Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 67 of 279
Found at i:22230741 original size:290 final size:289
Alignment explanation
Indices: 22230206--22231008 Score: 1203
Period size: 290 Copynumber: 2.8 Consensus size: 289
22230196 TTTGCAAGGA
22230206 AAATTCCCAAAAAACATTTTTGATTTGCCAAACCTCAATCTCCTCAACTTGAGACGCAACCAATT
1 AAATTCCCAAAAAACATTTTTGATTTGCCAAACCTCAATCTCCTCAACTTGAGACGCAACCAATT
22230271 GAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAGAGA
66 GAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAGAGA
*
22230336 ACCAATTGAGGGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG
131 ACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG
* * *
22230401 TCAGAGAACCAATTGAGGGGACAAATTCCAAGATCATGGGGGAACCTCTTGCAACTCCCTCATTT
196 TCAGGGAACCAATTGAGTGGACAAATTCCAAGATCATGGGGGAACCTCTTGCAACTCACTCATTT
22230466 AGACTTGTCAG-AAAACCAATTGAGGGGAC
261 AGACTTGTC-GTAAAACCAATTGAGGGGAC
22230495 AAATTCCCCAAAAAACATTTTTGATTTGCCAAACCTCAATCTCCTCAACTTGAGACGCAACCAAT
1 AAATT-CCCAAAAAACATTTTTGATTTGCCAAACCTCAATCTCCTCAACTTGAGACGCAACCAAT
22230560 TGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAGAG
65 TGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAGAG
22230625 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
130 AACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTT
* * *
22230690 GTC-GTGGAACCAATTGAGTGGACAAATTCCAATATCATTGGGGAGCCTCTTGCAACTCACTCAT
195 GTCAG-GGAACCAATTGAGTGGACAAATTCCAAGATCATGGGGGAACCTCTTGCAACTCACTCAT
** * *
22230754 TTAGACTTGTCGTGGAACCGATTGAGTGGAC
259 TTAGACTTGTCGTAAAACCAATTGAGGGGAC
* * *** * * * * *
22230785 AAATT-CC-AATATCATTGGGGAGCCTCTTG-C-AA-CTC-A-CTCATTTAGACTTGTCG-TGGA
1 AAATTCCCAAAAAACATTTTTGA---T-TTGCCAAACCTCAATCTC-CTCA-ACTTG-AGACGCA
* * *
22230842 ACCGATTGAGTGGACAAATTCCAAGATCATTGGGGAATCTCTTGCAACTCACTCAATTAGACTTG
59 ACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG
* **
22230907 TCAGAGAACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCACTTGCAACTCACTGTTTT
124 TCAGAGAACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTT
22230972 AGACTTGTCAGGGAACCAATTGAGTGGACAAATTCCA
189 AGACTTGTCAGGGAACCAATTGAGTGGACAAATTCCA
22231009 TTGTCAATTC
Statistics
Matches: 476, Mismatches: 27, Indels: 23
0.90 0.05 0.04
Matches are distributed among these distances:
286 3 0.01
287 12 0.03
288 171 0.36
289 11 0.02
290 276 0.58
291 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (289 bp):
AAATTCCCAAAAAACATTTTTGATTTGCCAAACCTCAATCTCCTCAACTTGAGACGCAACCAATT
GAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAGAGA
ACCAATTGAGTGGACAAATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTG
TCAGGGAACCAATTGAGTGGACAAATTCCAAGATCATGGGGGAACCTCTTGCAACTCACTCATTT
AGACTTGTCGTAAAACCAATTGAGGGGAC
Found at i:22233467 original size:30 final size:30
Alignment explanation
Indices: 22233431--22233490 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22233421 AGGAAACAAG
22233431 ACCATGTCAAAATTTCCAAAAATTAGTCAT
1 ACCATGTCAAAATTTCCAAAAATTAGTCAT
22233461 ACCATGTCAAAATTTCCAAAAATTAGTCAT
1 ACCATGTCAAAATTTCCAAAAATTAGTCAT
22233491 TCATTTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (30 bp):
ACCATGTCAAAATTTCCAAAAATTAGTCAT
Found at i:22234246 original size:87 final size:87
Alignment explanation
Indices: 22234080--22234286 Score: 220
Period size: 87 Copynumber: 2.4 Consensus size: 87
22234070 AGTCCCTCTT
* * * * *
22234080 TTTTTTTTTACACTCAATTGAGTACTTAAACTTTTAAAATGTATCAAAAATATCTTAACACTTCT
1 TTTTTTTTTCCACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAATACCTTAACACTTCT
22234145 TCAAAAAAAGCAATTAAACCCC
66 TCAAAAAAAGCAATTAAACCCC
* * ***
22234167 TTTTTTTTTCCGCTCAATTGGGTACTTGAA-TTTTCATAATGCATCAAAAATACCTTAATTTTTT
1 TTTTTTTTTCCACTCAATTGGGTACTTGAACTTTT-AAAATGCATCAAAAATACCTTAA-CACTT
* * * *
22234231 TTTCAAAGAAA-CAATTAAGCCTC
64 CTTCAAAAAAAGCAATTAAACCCC
* * *
22234254 TATTTTTTTCCTACTCAACTAGGTACTTGAACT
1 TTTTTTTTTCC-ACTCAATTGGGTACTTGAACT
22234287 GTCAAAAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
86 4 0.04
87 66 0.67
88 27 0.28
89 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (87 bp):
TTTTTTTTTCCACTCAATTGGGTACTTGAACTTTTAAAATGCATCAAAAATACCTTAACACTTCT
TCAAAAAAAGCAATTAAACCCC
Found at i:22234366 original size:10 final size:10
Alignment explanation
Indices: 22234330--22234450 Score: 72
Period size: 10 Copynumber: 12.4 Consensus size: 10
22234320 AAAATTAGAA
*
22234330 AAAAAATCAT
1 AAAAAATTAT
* *
22234340 -AAAAATAAA
1 AAAAAATTAT
*
22234349 AAAAAATTAG
1 AAAAAATTAT
22234359 AAAAAATTAT
1 AAAAAATTAT
* **
22234369 TAAATTTTA-
1 AAAAAATTAT
22234378 ATAAAAATT-T
1 A-AAAAATTAT
*
22234388 AAAAACTTAT
1 AAAAAATTAT
* *
22234398 TAAAAATTAG
1 AAAAAATTAT
*
22234408 AAAAAATTTT
1 AAAAAATTAT
*
22234418 AGAAAAATTGT
1 A-AAAAATTAT
*
22234429 CAAAAA--AT
1 AAAAAATTAT
22234437 AAAAAATTAT
1 AAAAAATTAT
22234447 AAAA
1 AAAA
22234451 TTTTATAATT
Statistics
Matches: 82, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
8 6 0.07
9 13 0.16
10 55 0.67
11 8 0.10
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:22234374 original size:49 final size:49
Alignment explanation
Indices: 22234321--22234415 Score: 111
Period size: 49 Copynumber: 1.9 Consensus size: 49
22234311 CTCTTATTAA
22234321 AAATTAGAAAAAAAATCATAAAAA-TAAAAAAAAATTAGAAAAAATTATT
1 AAATTAGAAAAAAAAT-ATAAAAACTAAAAAAAAATTAGAAAAAATTATT
** * * * **
22234370 AAATTTTAATAAAAATTTAAAAACTTATTAAAAATTAGAAAAAATT
1 AAATTAGAAAAAAAATATAAAAACTAAAAAAAAATTAGAAAAAATT
22234416 TTAGAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
48 6 0.16
49 32 0.84
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (49 bp):
AAATTAGAAAAAAAATATAAAAACTAAAAAAAAATTAGAAAAAATTATT
Found at i:22234412 original size:29 final size:28
Alignment explanation
Indices: 22234330--22234450 Score: 84
Period size: 29 Copynumber: 4.1 Consensus size: 28
22234320 AAAATTAGAA
* * *
22234330 AAAAAATCA-TAAAAATAAAAAAAAATTAG
1 AAAAAATTATTAAAAAT-TAAAAAAATT-T
**
22234359 AAAAAATTATTAAATTTTAATAAAAATTT
1 AAAAAATTATTAAAAATTAA-AAAAATTT
*
22234388 AAAAACTTATTAAAAATTAGAAAAAATTTT
1 AAAAAATTATTAAAAATTA-AAAAAA-TTT
* * *
22234418 AGAAAAATTGTCAAAAAAT-AAAAAATTAT
1 A-AAAAATTATTAAAAATTAAAAAAATT-T
22234447 AAAA
1 AAAA
22234451 TTTTATAATT
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.07
29 39 0.53
30 17 0.23
31 13 0.18
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAAATTATTAAAAATTAAAAAAATTT
Found at i:22238633 original size:21 final size:21
Alignment explanation
Indices: 22238607--22238646 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22238597 AAAGAGGAAG
**
22238607 TAGTTGTTAATTTTTTCGATT
1 TAGTTGTTAACCTTTTCGATT
22238628 TAGTTGTTAACCTTTTCGA
1 TAGTTGTTAACCTTTTCGA
22238647 AAGTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (21 bp):
TAGTTGTTAACCTTTTCGATT
Found at i:22240611 original size:84 final size:84
Alignment explanation
Indices: 22240462--22240642 Score: 314
Period size: 84 Copynumber: 2.2 Consensus size: 84
22240452 TATCAAAGAA
*
22240462 TTCC-AATC-CAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTGATAGAG
1 TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
22240525 TTTAGCATGTTCTCAAACC
66 TTTAGCATGTTCTCAAACC
*
22240544 TTCCAAATCTCAAATCACTAGAATATTTATTTCTAAACAATAATAATCTTAGTGGTGTCATAGAG
1 TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
*
22240609 TTTCGCATGTTCTCAAACC
66 TTTAGCATGTTCTCAAACC
22240628 TTCCAAATCT-AAATC
1 TTCCAAATCTCAAATC
22240643 TTCTCGACCT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
82 4 0.04
83 9 0.10
84 81 0.86
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (84 bp):
TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
TTTAGCATGTTCTCAAACC
Found at i:22247338 original size:90 final size:93
Alignment explanation
Indices: 22247156--22247347 Score: 241
Period size: 93 Copynumber: 2.1 Consensus size: 93
22247146 AAGCAATTAA
* * * *
22247156 GGCCTTTTTCATGCATTATGAAAGTTCAAGTACCGAATTGAGTGCAAGAAAAAAAAAGTAGGGGC
1 GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
** *
22247221 TTAATTGCTTTTTTTGAAAATGTTTGAG
66 TTAATTGCCATTTTTGAAAAAGTTTGAG
* * * *
22247249 GGCCTTTTTGATGTATTTTGAAAGTTCAAGTACCCAAATGAGTGC-A-TAAAAAGAA-CAGGGG-
1 GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
22247310 TTCAATTGCCATTTTTGAAAAAGTTTGAG
66 TT-AATTGCCATTTTTGAAAAAGTTTGAG
22247339 GG-CTTTTTG
1 GGCCTTTTTG
22247348 CACCCTTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
89 9 0.10
90 30 0.34
91 7 0.08
92 1 0.01
93 40 0.46
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (93 bp):
GGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAAATGAGTGCAAGAAAAAAAAAGCAGGGGC
TTAATTGCCATTTTTGAAAAAGTTTGAG
Found at i:22248794 original size:22 final size:21
Alignment explanation
Indices: 22248758--22248798 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22248748 GTTAAAAATG
22248758 ATTTTTTTAAAAAAATATTTTT
1 ATTTTTTTAAAAAAA-ATTTTT
**
22248780 ATTTTTTTATTAAAAATTT
1 ATTTTTTTAAAAAAAATTT
22248799 AGAATTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTTTAAAAAAAATTTTT
Found at i:22252868 original size:62 final size:61
Alignment explanation
Indices: 22252793--22252917 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 61
22252783 AAATGTCTAG
* * *
22252793 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTGAACTATCAATATGTGTTATTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATT-TTATTA
* * * *
22252855 TGGTACATGTACTTTGAAAATGTTTAATGTGGTACCTAAACTATCAATATATATTTTATTA
1 TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATTTTATTA
22252916 TG
1 TG
22252918 ATACTTGATA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
61 8 0.14
62 48 0.86
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (61 bp):
TGGTACAAGTACTTTGAAAATATATAATGTGGCACCTAAACTATCAATATATATTTTATTA
Found at i:22253085 original size:30 final size:30
Alignment explanation
Indices: 22253018--22253131 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 30
22253008 TTTCCTTTAA
* **
22253018 AATTTTTAGAAAA-TTTCAATTAAGCCCTCAA
1 AATTTTT-GAAAATTTTC-ATTAAGCACTCTT
*
22253049 AATTTTTGAAAATTTTCATTATA-C-CTTTT
1 AATTTTTGAAAATTTTCATTA-AGCACTCTT
* *
22253078 AATTTTTTAAAAAATTTTAATTAAGCACTCTT
1 AA-TTTTT-GAAAATTTTCATTAAGCACTCTT
* *
22253110 AAATTTTGAAAATTCTCATTAA
1 AATTTTTGAAAATTTTCATTAA
22253132 TCTCACAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
29 4 0.06
30 28 0.42
31 29 0.43
32 6 0.09
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (30 bp):
AATTTTTGAAAATTTTCATTAAGCACTCTT
Found at i:22253085 original size:61 final size:61
Alignment explanation
Indices: 22253011--22253130 Score: 161
Period size: 61 Copynumber: 2.0 Consensus size: 61
22253001 TTTGTTTTTT
* * *
22253011 CCTTTAAAATTTTTAGAAAATTTCAATTAAGCCCTC-AAAATTTTTGAAAATTTTCATTATA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAA-TTTTGAAAATTCTCATTATA
* * * *
22253072 CCTTTTAATTTTTTAAAAAATTTTAATTAAGCACTCTTAAATTTTGAAAATTCTCATTA
1 CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTA
22253131 ATCTCACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 48 0.94
62 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.45
Consensus pattern (61 bp):
CCTTTAAAATTTTTAAAAAATTTCAATTAAGCACTCTAAAATTTTGAAAATTCTCATTATA
Found at i:22259798 original size:61 final size:61
Alignment explanation
Indices: 22259731--22259862 Score: 158
Period size: 61 Copynumber: 2.1 Consensus size: 61
22259721 GTCTAATAAC
* * * *
22259731 AAATTTAGCCCTAAATGTTAACAAAACTT-GTCATTTTAGTTCAAATTCTAAAAATTTTAAT
1 AAATTTAACCCTAAATATTAACAAAAATTAG-CAATTTAGTTCAAATTCTAAAAATTTTAAT
* ** *
22259792 AAATTTAACCCTTAATATTTTCAAAAATTAGCAATTTAGTTCTAATTCTAAAAATTTTAAT
1 AAATTTAACCCTAAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAATTTTAAT
22259853 ATATATTTAA
1 A-A-ATTTAA
22259863 AAAAATATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
61 52 0.87
62 2 0.03
63 6 0.10
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (61 bp):
AAATTTAACCCTAAATATTAACAAAAATTAGCAATTTAGTTCAAATTCTAAAAATTTTAAT
Found at i:22263697 original size:26 final size:26
Alignment explanation
Indices: 22263668--22263720 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
22263658 GGTAAAAATT
22263668 ATATGAATAAACTTTTATAAATATAA
1 ATATGAATAAACTTTTATAAATATAA
22263694 ATATGAATAAACTTTTATAAATATAA
1 ATATGAATAAACTTTTATAAATATAA
22263720 A
1 A
22263721 GTGTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATGAATAAACTTTTATAAATATAA
Found at i:22265618 original size:24 final size:24
Alignment explanation
Indices: 22265586--22265632 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
22265576 GTCTATCAGA
22265586 AAGTTTTTCCTATGGTGAAAAGTG
1 AAGTTTTTCCTATGGTGAAAAGTG
22265610 AAGTTTTTCCTATGGTGAAAAGT
1 AAGTTTTTCCTATGGTGAAAAGT
22265633 TGCATTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (24 bp):
AAGTTTTTCCTATGGTGAAAAGTG
Found at i:22266089 original size:21 final size:21
Alignment explanation
Indices: 22266063--22266102 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22266053 AAAGAGGAAG
22266063 TAGTTGTTAACCTTTTCGATT
1 TAGTTGTTAACCTTTTCGATT
22266084 TAGTTGTTAACCTTTTCGA
1 TAGTTGTTAACCTTTTCGA
22266103 AAGTAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (21 bp):
TAGTTGTTAACCTTTTCGATT
Found at i:22268067 original size:84 final size:84
Alignment explanation
Indices: 22267918--22268098 Score: 314
Period size: 84 Copynumber: 2.2 Consensus size: 84
22267908 TATCAAAGAA
*
22267918 TTCC-AATC-CAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTGATAGAG
1 TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
22267981 TTTAGCATGTTCTCAAACC
66 TTTAGCATGTTCTCAAACC
*
22268000 TTCCAAATCTCAAATCACTAGAATATTTATTTCTAAACAATAATAATCTTAGTGGTGTCATAGAG
1 TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
*
22268065 TTTCGCATGTTCTCAAACC
66 TTTAGCATGTTCTCAAACC
22268084 TTCCAAATCT-AAATC
1 TTCCAAATCTCAAATC
22268099 TTCTCGACCT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
82 4 0.04
83 9 0.10
84 81 0.86
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (84 bp):
TTCCAAATCTCAAATCACTAGAATATTTATATCTAAACAATAATAATCTTAGTGGTGTCATAGAG
TTTAGCATGTTCTCAAACC
Found at i:22273204 original size:19 final size:19
Alignment explanation
Indices: 22273169--22273205 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22273159 AATATAATGT
*
22273169 TAAAATATTTATATAATAC
1 TAAAATATTTAGATAATAC
*
22273188 TAAAATATTTAGGTAATA
1 TAAAATATTTAGATAATA
22273206 TATGCGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAATATTTAGATAATAC
Found at i:22274974 original size:44 final size:43
Alignment explanation
Indices: 22274926--22275640 Score: 403
Period size: 44 Copynumber: 16.3 Consensus size: 43
22274916 CAAATACAGG
* *
22274926 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACGTGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATACG-GAA
** * * * *
22274970 GACAAGATCTATTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA-CGGAA
* * *
22275015 GACAAGATCGGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA-CGGAA
* * * ** *
22275058 GATAGGATCTGATATCTTCGATCTACTTCATGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATAC-GGAA
* * * *
22275102 GACAAAATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA-CGGAA
* * * *
22275147 GACAAGATCTGC-ATCTTCGGTCCACTGC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA-CGGAA
* * * ** *
22275190 GATAGGATCTGATATCTTCGATCTACTTCATGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATAC-GGAA
* * * *
22275234 GACAAAATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA-CGGAA
* * *
22275279 GACAAGATCTGC-ATCTTCGGTCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA-CGGAA
* * * ** *
22275322 GATAGGATCTGATATCTTCGATCTACTTCATGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATAC-GGAA
* * * * * *
22275366 GACAAGATCTGCTTTCTGCGATCTGCTTCGCCACAAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATA-CGGAA
* *
22275411 GACAAGATCTGC-ATCTTCGGTCCACTTC-CTACCGATATA-GGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACC-A-ATACGGAA
* * * * ** *
22275454 GATAGGATCTGATATCATCGATCTACTTCATGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATAC-GGAA
* * * * * * * *
22275498 GCCAAGATCTGCTTTCTGCGATCTGCTGCGC-CGTAA-ATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACAC-CAATA-CGGAA
* * * * *
22275541 GACAAAATCT-CCATCTTCGGTCCACTTC-CTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATA-CGGAA
* * * * *
22275584 GATAGGATCTGATATCTTCGATCTACTTCATACCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCACACCAATAC-GGAA
22275628 GACAAGATCTGCT
1 GACAAGATCTGCT
22275641 TTAATGACTT
Statistics
Matches: 499, Mismatches: 137, Indels: 70
0.71 0.19 0.10
Matches are distributed among these distances:
41 1 0.00
42 20 0.04
43 105 0.21
44 290 0.58
45 82 0.16
46 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
GACAAGATCTGCTATCTTCGATCTACTTCACACCAATACGGAA
Found at i:22275171 original size:132 final size:132
Alignment explanation
Indices: 22274931--22275642 Score: 1176
Period size: 132 Copynumber: 5.4 Consensus size: 132
22274921 ACAGGGACAA
* * * * **
22274931 GATCTGCTTTCTTCGATCTACTTCACGCCAATACGTGAAGACAAGATCTATTTTCTGCGATCTAC
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
* *
22274996 TTCGCCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
22275061 AG
131 AG
* *
22275063 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAAATCTGCTTTCTTCGATCTAC
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
*
22275128 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTGCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
22275193 AG
131 AG
* *
22275195 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAAATCTGCTTTCTTCGATCTAC
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
22275260 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
22275325 AG
131 AG
*
22275327 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTGC
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
* * *
22275392 TTCGCCACAAATATAGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCGATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
22275457 AG
131 AG
* * *
22275459 GATCTGATATCATCGATCTACTTCATGCCAATACATGAAGCCAAGATCTGCTTTCTGCGATCTGC
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
* ** * *
22275524 TGCGCC-GTAA-ATGGGAAGACAAAATCTCCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
22275587 AG
131 AG
*
22275589 GATCTGATATCTTCGATCTACTTCATACCAATACATGAAGACAAGATCTGCTTT
1 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTT
22275643 AATGACTTCA
Statistics
Matches: 550, Mismatches: 30, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
130 102 0.19
131 2 0.00
132 446 0.81
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGGTCCACTTCCTACCAATATAGGAAGAT
AG
Found at i:22276564 original size:1 final size:1
Alignment explanation
Indices: 22276558--22276598 Score: 82
Period size: 1 Copynumber: 41.0 Consensus size: 1
22276548 GGTCTCTCCC
22276558 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22276599 AGGCAAAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22290155 original size:137 final size:136
Alignment explanation
Indices: 22289904--22290170 Score: 392
Period size: 137 Copynumber: 2.0 Consensus size: 136
22289894 TGGAGTCTCA
* * * *
22289904 ATTATTAATTTTAGGCCTATGAGGAGAAGATTGAGATAGGATATTATCTAATAGTCAAATTTGGT
1 ATTATTAATTTTAGGCCTATGAAGAGAAAATTGAGATAGGATATTATCTAACAGTCAAACTTGGT
*
22289969 TTTCATATTACCACTGGACAAGAAGGGACTATGCATAATGATCCCAATTTTTATGAACCTAAAAT
66 TTTCATA-TACCACTGGACAAGAAGGGACTATGCATAATCATCCCAATTTTTATGAACCTAAAAT
22290034 TTCAGCT
130 TTCAGCT
22290041 ATTATTAATTTTAGGCCTATGAAGAGAAAATTGAGATAGGATATTATCTAACAGTCAAACTTGGT
1 ATTATTAATTTTAGGCCTATGAAGAGAAAATTGAGATAGGATATTATCTAACAGTCAAACTTGGT
* * ** * * * *
22290106 TTTGCATA-ATCACTGGACGAGAAGGGACTATGCATCCTCATCCCAAATTTTGTGGACCTACAAT
66 TTT-CATATACCACTGGACAAGAAGGGACTATGCATAATCATCCCAATTTTTATGAACCTAAAAT
22290170 T
130 T
22290171 ACAACTCTCA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 48 0.41
137 64 0.55
138 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (136 bp):
ATTATTAATTTTAGGCCTATGAAGAGAAAATTGAGATAGGATATTATCTAACAGTCAAACTTGGT
TTTCATATACCACTGGACAAGAAGGGACTATGCATAATCATCCCAATTTTTATGAACCTAAAATT
TCAGCT
Found at i:22290746 original size:16 final size:16
Alignment explanation
Indices: 22290725--22290774 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 16
22290715 TACTTACATA
22290725 ATTTTTAAAATAAATC
1 ATTTTTAAAATAAATC
22290741 ATTTTTATAAATAATAAATC
1 A-TTTT-T-AA-AATAAATC
22290761 ATTTTTATAAATAA
1 ATTTTTA-AAATAA
22290775 TAAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 10 0.34
18 3 0.10
19 6 0.21
20 9 0.31
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTTTAAAATAAATC
Found at i:22290752 original size:17 final size:17
Alignment explanation
Indices: 22290725--22290774 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 17
22290715 TACTTACATA
22290725 ATTTTTA-AAATAAATC
1 ATTTTTATAAATAAATC
22290741 ATTTTTATAAATAATAAATC
1 ATTTTTAT--A-AATAAATC
22290761 ATTTTTATAAATAA
1 ATTTTTATAAATAA
22290775 TAAAAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 1 0.03
19 1 0.03
20 16 0.53
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTTATAAATAAATC
Found at i:22290758 original size:20 final size:20
Alignment explanation
Indices: 22290733--22290778 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
22290723 TAATTTTTAA
22290733 AATAAATCATTTTTATAAAT
1 AATAAATCATTTTTATAAAT
22290753 AATAAATCATTTTTATAAAT
1 AATAAATCATTTTTATAAAT
22290773 AATAAA
1 AATAAA
22290779 AAGTTTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAAATCATTTTTATAAAT
Found at i:22299400 original size:18 final size:17
Alignment explanation
Indices: 22299367--22299405 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
22299357 TTGTATAAAT
22299367 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
22299385 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
22299402 TGTG
1 TGTG
22299406 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:22299495 original size:75 final size:75
Alignment explanation
Indices: 22299410--22300232 Score: 1646
Period size: 75 Copynumber: 11.0 Consensus size: 75
22299400 AATGTGGAAG
22299410 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299475 GGTTGAACAT
66 GGTTGAACAT
22299485 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299550 GGTTGAACAT
66 GGTTGAACAT
22299560 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299625 GGTTGAACAT
66 GGTTGAACAT
22299635 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299700 GGTTGAACAT
66 GGTTGAACAT
22299710 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299775 GGTTGAACAT
66 GGTTGAACAT
22299785 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299850 GGTTGAACAT
66 GGTTGAACAT
22299860 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22299925 GGTTGAACAT
66 GGTTGAACAT
22299935 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22300000 GGTTGAACAT
66 GGTTGAACAT
22300010 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22300075 GGTTGAACAT
66 GGTTGAACAT
22300085 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22300150 GGTTGAACAT
66 GGTTGAACAT
22300160 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
22300225 GGTTGAAC
66 GGTTGAAC
22300233 TTAGGAATAG
Statistics
Matches: 748, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 748 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.33
Consensus pattern (75 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
GGTTGAACAT
Found at i:22300408 original size:23 final size:23
Alignment explanation
Indices: 22300381--22300478 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
22300371 AGTGTTATTG
22300381 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
22300404 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
22300427 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22300449 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
22300472 ATCAGTG
1 ATCAGTG
22300479 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:22300447 original size:45 final size:45
Alignment explanation
Indices: 22300383--22300471 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
22300373 TGTTATTGAT
* *
22300383 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
22300428 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
22300472 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:22305086 original size:12 final size:12
Alignment explanation
Indices: 22305071--22305101 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22305061 TTCTCTTTTA
22305071 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
22305083 TTTTTCTTTCTC
1 TTTTTCTTTCCC
22305095 TTTTTCT
1 TTTTTCT
22305102 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:22305498 original size:15 final size:14
Alignment explanation
Indices: 22305480--22305510 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
22305470 TTAATTTATT
22305480 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
22305495 TAATAATAATCTAA
1 TAATAATAATCTAA
22305509 TA
1 TA
22305511 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:22305521 original size:21 final size:20
Alignment explanation
Indices: 22305497--22305565 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
22305487 AATGCTAATA
22305497 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
22305518 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
22305537 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
*
22305558 ATTATAAT
1 ATAATAAT
22305566 AATCATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.30
20 2 0.05
21 18 0.49
22 3 0.08
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:22307073 original size:17 final size:16
Alignment explanation
Indices: 22307026--22307076 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
22307016 CGTTTCAACC
*
22307026 TTCTGTTATTTCTTT-
1 TTCTTTTATTTCTTTA
*
22307041 TTCTTTTTGTTTCTTTA
1 TTC-TTTTATTTCTTTA
22307058 TTCTTTTATTTACTTTA
1 TTCTTTTATTT-CTTTA
22307075 TT
1 TT
22307077 TGTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 10 0.33
ACGTcount: A:0.10, C:0.12, G:0.04, T:0.75
Consensus pattern (16 bp):
TTCTTTTATTTCTTTA
Found at i:22308612 original size:17 final size:17
Alignment explanation
Indices: 22308581--22308613 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22308571 TTTTTCCCCC
22308581 TTCTATTCTTCTCTCCT
1 TTCTATTCTTCTCTCCT
22308598 TTCT-TTCTTCTTCTCC
1 TTCTATTCTTC-TCTCC
22308614 ATTAATTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (17 bp):
TTCTATTCTTCTCTCCT
Found at i:22310817 original size:19 final size:17
Alignment explanation
Indices: 22310793--22310831 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
22310783 AATATTGAAA
22310793 AAAACAAGAAAATAGCAAC
1 AAAACAAGAAAA-A-CAAC
*
22310812 AAAACAATAAAAACAAC
1 AAAACAAGAAAAACAAC
22310829 AAA
1 AAA
22310832 GCGACGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.74, C:0.15, G:0.05, T:0.05
Consensus pattern (17 bp):
AAAACAAGAAAAACAAC
Found at i:22310830 original size:31 final size:31
Alignment explanation
Indices: 22310771--22310830 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
22310761 CATAATAGTG
* * *
22310771 AAATAGTAACAAAATATTGAAAAAAACAAGA
1 AAATAGCAACAAAACAATGAAAAAAACAAGA
22310802 AAATAGCAACAAAACAAT-AAAAACAACAA
1 AAATAGCAACAAAACAATGAAAAA-AACAA
22310831 AGCGACGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.70, C:0.12, G:0.07, T:0.12
Consensus pattern (31 bp):
AAATAGCAACAAAACAATGAAAAAAACAAGA
Found at i:22320267 original size:3 final size:3
Alignment explanation
Indices: 22320259--22320293 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22320249 TTGCTGATGC
* *
22320259 TGT TGT TGT TGC TGG TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
22320294 AAAGTGCTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.37, T:0.60
Consensus pattern (3 bp):
TGT
Found at i:22320270 original size:18 final size:18
Alignment explanation
Indices: 22320247--22320287 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
22320237 GAGCCACAGC
22320247 TGTTGCTGATGCTGTTGT
1 TGTTGCTGATGCTGTTGT
* *
22320265 TGTTGCTGGTGTTGTTGT
1 TGTTGCTGATGCTGTTGT
22320283 TGTTG
1 TGTTG
22320288 TTGTTGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.02, C:0.07, G:0.37, T:0.54
Consensus pattern (18 bp):
TGTTGCTGATGCTGTTGT
Found at i:22320271 original size:12 final size:12
Alignment explanation
Indices: 22320245--22320293 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
22320235 CTGAGCCACA
* *
22320245 GCTGTTGCTGAT
1 GCTGTTGTTGTT
22320257 GCTGTTGTTGTT
1 GCTGTTGTTGTT
*
22320269 GCTGGTGTTGTT
1 GCTGTTGTTGTT
*
22320281 GTTGTTGTTGTT
1 GCTGTTGTTGTT
22320293 G
1 G
22320294 AAAGTGCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.02, C:0.08, G:0.37, T:0.53
Consensus pattern (12 bp):
GCTGTTGTTGTT
Found at i:22321540 original size:20 final size:19
Alignment explanation
Indices: 22321515--22321572 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 19
22321505 AATTAAGTTT
22321515 ATTTAAAATAAAAATACTAA
1 ATTTAAAATAAAAA-ACTAA
*
22321535 ATTTAAAATAAAAAATTAA
1 ATTTAAAATAAAAAACTAA
22321554 ATATTAAATATTAAAAAAC
1 AT-TTAAA-A-TAAAAAAC
22321573 ACTTTTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 19 0.58
21 1 0.03
22 7 0.21
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTAAAATAAAAAACTAA
Found at i:22321769 original size:23 final size:23
Alignment explanation
Indices: 22321743--22321803 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
22321733 AAAAATCATG
**
22321743 TATAATATTTAAAAATATTTTTT
1 TATAATATTTAAAAATATAATTT
*
22321766 TATAAAATTCTAAAATATATAATTT
1 TATAATATT-TAAAA-ATATAATTT
22321791 TA-AAT-TTTAAAAA
1 TATAATATTTAAAAA
22321804 GTCAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.03
22 5 0.16
23 10 0.31
24 7 0.22
25 9 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TATAATATTTAAAAATATAATTT
Found at i:22321811 original size:30 final size:31
Alignment explanation
Indices: 22321763--22321833 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
22321753 AAAAATATTT
*
22321763 TTTTATAAAATTCTAAAATATATAAT-TT-TAAA
1 TTTTA-AAAAGTCTAAAATA-A-AATATTATAAA
22321795 TTTTAAAAAGTC-AAAATAAAATATTATAAA
1 TTTTAAAAAGTCTAAAATAAAATATTATAAA
*
22321825 ATTTAAAAA
1 TTTTAAAAA
22321834 ATTTAGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 18 0.51
31 6 0.17
32 5 0.14
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (31 bp):
TTTTAAAAAGTCTAAAATAAAATATTATAAA
Found at i:22324414 original size:30 final size:30
Alignment explanation
Indices: 22324380--22324445 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
22324370 GGTAGATTTT
* * *
22324380 TTAAAAGTTAG-AGAAAAAATTTTAGGTCCC
1 TTAAAAGTTAGTAAAAAAAAATTT-GGACCC
*
22324410 TTAAAAGTTGGTAAAAAAAAATTTGGACCC
1 TTAAAAGTTAGTAAAAAAAAATTTGGACCC
22324440 TTAAAA
1 TTAAAA
22324446 ACTGGAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (30 bp):
TTAAAAGTTAGTAAAAAAAAATTTGGACCC
Found at i:22331552 original size:19 final size:19
Alignment explanation
Indices: 22331525--22331563 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22331515 ATTGTGTGAC
*
22331525 TCGATTTGGTGTTTTTTAA
1 TCGAGTTGGTGTTTTTTAA
22331544 TCGAGTTGGTGTTTTTTAA
1 TCGAGTTGGTGTTTTTTAA
22331563 T
1 T
22331564 GTCATTTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.05, G:0.23, T:0.56
Consensus pattern (19 bp):
TCGAGTTGGTGTTTTTTAA
Found at i:22332371 original size:19 final size:19
Alignment explanation
Indices: 22332347--22332385 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22332337 TTGAGCTAAC
22332347 TATCGTTTTGGAGGAACCA
1 TATCGTTTTGGAGGAACCA
22332366 TATCGTTTTGGAGGAACCA
1 TATCGTTTTGGAGGAACCA
22332385 T
1 T
22332386 TCAGATTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (19 bp):
TATCGTTTTGGAGGAACCA
Found at i:22338379 original size:14 final size:15
Alignment explanation
Indices: 22338351--22338381 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22338341 TTTTAAGTTA
22338351 TTTAAAATGATTTTT
1 TTTAAAATGATTTTT
22338366 TTTAAAAT-ATTTTT
1 TTTAAAATGATTTTT
22338380 TT
1 TT
22338382 AATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTAAAATGATTTTT
Found at i:22342262 original size:28 final size:28
Alignment explanation
Indices: 22342229--22342287 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
22342219 TACACAAGAG
22342229 AAAGGACATTACATATCTAAAAGAACAT
1 AAAGGACATTACATATCTAAAAGAACAT
22342257 AAAGGACATTACATATCTAAAAGAACAT
1 AAAGGACATTACATATCTAAAAGAACAT
22342285 AAA
1 AAA
22342288 AGGCTTTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.56, C:0.14, G:0.10, T:0.20
Consensus pattern (28 bp):
AAAGGACATTACATATCTAAAAGAACAT
Found at i:22346239 original size:20 final size:20
Alignment explanation
Indices: 22346211--22346254 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22346201 ACTACAAAGG
22346211 AAATGAATTCAGATTAAAAA-
1 AAATGAATT-AGATTAAAAAT
* *
22346231 AAATTAATTATATTAAAAAT
1 AAATGAATTAGATTAAAAAT
22346251 AAAT
1 AAAT
22346255 CAAATAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAATGAATTAGATTAAAAAT
Found at i:22347672 original size:18 final size:18
Alignment explanation
Indices: 22347649--22347686 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22347639 TAAATTTAAC
22347649 TAAGAGCAATAACAATAT
1 TAAGAGCAATAACAATAT
22347667 TAAGAGCAATAACAATAT
1 TAAGAGCAATAACAATAT
22347685 TA
1 TA
22347687 GGCGATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
TAAGAGCAATAACAATAT
Found at i:22357810 original size:29 final size:29
Alignment explanation
Indices: 22357773--22357831 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
22357763 TATAAAAAAA
* *
22357773 TAAATAAAAATTTTAAAAATTA-TTAAATT
1 TAAATAAAAA-TATAAAAAATACTTAAATT
22357802 TAAATAAAAATATAAAAAATACTTAAATT
1 TAAATAAAAATATAAAAAATACTTAAATT
22357831 T
1 T
22357832 TATTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (29 bp):
TAAATAAAAATATAAAAAATACTTAAATT
Found at i:22357874 original size:19 final size:19
Alignment explanation
Indices: 22357850--22357933 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
22357840 ATTAGAAACA
*
22357850 AAAATTATTAAAAATTTGT
1 AAAATTATTAAAAATTTAT
*
22357869 AAAATT-TGTAAAATTTTAT
1 AAAATTAT-TAAAAATTTAT
*
22357888 AAAATTCA-TGAAAATTTAT
1 AAAATT-ATTAAAAATTTAT
* * *
22357907 AAAA-TATATAGAAATATAA
1 AAAATTAT-TAAAAATTTAT
22357926 AAAATTAT
1 AAAATTAT
22357934 AAAGTCGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
17 1 0.02
18 2 0.04
19 45 0.88
20 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAAATTTAT
Found at i:22357892 original size:10 final size:9
Alignment explanation
Indices: 22357860--22357994 Score: 67
Period size: 9 Copynumber: 14.4 Consensus size: 9
22357850 AAAATTATTA
*
22357860 AAAATTTGT
1 AAAATTTAT
*
22357869 AAAATTTGT
1 AAAATTTAT
22357878 AAAATTTTAT
1 AAAA-TTTAT
*
22357888 AAAATTCAT
1 AAAATTTAT
22357897 GAAAATTTAT
1 -AAAATTTAT
*
22357907 AAAATATAT
1 AAAATTTAT
*
22357916 AGAAATATA-
1 A-AAATTTAT
*
22357925 AAAAATTAT
1 AAAATTTAT
* *
22357934 AAAGTCGTA-
1 AAAAT-TTAT
*
22357943 AGAATATTAT
1 AAAAT-TTAT
**
22357953 AAAAAATAT
1 AAAATTTAT
**
22357962 AAAGAAATAT
1 AAA-ATTTAT
22357972 AAAATTTAT
1 AAAATTTAT
*
22357981 AAAAATATAT
1 -AAAATTTAT
22357991 AAAA
1 AAAA
22357995 ATCATCATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
8 5 0.05
9 49 0.49
10 45 0.45
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (9 bp):
AAAATTTAT
Found at i:22357972 original size:19 final size:19
Alignment explanation
Indices: 22357907--22357995 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 19
22357897 GAAAATTTAT
*
22357907 AAAATATAT-AGAAATATA
1 AAAATATATAAAAAATATA
* * *
22357925 AAAA-AT-TATAAAGTCGTA
1 AAAATATATAAAAAAT-ATA
*
22357943 AGAATATTATAAAAAATATA
1 AAAATA-TATAAAAAATATA
**
22357963 AAGAA-ATATAAAATTTATA
1 AA-AATATATAAAAAATATA
22357982 AAAATATATAAAAA
1 AAAATATATAAAAA
22357996 TCATCATATT
Statistics
Matches: 52, Mismatches: 12, Indels: 13
0.68 0.16 0.17
Matches are distributed among these distances:
16 1 0.02
17 5 0.10
18 11 0.21
19 22 0.42
20 5 0.10
21 8 0.15
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (19 bp):
AAAATATATAAAAAATATA
Found at i:22357995 original size:10 final size:10
Alignment explanation
Indices: 22357898--22357996 Score: 61
Period size: 10 Copynumber: 10.5 Consensus size: 10
22357888 AAAATTCATG
*
22357898 AAAATTTAT-
1 AAAATATATA
22357907 AAAATATATA
1 AAAATATATA
*
22357917 GAAATATA-A
1 AAAATATATA
22357926 AAAAT-TAT-
1 AAAATATATA
* **
22357934 AAAGT-CGTA
1 AAAATATATA
*
22357943 AGAATATTATA
1 AAAATA-TATA
22357954 AAAA-ATATA
1 AAAATATATA
22357963 AAGAA-ATAT-
1 AA-AATATATA
*
22357972 AAAATTTATA
1 AAAATATATA
22357982 AAAATATATA
1 AAAATATATA
22357992 AAAAT
1 AAAAT
22357997 CATCATATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
8 9 0.13
9 27 0.39
10 28 0.41
11 5 0.07
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (10 bp):
AAAATATATA
Found at i:22358014 original size:10 final size:9
Alignment explanation
Indices: 22358002--22358055 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
22357992 AAAATCATCA
22358002 TATTATTTT
1 TATTATTTT
22358011 ATATT-TTTT
1 -TATTATTTT
*
22358020 TATAATTTT
1 TATTATTTT
22358029 TATTGATTTT
1 TATT-ATTTT
22358039 TA-T-TTTT
1 TATTATTTT
*
22358046 TATCATTTT
1 TATTATTTT
22358055 T
1 T
22358056 CACCACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
7 6 0.16
8 3 0.08
9 17 0.46
10 11 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TATTATTTT
Found at i:22358032 original size:27 final size:26
Alignment explanation
Indices: 22358002--22358055 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
22357992 AAAATCATCA
22358002 TATT-ATTTTATATTTTTTTATAATTTT
1 TATTGATTTT-TA-TTTTTTATAATTTT
*
22358029 TATTGATTTTTATTTTTTATCATTTT
1 TATTGATTTTTATTTTTTATAATTTT
22358055 T
1 T
22358056 CACCACATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 14 0.56
27 6 0.24
28 5 0.20
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (26 bp):
TATTGATTTTTATTTTTTATAATTTT
Found at i:22358117 original size:11 final size:11
Alignment explanation
Indices: 22358101--22358125 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22358091 AGGTTTAAAA
22358101 CTTAATATTAT
1 CTTAATATTAT
22358112 CTTAATATTAT
1 CTTAATATTAT
22358123 CTT
1 CTT
22358126 TTTTATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (11 bp):
CTTAATATTAT
Found at i:22361107 original size:46 final size:46
Alignment explanation
Indices: 22360996--22361163 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 46
22360986 CGTAACGAAC
* * *
22360996 GCATGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGAT
1 GCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGAGGCCGAT
** * *
22361042 GCATGTCCCAAACATGTCTTACACTGGCTCTCATACT-GTGGCTGAT
1 GCATGTCCCAAACATGTCTTACACTGGCTAACAT-CTCGAGGCCGAT
* * *** * * *
22361088 GCATGTCCCAAACATGTCTTCCACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGAGGCCGAT
*
22361134 GCCATGTCCCATACATGGTCTTACACTGGC
1 G-CATGTCCCAAACAT-GTCTTACACTGGC
22361164 ACACAAATCT
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
45 2 0.02
46 72 0.72
47 15 0.15
48 11 0.11
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAAACATGTCTTACACTGGCTAACATCTCGAGGCCGAT
Found at i:22362602 original size:46 final size:46
Alignment explanation
Indices: 22362535--22362706 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
22362525 TGTAACCCGC
22362535 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
22362581 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
22362631 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
22362674 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCT
22362707 AACTCATAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:22362749 original size:20 final size:18
Alignment explanation
Indices: 22362715--22362751 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22362705 CTAACTCATA
22362715 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
22362733 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
22362752 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:22364220 original size:23 final size:23
Alignment explanation
Indices: 22364194--22364239 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22364184 TGAGATAAAC
**
22364194 AAATAAACCTTAAAAGCAAAGCA
1 AAATAAAAATTAAAAGCAAAGCA
*
22364217 AAATAAAAATTAAAAGGAAAGCA
1 AAATAAAAATTAAAAGCAAAGCA
22364240 TTGCATTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.65, C:0.11, G:0.11, T:0.13
Consensus pattern (23 bp):
AAATAAAAATTAAAAGCAAAGCA
Found at i:22375826 original size:13 final size:13
Alignment explanation
Indices: 22375792--22375829 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
22375782 TTTATTTAGG
*
22375792 TTATATATAAATA
1 TTATATATAATTA
22375805 -T-TATATAATTA
1 TTATATATAATTA
22375816 TTATATATAATTA
1 TTATATATAATTA
22375829 T
1 T
22375830 AAACCATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:22377708 original size:23 final size:23
Alignment explanation
Indices: 22377679--22377754 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 23
22377669 AGACACTTTA
22377679 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* * *
22377702 TGTGTCGTA--TCAGACAACTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
22377723 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
22377744 TGTGTCGTATT
1 TGTGTCGTATT
22377755 CTGATCAGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
21 29 0.73
23 11 0.28
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:22384573 original size:12 final size:12
Alignment explanation
Indices: 22384556--22384580 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22384546 AGTTTACTTT
22384556 ATATTAGTGGTG
1 ATATTAGTGGTG
22384568 ATATTAGTGGTG
1 ATATTAGTGGTG
22384580 A
1 A
22384581 GCGTTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (12 bp):
ATATTAGTGGTG
Found at i:22384947 original size:20 final size:18
Alignment explanation
Indices: 22384875--22384955 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 18
22384865 AAAATTATTA
*
22384875 TTTTAGAAAATTTTTAAAT
1 TTTTA-AAATTTTTTAAAT
22384894 TTTT-AAATTTTTTATATATT
1 TTTTAAAATTTTTTA-A-A-T
**
22384914 TTTTAAATAAATTTTAAAT
1 TTTTAAA-ATTTTTTAAAT
22384933 TTTTGAAAATTATTTT-AAT
1 TTTT-AAAATT-TTTTAAAT
22384952 TTTT
1 TTTT
22384956 TTTTAATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
17 9 0.18
18 1 0.02
19 18 0.36
20 13 0.26
21 3 0.06
22 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTTTTAAAT
Found at i:22390963 original size:22 final size:22
Alignment explanation
Indices: 22390915--22390982 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
22390905 ATACCTAAAT
*
22390915 AATAAT-AAAATAATAATAGCAA
1 AATAATGAAAA-AATAATAACAA
* * *
22390937 TATAATTG-CAAAATGATAACAA
1 AATAA-TGAAAAAATAATAACAA
22390959 AATAATGAAAAAATAATAACAA
1 AATAATGAAAAAATAATAACAA
22390981 AA
1 AA
22390983 CAACAATAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
21 2 0.06
22 31 0.86
23 3 0.08
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (22 bp):
AATAATGAAAAAATAATAACAA
Found at i:22394022 original size:22 final size:23
Alignment explanation
Indices: 22393994--22394037 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22393984 TAACAATTTA
22393994 ATAAATATATAAATTT-ATTGTC
1 ATAAATATATAAATTTAATTGTC
*
22394016 ATAAATATATAAGTTTAATTGT
1 ATAAATATATAAATTTAATTGT
22394038 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (23 bp):
ATAAATATATAAATTTAATTGTC
Found at i:22395438 original size:21 final size:21
Alignment explanation
Indices: 22395414--22395455 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22395404 TTTCTATTTC
*
22395414 TACCGCTATAAT-ATCTAATCT
1 TACCACTATAATAAT-TAATCT
22395435 TACCACTATAATAATTAATCT
1 TACCACTATAATAATTAATCT
22395456 CACAACAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (21 bp):
TACCACTATAATAATTAATCT
Found at i:22396749 original size:45 final size:45
Alignment explanation
Indices: 22396700--22397098 Score: 600
Period size: 45 Copynumber: 8.9 Consensus size: 45
22396690 TCGGCCATGG
* * * * *
22396700 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
22396745 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* *
22396790 TGCTTCCTCAAATTCTTCCATGAATTATGAATGATGTTGGTAAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
22396835 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
22396880 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * *
22396925 TGCTTCCTCAATTTGTTCCATGAATTATGCATGATGTAGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
22396970 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * *
22397015 TGCTTCCTTAATTTGTTCCATAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
22397060 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
22397099 TCCACCTCTT
Statistics
Matches: 328, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 328 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:22397416 original size:20 final size:20
Alignment explanation
Indices: 22397393--22397443 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
22397383 AATTGAGCTT
22397393 GAATGAGTTGACTTAAGCAC
1 GAATGAGTTGACTTAAGCAC
* * * *
22397413 GAATGAGCTAACTTGAGCTC
1 GAATGAGTTGACTTAAGCAC
22397433 GAATGAGTTGA
1 GAATGAGTTGA
22397444 ACCACACGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (20 bp):
GAATGAGTTGACTTAAGCAC
Found at i:22401198 original size:24 final size:24
Alignment explanation
Indices: 22401145--22401210 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
22401135 ATGGTTTCTT
*
22401145 AAATAATTATAAAATTTA-TAAAAA
1 AAATAATT-TAAAAATTATTAAAAA
*
22401169 AAATAATTTAAAAATTATTAAGAA
1 AAATAATTTAAAAATTATTAAAAA
*
22401193 ATATAA---AAAAATTATTAA
1 AAATAATTTAAAAATTATTAA
22401211 TTTTTTAGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
23 8 0.21
24 18 0.47
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAATTTAAAAATTATTAAAAA
Found at i:22402740 original size:112 final size:112
Alignment explanation
Indices: 22402541--22402756 Score: 371
Period size: 112 Copynumber: 1.9 Consensus size: 112
22402531 GTGATGCTCA
*
22402541 TTTTTATTTAATGCCAAGTTAGCTTAGCCCATTATTTACTTTTGTTTTGAATAATTAATGAAGAA
1 TTTTTATTTAATGCCAAGTTAGCTTAGCCCATTATTTACTTTTATTTTGAATAATTAATGAAGAA
* * *
22402606 ACTCTCATTAATCCAATGATAAAAGATATTCATATTAATAAATCGTG
66 ACTCTCATTAATCCAATAATAAAAAATATTCATAATAATAAATCGTG
*
22402653 TTTTTATTTAATGCCAAGTTAGCTTAGCTCATTATTTACTTTTATTTTGAATAATTAATGAAGAA
1 TTTTTATTTAATGCCAAGTTAGCTTAGCCCATTATTTACTTTTATTTTGAATAATTAATGAAGAA
22402718 ACT-TCTATTAATCCAATAATAAAAAATATTCATAATAAT
66 ACTCTC-ATTAATCCAATAATAAAAAATATTCATAATAAT
22402757 GAATTGTATG
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 2 0.02
112 96 0.98
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (112 bp):
TTTTTATTTAATGCCAAGTTAGCTTAGCCCATTATTTACTTTTATTTTGAATAATTAATGAAGAA
ACTCTCATTAATCCAATAATAAAAAATATTCATAATAATAAATCGTG
Found at i:22413179 original size:71 final size:71
Alignment explanation
Indices: 22413046--22413180 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
22413036 AGTAGATTGC
* *
22413046 TTCCTCGTTGATTCAATCCATAGCCCTCATTAAGGCTCAATTCAAGTCATAACATGGAAAGGAAA
1 TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATTCAAGTCATAACATAGAAAGGAAA
22413111 AGATCA
66 AGATCA
* * ** * *
22413117 TTCCTCATTGATTCAATCCATTGCTCTTGTTCAGGCTCAATTCAAGTCATATGCATAG-AAGGAA
1 TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATTCAAGTCATA-ACATAGAAAGGAA
22413181 CAATATAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 51 0.93
72 4 0.07
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (71 bp):
TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATTCAAGTCATAACATAGAAAGGAAA
AGATCA
Found at i:22415619 original size:3 final size:3
Alignment explanation
Indices: 22415611--22415635 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22415601 TTCCTTTTTA
22415611 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
22415636 GTGGGTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22416472 original size:18 final size:20
Alignment explanation
Indices: 22416451--22416487 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
22416441 ATTTAATTTT
22416451 ATTAATATA-ATA-TTTTAC
1 ATTAATATAGATAGTTTTAC
*
22416469 ATTATTATAGATAGTTTTA
1 ATTAATATAGATAGTTTTA
22416488 GATAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTAATATAGATAGTTTTAC
Found at i:22443262 original size:61 final size:60
Alignment explanation
Indices: 22443129--22443262 Score: 142
Period size: 61 Copynumber: 2.2 Consensus size: 60
22443119 ATATTATATT
* * * ** *
22443129 AATTTGATCTTAAATTTAAAAATTTAACAAACTTAACTCTTAATGTTTATAAAATTTATC
1 AATTTAATCCTAAATTTAAAAATTTAACAAACTTAACTCTCAACATTTATAAAATCTATC
* ** * * * *
22443189 ATTTTAGCCCTAATTTTAAAAAATTTTATAAATTTAACTCTCAACATTTATAAAATCTATC
1 AATTTAATCCTAAATTT-AAAAATTTAACAAACTTAACTCTCAACATTTATAAAATCTATC
22443250 AATTTAATCCTAA
1 AATTTAATCCTAA
22443263 CACTAAAAAT
Statistics
Matches: 57, Mismatches: 16, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
60 11 0.19
61 46 0.81
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (60 bp):
AATTTAATCCTAAATTTAAAAATTTAACAAACTTAACTCTCAACATTTATAAAATCTATC
Found at i:22443270 original size:61 final size:61
Alignment explanation
Indices: 22443146--22443282 Score: 141
Period size: 61 Copynumber: 2.3 Consensus size: 61
22443136 TCTTAAATTT
* * ** * * * ***
22443146 AAAAATTTAACAAACTTAACTCTTAATGTTTATAAAATTTATCATTTTAGCCCTAATTTTA
1 AAAAATTTTACAAACTTAACTCTCAACATTTATAAAATCTATCAATTTAACCCTAACACTA
* * *
22443207 AAAAATTTTATAAATTTAACTCTCAACATTTATAAAATCTATCAATTTAATCCTAACACTA
1 AAAAATTTTACAAACTTAACTCTCAACATTTATAAAATCTATCAATTTAACCCTAACACTA
*
22443268 AAAATTTTTA-AAACT
1 AAAAATTTTACAAACT
22443283 ATTTTTAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
60 4 0.07
61 57 0.93
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (61 bp):
AAAAATTTTACAAACTTAACTCTCAACATTTATAAAATCTATCAATTTAACCCTAACACTA
Found at i:22443759 original size:61 final size:61
Alignment explanation
Indices: 22443648--22443763 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
22443638 TTTTTAAATT
* * * * * **
22443648 TTTAGAGTTAAGACTAAATTGATAGATTTTGTAAATATCGAGGGTCAAATTTATTTATTTA
1 TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATCGAGACTCAAATTTATTTATTTA
*
22443709 TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATTGATGACT-AAATTTATT
1 TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATCGA-GACTCAAATTTATT
22443764 GAATATTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 44 0.96
62 2 0.04
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (61 bp):
TTTAGAATTAAAACTAAATTGACAAATTTTGTAAACATCGAGACTCAAATTTATTTATTTA
Found at i:22444416 original size:9 final size:9
Alignment explanation
Indices: 22444402--22444431 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22444392 TCTTTCAGTA
22444402 AAAAAAAAG
1 AAAAAAAAG
22444411 AAAAAAAAG
1 AAAAAAAAG
*
22444420 AAAAACAAG
1 AAAAAAAAG
22444429 AAA
1 AAA
22444432 CAAGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:22450329 original size:19 final size:19
Alignment explanation
Indices: 22450292--22450358 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
22450282 ATTTTAAATT
*
22450292 AAAAATATTAATTACTATA
1 AAAAATATTAATTATTATA
*
22450311 AAAAATATTAATTTTTATA
1 AAAAATATTAATTATTATA
*
22450330 GTTTAAAAATATTAATTGTTATA
1 ----AAAAATATTAATTATTATA
22450353 AAAAAT
1 AAAAAT
22450359 TATCAGTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 23 0.56
23 18 0.44
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (19 bp):
AAAAATATTAATTATTATA
Found at i:22454894 original size:15 final size:16
Alignment explanation
Indices: 22454874--22454907 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22454864 TATACAAATC
*
22454874 AAAGAATTATTA-AAA
1 AAAGAATTAATAGAAA
22454889 AAAGAATTAATAGAAA
1 AAAGAATTAATAGAAA
22454905 AAA
1 AAA
22454908 CTAACAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAGAATTAATAGAAA
Found at i:22459570 original size:54 final size:54
Alignment explanation
Indices: 22459488--22459610 Score: 212
Period size: 54 Copynumber: 2.3 Consensus size: 54
22459478 TGGGTCATGT
22459488 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
*
22459542 CAAGTCCTGCATGGACAATATTGTGAAAGAATCATGCCAGGATTGTGGTAACGA
1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
* *
22459596 AAAGT-TTGCATGGAC
1 CAAGTCCTGCATGGAC
22459611 TTACACCTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 9 0.14
54 57 0.86
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (54 bp):
CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
Found at i:22468834 original size:15 final size:15
Alignment explanation
Indices: 22468814--22468844 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22468804 GATCCCAATC
22468814 AAATTCAAAAATCAA
1 AAATTCAAAAATCAA
22468829 AAATTCAAAAATCAA
1 AAATTCAAAAATCAA
22468844 A
1 A
22468845 TTACCTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATTCAAAAATCAA
Found at i:22475206 original size:36 final size:37
Alignment explanation
Indices: 22475160--22475238 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
22475150 AATATTGTTT
* *
22475160 GAAAATTTATTTAAT-ATGAAGTGAT-AAAATTATATA
1 GAAATTTTATTAAATAAT-AAGTGATCAAAATTATATA
* *
22475196 TAAATTTTATTAAATAAATAATTGATCAAAATTATATA
1 GAAATTTTATTAAAT-AATAAGTGATCAAAATTATATA
22475234 GAAAT
1 GAAAT
22475239 ATGAAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 12 0.34
37 6 0.17
38 17 0.49
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (37 bp):
GAAATTTTATTAAATAATAAGTGATCAAAATTATATA
Found at i:22477871 original size:18 final size:18
Alignment explanation
Indices: 22477844--22477879 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22477834 ACAATATTTG
* *
22477844 TATAATATTATTGAAATA
1 TATAAAATTATTAAAATA
22477862 TATAAAATTATTAAAATA
1 TATAAAATTATTAAAATA
22477880 AAACTTTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATAAAATTATTAAAATA
Found at i:22485604 original size:74 final size:74
Alignment explanation
Indices: 22485525--22485664 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
22485515 AACAGGGTGT
* * * ** * * *
22485525 GTGCTTTATTTGGAGATTGA-CATCTTTGTCTTTTTTTGTTGTGATAATATTTTCTTGTGGGATT
1 GTGCTTTAATGGGAG-TTGATCATCTTTGTCCTTTTTAATTGTCATAATATTTTCTCGTGAGATT
22485589 TTATCATTGC
65 TTATCATTGC
*
22485599 GTGCTTTAATGGGAGTTTATCATCTTTGTCCTTTTTAATTGTCATAATATTTTCTCGTGAGATTT
1 GTGCTTTAATGGGAGTTGATCATCTTTGTCCTTTTTAATTGTCATAATATTTTCTCGTGAGATTT
22485664 T
66 T
22485665 GTTGTTTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 3 0.05
74 53 0.95
ACGTcount: A:0.18, C:0.11, G:0.19, T:0.53
Consensus pattern (74 bp):
GTGCTTTAATGGGAGTTGATCATCTTTGTCCTTTTTAATTGTCATAATATTTTCTCGTGAGATTT
TATCATTGC
Found at i:22486959 original size:8 final size:8
Alignment explanation
Indices: 22486948--22486978 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
22486938 ATTTTTACTT
22486948 TTTTTTAC
1 TTTTTTAC
22486956 TTTTTTTAC
1 -TTTTTTAC
22486965 TTTTTTAC
1 TTTTTTAC
22486973 TTTTTT
1 TTTTTT
22486979 CTTATATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:22486959 original size:9 final size:9
Alignment explanation
Indices: 22486939--22486978 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
22486929 TCTTATTTTA
22486939 TTTTTACTTT
1 TTTTTAC-TT
22486949 TTTTTACTT
1 TTTTTACTT
22486958 TTTTTAC-T
1 TTTTTACTT
22486966 TTTTTACTT
1 TTTTTACTT
22486975 TTTT
1 TTTT
22486979 CTTATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.28
9 14 0.48
10 7 0.24
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTACTT
Found at i:22487065 original size:18 final size:17
Alignment explanation
Indices: 22487014--22487061 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
22487004 TTTTTTAAGT
*
22487014 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
22487032 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
22487050 TTTATATTATTA
1 TTTATATTATTA
22487062 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:22487074 original size:23 final size:22
Alignment explanation
Indices: 22487048--22487138 Score: 64
Period size: 23 Copynumber: 4.1 Consensus size: 22
22487038 TTACTTATTT
*
22487048 AATTTATATTATTAATTTTAAAA
1 AATTTATAATATT-ATTTTAAAA
*
22487071 AATTTGTAATA-TATATTTAAAA
1 AATTTATAATATTAT-TTTAAAA
**
22487093 TGTTTTATAATATT-TTTT--AA
1 -AATTTATAATATTATTTTAAAA
* *
22487113 AATTTTTAATTATTATTTTTAAA
1 AATTTATAA-TATTATTTTAAAA
22487136 AAT
1 AAT
22487139 ATTTTTTAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
19 6 0.11
20 6 0.11
21 6 0.11
22 11 0.21
23 23 0.43
24 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTATAATATTATTTTAAAA
Found at i:22487105 original size:21 final size:21
Alignment explanation
Indices: 22487050--22487130 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 21
22487040 ACTTATTTAA
* **
22487050 TTTATATTATTAATTTTAAAAAA
1 TTTATAATATT-A-TTTAAAATT
*
22487073 TTTGTAATATATATTTAAAATGT
1 TTTATAATAT-TATTTAAAAT-T
*
22487096 TTTATAATATTTTTTAAAATT
1 TTTATAATATTATTTAAAATT
*
22487117 TTTA-ATTATTATTT
1 TTTATAATATTATTT
22487131 TTAAAAATAT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 8 0.17
21 5 0.10
22 16 0.33
23 18 0.38
24 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATAATATTATTTAAAATT
Found at i:22487111 original size:22 final size:23
Alignment explanation
Indices: 22487077--22487143 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
22487067 AAAAAATTTG
*
22487077 TAATATATATTTAAAATGTTTT-A-
1 TAATAT-TTTTTAAAAT-TTTTAAT
22487100 TAATATTTTTTAAAATTTTTAAT
1 TAATATTTTTTAAAATTTTTAAT
* *
22487123 TATTATTTTTAAAAATATTTT
1 TAATATTTTTTAAAAT-TTTT
22487144 TTAACTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 4 0.11
22 10 0.26
23 20 0.53
24 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TAATATTTTTTAAAATTTTTAAT
Found at i:22487140 original size:35 final size:35
Alignment explanation
Indices: 22487104--22487222 Score: 104
Period size: 35 Copynumber: 3.4 Consensus size: 35
22487094 GTTTTATAAT
22487104 ATTTTTTAAAATTTTTAATTATTATTTTTAAAAAT-
1 ATTTTTTAAAATTTTTAA-TATTATTTTTAAAAATA
* * * *
22487139 ATTTTTT-AACTTTAT-ATA-TATTTGTAAAATTA
1 ATTTTTTAAAATTTTTAATATTATTTTTAAAAATA
* * *
22487171 ATTATTTATAAAA-TTTTAAAATGTATTTTTCAAATTA
1 ATT-TTT-TAAAATTTTTAATAT-TATTTTTAAAAATA
22487208 ATTTTTTAAAATTTT
1 ATTTTTTAAAATTTT
22487223 AAAAAAATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
31 11 0.16
32 5 0.07
33 4 0.06
34 10 0.15
35 16 0.24
36 6 0.09
37 15 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (35 bp):
ATTTTTTAAAATTTTTAATATTATTTTTAAAAATA
Found at i:22487198 original size:37 final size:35
Alignment explanation
Indices: 22487157--22487226 Score: 104
Period size: 37 Copynumber: 1.9 Consensus size: 35
22487147 ACTTTATATA
22487157 TATTTGTAAAATTAATTATTTATAAAATTTTAAAATG
1 TATTTGTAAAATTAATT-TTT-TAAAATTTTAAAATG
* *
22487194 TATTTTTCAAATTAATTTTTTAAAATTTTAAAA
1 TATTTGTAAAATTAATTTTTTAAAATTTTAAAA
22487227 AAATAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.42
36 3 0.10
37 15 0.48
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TATTTGTAAAATTAATTTTTTAAAATTTTAAAATG
Found at i:22487911 original size:10 final size:10
Alignment explanation
Indices: 22487893--22487946 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
22487883 TAAAATTTAA
22487893 AAAAT-ATTT
1 AAAATCATTT
22487902 AAAATCATTT
1 AAAATCATTT
*
22487912 AAAAT-ATTAA
1 AAAATCATT-T
22487922 AAAATCATTT
1 AAAATCATTT
*
22487932 TAAATCATTT
1 AAAATCATTT
*
22487942 TAAAT
1 AAAAT
22487947 GTTTTATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.21
10 28 0.72
11 3 0.08
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATCATTT
Found at i:22487925 original size:20 final size:20
Alignment explanation
Indices: 22487893--22487999 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 20
22487883 TAAAATTTAA
*
22487893 AAAATATT-TAAAATCATTT
1 AAAATATTAAAAAATCATTT
22487912 AAAATATTAAAAAATCATTT
1 AAAATATTAAAAAATCATTT
* ** **
22487932 TAAATCATT-TTAAATGTTTT
1 AAAAT-ATTAAAAAATCATTT
*
22487952 ATAATATTAAAATATAT-ATTT
1 AAAATATTAAAA-A-ATCATTT
* *
22487973 AATAT-TTAAAAAATAATTT
1 AAAATATTAAAAAATCATTT
22487992 GAAAATAT
1 -AAAATAT
22488000 ATTTTTAATA
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.03
19 16 0.24
20 35 0.53
21 11 0.17
22 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAATATTAAAAAATCATTT
Found at i:22487925 original size:30 final size:29
Alignment explanation
Indices: 22487883--22487946 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
22487873 AAATTCTATG
22487883 TAAAATTTAAAAAAT-ATTTAAAATCATT
1 TAAAATTTAAAAAATCATTTAAAATCATT
*
22487911 TAAAATATTAAAAAATCATTTTAAATCATT
1 TAAAAT-TTAAAAAATCATTTAAAATCATT
*
22487941 TTAAAT
1 TAAAAT
22487947 GTTTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 17 0.53
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATTTAAAAAATCATTTAAAATCATT
Found at i:22487991 original size:19 final size:19
Alignment explanation
Indices: 22487953--22487991 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22487943 AAATGTTTTA
*
22487953 TAATATTAAAATATATATT
1 TAATATTAAAAAATATATT
22487972 TAATATTTAAAAAATA-ATT
1 TAATA-TTAAAAAATATATT
22487991 T
1 T
22487992 GAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTAAAAAATATATT
Found at i:22489318 original size:105 final size:104
Alignment explanation
Indices: 22489136--22489340 Score: 392
Period size: 105 Copynumber: 2.0 Consensus size: 104
22489126 TAAAATGTTC
*
22489136 AACAGAAGCTAAATAACAACTAATTAGAGATAAGTATTTTAAAGCAGTCAAAACATGTTCAACAG
1 AACAGAAGCTAAATAACAACAAATTAGAGATAAGTATTTTAAAGCAGTCAAAACATGTTCAACAG
22489201 AGTAGCGATTAGCAAAAAAAAATTGGGAAACTAAACTGTG
66 AGTAGCGATTAGC-AAAAAAAATTGGGAAACTAAACTGTG
22489241 AACAGAAGCTAAATAACAACAAATTAGAGATAAGTATTTTAAAGCAGTCAAAACATGTTCAACAG
1 AACAGAAGCTAAATAACAACAAATTAGAGATAAGTATTTTAAAGCAGTCAAAACATGTTCAACAG
22489306 AGTAGCGATTAGCAAAAAAAATTGGGAAACTAAAC
66 AGTAGCGATTAGCAAAAAAAATTGGGAAACTAAAC
22489341 CAAAATTTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 22 0.22
105 77 0.78
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (104 bp):
AACAGAAGCTAAATAACAACAAATTAGAGATAAGTATTTTAAAGCAGTCAAAACATGTTCAACAG
AGTAGCGATTAGCAAAAAAAATTGGGAAACTAAACTGTG
Found at i:22489564 original size:40 final size:40
Alignment explanation
Indices: 22489509--22489584 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
22489499 AAACAAAAAA
*
22489509 ATAAAATTTTGACAAACGTACCTTTTTTTTTCCCTCCCCC
1 ATAAAATTTTAACAAACGTACCTTTTTTTTTCCCTCCCCC
22489549 ATAAAATTTTAACAAACGTACCTTTTTTTTTCCCTC
1 ATAAAATTTTAACAAACGTACCTTTTTTTTTCCCTC
22489585 ACTCAACTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.42
Consensus pattern (40 bp):
ATAAAATTTTAACAAACGTACCTTTTTTTTTCCCTCCCCC
Found at i:22489722 original size:18 final size:18
Alignment explanation
Indices: 22489688--22489738 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22489678 ATAATAAAAA
*
22489688 ATATATTT-AATTAATAT
1 ATATATTTAAATTTATAT
22489705 ATAT-TTTAAAATTTATAT
1 ATATATTT-AAATTTATAT
*
22489723 TTATATTTAAATTTAT
1 ATATATTTAAATTTAT
22489739 TAATAGTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 19 0.66
19 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATTTAAATTTATAT
Found at i:22489924 original size:23 final size:24
Alignment explanation
Indices: 22489873--22489924 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
22489863 TTTAAAATTG
* * *
22489873 TAAAAAATATATTATAAAATATTT
1 TAAAATATACATTACAAAATATTT
22489897 T-AAATATACATTACAAAAT-TTT
1 TAAAATATACATTACAAAATATTT
22489919 TAAAAT
1 TAAAAT
22489925 TAATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATATACATTACAAAATATTT
Found at i:22489997 original size:34 final size:33
Alignment explanation
Indices: 22489940--22490017 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
22489930 ATAAAATAAA
*
22489940 TAAACAAAATAAAATAAGAAAAAA-ACATAAAATT
1 TAAA-AAAATAAAAAAAGAAAAAAGACA-AAAATT
* * *
22489974 TCAAAAAAGTAAAAAAAGGAAAAAGACAAAATTT
1 T-AAAAAAATAAAAAAAGAAAAAAGACAAAAATT
22490008 TAAAAAAATA
1 TAAAAAAATA
22490018 TTTAAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 8 0.22
34 23 0.62
35 6 0.16
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (33 bp):
TAAAAAAATAAAAAAAGAAAAAAGACAAAAATT
Found at i:22490046 original size:27 final size:28
Alignment explanation
Indices: 22490016--22490079 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 28
22490006 TTTAAAAAAA
* * *
22490016 TATTTAAAATATTATGATTTCTTATAT-
1 TATTTAAAAAATTATAATTTCTTAAATG
*
22490043 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
22490070 TATTTAAAAA
1 TATTTAAAAA
22490080 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 20 0.65
27 4 0.13
28 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:22490087 original size:26 final size:26
Alignment explanation
Indices: 22490016--22490081 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
22490006 TTTAAAAAAA
* *
22490016 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
22490043 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
22490069 GTATTTAAAAATT
1 -TATTTAAAAATT
22490082 GTATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:22490294 original size:18 final size:18
Alignment explanation
Indices: 22490252--22490298 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
22490242 TTATAAAATA
*
22490252 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
22490269 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
22490285 ATATTTAAATTTAT
1 ATATTTAAATTTAT
22490299 TAATAATCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:22490524 original size:24 final size:24
Alignment explanation
Indices: 22490497--22490544 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
22490487 AACTAATTTG
* *
22490497 AAAAATATATTTTTA-AAATTTATA
1 AAAAAT-TAATTTTACAAATATATA
22490521 AAAAATTAATTTTACAAATATATA
1 AAAAATTAATTTTACAAATATATA
22490545 TATAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAAATTAATTTTACAAATATATA
Found at i:22490588 original size:21 final size:21
Alignment explanation
Indices: 22490563--22490649 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
22490553 TAAAAAATAT
22490563 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
22490584 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
*
22490607 TTTTAAATAT-AT-ATTATAAA
1 TTTTAAAAATAATAATTA-AAA
*
22490627 TTTTTTAAAATTAATAATATAAA
1 --TTTTAAAAATAATAAT-TAAA
22490650 TTAAATAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 8 0.16
21 11 0.22
22 13 0.25
23 13 0.25
24 4 0.08
25 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:22490590 original size:34 final size:32
Alignment explanation
Indices: 22490509--22490598 Score: 83
Period size: 35 Copynumber: 2.6 Consensus size: 32
22490499 AAATATATTT
* *
22490509 TTAAAATTTATAAAAAATTAATTTTACAAATATA
1 TTAAAATTT-TAAAAAA-TATTTTTAAAAATATA
*
22490543 TATATAAA-GTTAAAAAATATTTTTAAAAATAATAA
1 T-TA-AAATTTTAAAAAATATTTTTAAAAAT-AT-A
22490578 TTAAAATTTTAAAAAAATATT
1 TTAAAATTTT-AAAAAATATT
22490599 ATAAAACATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
33 14 0.30
34 14 0.30
35 15 0.33
36 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (32 bp):
TTAAAATTTTAAAAAATATTTTTAAAAATATA
Found at i:22490609 original size:23 final size:22
Alignment explanation
Indices: 22490563--22490636 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
22490553 TAAAAAATAT
*
22490563 TTTTAAAAATAATA--ATTAAAA
1 TTTTAAAAA-AATATTATAAAAA
22490584 TTTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * **
22490607 TTTTAAATATATATTATAAATT
1 TTTTAAAAAAATATTATAAAAA
22490629 TTTTAAAA
1 TTTTAAAA
22490637 TTAATAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 9 0.20
22 12 0.27
23 19 0.43
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:22490637 original size:23 final size:23
Alignment explanation
Indices: 22490561--22490651 Score: 61
Period size: 23 Copynumber: 4.1 Consensus size: 23
22490551 GTTAAAAAAT
*
22490561 ATTTTTAAAAATA-ATAATTA-AA
1 ATTTTTTAAAATATAT-ATTATAA
*
22490583 A--TTTTAAAA-AAATATTATAAA
1 ATTTTTTAAAATATATATTAT-AA
**
22490604 ACATTTT-AAATATATATTATAA
1 ATTTTTTAAAATATATATTATAA
*
22490626 ATTTTTTAAAAT-TAATAATATAA
1 ATTTTTTAAAATAT-ATATTATAA
22490649 ATT
1 ATT
22490652 AAATAAGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
19 5 0.09
20 9 0.16
21 3 0.05
22 12 0.21
23 27 0.48
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTTTAAAATATATATTATAA
Found at i:22490655 original size:18 final size:17
Alignment explanation
Indices: 22490638--22490685 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
22490628 TTTTTAAAAT
22490638 TAATAATATAAATTAAA
1 TAATAATATAAATTAAA
* *
22490655 TAAGCAAAATAAATTAAGA
1 TAA-TAATATAAATTAA-A
*
22490674 AAATAATATAAA
1 TAATAATATAAA
22490686 ACTTAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (17 bp):
TAATAATATAAATTAAA
Found at i:22490679 original size:36 final size:37
Alignment explanation
Indices: 22490639--22490712 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
22490629 TTTTAAAATT
*
22490639 AATAATAT-AAA-TTAAATAAGCAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
22490675 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
22490712 A
1 A
22490713 GAGACAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:22490741 original size:10 final size:10
Alignment explanation
Indices: 22490728--22490772 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
22490718 AAAATATAAG
22490728 AAAAAAAAGT
1 AAAAAAAAGT
22490738 --AAAAAAGT
1 AAAAAAAAGT
22490746 -AAAAAAAGT
1 AAAAAAAAGT
*
22490755 AGAAAAAAGT
1 AAAAAAAAGT
22490765 AAAAAAAA
1 AAAAAAAA
22490773 ATATAAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.26
9 8 0.26
10 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (10 bp):
AAAAAAAAGT
Found at i:22490743 original size:9 final size:9
Alignment explanation
Indices: 22490729--22490771 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
22490719 AAATATAAGA
22490729 AAAAAAAGT
1 AAAAAAAGT
22490738 -AAAAAAGT
1 AAAAAAAGT
22490746 AAAAAAAGT
1 AAAAAAAGT
22490755 AGAAAAAAGT
1 A-AAAAAAGT
22490765 AAAAAAA
1 AAAAAAA
22490772 AATATAAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
9 15 0.47
10 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:22490749 original size:7 final size:8
Alignment explanation
Indices: 22490730--22490770 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
22490720 AATATAAGAA
22490730 AAAAAAGT
1 AAAAAAGT
22490738 AAAAAAGT
1 AAAAAAGT
22490746 AAAAAAAGT
1 -AAAAAAGT
22490755 AGAAAAAAGT
1 --AAAAAAGT
22490765 AAAAAA
1 AAAAAA
22490771 AAATATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 14 0.47
9 8 0.27
10 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:22490752 original size:19 final size:18
Alignment explanation
Indices: 22490728--22490773 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
22490718 AAAATATAAG
22490728 AAAAAAAAGTAAAAAAGTA
1 AAAAAAAAG-AAAAAAGTA
*
22490747 AAAAAAGTAGAAAAAAGTA
1 AAAAAA-AAGAAAAAAGTA
22490766 AAAAAAAA
1 AAAAAAAA
22490774 TATAAGAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 21 0.88
20 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAGTA
Found at i:22491897 original size:15 final size:15
Alignment explanation
Indices: 22491853--22491898 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
22491843 TCAAGTTACA
22491853 TTTTAATCACTTATG
1 TTTTAATCACTTATG
*
22491868 TTTGAAAT-A-TTATG
1 TTT-TAATCACTTATG
22491882 TTTTAATCACTTATG
1 TTTTAATCACTTATG
22491897 TT
1 TT
22491899 ATTGTGTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.12
14 9 0.35
15 11 0.42
16 3 0.12
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (15 bp):
TTTTAATCACTTATG
Found at i:22492339 original size:4 final size:4
Alignment explanation
Indices: 22492321--22492353 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
22492311 GAAGCGGAAG
*
22492321 AGAA TGAA A-AA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
22492354 TTAAAAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (4 bp):
AGAA
Done.