Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 63 of 292
Found at i:18854525 original size:9 final size:9
Alignment explanation
Indices: 18854513--18854589 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
18854503 TTTGATAAAC
18854513 ATGATATGT
1 ATGATATGT
*
18854522 ATGATATGCAC
1 ATGATATG--T
*
18854533 ATGACATGT
1 ATGATATGT
*
18854542 ATGATATGCAC
1 ATGATATG--T
*
18854553 ATGACATGT
1 ATGATATGT
*
18854562 ATGATATGCAC
1 ATGATATG--T
18854573 ATGATATGT
1 ATGATATGT
18854582 ATGATATG
1 ATGATATG
18854590 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:18854601 original size:20 final size:20
Alignment explanation
Indices: 18854511--18854593 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
18854501 ATTTTGATAA
*
18854511 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
18854531 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
18854551 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
18854571 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
18854591 ACA
1 ACA
18854594 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:18854679 original size:23 final size:24
Alignment explanation
Indices: 18854648--18854812 Score: 214
Period size: 24 Copynumber: 7.0 Consensus size: 24
18854638 GAGGAAGTGA
18854648 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
18854671 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18854695 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18854719 AAAAGGGC-T-TGCGCCCAGTTAT-
1 AAAAGGGCTTATGC-CCCAGTTATC
* *
18854741 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18854765 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18854789 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18854813 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 12
0.86 0.05 0.08
Matches are distributed among these distances:
22 10 0.08
23 42 0.33
24 64 0.50
25 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18854717 original size:47 final size:46
Alignment explanation
Indices: 18854648--18854813 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 46
18854638 GAGGAAGTGA
*
18854648 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT-TGCCCCAGTTAT
*
18854694 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGC-TTGCGCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGC-CCCAGTTAT
*
18854741 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGC-TTTGCCCCAGTTA-T
*
18854789 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
18854814 TGATAAAGCA
Statistics
Matches: 107, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
46 33 0.31
47 41 0.38
48 21 0.20
49 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTGCCCCAGTTAT
Found at i:18854762 original size:70 final size:70
Alignment explanation
Indices: 18854648--18854812 Score: 251
Period size: 70 Copynumber: 2.3 Consensus size: 70
18854638 GAGGAAGTGA
*
18854648 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGC-TATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
18854713 GTTATC
65 GTTATC
*
18854719 AAAAGGGCT-TGCGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTATGC-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
18854783 GTTATT
65 GTTATC
*
18854789 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTATGCC-CCAGTTAT
18854813 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
69 3 0.03
70 60 0.70
71 13 0.15
72 10 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAG
TTATC
Found at i:18855041 original size:31 final size:31
Alignment explanation
Indices: 18855006--18855069 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18854996 CGTTTACCGT
*
18855006 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
18855037 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18855068 AA
1 AA
18855070 TATGAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18857978 original size:27 final size:27
Alignment explanation
Indices: 18857896--18858165 Score: 219
Period size: 27 Copynumber: 9.8 Consensus size: 27
18857886 ATTACCAAAG
* **
18857896 TACCC-CGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
18857922 TACCCTCGATTTATAGAA-TACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
18857948 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
18857975 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
18858002 TACCC-CGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
18858028 TACCC-C-ATTTTACCCTCGACTTACAAATTACCGTTT
1 TACCCTCGA-TTTA--C-AGAATTAC----TA---TTT
* *
18858064 TACCCTCGATTTACAAAATTATTA-TT
1 TACCCTCGATTTACAGAATTACTATTT
* *
18858090 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
18858117 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
18858144 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
18858166 AGAAATACCC
Statistics
Matches: 202, Mismatches: 26, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
25 1 0.00
26 80 0.40
27 93 0.46
28 1 0.00
29 5 0.02
30 2 0.01
33 1 0.00
34 4 0.02
35 1 0.00
36 8 0.04
37 5 0.02
38 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:18858067 original size:89 final size:90
Alignment explanation
Indices: 18857945--18858121 Score: 223
Period size: 89 Copynumber: 2.0 Consensus size: 90
18857935 TAGAATACTG
* * * * * *
18857945 TTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACCATTTTACC-CCG
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCA-TTTACCGCCG
*
18858009 ATTTACATAATTACCATTTTACCCCA
65 ATTTACAGAATTACCATTTTACCCCA
** *
18858035 TTTTACCCTCGACTTACA-AATTACCGTTTTACCCTCGATTTACAAAATTATTATTTACCGTCGA
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTACCGCCGA
* *
18858099 TTTATAGAATTACTATTTTACCC
66 TTTACAGAATTACCATTTTACCC
18858122 TTGATTTACA
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
88 6 0.08
89 53 0.72
90 15 0.20
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (90 bp):
TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTACCGCCGA
TTTACAGAATTACCATTTTACCCCA
Found at i:18858077 original size:37 final size:36
Alignment explanation
Indices: 18857996--18858068 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
18857986 TACAGAATTA
*
18857996 CCATTTTACCCCGATTTACATAATTACCATTTTACC
1 CCATTTTACCCCGACTTACATAATTACCATTTTACC
*
18858032 CCATTTTACCCTCGACTTACA-AATTACCGTTTTACC
1 CCATTTTACCC-CGACTTACATAATTACCATTTTACC
18858068 C
1 C
18858069 TCGATTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 26 0.76
37 8 0.24
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (36 bp):
CCATTTTACCCCGACTTACATAATTACCATTTTACC
Found at i:18858373 original size:27 final size:27
Alignment explanation
Indices: 18858117--18858369 Score: 136
Period size: 27 Copynumber: 9.3 Consensus size: 27
18858107 ATTACTATTT
* * **
18858117 TACCCTTGATTTACAGAATTA-CTATTT
1 TACCCTTGATTTACAAAATTACCGA-AA
* *
18858144 TACCCTCGATTTACAAAATTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
** ** *
18858171 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* ** *
18858198 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* ***
18858225 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGATTTACAAAATTACCGAAA
** ** *
18858252 TACCCTCAATTTTTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * *
18858279 TACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
**
18858306 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCGAAA
* * *
18858335 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
18858362 TACCCTTG
1 TACCCTTG
18858370 GTTTGTAGAT
Statistics
Matches: 179, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.01
27 150 0.84
28 8 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:18858457 original size:27 final size:27
Alignment explanation
Indices: 18858426--18858518 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
18858416 TACCCCTATT
*
18858426 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
18858453 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
18858480 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
18858507 TGGTAAAATGAC
1 AGGTAAAATGAC
18858519 GAATATGCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:18859768 original size:9 final size:9
Alignment explanation
Indices: 18859756--18859832 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
18859746 TTTGATAAAC
18859756 ATGATATGT
1 ATGATATGT
*
18859765 ATGATATGCAC
1 ATGATATG--T
*
18859776 ATGACATGT
1 ATGATATGT
*
18859785 ATGATATGCAC
1 ATGATATG--T
*
18859796 ATGACATGT
1 ATGATATGT
*
18859805 ATGATATGCAC
1 ATGATATG--T
18859816 ATGATATGT
1 ATGATATGT
18859825 ATGATATG
1 ATGATATG
18859833 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:18859844 original size:20 final size:20
Alignment explanation
Indices: 18859754--18859836 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
18859744 ATTTTGATAA
*
18859754 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
18859774 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
18859794 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
18859814 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
18859834 ACA
1 ACA
18859837 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:18859946 original size:24 final size:23
Alignment explanation
Indices: 18859890--18860056 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
18859880 GAGGAAGTGA
18859890 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18859913 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
18859936 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18859960 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18859984 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18860007 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
18860032 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18860056 A
1 A
18860057 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:18859959 original size:47 final size:47
Alignment explanation
Indices: 18859890--18860056 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
18859880 GAGGAAGTGA
*
18859890 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
18859936 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
18859984 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
18860032 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
18860057 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:18860006 original size:71 final size:71
Alignment explanation
Indices: 18859890--18860055 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
18859880 GAGGAAGTGA
* *
18859890 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
18859955 GTTATC
66 GTTATC
*
18859961 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
18860026 GTTATT
66 GTTATC
*
18860032 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
18860056 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:18860281 original size:31 final size:31
Alignment explanation
Indices: 18860246--18860309 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18860236 CGTTTACCGT
*
18860246 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
18860277 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18860308 AA
1 AA
18860310 TATGAAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18861099 original size:50 final size:49
Alignment explanation
Indices: 18861021--18861150 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
18861011 GTTACATCAA
* *
18861021 TCACGTGTGTAGTACTAAATGCATGCTACTACGTGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT-GG
* * *
18861071 TCATGTGTGTAGTACTAAGTGCAAGCTACTATGTGTATCAGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTGG
* * *
18861120 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTA
18861151 TGCATACCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 29 0.41
50 42 0.59
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTGG
Found at i:18861383 original size:16 final size:15
Alignment explanation
Indices: 18861362--18861391 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18861352 GAATGGAGTA
18861362 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
18861378 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
18861392 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:18863076 original size:40 final size:40
Alignment explanation
Indices: 18863017--18863265 Score: 284
Period size: 40 Copynumber: 6.2 Consensus size: 40
18863007 AGCATATATA
* * * *
18863017 TGCATTCAAAGGTATCGAAGTAGAAACAGTGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
*
18863057 TGCATTCAAGGGTACCGAAGTACAAACAAGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * * * *
18863097 TGCTTTCAGGGGTACTGAAGTACAAACAGGGGCATGTGTG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * * * *
18863137 TACATTCAATGGTACCGAAGTACAAACAGCGAGCATGTATA
1 TGCATTCAAGGGTACCGAAGTACAAACAG-GGGCACGTATG
* * *
18863178 TGAATTCAGGGGTACTGAAGTACAAACAGGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * *
18863218 TTCATTCAAGGGTATCGAAGTACGAAA-AGGGGCACATATG
1 TGCATTCAAGGGTACCGAAGTAC-AAACAGGGGCACGTATG
18863258 TGCATTCA
1 TGCATTCA
18863266 GGCAATAATT
Statistics
Matches: 173, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 138 0.80
41 35 0.20
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (40 bp):
TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
Found at i:18863202 original size:121 final size:120
Alignment explanation
Indices: 18863019--18863251 Score: 308
Period size: 121 Copynumber: 1.9 Consensus size: 120
18863009 CATATATATG
* * * * *
18863019 CATTCAAAGGTATCGAAGTAGAAACAGTGGCACGTATGTGCATTCAAGGGTACCGAAGTACAAAC
1 CATTCAAAGGTACCGAAGTACAAACAGCGGCACGTATATGAATTCAAGGGTACCGAAGTACAAAC
* *
18863084 AAGGGCACGTATGTGCTTTCAGGGGTA-CTGAAGTAC-AAACAGGGGCATGTGTGTA
66 AAGGGCACGTATGTGCATTCAAGGGTATC-GAAGTACGAAA-AGGGGCATGTGTGTA
* * * *
18863139 CATTCAATGGTACCGAAGTACAAACAGCGAGCATGTATATGAATTCAGGGGTACTGAAGTACAAA
1 CATTCAAAGGTACCGAAGTACAAACAGCG-GCACGTATATGAATTCAAGGGTACCGAAGTACAAA
* *
18863204 CAGGGGCACGTATGTTCATTCAAGGGTATCGAAGTACGAAAAGGGGCA
65 CAAGGGCACGTATGTGCATTCAAGGGTATCGAAGTACGAAAAGGGGCA
18863252 CATATGTGCA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
120 25 0.26
121 68 0.70
122 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (120 bp):
CATTCAAAGGTACCGAAGTACAAACAGCGGCACGTATATGAATTCAAGGGTACCGAAGTACAAAC
AAGGGCACGTATGTGCATTCAAGGGTATCGAAGTACGAAAAGGGGCATGTGTGTA
Found at i:18869052 original size:46 final size:46
Alignment explanation
Indices: 18869002--18869177 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
18868992 TGGTTGAGCA
18869002 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
18869048 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
18869093 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
18869141 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18869178 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 29 0.27
48 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18869158 original size:93 final size:93
Alignment explanation
Indices: 18868999--18869170 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18868989 GGATGGTTGA
* *** *
18868999 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAGT
18869064 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
18869092 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAGT
18869157 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18869171 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:18881806 original size:43 final size:42
Alignment explanation
Indices: 18881753--18881915 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
18881743 ATCGAGATGT
* *
18881753 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTAA
*
18881796 GATTACGTGTAAGACCATGTTTGGGACATTGGCATCG-TTAA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTAA
** * * * *
18881837 TCGATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCGATATAT
1 --GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGAT-TAA
* * * *
18881882 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT
18881916 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.04
42 6 0.06
43 87 0.87
44 1 0.01
45 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGATTAA
Found at i:18881907 original size:86 final size:85
Alignment explanation
Indices: 18881753--18881915 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
18881743 ATCGAGATGT
* * * * * *
18881753 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTAAGATTACGTGTAAGACCATGTTT
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTAAGATAACATGTAAGACCATATCT
18881818 GGGACATTGGCATCGTTAATC
66 GGGACA-TGGCATCGTTAATC
* * * *
18881839 GATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATATGATAACATGTAAGACCATATC
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TAAGATAACATGTAAGACCATATC
*
18881903 TGGGATATGGCAT
65 TGGGACATGGCAT
18881916 TGTACGAGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 8 0.12
86 57 0.88
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (85 bp):
GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTAAGATAACATGTAAGACCATATCT
GGGACATGGCATCGTTAATC
Found at i:18893830 original size:40 final size:40
Alignment explanation
Indices: 18893785--18893973 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 40
18893775 CTGGAAATTA
* *
18893785 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
* * * * *
18893826 -ATCCGGGCTAAG-TCCG-AGGACATTTATGCTAGTAATTA-
1 TATCCGGGCTAAGACCCGAAGG-CAATTGTGCGAGTCA-TAC
*
18893864 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
18893904 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
18893944 TATCCGGGCTAAGA-CCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
18893974 AAATCGTGAT
Statistics
Matches: 127, Mismatches: 12, Indels: 20
0.80 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 43 0.34
40 78 0.61
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:18893878 original size:79 final size:79
Alignment explanation
Indices: 18893745--18893973 Score: 225
Period size: 79 Copynumber: 2.9 Consensus size: 79
18893735 AATTGAATGA
* ** * * *
18893745 TATCCGGGCTAAGTCCCGAAGATGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGT-CCGAGGACATTAATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCAA
*
18893810 TTGTGCTAGTGGC-TAC
65 TTGTGCGAGT--CATAC
*
18893826 -ATCCGGGCTAAGTCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-AT
1 TATCCGGGCTAAGTCCGAGGACATTAATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCAAT
*
18893889 TCGTGCGAGTCATTC
66 T-GTGCGAGTCATAC
* ** * * *
18893904 TATCCGGGCTAAGACCCGAAGG-CATTCGTGCGAGTCATTCTATCCGGGCTAAGA-CCGAAGGCA
1 TATCCGGGCTAAG-TCCG-AGGACATTAATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
*
18893967 TTTGTGC
64 ATTGTGC
18893974 AAATCGTGAT
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
77 1 0.01
78 5 0.04
79 72 0.57
80 45 0.36
81 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TATCCGGGCTAAGTCCGAGGACATTAATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCGAGTCATAC
Found at i:18894014 original size:79 final size:80
Alignment explanation
Indices: 18893864--18894014 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 80
18893854 CTAGTAATTA
* * ** *
18893864 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGAGCTAAGACCCGAAGGCAT
18893929 TCGTGCGAGTCATTC
66 TCGTGCGAGTCATTC
* * * * * *
18893944 TATCCGGGCTAAGA-CCGAAGGCATTTGTGCAAATCGTGATATCCGAGTTAAGTCCCGTAGGCCT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGAGCTAAGACCCGAAGGCAT
*
18894008 TGGTGCG
66 TCGTGCG
18894015 GGTTACCATA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
79 45 0.76
80 14 0.24
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGATATCCGAGCTAAGACCCGAAGGCAT
TCGTGCGAGTCATTC
Found at i:18894014 original size:119 final size:118
Alignment explanation
Indices: 18893785--18894014 Score: 250
Period size: 119 Copynumber: 1.9 Consensus size: 118
18893775 CTGGAAATTA
* * *
18893785 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGTCCGAGGACATT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GCTACATCCGGGCTAAGACCGAGGACATT
* * * *
18893850 TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
65 TATGCAAATAATGATATCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
*
18893904 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGT-CATTCTATCCGGGCTAAGACCGAAGG-C
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGC-TAC-ATCCGGGCTAAGACCG-AGGAC
* ** * * * * *
18893966 ATTTGTGCAAATCGTGATATCCGAGTTAAGTCCCGTAGGCCTTGGTGCG
62 ATTTATGCAAATAATGATATCCGAGCTAAGACCCGAAGGCATTCGTGCG
18894015 GGTTACCATA
Statistics
Matches: 91, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
117 1 0.01
118 5 0.05
119 82 0.90
120 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (118 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGCTACATCCGGGCTAAGACCGAGGACATTT
ATGCAAATAATGATATCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
Found at i:18898940 original size:47 final size:48
Alignment explanation
Indices: 18898825--18898997 Score: 170
Period size: 45 Copynumber: 3.8 Consensus size: 48
18898815 AACCCGCCCC
* * * *
18898825 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-ACATCCA
*
18898870 TAA-TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACATCCA
* *
18898917 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
*
18898961 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
18898998 TCAACCATCC
Statistics
Matches: 108, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 29 0.27
45 33 0.31
47 32 0.30
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (48 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
Found at i:18898997 original size:92 final size:91
Alignment explanation
Indices: 18898830--18898997 Score: 293
Period size: 91 Copynumber: 1.8 Consensus size: 91
18898820 GCCCCTAAGT
*
18898830 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAACG
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAATGAACTCGGACTCAACTCAACG
18898895 AGTTCGGATGCCTAGTTACATCTCAC
66 AGTTCGGATGCCTAGTTACATCTCAC
*
18898921 GAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
18898985 CGAGTTCGGATGC
64 CGAGTTCGGATGC
18898998 TCAACCATCC
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 37 0.51
92 36 0.49
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAATGAACTCGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:18899451 original size:30 final size:30
Alignment explanation
Indices: 18899417--18899476 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18899407 ATTTAATACG
18899417 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
18899447 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
18899477 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:18906522 original size:46 final size:46
Alignment explanation
Indices: 18906375--18906546 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
18906365 AACCCGCCCC
* * ***
18906375 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGT-TCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATAT-ACATCCA
* * *
18906421 TAAATGAACCCGGACTCAACTCAAC-AGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CATA--TACATCCA
* * *
18906468 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATATGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATATACATCCA
18906513 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18906547 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 11 0.11
46 70 0.68
47 11 0.11
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATATACATCCA
Found at i:18906537 original size:92 final size:93
Alignment explanation
Indices: 18906380--18906549 Score: 245
Period size: 92 Copynumber: 1.8 Consensus size: 93
18906370 GCCCCTAAGT
* ***
18906380 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCACATCCATAAATGAACCCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACCCGGACTCAACTCAA
18906445 C-AGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
18906472 GAACTCGGACTCAACTCAACGAGTTCGGACATAT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAT-TCACATCCATAAATGAACCCGGACTCAACTCA
18906536 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
18906550 TCAACCATCC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
92 56 0.82
93 12 0.18
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACCCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18907003 original size:30 final size:30
Alignment explanation
Indices: 18906969--18907027 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
18906959 ATTTAATACG
18906969 AACTTTGGAAAAATTACACTTTTGCCCCTC
1 AACTTTGGAAAAATTACACTTTTGCCCCTC
* * *
18906999 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTGGAAAAATTACACTTTTGCCCCT
18907028 AGGCTCGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTC
Found at i:18908740 original size:26 final size:29
Alignment explanation
Indices: 18908691--18908749 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
18908681 AGATGTAGGG
18908691 GACACACGGCCAAAACACATGCCC-TG-A
1 GACACACGGCCAAAACACATGCCCGTGTA
* *
18908718 GACACACGG-CTAGACACATGCCCGTGTA
1 GACACACGGCCAAAACACATGCCCGTGTA
18908746 GACA
1 GACA
18908750 AAATAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 11 0.39
28 5 0.18
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (29 bp):
GACACACGGCCAAAACACATGCCCGTGTA
Found at i:18910377 original size:48 final size:46
Alignment explanation
Indices: 18910232--18910402 Score: 126
Period size: 48 Copynumber: 3.5 Consensus size: 46
18910222 TGGAGTATTA
* * *
18910232 AGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCTAGTTATGCCTTG
1 AGTTGGCTTCGGGCCATGATATAGGCACTCCAGG-G-TAGTTA--CCTTG
* * * * * * *
18910282 ATTTGGCTGCGGGCCATGTTATAGGCACTTCAAAGGTAAATTGCCTTG
1 AGTTGGCTTCGGGCCATGATATAGGCAC-TCCAGGGT-AGTTACCTTG
* *
18910330 AGTTGGCTTCGGGTCATGGTATAGGCACTCCAGGGATACGTTACCTTG
1 AGTTGGCTTCGGGCCATGATATAGGCACTCCAGGG-TA-GTTACCTTG
* * * *
18910378 ATTTGGCTACAGGCCATCATATAGG
1 AGTTGGCTTCGGGCCATGATATAGG
18910403 TACTTATCGA
Statistics
Matches: 93, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
47 6 0.06
48 56 0.60
49 1 0.01
50 28 0.30
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
AGTTGGCTTCGGGCCATGATATAGGCACTCCAGGGTAGTTACCTTG
Found at i:18910401 original size:96 final size:97
Alignment explanation
Indices: 18910232--18910407 Score: 221
Period size: 98 Copynumber: 1.8 Consensus size: 97
18910222 TGGAGTATTA
* * * * * *
18910232 AGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCTAGTTATGCCTTGATTTGGCTGCGGGCC
1 AGTTGGCTTCGGGCCATGATATAGGCACTCCAGGTGATAGTTA-GCCTTGATTTGGCTACAGGCC
**
18910297 ATGTTATAGGCACTTCAAAGGTAAATTGCCTTG
65 ATCATATAGGCACTTCAAAGGTAAATTGCCTTG
* *
18910330 AGTTGGCTTCGGGTCATGGTATAGGCACTCCAGG-GATACGTTA-CCTTGATTTGGCTACAGGCC
1 AGTTGGCTTCGGGCCATGATATAGGCACTCCAGGTGATA-GTTAGCCTTGATTTGGCTACAGGCC
*
18910393 ATCATATAGGTACTT
65 ATCATATAGGCACTT
18910408 ATCGATTGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
96 30 0.45
97 3 0.05
98 33 0.50
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (97 bp):
AGTTGGCTTCGGGCCATGATATAGGCACTCCAGGTGATAGTTAGCCTTGATTTGGCTACAGGCCA
TCATATAGGCACTTCAAAGGTAAATTGCCTTG
Found at i:18916542 original size:11 final size:11
Alignment explanation
Indices: 18916526--18916554 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
18916516 AAATAGGCCT
18916526 AAAAGAAAAAA
1 AAAAGAAAAAA
18916537 AAAAG-AAAAA
1 AAAAGAAAAAA
18916547 AAAAGAAA
1 AAAAGAAA
18916555 TTGGGCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:18919064 original size:4 final size:4
Alignment explanation
Indices: 18919055--18919092 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
18919045 TTGCTTGTAC
18919055 ATAA ATAA ATAA ATAA ATAA A-ACGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA A
18919093 GGCTCAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 27 0.87
5 2 0.06
6 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:18920546 original size:24 final size:24
Alignment explanation
Indices: 18920500--18920564 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
18920490 ATGGGAGGTT
* *** *
18920500 GGAGTGATTTATGGAGTGTATCAT
1 GGAGAGATTTATGGAGAAAATCAA
18920524 GGAGAGATATTA-GGAGAAAATCAA
1 GGAGAGAT-TTATGGAGAAAATCAA
*
18920548 GGAGTGATTTATGGAGA
1 GGAGAGATTTATGGAGA
18920565 GATTTAATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.34, T:0.28
Consensus pattern (24 bp):
GGAGAGATTTATGGAGAAAATCAA
Found at i:18921922 original size:27 final size:27
Alignment explanation
Indices: 18921907--18922011 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
18921897 ATATTACCCT
18921907 AGTTTGTAAAATTATCGAAATACCCCC
1 AGTTTGTAAAATTATCGAAATACCCCC
18921934 AGTTTGTAAAATTATCGAAATACCCCC
1 AGTTTGTAAAATTATCGAAATACCCCC
* * * ** *
18921961 AGTTTATAAAATTACCAAAATA-TTCT
1 AGTTTGTAAAATTATCGAAATACCCCC
* *
18921987 AATTTGTAAAATTAACGAAATACCC
1 AGTTTGTAAAATTATCGAAATACCC
18922012 TCGATTTTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 19 0.29
27 46 0.71
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AGTTTGTAAAATTATCGAAATACCCCC
Found at i:18922026 original size:27 final size:26
Alignment explanation
Indices: 18921909--18922092 Score: 129
Period size: 27 Copynumber: 6.9 Consensus size: 26
18921899 ATTACCCTAG
* *
18921909 TTTGTAAAATTATCGAAATACCCCCA
1 TTTGTAAAATTAACGAAATACCCCGA
* *
18921935 GTTTGTAAAATTATCGAAATACCCCCA
1 -TTTGTAAAATTAACGAAATACCCCGA
* * * ** **
18921962 GTTTATAAAATTACCAAAATATTCTAA
1 -TTTGTAAAATTAACGAAATACCCCGA
18921989 TTTGTAAAATTAACGAAATACCCTCGA
1 TTTGTAAAATTAACGAAATACCC-CGA
* * *
18922016 TTTTTAAAATT-ACCAAACTACTACCGA
1 TTTGTAAAATTAACGAAA-TAC-CCCGA
* *
18922043 TTTGTAGAATT-ACTAAAATACCCCTGA
1 TTTGTAAAATTAAC-GAAATACCCC-GA
* *
18922070 TTTTTAAAATTACCGAAATACCC
1 TTTGTAAAATTAACGAAATACCC
18922093 TTGTAGTGTA
Statistics
Matches: 126, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
26 25 0.20
27 96 0.76
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTGTAAAATTAACGAAATACCCCGA
Found at i:18922054 original size:80 final size:82
Alignment explanation
Indices: 18921903--18922093 Score: 194
Period size: 80 Copynumber: 2.4 Consensus size: 82
18921893 ATCGATATTA
* * * *
18921903 CCCTAGTTTGTAAAATTATCGAAATACCC-CCAGTTTGTAAAATTATCGAAATACCCCCAGTTTA
1 CCCTAATTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTATCCAAATACACCCAGTTTA
18921967 TAAAATTACCAAAATA-
66 TAAAATTACCAAAATAC
** * * *
18921983 TTCTAATTTGTAAAATTAACGAAATACCCTCGA-TTTTTAAAATTA-CCAAACTACTACCGA-TT
1 CCCTAATTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTATCCAAA-TAC-ACCCAGTT
* * *
18922045 TGTAGAATTACTAAAATAC
64 TATAAAATTACCAAAATAC
* * *
18922064 CCCTGATTTTTAAAATTACCGAAATACCCT
1 CCCTAATTTGTAAAATTAACGAAATACCCT
18922094 TGTAGTGTAA
Statistics
Matches: 90, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
79 4 0.04
80 56 0.62
81 30 0.33
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (82 bp):
CCCTAATTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTATCCAAATACACCCAGTTTA
TAAAATTACCAAAATAC
Found at i:18922104 original size:27 final size:27
Alignment explanation
Indices: 18922074--18922133 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
18922064 CCCTGATTTT
* * * *
18922074 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCCCTATAGGG
*
18922101 TAAAATTTCCAAAATACCCCTATAGGG
1 TAAAATTACCAAAATACCCCTATAGGG
18922128 TAAAAT
1 TAAAAT
18922134 GATTGTTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTATAGGG
Found at i:18922628 original size:27 final size:26
Alignment explanation
Indices: 18922566--18922634 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
18922556 CCAATGGCAA
* * *
18922566 TGTGCCTATCATATTTATCCATGACT
1 TGTGCCGATAATATTTACCCATGACT
* *
18922592 TGGTGTCGATAATATTTACCCATGTCT
1 T-GTGCCGATAATATTTACCCATGACT
*
18922619 GTGTGCCGATTATATT
1 -TGTGCCGATAATATT
18922635 ACCGTCGCTG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (26 bp):
TGTGCCGATAATATTTACCCATGACT
Found at i:18922973 original size:27 final size:27
Alignment explanation
Indices: 18922906--18922973 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
18922896 TGTTACTGAG
* * ** *
18922906 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
18922932 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
18922959 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
18922974 CTTATGCTTT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:18934322 original size:43 final size:42
Alignment explanation
Indices: 18934232--18934342 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
18934222 GATTTACGTG
* ** * * * *
18934232 TAAGACCATTTCTGGGACATCGTCATCATATATGATTTCGTT
1 TAAGACCACTTCTGGGATGTTGGCATCATATATGATTACATT
*
18934274 TAAGACC-CTGTCTGGGACTG-TGGCATCGATATTTGATTACATT
1 TAAGACCACT-TCTGGGA-TGTTGGCATC-ATATATGATTACATT
18934317 TAAGACCACTTCTGGGATGTTGGCAT
1 TAAGACCACTTCTGGGATGTTGGCAT
18934343 TGTATGAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 21 0.38
43 32 0.57
44 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGACCACTTCTGGGATGTTGGCATCATATATGATTACATT
Found at i:18939704 original size:39 final size:39
Alignment explanation
Indices: 18939623--18939749 Score: 191
Period size: 39 Copynumber: 3.2 Consensus size: 39
18939613 TATGGTAACC
** *
18939623 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
18939663 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
18939702 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
18939741 CGCACAATT
1 CGCACAATT
18939750 CATTCACATC
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 63 0.80
40 16 0.20
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:18943025 original size:43 final size:43
Alignment explanation
Indices: 18942977--18943059 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
18942967 TTCAAAACAG
18942977 GTAAGCATCATCAAATTTCATACACTCCATGGCCAAATACCAT
1 GTAAGCATCATCAAATTTCATACACTCCATGGCCAAATACCAT
* * *
18943020 GTAAGCATCATCGAATTTCATACTCTTCATGGCCAAATAC
1 GTAAGCATCATCAAATTTCATACACTCCATGGCCAAATAC
18943060 TATCTCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.28
Consensus pattern (43 bp):
GTAAGCATCATCAAATTTCATACACTCCATGGCCAAATACCAT
Found at i:18949705 original size:78 final size:81
Alignment explanation
Indices: 18949587--18949768 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 81
18949577 TACTCGTTCA
* * *
18949587 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGG
*
18949650 ATTTAGTAAC-TCGCAC
65 ATTTAGTAACTTAGCAC
**
18949666 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
*
18949729 TTTAGTCACTTAGCAC
66 TTTAGTAACTTAGCAC
*
18949745 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
18949769 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 48 0.53
79 29 0.32
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:18949768 original size:40 final size:40
Alignment explanation
Indices: 18949585--18949768 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
18949575 GCTACTCGTT
*
18949585 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18949625 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18949665 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
18949703 CAAATACCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18949744 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18949769 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 68 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18953592 original size:34 final size:34
Alignment explanation
Indices: 18953545--18953653 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 34
18953535 TTTGCATTTA
18953545 TGATACTGTTACTGTAATGGGCTAAGGCCCACAC
1 TGATACTGTTACTGTAATGGGCTAAGGCCCACAC
* *
18953579 TGATACTGCTACTGTAATGGGCTAAGGCCTACAC
1 TGATACTGTTACTGTAATGGGCTAAGGCCCACAC
* * * *
18953613 TGGTACTGTTACTGTAGTTGGCTAAGG-CCACAT
1 TGATACTGTTACTGTAATGGGCTAAGGCCCACAC
18953646 TGATACTG
1 TGATACTG
18953654 GACTGTCACT
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 11 0.17
34 55 0.83
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (34 bp):
TGATACTGTTACTGTAATGGGCTAAGGCCCACAC
Found at i:18961366 original size:34 final size:34
Alignment explanation
Indices: 18961323--18961423 Score: 150
Period size: 34 Copynumber: 3.0 Consensus size: 34
18961313 TATGATACTA
* *
18961323 TTACTGTAATAGGCTAAGGCCCACATTGACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTGACACTG
* *
18961357 TTACTGTAATGGGGTAAGGCCCACACTGATACTG
1 TTACTGTAATGGGCTAAGGCCCACACTGACACTG
*
18961391 TTACTGTAATGGGCTAAGG-CCACACTGATACTG
1 TTACTGTAATGGGCTAAGGCCCACACTGACACTG
18961424 GACTGTCATC
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
33 14 0.23
34 48 0.77
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (34 bp):
TTACTGTAATGGGCTAAGGCCCACACTGACACTG
Found at i:18962654 original size:15 final size:15
Alignment explanation
Indices: 18962634--18962669 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18962624 AACTCATTGC
*
18962634 ATTTCTGATTGATGA
1 ATTTCTGACTGATGA
*
18962649 ATTTCTGACTGATGT
1 ATTTCTGACTGATGA
18962664 ATTTCT
1 ATTTCT
18962670 TTCGAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (15 bp):
ATTTCTGACTGATGA
Found at i:18964968 original size:86 final size:85
Alignment explanation
Indices: 18964813--18964971 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 85
18964803 GATCGTACAG
* * * **
18964813 TGCCAACATCCAAGACATGGTCTTTCATGTAATCAAATATCGATGCCGCTGTCCCAGACAGGGTT
1 TGCCAACATCCAAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGCC
18964878 TTACATGAAATCAAATACGA
66 TTACATGAAATCAAATACGA
*
18964898 TGCCAACGTCCTAA-ACATGGTCTTACACGTACATACAAA-ATCGATGCCAAC-GTCCCAGAC-G
1 TGCCAACATCC-AAGACATGGTCTTACACGTA-AT-CAAATATCGATGCC-ACTGTCCCAGACAG
18964959 TGGCCTTACATGA
62 -GGCCTTACATGA
18964972 TTTCATATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
85 26 0.41
86 32 0.51
87 5 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
TGCCAACATCCAAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAGGGCC
TTACATGAAATCAAATACGA
Found at i:18966653 original size:40 final size:40
Alignment explanation
Indices: 18966563--18966772 Score: 203
Period size: 40 Copynumber: 5.3 Consensus size: 40
18966553 ACCCAATTAT
* *** *
18966563 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * ** * *
18966601 CGTCGGGTCTTAGCCCAGATATGGTCGCTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
18966641 CTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
*
18966681 CTTCAGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
* * * *
18966721 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
18966761 CTTCGGGACTTA
1 CTTCGGGACTTA
18966773 ACCCCGTTAG
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 10 0.07
39 15 0.10
40 118 0.83
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:18974120 original size:29 final size:29
Alignment explanation
Indices: 18974087--18974163 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
18974077 GTGACGAGAT
* *
18974087 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
18974116 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
18974145 CGGCACT-GGTGTGCGAGCT
1 TGGCACTAAGTGTGCGAGCT
18974164 CGAGGGTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 10 0.24
29 32 0.76
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.23
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:18981967 original size:29 final size:29
Alignment explanation
Indices: 18981933--18982010 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
18981923 GTGACGAGAT
* *
18981933 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
18981962 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
18981991 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
18982011 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:18985628 original size:40 final size:40
Alignment explanation
Indices: 18985603--18985747 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
18985593 GATATGGTCG
*
18985603 CTAGCACGAATGCCTTCGGGACTTAGCCCGG-ATATAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAA
* *
18985643 CTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
** * * *
18985683 CTCTCCCAAATGCCTTCGGGACTTAGCCCGGAATTAATCA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
*
18985723 CTAGCACAAATGTCTTCGGGACTTA
1 CTAGCACAAATGCCTTCGGGACTTA
18985748 ACCCCGTTAG
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 90 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
Found at i:18991942 original size:43 final size:43
Alignment explanation
Indices: 18991787--18991943 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
18991777 CATGTTATCG
* * * *
18991787 TGTAAGACCACGTTTGGGATGTTGGCATCGAGT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
18991831 TGTAAGACCATGTCAGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
18991873 TGTAAGACC-CTGTCTGGGA-GAGTGGCATCGATATTTGATAACA
1 TGTAAGACCAC-GTCTGGGACG-TTGGCATCGATATTTGATTACA
18991916 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18991944 TGTATGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:18996437 original size:29 final size:29
Alignment explanation
Indices: 18996397--18996473 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
18996387 AATGATATTC
*
18996397 ATATGGCCCATTAGGCCCAAATCACCTCT
1 ATATGGCCCATTAGGCCCAAATCACATCT
*
18996426 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATCT
* *
18996455 ATATAGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
18996474 GTCACATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATCT
Found at i:18999755 original size:54 final size:54
Alignment explanation
Indices: 18999673--18999895 Score: 191
Period size: 54 Copynumber: 4.2 Consensus size: 54
18999663 ATTAGGGTTT
* * * *
18999673 AAGGATACCAAGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGC
* * * * * * ** *
18999727 AAGGAAATCATGTAAGACCATGTCAAGACA-GGCATTGATAAACTACAATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTTAATAAGGC
* * * * * *
18999781 AAAGATCCCATGTAAGACCATGCCAAGGCATAGCAATGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGC
** * * * *
18999834 AAGGATACCACATAAGACCATGTCAAGCCATGGCAATGGTAAGTTTAAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGC
18999888 AAGG-TACC
1 AAGGATACC
18999896 TGTGTATCCT
Statistics
Matches: 129, Mismatches: 37, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
53 53 0.41
54 70 0.54
55 6 0.05
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTAATAAGGC
Found at i:19000162 original size:51 final size:51
Alignment explanation
Indices: 19000093--19000195 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
19000083 ATCACAAAGC
19000093 CAACTTGGAAAATCGTAAGGACGTCGGAGATCGCTTCACACTATCAACGAG
1 CAACTTGGAAAATCGTAAGGACGTCGGAGATCGCTTCACACTATCAACGAG
*
19000144 CAACTTGGAAAATTGTAAGGACGTCGGAGATCGCTTCACACTATCAACGAG
1 CAACTTGGAAAATCGTAAGGACGTCGGAGATCGCTTCACACTATCAACGAG
19000195 C
1 C
19000196 TATCTCAGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (51 bp):
CAACTTGGAAAATCGTAAGGACGTCGGAGATCGCTTCACACTATCAACGAG
Found at i:19004870 original size:43 final size:43
Alignment explanation
Indices: 19004715--19004871 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
19004705 TGTGTTATCG
* * *
19004715 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATATCTGGGATGTTGGCATCGA-TATTTGA-TTACA
** ** * *
19004759 TGTAAGACCATATCTGGGACATCAGCATC-ATACTTGATTTCA
1 TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
* * *
19004801 TGTAAGACGC-TGTCTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-CATATCTGGGA-TGTTGGCATCGATATTTGATTACA
**
19004844 TGTAAGACCAGGTCTGGGATGTTGGCAT
1 TGTAAGACCATATCTGGGATGTTGGCAT
19004872 TGTACAAGCT
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
42 26 0.30
43 37 0.43
44 24 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:19009774 original size:38 final size:38
Alignment explanation
Indices: 19009718--19010025 Score: 440
Period size: 38 Copynumber: 8.1 Consensus size: 38
19009708 GTATTTGATG
*
19009718 TATATCCGGGTTTTATCCCGCAGGTTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
** **
19009756 TATATCCGGGTTAAATCCCGTTGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
** *
19009794 TATATCCGAATTTTATACCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
19009832 TATATCCGTGTTTTATCCCGCAGGCTTCA-TGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-AGTGCTGGTAT
19009870 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* *
19009908 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGAAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* *
19009946 TATATCCGGG-TTTATCCCGCAAGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* ** *
19009983 TATATCCGAGTTAAATTCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
19010021 TATAT
1 TATAT
19010026 TCGAGCTTAA
Statistics
Matches: 241, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
37 35 0.15
38 205 0.85
39 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
Found at i:19014595 original size:43 final size:42
Alignment explanation
Indices: 19014487--19014603 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
19014477 GACTTGAGAT
* * * *
19014487 TTACGTGTAAGACCATGTCCGGGACA-TCGTCATCGTATATGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCGTATATCA
* * *
19014529 TTTCATGTAAGACC-TGTTTGGGACAGTGGCATCGATATTTCA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCG-TATATCA
*
19014571 TTACATGTACGACCATGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCAT
19014604 TGTACAAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 15 0.25
42 31 0.51
43 15 0.25
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATATCA
Found at i:19022989 original size:49 final size:48
Alignment explanation
Indices: 19022929--19023200 Score: 236
Period size: 49 Copynumber: 5.7 Consensus size: 48
19022919 TCGATCAAGT
* *
19022929 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-AAATCGAGGC
* * *
19022978 CGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTCG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-A-A-TCGAGGC
* * **
19023028 CGATGCCATGTCCCATACAT-GTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CAAATCGAGGC
* * *** * * *
19023075 TGATG-CATGTCCCAGAAAT-GTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAAATCGAGGC
* * *
19023121 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-AATCGAGGC
* *
19023169 CGATG-CATGTTCCAGACAT-ATCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
19023201 ACACGAATAA
Statistics
Matches: 180, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
46 50 0.28
47 31 0.17
48 24 0.13
49 51 0.28
50 21 0.12
51 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAAATCGAGGC
Found at i:19023174 original size:94 final size:93
Alignment explanation
Indices: 19022905--19023200 Score: 291
Period size: 94 Copynumber: 3.1 Consensus size: 93
19022895 GACACACAAC
* * **
19022905 CTTACACTGGCTCATCGATCAA-GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGA
1 CTTACACTAGCTC-TCGCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TC-A
*
19022969 -AATCGAGGCCGACGCCATGTCCCA-AACATGGT
63 TAATCGAGGCCGATG-CATGTCCCAGAA-AT-GT
* * *
19023001 CTTACACTAGCTCTCACAT-ATTCGTGCCGATGCCATGTCCCATACAT-GTCTTACACTGGCTTA
1 CTTACACTAGCTCTCGC-TCAAT-GT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTT-
* *
19023064 CAT-CTCGAGGCTGATGCATGTCCCAGAAATGT
61 CATAATCGAGGCCGATGCATGTCCCAGAAATGT
*
19023096 CTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 CTTACACTAGCTCTCG-CTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCAT
* * * *
19023161 AAT-GTGGCCGATGCATGTTCCAGACATAT
64 AATCGAGGCCGATGCATGTCCCAGAAATGT
19023190 CTTACACTAGC
1 CTTACACTAGC
19023201 ACACGAATAA
Statistics
Matches: 167, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
93 18 0.11
94 49 0.29
95 25 0.15
96 27 0.16
97 16 0.10
98 13 0.08
99 19 0.11
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
CTTACACTAGCTCTCGCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAA
TCGAGGCCGATGCATGTCCCAGAAATGT
Found at i:19026682 original size:31 final size:31
Alignment explanation
Indices: 19026641--19026700 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
19026631 CCTTTTCATA
*
19026641 TTTCATATTTCATAACACTGGGCCGAAGCGT
1 TTTCAAATTTCATAACACTGGGCCGAAGCGT
** *
19026672 TTTCAAATTTCATATTACTGGGCTGAAGC
1 TTTCAAATTTCATAACACTGGGCCGAAGC
19026701 CTTTACGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCGT
Found at i:19026949 original size:24 final size:24
Alignment explanation
Indices: 19026897--19027086 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
19026887 GCTTTATCAT
* *
19026897 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
19026922 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
19026946 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
19026969 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
19026993 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
19027017 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
19027041 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
19027064 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19027087 TCACTTCCTC
Statistics
Matches: 154, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
23 43 0.28
24 99 0.64
25 12 0.08
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:19026977 original size:47 final size:48
Alignment explanation
Indices: 19026896--19027087 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
19026886 TGCTTTATCA
* *
19026896 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
19026945 TATAACTGGGGCATAAGCCC-TTTGATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
19026992 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
19027040 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
19027087 T
1 T
19027088 CACTTCCTCC
Statistics
Matches: 133, Mismatches: 8, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
47 69 0.52
48 51 0.38
49 13 0.10
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:19026998 original size:71 final size:72
Alignment explanation
Indices: 19026897--19027087 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 72
19026887 GCTTTATCAT
* *
19026897 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
19026961 GCCC-TTTG
64 GCCCTTTTG
* * *
19026969 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
19027034 CCTTTTG
66 CCTTTTG
19027041 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
19027088 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 76 0.69
72 34 0.31
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTG
Found at i:19027158 original size:9 final size:9
Alignment explanation
Indices: 19027144--19027200 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
19027134 ATCTCGTGTG
19027144 CATATCATA
1 CATATCATA
*
19027153 CATATCATGTG
1 CATATCA--TA
19027164 CATATCATA
1 CATATCATA
* *
19027173 CATGTCATGTG
1 CATATCA--TA
19027184 CATATCATA
1 CATATCATA
19027193 CATATCAT
1 CATATCAT
19027201 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:19027163 original size:20 final size:20
Alignment explanation
Indices: 19027140--19027202 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
19027130 GAACATCTCG
19027140 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
19027160 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
19027180 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
19027200 TGT
1 TGT
19027203 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:19027285 original size:25 final size:25
Alignment explanation
Indices: 19027239--19027286 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
19027229 ATATATAAAC
* * * *
19027239 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
19027264 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
19027287 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:19028553 original size:27 final size:27
Alignment explanation
Indices: 19028524--19028779 Score: 306
Period size: 27 Copynumber: 9.6 Consensus size: 27
19028514 GGGTATTTTA
* * *
19028524 GTAATTTTGTAAATCGAGGATAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19028551 GTAATTCTGTAAATCAAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19028578 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19028605 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
19028632 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19028659 ATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
19028685 GTAATTATGT-AATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
19028710 ATAATTCTGTAAATCG-GGAGTCAAATA
1 GTAATTCTGTAAATCGAGG-GTAAAACG
19028737 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
19028764 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
19028780 GGAGTACTTT
Statistics
Matches: 197, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
25 22 0.11
26 26 0.13
27 146 0.74
28 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:19028761 original size:132 final size:135
Alignment explanation
Indices: 19028525--19028779 Score: 356
Period size: 132 Copynumber: 1.9 Consensus size: 135
19028515 GGTATTTTAG
* * * *
19028525 TAATTTTGTAAATCGAGGATAAAACAGTAATTCTGTAAATCAAGGGTGAAACGGTAATTCTATAA
1 TAATTATGTAAATCGAGGATAAAACAGTAATTATGTAAATCAAGGGTAAAACGATAATTCTATAA
* *
19028590 ATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
66 ATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
19028655 AACGA
131 AACGA
* * ** *
19028660 TAATTATGTAAATCG-GGGTAAAACGGTAATTATGT-AAT-TGGGGTAAAACGATAATTCTGTAA
1 TAATTATGTAAATCGAGGATAAAACAGTAATTATGTAAATCAAGGGTAAAACGATAATTCTATAA
* *
19028722 ATCG-GGAGTCAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
66 ATCGAGG-GTAAAATAGTAATTCTATAAACTGAGGGTAAAACGGTAATTCTGTAAATCG
19028780 GGAGTACTTT
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
131 2 0.02
132 70 0.66
133 3 0.03
134 17 0.16
135 14 0.13
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGATAAAACAGTAATTATGTAAATCAAGGGTAAAACGATAATTCTATAA
ATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
AACGA
Found at i:19031993 original size:49 final size:51
Alignment explanation
Indices: 19031828--19032009 Score: 158
Period size: 49 Copynumber: 3.6 Consensus size: 51
19031818 TAGTACGCAG
* ** * * *
19031828 AGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACCATCTCA--TTCAGGT
1 AGTAGCCTGCACTTAGTACTACACACGCGATCC-AAGTA-ATCAGGTACACGT
* * * * * *
19031878 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTAATCAGGTACACGT
* * *
19031929 AGTAGACTGCACTTAGTACTACACATGCGA-CCAA-TAATCAGGTACATGT
1 AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTAATCAGGTACACGT
* *
19031978 AGTAGCCTGCGCTTAGTACTACACACACGATC
1 AGTAGCCTGCACTTAGTACTACACACGCGATC
19032010 TTACAATATA
Statistics
Matches: 105, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
49 38 0.36
50 36 0.34
51 31 0.30
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (51 bp):
AGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTAATCAGGTACACGT
Found at i:19035044 original size:64 final size:70
Alignment explanation
Indices: 19034939--19035090 Score: 190
Period size: 67 Copynumber: 2.2 Consensus size: 70
19034929 CATCATGTGT
* * * *
19034939 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-T-ATGTACACCA
1 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
19035002 TGTAG
66 TGTAG
* * *
19035007 ACAAGAGAGCTAC-GGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACC
1 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACC
19035068 ATGTAG
65 ATGTAG
19035074 ACAAGAGAGCTACAAGA
1 ACAAGAGAGCTACAAGA
19035091 TAAACTGACT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
64 24 0.33
65 3 0.04
66 2 0.03
67 28 0.39
68 15 0.21
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
TGTAG
Found at i:19036236 original size:2 final size:2
Alignment explanation
Indices: 19036229--19036260 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19036219 GTATCATGAC
19036229 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19036261 GACTAGTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19040459 original size:50 final size:50
Alignment explanation
Indices: 19040340--19040478 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
19040330 AGCTATCTGG
* * * * ** *
19040340 TACACATAGTAGCTTGCACTTTGTACTACACATGTGACC-AATTATCCAG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGATCCAA
*
19040389 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGATCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGATCCAA
19040439 TACACGTAGTAGCCAT-CACTTAGTACTACACACGTGACCT
1 TACACGTAGTAGCC-TGCACTTAGTACTACACACGTGACCT
19040479 CACAATAGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
49 35 0.44
50 44 0.55
51 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGATCCAA
Found at i:19042981 original size:49 final size:50
Alignment explanation
Indices: 19042904--19043147 Score: 258
Period size: 49 Copynumber: 4.9 Consensus size: 50
19042894 CCGTTTTGAG
* * *
19042904 TCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGACAATT-GA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
* * * * * * *
19042953 TCGCATGTGTAGTACTATGTACAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGA
* * * * ** *
19043004 TCACATGTGTAGTAATAAGTGTAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
* *
19043054 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
* * * *
19043103 TCACATGTGTAATACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
19043148 CCTTGTCTAC
Statistics
Matches: 162, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 79 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGA
Found at i:19049034 original size:49 final size:49
Alignment explanation
Indices: 19048859--19049048 Score: 188
Period size: 50 Copynumber: 3.8 Consensus size: 49
19048849 GTGAGTCATG
* * * *
19048859 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-TTAGGTC-CA
* * * * **
19048910 TTTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCCA
* *
19048958 TGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTC-CA
*
19049009 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
19049049 CCTTGTCTAC
Statistics
Matches: 115, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
48 5 0.04
49 36 0.31
50 39 0.34
51 35 0.30
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAGGTCCA
Found at i:19056218 original size:40 final size:40
Alignment explanation
Indices: 19056163--19056248 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
19056153 TTATTTGATG
19056163 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
19056203 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
19056243 TGGAAT
1 TGGAAT
19056249 GACATCCGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:19056274 original size:39 final size:40
Alignment explanation
Indices: 19056163--19056275 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
19056153 TTATTTGATG
* *
19056163 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
19056203 TGGAATTGTATCTGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
19056243 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-CATCCGGGCTTAAAGACCCGCAGGCT
19056276 GTGCTAAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 17 0.25
40 51 0.75
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TGGAATTGCATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:19057551 original size:27 final size:27
Alignment explanation
Indices: 19057521--19057703 Score: 69
Period size: 27 Copynumber: 6.8 Consensus size: 27
19057511 CGACTTGTAA
*
19057521 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
19057548 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** * *
19057575 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCCCCGATTTACAG
* *** **
19057602 AATTACTATTTTACCCTTGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
***** * *
19057629 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAAGTACCCCCGATTTACAG
* * ** * *
19057656 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAGTACCCCCGATTTACAG
* *
19057683 AATTACCAAAATACCCTCGAT
1 AATTACCAAAGTACCCCCGAT
19057704 CAGTAAAATT
Statistics
Matches: 133, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:19057579 original size:54 final size:54
Alignment explanation
Indices: 19057505--19057634 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
19057495 ATTATTGAAA
* *
19057505 TACCCTCGACTTGTA-A-AATTACCAAAGTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGA-TT-TACAGAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
**** * * *
19057559 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
*
19057613 TACCCTTGATTTACAGAATTAC
1 TACCCTCGATTTACAGAATTAC
19057635 TGTTTTACCC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.03
53 3 0.05
54 59 0.92
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCAAAGTACCCCCGATTTACAGAATTACCATTT
Found at i:19057640 original size:54 final size:54
Alignment explanation
Indices: 19057532--19057689 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 54
19057522 ATTACCAAAG
* * ** *
19057532 TACCCCCGATTTACATAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
* * *
19057586 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
*** * *
19057640 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACC
19057690 AAAATACCCT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTATTTTACCCTTGATTTACAGAATTACCGTTT
Found at i:19057698 original size:54 final size:54
Alignment explanation
Indices: 19057586--19057949 Score: 175
Period size: 54 Copynumber: 6.7 Consensus size: 54
19057576 ATTACCGTTT
* * *** * * ****
19057586 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * *
19057640 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * * *
19057694 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTCTATAAATTTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * * ** *
19057747 TGCCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * *** **
19057801 TACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACTAAAA
1 TACC-CTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
* * * * *
19057855 TACCC-CTGATTTACAAAATTGCAAAAATACGCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCTTG-GTTTAC--AAAATTACTA-AAA
* * * * **
19057911 TACCATTGGTTTAAAAAATTACTGAAATACCCTTGGTTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTT
19057950 GTAGATTTAC
Statistics
Matches: 239, Mismatches: 58, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
52 1 0.00
53 42 0.18
54 151 0.63
55 9 0.04
56 36 0.15
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTTGGTTTACAAAATTACTAAAA
Found at i:19057698 original size:81 final size:81
Alignment explanation
Indices: 19057502--19057703 Score: 206
Period size: 81 Copynumber: 2.5 Consensus size: 81
19057492 CCAATTATTG
* ** * * *
19057502 AAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCG
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCG
* *
19057567 ATTTACAGAATTACCG
66 ATTTACAAAATTACCA
*** * * * *** * *
19057583 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCG
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCG
*
19057648 ATTTACAAAATTACTA
66 ATTTACAAAATTACCA
* *
19057664 AAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGAT
1 AAATACCCTCGATTTACAAAATTACCAAAATACCCTCGAT
19057704 CAGTAAAATT
Statistics
Matches: 92, Mismatches: 29, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
81 92 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (81 bp):
AAATACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCG
ATTTACAAAATTACCA
Found at i:19057711 original size:27 final size:27
Alignment explanation
Indices: 19057640--19057859 Score: 178
Period size: 27 Copynumber: 8.2 Consensus size: 27
19057630 ATTACTGTTT
** *
19057640 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
19057667 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
19057694 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * * * *
19057721 TACCCTAG-TCTATAAATTTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
19057747 TGCCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
*
19057774 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
19057801 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
* *
19057828 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
19057855 TACCC
1 TACCC
19057860 CTGATTTACA
Statistics
Matches: 153, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 20 0.13
27 132 0.86
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:19057866 original size:27 final size:27
Alignment explanation
Indices: 19057654--19057884 Score: 175
Period size: 27 Copynumber: 8.6 Consensus size: 27
19057644 CTCGATTTAC
* * * **
19057654 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
19057681 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
19057708 AAAATTACCAAAATA-CCCT-AGTCTAT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * * * *
19057734 AAATTTGCTAAAATGCCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
19057761 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
19057788 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
19057815 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* **
19057842 AAAATTACTAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* *
19057869 AAAATTGCAAAAATAC
1 AAAATTACCAAAATAC
19057885 GCTTGACTTT
Statistics
Matches: 160, Mismatches: 36, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.01
26 20 0.12
27 135 0.84
28 4 0.03
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:19057937 original size:27 final size:27
Alignment explanation
Indices: 19057897--19057949 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19057887 TTGACTTTCT
19057897 AAAAATTATAGAAATACCATTGGTTTA
1 AAAAATTATAGAAATACCATTGGTTTA
*
19057924 AAAAATTACT-GAAATACCCTTGGTTT
1 AAAAATTA-TAGAAATACCATTGGTTT
19057950 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (27 bp):
AAAAATTATAGAAATACCATTGGTTTA
Found at i:19058067 original size:27 final size:27
Alignment explanation
Indices: 19057961--19058067 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
19057951 TAGATTTACC
*
19057961 AAAACACCCTTGTAGGGTGAAATGA-C-T
1 AAAAC-CCC-TGTAGGGTAAAATGACCGT
* *
19057988 AAAATACCCCTATTA-GGTAAAAAGACCGT
1 -AAA-ACCCCT-GTAGGGTAAAATGACCGT
* *
19058017 AAAGCCCCTGTAGGGTAAAGTGACCGT
1 AAAACCCCTGTAGGGTAAAATGACCGT
*
19058044 AAAACCCCTGTATGGTAAAATGAC
1 AAAACCCCTGTAGGGTAAAATGAC
19058068 GAATATGCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
26 2 0.03
27 47 0.73
28 12 0.19
29 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
AAAACCCCTGTAGGGTAAAATGACCGT
Found at i:19058835 original size:16 final size:16
Alignment explanation
Indices: 19058814--19058844 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19058804 CAAATATGGG
*
19058814 CATGACATTTTGCATA
1 CATGACATGTTGCATA
19058830 CATGACATGTTGCAT
1 CATGACATGTTGCAT
19058845 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:19058913 original size:25 final size:24
Alignment explanation
Indices: 19058875--19058943 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 24
19058865 AGGAAGTGCT
* *
19058875 AAAAAGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
19058899 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
19058924 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19058944 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 20 0.49
25 21 0.51
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:19058950 original size:23 final size:24
Alignment explanation
Indices: 19058875--19058956 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
19058865 AGGAAGTGCT
* * *
19058875 AAAAAGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
19058899 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
19058924 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
19058947 AAAAGAGGCT
1 AAAAG-GGCT
19058957 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 9 0.17
24 22 0.42
25 21 0.40
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:19059194 original size:31 final size:31
Alignment explanation
Indices: 19059159--19059298 Score: 226
Period size: 31 Copynumber: 4.5 Consensus size: 31
19059149 ATTTACAGTA
**
19059159 AAGGCTTCGGCCCAAAGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
19059190 AAGGCTTCAGCCTAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
19059221 AAGGCTTCGGCCCAGTGATATGATTTATGAT
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
* *
19059252 AAGGCTTCGGCCCAGTGATGTGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAT
19059283 AAGGCTTCGGCCCAGT
1 AAGGCTTCGGCCCAGT
19059299 AACCGTTAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAT
Found at i:19059827 original size:41 final size:40
Alignment explanation
Indices: 19059774--19059943 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
19059764 AGTCCGACTC
*
19059774 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
19059813 TTAGACTACTGGCTCGAAGGCCCTTC-AGAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
19059853 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
19059898 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
19059937 TTTAGAC
1 -TTAGAC
19059944 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 19 0.18
41 50 0.47
42 18 0.17
43 11 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:19068162 original size:41 final size:40
Alignment explanation
Indices: 19068109--19068278 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
19068099 AGTCCGACTC
*
19068109 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
19068148 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
19068188 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
19068233 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
19068272 TTTAGAC
1 -TTAGAC
19068279 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:19071486 original size:22 final size:23
Alignment explanation
Indices: 19071461--19071510 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
19071451 GTGCCTTTTG
*
19071461 AGGGCTTA-GGTATATG-TGCAAA
1 AGGGATTACGGTATATGTTG-AAA
19071483 AGGGATTATCGGTATATGTTGAAA
1 AGGGATTA-CGGTATATGTTGAAA
19071507 AGGG
1 AGGG
19071511 TGAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
24 15 0.62
25 2 0.08
ACGTcount: A:0.32, C:0.06, G:0.34, T:0.28
Consensus pattern (23 bp):
AGGGATTACGGTATATGTTGAAA
Found at i:19073079 original size:40 final size:40
Alignment explanation
Indices: 19073034--19073200 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19073024 CGGAATATAA
19073034 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
19073074 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
19073114 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19073154 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19073193 CCGGATAT
1 CCGGATAT
19073201 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19081058 original size:40 final size:40
Alignment explanation
Indices: 19081013--19081179 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
19081003 CGGAATATAA
19081013 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
19081053 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
19081093 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
19081133 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
19081172 CCGGATAT
1 CCGGATAT
19081180 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:19083211 original size:15 final size:15
Alignment explanation
Indices: 19083179--19083207 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19083169 ATTTTTTGTG
19083179 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
19083194 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
19083208 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:19084501 original size:43 final size:41
Alignment explanation
Indices: 19084348--19084502 Score: 97
Period size: 43 Copynumber: 3.7 Consensus size: 41
19084338 TGTGTTCTCG
* *
19084348 TGTAAGACCACGTTTGGGACGTTGGCATCGGTATGTAATTATG-
1 TGTAAGACCACGTCTGGGACGTTGGCATC-GTATGTTA-TA-GC
* * * *
19084391 TGTAAGACCATGTCTGGGACATCGGCATCGTAT-TTGAT-TC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATGTT-ATAGC
* *
19084431 GTATAAGAGCCTA--TCTGGGATAG-TGGCATCGATATGTTATAGC
1 -TGTAAGA-CC-ACGTCTGGGA-CGTTGGCATCG-TATGTTATAGC
*
19084474 ATGTAAGACCACGTTTGGGACGTTGGCAT
1 -TGTAAGACCACGTCTGGGACGTTGGCAT
19084503 TGTACGATCT
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
41 23 0.27
42 15 0.18
43 47 0.55
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATGTTATAGC
Found at i:19090460 original size:31 final size:31
Alignment explanation
Indices: 19090422--19090496 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
19090412 ATGGTTACTG
19090422 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
19090453 GGCCGAAGCCTTTTCATAAATCATTTCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
19090484 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
19090497 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:19090567 original size:42 final size:42
Alignment explanation
Indices: 19090520--19090611 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
19090510 TGGCCCATAG
* ** *
19090520 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
19090562 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
19090604 GCCCATTT
1 GCCCATTT
19090612 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:19090833 original size:26 final size:26
Alignment explanation
Indices: 19090744--19090879 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
19090734 CTGGAGGCCT
19090744 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
19090768 AGCCCTTTTCGGTAAACTGAGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
19090793 AGCCCTTTTAAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
19090819 AGCCTTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
19090845 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
19090871 AGCCTTTTT
1 AGCCCTTTT
19090880 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.31
26 56 0.58
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:19090862 original size:52 final size:50
Alignment explanation
Indices: 19090744--19090879 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 50
19090734 CTGGAGGCCT
* *
19090744 AGCCTCTTTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGAGGCAA
1 AGCC-CTTTTAATAAACTGGGGCATAAGCCTTTTTCGATAAACTGAGGCAA
*
19090793 AGCCCTTTTAAATAAACTGGGGCATAAGCCTTTTTCGATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATAAGCCTTTTTCGATAAACTGAGGCA-A
19090845 AGCCCTTTTCAATAAACTGGGGCATAAGCCTTTTT
1 AGCCCTTTT-AATAAACTGGGGCATAAGCCTTTTT
19090880 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.13
51 22 0.28
52 35 0.44
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTAATAAACTGGGGCATAAGCCTTTTTCGATAAACTGAGGCAA
Found at i:19090954 original size:20 final size:20
Alignment explanation
Indices: 19090929--19091015 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
19090919 TTATGAATAC
19090929 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
19090949 ATCATGTGCATTTCATGCAT
1 ATCATGTGCATTTCATACAT
*
19090969 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
19090989 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
19091009 ATCATGT
1 ATCATGT
19091016 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:19090978 original size:11 final size:11
Alignment explanation
Indices: 19090929--19091004 Score: 56
Period size: 11 Copynumber: 7.5 Consensus size: 11
19090919 TTATGAATAC
19090929 ATCATGTGCAT
1 ATCATGTGCAT
* *
19090940 TTCA--TACAT
1 ATCATGTGCAT
19090949 ATCATGTGCAT
1 ATCATGTGCAT
*
19090960 TTCA--TGCAT
1 ATCATGTGCAT
19090969 ATCATGTGCAT
1 ATCATGTGCAT
* * *
19090980 -T-TTATACAT
1 ATCATGTGCAT
19090989 ATCATGTGCAT
1 ATCATGTGCAT
19091000 ATCAT
1 ATCAT
19091005 ATCAATCATG
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:19091021 original size:9 final size:10
Alignment explanation
Indices: 19090946--19091022 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
19090936 GCATTTCATA
19090946 CATATCATGT
1 CATATCATGT
*
19090956 GCATTTCATG-
1 -CATATCATGT
19090966 CATATCATGT
1 CATATCATGT
* * *
19090976 GCATTTTAT-A
1 -CATATCATGT
19090986 CATATCATGT
1 CATATCATGT
*
19090996 GCATATCATAT
1 -CATATCATGT
19091007 CA-ATCATGT
1 CATATCATGT
19091016 -ATATCAT
1 CATATCAT
19091023 ATCCCACGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 2 0.04
11 23 0.45
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (10 bp):
CATATCATGT
Found at i:19091757 original size:27 final size:26
Alignment explanation
Indices: 19091727--19091799 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
19091717 TATTCATCAT
19091727 TTTACCATATAAGGGTATTACGGTCAC
1 TTTACC-TATAAGGGTATTACGGTCAC
* * **
19091754 TTTACCCTACAGGGGCT-TTACGGTCTT
1 TTTA-CCTATAAGGG-TATTACGGTCAC
19091781 TTTACCTATTAAGGGTATT
1 TTTACCTA-TAAGGGTATT
19091800 TTAGTCATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
26 5 0.14
27 28 0.78
28 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (26 bp):
TTTACCTATAAGGGTATTACGGTCAC
Found at i:19091970 original size:27 final size:27
Alignment explanation
Indices: 19091928--19092031 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
19091918 AGGGGTATTT
*
19091928 CAGTAATT-T-TACAATCGAGGGTAAAA
1 CAGTAATTCTGTA-AATCAAGGGTAAAA
*
19091954 C-GATAATTTTGTAAATCAAGGGTAAAA
1 CAG-TAATTCTGTAAATCAAGGGTAAAA
* *
19091981 TAGTAATTCTGTAAATCAAGGGTCAAA
1 CAGTAATTCTGTAAATCAAGGGTAAAA
* *
19092008 CAGTAATTCTATAAATCGAGGGTA
1 CAGTAATTCTGTAAATCAAGGGTA
19092032 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
25 1 0.02
26 6 0.09
27 56 0.85
28 3 0.05
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (27 bp):
CAGTAATTCTGTAAATCAAGGGTAAAA
Found at i:19092040 original size:27 final size:27
Alignment explanation
Indices: 19092010--19092233 Score: 134
Period size: 27 Copynumber: 8.3 Consensus size: 27
19092000 GGGTCAAACA
* *
19092010 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAATTTG
* *
19092037 GTAATTTT-TACAAGTCGATGGT-ATTTCA
1 GTAATTTTATA-AA-TCGAGGGTAATTT-G
* * *
19092065 GTAATTTTACAAATC-AGGGGTATTTTA
1 GTAATTTTATAAATCGA-GGGTAATTTG
* * * *
19092092 GTAATTTTACAAA-CCAGGGGTATTTTA
1 GTAATTTTATAAATCGA-GGGTAATTTG
* ** **
19092119 GTAATTTTGTAAATTAAGGGTAAAACT-
1 GTAATTTTATAAATCGAGGGT-AATTTG
* **
19092146 GTAATTTTATAAATCAAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAATTTG
***
19092173 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAATTTG
* * *
19092200 GTAATTCTATAAATCGGGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAATTTG
19092227 GTAATTT
1 GTAATTT
19092234 GGTAAACTAA
Statistics
Matches: 161, Mismatches: 26, Indels: 20
0.78 0.13 0.10
Matches are distributed among these distances:
26 8 0.05
27 129 0.80
28 23 0.14
29 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAATTTG
Found at i:19092150 original size:54 final size:54
Alignment explanation
Indices: 19092092--19092239 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 54
19092082 GGGTATTTTA
* * * * * *
19092092 GTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATTAAGGGTAAAACT
1 GTAATTTTATAAATCAGGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACG
* ** * *
19092146 GTAATTTTATAAATCAAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCAGGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACG
* * * *
19092200 GTAATTCTATAAATCGGGGGTACTTTGGTAATTTGGTAAA
1 GTAATTTTATAAATCAGGGGTAATTTGGTAATTTTGTAAA
19092240 CTAAAGTATT
Statistics
Matches: 75, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (54 bp):
GTAATTTTATAAATCAGGGGTAATTTGGTAATTTTGTAAATCAAGGGTAAAACG
Found at i:19094519 original size:31 final size:31
Alignment explanation
Indices: 19094441--19094584 Score: 161
Period size: 31 Copynumber: 4.7 Consensus size: 31
19094431 TTAGTCTTCA
*
19094441 CATAT-ACTGGGCCGAAGCC-TTTCATTTAAT
1 CATATCACTGGGCCGAAGCCTTTTCA-TAAAT
** *
19094471 GGT-T-ACTGGGCCTAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
19094500 CATATAACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
19094531 CATATCTCTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
19094562 CATATCACCGGGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
19094585 ACTGTAAACG
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
29 19 0.20
30 7 0.07
31 71 0.73
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:19094655 original size:42 final size:42
Alignment explanation
Indices: 19094608--19094699 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
19094598 TGGCCCATAG
* **
19094608 GCCCATTTCAATATCACATGTAATGTCAAT-AGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGA-ATGTATGCAA
*
19094650 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
19094692 GCCCATTT
1 GCCCATTT
19094700 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:19094922 original size:26 final size:26
Alignment explanation
Indices: 19094832--19094967 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
19094822 CTGGAGGCCT
*
19094832 AGCCTCTTTT-AAT-AACTGGGACA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
***
19094856 AGCCCTTTTTGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
19094881 AACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
19094907 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
19094933 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
19094959 AGCCCTTTT
1 AGCCCTTTT
19094968 GCTCTTCCTC
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.31
26 57 0.59
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Done.