Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 195 of 295
Found at i:66463521 original size:49 final size:49
Alignment explanation
Indices: 66463447--66463543 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
66463437 CTATTTCATC
* *
66463447 ATACCGTAAAATATACTTTTAATTTCACAATCAAACGATTGTAGAACTG
1 ATACCGTAAAATATACATTTAATTTCACAATCAAACAATTGTAGAACTG
*
66463496 ATACCGTAAAATATACATTTCATTTCACAATCAAACAATTGTAGAACT
1 ATACCGTAAAATATACATTTAATTTCACAATCAAACAATTGTAGAACT
66463544 AATATACCTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (49 bp):
ATACCGTAAAATATACATTTAATTTCACAATCAAACAATTGTAGAACTG
Found at i:66466109 original size:19 final size:19
Alignment explanation
Indices: 66466085--66466124 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66466075 TGTGTCATCA
66466085 TAAATTCACAGGCATAACT
1 TAAATTCACAGGCATAACT
* **
66466104 TAAATTTATGGGCATAACT
1 TAAATTCACAGGCATAACT
66466123 TA
1 TA
66466125 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TAAATTCACAGGCATAACT
Found at i:66470507 original size:21 final size:21
Alignment explanation
Indices: 66470481--66470543 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
66470471 TTGGTATTTG
66470481 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
66470502 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
66470523 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
66470544 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:66482179 original size:40 final size:40
Alignment explanation
Indices: 66482102--66482279 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
66482092 AAACCAAGTA
* * * *
66482102 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
66482141 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66482181 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
66482221 CCTTCGGGGCTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
66482261 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66482280 TTATCATCCG
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 107 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66498128 original size:10 final size:10
Alignment explanation
Indices: 66498100--66498130 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
66498090 AGACACCTAG
*
66498100 TTGATGACAA
1 TTGATGACGA
66498110 TTGATGACGA
1 TTGATGACGA
66498120 TTGATGACGA
1 TTGATGACGA
66498130 T
1 T
66498131 ATCTCCCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:66500557 original size:22 final size:22
Alignment explanation
Indices: 66500528--66500660 Score: 169
Period size: 22 Copynumber: 6.0 Consensus size: 22
66500518 GAGTCATGGT
*
66500528 CGGTAAGCTTCT-TCGAGCTGAA
1 CGGTAAGC-TCTATTGAGCTGAA
* *
66500550 CAGTAAGCTTTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
*
66500573 CGGTAAGCTCTAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
**
66500595 TAGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
66500617 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* *
66500639 CGGTAAGCTCCAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
66500661 ACAATAAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
21 2 0.02
22 75 0.78
23 19 0.20
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:66500680 original size:67 final size:67
Alignment explanation
Indices: 66500531--66500680 Score: 198
Period size: 67 Copynumber: 2.2 Consensus size: 67
66500521 TCATGGTCGG
* *
66500531 TAAGCTTCTT-CGAGCTGAACAGTAAGCTTTATTGAGCTGAAACGGTAAGCTCTAATGAGCTGAA
1 TAAGC-TCTTACGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTGAA
* *
66500595 TAG
65 CAA
* *
66500598 TAAGCTC-TATTGAGCTGAACGGTAAGCTCTATTGAGCTG-AACGGTAAGCTCCAATGAGCTGAA
1 TAAGCTCTTA-CGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTG-A
66500661 ACAA
64 ACAA
66500665 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
66500681 ATGGTGAGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
65 1 0.01
66 23 0.32
67 46 0.64
68 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (67 bp):
TAAGCTCTTACGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTGAAC
AA
Found at i:66505139 original size:27 final size:27
Alignment explanation
Indices: 66505117--66505176 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
66505107 AATTTGTATG
66505117 TGAA-ATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
66505143 TTAACATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
66505170 TTAACAT
1 TGAACAT
66505177 TTGATCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
TGAACATGGCATATATTGGTTTTGAAT
Found at i:66517139 original size:30 final size:30
Alignment explanation
Indices: 66517105--66517169 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
66517095 CCATATAAGC
66517105 AAACAATCA-GAGTAAATACAATTTGGGCCT
1 AAACAAT-ATGAGTAAATACAATTTGGGCCT
*
66517135 AAACACTATGAGTAAATACAATTTGGGCCT
1 AAACAATATGAGTAAATACAATTTGGGCCT
66517165 AAACA
1 AAACA
66517170 TTATTAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (30 bp):
AAACAATATGAGTAAATACAATTTGGGCCT
Found at i:66518472 original size:29 final size:29
Alignment explanation
Indices: 66518434--66518493 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
66518424 GAAACAGAAG
*
66518434 AACACCAAAGCCGATTCCCCTCCCCTTTT
1 AACACCAAAGCCAATTCCCCTCCCCTTTT
*
66518463 AACACCAAAGCTAATTCCCCTCCCCTTTT
1 AACACCAAAGCCAATTCCCCTCCCCTTTT
66518492 AA
1 AA
66518494 GAGAAACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.42, G:0.05, T:0.25
Consensus pattern (29 bp):
AACACCAAAGCCAATTCCCCTCCCCTTTT
Found at i:66522318 original size:74 final size:74
Alignment explanation
Indices: 66522197--66522344 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
66522187 TTGAGTTATG
66522197 CCATTGTTGAAAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAAGATATGTGATAGATTA
1 CCATTGTTGAAAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAAGATATGTGATAGATTA
66522262 AAATGTTTT
66 AAATGTTTT
*
66522271 CCATTGTTGAAAGCTTGTGATTTTTTTTGTTTGATGGTAGAAAATAAAAGATATGTGATAGATTA
1 CCATTGTTGAAAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAAGATATGTGATAGATTA
66522336 AAATGTTTT
66 AAATGTTTT
66522345 GTATTGGAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (74 bp):
CCATTGTTGAAAGCTTGTGATTTTTGTTGTTTGATGGTAGAAAATAAAAGATATGTGATAGATTA
AAATGTTTT
Found at i:66526378 original size:19 final size:19
Alignment explanation
Indices: 66526354--66526400 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
66526344 TATTTAGTAC
66526354 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
66526373 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
*
66526392 AAGCTTACT
1 GAGCTTACT
66526401 TTGTGTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (19 bp):
GAGCTTACTAAGCTTTTGA
Found at i:66533640 original size:43 final size:43
Alignment explanation
Indices: 66533566--66533672 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
66533556 TCTGAACTCA
* * **
66533566 TTCACCGGCATT-TCGCTTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
66533608 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
66533651 CTCACCGACATTATAGCCTGCT
1 TTCACCGGCATTATAGCCTGCT
66533673 TGGCTTGATG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 12 0.21
43 45 0.79
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:66533842 original size:20 final size:20
Alignment explanation
Indices: 66533796--66533842 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66533786 AGCTTGTTTC
*
66533796 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
66533816 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66533836 CAGCTCA
1 CAGCTCA
66533843 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66535427 original size:11 final size:10
Alignment explanation
Indices: 66535392--66535419 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
66535382 AAATCAAGTT
66535392 AAAAAAAAAG
1 AAAAAAAAAG
66535402 AAAAAAAAAG
1 AAAAAAAAAG
66535412 AAAAAAAA
1 AAAAAAAA
66535420 GTGAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:66536546 original size:47 final size:47
Alignment explanation
Indices: 66536455--66536559 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 47
66536445 GAGTGTCATG
*
66536455 GAAAAAGAAATTGAGATTGAAAAAGGATGTAAAAAGAGAA-AGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTAAAAAGAGAAGA-AAATC
*
66536502 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAA-AG-AGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGT-A--AAAAGAGAAGAAAATC
66536550 GAAAAAGAAA
1 GAAAAAGAAA
66536560 GAAAAGACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
47 24 0.47
48 20 0.39
49 3 0.06
50 4 0.08
ACGTcount: A:0.60, C:0.02, G:0.24, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTAAAAAGAGAAGAAAATC
Found at i:66538275 original size:20 final size:20
Alignment explanation
Indices: 66538229--66538275 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66538219 AGCTCGTTTC
*
66538229 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
66538249 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66538269 CAGCTCA
1 CAGCTCA
66538276 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66541279 original size:22 final size:22
Alignment explanation
Indices: 66541251--66541295 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
66541241 CAATGGGGAA
66541251 AAGAAAGATGAACATACATTGT
1 AAGAAAGATGAACATACATTGT
66541273 AAGAAAGATGAACATACATTGT
1 AAGAAAGATGAACATACATTGT
66541295 A
1 A
66541296 TTTATCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (22 bp):
AAGAAAGATGAACATACATTGT
Found at i:66546093 original size:43 final size:43
Alignment explanation
Indices: 66546045--66546154 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
66546035 CCGACATTTT
* * * * *
66546045 GCCTGCTAGGCTTGAAGCCCGATATCATTTCA-TCGGCATTATA
1 GCCTGCTAAGCCTAAAGCCCGATATCATCTCACT-GGCAATATA
*
66546088 GCCTGCTAAGCCTAAAGCCCGATATTATCTCACTGGCAATATA
1 GCCTGCTAAGCCTAAAGCCCGATATCATCTCACTGGCAATATA
* *
66546131 TCCTGCTAAGCCTAAAACCCGATA
1 GCCTGCTAAGCCTAAAGCCCGATA
66546155 ATATTATTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 57 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
GCCTGCTAAGCCTAAAGCCCGATATCATCTCACTGGCAATATA
Found at i:66553161 original size:8 final size:8
Alignment explanation
Indices: 66553148--66553172 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
66553138 GTAGAAGAAA
66553148 ATTTTGTG
1 ATTTTGTG
66553156 ATTTTGTG
1 ATTTTGTG
66553164 ATTTTGTG
1 ATTTTGTG
66553172 A
1 A
66553173 ATTAGGGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (8 bp):
ATTTTGTG
Found at i:66557083 original size:27 final size:27
Alignment explanation
Indices: 66557027--66557109 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
66557017 ATACCTGAAA
** *
66557027 CCTTATGTGATAAAATGA-CGATTTTTC
1 CCTTATGTGATAAAATGACCGA-AATAC
66557054 CCTTATGTGATAAAATGACCGAAATAC
1 CCTTATGTGATAAAATGACCGAAATAC
*
66557081 CCTCATAG-GATAAAATGACCGAAATAC
1 CCTTAT-GTGATAAAATGACCGAAATAC
66557108 CC
1 CC
66557110 CCATAGGGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 46 0.92
28 4 0.08
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (27 bp):
CCTTATGTGATAAAATGACCGAAATAC
Found at i:66557130 original size:26 final size:27
Alignment explanation
Indices: 66557062--66557178 Score: 103
Period size: 27 Copynumber: 4.4 Consensus size: 27
66557052 TCCCTTATGT
*
66557062 GATAAAATGACCGAAATACCCTCATAG
1 GATAAAATGACCGAAATACCCCCATAG
66557089 GATAAAATGACCGAAATACCCCCATAG
1 GATAAAATGACCGAAATACCCCCATAG
* * * * * **
66557116 GGT-GAATGGCTGAAATACCACTGTAG
1 GATAAAATGACCGAAATACCCCCATAG
* * * *
66557142 GGTAAAATGACTGTAATACCCCGATAAG
1 GATAAAATGACCGAAATACCCCCAT-AG
66557170 G-TAAAATGA
1 GATAAAATGA
66557179 TAGATTTTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
26 20 0.27
27 51 0.69
28 3 0.04
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.20
Consensus pattern (27 bp):
GATAAAATGACCGAAATACCCCCATAG
Found at i:66557577 original size:18 final size:18
Alignment explanation
Indices: 66557522--66557579 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
66557512 TCTGCTTGCA
**
66557522 TACTGCACTGATTACTAA
1 TACTGCACTGATTACTGT
* * *
66557540 TACTACATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
66557558 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
66557576 TACT
1 TACT
66557580 AAAATGGGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:66557609 original size:34 final size:34
Alignment explanation
Indices: 66557570--66557667 Score: 151
Period size: 34 Copynumber: 2.9 Consensus size: 34
66557560 CTGCACTGAT
**
66557570 TACTGTTACTAAAATGGGCTAAGGCTTAGACTGC
1 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
66557604 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
1 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
* * *
66557638 TACTGTTACTGATATGGGCTTAGGCCCAGA
1 TACTGTTACTAAAATGGGCTAAGGCCCAGA
66557668 ATGTATTCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
Found at i:66557613 original size:40 final size:39
Alignment explanation
Indices: 66557559--66557648 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 39
66557549 GATCATGGTT
**
66557559 ACTGCACTGATTACTGTTACTAAAATGGGCTAAGGCTTAG
1 ACTGCACTG-TTACTGTTACTAAAATGGGCTAAGGCCCAG
66557599 ACTG--C---TACTGTTACTAAAATGGGCTAAGGCCCAG
1 ACTGCACTGTTACTGTTACTAAAATGGGCTAAGGCCCAG
66557633 ACTGCTACTGTTACTG
1 ACTGC-ACTGTTACTG
66557649 ATATGGGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
34 31 0.74
37 1 0.02
38 1 0.02
40 9 0.21
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (39 bp):
ACTGCACTGTTACTGTTACTAAAATGGGCTAAGGCCCAG
Found at i:66566241 original size:30 final size:30
Alignment explanation
Indices: 66566146--66566242 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
66566136 AGCTCACTCC
* *
66566146 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
66566176 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
66566206 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
66566236 TAGCTCA
1 TAGCTCA
66566243 TTTTACTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:66566791 original size:24 final size:24
Alignment explanation
Indices: 66566759--66566805 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
66566749 CTGTCAGGAG
**
66566759 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
66566783 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
66566806 GAAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:66568257 original size:28 final size:28
Alignment explanation
Indices: 66568214--66568313 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
66568204 AGGAAGCGTC
*
66568214 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* * *
66568242 CTGGTGGCTCTACCACATA-TATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
66568269 CTGGTGGTTCTGCCAC-GATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTG-AT
* *
66568297 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
66568314 TTATCAGTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.02
27 27 0.47
28 30 0.52
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:66568272 original size:27 final size:26
Alignment explanation
Indices: 66568214--66568326 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
66568204 AGGAAGCGTC
* *
66568214 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
66568242 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
66568269 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
66568297 CTGGTGACTCTGTCACATTATCAGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
66568323 CTGG
1 CTGG
66568327 CAACCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.49
28 30 0.41
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:66568299 original size:55 final size:54
Alignment explanation
Indices: 66568214--66568326 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
66568204 AGGAAGCGTC
* *
66568214 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTACCACAT-TATCAGTT
* * * **
66568269 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCAGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTACCACATTATCAGTT
66568323 CTGG
1 CTGG
66568327 CAACCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 19 0.38
55 31 0.62
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTACCACATTATCAGTT
Found at i:66573033 original size:27 final size:26
Alignment explanation
Indices: 66572975--66573087 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 26
66572965 AGGAAGCGTC
* *
66572975 CTGGTGGCTATGCCACAAATTATCAGAT
1 CTGGTGGCTCTGCCAC--ATTATCAGTT
*
66573003 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCAGTT
*
66573030 CTGGTGGTTCTGCCACGATTATCTA-TAT
1 CTGGTGGCTCTGCCAC-ATTATC-AGT-T
* * *
66573058 CTAGTGACTCTGTCACATTATCAGTT
1 CTGGTGGCTCTGCCACATTATCAGTT
66573084 CTGG
1 CTGG
66573088 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
26 7 0.10
27 33 0.47
28 30 0.43
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCAGTT
Found at i:66573069 original size:55 final size:54
Alignment explanation
Indices: 66572975--66573087 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 54
66572965 AGGAAGCGTC
* * *
66572975 CTGGTGGCTATGCCACAAATTATCAGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCAGATCTAGTGACTCTGCCACAT-TATCAGTT
* * * * *
66573030 CTGGTGGTTCTGCCAC-GATTATCTATATCTAGTGACTCTGTCACATTATCAGTT
1 CTGGTGGCTATGCCACAAATTATC-AGATCTAGTGACTCTGCCACATTATCAGTT
66573084 CTGG
1 CTGG
66573088 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
54 17 0.35
55 32 0.65
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCAGATCTAGTGACTCTGCCACATTATCAGTT
Found at i:66576417 original size:9 final size:10
Alignment explanation
Indices: 66576410--66576466 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
66576400 AAGAGAAAAC
66576410 AAAGAAAAGA
1 AAAGAAAAGA
66576420 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
66576432 AAAGAAGA-A
1 AAAGAAAAGA
66576441 AAAGAAAATGA
1 AAAGAAAA-GA
66576452 AATA-AAAAGA
1 AA-AGAAAAGA
66576462 AAAGA
1 AAAGA
66576467 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:66576433 original size:21 final size:20
Alignment explanation
Indices: 66576399--66576466 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
66576389 ACATTCTTGT
66576399 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
66576420 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
66576441 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
66576462 AAAGA
1 AAAGA
66576467 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:66576434 original size:6 final size:5
Alignment explanation
Indices: 66576410--66576466 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
66576400 AAGAGAAAAC
*
66576410 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
66576457 AAAGA AAAGA
1 AAAGA AAAGA
66576467 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:66576441 original size:15 final size:14
Alignment explanation
Indices: 66576410--66576466 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
66576400 AAGAGAAAAC
66576410 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
66576426 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
66576441 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
66576457 AAAGAAAAGA
1 AAAGAAAAGA
66576467 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:66576543 original size:12 final size:12
Alignment explanation
Indices: 66576535--66576559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66576525 TTTGAAAAGC
66576535 AAAAAGAAAATG
1 AAAAAGAAAATG
66576547 AAAAAGAAAATG
1 AAAAAGAAAATG
66576559 A
1 A
66576560 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:66576556 original size:18 final size:18
Alignment explanation
Indices: 66576529--66576584 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
66576519 AAAGCCTTTG
66576529 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
66576548 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
66576566 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
66576583 AA
1 AA
66576585 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:66576569 original size:30 final size:31
Alignment explanation
Indices: 66576535--66576616 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
66576525 TTTGAAAAGC
*
66576535 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
66576565 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
66576595 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
66576617 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:66579172 original size:15 final size:15
Alignment explanation
Indices: 66579148--66579185 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
66579138 TAAATATTAT
*
66579148 TTGGGCCTAGAAGTA
1 TTGGGTCTAGAAGTA
66579163 TTGGGTCTAGAAGTA
1 TTGGGTCTAGAAGTA
66579178 TTGGGTCT
1 TTGGGTCT
66579186 TGTGCATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.11, G:0.34, T:0.34
Consensus pattern (15 bp):
TTGGGTCTAGAAGTA
Found at i:66582683 original size:27 final size:27
Alignment explanation
Indices: 66582627--66582709 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
66582617 ATACCTGAAA
** *
66582627 CCTTATGTGATAAAATGA-CGATTTTTC
1 CCTTATGTGATAAAATGACCGA-AATAC
66582654 CCTTATGTGATAAAATGACCGAAATAC
1 CCTTATGTGATAAAATGACCGAAATAC
* *
66582681 CCTCATAG-GATAAAATGACCAAAATAC
1 CCTTAT-GTGATAAAATGACCGAAATAC
66582708 CC
1 CC
66582710 CCATAGGGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 45 0.92
28 4 0.08
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (27 bp):
CCTTATGTGATAAAATGACCGAAATAC
Found at i:66582724 original size:27 final size:27
Alignment explanation
Indices: 66582662--66582716 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
66582652 TCCCTTATGT
* *
66582662 GATAAAATGACCGAAATACCCTCATAG
1 GATAAAATGACCAAAATACCCCCATAG
66582689 GATAAAATGACCAAAATACCCCCATAG
1 GATAAAATGACCAAAATACCCCCATAG
66582716 G
1 G
66582717 GTAGAATGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (27 bp):
GATAAAATGACCAAAATACCCCCATAG
Found at i:66582760 original size:27 final size:26
Alignment explanation
Indices: 66582664--66582780 Score: 85
Period size: 27 Copynumber: 4.3 Consensus size: 26
66582654 CCTTATGTGA
* *
66582664 TAAAATGACCGAAATACCCTC-ATAGGA
1 TAAAATGA-TGAAATACCC-CGATAGGG
** *
66582691 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGA-TGAAATACCCCGATAGGG
* *
66582718 TAGAATGGATGAAATACCACTG-TAGGG
1 TAAAAT-GATGAAATACC-CCGATAGGG
* *
66582745 TAAAATGACTGTAATACCCCGATAAGG
1 TAAAATGA-TGAAATACCCCGATAGGG
66582772 TAAAATGAT
1 TAAAATGAT
66582781 AGATTTGTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
26 6 0.08
27 65 0.88
28 3 0.04
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (26 bp):
TAAAATGATGAAATACCCCGATAGGG
Found at i:66583178 original size:18 final size:18
Alignment explanation
Indices: 66583123--66583180 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
66583113 TCTGCTTGCA
**
66583123 TACTGCACTGATTACTAA
1 TACTGCACTGATTACTGT
* * *
66583141 TACTACATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
66583159 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
66583177 TACT
1 TACT
66583181 AAAATGGGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:66583210 original size:34 final size:34
Alignment explanation
Indices: 66583171--66583268 Score: 151
Period size: 34 Copynumber: 2.9 Consensus size: 34
66583161 CTGCACTGAT
**
66583171 TACTGTTACTAAAATGGGCTAAGGCTTAGACTGC
1 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
66583205 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
1 TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
* * *
66583239 TACTGTTACTGATATGGGCTTAGGCCCAGA
1 TACTGTTACTAAAATGGGCTAAGGCCCAGA
66583269 ATGTATTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGTTACTAAAATGGGCTAAGGCCCAGACTGC
Found at i:66583214 original size:40 final size:39
Alignment explanation
Indices: 66583160--66583249 Score: 109
Period size: 34 Copynumber: 2.4 Consensus size: 39
66583150 GATCATGGTT
**
66583160 ACTGCACTGATTACTGTTACTAAAATGGGCTAAGGCTTAG
1 ACTGCACTG-TTACTGTTACTAAAATGGGCTAAGGCCCAG
66583200 ACTG--C---TACTGTTACTAAAATGGGCTAAGGCCCAG
1 ACTGCACTGTTACTGTTACTAAAATGGGCTAAGGCCCAG
66583234 ACTGCTACTGTTACTG
1 ACTGC-ACTGTTACTG
66583250 ATATGGGCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
34 31 0.74
37 1 0.02
38 1 0.02
40 9 0.21
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (39 bp):
ACTGCACTGTTACTGTTACTAAAATGGGCTAAGGCCCAG
Found at i:66598798 original size:68 final size:68
Alignment explanation
Indices: 66598649--66598806 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
66598639 TTAGCCGATT
* * * *
66598649 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
66598714 TTTA
65 TATA
* * *
66598718 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
66598780 CTATATA
63 C-ATATA
66598787 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
66598807 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:66603529 original size:27 final size:27
Alignment explanation
Indices: 66603499--66603676 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
66603489 ATATTGAGCC
* * * *
66603499 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66603526 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66603553 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
66603581 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66603608 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66603635 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66603662 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66603677 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66603638 original size:82 final size:81
Alignment explanation
Indices: 66603520--66603675 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
66603510 TGCTATATAA
* * * *
66603520 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
66603585 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
66603602 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66603666 CACTTAGTGC
65 CACTTAGTGC
66603676 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66611630 original size:27 final size:27
Alignment explanation
Indices: 66611600--66611777 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
66611590 ATATTGAGCC
* * * *
66611600 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66611627 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
66611654 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
66611682 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
66611709 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
66611736 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
66611763 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
66611778 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:66611739 original size:82 final size:81
Alignment explanation
Indices: 66611621--66611776 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
66611611 TGCTATATAA
* * * *
66611621 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
66611686 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
66611703 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
66611767 CACTTAGTGC
65 CACTTAGTGC
66611777 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:66625231 original size:12 final size:13
Alignment explanation
Indices: 66625216--66625244 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
66625206 ATAACTTATA
66625216 TTAATTTA-ATGT
1 TTAATTTACATGT
66625228 TTAATTTACATGT
1 TTAATTTACATGT
66625241 TTAA
1 TTAA
66625245 CCTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (13 bp):
TTAATTTACATGT
Found at i:66625451 original size:14 final size:14
Alignment explanation
Indices: 66625425--66625462 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
66625415 AAAATTAAAG
*
66625425 CACAAA-AATTTCA
1 CACAAATAAATTCA
66625438 CACAAATAAATTCA
1 CACAAATAAATTCA
66625452 CACATAATAAA
1 CACA-AATAAA
66625463 AATAGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
CACAAATAAATTCA
Found at i:66629958 original size:53 final size:54
Alignment explanation
Indices: 66629878--66630084 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
66629868 TTCCTTTTTA
* * * * * *
66629878 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGTCTTAT-G
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * **
66629931 AACTCACCAATGCCATGCCTTGGCATGGTCTTACGTGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG
* * * * *
66629985 TAACTCATCATTGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTATAG
1 -AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
* * * * *
66630040 AACTTATCAATGTCATGCCTTGGCATGGCCTTACATGATATCCTT
1 AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
66630085 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 38 0.30
55 42 0.33
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAG
Found at i:66630184 original size:47 final size:47
Alignment explanation
Indices: 66630063--66630174 Score: 206
Period size: 47 Copynumber: 2.4 Consensus size: 47
66630053 CATGCCTTGG
* *
66630063 CATGGCCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
66630110 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
66630157 CATGGTCTTACATGGTAT
1 CATGGTCTTACATGGTAT
66630175 TCTCGTCTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:66630939 original size:30 final size:31
Alignment explanation
Indices: 66630900--66630957 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
66630890 CTAACTCAAA
66630900 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
*
66630931 CTTT-GCAAAATTACAATTTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
66630958 GGATCAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:66633318 original size:18 final size:18
Alignment explanation
Indices: 66633295--66633331 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
66633285 CGAATTAAGG
66633295 CCTGTAAGAATATTTTTA
1 CCTGTAAGAATATTTTTA
66633313 CCTGTAAGAATATTTTTA
1 CCTGTAAGAATATTTTTA
66633331 C
1 C
66633332 TTTGAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
CCTGTAAGAATATTTTTA
Found at i:66636513 original size:20 final size:20
Alignment explanation
Indices: 66636467--66636513 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
66636457 AGCTCGTTTC
*
66636467 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
66636487 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66636507 CAGCTCA
1 CAGCTCA
66636514 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66640953 original size:20 final size:20
Alignment explanation
Indices: 66640907--66640953 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
66640897 AGCTCGTTTC
*
66640907 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
66640927 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66640947 CAGCTCA
1 CAGCTCA
66640954 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66649033 original size:28 final size:28
Alignment explanation
Indices: 66649001--66649064 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
66648991 TGGGAAGTAG
* *
66649001 TTGGGCCTGATGGGCCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* *
66649029 TTGGGCCTGATTGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
66649057 TTGGGCCT
1 TTGGGCCT
66649065 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:66649412 original size:27 final size:27
Alignment explanation
Indices: 66649381--66649504 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
66649371 TAATAAAGAG
* *
66649381 AAATTATTGAAATACCCTTGATTTGTA
1 AAATTATTGAAACACCCTCGATTTGTA
* * * * *
66649408 TAATTATCGAAATACCCTCGATTTATG
1 AAATTATTGAAACACCCTCGATTTGTA
66649435 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTATTGAAACACCCTCGATTTGTA
* *
66649462 AAATTACTGAAACACCCTTGATTTGTA
1 AAATTATTGAAACACCCTCGATTTGTA
*
66649489 AAATTATCGAAACACC
1 AAATTATTGAAACACC
66649505 AAAATTATCG
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTATTGAAACACCCTCGATTTGTA
Found at i:66649535 original size:27 final size:27
Alignment explanation
Indices: 66649505--66649606 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 27
66649495 TCGAAACACC
* **
66649505 AAAATTATCGAAATACCCTTGATTCAT
1 AAAATTATCAAAATACCCTTGATTTGT
66649532 AAAATTATCAAAATACCCTTGATTTGT
1 AAAATTATCAAAATACCCTTGATTTGT
* * *
66649559 AAAATTATTAAAACACCCTCGATTTGT
1 AAAATTATCAAAATACCCTTGATTTGT
* *
66649586 AAATTTATCGAAATACCCTTG
1 AAAATTATCAAAATACCCTTG
66649607 TAGTGTAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
AAAATTATCAAAATACCCTTGATTTGT
Found at i:66649551 original size:71 final size:71
Alignment explanation
Indices: 66649435--66649575 Score: 185
Period size: 71 Copynumber: 2.0 Consensus size: 71
66649425 TCGATTTATG
* ** * *
66649435 AAATTATTGAAACACCCTCGATTTGTAAAATTACTGAAACACCCTTGATTTGTAAAATTATCGAA
1 AAATTATCGAAACACCCTCGATTCATAAAATTACTAAAACACCCTTGATTTGTAAAATTATCAAA
66649500 ACACCA
66 ACACCA
* * * *
66649506 AAATTATCGAAATACCCTTGATTCATAAAATTA-TCAAAATACCCTTGATTTGTAAAATTATTAA
1 AAATTATCGAAACACCCTCGATTCATAAAATTACT-AAAACACCCTTGATTTGTAAAATTATCAA
66649570 AACACC
65 AACACC
66649576 CTCGATTTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (71 bp):
AAATTATCGAAACACCCTCGATTCATAAAATTACTAAAACACCCTTGATTTGTAAAATTATCAAA
ACACCA
Found at i:66649583 original size:98 final size:98
Alignment explanation
Indices: 66649409--66649598 Score: 281
Period size: 98 Copynumber: 1.9 Consensus size: 98
66649399 TGATTTGTAT
* * ** *
66649409 AATTATCGAAATACCCTCGATTTATGAAATTATTGAAACACCCTCGATTTGTAAAATTACTGAAA
1 AATTATCGAAATACCCTCGATTCATAAAATTATCAAAACACCCTCGATTTGTAAAATTACTAAAA
*
66649474 CACCCTTGATTTGTAAAATTATCGAAACACCAA
66 CACCCTCGATTTGTAAAATTATCGAAACACCAA
* * * *
66649507 AATTATCGAAATACCCTTGATTCATAAAATTATCAAAATACCCTTGATTTGTAAAATTATTAAAA
1 AATTATCGAAATACCCTCGATTCATAAAATTATCAAAACACCCTCGATTTGTAAAATTACTAAAA
*
66649572 CACCCTCGATTTGTAAATTTATCGAAA
66 CACCCTCGATTTGTAAAATTATCGAAA
66649599 TACCCTTGTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (98 bp):
AATTATCGAAATACCCTCGATTCATAAAATTATCAAAACACCCTCGATTTGTAAAATTACTAAAA
CACCCTCGATTTGTAAAATTATCGAAACACCAA
Found at i:66649604 original size:125 final size:125
Alignment explanation
Indices: 66649381--66649606 Score: 337
Period size: 125 Copynumber: 1.8 Consensus size: 125
66649371 TAATAAAGAG
* ** * * * *
66649381 AAATTATTGAAATACCCTTGATTTGTATAATTATCGAAATACCCTCGATTTATGAAATTATTGAA
1 AAATTATCGAAATACCCTTGATTCATAAAATTATCAAAATACCCTCGATTTATAAAATTATTAAA
66649446 ACACCCTCGATTTGTAAAATTACTGAAACACCCTTGATTTGTAAAATTATCGAAACACCA
66 ACACCCTCGATTTGTAAAATTACTGAAACACCCTTGATTTGTAAAATTATCGAAACACCA
* *
66649506 AAATTATCGAAATACCCTTGATTCATAAAATTATCAAAATACCCTTGATTTGTAAAATTATTAAA
1 AAATTATCGAAATACCCTTGATTCATAAAATTATCAAAATACCCTCGATTTATAAAATTATTAAA
* *
66649571 ACACCCTCGATTTGTAAATTTA-TCGAAATACCCTTG
66 ACACCCTCGATTTGTAAAATTACT-GAAACACCCTTG
66649607 TAGTGTAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.01
125 88 0.99
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (125 bp):
AAATTATCGAAATACCCTTGATTCATAAAATTATCAAAATACCCTCGATTTATAAAATTATTAAA
ACACCCTCGATTTGTAAAATTACTGAAACACCCTTGATTTGTAAAATTATCGAAACACCA
Found at i:66649613 original size:27 final size:26
Alignment explanation
Indices: 66649505--66649633 Score: 123
Period size: 27 Copynumber: 4.8 Consensus size: 26
66649495 TCGAAACACC
*
66649505 AAAATTATCGAAATACCCTTGATTCAT
1 AAAATTATCGAAATACCCTTGATT-GT
*
66649532 AAAATTATCAAAATACCCTTGATTTGT
1 AAAATTATCGAAATACCCTTGA-TTGT
** * *
66649559 AAAATTATTAAAACACCCTCGATTTGT
1 AAAATTATCGAAATACCCTTGA-TTGT
* *
66649586 AAATTTATCGAAATACCCTTGTAGTGT
1 AAAATTATCGAAATACCCTTG-ATTGT
* * *
66649613 AAAATGACCGACATACCCTTG
1 AAAATTATCGAAATACCCTTG
66649634 TAGGGTAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 82 0.96
28 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAATTATCGAAATACCCTTGATTGT
Found at i:66650608 original size:6 final size:6
Alignment explanation
Indices: 66650597--66650622 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
66650587 AGAAATAAAT
66650597 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
66650623 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:66654191 original size:39 final size:40
Alignment explanation
Indices: 66654044--66654305 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
66654034 TTGAATGCTG
* * * * * *
66654044 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
66654084 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66654124 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66654164 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
66654203 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66654243 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66654282 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66654306 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 74 0.38
40 115 0.58
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66654209 original size:79 final size:78
Alignment explanation
Indices: 66654044--66654305 Score: 319
Period size: 79 Copynumber: 3.3 Consensus size: 78
66654034 TTGAATGCTG
* * * * * * *
66654044 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCGAAGG-CAT
*
66654108 TGTGCGAGATACTAAA
63 TGTGCGAGTTACTAAA
*
66654124 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATT-G
*
66654189 TGCGAGTTATTAAA
65 TGCGAGTTACTAAA
* * * *
66654203 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATTG
*
66654268 TGTGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
66654282 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
66654306 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
78 3 0.02
79 103 0.64
80 48 0.30
81 6 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:66654325 original size:79 final size:80
Alignment explanation
Indices: 66654083--66654340 Score: 229
Period size: 79 Copynumber: 3.3 Consensus size: 80
66654073 AAGTGAATAT
* * * * * * *
66654083 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
66654147 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
66654163 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
66654227 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
66654242 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
66654306 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
66654321 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
66654341 TACGTGATTT
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 15 0.10
79 116 0.76
80 22 0.14
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:66662071 original size:40 final size:40
Alignment explanation
Indices: 66661988--66662250 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
66661978 TTGAATGCTG
* * * * * *
66661988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
66662028 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
66662068 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66662108 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
66662148 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66662188 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
66662227 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
66662251 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:66662270 original size:79 final size:80
Alignment explanation
Indices: 66662027--66662285 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
66662017 AAGTGAATAT
* * * * * * *
66662027 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
66662091 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
66662107 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
66662172 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
66662187 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
66662251 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
66662266 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
66662286 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:66664557 original size:28 final size:28
Alignment explanation
Indices: 66664520--66664636 Score: 198
Period size: 28 Copynumber: 4.2 Consensus size: 28
66664510 GAAGTAGTTT
* * *
66664520 GGCCTGATGGGCCATATAAATGTGATTG
1 GGCCTGATGGGCCATGTGAATGAGATTG
66664548 GGCCTGATGGGCCATGTGAATGAGATTG
1 GGCCTGATGGGCCATGTGAATGAGATTG
66664576 GGCCTGATGGGCCATGTGAATGAGATTG
1 GGCCTGATGGGCCATGTGAATGAGATTG
*
66664604 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATGTGAATGAGATTG
66664632 GGCCT
1 GGCCT
66664637 AAAGGGGCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.21, C:0.16, G:0.38, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATGTGAATGAGATTG
Found at i:66664982 original size:27 final size:27
Alignment explanation
Indices: 66664952--66665185 Score: 181
Period size: 27 Copynumber: 8.7 Consensus size: 27
66664942 TAATAAAGAG
66664952 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
66664979 AAATCACTAAAATACCCTCGATATGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
66665006 AAATTACCGAAACACCATAGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
66665033 AAATTACTGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
66665060 AAATTA-TCAAGACACCTTTGATTTGTA
1 AAATTACTGAA-ATACCCTCGATTTGTA
* * *
66665087 AAATT-TTCAAAATACCCTCGACTTT-TC
1 AAATTACT-GAAATACCCTCGA-TTTGTA
* * *
66665114 AAATAACTGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
66665141 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
66665168 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
66665186 TGTAGTATAA
Statistics
Matches: 161, Mismatches: 37, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
26 8 0.05
27 147 0.91
28 6 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:66665181 original size:81 final size:79
Alignment explanation
Indices: 66664952--66665185 Score: 236
Period size: 81 Copynumber: 2.9 Consensus size: 79
66664942 TAATAAAGAG
* * * * *
66664952 AAATTACTGAAATACCCTCGATTTGTAAAATCACTAAAATACCCTCGATATGTGAAATTACCGAA
1 AAATTACTGAAACACCCTCGATTTGTAAAATTA-TCAAATACCCTTG-TATGTAAAATTACCGAA
* *
66665017 ACACCATAGATTTGTA
64 ATACCCTAGATTTGTA
* * * * ** *
66665033 AAATTACTGAAACACCCTCAATTTGTAAAATTATCAAGACACCTTTGATTTGTAAAATTTTCAAA
1 AAATTACTGAAACACCCTCGATTTGTAAAATTATCAA-ATACCCTTG-TATGTAAAATTACCGAA
* *
66665098 ATACCCTCGACTTT-TC
64 ATACCCTAGA-TTTGTA
* *
66665114 AAATAACTGAAACACCCCCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGAA
1 AAATTACTGAAACACCCTCGATTTGTAAAATTATC-AAATACCCTTGTA-TGTAAAATTACCGAA
66665179 ATACCCT
64 ATACCCT
66665186 TGTAGTATAA
Statistics
Matches: 124, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
80 4 0.03
81 115 0.93
82 5 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (79 bp):
AAATTACTGAAACACCCTCGATTTGTAAAATTATCAAATACCCTTGTATGTAAAATTACCGAAAT
ACCCTAGATTTGTA
Found at i:66665186 original size:27 final size:27
Alignment explanation
Indices: 66665137--66665225 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
66665127 ACCCCCGATT
*
66665137 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
66665164 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
66665191 TATAAAATGACCGACATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
66665218 GGTAAAAT
1 TGTAAAAT
66665226 GATTATTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:66666640 original size:20 final size:20
Alignment explanation
Indices: 66666594--66666640 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66666584 AGCTCGTTTC
*
66666594 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
66666614 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66666634 CAGCTCA
1 CAGCTCA
66666641 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66668232 original size:26 final size:26
Alignment explanation
Indices: 66668162--66668232 Score: 63
Period size: 29 Copynumber: 2.6 Consensus size: 26
66668152 AAAAAAATTT
**
66668162 CAAAAAAAAG-GAAAAAAAAGAAGTGA
1 CAAAAAAAAGTG-AAAAAAAGAAGAAA
*
66668188 CAAAAAAATCGAGTTAAAAAAAGAAGAAA
1 CAAAAAAA---AGTGAAAAAAAGAAGAAA
*
66668217 GAAAAAAAAGTGAAAA
1 CAAAAAAAAGTGAAAA
66668233 GTCTTGCGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
26 15 0.42
29 21 0.58
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (26 bp):
CAAAAAAAAGTGAAAAAAAGAAGAAA
Found at i:66669332 original size:48 final size:47
Alignment explanation
Indices: 66669253--66669358 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
66669243 GAGTGTCATG
*
66669253 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
66669301 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
66669349 GAAAAAGAAA
1 GAAAAAGAAA
66669359 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:66671074 original size:20 final size:20
Alignment explanation
Indices: 66671028--66671074 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66671018 AGCTCGTTTC
*
66671028 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
66671048 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
66671068 CAGCTCA
1 CAGCTCA
66671075 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:66677281 original size:20 final size:20
Alignment explanation
Indices: 66677258--66677303 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
66677248 CTAGCTCGAA
*
66677258 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
66677278 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
66677298 TTAGCT
1 TTAGCT
66677304 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:66677283 original size:30 final size:30
Alignment explanation
Indices: 66677249--66677323 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
66677239 TAGTTTTTCC
66677249 TAGCTCGAATT-AGCTCACA-TGAGCTTAATT
1 TAGCTCG-ATTGAGCTCA-ATTGAGCTTAATT
* * *
66677279 TAGCTCGTTTGAGCTCAATTTAGCTTACTT
1 TAGCTCGATTGAGCTCAATTGAGCTTAATT
*
66677309 TAGCTCGTTTGAGCT
1 TAGCTCGATTGAGCT
66677324 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 3 0.08
30 37 0.93
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
TAGCTCGATTGAGCTCAATTGAGCTTAATT
Found at i:66681037 original size:47 final size:47
Alignment explanation
Indices: 66680960--66681066 Score: 135
Period size: 47 Copynumber: 2.3 Consensus size: 47
66680950 TGTCTGAACA
* * * *
66680960 AAGACACATTAAAATGTTATTCTAAGTAAGACATAATTAATAG-ACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATT-ATAGAACTT
* *
66681007 AAGACACATTAAAATGCTGTACTAAATAAGACACAATTATTGAACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATTATAGAACTT
*
66681054 ATGACACATTAAA
1 AAGACACATTAAA
66681067 GATGTTCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 3 0.06
47 49 0.94
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (47 bp):
AAGACACATTAAAATGCTATACTAAATAAGACACAATTATAGAACTT
Found at i:66685682 original size:14 final size:16
Alignment explanation
Indices: 66685663--66685694 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
66685653 AGACTGTCCA
66685663 AAATTAT-ATAT-ATT
1 AAATTATAATATAATT
66685677 AAATTATAATATAATT
1 AAATTATAATATAATT
66685693 AA
1 AA
66685695 TTTTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTATAATATAATT
Found at i:66688701 original size:38 final size:38
Alignment explanation
Indices: 66688658--66688733 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
66688648 TTCATCCTTT
66688658 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
66688696 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
66688734 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:66690016 original size:40 final size:40
Alignment explanation
Indices: 66689922--66690066 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
66689912 TACTCGAATG
*
66689922 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
66689963 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
66690003 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
66690043 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
66690067 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:66696750 original size:38 final size:38
Alignment explanation
Indices: 66696707--66696782 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
66696697 TTCATCCTTT
66696707 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
66696745 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
66696783 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:66698063 original size:40 final size:40
Alignment explanation
Indices: 66697969--66698112 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
66697959 TACTCGAATG
*
66697969 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
66698010 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
66698050 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
66698090 ATATCCGGGTTAAG-ACCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
66698113 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.10
40 53 0.58
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:66714922 original size:115 final size:115
Alignment explanation
Indices: 66714720--66714951 Score: 428
Period size: 115 Copynumber: 2.0 Consensus size: 115
66714710 CACCAAAGTG
*
66714720 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTAGGATAACTCGACATTTAC
1 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
66714785 ATGTCACTTTATTACTTATTGCGATTGTGTGCACTTGCACATTTTCGTCA
66 ATGTCACTTTATTACTTATTGCGATTGTGTGCACTTGCACATTTTCGTCA
* *
66714835 TTTTAATTTGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
1 TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
*
66714900 ATGTCACTTTATTACTTGTTGCGATTGTGTGCACTTGCACATTTTCGTCA
66 ATGTCACTTTATTACTTATTGCGATTGTGTGCACTTGCACATTTTCGTCA
66714950 TT
1 TT
66714952 CCAGTCCCTA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.42
Consensus pattern (115 bp):
TTTTAAATAGCATTCATAAATAATTCTTTTTGCAGTCCCTGTGGGTACGATAACTCGACATTTAC
ATGTCACTTTATTACTTATTGCGATTGTGTGCACTTGCACATTTTCGTCA
Found at i:66715489 original size:26 final size:26
Alignment explanation
Indices: 66715438--66715494 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
66715428 AACATGTTAG
* *
66715438 GAAAGAAAGCCTTTGTGGTGTAATAT
1 GAAAGAAAGCCTTTGTGGCGGAATAT
*
66715464 GAAAGAAAGCCTTTGTGGCGGGATAT
1 GAAAGAAAGCCTTTGTGGCGGAATAT
66715490 GAAAG
1 GAAAG
66715495 GAATGCCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.25
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGGAATAT
Found at i:66719333 original size:42 final size:41
Alignment explanation
Indices: 66719286--66719381 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
66719276 CGAAGCACTT
66719286 AACGAGCTCGGATGCTCACATCATA-ATGAA-CTCAGACCACCC
1 AACGAGCTCGGATGC-CACAT-ATACATGAACCT-AGACCACCC
*
66719328 AACGAGCTCGGATGCCACATATATCATGAACCTAGACCACTC
1 AACGAGCTCGGATGCCACATATA-CATGAACCTAGACCACCC
* *
66719370 AATGAGTTCGGA
1 AACGAGCTCGGA
66719382 CTTCTTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 3 0.06
41 5 0.10
42 38 0.79
43 2 0.04
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (41 bp):
AACGAGCTCGGATGCCACATATACATGAACCTAGACCACCC
Found at i:66719992 original size:30 final size:30
Alignment explanation
Indices: 66719935--66719993 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66719925 CAAAAATCAT
* *
66719935 ACTTTTACAAATTTTCATTTTTACCCCTAA
1 ACTTTTACAAATTTACATATTTACCCCTAA
*
66719965 ACTTTTACATATTTACA-ATTTAGCCCCTA
1 ACTTTTACAAATTTACATATTTA-CCCCTA
66719994 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.44
Consensus pattern (30 bp):
ACTTTTACAAATTTACATATTTACCCCTAA
Found at i:66727040 original size:23 final size:22
Alignment explanation
Indices: 66726989--66727040 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
66726979 CCTCGTCTTT
*
66726989 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
66727011 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
66727034 TTCTTTT
1 TTCTTTT
66727041 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:66732615 original size:28 final size:28
Alignment explanation
Indices: 66732575--66732658 Score: 134
Period size: 28 Copynumber: 3.0 Consensus size: 28
66732565 ATGCAATTGA
*
66732575 ATACTCAATATCTCGCACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGTC
*
66732603 ATACTTGATATCTCAG-ACACTAAGTGTC
1 ATACTCGATATCTC-GCACACTAAGTGTC
66732631 ATACTCGATATCTCGCACACTAAGTGTC
1 ATACTCGATATCTCGCACACTAAGTGTC
66732659 GTACATACCC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.02
28 49 0.96
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGTC
Found at i:66732711 original size:40 final size:39
Alignment explanation
Indices: 66732643--66732739 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 39
66732633 ACTCGATATC
* *
66732643 TCGCACACTAAGTGTCGTACATACCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATACCCGAAGCTATCTC-AA
* * * *
66732683 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGA
1 TCGCACACTAAGTGCCATACATACCCGAAGCTATCTCAA
66732722 TACGCACACTAAGTGCCA
1 T-CGCACACTAAGTGCCA
66732740 CCAATAGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATACATACCCGAAGCTATCTCAA
Found at i:66740887 original size:19 final size:19
Alignment explanation
Indices: 66740860--66740896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
66740850 TCATTTATAA
66740860 TGCAAATGAAAAATGTATG
1 TGCAAATGAAAAATGTATG
* *
66740879 TGCATATGAAAAGTGTAT
1 TGCAAATGAAAAATGTAT
66740897 TCGACCTTTT
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:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (19 bp):
TGCAAATGAAAAATGTATG
Found at i:66743649 original size:34 final size:33
Alignment explanation
Indices: 66743563--66743660 Score: 101
Period size: 34 Copynumber: 3.0 Consensus size: 33
66743553 CTAATTGCAT
* *
66743563 ACTG-TACTAATACTGTAATGGGCTTAGGCCCC
1 ACTGATACTATTACTGAAATGGGCTTAGGCCCC
* *
66743595 ACTGATACTATTACTAAAATGGGCTCT-GGCCCAG
1 ACTGATACTATTACTGAAATGGGCT-TAGGCCC-C
* * *
66743629 ACTGCTACTGTTACTGAAATGGGCTAAGGCCC
1 ACTGATACTATTACTGAAATGGGCTTAGGCCC
66743661 TAACTGAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
32 4 0.07
33 22 0.41
34 28 0.52
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (33 bp):
ACTGATACTATTACTGAAATGGGCTTAGGCCCC
Found at i:66750372 original size:49 final size:49
Alignment explanation
Indices: 66750315--66750546 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
66750305 CTGGTACGCA
* * *
66750315 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** ** * *
66750364 TAGTAGCCTACACTTAGTACTACACACGTAACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * *
66750414 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
*
66750465 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
66750514 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
66750547 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 70 0.46
50 45 0.29
51 38 0.25
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:66750537 original size:100 final size:99
Alignment explanation
Indices: 66750315--66750546 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 99
66750305 CTGGTACGCA
* * * *
66750315 TAGTAGCCTGCACTTAGTGCTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTACACTTA
* *
66750380 GTACTACACACGTAACCTAACCATCTGATACACG
66 GTACTACACACGCAACCTAACCATCCGATACACG
* ** * *
66750414 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACATAGTAGCCTACACT
* * ** *
66750479 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCAACCTAACCATCCGATACACG
66750514 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
66750547 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.25
100 46 0.40
101 39 0.34
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTACACTTA
GTACTACACACGCAACCTAACCATCCGATACACG
Found at i:66755503 original size:50 final size:49
Alignment explanation
Indices: 66755377--66755620 Score: 308
Period size: 49 Copynumber: 4.9 Consensus size: 49
66755367 TAGCCAAAGC
* * * *
66755377 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAT
* *
66755426 TATCTGGTACACGTAGTACCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAT
* ** *
66755476 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-T
* * * * *
66755527 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAT
* *
66755576 TATCCGGTACACGTAGTAGCCTGAACTTAGTACTACACACGTGAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
66755621 CTCACAATAG
Statistics
Matches: 165, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 79 0.48
50 50 0.30
51 36 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAAT
Found at i:66755618 original size:100 final size:99
Alignment explanation
Indices: 66755390--66755620 Score: 302
Period size: 100 Copynumber: 2.3 Consensus size: 99
66755380 CTGGTACGCA
* * * * *
66755390 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCTGGTACACGTAGTACCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCGGGTACACATAGTACCCTGCACTTA
* *
66755455 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCCAATACACG
* *
66755489 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CGAA-TTATCGGGTACACATAGTACCCTGCACT
* ** **
66755554 TAGTACTACACATGCGA-CTAATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCAATACACG
*
66755589 TAGTAGCCTGAACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
66755621 CTCACAATAG
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 30 0.26
100 46 0.40
101 39 0.34
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACGAATTATCGGGTACACATAGTACCCTGCACTTA
GTACTACACACGCGACCTAACCATCCAATACACG
Found at i:66762521 original size:34 final size:34
Alignment explanation
Indices: 66762478--66762553 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
66762468 GTACTTGCAT
66762478 ATATATATATTTATACACATGATCTGTTGGTATG
1 ATATATATATTTATACACATGATCTGTTGGTATG
* * * *
66762512 ATATATATATTTATGCCCATGATGTGTTGGTGTG
1 ATATATATATTTATACACATGATCTGTTGGTATG
66762546 ATATATAT
1 ATATATAT
66762554 GTATATTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (34 bp):
ATATATATATTTATACACATGATCTGTTGGTATG
Found at i:66764004 original size:57 final size:57
Alignment explanation
Indices: 66763916--66764031 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
66763906 TGTATCTTTT
66763916 TAGATTTTAAGCTCATAATATACATGTACATACTTGTACCAATCCATAAAGAGTTCA
1 TAGATTTTAAGCTCATAATATACATGTACATACTTGTACCAATCCATAAAGAGTTCA
66763973 TAGATTTTAAGCTCATAATATACATGTACATACTTGTACCAATCCATAAAGAGTTCA
1 TAGATTTTAAGCTCATAATATACATGTACATACTTGTACCAATCCATAAAGAGTTCA
66764030 TA
1 TA
66764032 CATACACGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (57 bp):
TAGATTTTAAGCTCATAATATACATGTACATACTTGTACCAATCCATAAAGAGTTCA
Found at i:66764092 original size:28 final size:28
Alignment explanation
Indices: 66764052--66764167 Score: 133
Period size: 28 Copynumber: 4.1 Consensus size: 28
66764042 ATGCAGTTGA
* * *
66764052 ATACTCAATATCTCGCACACTAAATGTC
1 ATACTCGATATCTCGCACACTAAGTGCC
* * **
66764080 ATACTCGATATCTCGTACACGAAGTTTC
1 ATACTCGATATCTCGCACACTAAGTGCC
* *
66764108 ATAGTCGATATCTCCCACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
**
66764136 ATACTCGATATCTCATACACTAAGTGCC
1 ATACTCGATATCTCGCACACTAAGTGCC
66764164 ATAC
1 ATAC
66764168 ATAGCTGAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.28
Consensus pattern (28 bp):
ATACTCGATATCTCGCACACTAAGTGCC
Found at i:66764212 original size:40 final size:40
Alignment explanation
Indices: 66764152--66764255 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 40
66764142 GATATCTCAT
* * * *
66764152 ACACTAAGTGCCATACATAGCTGAAGCTATCTCAAATCGC
1 ACACTAAGTGCCACACATAGCCGAAGCAATCTCAAATCAC
* * * *
66764192 ACACTAAGTTCCACATATAGCCGAAGCAATGTCAATTCAC
1 ACACTAAGTGCCACACATAGCCGAAGCAATCTCAAATCAC
*
66764232 ACACTAAGTGTCAC-CAATAGCCGA
1 ACACTAAGTGCCACAC-ATAGCCGA
66764256 TTTGTCATCG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (40 bp):
ACACTAAGTGCCACACATAGCCGAAGCAATCTCAAATCAC
Found at i:66780239 original size:56 final size:53
Alignment explanation
Indices: 66780120--66780276 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 53
66780110 CATGACATAG
* * * *
66780120 CACGCCTCTCAACAGGGCTACATATGAGCACCCGGACCTAGCATGCATCACATTAC
1 CACGCCTCTCAACGGGGCTACATA--AGC-TCCGGACCTAGCATGTACCACATTAC
*
66780176 CACGCCTCTCAACGGGGCTACATAAGCTCCTGGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACGGGGCTACATAAGCTCC-GGACCTAGCATGTACCAC---ATTAC
* *
66780232 CATGCCTCTCAACGAGGCTACATAAGCTCCGGAACCTAGCATGTA
1 CACGCCTCTCAACGGGGCTACATAAGCTCCGG-ACCTAGCATGTA
66780277 TCATGTCATC
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
53 2 0.02
54 18 0.20
55 2 0.02
56 62 0.70
57 4 0.05
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (53 bp):
CACGCCTCTCAACGGGGCTACATAAGCTCCGGACCTAGCATGTACCACATTAC
Found at i:66788712 original size:28 final size:28
Alignment explanation
Indices: 66788670--66788741 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
66788660 ATCTTCGATG
*
66788670 TCTCGCACACTAAGTTTCATACTCAATA
1 TCTCGCACACTAAGTGTCATACTCAATA
* * *
66788698 TCTCGTACACCAAGTGTCATTCTCAATA
1 TCTCGCACACTAAGTGTCATACTCAATA
*
66788726 TTTCGCACACTAAGTG
1 TCTCGCACACTAAGTG
66788742 CCACATATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (28 bp):
TCTCGCACACTAAGTGTCATACTCAATA
Found at i:66801108 original size:16 final size:17
Alignment explanation
Indices: 66801082--66801124 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
66801072 TTTTTAAGTT
66801082 TATAATATTTTA-TATTA
1 TATAAT-TTTTAGTATTA
*
66801099 TATTATTTTTATGTATTA
1 TATAATTTTTA-GTATTA
66801117 TATAATTT
1 TATAATTT
66801125 ATAATACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTAGTATTA
Found at i:66801232 original size:17 final size:19
Alignment explanation
Indices: 66801210--66801250 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
66801200 TTAAATTATT
66801210 TAATATTA-AATT-AAAAA
1 TAATATTATAATTAAAAAA
*
66801227 TAATA-TATATTTAAAAAA
1 TAATATTATAATTAAAAAA
66801245 TAATAT
1 TAATAT
66801251 GGACAAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.10
17 8 0.40
18 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATATTATAATTAAAAAA
Found at i:66802666 original size:22 final size:22
Alignment explanation
Indices: 66802626--66802683 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
66802616 GTCATATTAA
*
66802626 TAAATTTTAAA-ATATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
66802647 TAAATTTTAAATGTATAAAAAT
1 TAAATTTTAAATGTATAAAAAT
* *
66802669 GACATTTTAACATGT
1 TAAATTTTAA-ATGT
66802684 GTTTTTTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 11 0.34
22 17 0.53
23 4 0.12
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATTTTAAATGTATAAAAAT
Found at i:66808451 original size:16 final size:17
Alignment explanation
Indices: 66808430--66808477 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
66808420 TTAATGTGTG
66808430 ATAAGTACATTAAA-TA
1 ATAAGTACATTAAACTA
66808446 ATAAGTA-ATTAAACTA
1 ATAAGTACATTAAACTA
*
66808462 GTGAAGTGACATTAAA
1 AT-AAGT-ACATTAAA
66808478 GTATGAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.22
16 10 0.37
17 4 0.15
18 1 0.04
19 6 0.22
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
ATAAGTACATTAAACTA
Found at i:66809274 original size:26 final size:29
Alignment explanation
Indices: 66809233--66809289 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 29
66809223 GTTAATAAAA
*
66809233 TTCTCTTTGAGTTTTCTTTT-GAAGA-TT
1 TTCTCTTTAAGTTTTCTTTTAGAAGAGTT
66809260 TTCTC-TTAAGTTTTCTTTTAGAAGAGTT
1 TTCTCTTTAAGTTTTCTTTTAGAAGAGTT
66809288 TT
1 TT
66809290 AACAATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.48
27 10 0.37
28 4 0.15
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.58
Consensus pattern (29 bp):
TTCTCTTTAAGTTTTCTTTTAGAAGAGTT
Found at i:66809289 original size:16 final size:15
Alignment explanation
Indices: 66809241--66809289 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 15
66809231 AATTCTCTTT
66809241 GAGTTTTCTTTTGAA
1 GAGTTTTCTTTTGAA
*
66809256 GA-TTTTCTCTT--A
1 GAGTTTTCTTTTGAA
66809268 -AGTTTTCTTTTAGAA
1 GAGTTTTCTTTT-GAA
66809283 GAGTTTT
1 GAGTTTT
66809290 AACAATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
11 1 0.04
12 9 0.33
14 8 0.30
15 3 0.11
16 6 0.22
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.55
Consensus pattern (15 bp):
GAGTTTTCTTTTGAA
Found at i:66809452 original size:19 final size:17
Alignment explanation
Indices: 66809430--66809464 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
66809420 ACCATTTTCA
66809430 TCTTTTTATCTCTTTTTTT
1 TCTTTTT-T-TCTTTTTTT
66809449 TCTTTTTTTCTTTTTT
1 TCTTTTTTTCTTTTTT
66809465 CTATTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTTTCTTTTTTT
Found at i:66814599 original size:15 final size:15
Alignment explanation
Indices: 66814579--66814612 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66814569 GAGTTCTGTA
66814579 AGAAATATATCAACC
1 AGAAATATATCAACC
* *
66814594 AGAAATTTATCGACC
1 AGAAATATATCAACC
66814609 AGAA
1 AGAA
66814613 GCGCAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (15 bp):
AGAAATATATCAACC
Found at i:66818603 original size:35 final size:35
Alignment explanation
Indices: 66818564--66818634 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
66818554 GGTAAGGTAC
66818564 CGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCT
*
66818599 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCT
66818634 C
1 C
66818635 TCATAATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.25
Consensus pattern (35 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCT
Found at i:66841005 original size:29 final size:30
Alignment explanation
Indices: 66840966--66841044 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
66840956 CTTAATAATC
66840966 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
66840996 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
66841025 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
66841045 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:66849030 original size:29 final size:30
Alignment explanation
Indices: 66848991--66849069 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
66848981 CTTAATAATC
66848991 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
66849021 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
66849050 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
66849070 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:66856469 original size:46 final size:46
Alignment explanation
Indices: 66856398--66856613 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 46
66856388 ACACTGGCTT
* * *
66856398 GATGCCATGTCTCAGATATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTCTCATCTCGTAGCC
* * *
66856446 GATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCG-AGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGACTCT-CATCTCGTA-GCC
** * * *
66856492 GATGCATGTCCCAGACATGTCTTACACT-AGCTCTTGTCTCATTGCT
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTCTCATCTCGTAGCC
* * * *
66856538 GATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTCTCAT-CTCGTAGCC
66856586 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
66856614 AGCCCACAAA
Statistics
Matches: 141, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 73 0.52
47 39 0.28
48 26 0.18
49 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTCTCATCTCGTAGCC
Found at i:66860985 original size:14 final size:14
Alignment explanation
Indices: 66860966--66861003 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
66860956 CCAGAAAAGT
66860966 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
66860980 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
66860994 AAAACATTTT
1 AAATCATTTT
66861004 ATTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Done.