Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 127 of 295
Found at i:38705122 original size:69 final size:69
Alignment explanation
Indices: 38705036--38705173 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
38705026 ACCAGATTGT
* * **
38705036 TAGGTCACATGTGTAGTACTAAGTGTAGGATACTATGCGTACCCGATAGTTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGT
38705101 AGTA
66 AGTA
* * * * *
38705105 TAGGTCGCATGTGTAGTACCATGTGCAGGCTACTATGCGTACCTGTTAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGT
38705170 AGTA
66 AGTA
38705174 CTAAGTGCAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (69 bp):
TAGGTCACATGTGTAGTACCAAGTGCAGGATACTATGCGTACCCGATAACTTCGATCACGTGTGT
AGTA
Found at i:38705225 original size:50 final size:50
Alignment explanation
Indices: 38705160--38705290 Score: 208
Period size: 50 Copynumber: 2.6 Consensus size: 50
38705150 TTAACTTCGA
*
38705160 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATGGATAAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATGGATAAG
* * *
38705210 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATGGATAAG
* *
38705260 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
38705291 TGCGTACCAG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAAATGGATAAG
Found at i:38705298 original size:50 final size:50
Alignment explanation
Indices: 38705104--38705301 Score: 191
Period size: 50 Copynumber: 3.9 Consensus size: 50
38705094 CGTGTGTAGT
* * * ** * *
38705104 ATAGGTCGCATGTGTAGTACCATGTGCAGGCTACTATGCGTACCTG-TTA
1 ATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATTG
* * * * * * *
38705153 ACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAAATGG
1 A--TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATTG
* * *
38705205 ATAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
1 ATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATTG
* **
38705255 ATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGA
38705302 GAGCTTAGGT
Statistics
Matches: 120, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 84 0.70
51 33 0.28
52 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
ATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATTG
Found at i:38705522 original size:16 final size:16
Alignment explanation
Indices: 38705501--38705532 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38705491 AGAATGGAGT
38705501 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38705517 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38705533 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38706573 original size:43 final size:42
Alignment explanation
Indices: 38706525--38706765 Score: 279
Period size: 43 Copynumber: 5.6 Consensus size: 42
38706515 TTATGTGAAA
** *
38706525 AAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCGAC
1 AAACGCCTCTAAAGAACATGACCTTTAGCGGCACTTTCCC-AC
* * *
38706568 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTTCCTCAA
1 AAACGCCTCTAAAGAACATGACCTTTAGCGGCACTTTCC-CAC
* * *
38706611 AAACACCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCAC
1 AAACGCCTCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
* * *
38706653 AAACGCCGCTAAAGAGCATAACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCTCTAAAGAACATGACCTTTAGCGGCACTTT-CCCAC
* *
38706696 AAATG-CTGCTAAAGAGCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCT-CTAAAGAACATGACCTTTAGCGGCAC-TTTCCCAC
*
38706739 AAACG-CTGCTAAAGAATATGACCTTTA
1 AAACGCCT-CTAAAGAACATGACCTTTA
38706766 ATAAAAAATA
Statistics
Matches: 175, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
42 36 0.21
43 135 0.77
44 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
AAACGCCTCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
Found at i:38706683 original size:85 final size:85
Alignment explanation
Indices: 38706523--38706765 Score: 306
Period size: 85 Copynumber: 2.8 Consensus size: 85
38706513 GTTTATGTGA
* ** * * *
38706523 AAAAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCGACAAACGCCACTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCC-ACAAACGCCGCTAAAGAACATA
* *
38706588 ACCTTTAGCGGCGCTTTCCTC
65 ACCTTTAGCGGCACTTTCCCC
* * *
38706609 AAAAACACCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAGCATAA
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAACATAA
38706674 CCTTTAGCGGCACTTTCCCC
66 CCTTTAGCGGCACTTTCCCC
* * * * * * *
38706694 ACAAATGCTGCTAAAGAGCATGACCTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGAATATG
1 AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCACAAACGCCGCTAAAGAACATA
38706759 ACCTTTA
65 ACCTTTA
38706766 ATAAAAAATA
Statistics
Matches: 135, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
85 68 0.50
86 67 0.50
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCACAAACGCCGCTAAAGAACATAA
CCTTTAGCGGCACTTTCCCC
Found at i:38706753 original size:128 final size:128
Alignment explanation
Indices: 38706525--38706765 Score: 313
Period size: 128 Copynumber: 1.9 Consensus size: 128
38706515 TTATGTGAAA
* * ** * *
38706525 AAACGCCTCTAAAGAACATGACCTTTATTGGCGCTTTCCCGACAAACGCCACTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAACGCCACTAAAGAACATGAC
* *
38706590 CTTTAGCGGCGCTTTCCTCAAAAACACCGCTAAAGAACATGACTTTTAGCGGCACTTTCCCAC
66 CTTTAGCGGCACTTTCCTCAAAAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
* * ** *
38706653 AAACGCCGCTAAAGAGCATAACCTTTAGCGGCACTTTCCCCACAAATGCTGCTAAAGAGCATGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAACGCCACTAAAGAACATGAC
* * * *
38706718 CTTTAGCGGCACTTTTCC-CACAAACGCTGCTAAAGAATATGACCTTTA
66 CTTTAGCGGCAC-TTTCCTCAAAAACACCGCTAAAGAACATGACCTTTA
38706766 ATAAAAAATA
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 90 0.95
129 5 0.05
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (128 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCACAAACGCCACTAAAGAACATGAC
CTTTAGCGGCACTTTCCTCAAAAACACCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCAC
Found at i:38712189 original size:7 final size:7
Alignment explanation
Indices: 38712177--38712275 Score: 56
Period size: 7 Copynumber: 14.0 Consensus size: 7
38712167 AATGGTAACT
38712177 CTTAAAC
1 CTTAAAC
38712184 CTTAAAC
1 CTTAAAC
*
38712191 CCTAAAC
1 CTTAAAC
* *
38712198 CATATAC
1 CTTAAAC
* *
38712205 CATAATC
1 CTTAAAC
*
38712212 CCTAAAC
1 CTTAAAC
*
38712219 CTTAAAA
1 CTTAAAC
*
38712226 ATGT-AAC
1 CT-TAAAC
38712233 TCTTAAAC
1 -CTTAAAC
38712241 CTTAAAC
1 CTTAAAC
*
38712248 CCTAAAC
1 CTTAAAC
* *
38712255 CATATAC
1 CTTAAAC
*
38712262 CATAAAC
1 CTTAAAC
*
38712269 CCTAAAC
1 CTTAAAC
38712276 TATAATGATA
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
7 67 0.93
8 5 0.07
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.24
Consensus pattern (7 bp):
CTTAAAC
Found at i:38712243 original size:57 final size:58
Alignment explanation
Indices: 38712145--38712280 Score: 220
Period size: 57 Copynumber: 2.3 Consensus size: 58
38712135 AAAACATAAC
*
38712145 CCATAAACCCTAAATCCATAACAATGGTAACTCTTAAACCTTAAACCCTAAACCATATA
1 CCATAAACCCTAAA-CCATAAAAATGGTAACTCTTAAACCTTAAACCCTAAACCATATA
* *
38712204 CCATAATCCCTAAACCTTAAAAAT-GTAACTCTTAAACCTTAAACCCTAAACCATATA
1 CCATAAACCCTAAACCATAAAAATGGTAACTCTTAAACCTTAAACCCTAAACCATATA
*
38712261 CCATAAACCCTAAACTATAA
1 CCATAAACCCTAAACCATAA
38712281 TGATAATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
57 50 0.70
58 8 0.11
59 13 0.18
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (58 bp):
CCATAAACCCTAAACCATAAAAATGGTAACTCTTAAACCTTAAACCCTAAACCATATA
Found at i:38712629 original size:39 final size:40
Alignment explanation
Indices: 38712578--38712676 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 40
38712568 TTTTGCAGCG
* * *
38712578 TTTTTCAGAAAGCGCCGCTTATGGTCGACCTATAGCGGCA
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
* * * *
38712618 TTTTT-TAAAAGCGCTGCTAATGCTCGATCTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
38712657 TTTTTCAAAAAGCGCCGCTA
1 TTTTTCAAAAAGCGCCGCTA
38712677 GTGCCACTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (40 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCA
Found at i:38712777 original size:154 final size:155
Alignment explanation
Indices: 38712457--38712836 Score: 494
Period size: 154 Copynumber: 2.5 Consensus size: 155
38712447 ATTTTTTTTT
* ** * *
38712457 GCGGCGTTTTTGACAAAGCGCCACTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCT
1 GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
**** *
38712522 AATGCCACTAAAGCTCAACATAAAACGACGGTGTTGTGCTTAATTGTTTTGCAGCGTTTTTCAGA
66 AATGCCACTAAAGCTCAACATAAAACGACAACATTGAGCTTAATTGTTTTGCAGCGTTTTTCAGA
* * *
38712587 AAGCGCCGCTTATGGTCGACCTATA
131 AAGCGCCGCTAATAGTCAACCTATA
* *
38712612 GCGGCATTTTTTA-AAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
1 GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
* * * * *
38712676 AGTGCCACTAAAGTTCAACATAAAATGACAACATTGAGTTTAATTTTTTTTGCAGCGTTTTTCA-
66 AATGCCACTAAAGCTCAACATAAAACGACAACATTGAGCTTAA-TTGTTTTGCAGCGTTTTTCAG
38712740 AAAGGCGCCGCTAATAGTCAACCTATA
130 AAA-GCGCCGCTAATAGTCAACCTATA
* * * ** *
38712767 GCGGCGTTTTTCAGAAAGAGCTGCTAATGCTCGATCTATAGCGGTGTTTTTCAGGAAGCGCTGCT
1 GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
38712832 AATGC
66 AATGC
38712837 TTGATCTCTA
Statistics
Matches: 195, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
154 84 0.43
155 61 0.31
156 50 0.26
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (155 bp):
GCGGCGTTTTTCACAAAGCGCTGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCT
AATGCCACTAAAGCTCAACATAAAACGACAACATTGAGCTTAATTGTTTTGCAGCGTTTTTCAGA
AAGCGCCGCTAATAGTCAACCTATA
Found at i:38712793 original size:40 final size:40
Alignment explanation
Indices: 38712730--38712857 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
38712720 TTTTTTTGCA
*
38712730 GCGTTTTTCA-AAAGGCGCCGCTAATAG-TCAACCTATAGCG
1 GCGTTTTTCAGAAA-GCGCTGCTAAT-GCTCAACCTATAGCG
* * *
38712770 GCGTTTTTCAGAAAGAGCTGCTAATGCTCGATCTATAGCG
1 GCGTTTTTCAGAAAGCGCTGCTAATGCTCAACCTATAGCG
* * ** * *
38712810 GTGTTTTTCAGGAAGCGCTGCTAATGCTTGATCTCTAGCG
1 GCGTTTTTCAGAAAGCGCTGCTAATGCTCAACCTATAGCG
38712850 GCGTTTTT
1 GCGTTTTT
38712858 ATCCAAACGC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.95
41 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (40 bp):
GCGTTTTTCAGAAAGCGCTGCTAATGCTCAACCTATAGCG
Found at i:38712873 original size:40 final size:40
Alignment explanation
Indices: 38712745--38712873 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 40
38712735 TTTCAAAAGG
* * *
38712745 CGCCGCTAATAG-TCAACCTATAGCGGCGTTTTTCA-GAAA
1 CGCCGCTAAT-GCTCGATCTATAGCGGCGTTTTTCACCAAA
* * * ** *
38712784 GAGCTGCTAATGCTCGATCTATAGCGGTGTTTTTCAGGAAG
1 -CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCACCAAA
* * *
38712825 CGCTGCTAATGCTTGATCTCTAGCGGCGTTTTT-ATCCAAA
1 CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCA-CCAAA
38712865 CGCCGCTAA
1 CGCCGCTAA
38712874 AAACGCTGCT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.03
40 67 0.93
41 3 0.04
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (40 bp):
CGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCACCAAA
Found at i:38715464 original size:15 final size:15
Alignment explanation
Indices: 38715444--38715487 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38715434 TATGATATTG
38715444 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
*
38715459 TATCTTGGACTTCTC
1 TATCTTGGATTTCTC
* * *
38715474 AATCCTGGGTTTCT
1 TATCTTGGATTTCT
38715488 TGTTATCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:38718051 original size:18 final size:20
Alignment explanation
Indices: 38718015--38718061 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
38718005 AGTTGTAAGT
38718015 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
38718035 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
38718054 ATGATATA
1 AT-ATATA
38718062 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:38718584 original size:50 final size:51
Alignment explanation
Indices: 38718418--38718708 Score: 230
Period size: 50 Copynumber: 5.7 Consensus size: 51
38718408 TGAGAAGACA
* * *** * *
38718418 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-GTTAGGTCACG
* * * * * * *
38718470 TGTGTAGTACTAACTGTAGGCTACTATGCGTACCCGATAGTTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGGTT-AGGTCACG
* *
38718521 TTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGGTTAGGTCACG
* * * * *
38718571 TGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGAT-TGATAGGTCGCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGGTTAGGTCACG
* * ** * ** * *
38718621 TGTGTAGTACCAAGTGCAGGCTACTATGCATACCCA-TTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAGGTTAGGTCACG
* * *
38718672 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
38718709 GAGCTTTGGT
Statistics
Matches: 191, Mismatches: 43, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 82 0.43
51 75 0.39
52 33 0.17
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGGTTAGGTCACG
Found at i:38718929 original size:16 final size:16
Alignment explanation
Indices: 38718908--38718939 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38718898 AGAATGGAGT
38718908 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
38718924 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
38718940 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:38719602 original size:180 final size:180
Alignment explanation
Indices: 38719271--38719603 Score: 497
Period size: 180 Copynumber: 1.9 Consensus size: 180
38719261 GAGCTGTACA
*
38719271 ATGAGATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
1 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
* * * * *
38719336 AATGAATAAATTGTACTAATTTGCTAAACTAAAAATTCTTAAAGTTTTATGGTAAGAATATATGT
66 AATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAGTTTTATGGTAAGAAGATATAT
* * *
38719401 GACTCTAGTTTCTCTTAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
131 GACTCCAGTTTCACATAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
* * * *
38719451 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGACAGTGAAATAGGGGA-ATCTT
1 ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACA-GAGATATATT
*
38719515 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAGTTTTATGGTGAGAAGATATA
65 TAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAGTTTTATGGTAAGAAGATATA
* * *
38719580 TGAGTCCATTTTCAGATAAAATTA
130 TGACTCCAGTTTCACATAAAATTA
38719604 ACTGATCTTA
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
180 132 0.98
181 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (180 bp):
ATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTGTCAGACAGTGAAACAGAGATATATTT
AATGAATAAACTGTACTAATTGGCTAAACTAAAAATTCTGAAAGTTTTATGGTAAGAAGATATAT
GACTCCAGTTTCACATAAAATTAGTGGTTCTCAATTTGGAGTCCCATAAC
Found at i:38724193 original size:25 final size:25
Alignment explanation
Indices: 38724159--38724206 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
38724149 CGGGCTAAAC
38724159 AGGAAACTCATAAGAG-TTTTTAATT
1 AGGAAACTCAT-AGAGCTTTTTAATT
*
38724184 AGGAAGCTCATAGAGCTTTTTAA
1 AGGAAACTCATAGAGCTTTTTAA
38724207 CAGATAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (25 bp):
AGGAAACTCATAGAGCTTTTTAATT
Found at i:38728105 original size:96 final size:95
Alignment explanation
Indices: 38727913--38728232 Score: 378
Period size: 96 Copynumber: 3.3 Consensus size: 95
38727903 GTGAATTACG
* * * * * *
38727913 GATGCCATGTTCCAAACATCGTCTTACACTGGCTCACATG-TAGAGGCCGAT-CCATGTCCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTGGCCGATGCCATGTCAC-AA
* * *
38727976 CATGGTCTTACACTAGCTCTCATC-TCATTGCC
64 CATGGTCTTACACTAGCGCACA-CATCAATGCC
*
38728008 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGATGTGGCCGATGCCATGTCACAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCACA-AC
*
38728073 ATGGTCTTACACTAGCGCACACATCAACGCC
65 ATGGTCTTACACTAGCGCACACATCAATGCC
* **
38728104 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGATGTGGATGATGCCATGTTCTA-AA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATG-TC-ACAA
* * *
38728168 CATGGTCTTATAGTAGCGCACATATCAATGCC
64 CATGGTCTTACACTAGCGCACACATCAATGCC
* * *
38728200 GATGCCATGTTCCAGACATGTTCTTTCACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
38728233 ACACATATCA
Statistics
Matches: 196, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
95 45 0.23
96 147 0.75
97 3 0.02
98 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCCATGTCACAACA
TGGTCTTACACTAGCGCACACATCAATGCC
Found at i:38728239 original size:48 final size:48
Alignment explanation
Indices: 38727913--38728242 Score: 269
Period size: 48 Copynumber: 6.9 Consensus size: 48
38727903 GTGAATTACG
* * * * *
38727913 GATGCCATGTTCCAAACATCGTCTTACACTGGCTCACATGT-AGAGGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCA-ATGCC
* * * * *
38727961 GAT-CCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTCATTGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCC
* * *
38728008 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGAT--GTGGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACAT-ATCAAT-GCC
* * *
38728056 GATGCCATG-TCACAGACATGGTCTTACACTAGCGCACACATCAACGCC
1 GATGCCATGTTC-CAGACATGGTCTTACACTAGCTCACATATCAATGCC
* * * * * **
38728104 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGAT--GTGGAT
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACAT-ATCAAT-GCC
* * * * *
38728152 GATGCCATGTTCTAAACATGGTCTTATAGTAGCGCACATATCAATGCC
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCC
* * * *
38728200 GATGCCATGTTCCAGACATGTTCTTTCACTGGCACACATATCA
1 GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCA
38728243 CCCAAATGTC
Statistics
Matches: 225, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
47 44 0.20
48 176 0.78
49 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCC
Found at i:38735761 original size:48 final size:47
Alignment explanation
Indices: 38735662--38735894 Score: 213
Period size: 48 Copynumber: 4.9 Consensus size: 47
38735652 GTGAATTGTC
** * * * *
38735662 GATGCCATGTTACAGA-ATGGTCTTACACTGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGTCACATATCAATGCT
* *
38735708 GATGCCATGTCCCAGATATGGTCTTACACTGGTGCACATATCAACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGT-CACATATCAATGCT
* * *
38735756 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGAT--ATGGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGG-TCACAT-ATCAATGCT
* * * * *
38735803 CGATGCCATGTTCCAAACATGGTCTTACACTAG-CACATATATCAATACC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGTCAC--ATATCAATGCT
* *
38735852 GATGCCATGTCCCAGACATGTTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGG-TCACATATCA
38735895 CCCAAATGTC
Statistics
Matches: 155, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
46 16 0.10
47 20 0.13
48 111 0.72
49 5 0.03
50 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGTCACATATCAATGCT
Found at i:38735825 original size:96 final size:96
Alignment explanation
Indices: 38735708--38735884 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
38735698 TGTCGAGGCT
* * * ** * *
38735708 GATGCCATGTCCCAGATATGGTCTTACACTGGTGCACATATCAACGCTGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAAC
38735773 ATGGTCTTACACTGGCTCTCATGATATGGTC
66 ATGGTCTTACACTGGCTCTCATGATATGGTC
* * * *
38735804 GATGCCATGTTCCAAACATGGTCTTACACTAGCACATATATCAATACCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAAC
*
38735869 ATGTTCTTACACTGGC
66 ATGGTCTTACACTGGC
38735885 ACACATATCA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATGATATGGTC
Found at i:38744310 original size:56 final size:56
Alignment explanation
Indices: 38744249--38744385 Score: 229
Period size: 56 Copynumber: 2.4 Consensus size: 56
38744239 TCCTAGACTG
* * *
38744249 GGTCTTACTCACACACATATATCGGAGTCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
*
38744305 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
*
38744361 GGTCTTACTCGTACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
38744386 TGCCACGGTC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGACGCCAACGTATTAAACGT
Found at i:38747312 original size:17 final size:19
Alignment explanation
Indices: 38747270--38747313 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38747260 ATGAAATTTT
*
38747270 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38747289 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38747307 AA-TATTA
1 AATTATTA
38747314 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38754318 original size:18 final size:18
Alignment explanation
Indices: 38754300--38754334 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38754290 TTAGATATAT
38754300 TTATAA-AATTATTATTA
1 TTATAATAATTATTATTA
38754317 TTATAATAATTATTATTA
1 TTATAATAATTATTATTA
38754335 GATAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAATAATTATTATTA
Found at i:38756359 original size:37 final size:37
Alignment explanation
Indices: 38756252--38756366 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
38756242 AGACGAAATC
* * * *
38756252 TCCACACGAAGTTATCGGGTCTTACCCGGACA-AAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGA-ATATATT
*
38756289 TCCACACGTAGTCATCGGGTCTTACCCGAAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
38756326 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
1 TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
38756363 TCCA
1 TCCA
38756367 AGTTTCATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
36 1 0.01
37 70 0.99
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGAATATATT
Found at i:38756554 original size:48 final size:48
Alignment explanation
Indices: 38756496--38757029 Score: 879
Period size: 48 Copynumber: 11.0 Consensus size: 48
38756486 ATATACACAC
* * * * *
38756496 ATCTCCTACATATTTCACACTAACCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38756544 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38756592 ATCTCATATATATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38756642 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756690 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756740 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATCTACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756788 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756836 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756884 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
38756932 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACTTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
38756980 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
38757028 AT
1 AT
38757030 ATTTATCTTG
Statistics
Matches: 466, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
48 375 0.80
50 91 0.20
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:38763347 original size:34 final size:34
Alignment explanation
Indices: 38763309--38763381 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
38763299 AGTGACAGTC
* *
38763309 CAGTATCAGT-TAGGGCCATAGCCCTTTACAGTAT
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAA
*
38763343 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
38763377 CAGTA
1 CAGTA
38763382 AAAGAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
Found at i:38768968 original size:17 final size:17
Alignment explanation
Indices: 38768946--38768983 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
38768936 CTAGCCCCAT
38768946 TTTTAATGTTCTTTGTA
1 TTTTAATGTTCTTTGTA
38768963 TTTTAATGTTCTTTGTA
1 TTTTAATGTTCTTTGTA
38768980 TTTT
1 TTTT
38768984 TGAAGTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (17 bp):
TTTTAATGTTCTTTGTA
Found at i:38771718 original size:16 final size:16
Alignment explanation
Indices: 38771699--38771732 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
38771689 TAACTATATA
38771699 TACATATATAAGCAGC
1 TACATATATAAGCAGC
38771715 TACATATATAAGCAGC
1 TACATATATAAGCAGC
38771731 TA
1 TA
38771733 TAAAAAGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (16 bp):
TACATATATAAGCAGC
Found at i:38788946 original size:19 final size:20
Alignment explanation
Indices: 38788919--38788958 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
38788909 CGAGATTTTC
*
38788919 AAAATTTTTGAGAATTTGGT
1 AAAATTTTTGAAAATTTGGT
38788939 AAAATTTTT-AAAATTTGGT
1 AAAATTTTTGAAAATTTGGT
38788958 A
1 A
38788959 TTTGGTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
AAAATTTTTGAAAATTTGGT
Found at i:38796976 original size:29 final size:29
Alignment explanation
Indices: 38796909--38797004 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
38796899 AAGTCTACAT
* *
38796909 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38796937 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
38796966 ACATTTGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38796995 ACATTCATAT
1 ACATTCATAT
38797005 ACATGCTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 21 0.36
29 38 0.64
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38797084 original size:17 final size:18
Alignment explanation
Indices: 38797062--38797096 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38797052 TGCCTATTAT
38797062 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
38797079 GGGCCCACTTAGCCCATC
1 GGGCCCACATAGCCCATC
38797097 CTGGCCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:38801438 original size:29 final size:29
Alignment explanation
Indices: 38801371--38801495 Score: 207
Period size: 29 Copynumber: 4.3 Consensus size: 29
38801361 AAGTCTACAT
* *
38801371 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38801399 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38801428 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38801457 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38801486 ACATTCATAT
1 ACATTCATAT
38801496 ACATGCTTTC
Statistics
Matches: 90, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 21 0.23
29 69 0.77
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38801576 original size:17 final size:18
Alignment explanation
Indices: 38801554--38801587 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38801544 ACCTATTATA
38801554 GGCCCA-GTAGCCCATCG
1 GGCCCACGTAGCCCATCG
*
38801571 GGCCCACTTAGCCCATC
1 GGCCCACGTAGCCCATC
38801588 CTGACCCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.44, G:0.24, T:0.15
Consensus pattern (18 bp):
GGCCCACGTAGCCCATCG
Found at i:38808596 original size:13 final size:13
Alignment explanation
Indices: 38808574--38808606 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38808564 TTGCTTTAGT
38808574 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
38808586 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
38808599 TTAGTTTA
1 TTAGTTTA
38808607 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:38814055 original size:6 final size:6
Alignment explanation
Indices: 38814044--38814082 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
38814034 TCCTTCGATC
*
38814044 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
38814083 GAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:38814088 original size:18 final size:18
Alignment explanation
Indices: 38814049--38814105 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
38814039 CGATCTTTTT
* **
38814049 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTCATTTGA
38814067 ATTTTTATTTTCATTTGA
1 ATTTTTATTTTCATTTGA
*
38814085 ATTTTATTATTTTCTTTTGA
1 A-TTT-TTATTTTCATTTGA
38814105 A
1 A
38814106 AGACAGATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 16 0.48
19 3 0.09
20 14 0.42
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTCATTTGA
Found at i:38817006 original size:13 final size:13
Alignment explanation
Indices: 38816988--38817014 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38816978 TAGTTTAGTC
38816988 AGTTAATTAGTTT
1 AGTTAATTAGTTT
38817001 AGTTAATTAGTTT
1 AGTTAATTAGTTT
38817014 A
1 A
38817015 ATAAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:38818789 original size:47 final size:48
Alignment explanation
Indices: 38818720--38818943 Score: 216
Period size: 47 Copynumber: 4.7 Consensus size: 48
38818710 GGGTATAATA
38818720 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATCAA-G
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATCAATG
* * * *
38818767 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAATATCGA-G
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACATCAATG
* * * * * *
38818815 GCTGACGCCATGTCCCAGATAT-GTCTTACACTAGATCTCGTC-TCAATG
1 TC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACATCAATG
38818863 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CAT-AATG
1 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAATG
*
38818908 TGGCTGATG-CATGTCTCAGACAT-GTCTTACACTGGC
1 T--C-GATGCCATGTCCCAGACATGGTCTTACACTGGC
38818944 ACACAAATAA
Statistics
Matches: 147, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
45 6 0.04
46 16 0.11
47 69 0.47
48 39 0.27
49 17 0.12
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATCAATG
Found at i:38818889 original size:96 final size:94
Alignment explanation
Indices: 38818725--38818943 Score: 284
Period size: 96 Copynumber: 2.3 Consensus size: 94
38818715 TAATATCGAT
38818725 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
1 GCCATGTCCCAGACAT-GTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
38818790 TCTTACACTGACTATCA-ATATCGAGGCTGAC
65 TCTTACACTGACTATCATA-AT-GAGGCTGAC
* * *
38818821 GCCATGTCCCAGATATGTCTTACACTAGATC-TCGTC-TCAATGTCGATGCCATGTCCCAGACAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCATC--CATCAA-GTCGATGCCATGTCCCAGACAT
* * * *
38818884 GGTCTTACACTGGCTCTCATAATGTGGCTGAT
63 GGTCTTACACTGACTATCATAATGAGGCTGAC
*
38818916 G-CATGTCTCAGACATGTCTTACACTGGC
1 GCCATGTCCCAGACATGTCTTACACTGGC
38818944 ACACAAATAA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
94 25 0.23
95 25 0.23
96 57 0.53
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GCCATGTCCCAGACATGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGGT
CTTACACTGACTATCATAATGAGGCTGAC
Found at i:38821131 original size:20 final size:20
Alignment explanation
Indices: 38821106--38821157 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
38821096 AAATAATTCA
38821106 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
38821126 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
*
38821146 ACACGGGTGTGT
1 ACACGGGCGTGT
38821158 GCTTTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:38827856 original size:220 final size:220
Alignment explanation
Indices: 38827474--38827917 Score: 879
Period size: 220 Copynumber: 2.0 Consensus size: 220
38827464 CAAAAGATTA
*
38827474 TTGGGTATAGTGAAATTGTTATTTTGAGTATGGCATGTATAGGGAACATGGTTATTTTGTGATAT
1 TTGGGTATAGTGAAATTATTATTTTGAGTATGGCATGTATAGGGAACATGGTTATTTTGTGATAT
38827539 GTTTCATGCTATTTGACCAAATTGTGAAGGCCTATGATATTGATGATTCATTTTGTAATGGCCAT
66 GTTTCATGCTATTTGACCAAATTGTGAAGGCCTATGATATTGATGATTCATTTTGTAATGGCCAT
38827604 GTGATATGGCTTATATTTGATCATTGGGTTGTAATTTTAATTACCCAAGCATGCATGTGTTAGTG
131 GTGATATGGCTTATATTTGATCATTGGGTTGTAATTTTAATTACCCAAGCATGCATGTGTTAGTG
38827669 CCTTGATGATGTGATATGTTATTGC
196 CCTTGATGATGTGATATGTTATTGC
38827694 TTGGGTATAGTGAAATTATTATTTTGAGTATGGCATGTATAGGGAACATGGTTATTTTGTGATAT
1 TTGGGTATAGTGAAATTATTATTTTGAGTATGGCATGTATAGGGAACATGGTTATTTTGTGATAT
38827759 GTTTCATGCTATTTGACCAAATTGTGAAGGCCTATGATATTGATGATTCATTTTGTAATGGCCAT
66 GTTTCATGCTATTTGACCAAATTGTGAAGGCCTATGATATTGATGATTCATTTTGTAATGGCCAT
38827824 GTGATATGGCTTATATTTGATCATTGGGTTGTAATTTTAATTACCCAAGCATGCATGTGTTAGTG
131 GTGATATGGCTTATATTTGATCATTGGGTTGTAATTTTAATTACCCAAGCATGCATGTGTTAGTG
38827889 CCTTGATGATGTGATATGTTATTGC
196 CCTTGATGATGTGATATGTTATTGC
38827914 TTGG
1 TTGG
38827918 TGACTGTATG
Statistics
Matches: 223, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 223 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (220 bp):
TTGGGTATAGTGAAATTATTATTTTGAGTATGGCATGTATAGGGAACATGGTTATTTTGTGATAT
GTTTCATGCTATTTGACCAAATTGTGAAGGCCTATGATATTGATGATTCATTTTGTAATGGCCAT
GTGATATGGCTTATATTTGATCATTGGGTTGTAATTTTAATTACCCAAGCATGCATGTGTTAGTG
CCTTGATGATGTGATATGTTATTGC
Found at i:38829557 original size:14 final size:13
Alignment explanation
Indices: 38829531--38829567 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
38829521 ATCCTGTAAT
38829531 ATTAA-AACAATA
1 ATTAAGAACAATA
38829543 ATTAAGAACATATA
1 ATTAAGAACA-ATA
38829557 ATTAAGAACAA
1 ATTAAGAACAA
38829568 GACAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:38829944 original size:13 final size:13
Alignment explanation
Indices: 38829926--38829978 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
38829916 GCTCGACAGG
38829926 GACACGCCCGTGT
1 GACACGCCCGTGT
*
38829939 GACACGCCCATGT
1 GACACGCCCGTGT
38829952 GACACGCCCGTGT
1 GACACGCCCGTGT
* *
38829965 GACAAGCCCTTGT
1 GACACGCCCGTGT
38829978 G
1 G
38829979 CAATTGCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:38829962 original size:26 final size:26
Alignment explanation
Indices: 38829926--38829978 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
38829916 GCTCGACAGG
*
38829926 GACACGCCCGTGTGACACGCCCATGT
1 GACACGCCCGTGTGACAAGCCCATGT
*
38829952 GACACGCCCGTGTGACAAGCCCTTGT
1 GACACGCCCGTGTGACAAGCCCATGT
38829978 G
1 G
38829979 CAATTGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.28, T:0.17
Consensus pattern (26 bp):
GACACGCCCGTGTGACAAGCCCATGT
Found at i:38831069 original size:24 final size:24
Alignment explanation
Indices: 38831032--38831099 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
38831022 CTAAGCTGAT
* *
38831032 AAACAGTAAGCTCTATTGAGTTAA
1 AAACGGTAAGCTCTATTGAGATAA
* *
38831056 AAATGGTAAGCTCTAGTGAGATAA
1 AAACGGTAAGCTCTATTGAGATAA
38831080 AAACGGTAAGCTCTATTGAG
1 AAACGGTAAGCTCTATTGAG
38831100 CTGAATAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (24 bp):
AAACGGTAAGCTCTATTGAGATAA
Found at i:38831113 original size:22 final size:22
Alignment explanation
Indices: 38831085--38831161 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
38831075 GATAAAAACG
38831085 GTAAGCTCTATTGAGCTGAATA
1 GTAAGCTCTATTGAGCTGAATA
*
38831107 GTAAGCTCT-TTCGAGCTGAATCG
1 GTAAGCTCTATT-GAGCTGAAT-A
* *
38831130 GTAAGCTAC-AATGAGCTGAAACA
1 GTAAGCT-CTATTGAGCTG-AATA
38831153 GTAAGCTCT
1 GTAAGCTCT
38831162 TACGAGCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.04
22 19 0.42
23 20 0.44
24 4 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAATA
Found at i:38831146 original size:45 final size:46
Alignment explanation
Indices: 38831083--38831169 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
38831073 GAGATAAAAA
* * *
38831083 CGGTAAGCTCTATTGAGCTG-AATAGTAAGCTCTTTCGAGCTGAAT
1 CGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCTGAAT
38831128 CGGTAAGCTAC-AATGAGCTGAAACAGTAAGCTCTTACGAGCT
1 CGGTAAGCT-CTAATGAGCTGAAACAGTAAGCTCTTACGAGCT
38831170 ATGGTGAGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 17 0.46
46 20 0.54
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (46 bp):
CGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCTGAAT
Found at i:38831168 original size:23 final size:22
Alignment explanation
Indices: 38831080--38831169 Score: 65
Period size: 23 Copynumber: 4.0 Consensus size: 22
38831070 AGTGAGATAA
* *
38831080 AAACGGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCTA-CGAGCTG
* *
38831103 -AATAGTAAGCTCTTTCGAGCTG
1 AAACAGTAAGCTC-TACGAGCTG
* * * *
38831125 AATCGGTAAGCTACAATGAGCTG
1 AAACAGTAAGCT-CTACGAGCTG
38831148 AAACAGTAAGCTCTTACGAGCT
1 AAACAGTAAGCTC-TACGAGCT
38831170 ATGGTGAGTC
Statistics
Matches: 49, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
22 17 0.35
23 31 0.63
24 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
AAACAGTAAGCTCTACGAGCTG
Found at i:38832612 original size:2 final size:2
Alignment explanation
Indices: 38832605--38832656 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
38832595 TCAAATACCT
* * * *
38832605 CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CG CG CG CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
38832647 CA CA CA CA CA
1 CA CA CA CA CA
38832657 TATATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.44, C:0.48, G:0.06, T:0.02
Consensus pattern (2 bp):
CA
Found at i:38833832 original size:31 final size:30
Alignment explanation
Indices: 38833796--38833867 Score: 126
Period size: 31 Copynumber: 2.4 Consensus size: 30
38833786 AAATCAATGA
38833796 ATTCCAAATTAGCATATTAAATAAAGTTAC
1 ATTCCAAATTAGCATATTAAATAAAGTTAC
38833826 ATTTCCAAATTAGCATATTAAATAAAGTTAC
1 A-TTCCAAATTAGCATATTAAATAAAGTTAC
*
38833857 ATTCAAAATTA
1 ATTCCAAATTA
38833868 ATGATGTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 10 0.25
31 30 0.75
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (30 bp):
ATTCCAAATTAGCATATTAAATAAAGTTAC
Found at i:38851018 original size:17 final size:17
Alignment explanation
Indices: 38850959--38851018 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
38850949 GAGACAACCA
* * *
38850959 CCATACATGCACTTAAG
1 CCATTCATGCATTTAAT
38850976 CCATTCATGCATTCT-AT
1 CCATTCATGCATT-TAAT
*
38850993 -CATCCCATGCATTTAAT
1 CCAT-TCATGCATTTAAT
38851010 CCATTCATG
1 CCATTCATG
38851019 GACTAGCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 26 0.76
18 4 0.12
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (17 bp):
CCATTCATGCATTTAAT
Found at i:38851500 original size:30 final size:30
Alignment explanation
Indices: 38851415--38851511 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38851405 TAAACTAAAA
* *
38851415 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
38851445 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
38851475 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
38851504 ATGAGCTA
1 -TGAGCTA
38851512 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:38856890 original size:20 final size:20
Alignment explanation
Indices: 38856865--38856916 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
38856855 CGGGTAAGGG
38856865 ACACGGGCATGTTCCCAAGC
1 ACACGGGCATGTTCCCAAGC
*
38856885 ACACGGGCGTGTTCCCAAGC
1 ACACGGGCATGTTCCCAAGC
38856905 ACACGGGCATGT
1 ACACGGGCATGT
38856917 GCATTGCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (20 bp):
ACACGGGCATGTTCCCAAGC
Found at i:38864217 original size:23 final size:22
Alignment explanation
Indices: 38864184--38864233 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
38864174 ATCTAAATTT
38864184 TAAAATTTTAAAAATAAATAA-A
1 TAAAATTTTAAAAATAAA-AATA
38864206 TAAAATTCTTAAAAATAAAAATA
1 TAAAATT-TTAAAAATAAAAATA
38864229 TAAAA
1 TAAAA
38864234 ACTAAATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATTTTAAAAATAAAAATA
Found at i:38864558 original size:17 final size:17
Alignment explanation
Indices: 38864536--38864587 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
38864526 TTTATTTAAG
38864536 TTTTGATATATTAATAA
1 TTTTGATATATTAATAA
*
38864553 TTTTG--A-GTTAAT-A
1 TTTTGATATATTAATAA
*
38864566 -TTTGATATAGTAATAA
1 TTTTGATATATTAATAA
38864582 TTTTGA
1 TTTTGA
38864588 ATTAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 10
0.68 0.08 0.25
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 6 0.22
15 5 0.19
16 1 0.04
17 10 0.37
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTTGATATATTAATAA
Found at i:38864569 original size:29 final size:29
Alignment explanation
Indices: 38864537--38864607 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
38864527 TTATTTAAGT
*
38864537 TTTGATATATTAATAATTTTGAGTTAATA
1 TTTGATATATTAATAATTTTGAATTAATA
*
38864566 TTTGATATAGTAATAATTTTGAATTAATA
1 TTTGATATATTAATAATTTTGAATTAATA
*
38864595 TTTAATATATTAA
1 TTTGATATATTAA
38864608 CAATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (29 bp):
TTTGATATATTAATAATTTTGAATTAATA
Found at i:38873693 original size:22 final size:22
Alignment explanation
Indices: 38873665--38873718 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
38873655 TTCCAAGTGG
38873665 TATCGATACCACTCGAGGGAAA
1 TATCGATACCACTCGAGGGAAA
38873687 TATCGATACCACTCGAGGGAAA
1 TATCGATACCACTCGAGGGAAA
38873709 TATCGATACC
1 TATCGATACC
38873719 TAGTTATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (22 bp):
TATCGATACCACTCGAGGGAAA
Found at i:38886864 original size:47 final size:47
Alignment explanation
Indices: 38886783--38887033 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
38886773 TAATTGAATA
* * *
38886783 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
38886831 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
38886878 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
38886925 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
38886972 AATGTGAGCATGTGTATGTGAGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
38887019 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
38887034 AAATGTGATA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:38887220 original size:37 final size:37
Alignment explanation
Indices: 38887164--38887243 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
38887154 CCGGACTCTA
* * *
38887164 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
38887201 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
38887238 AAGACT
1 AAGACT
38887244 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:38889097 original size:40 final size:40
Alignment explanation
Indices: 38889040--38889382 Score: 523
Period size: 40 Copynumber: 8.6 Consensus size: 40
38889030 TCGAATGATG
* *
38889040 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * *
38889080 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCAAGTTGATATA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAG-TGATATA
*
38889120 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
38889160 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
38889200 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
38889240 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
38889280 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
38889320 TCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
38889360 TCCGTGCTAAATCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
38889383 ATCATGCTGG
Statistics
Matches: 282, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 259 0.92
41 22 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:38893753 original size:47 final size:47
Alignment explanation
Indices: 38893672--38893922 Score: 328
Period size: 47 Copynumber: 5.4 Consensus size: 47
38893662 TAATTGAATA
* * *
38893672 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
38893720 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
38893767 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
38893814 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
38893861 AATGTGAGCATGTGTATGTGAGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
38893908 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
38893923 AAATGTGATA
Statistics
Matches: 182, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:38894109 original size:37 final size:37
Alignment explanation
Indices: 38894053--38894132 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
38894043 CCGGACTCTA
* * *
38894053 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
38894090 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
38894127 AAGACT
1 AAGACT
38894133 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:38896825 original size:44 final size:43
Alignment explanation
Indices: 38896769--38896884 Score: 171
Period size: 44 Copynumber: 2.6 Consensus size: 43
38896759 TCGGGCCTTT
*
38896769 GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGG-CC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGACC
*
38896811 GAAGGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGAATTC
1 G-A-GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-A-CC
38896858 GAGCCTAGCAGGCTATAATGCCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
38896885 ATGAATTCGG
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 37 0.55
45 25 0.37
46 1 0.01
47 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGACC
Found at i:38897443 original size:16 final size:18
Alignment explanation
Indices: 38897412--38897444 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
38897402 AACTCGTCAC
38897412 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
38897430 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
38897445 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:38898205 original size:17 final size:17
Alignment explanation
Indices: 38898160--38898236 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
38898150 AAGGAAAAGG
38898160 AAAGAAA-AAAGGAAGA
1 AAAGAAAGAAAGGAAGA
* *
38898176 AAATAAATG-AAGGGAGA
1 AAAGAAA-GAAAGGAAGA
38898193 AAAGAAAGAAAGGAA-A
1 AAAGAAAGAAAGGAAGA
* *
38898209 AACGAGAA-AATGGAAAGA
1 AAAGA-AAGAAAGG-AAGA
38898227 AAAGAAAGAA
1 AAAGAAAGAA
38898237 GAAAAAAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 16 0.34
17 24 0.51
18 7 0.15
ACGTcount: A:0.69, C:0.01, G:0.26, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAAAGGAAGA
Found at i:38898227 original size:25 final size:23
Alignment explanation
Indices: 38898189--38898261 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
38898179 TAAATGAAGG
38898189 GAGAAAA-GAAAGAAAGGAAAAA
1 GAGAAAAGGAAAGAAAGGAAAAA
*
38898211 CGAGAAAATGGAAAGAAAAGAAAGAA
1 -GAGAAAA-GGAAAGAAAGGAAA-AA
* *
38898237 GAAAAAAGGGAAAGATAGTGAAAAA
1 GAGAAAA-GGAAAGAAAG-GAAAAA
38898262 AAAGGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 7 0.17
25 28 0.68
26 6 0.15
ACGTcount: A:0.67, C:0.01, G:0.27, T:0.04
Consensus pattern (23 bp):
GAGAAAAGGAAAGAAAGGAAAAA
Found at i:38898385 original size:21 final size:21
Alignment explanation
Indices: 38898355--38898419 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
38898345 ACATTTTATA
*
38898355 ATTTTAAAATTATATATTTTT
1 ATTTTTAAATTATATATTTTT
* *
38898376 ATTTTTAAATGAT-TTTTTATT
1 ATTTTTAAATTATATATTT-TT
*
38898397 ATTTTTAATATTTTAATATTTTT
1 ATTTTTAA-ATTAT-ATATTTTT
38898420 CAGTTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.12
21 21 0.62
22 3 0.09
23 2 0.06
24 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTTAAATTATATATTTTT
Found at i:38898452 original size:33 final size:33
Alignment explanation
Indices: 38898390--38898476 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
38898380 TTAAATGATT
* *
38898390 TTTTATTATTTTTAATATTTTAATATTTTTCAG
1 TTTTATAATTTTTAAAATTTTAATATTTTTCAG
* *
38898423 TTTTATAATTTTTAACAATTCTT-AT-TTTTTAAAA
1 TTTTATAATTTTTAA-AATT-TTAATATTTTT-CAG
*
38898457 CTTTA-AATTTTTAAAATTTT
1 TTTTATAATTTTTAAAATTTT
38898477 TGAGATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.04
32 4 0.09
33 28 0.61
34 10 0.22
35 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTTATAATTTTTAAAATTTTAATATTTTTCAG
Found at i:38921067 original size:29 final size:28
Alignment explanation
Indices: 38921024--38921104 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 28
38921014 CATATTTATG
* *
38921024 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
* *
38921052 AATGTGATTTGGGCCTAATGGCCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
38921081 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
38921105 GATATAGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:38924745 original size:40 final size:40
Alignment explanation
Indices: 38924648--38924872 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
38924638 TTGAATGCTG
* * * *
38924648 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
38924688 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
38924727 TGCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 T-CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38924768 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38924808 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38924847 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
38924873 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.23
40 107 0.67
41 14 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38924785 original size:80 final size:79
Alignment explanation
Indices: 38924701--38924872 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
38924691 GGACTAAGAT
*
38924701 CCGAAGGCATTTGTGCGAGATA-CAAATGCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAAT-CCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38924765 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
38924781 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38924846 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38924860 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38924873 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 37 0.47
81 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38924890 original size:79 final size:80
Alignment explanation
Indices: 38924724--38924905 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
38924714 TGCGAGATAC
* * * *
38924724 AAATGCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGC
1 AAAT-CCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
** * *
38924789 ATTCGTGCGAGTTATT
65 ATTCGAACGAGTGACT
* * * *
38924805 AAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCA
*
38924869 TTTGAACGAG-GAGCT
66 TTCGAACGAGTGA-CT
* *
38924884 ATATCC-GGTTAAATCCCGAAGG
1 AAATCCGGGTTAAGTCCCGAAGG
38924906 TACGTGATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
78 15 0.18
79 48 0.57
80 17 0.20
81 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
AAATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCA
TTCGAACGAGTGACT
Found at i:38932591 original size:40 final size:40
Alignment explanation
Indices: 38932507--38932731 Score: 134
Period size: 40 Copynumber: 5.7 Consensus size: 40
38932497 TTGAATGCTG
* * * * *
38932507 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAA
** *
38932547 TCCGGACTAAGATTCGAAGGCATTTGTGTGAGATAC-AAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
** * *
38932586 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
** * * * * *
38932627 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
** * * * *
38932667 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
38932706 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGACCCGAAGGCATTTG
38932732 AAGGAGGAGC
Statistics
Matches: 152, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
39 36 0.24
40 104 0.68
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38932647 original size:80 final size:79
Alignment explanation
Indices: 38932563--38932731 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
38932553 CTAAGATTCG
* *
38932563 AAGGCATTTGTGTGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 AAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* *
38932627 TCCGGGTTAAGTCCCA
64 ACCGGGCTAAGTCCCA
* * * * * * *
38932643 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAAC
1 AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
* *
38932708 CGGGCTATGTCCCG
66 CGGGCTAAGTCCCA
38932722 AAGGCATTTG
1 AAGGCATTTG
38932732 AAGGAGGAGC
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
79 37 0.50
80 34 0.46
81 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAAAC
CGGGCTAAGTCCCA
Found at i:38932711 original size:39 final size:39
Alignment explanation
Indices: 38932561--38932729 Score: 187
Period size: 40 Copynumber: 4.3 Consensus size: 39
38932551 GACTAAGATT
* *
38932561 CGAAGGCATTTGTGTGAGATAC-AAATTCCGGGTTAAGCCC
1 CGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTAAGTCC
*
38932601 CGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCC
1 CGAAGG-CATTGTGCGAGATACTAAATCCGGGTTAAGTCC
* * * *
38932641 CAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCC
1 CGAAGGCATT-GTGCGAGATACTAAATCCGGGTTAAGTCC
* * * * *
38932681 CGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCC
1 CGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTCC
38932720 CGAAGGCATT
1 CGAAGGCATT
38932730 TGAAGGAGGA
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 38 0.34
40 71 0.63
41 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTGTGCGAGATACTAAATCCGGGTTAAGTCC
Found at i:38936379 original size:29 final size:29
Alignment explanation
Indices: 38936313--38936414 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
38936303 TGAATGTGAA
* *
38936313 TGGGCCTAACGGGCTATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* *
38936342 TGGACCTAATGGGCCATTTACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* * **
38936371 TGGGTCTAATGAGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACAGGTGATT
*
38936399 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
38936415 GATATAGATA
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 14 0.24
29 44 0.75
30 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:38938137 original size:68 final size:66
Alignment explanation
Indices: 38938065--38938214 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
38938055 CATCATGTGT
* * * *
38938065 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
38938128 TGTAG
62 TGTAG
** * *
38938133 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
38938198 AG
65 AG
38938200 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
38938215 GATAAATTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:38938170 original size:64 final size:64
Alignment explanation
Indices: 38938089--38938272 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
38938079 AGACATTATG
* * *
38938089 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
38938153 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38938218 AA
63 AA
* * * *
38938220 AT-TGGCTAAGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38938273 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38942854 original size:6 final size:6
Alignment explanation
Indices: 38942845--38942923 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
38942835 TATTAGAACT
* * *
38942845 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AAAATC AGATTC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
38942894 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
38942924 GTGAAAGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:38942901 original size:37 final size:37
Alignment explanation
Indices: 38942847--38942919 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
38942837 TTAGAACTAG
* *
38942847 AATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
* *
38942884 AATCAGATTCAGTATCAGGTAACAGAATCAAAATCA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCA
38942920 GAATGTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
Found at i:38943090 original size:27 final size:26
Alignment explanation
Indices: 38943042--38943101 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38943032 GCGAGGCTGC
*
38943042 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
38943069 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
38943095 CAGATAT
1 CAGATAT
38943102 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:38943146 original size:71 final size:67
Alignment explanation
Indices: 38943069--38943210 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
38943059 TCACCAGATA
* * * *
38943069 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
38943134 GGCTGC
62 GGCTGC
* * *
38943140 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
38943205 GC
66 GC
38943207 CAGA
1 CAGA
38943211 ACGCTTCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:38943188 original size:27 final size:26
Alignment explanation
Indices: 38943140--38943191 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38943130 GCGAGGCTGC
*
38943140 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38943166 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38943192 TTGTAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38943467 original size:27 final size:27
Alignment explanation
Indices: 38943437--38943712 Score: 338
Period size: 27 Copynumber: 10.3 Consensus size: 27
38943427 GGGGTAAAAT
* * * *
38943437 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38943464 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
38943491 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
38943518 GATAATTCTACCTTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38943544 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38943571 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38943598 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38943625 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
38943652 GGTAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
38943679 AGAAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
38943706 GGTAATT
1 GGTAATT
38943713 TTATAAACTA
Statistics
Matches: 214, Mismatches: 34, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 21 0.10
27 193 0.90
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38943624 original size:107 final size:108
Alignment explanation
Indices: 38943438--38943704 Score: 401
Period size: 107 Copynumber: 2.5 Consensus size: 108
38943428 GGGTAAAATG
* * * * * * * *
38943438 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTTTACC
1 GTAATTCTACCCAACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
* *
38943503 CTATAGGGGTATTTCGATAATTCTACCTTACAAGGGTA-TTCA
66 CTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
* *
38943545 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCAACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
*
38943610 CTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCG
66 CTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
*
38943653 GTAATTCTACCCAACAGGGGTATTTCAGAAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCAACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
38943705 TGGTAATTTT
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 92 0.64
108 52 0.36
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (108 bp):
GTAATTCTACCCAACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCA
Found at i:38943724 original size:27 final size:27
Alignment explanation
Indices: 38943694--38943776 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
38943684 TTCTACCCTA
38943694 TAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
*
38943721 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
* **
38943748 CAGGGGTATTTTGGTAATTTGGTAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
38943775 TA
1 TA
38943777 AAGTATTCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTATAAAC
Found at i:38943737 original size:81 final size:82
Alignment explanation
Indices: 38943440--38943758 Score: 285
Period size: 81 Copynumber: 4.0 Consensus size: 82
38943430 GTAAAATGGT
* * * * * ** * *
38943440 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGGGTATTTCAGTAATTTTACCC
1 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACTAGGGGTATTTCGGTAATTCTACCC
* *
38943504 TATAGGGGTATTTC-GA
66 AACAGGGGTATTTCAGA
* * ** *
38943520 TAATTCTACCTTACAAGGGTA-TTC-AGTAATTCTACCCTA-TAGGGGTATTTCAGTAATTCTAC
1 -AATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCAAACTAGGGGTATTTCGGTAATTCTAC
* * *
38943582 CCTATAGGGGTATTTCAGT
64 CCAACAGGGGTATTTCAGA
** *
38943601 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTAC-AAGGGTATTTCGGTAATTCTACCC
1 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACTAGGGGTATTTCGGTAATTCTACCC
38943665 AACAGGGGTATTTCAGA
66 AACAGGGGTATTTCAGA
* * * * * * * *
38943682 AATTCTACCCTATAGGGGTATTTTGGTAATTTTA-TAAACTAGGGGTATTTTGGTAATTTTA-CA
1 AATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACTAGGGGTATTTCGGTAATTCTACCC
38943745 AACCAGGGGTATTT
66 AA-CAGGGGTATTT
38943759 TGGTAATTTG
Statistics
Matches: 204, Mismatches: 26, Indels: 16
0.83 0.11 0.07
Matches are distributed among these distances:
80 74 0.36
81 129 0.63
82 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (82 bp):
AATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACTAGGGGTATTTCGGTAATTCTACCC
AACAGGGGTATTTCAGA
Found at i:38946666 original size:40 final size:40
Alignment explanation
Indices: 38946618--38946884 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
38946608 GCAAACACAT
* * *
38946618 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
38946658 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
38946698 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
38946738 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
38946778 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
38946818 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
38946858 TTGCCTTCGGGTCATAGCCCGGATATA
1 TTGCCTTCGGGTCATAGCCCGGATATA
38946885 ATCCAATGCT
Statistics
Matches: 220, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:38949729 original size:23 final size:23
Alignment explanation
Indices: 38949695--38949758 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
38949685 TACCGATATA
*
38949695 TCAGCTCGTAAGATCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
38949718 TCAGCTCATAAGAGCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
38949741 TTAGCTCGTAAGAGCTTA
1 TCAGCTCGTAAGAGCTTA
38949759 TTGTTTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTATT
Found at i:38950047 original size:18 final size:18
Alignment explanation
Indices: 38950024--38950117 Score: 82
Period size: 18 Copynumber: 5.0 Consensus size: 18
38950014 ACTATTTAGA
*
38950024 CGAATGAGTTATTGTTAT
1 CGAATGAGTTACTGTTAT
*
38950042 CGAATGAATTACTGTTAT
1 CGAATGAGTTACTGTTAT
* *
38950060 ACGGATGAAG-TACTGTTTAGA
1 -CGAATG-AGTTACTG-TTA-T
*
38950081 CAAATGAGTTACTGTTAT
1 CGAATGAGTTACTGTTAT
*
38950099 CGAATGAATTACTGATTAT
1 CGAATGAGTTACTG-TTAT
38950118 ATGATTGAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 28 0.47
19 19 0.32
20 13 0.22
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (18 bp):
CGAATGAGTTACTGTTAT
Found at i:38950073 original size:19 final size:19
Alignment explanation
Indices: 38949982--38950118 Score: 86
Period size: 19 Copynumber: 7.2 Consensus size: 19
38949972 GCTATGTGTA
*
38949982 ATACAAATGAA-TCACTGTT
1 ATACGAATGAAGT-ACTGTT
* * *
38950001 ATATGGATGAAGTACTATTT
1 ATACGAATGAAGTACT-GTT
* *
38950021 AGACGAATG-AGTTATTGTT
1 ATACGAATGAAG-TACTGTT
*
38950040 AT-CGAATGAATTACTGTT
1 ATACGAATGAAGTACTGTT
*
38950058 ATACGGATGAAGTACTGTTT
1 ATACGAATGAAGTACTG-TT
* *
38950078 AGACAAATG-AGTTACTGTT
1 ATACGAATGAAG-TACTGTT
*
38950097 AT-CGAATGAATTACTGATT
1 ATACGAATGAAGTACTG-TT
38950116 ATA
1 ATA
38950119 TGATTGAGAG
Statistics
Matches: 88, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
18 24 0.27
19 39 0.44
20 25 0.28
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (19 bp):
ATACGAATGAAGTACTGTT
Found at i:38950079 original size:57 final size:57
Alignment explanation
Indices: 38949987--38950118 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 57
38949977 GTGTAATACA
* * * *
38949987 AATGAATCACTGTTATATGGATGAAGTACTATTTAGACGAATGAGTTATTGTTATCG
1 AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
*
38950044 AATGAATTACTGTTATACGGATGAAGTACTGTTTAGACAAATGAGTTACTGTTATCG
1 AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
38950101 AATGAATTACTGATTATA
1 AATGAATTACTG-TTATA
38950119 TGATTGAGAG
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 64 0.93
58 5 0.07
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (57 bp):
AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
Found at i:38964119 original size:19 final size:18
Alignment explanation
Indices: 38964086--38964128 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
38964076 GGGGCCCTGA
* *
38964086 GGCCCATTGGGCCAACAT
1 GGCCCATTCGGCCAAAAT
38964104 GGCCCAGTTCGGCCAAAAT
1 GGCCCA-TTCGGCCAAAAT
38964123 GGCCCA
1 GGCCCA
38964129 ATATCGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.23, C:0.35, G:0.28, T:0.14
Consensus pattern (18 bp):
GGCCCATTCGGCCAAAAT
Found at i:38971834 original size:34 final size:34
Alignment explanation
Indices: 38971786--38971850 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
38971776 GTATCAGTTA
* * *
38971786 GGCCTTAGCCCATTACAGTAACAGTAGCAGTTTG
1 GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
* *
38971820 GGCCTGAGCACATTACGGTTACAATAGCAGT
1 GGCCTGAGCACATTACAGTAACAATAGCAGT
38971851 GGGGCCTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
Found at i:38980374 original size:10 final size:10
Alignment explanation
Indices: 38980359--38980391 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
38980349 TTAATCAAAG
*
38980359 AAAATAAAAT
1 AAAATAAGAT
38980369 AAAATAAGAT
1 AAAATAAGAT
38980379 AAAATAAGAT
1 AAAATAAGAT
38980389 AAA
1 AAA
38980392 TAATTGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (10 bp):
AAAATAAGAT
Found at i:38980380 original size:15 final size:14
Alignment explanation
Indices: 38980360--38980394 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
38980350 TAATCAAAGA
38980360 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
38980374 AAGATAAAATAAGAT
1 AA-ATAAAATAAAAT
38980389 AAATAA
1 AAATAA
38980395 TTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:38991683 original size:21 final size:21
Alignment explanation
Indices: 38991653--38991698 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38991643 ACCTCAAAGG
*
38991653 TGTGTTGCGACATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
*
38991674 TGTGTCGCGATATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
38991695 TGTG
1 TGTG
38991699 GTGCATCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.30, T:0.39
Consensus pattern (21 bp):
TGTGTCGCGACATCCCTTGGT
Found at i:38994862 original size:43 final size:43
Alignment explanation
Indices: 38994814--38994980 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
38994804 GTTACTGAGA
38994814 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * ** * *
38994857 TGTGATTACGTGTCATACCATGTCTGAAACTTTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
38994899 TATCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
38994942 ATGTGATAACATGTAAAACCATATTTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
38994981 TTACGAGCTA
Statistics
Matches: 95, Mismatches: 26, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
42 10 0.11
43 83 0.87
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:39002417 original size:28 final size:28
Alignment explanation
Indices: 39002382--39002441 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
39002372 ATGTCATGAC
*
39002382 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
39002410 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
39002438 AATA
1 AATA
39002442 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:39003573 original size:28 final size:28
Alignment explanation
Indices: 39003538--39003597 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
39003528 ATGTCATGAC
*
39003538 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
39003566 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
39003594 AATA
1 AATA
39003598 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:39009318 original size:6 final size:6
Alignment explanation
Indices: 39009300--39009388 Score: 60
Period size: 6 Copynumber: 14.3 Consensus size: 6
39009290 AAGAAACATT
* *
39009300 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
39009349 ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
39009389 ATGAATGCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
5 5 0.08
6 47 0.71
7 11 0.17
8 2 0.03
9 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:39009347 original size:31 final size:31
Alignment explanation
Indices: 39009309--39009388 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
39009299 TATCAGAACT
*
39009309 AGAATCAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
39009340 AGAATCAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
39009371 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
39009389 ATGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 35 0.78
32 10 0.22
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:39009567 original size:27 final size:26
Alignment explanation
Indices: 39009525--39009626 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
39009515 GCTCAGTTAT
** *
39009525 CAGATATTGTTACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
39009552 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
39009578 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
39009606 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
39009627 TTAACAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 52 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:39009813 original size:22 final size:22
Alignment explanation
Indices: 39009785--39009849 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
39009775 GCAAATACGT
*
39009785 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
39009807 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
39009829 TTGACACAAAGCGATAATCAG
1 TTGGCACAAAGCCATAATCAG
39009850 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:39010332 original size:27 final size:27
Alignment explanation
Indices: 39010299--39011035 Score: 935
Period size: 27 Copynumber: 27.3 Consensus size: 27
39010289 ACAAGGCATC
*
39010299 TCGGTAATTCCACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
**
39010326 TTAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010353 TCGGTAATTCTACCCTGCAGGGGAATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
39010380 GCGATAATTCTACCCTACAGGGATATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39010407 TCGGTAATTTTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010434 GT-GATAATTCTACCCTACAAGGGTATT
1 -TCGGTAATTCTACCCTACAGGGGTATT
39010461 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
39010488 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
39010515 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39010542 TCGGTAATTTTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39010569 TCAGTAATTCTACCCTACAGGGGT-TT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010595 TGCGATAATTTTACCCTACAGGGGTATT
1 T-CGGTAATTCTACCCTACAGGGGTATT
*
39010623 TCGGTAATTCTACCCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010650 TCGGTAATTCTACCCTATAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39010677 TCGGTAATTCTACTCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39010704 TCGGTAATTCTATCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
** * *
39010731 TCAATAATTCTACCATATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * * *
39010758 TCAGTAATTCTACCTTGCAGGGGTAAT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010785 TCAGTAATTTTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010812 TCGATAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
39010839 TCAGTAATTCTACTCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
39010866 T-AGTAATTCTACCTTACTA-GGGTATT
1 TCGGTAATTCTACCCTAC-AGGGGTATT
** *
39010892 TAAGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
39010919 TTGGTAATTCTACCTTACTGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
**
39010946 TCAATAAATT-TACCCTACAGGGGTATT
1 TCGGT-AATTCTACCCTACAGGGGTATT
* * *
39010973 TCAGTAATTCTACCTTACAGGGATATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
39011000 TCGATAATTCTACCTTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
39011027 TCGATAATT
1 TCGGTAATT
39011036 TTACAAACCA
Statistics
Matches: 621, Mismatches: 80, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
26 30 0.05
27 583 0.94
28 8 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:39011050 original size:27 final size:27
Alignment explanation
Indices: 39011020--39011090 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
39011010 TACCTTATAG
* *
39011020 GGGTATTTCGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
39011047 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
39011074 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
39011091 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:39012828 original size:51 final size:49
Alignment explanation
Indices: 39012705--39012850 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 49
39012695 TAGCCAAAGC
* * **
39012705 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATACGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
39012754 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* *
39012805 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
39012851 TCACAATAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 38 0.46
50 2 0.02
51 42 0.51
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:39015018 original size:15 final size:14
Alignment explanation
Indices: 39014960--39015029 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
39014950 TAAAGATAAT
*
39014960 AAGAAAACCAAATA
1 AAGAAATCCAAATA
39014974 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
39014989 GAA-AAA-CCTAGAATA
1 -AAGAAATCC-A-AATA
39015004 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
39015019 AAGAAACCCAA
1 AAGAAATCCAA
39015030 GATACGATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
14 15 0.31
15 28 0.58
16 5 0.10
ACGTcount: A:0.63, C:0.16, G:0.11, T:0.10
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:39018153 original size:50 final size:50
Alignment explanation
Indices: 39018021--39018153 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
39018011 CTGGTACGCA
* **
39018021 TAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTGTACACG
* * *
39018070 TAGTAGCCTGCACTTAGTCCTACACACGTGACCTAACCA-CCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTG-TACACG
39018120 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
39018154 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 33 0.45
50 40 0.55
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTGTACACG
Found at i:39028588 original size:12 final size:12
Alignment explanation
Indices: 39028571--39028599 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
39028561 TGATTGATTG
39028571 CTTAACTAATTA
1 CTTAACTAATTA
39028583 CTTAACTAATTA
1 CTTAACTAATTA
39028595 CTTAA
1 CTTAA
39028600 TCAAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
CTTAACTAATTA
Found at i:39033297 original size:45 final size:45
Alignment explanation
Indices: 39033246--39033331 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
39033236 CAAAACATGT
*
39033246 GTCACATATATCACGAACTCAGACCATAACTCAATGAGTTCGGAC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
* * *
39033291 GTCACATATGTCATGAACTCAGACCACAACTTAATGAGTTC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
39033332 AAATTACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
Found at i:39035936 original size:18 final size:18
Alignment explanation
Indices: 39035910--39035956 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
39035900 ACCATCAGAG
*
39035910 TCACTCAGAAAATCCTGT
1 TCACTCAGAAAATCCTAT
*
39035928 TCCCTCAGAAAATCCTAT
1 TCACTCAGAAAATCCTAT
39035946 TCACTCAGAAA
1 TCACTCAGAAA
39035957 CAACCATCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.26
Consensus pattern (18 bp):
TCACTCAGAAAATCCTAT
Found at i:39039134 original size:41 final size:41
Alignment explanation
Indices: 39039077--39039156 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
39039067 AAAGAGACTA
* *
39039077 AACAGAAAGTGAAAGTGATTCGTGAAAGTCTGAAAGCAGTG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTG
39039118 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
39039157 CGTCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (41 bp):
AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTG
Found at i:39040969 original size:42 final size:42
Alignment explanation
Indices: 39040881--39041021 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
39040871 ACCACACCTA
* * * * * *
39040881 GGACGTTGGCATCGATTTGTGATTTACGTGTAAGACCATGTTTG
1 GGACATTGGCATCG-TATATGATTT-CATGTAAGACCCTGTCTG
39040925 GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
1 GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
* * * * *
39040967 GGATAGTGGCATCAATATTTGATTACATGTAAGACCAC-GTCTG
1 GGACATTGGCATC-GTATATGATTTCATGTAAGACC-CTGTCTG
*
39041010 GGACGTTGGCAT
1 GGACATTGGCAT
39041022 TGTACGAGCT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.32
43 41 0.51
44 14 0.17
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
Found at i:39046942 original size:71 final size:70
Alignment explanation
Indices: 39046822--39046966 Score: 263
Period size: 71 Copynumber: 2.1 Consensus size: 70
39046812 TTACAAGGTG
39046822 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
39046887 CAAGCC
66 CAA-CC
*
39046893 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCATATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
*
39046958 TAACC
66 CAACC
39046963 AATT
1 AATT
39046967 CACAACCAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 6 0.08
71 66 0.92
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (70 bp):
AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
CAACC
Found at i:39047916 original size:13 final size:13
Alignment explanation
Indices: 39047894--39047926 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
39047884 AAGGGTTTGT
39047894 TTAT-TAAACTAA
1 TTATCTAAACTAA
39047906 TTATCTAAACTAA
1 TTATCTAAACTAA
*
39047919 TTAACTAA
1 TTATCTAA
39047927 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:39050857 original size:6 final size:6
Alignment explanation
Indices: 39050856--39050882 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39050846 AGAGAAAAAG
39050856 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
39050883 GATAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Done.