197768 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
5197783 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
5197806 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:5204781 original size:80 final size:79
Alignment explanation
Indices: 5204697--5204868 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
5204687 GGACTAAGAT
*
5204697 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
5204761 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
5204777 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
5204842 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
5204856 CCGAAGGCATTTG
1 CCGAAGGCATTTG
5204869 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:5204848 original size:39 final size:39
Alignment explanation
Indices: 5204644--5204866 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
5204634 TTGAATGCTG
* * * * *
5204644 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
5204684 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
5204723 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
5204764 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
5204804 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
5204843 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
5204867 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:5204886 original size:79 final size:80
Alignment explanation
Indices: 5204724--5204901 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
5204714 AGATACAAAT
* * * *
5204724 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
5204789 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
5204804 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
5204868 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
5204883 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
5204902 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:5209580 original size:15 final size:15
Alignment explanation
Indices: 5209560--5209609 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
5209550 CGAGAAGGCC
*
5209560 GAGAAAGAAAATACT
1 GAGAAAGAAACTACT
*
5209575 GAGAAAGAAGCTACT
1 GAGAAAGAAACTACT
* *
5209590 AAGAAAGAATCTACT
1 GAGAAAGAAACTACT
5209605 GAGAA
1 GAGAA
5209610 CATTGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.54, C:0.10, G:0.22, T:0.14
Consensus pattern (15 bp):
GAGAAAGAAACTACT
Found at i:5211828 original size:15 final size:16
Alignment explanation
Indices: 5211799--5211829 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5211789 TAGGAATCCC
5211799 ATTTTATCATTATCAT
1 ATTTTATCATTATCAT
5211815 ATTTTATC-TTATCAT
1 ATTTTATCATTATCAT
5211830 TTTCAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATCATTATCAT
Found at i:5212119 original size:15 final size:16
Alignment explanation
Indices: 5212090--5212120 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5212080 TAGGAATCCC
5212090 ATTTTATCATTATCAT
1 ATTTTATCATTATCAT
5212106 ATTTTATC-TTATCAT
1 ATTTTATCATTATCAT
5212121 TTTCAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTTATCATTATCAT
Found at i:5212194 original size:291 final size:291
Alignment explanation
Indices: 5211670--5212236 Score: 1125
Period size: 291 Copynumber: 1.9 Consensus size: 291
5211660 TGCATGTTTA
5211670 AGTCTTAGATTAAATATAGAAGTTAAGCTTGGTACGATATTCATTGCAATTTAATGCATCGACAA
1 AGTCTTAGATTAAATATAGAAGTTAAGCTTGGTACGATATTCATTGCAATTTAATGCATCGACAA
5211735 TCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTCTGATGAATATTCATGTTAGGAATCCCA
66 TCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTCTGATGAATATTCATGTTAGGAATCCCA
5211800 TTTTATCATTATCATATTTTATCTTATCATTTTCAAGTTAGTGTTTCGACAACTACTCTCACAAT
131 TTTTATCATTATCATATTTTATCTTATCATTTTCAAGTTAGTGTTTCGACAACTACTCTCACAAT
*
5211865 GTATCTCGTTTCAATCTATTTATTACATTGACATTGATAGACAAAAGACAACTATCCTTATGGGA
196 GTATCTCGTTTCAATCTATTTATTACACTGACATTGATAGACAAAAGACAACTATCCTTATGGGA
5211930 TTGATATTCGATAGACTCATATCTGTCTACT
261 TTGATATTCGATAGACTCATATCTGTCTACT
5211961 AGTCTTAGATTAAATATAGAAGTTAAGCTTGGTACGATATTCATTGCAATTTAATGCATCGACAA
1 AGTCTTAGATTAAATATAGAAGTTAAGCTTGGTACGATATTCATTGCAATTTAATGCATCGACAA
5212026 TCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTCTGATGAATATTCATGTTAGGAATCCCA
66 TCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTCTGATGAATATTCATGTTAGGAATCCCA
5212091 TTTTATCATTATCATATTTTATCTTATCATTTTCAAGTTAGTGTTTCGACAACTACTCTCACAAT
131 TTTTATCATTATCATATTTTATCTTATCATTTTCAAGTTAGTGTTTCGACAACTACTCTCACAAT
5212156 GTATCTCGTTTCAATCTATTTATTACACTGACATTGATAGACAAAAGACAACTATCCTTATGGGA
196 GTATCTCGTTTCAATCTATTTATTACACTGACATTGATAGACAAAAGACAACTATCCTTATGGGA
5212221 TTGATATTCGATAGAC
261 TTGATATTCGATAGAC
5212237 ACATTATTAC
Statistics
Matches: 275, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 275 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (291 bp):
AGTCTTAGATTAAATATAGAAGTTAAGCTTGGTACGATATTCATTGCAATTTAATGCATCGACAA
TCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTCTGATGAATATTCATGTTAGGAATCCCA
TTTTATCATTATCATATTTTATCTTATCATTTTCAAGTTAGTGTTTCGACAACTACTCTCACAAT
GTATCTCGTTTCAATCTATTTATTACACTGACATTGATAGACAAAAGACAACTATCCTTATGGGA
TTGATATTCGATAGACTCATATCTGTCTACT
Found at i:5218330 original size:27 final size:27
Alignment explanation
Indices: 5218300--5218366 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
5218290 CTCATATCTG
* *
5218300 TAGGCTAGCATTACTGAAATACCCTTA
1 TAGGGTAGAATTACTGAAATACCCTTA
* * *
5218327 TAGGGTAGAAGTACTGAAATGCCCTTG
1 TAGGGTAGAATTACTGAAATACCCTTA
5218354 TAGGGTAGAATTA
1 TAGGGTAGAATTA
5218367 TCAAAATACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCTTA
Found at i:5218373 original size:27 final size:27
Alignment explanation
Indices: 5218311--5218378 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
5218301 AGGCTAGCAT
*
5218311 TACTGAAATACCCTTATAGGGTAGAAG
1 TACTAAAATACCCTTATAGGGTAGAAG
* * * *
5218338 TACTGAAATGCCCTTGTAGGGTAGAAT
1 TACTAAAATACCCTTATAGGGTAGAAG
5218365 TA-TCAAAATACCCT
1 TACT-AAAATACCCT
5218379 CGACCTGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (27 bp):
TACTAAAATACCCTTATAGGGTAGAAG
Found at i:5218392 original size:27 final size:27
Alignment explanation
Indices: 5218362--5218477 Score: 117
Period size: 27 Copynumber: 4.3 Consensus size: 27
5218352 TGTAGGGTAG
* *
5218362 AATTATCAAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
* *
5218389 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCTC-GACTTGTAA
* *
5218416 AATTACTAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTCGACTTGTAA
* * * * *
5218443 AATTACCAAAGTACCCCCGATTTATAG
1 AATTACCAAAATACCCTCGACTTGTAA
5218470 AATTACCA
1 AATTACCA
5218478 TTTTACCCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
26 4 0.06
27 64 0.89
28 4 0.06
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGACTTGTAA
Found at i:5218474 original size:54 final size:55
Alignment explanation
Indices: 5218359--5218475 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 55
5218349 CCTTGTAGGG
* * * *
5218359 TAGAATTA-TCAAAATACCCTCGACCTGTAAAATTACCAAAATACCTCTGATTTG
1 TAGAATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
* *
5218413 T-GAAATTACT-AAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTTA
1 TAG-AATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
5218467 TAGAATTAC
1 TAGAATTAC
5218476 CATTTTACCC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 1 0.02
54 51 0.94
55 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (55 bp):
TAGAATTACTCAAAATACCCTCAACCTGTAAAATTACCAAAATACCCCCGATTTA
Found at i:5218501 original size:54 final size:54
Alignment explanation
Indices: 5218454--5220024 Score: 2245
Period size: 54 Copynumber: 29.1 Consensus size: 54
5218444 ATTACCAAAG
* * * * * *
5218454 TACCCCCGATTTATAGAATTACCATTTTACCCTTGATATACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218508 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218562 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218616 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218670 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218724 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218778 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218832 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218886 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218940 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5218994 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5219048 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5219102 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5219156 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5219210 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5219264 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* * * *
5219318 TACCCTCGATTTACAAAATTA-TCATTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTTGGTTTACAAAATTACTGTTT
* * ** * *
5219372 TACCCTCGATTTAAAAAATTACCGTTTTACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACT-GTTT
* * * * *
5219426 TACCCTCGATTTATAGAATTACCATTTTA-CCTTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTT-GGTTTACAAAATTACTGTTT
* * * * *
5219480 TACCCTCGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* ** * * *
5219534 TACCCTCGTTTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* ** * * * *
5219588 TACCCTCAATTTACAGAATTACCGTTTTTCCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* ** * * * *
5219642 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATCACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* * *** * * *
5219696 TATCCTCGATTTACAGAATTA-TCGTTTTACCCTCAATTTATAGAATTACTGCTT
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTTGGTTTACAAAATTACTGTTT
* * * * * *
5219750 TACCCTCGATTTACAGAATTATTGTTTTACCCTCT-ATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCT-TGGTTTACAAAATTACTGTTT
* * * * * *
5219804 TACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* ** * ** ** *
5219858 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGAATTACAAAATCCCTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
* * * * * * **
5219912 TATCCTCGATTTACAGAATTA-TCGTTTTACCCTCGATTTATAAATTTACTACTT
1 TACCCTCGATTTACAGAATTACT-ATTTTACCCTTGGTTTACAAAATTACTGTTT
** * * **
5219966 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
5220020 TACCC
1 TACCC
5220025 CTAGGATGTT
Statistics
Matches: 1422, Mismatches: 83, Indels: 24
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.00
54 1414 0.99
55 3 0.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTTGGTTTACAAAATTACTGTTT
Found at i:5222067 original size:40 final size:40
Alignment explanation
Indices: 5222023--5222153 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
5222013 GGACTAAGAT
*
5222023 CCGAAGGCATTTGTGCGAGTTATTAATTCTGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
5222063 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
5222103 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
5222143 CCGAAGGCATT
1 CCGAAGGCATT
5222154 GTATGAGTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:5222107 original size:80 final size:81
Alignment explanation
Indices: 5221970--5222150 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
5221960 TTGAATGCTG
* *
5221970 TCTGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCTGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
5222034 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
5222050 TCTGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCTGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
5222111 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
5222130 TCCGGGTTAAGTCCCGAAGGC
1 TCTGGGTTAAGTCCCGAAGGC
5222151 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (81 bp):
TCTGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:5222174 original size:39 final size:38
Alignment explanation
Indices: 5221977--5222190 Score: 162
Period size: 40 Copynumber: 5.4 Consensus size: 38
5221967 CTGTCTGGGC
* * * * **
5221977 TAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGAC
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AACCGGGT
* * *
5222017 TAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATTCTGGGT
1 TAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-ACCGGGT
* * *
5222057 TAAGTCCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGT
1 TAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-ACCGGGT
*
5222097 TAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA-CCGGGT
** *
5222137 TAAGTCCCGAAGGCATTGTATGAGTTACTATAACCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTA-AACCGGGT
*
5222176 TATGTCCCGAAGGCA
1 TAAGTCCCGAAGGCA
5222191 CTTGAACGAG
Statistics
Matches: 144, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.23
40 103 0.72
41 8 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (38 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAACCGGGT
Found at i:5229918 original size:40 final size:39
Alignment explanation
Indices: 5229887--5230096 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
5229877 GGACTAAGAT
* *
5229887 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
5229927 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
5229967 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
5230007 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
5230047 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
5230086 CCGAAGGCATT
1 CCGAAGGCATT
5230097 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:5230050 original size:120 final size:120
Alignment explanation
Indices: 5229834--5230096 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
5229824 TTGAATGCTG
* *
5229834 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
5229898 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
5229954 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
5230017 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
5230073 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
5230097 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:5230116 original size:79 final size:80
Alignment explanation
Indices: 5229835--5230131 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
5229825 TGAATGCTGT
* ** * * * **
5229835 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
5229898 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
5229915 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
5229979 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
5229995 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
5230059 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
5230074 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
5230132 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:5234774 original size:32 final size:32
Alignment explanation
Indices: 5234738--5234804 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
5234728 AATAAGAGAT
* *
5234738 GAATAAT-AAATGAAGTAGTTCAAATTCTAGTA
1 GAATAATAAAATGAAGTAATT-AAATTCTACTA
5234770 GAATAATAAAATGAAGTAATTAAATTCTACTA
1 GAATAATAAAATGAAGTAATTAAATTCTACTA
5234802 GAA
1 GAA
5234805 ATCCTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (32 bp):
GAATAATAAAATGAAGTAATTAAATTCTACTA
Found at i:5236255 original size:25 final size:26
Alignment explanation
Indices: 5236210--5236263 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
5236200 TCACTTTGAG
5236210 TTAATAAAATTCTTTTAAGTGTTTCT
1 TTAATAAAATTCTTTTAAGTGTTTCT
* *
5236236 TTAAT-AATTTCTCTTT-AGTGTTTTT
1 TTAATAAAATTCT-TTTAAGTGTTTCT
5236261 TTA
1 TTA
5236264 GAAGAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
TTAATAAAATTCTTTTAAGTGTTTCT
Found at i:5244066 original size:40 final size:40
Alignment explanation
Indices: 5243982--5244206 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
5243972 TTGAATGATG
* * * * *
5243982 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
5244022 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
5244062 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
5244101 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
5244141 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
5244182 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5244207 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:5244219 original size:40 final size:40
Alignment explanation
Indices: 5244035--5244239 Score: 192
Period size: 40 Copynumber: 5.2 Consensus size: 40
5244025 GGACTAAGAT
* *
5244035 CCGAAGGCATTTGTGCGAGATA-CTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAG-TAGCTATA-ACCGGGTTAAGTC
*
5244074 CCGAAGGCATTGGTGCGAGTTA-CTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TAGCTATAA-CCGGGTTAAGTC
5244114 CCGAAGGCATTTGTGCGAGTTA-CTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TAGCTATAA-CCGGGTTAAGTC
* * *
5244154 CCGAAGGCATTTGTGCGAGTTGCTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTAGCTATAACCGGGTTAAGTC
** * * * *
5244194 CCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGTGCGAGTAGCTATAACCGGGTTAAGTC
5244233 CCGAAGG
1 CCGAAGG
5244240 TACGTTATTT
Statistics
Matches: 145, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 46 0.32
40 97 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTAGCTATAACCGGGTTAAGTC
Found at i:5244224 original size:80 final size:80
Alignment explanation
Indices: 5244021--5244239 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 80
5244011 AAGTGACCAT
* ** * *
5244021 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
5244083 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* ** *
5244100 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
* *
5244165 TGTGCGAGTTGCTATA
66 GGTGCGAGTTACTA-A
* * * *
5244181 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
5244240 TACGTTATTT
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.49
80 58 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGTGCGAGTTACTAA
Found at i:5262003 original size:27 final size:27
Alignment explanation
Indices: 5261965--5262019 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
5261955 CTATGGAAGT
*
5261965 GGGAAAGAGTAACAATGGACTTTGTGA
1 GGGAAAGAGTAACAACGGACTTTGTGA
5261992 GGGAAAGAGTAACAACGGACTTTGTGA
1 GGGAAAGAGTAACAACGGACTTTGTGA
5262019 G
1 G
5262020 TGGGTTACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.35, T:0.20
Consensus pattern (27 bp):
GGGAAAGAGTAACAACGGACTTTGTGA
Found at i:5266586 original size:49 final size:49
Alignment explanation
Indices: 5266529--5266989 Score: 237
Period size: 49 Copynumber: 9.6 Consensus size: 49
5266519 ACATCTAAAT
*
5266529 CGATGCCATGTCCCAAACAGGTCTTACACTGACTTCCATACATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGC
* * * * * * *
5266578 CAATGCCATGTCCTAGACAGGTTTTACACTGGC-TCTCACT-TATCTG-TGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTC-CA-TACATC-GAGGC
* * *
5266627 CGATGCCATGTCCCAGACAGGTCTTACACTGA----CACACCTC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGC
* * * * * *
5266671 TGATGTCATGTCCTAGACAGGTCTTACACT-AGCTTGCATATC-TTGAGGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CATCGAGGC
* * * *
5266720 TGATGCCGTGTACCAGATAGGTCTTACACTGACTTCCATACATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGC
* * * * * *
5266769 CAATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCACTTATC-TC--TGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACT-TC-CATA-CATCGAGGC
* * * * * *
5266818 CGGTGCCATGTCCCAGATAGGTCTTACACTGA----CACACCTC-AAGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGC
* * * * * *
5266862 TGATGTCATGTCCTAGACAGGTCTTACACT-AGCTTGCATATCCT-GAGGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTCCATA-CATCGAGGC
* * * * * * *
5266911 TGATGCCGTGTACCAGATAGGTCTTACACTGGC-TCTCAT-CTATCGATGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTC-CATAC-ATCGAGGC
*
5266960 GGATGCCATGTCCCAGACAGGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
5266990 AGCACACACA
Statistics
Matches: 312, Mismatches: 70, Indels: 60
0.71 0.16 0.14
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 55 0.18
45 4 0.01
47 1 0.00
48 12 0.04
49 222 0.71
50 5 0.02
51 5 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTCCATACATCGAGGC
Found at i:5266647 original size:98 final size:97
Alignment explanation
Indices: 5266501--5266850 Score: 419
Period size: 98 Copynumber: 3.6 Consensus size: 97
5266491 CTCCAAACAT
*** *
5266501 GGTCTTACACTGGCTCTCAC-ATCTAAATCGATGCCATGTCCCAAACAGGTCTTACACTGACTTC
1 GGTCTTACACTGGCTCTCACTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
5266565 CATACATCGAGGCCAATGCCATGTCCTAGACA
66 CATACATCGAGGCCAATGCCATGTCCTAGACA
*
5266597 GGTTTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGA---
1 GGTCTTACACTGGCTCTCAC-TATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTT
* * * ** *
5266659 -CACACCTC-AAGCTGATGTCATGTCCTAGACA
65 CCATACATCGAGGCCAATGCCATGTCCTAGACA
* * * * * *
5266690 GGTCTTACACTAGCT-TGCA-TATCTTGAGGTTGATGCCGTGTACCAGATAGGTCTTACACTGAC
1 GGTCTTACACTGGCTCT-CACTATC-TG-TGTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
5266753 TTCCATACATCGAGGCCAATGCCATGTCCTAGACA
63 TTCCATACATCGAGGCCAATGCCATGTCCTAGACA
* * *
5266788 GGTCTTACACTGGCTCTCACTTATCTCTGTCGGTGCCATGTCCCAGATAGGTCTTACACTGAC
1 GGTCTTACACTGGCTCTCAC-TATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
5266851 ACACCTCAAG
Statistics
Matches: 210, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
91 4 0.02
92 3 0.01
93 64 0.30
94 6 0.03
96 19 0.09
97 6 0.03
98 102 0.49
99 2 0.01
100 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
GGTCTTACACTGGCTCTCACTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTC
CATACATCGAGGCCAATGCCATGTCCTAGACA
Found at i:5266736 original size:93 final size:93
Alignment explanation
Indices: 5266584--5266941 Score: 379
Period size: 93 Copynumber: 3.8 Consensus size: 93
5266574 AGGCCAATGC
* * * * *
5266584 CATGTCCTAGACAGGTTTTACACTGGCTCTCACTTATC-TGTGTCGATGCCATGTCCCAGACAGG
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCAC-TATCTTGGGTCGATGCCATGTACCAGATAGG
5266648 TCTTACACTGACACACCTCAAGCTGATGT
65 TCTTACACTGACACACCTCAAGCTGATGT
* *
5266677 CATGTCCTAGACAGGTCTTACACTAGCT-TGCA-TATCTTGAGGTTGATGCCGTGTACCAGATAG
1 CATGTCCTAGACAGGTCTTACACTAGCTCT-CACTATCTTG-GGTCGATGCCATGTACCAGATAG
* * * ** *
5266740 GTCTTACACTGACTTCCATACATCGAGGCCAATGC
64 GTCTTACACTGA----CACACCTC-AAGCTGATGT
* * *
5266775 CATGTCCTAGACAGGTCTTACACTGGCTCTCACTTATCTCT--GTCGGTGCCATGTCCCAGATAG
1 CATGTCCTAGACAGGTCTTACACTAGCTCTCAC-TATCT-TGGGTCGATGCCATGTACCAGATAG
*
5266838 GTCTTACACTGACACACCTCAAGTTGATGT
64 GTCTTACACTGACACACCTCAAGCTGATGT
* * *
5266868 CATGTCCTAGACAGGTCTTACACTAGCT-TGCA-TATCCTGAGGTTGATGCCGTGTACCAGATAG
1 CATGTCCTAGACAGGTCTTACACTAGCTCT-CACTATCTTG-GGTCGATGCCATGTACCAGATAG
5266931 GTCTTACACTG
64 GTCTTACACTG
5266942 GCTCTCATCT
Statistics
Matches: 218, Mismatches: 31, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
90 1 0.00
91 8 0.04
92 4 0.02
93 121 0.56
94 6 0.03
97 6 0.03
98 65 0.30
99 1 0.00
100 5 0.02
101 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (93 bp):
CATGTCCTAGACAGGTCTTACACTAGCTCTCACTATCTTGGGTCGATGCCATGTACCAGATAGGT
CTTACACTGACACACCTCAAGCTGATGT
Found at i:5266864 original size:142 final size:144
Alignment explanation
Indices: 5266580--5266998 Score: 339
Period size: 142 Copynumber: 2.9 Consensus size: 144
5266570 ATCGAGGCCA
* * * * * * *
5266580 ATGCCATGTCCTAGACAGGTTTTACACTGGCTCTCACTTATC-TG-TGTCGATGCCATGTCCCAG
1 ATGCCATGTCCTAGACAGGTCTTACACTAGCT-TC-CATATCATGAGGCCAATGCCATGTACCAG
* * * * * *
5266643 ACAGGTCTTACACT-G-ACACA-C-CTC-AAGCT-GATGTCATGTCCTAGACAGGTCTTACACTA
64 ACAGGTCTTACACTGGCTCTCATCTATCGATG-TGGATGCCATGTCCCAGACAGGTCTTACACTA
* * * * *
5266702 GCTTGCATATCTTGAGGTTG
128 GC--ACACA-CCTCAAGTTG
* *
5266722 ATGCCGTGTACC-AGATAGGTCTTACACT-GACTTCCATA-CATCGAGGCCAATGCCATGT-CCT
1 ATGCCATGT-CCTAGACAGGTCTTACACTAG-CTTCCATATCAT-GAGGCCAATGCCATGTACC-
** *
5266783 AGACAGGTCTTACACTGGCTCTCA-CTTATCTCTGTCGG-TGCCATGTCCCAGATAGGTCTTACA
62 AGACAGGTCTTACACTGGCTCTCATC-TATCGATGT-GGATGCCATGTCCCAGACAGGTCTTACA
5266846 CT-G-ACACACCTCAAGTTG
125 CTAGCACACACCTCAAGTTG
* * * *** * *
5266864 ATGTCATGTCCTAGACAGGTCTTACACTAGCTTGCATATCCTGAGGTTGATGCCGTGTACCAGAT
1 ATGCCATGTCCTAGACAGGTCTTACACTAGCTTCCATATCATGAGGCCAATGCCATGTACCAGAC
5266929 AGGTCTTACACTGGCTCTCATCTATCGATGTGGATGCCATGTCCCAGACAGGTCTTACACTAGCA
66 AGGTCTTACACTGGCTCTCATCTATCGATGTGGATGCCATGTCCCAGACAGGTCTTACACTAGCA
5266994 CACAC
131 CACAC
5266999 ATCACCCAAA
Statistics
Matches: 223, Mismatches: 33, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
139 1 0.00
140 4 0.02
141 10 0.04
142 155 0.70
143 13 0.06
144 10 0.04
146 4 0.02
147 25 0.11
148 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (144 bp):
ATGCCATGTCCTAGACAGGTCTTACACTAGCTTCCATATCATGAGGCCAATGCCATGTACCAGAC
AGGTCTTACACTGGCTCTCATCTATCGATGTGGATGCCATGTCCCAGACAGGTCTTACACTAGCA
CACACCTCAAGTTG
Found at i:5266871 original size:191 final size:191
Alignment explanation
Indices: 5266547--5266989 Score: 746
Period size: 191 Copynumber: 2.3 Consensus size: 191
5266537 TGTCCCAAAC
*
5266547 AGGTCTTACACTGACTTCCATACATCGAGGCCAATGCCATGTCCTAGACAGGTTTTACACTGGCT
1 AGGTCTTACACTGACTTCCATACATCGAGGCCAATGCCATGTCCTAGACAGGTCTTACACTGGCT
*
5266612 CTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACCTCAAGCTGATGT
66 CTCACTTATCTCTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACCTCAAGCTGATGT
*
5266677 CATGTCCTAGACAGGTCTTACACTAGCTTGCATATCTTGAGGTTGATGCCGTGTACCAGAT
131 CATGTCCTAGACAGGTCTTACACTAGCTTGCATATCCTGAGGTTGATGCCGTGTACCAGAT
5266738 AGGTCTTACACTGACTTCCATACATCGAGGCCAATGCCATGTCCTAGACAGGTCTTACACTGGCT
1 AGGTCTTACACTGACTTCCATACATCGAGGCCAATGCCATGTCCTAGACAGGTCTTACACTGGCT
* * *
5266803 CTCACTTATCTCTGTCGGTGCCATGTCCCAGATAGGTCTTACACTGACACACCTCAAGTTGATGT
66 CTCACTTATCTCTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACCTCAAGCTGATGT
5266868 CATGTCCTAGACAGGTCTTACACTAGCTTGCATATCCTGAGGTTGATGCCGTGTACCAGAT
131 CATGTCCTAGACAGGTCTTACACTAGCTTGCATATCCTGAGGTTGATGCCGTGTACCAGAT
* * *** *
5266929 AGGTCTTACACTGGC-TCTCAT-CTATCGATGTGGATGCCATGTCCCAGACAGGTCTTACACT
1 AGGTCTTACACTGACTTC-CATAC-ATCGAGGCCAATGCCATGTCCTAGACAGGTCTTACACT
5266990 AGCACACACA
Statistics
Matches: 238, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
190 3 0.01
191 235 0.99
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (191 bp):
AGGTCTTACACTGACTTCCATACATCGAGGCCAATGCCATGTCCTAGACAGGTCTTACACTGGCT
CTCACTTATCTCTGTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACCTCAAGCTGATGT
CATGTCCTAGACAGGTCTTACACTAGCTTGCATATCCTGAGGTTGATGCCGTGTACCAGAT
Found at i:5277958 original size:40 final size:40
Alignment explanation
Indices: 5277891--5277966 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
5277881 GGACTAAGAT
*
5277891 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGCTATATCCGGGCTATGTC
* *
5277931 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTA
1 CCGAAGGCATTTATGCGAGTTG-CTATATCCGGGCTA
5277967 AGACCNNNNN
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGCTATATCCGGGCTATGTC
Found at i:5285865 original size:40 final size:40
Alignment explanation
Indices: 5285791--5285962 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
5285781 GATAACTGGA
*
5285791 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * * *
5285831 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
5285871 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * *
5285911 CTAAGACCCGAGGGCATTTGCGCAAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
5285950 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
5285963 ATACTTGGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 96 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
Found at i:5285927 original size:80 final size:79
Alignment explanation
Indices: 5285791--5285962 Score: 240
Period size: 80 Copynumber: 2.2 Consensus size: 79
5285781 GATAACTGGA
* * * * *
5285791 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTACGCAA
5285856 G-TGATTATATCCGGG
66 GTTG-TTATATCC-GG
* *
5285871 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAGGGCATTTGCGCAA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTACGCAA
5285936 GTTGTTATATCCGG
66 GTTGTTATATCCGG
5285950 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
5285963 ATACTTGGGT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.16
80 67 0.81
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTACGCAA
GTTGTTATATCCGG
Found at i:5292259 original size:22 final size:22
Alignment explanation
Indices: 5292217--5292260 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
5292207 AATTATTTAC
* *
5292217 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
5292239 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
5292261 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:5292561 original size:40 final size:40
Alignment explanation
Indices: 5292487--5292708 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
5292477 AACCCAAGTA
* *
5292487 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
5292526 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5292566 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
5292606 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
5292646 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
5292686 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
5292709 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:5305285 original size:42 final size:42
Alignment explanation
Indices: 5305226--5305336 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
5305216 TCCAAACTCA
* * *
5305226 TTGAGTGGTCCGAGTTCATAAGATATATG-GCATCAGAGCTCG
1 TTGAGAGGTCCGAGTTCATAAG-GATACGAGCATCAGAGCTCG
* * * *
5305268 TTGAGAGGTCCGAGTTCATTATGGATGCGAGCATCTGAGCTTG
1 TTGAGAGGTCCGAGTTCA-TAAGGATACGAGCATCAGAGCTCG
*
5305311 TTGAGAGGTCTGAGTTCATAATGGAT
1 TTGAGAGGTCCGAGTTCATAA-GGAT
5305337 GCGATTCATG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (42 bp):
TTGAGAGGTCCGAGTTCATAAGGATACGAGCATCAGAGCTCG
Found at i:5305314 original size:43 final size:43
Alignment explanation
Indices: 5305255--5305340 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
5305245 AAGATATATG
*
5305255 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
1 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
* * *
5305298 GCATCTGAGCTTGTTGAGAGGTCTGAGTTCATAATGGATGCGA
1 GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
5305341 TTCATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (43 bp):
GCATCAGAGCTCGTTGAGAGGTCCGAGTTCATAATGGATGCGA
Found at i:5310274 original size:46 final size:46
Alignment explanation
Indices: 5310106--5310279 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
5310096 TGTAACCCGC
* * ** *
5310106 CCATAAGTGAACTCGGACTCAACTCACCGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* *
5310152 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCAT
* * * * *
5310202 --TTCA-CGAACTTGTACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
*
5310245 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
5310280 GATGCTCAAC
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.58
47 25 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:5317441 original size:43 final size:42
Alignment explanation
Indices: 5317381--5317468 Score: 158
Period size: 43 Copynumber: 2.1 Consensus size: 42
5317371 GCCTTATCTT
*
5317381 GCAAGTGACGACGACGTCGAGTTGGCGGCGGAGAAAGACTCG
1 GCAAGTGACGACGACGTCGAGTTGGCGGCGGAGAAAGACGCG
5317423 GCAAGGTGACGACGACGTCGAGTTGGCGGCGGAGAAAGACGCG
1 GCAA-GTGACGACGACGTCGAGTTGGCGGCGGAGAAAGACGCG
5317466 GCA
1 GCA
5317469 TTCAGGCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 4 0.09
43 40 0.91
ACGTcount: A:0.26, C:0.22, G:0.42, T:0.10
Consensus pattern (42 bp):
GCAAGTGACGACGACGTCGAGTTGGCGGCGGAGAAAGACGCG
Found at i:5317567 original size:18 final size:18
Alignment explanation
Indices: 5317546--5317582 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5317536 AATTCGACGC
* *
5317546 AGTGGATAAATTAGATAA
1 AGTGGAAAAATGAGATAA
5317564 AGTGGAAAAATGAGATAA
1 AGTGGAAAAATGAGATAA
5317582 A
1 A
5317583 CCAGCTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.24, T:0.22
Consensus pattern (18 bp):
AGTGGAAAAATGAGATAA
Found at i:5318546 original size:93 final size:93
Alignment explanation
Indices: 5318435--5318605 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
5318425 GCCCATAAGT
* * *
5318435 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5318500 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
5318528 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
5318593 CGAGTTCGGATGC
66 CGAGTTCGGATGC
5318606 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:5318602 original size:46 final size:46
Alignment explanation
Indices: 5318427--5318602 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
5318417 TGTAACCCGC
* * *
5318427 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
5318473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * * *
5318523 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
5318566 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
5318603 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:5319062 original size:30 final size:30
Alignment explanation
Indices: 5319028--5319087 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
5319018 ATTTAATACG
5319028 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
5319058 AACTTTTGCATAATTACATTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
5319088 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:5320224 original size:319 final size:319
Alignment explanation
Indices: 5319639--5320275 Score: 1247
Period size: 319 Copynumber: 2.0 Consensus size: 319
5319629 AAAATTGGTC
*
5319639 AAATTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCATACTAAAAACTTCTAGAAT
1 AAATTGCTATTTAAGACCTCCTAATTAATATTCCAAAACAATTTCATACTAAAAACTTCTAGAAT
5319704 GCAAGTTTTGCAACTTATTCGACTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATTT
66 GCAAGTTTTGCAACTTATTCGACTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATTT
5319769 CATCACGAAATTTTCACACAATCATGCAATCATATCATAAACCTCAAAATAATTATAAAATAATT
131 CATCACGAAATTTTCACACAATCATGCAATCATATCATAAACCTCAAAATAATTATAAAATAATT
5319834 ATTTCTATCTCGAATTTGTGGTCACGAAACCACTATTTCGATTAGGCCCTAATTCGGGATATTAC
196 ATTTCTATCTCGAATTTGTGGTCACGAAACCACTATTTCGATTAGGCCCTAATTCGGGATATTAC
5319899 AACTCTCCCCCCCTTTAAGGATTTTCGTCCTCGAAAATCTTACCTGTAAACAGATATGA
261 AACTCTCCCCCCCTTTAAGGATTTTCGTCCTCGAAAATCTTACCTGTAAACAGATATGA
*
5319958 AAATTTCTATTTAAGACCTCCTAATTAATATTCCAAAACAATTTCATACTAAAAACTTCTAGAAT
1 AAATTGCTATTTAAGACCTCCTAATTAATATTCCAAAACAATTTCATACTAAAAACTTCTAGAAT
*
5320023 GCAAGTTTTGCAACTTATTCGATTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATTT
66 GCAAGTTTTGCAACTTATTCGACTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATTT
5320088 CATCACGAAATTTTCACACAATCATGCAATCATATCATAAACCTCAAAATAATTATAAAATAATT
131 CATCACGAAATTTTCACACAATCATGCAATCATATCATAAACCTCAAAATAATTATAAAATAATT
5320153 ATTTCTATCTCGAATTTGTGGTCACGAAACCACTATTTCGATTAGGCCCTAATTCGGGATATTAC
196 ATTTCTATCTCGAATTTGTGGTCACGAAACCACTATTTCGATTAGGCCCTAATTCGGGATATTAC
5320218 AACTCTCCCCCCCTTTAAGGATTTTCGTCCTCGAAAATCTTACCTGTAAACAGATATG
261 AACTCTCCCCCCCTTTAAGGATTTTCGTCCTCGAAAATCTTACCTGTAAACAGATATG
5320276 GGTATTGATT
Statistics
Matches: 315, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 315 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.34
Consensus pattern (319 bp):
AAATTGCTATTTAAGACCTCCTAATTAATATTCCAAAACAATTTCATACTAAAAACTTCTAGAAT
GCAAGTTTTGCAACTTATTCGACTTAGTCCCTACTTTCAATTTAAGCACTTTAGGCATAGAATTT
CATCACGAAATTTTCACACAATCATGCAATCATATCATAAACCTCAAAATAATTATAAAATAATT
ATTTCTATCTCGAATTTGTGGTCACGAAACCACTATTTCGATTAGGCCCTAATTCGGGATATTAC
AACTCTCCCCCCCTTTAAGGATTTTCGTCCTCGAAAATCTTACCTGTAAACAGATATGA
Found at i:5329389 original size:79 final size:78
Alignment explanation
Indices: 5329287--5329510 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
5329277 GCTCCTCGTT
* *
5329287 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
5329352 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
5329367 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
5329431 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
** * * * *
5329445 CAAATGCCTTCAGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTC-GGGCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
5329509 GA
63 GA
5329511 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 34 0.27
79 57 0.46
80 34 0.27
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:5329404 original size:39 final size:40
Alignment explanation
Indices: 5329287--5329510 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
5329277 GCTCCTCGTT
* *
5329287 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
5329327 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
5329367 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
5329406 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
5329445 CAAATGCCTTC-AGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
5329486 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5329511 CATCATTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
38 1 0.01
39 72 0.43
40 78 0.47
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:5333116 original size:42 final size:42
Alignment explanation
Indices: 5333030--5333116 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
5333020 ATTAATGCCT
* * * *
5333030 ATGCCATGTCCCAGACATGGTCTTATGCGGAACCTCATATCG
1 ATGCCATGTCCCAGACATGGTCTTATACGAAACCACATAACG
* *
5333072 ATGCCATGTCCCAGACATGGTCTTATACGAAATCACTTAACG
1 ATGCCATGTCCCAGACATGGTCTTATACGAAACCACATAACG
5333114 ATG
1 ATG
5333117 TTGAAGCCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTATACGAAACCACATAACG
Found at i:5339896 original size:19 final size:19
Alignment explanation
Indices: 5339846--5339889 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
5339836 ATGAAATTTT
*
5339846 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
5339865 AATTATTATTATGAGA-AA
1 AATTATTATTATGAGATAA
5339883 AA-TATTA
1 AATTATTA
5339890 CTGTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 4 0.17
19 15 0.62
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:5350341 original size:36 final size:37
Alignment explanation
Indices: 5350272--5350343 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 37
5350262 TCAAGGTTTA
*
5350272 CCTGAAAAGTTAAAACACTGTTGGGGGTAAGCTTATC
1 CCTGAAAAGTTAAAACACTATTGGGGGTAAGCTTATC
*
5350309 CCTGAAAAGTTAAAA-ACTATTGGGGGTGAGCTTAT
1 CCTGAAAAGTTAAAACACTATTGGGGGTAAGCTTAT
5350344 GAAAAGCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (37 bp):
CCTGAAAAGTTAAAACACTATTGGGGGTAAGCTTATC
Done.