Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 71 of 222
Found at i:21752561 original size:20 final size:20
Alignment explanation
Indices: 21752533--21752570 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21752523 TATATGTACG
*
21752533 TATACTTTCTATACATATTT
1 TATAATTTCTATACATATTT
*
21752553 TATAATTTCTATATATAT
1 TATAATTTCTATACATAT
21752571 ATAATCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAATTTCTATACATATTT
Found at i:21752714 original size:102 final size:103
Alignment explanation
Indices: 21752428--21752674 Score: 309
Period size: 93 Copynumber: 2.5 Consensus size: 103
21752418 TATTACCTTA
* * *
21752428 TATATATGTACGTATACTTTCTATACATATTTTATACTTTCTATATATATATAATCATTATCTTT
1 TATATATGTACGTATACTTTCTATACACATTTTATAATTTCTATATATATATAATCATTATCTTC
**
21752493 ATGAT-T-TATATAT-TT--ATTACCT-TATA--TA--
66 ATGATCTATATATATATTAAATTATATATATATGTACG
* *
21752521 TATATATGTACGTATACTTTCTATACATATTTTATAATTTCTATATATATATAATCATTATCTTT
1 TATATATGTACGTATACTTTCTATACACATTTTATAATTTCTATATATATATAATCATTATCTTC
* *
21752586 ATGATCTATATATTTATTAACTTATATATATATGTACG
66 ATGATCTATATATATATTAAATTATATATATATGTACG
* * *
21752624 TATATATGTA-TTATACTTTCTATCCACATTTTATAATTTCTATATGTATAT
1 TATATATGTACGTATACTTTCTATACACATTTTATAATTTCTATATATATAT
21752675 TTTCTTTATT
Statistics
Matches: 135, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
93 69 0.51
94 1 0.01
95 6 0.04
96 2 0.01
98 4 0.03
99 4 0.03
101 2 0.01
102 37 0.27
103 10 0.07
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.52
Consensus pattern (103 bp):
TATATATGTACGTATACTTTCTATACACATTTTATAATTTCTATATATATATAATCATTATCTTC
ATGATCTATATATATATTAAATTATATATATATGTACG
Found at i:21757579 original size:12 final size:12
Alignment explanation
Indices: 21757562--21757657 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
21757552 GTTCAGATTC
21757562 AAAAAAAAAAAG
1 AAAAAAAAAAAG
**
21757574 AAAAAAAAAGGG
1 AAAAAAAAAAAG
* ** *
21757586 TCAAAATCAAAAT
1 -AAAAAAAAAAAG
**
21757599 AAAAAATGAAAG
1 AAAAAAAAAAAG
*
21757611 TGAAAAAAAAAAG
1 -AAAAAAAAAAAG
*
21757624 AAAAAGAAAAAG
1 AAAAAAAAAAAG
*
21757636 AAAAAGAAAAAG
1 AAAAAAAAAAAG
21757648 AAAAGAAAAA
1 AAAA-AAAAA
21757658 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
12 43 0.69
13 19 0.31
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:21757622 original size:6 final size:6
Alignment explanation
Indices: 21757612--21757658 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
21757602 AAATGAAAGT
21757612 GAAAAA -AAAAA GAAAAA GAAAAA GAAAAA GAAAAA G-AAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
21757658 G
1 G
21757659 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:21758936 original size:44 final size:44
Alignment explanation
Indices: 21758887--21759025 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
21758877 AATAGCAGAT
21758887 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAAACCAGC
1 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAAACCAGC
** ** * * * * * *
21758931 CTTGCC-TCCTTGAGTTG-CAGCGGAGCAGGT-TAAAAATAGCAGAT
1 CTTGCCTTCCTACA-CCGACAGCGAAGCAGATCGAAGAA-ACCAG-C
* * *
21758975 CTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAAACCAGC
21759019 CTTGCCT
1 CTTGCCT
21759026 CCCTGGGTTG
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 4 0.06
43 20 0.30
44 21 0.31
45 19 0.28
46 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAAACCAGC
Found at i:21758958 original size:43 final size:42
Alignment explanation
Indices: 21758905--21759045 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 42
21758895 CCTACACCGA
21758905 CAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCCTTGAGTTG
1 CAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCC-TGAGTTG
* * * * * * * **
21758948 CAGCGGAGCAGGT-TAAAAATAGCAGATCTTGCCTTCCTGCGCCG
1 CAGCGAAGCAGATCGAAGAA-ACCAG-CCTTGCC-TCCTGAGTTG
* *
21758992 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCGAAGAAACCAGCCTTGCCT-CCTGAGTTG
* *
21759036 TAGCGGAGCA
1 CAGCGAAGCA
21759046 AGTTAAAAAA
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 4 0.06
43 24 0.34
44 22 0.31
45 18 0.25
46 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (42 bp):
CAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCCTGAGTTG
Found at i:21759024 original size:88 final size:89
Alignment explanation
Indices: 21758875--21759101 Score: 366
Period size: 88 Copynumber: 2.6 Consensus size: 89
21758865 CAGATCAGTG
*
21758875 AAAATAGCAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCC
* *
21758940 TTGAGTTGCAGCGGAGCAGGTT-A
66 CTGAGTTGCAGCGGAGCAAGTTAA
* *
21758963 AAAATAGCAGATCTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC
1 AAAATAGCAGATCTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCC
* *
21759028 CTGGGTTGTAGCGGAGCAAGTTAAA
66 CTGAGTTGCAGCGGAGCAAGTT-AA
*
21759053 AAAATAGCAGATCTTGCCTTCCTACGCCGACAGCGAAGCAGATCAAAGA
1 AAAATAGCAGATCTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAGA
21759102 TGGCAAATTT
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
88 80 0.62
90 48 0.38
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (89 bp):
AAAATAGCAGATCTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAGAAACCAGCCTTGCCTCC
CTGAGTTGCAGCGGAGCAAGTTAA
Found at i:21759326 original size:132 final size:132
Alignment explanation
Indices: 21759084--21759605 Score: 778
Period size: 132 Copynumber: 3.9 Consensus size: 132
21759074 CTACGCCGAC
* * *
21759084 AGCGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCA
1 AGCGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
21759149 GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAA
66 GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAA
21759214 GT
131 GT
**
21759216 AGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGCGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * *
21759281 ATAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCGCCCTAAGTA
66 GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG-A
21759346 A-T
130 AGT
* * *
21759348 AGCGGAGTAGATTGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAATACATTGAAGCCA
1 AGCGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * *
21759413 GTAATTCTACTTTCCTAGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAA
21759478 GT
131 GT
* ** *
21759480 AGCGGAGTAGATCGAAGATGGCGGATTTTAACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCC
1 AGCGGAGCAGATCGAAGATGGCAAATTTT-ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
* * * * * *
21759545 AGTAATCCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGA-ATCCTATCTCCCT
65 AGTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
21759606 TGTCAGCAGT
Statistics
Matches: 352, Mismatches: 34, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
131 1 0.00
132 264 0.75
133 85 0.24
134 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
AGCGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAA
GT
Found at i:21759596 original size:44 final size:44
Alignment explanation
Indices: 21759548--21759716 Score: 234
Period size: 44 Copynumber: 3.8 Consensus size: 44
21759538 TGAAGCCAGT
*
21759548 AATCCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTG
1 AATCCTATC-TCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTG
* * *
21759592 AATCCTATCTCCCTTGTCAGCAGTGGAATAGGTTGAAGATTGTA
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTG
* *
21759636 AATCCTATCTCCCTGGTCAACAGTGGAATA-AGTTGAAGATTGAG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGA-TTGAAGATTGTG
* *
21759680 AATCCTATCTCCCTGGTCAGCGGTGGAATAGGTTGAA
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAA
21759717 AGTAAACAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 109 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTGTG
Found at i:21759649 original size:88 final size:88
Alignment explanation
Indices: 21759548--21759716 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 88
21759538 TGAAGCCAGT
* * *
21759548 AATCCTACTTCCCTGGGCAGCAGTGGAAT-AGATTGAAGATTGTGAATCCTATCTCCCTTGTCAG
1 AATCCTACTTCCCTGGGCAACAGTGGAATAAG-TTGAAGATTGAGAATCCTATCTCCCTGGTCAG
21759612 CAGTGGAATAGGTTGAAGATTGTA
65 CAGTGGAATAGGTTGAAGATTGTA
*
21759636 AATCCTA-TCTCCCTGGTCAACAGTGGAATAAGTTGAAGATTGAGAATCCTATCTCCCTGGTCAG
1 AATCCTACT-TCCCTGGGCAACAGTGGAATAAGTTGAAGATTGAGAATCCTATCTCCCTGGTCAG
*
21759700 CGGTGGAATAGGTTGAA
65 CAGTGGAATAGGTTGAA
21759717 AGTAAACAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 1 0.01
88 71 0.96
89 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
AATCCTACTTCCCTGGGCAACAGTGGAATAAGTTGAAGATTGAGAATCCTATCTCCCTGGTCAGC
AGTGGAATAGGTTGAAGATTGTA
Found at i:21759661 original size:264 final size:263
Alignment explanation
Indices: 21759098--21759673 Score: 791
Period size: 264 Copynumber: 2.2 Consensus size: 263
21759088 AAGCAGATCA
** * * *
21759098 AAGATGGCAAATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTACTTCC
1 AAGATGGCAAATCCTACCTCCC-GTGGTAACAGTGGAATACATTGAAGCCAGTAATTCTACTTCC
21759163 CTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
65 CTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
* *
21759228 CGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTT
130 CGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAATAATCCTACTT
* * * *
21759293 CCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCGCCCTAAGTAATAGCGGAGTAG
195 CCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCCTATCGCCCTAAGTAACAGCGGAATAG
21759358 ATTG
260 ATTG
** * *
21759362 AAGATGGCAAATTTTACCTCCCTGTGGTTACAGTGGAATACATTGAAGCCAGTAATTCTACTTTC
1 AAGATGGCAAATCCTACCTCCC-GTGGTAACAGTGGAATACATTGAAGCCAGTAATTCTACTTCC
* * *
21759427 CTAGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGCGGAGTAGAT
65 CTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGAT
*
21759492 CGAAGATGGCGGATTTTAACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAGTAATCCTACT
130 CGAAGATGGCGGATTTT-ACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAATAATCCTACT
* * * * * * *
21759557 TCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGA-ATCCTATCTCCCT-TGTCAGCAGTGGAA
194 TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCCTATCGCCCTAAGT-AACAGCGGAA
*
21759620 TAGGTTG
257 TAGATTG
* * *
21759627 AAGATTGTAAATCCTATCTCCC-TGGTCAACAGTGGAATA-AGTTGAAG
1 AAGATGGCAAATCCTACCTCCCGTGGT-AACAGTGGAATACA-TTGAAG
21759674 ATTGAGAATC
Statistics
Matches: 280, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
263 5 0.02
264 160 0.57
265 113 0.40
266 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (263 bp):
AAGATGGCAAATCCTACCTCCCGTGGTAACAGTGGAATACATTGAAGCCAGTAATTCTACTTCCC
TAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATC
GAAGATGGCGGATTTTACCTCCCTGTGGTTACAGCGGAGTACATTGAAGCCAATAATCCTACTTC
CCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCCTATCGCCCTAAGTAACAGCGGAATAGA
TTG
Found at i:21761330 original size:20 final size:20
Alignment explanation
Indices: 21761302--21761339 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21761292 TATATGTACG
*
21761302 TATACTTTCTATACATATTT
1 TATAATTTCTATACATATTT
*
21761322 TATAATTTCTATATATAT
1 TATAATTTCTATACATAT
21761340 ATATATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAATTTCTATACATATTT
Found at i:21761387 original size:16 final size:17
Alignment explanation
Indices: 21761366--21761408 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
21761356 TCTTTATGAT
21761366 TTATATATTTAT-TACC
1 TTATATATTTATGTACC
* *
21761382 TTATATATATATGTACG
1 TTATATATTTATGTACC
21761399 TATATATATT
1 T-TATATATT
21761409 ATACTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATATATTTATGTACC
Found at i:21761420 original size:18 final size:18
Alignment explanation
Indices: 21761399--21761450 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
21761389 TATATGTACG
*
21761399 TATATATATTATACTTTC
1 TATATATATTATAATTTC
*
21761417 TATACATATTTTATAATTTC
1 TAT--ATATATTATAATTTC
21761437 TATATATA-TATAAT
1 TATATATATTATAAT
21761451 CATTATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 7 0.24
20 16 0.55
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATTTC
Found at i:21761424 original size:106 final size:104
Alignment explanation
Indices: 21761302--21761547 Score: 360
Period size: 100 Copynumber: 2.4 Consensus size: 104
21761292 TATATGTACG
*
21761302 TATACTTTCTATACATATTTTATAATTTCTATATATATATATATATAATCATTATCTTTATGATT
1 TATACTTTCTATACATATTTTATAATTTCTATAT-TATATATATATAATCATTATCTTTATGATC
* *
21761367 TATATATTTATTACCTTATATATATATGTACGTATATA-TAT
65 TATATATTTATTAAC-T-TATACATATGTACGTATATAGTAT
21761408 TATACTTTCTATACATATTTTATAATTTC-----TATATATATATAATCATTATCTTTATGATCT
1 TATACTTTCTATACATATTTTATAATTTCTATATTATATATATATAATCATTATCTTTATGATCT
21761468 ATATATTTATTAACTTATACATATGTACGTATATATGTAT
66 ATATATTTATTAACTTATACATATGTACGTATATA-GTAT
* *
21761508 TATACTTTCTATCCACATTTTATAATTTCTATATGTATAT
1 TATACTTTCTATACATATTTTATAATTTCTATAT-TATAT
21761548 TTTATTTATT
Statistics
Matches: 127, Mismatches: 5, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
98 19 0.15
99 1 0.01
100 73 0.57
106 34 0.27
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.52
Consensus pattern (104 bp):
TATACTTTCTATACATATTTTATAATTTCTATATTATATATATATAATCATTATCTTTATGATCT
ATATATTTATTAACTTATACATATGTACGTATATAGTAT
Found at i:21761425 original size:20 final size:20
Alignment explanation
Indices: 21761402--21761447 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
21761392 ATGTACGTAT
*
21761402 ATATATTATACTTTCTATAC
1 ATATATTATAATTTCTATAC
* *
21761422 ATATTTTATAATTTCTATAT
1 ATATATTATAATTTCTATAC
21761442 ATATAT
1 ATATAT
21761448 AATCATTATC
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:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATTATAATTTCTATAC
Found at i:21761543 original size:50 final size:49
Alignment explanation
Indices: 21761389--21761544 Score: 153
Period size: 46 Copynumber: 3.2 Consensus size: 49
21761379 ACCTTATATA
*
21761389 TATATGTACGTATATA-TATTATACTTTCTATACATATTTTATAATTTC
1 TATATGTACGTATATATTATTATACTTTCTATCCATATTTTATAATTTC
* * * *
21761437 TATATATA--TATA-ATCATTAT-CTTTATGATCTATATATTTATTAACTTATAC
1 TATATGTACGTATATATTATTATACTTTCT-ATCCATAT-TTTA-TAA-TT-T-C
*
21761488 -ATATGTACGTATATATGTATTATACTTTCTATCCACATTTTATAATTTC
1 TATATGTACGTATATAT-TATTATACTTTCTATCCATATTTTATAATTTC
21761537 TATATGTA
1 TATATGTA
21761545 TATTTTATTT
Statistics
Matches: 85, Mismatches: 10, Indels: 24
0.71 0.08 0.20
Matches are distributed among these distances:
45 6 0.07
46 15 0.18
47 4 0.05
48 10 0.12
49 3 0.04
50 15 0.18
51 3 0.04
52 7 0.08
53 6 0.07
54 11 0.13
55 5 0.06
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (49 bp):
TATATGTACGTATATATTATTATACTTTCTATCCATATTTTATAATTTC
Found at i:21766296 original size:29 final size:29
Alignment explanation
Indices: 21766264--21766333 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
21766254 GAACAAACCA
* *
21766264 AAACAAAATAGAGTAGAACAACACATTTC
1 AAACAAAATAGAGCAGAACAACACAATTC
* *
21766293 AAACAGAACAGAGCAGAACAACACAATTC
1 AAACAAAATAGAGCAGAACAACACAATTC
21766322 AAACAAAATAGA
1 AAACAAAATAGA
21766334 ACCGAATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.59, C:0.19, G:0.11, T:0.11
Consensus pattern (29 bp):
AAACAAAATAGAGCAGAACAACACAATTC
Found at i:21766360 original size:20 final size:20
Alignment explanation
Indices: 21766331--21766373 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
21766321 CAAACAAAAT
*
21766331 AGAACCGAATA-AAGCAGAGC
1 AGAACAGAATAGAA-CAGAGC
21766351 AGAACAGAATAGAACAGAGC
1 AGAACAGAATAGAACAGAGC
21766371 AGA
1 AGA
21766374 GCAATGCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.53, C:0.16, G:0.26, T:0.05
Consensus pattern (20 bp):
AGAACAGAATAGAACAGAGC
Found at i:21766371 original size:25 final size:25
Alignment explanation
Indices: 21766343--21766393 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
21766333 AACCGAATAA
21766343 AGCAGAGCAGA-ACAGAATAGAACAG
1 AGCAGAGCA-ATACAGAATAGAACAG
* *
21766368 AGCAGAGCAATGCTGAATAGAACAG
1 AGCAGAGCAATACAGAATAGAACAG
21766393 A
1 A
21766394 ACAGGATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.49, C:0.16, G:0.27, T:0.08
Consensus pattern (25 bp):
AGCAGAGCAATACAGAATAGAACAG
Found at i:21778407 original size:19 final size:20
Alignment explanation
Indices: 21778383--21778468 Score: 75
Period size: 20 Copynumber: 4.2 Consensus size: 20
21778373 TACAGAGTAC
* *
21778383 GCCACAAAGGC-AATATAAT
1 GCCACAAAGGCTAACAAAAT
*
21778402 GCCACAATGGCTAACAAAAT
1 GCCACAAAGGCTAACAAAAT
*
21778422 GTCACAAAGGCCTAATCAAAAT
1 GCCACAAAGG-CTAA-CAAAAT
* *
21778444 ACGCCATAAAGACTAACAAAAT
1 --GCCACAAAGGCTAACAAAAT
21778466 GCC
1 GCC
21778469 CCCAAGCACC
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 10 0.19
20 17 0.31
21 4 0.07
22 12 0.22
23 4 0.07
24 7 0.13
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.15
Consensus pattern (20 bp):
GCCACAAAGGCTAACAAAAT
Found at i:21788759 original size:18 final size:18
Alignment explanation
Indices: 21788736--21788770 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21788726 TAGGCTAACT
21788736 AAGTATATTGAAACTCTC
1 AAGTATATTGAAACTCTC
21788754 AAGTATATTGAAACTCT
1 AAGTATATTGAAACTCT
21788771 AATTAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
AAGTATATTGAAACTCTC
Found at i:21793048 original size:20 final size:20
Alignment explanation
Indices: 21793004--21793048 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
21792994 TTAAATTTTA
*
21793004 ATTAAAATTAGAAAAAAATT
1 ATTAAAAATAGAAAAAAATT
*
21793024 A-TAAAAATAGTAAAAAATT
1 ATTAAAAATAGAAAAAAATT
21793043 ATTAAA
1 ATTAAA
21793049 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
ATTAAAAATAGAAAAAAATT
Found at i:21793083 original size:10 final size:10
Alignment explanation
Indices: 21793017--21793108 Score: 59
Period size: 10 Copynumber: 9.4 Consensus size: 10
21793007 AAAATTAGAA
21793017 AAAAAT-TAT
1 AAAAATATAT
21793026 AAAAATAGTA-
1 AAAAATA-TAT
21793036 AAAAAT-TAT
1 AAAAATATAT
* * *
21793045 TAAATTTTAT
1 AAAAATATAT
*
21793055 AAAAAT-CAT
1 AAAAATATAT
21793064 -AAAATATAT
1 AAAAATATAT
* *
21793073 AGAAATGTAT
1 AAAAATATAT
*
21793083 AAAAATATAGA
1 AAAAATATA-T
21793094 AAAGAATATAT
1 AAA-AATATAT
21793105 AAAA
1 AAAA
21793109 TTTTATAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
8 7 0.11
9 14 0.22
10 28 0.44
11 8 0.13
12 6 0.10
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:21793103 original size:20 final size:18
Alignment explanation
Indices: 21793062--21793097 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21793052 TATAAAAATC
*
21793062 ATAAAATATATAGAAATGT
1 ATAAAA-ATATAGAAAAGT
21793081 ATAAAAATATAGAAAAG
1 ATAAAAATATAGAAAAG
21793098 AATATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (18 bp):
ATAAAAATATAGAAAAGT
Found at i:21793146 original size:10 final size:10
Alignment explanation
Indices: 21793121--21793179 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
21793111 TTATAAAGTC
*
21793121 GTAAGAAAAT
1 GTAAAAAAAT
21793131 GATAAAAAAAT
1 G-TAAAAAAAT
21793142 GTAAAAAAAT
1 GTAAAAAAAT
* * *
21793152 AT-AAAATAC
1 GTAAAAAAAT
21793161 GTAAAAAAAT
1 GTAAAAAAAT
*
21793171 -TATAAAAAT
1 GTAAAAAAAT
21793180 TATCATACCA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 14 0.36
10 16 0.41
11 9 0.23
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
GTAAAAAAAT
Found at i:21793155 original size:20 final size:20
Alignment explanation
Indices: 21793120--21793178 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
21793110 TTTATAAAGT
*
21793120 CGTAAGAAAATGATAAAAAAA
1 CGTAAAAAAAT-ATAAAAAAA
* *
21793141 TGTAAAAAAATAT-AAAATA
1 CGTAAAAAAATATAAAAAAA
21793160 CGTAAAAAAATTATAAAAA
1 CGTAAAAAAA-TATAAAAA
21793179 TTATCATACC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 14 0.44
20 5 0.16
21 13 0.41
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (20 bp):
CGTAAAAAAATATAAAAAAA
Found at i:21793187 original size:27 final size:26
Alignment explanation
Indices: 21793133--21793213 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
21793123 AAGAAAATGA
* **
21793133 TAAAAAAATGTAAAAAAATATAAAATAC
1 TAAAAAAAT-TATAAAAAT-TATCATAC
21793161 GTAAAAAAATTATAAAAATTATCATAC
1 -TAAAAAAATTATAAAAATTATCATAC
* *
21793188 CAAAAGAAGATTAT-AAAATTTTCATA
1 TAAAA-AA-ATTATAAAAATTATCATA
21793214 ACTTTTATTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 19 0.42
28 13 0.29
29 9 0.20
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.27
Consensus pattern (26 bp):
TAAAAAAATTATAAAAATTATCATAC
Found at i:21793403 original size:20 final size:20
Alignment explanation
Indices: 21793380--21793421 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21793370 TTTTTTATGA
21793380 TTTTCATGA-AATTTTACAAT
1 TTTTCAT-ATAATTTTACAAT
* *
21793400 TTTTTATATATTTTTACAAT
1 TTTTCATATAATTTTACAAT
21793420 TT
1 TT
21793422 ATATATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTCATATAATTTTACAAT
Found at i:21793412 original size:19 final size:18
Alignment explanation
Indices: 21793390--21793430 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
21793380 TTTTCATGAA
*
21793390 ATTTTACAATTTTTTATAT
1 ATTTTACAA-TTTATATAT
21793409 ATTTTTACAATTTATATAT
1 A-TTTTACAATTTATATAT
21793428 ATT
1 ATT
21793431 CTAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 10 0.50
20 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTACAATTTATATAT
Found at i:21793484 original size:10 final size:9
Alignment explanation
Indices: 21793365--21793511 Score: 59
Period size: 9 Copynumber: 16.1 Consensus size: 9
21793355 TGATGCATTC
21793365 TATAATTTTT
1 TATAA-TTTT
*
21793375 TATGATTTT
1 TATAATTTT
* *
21793384 CATGAAATTT
1 TAT-AATTTT
*
21793394 TACAATTTTT
1 TATAA-TTTT
21793404 TATATATTTT
1 TATA-ATTTT
* *
21793414 TACAATTTA
1 TATAATTTT
*
21793423 TAT-A-TAT
1 TATAATTTT
*
21793430 TCTAATTTT
1 TATAATTTT
* **
21793439 AATTTTTTT
1 TATAATTTT
21793448 TAT-ATTTT
1 TATAATTTT
*
21793456 TAATAAGTTT
1 T-ATAATTTT
*
21793466 AATAATTTT
1 TATAATTTT
*
21793475 TATAACTTT
1 TATAATTTT
* *
21793484 TATTGATTAT
1 TA-TAATTTT
*
21793494 TAT-TTTTT
1 TATAATTTT
21793502 TATAATTTT
1 TATAATTTT
21793511 T
1 T
21793512 GTCACACGTG
Statistics
Matches: 96, Mismatches: 32, Indels: 19
0.65 0.22 0.13
Matches are distributed among these distances:
7 3 0.03
8 13 0.14
9 47 0.49
10 32 0.33
11 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TATAATTTT
Found at i:21795235 original size:96 final size:96
Alignment explanation
Indices: 21794861--21795215 Score: 586
Period size: 96 Copynumber: 3.7 Consensus size: 96
21794851 GCCTTATCCT
* * * *
21794861 ACAATGGAACCCCACTACTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
1 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
21794926 CAGGCTTGACGTGGGGCTTTCTGGTTGTGAA
66 CAGGCTTGACGTGGGGCTTTCTGGTTGTGAA
21794957 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
1 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
*
21795022 CAGGCTTGACATGGGGCTTTCTGGTTGTGAA
66 CAGGCTTGACGTGGGGCTTTCTGGTTGTGAA
*
21795053 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACATGGAAGATTCTGAGAC
1 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
*
21795118 CAGGCTTGACGTGGGGCTTTCTGG-CGCTGAA
66 CAGGCTTGACGTGGGGCTTTCTGGTTG-TGAA
* * * * *
21795149 ACAAAGGAACCTCAGTATTGTTGTCTTAATGAAGTGTCCTATGAATATAGGGAAAATTTTGAGAC
1 ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
21795214 CA
66 CA
21795216 AGTTTGATGT
Statistics
Matches: 245, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
95 1 0.00
96 244 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (96 bp):
ACAAAGGAACCTCAGTATTGTTCTCTTAATGAAGTGTCCTATGAATACACGGAAGATTCTGAGAC
CAGGCTTGACGTGGGGCTTTCTGGTTGTGAA
Found at i:21801768 original size:124 final size:124
Alignment explanation
Indices: 21801548--21801897 Score: 601
Period size: 124 Copynumber: 2.8 Consensus size: 124
21801538 TTATTTCGAG
*
21801548 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
21801613 AAATCGTGCTCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* *
21801672 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAAAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
21801737 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTTATGTAAGAAATAATTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * *
21801796 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTATACCAGGATGTTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
21801861 AAATCGCGCCCTCATGGACGCGATTTTGCTACAGTAG
66 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAG
21801898 CAAGTTTGGG
Statistics
Matches: 212, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 212 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:21803975 original size:17 final size:17
Alignment explanation
Indices: 21803953--21803991 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
21803943 ACCAACATGG
21803953 GTATTTAGTCTATAACT
1 GTATTTAGTCTATAACT
21803970 GTATTTAGTCTATAACT
1 GTATTTAGTCTATAACT
21803987 GTATT
1 GTATT
21803992 ATTATCTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (17 bp):
GTATTTAGTCTATAACT
Found at i:21805844 original size:37 final size:37
Alignment explanation
Indices: 21805794--21805872 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21805784 TTATTACGAA
* ** *
21805794 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21805831 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21805868 GTCTT
1 GTCTT
21805873 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21806117 original size:47 final size:47
Alignment explanation
Indices: 21805993--21806516 Score: 805
Period size: 47 Copynumber: 11.0 Consensus size: 47
21805983 CTTCGGGACT
* * * * * *
21805993 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
21806040 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21806089 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21806136 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
21806183 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
21806232 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
21806281 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21806328 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
21806375 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
21806424 TATCTCATATATACACTTTTACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21806471 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21806517 TTACTATCAT
Statistics
Matches: 446, Mismatches: 25, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 270 0.61
49 176 0.39
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:21806195 original size:96 final size:94
Alignment explanation
Indices: 21805993--21806516 Score: 805
Period size: 96 Copynumber: 5.5 Consensus size: 94
21805983 CTTCGGGACT
* * * * * * *
21805993 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACAC
* *
21806058 TTCCACATTCATCACATCGGCCATTAGGCCT
64 TTTCACATTCATCACATCGGCCATTAGGCCC
*
21806089 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
*
21806154 TCACATTCATCACATCGGCCATTAGGCCT
66 TCACATTCATCACATCGGCCATTAGGCCC
21806183 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
21806248 ACTTTCACATTCATCACATCGGCCATTAGGCCC
62 ACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
21806281 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
21806346 TCACATTCATCACATCGGCCATTAGGCCC
66 TCACATTCATCACATCGGCCATTAGGCCC
* * *
21806375 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATACAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
*
21806440 TTTTACATTCATCACATCGGCCATTAGGCCC
64 TTTCACATTCATCACATCGGCCATTAGGCCC
*
21806471 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21806517 TTACTATCAT
Statistics
Matches: 399, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
94 130 0.33
96 223 0.56
98 46 0.12
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (94 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCC
Found at i:21806339 original size:143 final size:144
Alignment explanation
Indices: 21805991--21806516 Score: 844
Period size: 143 Copynumber: 3.7 Consensus size: 144
21805981 CCCTTCGGGA
* * * * * * *
21805991 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
* *
21806056 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
21806119 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
*
21806134 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
21806199 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
21806264 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* * * *
21806279 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
*
21806343 CTTTCACATTCATCACATCGGCCATTAGGCCCTGTCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
21806408 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
* * *
21806422 CTTATCTCATATATACACTTTTACATTCATCACATCGGCCATTAGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
21806486 CTTTCACATTCATCACATCGGCCATTAGGCC
66 CTTTCACATTCATCACATCGGCCATTAGGCC
21806517 TTACTATCAT
Statistics
Matches: 360, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
143 270 0.75
145 90 0.25
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (144 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:21810018 original size:40 final size:40
Alignment explanation
Indices: 21809961--21810197 Score: 384
Period size: 40 Copynumber: 5.9 Consensus size: 40
21809951 CGAATACACG
* * * * **
21809961 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
21810001 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
21810041 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
21810081 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
21810121 TCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
21810161 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
21810198 TTAGTAATTC
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:21810222 original size:40 final size:39
Alignment explanation
Indices: 21809978--21810276 Score: 143
Period size: 40 Copynumber: 7.5 Consensus size: 39
21809968 CATGATTGCT
* * *
21809978 CTTCGGGATTTAGCACGGATAT-GTC-ACTAGCACGAATGC
1 CTTC-GGACTTAGCCCGGATATAGTCAATTAGCAC-AATGC
* ** *
21810017 TCTTCGGAACTTAGCCCGGATACA-TC-GCTAGCATGAATGC
1 -CTTCGG-ACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * *
21810057 TCTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * *
21810097 TCTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * *
21810137 TTTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* *
21810177 TCTTCGGGACTTAGCCCGGATTTAGT-AATTCGCACCAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * *
21810218 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGA-CTTAGCCCGGATATAGTCAATTAGCACAATGC
21810258 CTTCAGGACTTAGCCCGGA
1 CTTC-GGACTTAGCCCGGA
21810277 CATCATTCGA
Statistics
Matches: 229, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.02
40 202 0.88
41 22 0.10
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGACTTAGCCCGGATATAGTCAATTAGCACAATGC
Found at i:21810222 original size:120 final size:120
Alignment explanation
Indices: 21809974--21810276 Score: 355
Period size: 120 Copynumber: 2.5 Consensus size: 120
21809964 CCAGCATGAT
* * **
21809974 TGCTCTTCGGGATTTAGCACGGATATGTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * **
21810039 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
* * *
21810094 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
** * *
21810159 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAATTCGCACCAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TAACTAGCACCAA
* ** *
21810215 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCAGG-ACTTAGCCCG
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTC-GGAACTTAGCCCG
21810275 GA
62 GA
21810277 CATCATTCGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
119 3 0.02
120 128 0.82
121 21 0.13
122 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
Found at i:21810623 original size:29 final size:29
Alignment explanation
Indices: 21810584--21810662 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
21810574 CTTAATAATC
*
21810584 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
21810614 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21810643 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21810663 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:21812607 original size:37 final size:37
Alignment explanation
Indices: 21812557--21812635 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21812547 TTATTACGAA
* ** *
21812557 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21812594 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21812631 GTCTT
1 GTCTT
21812636 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21812880 original size:47 final size:47
Alignment explanation
Indices: 21812756--21813278 Score: 805
Period size: 47 Copynumber: 11.0 Consensus size: 47
21812746 CTTCGGGACT
* * * * * *
21812756 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
21812803 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21812852 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21812899 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
21812946 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
21812995 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
21813044 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21813091 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
21813138 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21813187 TATCTCATATATACACTTT-ACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
21813233 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21813279 TTACTATCAT
Statistics
Matches: 446, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
46 43 0.10
47 227 0.51
49 176 0.39
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:21812958 original size:96 final size:94
Alignment explanation
Indices: 21812756--21813278 Score: 805
Period size: 96 Copynumber: 5.5 Consensus size: 94
21812746 CTTCGGGACT
* * * * * * *
21812756 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATACAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACAC
* *
21812821 TTCCACATTCATCACATCGGCCATTAGGCCT
64 TTTCACATTCATCACATCGGCCATTAGGCCC
*
21812852 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
*
21812917 TCACATTCATCACATCGGCCATTAGGCCT
66 TCACATTCATCACATCGGCCATTAGGCCC
21812946 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
21813011 ACTTTCACATTCATCACATCGGCCATTAGGCCC
62 ACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
21813044 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
21813109 TCACATTCATCACATCGGCCATTAGGCCC
66 TCACATTCATCACATCGGCCATTAGGCCC
* * *
21813138 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATACAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
21813203 TTT-ACATTCATCACATCGGCCATTAGGCCC
64 TTTCACATTCATCACATCGGCCATTAGGCCC
*
21813233 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21813279 TTACTATCAT
Statistics
Matches: 399, Mismatches: 22, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
93 39 0.10
94 91 0.23
95 32 0.08
96 191 0.48
98 46 0.12
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (94 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCC
Found at i:21816779 original size:40 final size:40
Alignment explanation
Indices: 21816722--21816958 Score: 384
Period size: 40 Copynumber: 5.9 Consensus size: 40
21816712 CGAATACACG
* * * * **
21816722 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
21816762 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
21816802 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
21816842 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
21816882 TCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
21816922 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
21816959 TTAGTAATTC
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:21816983 original size:40 final size:39
Alignment explanation
Indices: 21816739--21817037 Score: 143
Period size: 40 Copynumber: 7.5 Consensus size: 39
21816729 CATGATTGCT
* * *
21816739 CTTCGGGATTTAGCACGGATAT-GTC-ACTAGCACGAATGC
1 CTTC-GGACTTAGCCCGGATATAGTCAATTAGCAC-AATGC
* ** *
21816778 TCTTCGGAACTTAGCCCGGATACA-TC-GCTAGCATGAATGC
1 -CTTCGG-ACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * *
21816818 TCTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * *
21816858 TCTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * *
21816898 TTTTCGGGACTTAGCCCGGATACA-TC-ACTAGCATGAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* *
21816938 TCTTCGGGACTTAGCCCGGATTTAGT-AATTCGCACCAATGC
1 -CTTC-GGACTTAGCCCGGATATAGTCAATTAGCA-CAATGC
* * * *
21816979 CTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGA-CTTAGCCCGGATATAGTCAATTAGCACAATGC
21817019 CTTCAGGACTTAGCCCGGA
1 CTTC-GGACTTAGCCCGGA
21817038 CATCATTCGA
Statistics
Matches: 229, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.02
40 202 0.88
41 22 0.10
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGACTTAGCCCGGATATAGTCAATTAGCACAATGC
Found at i:21816983 original size:120 final size:120
Alignment explanation
Indices: 21816735--21817037 Score: 355
Period size: 120 Copynumber: 2.5 Consensus size: 120
21816725 CCAGCATGAT
* * **
21816735 TGCTCTTCGGGATTTAGCACGGATATGTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* * **
21816800 CATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
* * *
21816855 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
** * *
21816920 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAATTCGCACCAA
66 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TAACTAGCACCAA
* ** *
21816976 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCAGG-ACTTAGCCCG
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTC-GGAACTTAGCCCG
21817036 GA
62 GA
21817038 CATCATTCGA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
119 3 0.02
120 128 0.82
121 21 0.13
122 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACCAA
Found at i:21817384 original size:29 final size:29
Alignment explanation
Indices: 21817345--21817423 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
21817335 CTTAATAATC
*
21817345 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
21817375 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
21817404 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
21817424 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:21819368 original size:37 final size:37
Alignment explanation
Indices: 21819318--21819396 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21819308 TTATTACGAA
* ** *
21819318 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
21819355 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
21819392 GTCTT
1 GTCTT
21819397 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:21819641 original size:47 final size:47
Alignment explanation
Indices: 21819515--21820042 Score: 815
Period size: 47 Copynumber: 11.1 Consensus size: 47
21819505 CCCTTCGGGA
* * * * * *
21819515 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21819562 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21819611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21819658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21819705 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21819754 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21819803 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21819850 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21819897 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21819946 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21819993 C-TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21820039 CTTA
1 CTTA
21820043 CTATCATTTC
Statistics
Matches: 453, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 44 0.10
47 232 0.51
49 177 0.39
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21819719 original size:96 final size:94
Alignment explanation
Indices: 21819515--21820039 Score: 818
Period size: 96 Copynumber: 5.5 Consensus size: 94
21819505 CCCTTCGGGA
* * * * * * *
21819515 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
21819580 ACTTCCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21819611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
21819676 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
21819705 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
21819770 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
21819803 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
21819868 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
21819897 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
21819962 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21819993 C-TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
21820040 TTACTATCAT
Statistics
Matches: 403, Mismatches: 20, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
93 39 0.10
94 92 0.23
95 6 0.01
96 220 0.55
98 46 0.11
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:21819863 original size:143 final size:144
Alignment explanation
Indices: 21819515--21820039 Score: 853
Period size: 143 Copynumber: 3.7 Consensus size: 144
21819505 CCCTTCGGGA
* * * * * * *
21819515 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
* *
21819580 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
21819643 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
*
21819658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
21819723 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
21819788 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* * * *
21819803 CCTATCACGTATATACACTTTCACATTCATCACATCGGCCATTCGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
21819867 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
66 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
21819932 ATCGGCCATTAGGC
131 ATCGGCCATTAGGC
* *
21819946 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
21820009 CTTTCACATTCATCACATCGGCCATTAGGCC
66 CTTTCACATTCATCACATCGGCCATTAGGCC
21820040 TTACTATCAT
Statistics
Matches: 361, Mismatches: 19, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
142 48 0.13
143 223 0.62
145 90 0.25
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (144 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:21823640 original size:31 final size:30
Alignment explanation
Indices: 21823604--21823669 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
21823594 GCCATTGATG
21823604 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
*
21823635 AAAATATAAAAAAATTTTAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
21823665 AAAAT
1 AAAAT
21823670 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:21823651 original size:21 final size:21
Alignment explanation
Indices: 21823612--21823652 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21823602 TGAAAATATA
* **
21823612 AAAAAATTTAAAATTATTTTT
1 AAAAAATATAAAAAAATTTTT
21823633 AAAAAATATAAAAAAATTTT
1 AAAAAATATAAAAAAATTTT
21823653 AAATTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAAATATAAAAAAATTTTT
Found at i:21823725 original size:51 final size:51
Alignment explanation
Indices: 21823670--21823791 Score: 185
Period size: 51 Copynumber: 2.4 Consensus size: 51
21823660 TTTAAAAAAT
*
21823670 GAAATTGAGGGGAAATTGAAATTAAATATGGAT-TTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGG-TCTTGAGAGAATTTTGGAAG
*
21823721 GAAATTGAGAGGAAATTGAAATTAAATATGGTCTTTAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGTCTTGAGAGAATTTTGGAAG
21823772 GAAATTTG-GAAGGAAATTGA
1 GAAA-TTGAG-AGGAAATTGA
21823792 GAGAATTAGA
Statistics
Matches: 66, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
50 1 0.02
51 52 0.79
52 13 0.20
ACGTcount: A:0.42, C:0.01, G:0.28, T:0.30
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGTCTTGAGAGAATTTTGGAAG
Found at i:21823781 original size:12 final size:12
Alignment explanation
Indices: 21823764--21823789 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21823754 TTTAGAGAAT
21823764 TTTGGAAGGAAA
1 TTTGGAAGGAAA
21823776 TTTGGAAGGAAA
1 TTTGGAAGGAAA
21823788 TT
1 TT
21823790 GAGAGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
TTTGGAAGGAAA
Found at i:21824456 original size:30 final size:30
Alignment explanation
Indices: 21824420--21824479 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
21824410 TATTTTATTA
21824420 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
*
21824450 TTAATTTTGTTATTATTTTAGAGACATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
21824480 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:21824624 original size:12 final size:12
Alignment explanation
Indices: 21824603--21824636 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
21824593 TATATATTTT
*
21824603 AAAATTATATAA
1 AAAATAATATAA
21824615 AAAATAATATAA
1 AAAATAATATAA
*
21824627 AAATTAATAT
1 AAAATAATAT
21824637 GGGCAGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:21829638 original size:42 final size:43
Alignment explanation
Indices: 21829532--21829646 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
21829522 TCGTACAACA
* * * *
21829532 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACG
* * * * *
21829575 CCACTGTCCCAAACAGGGTCTTACACGTAATCATAT-ACGGCG
1 CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACG
*
21829617 CCAATGTCCCAGACATGGTCTTACAGGTAA
1 CCAATGTCCCAGACATGGTCTTACACGTAA
21829647 ATCTCAAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 30 0.51
43 29 0.49
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGACG
Found at i:21833593 original size:39 final size:40
Alignment explanation
Indices: 21833498--21833759 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
21833488 TTGAATGATG
*
21833498 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21833536 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21833577 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21833616 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21833655 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21833694 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21833733 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21833760 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21841628 original size:39 final size:39
Alignment explanation
Indices: 21841524--21841785 Score: 302
Period size: 39 Copynumber: 6.6 Consensus size: 39
21841514 TTGAATGATG
*
21841524 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
21841562 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
21841603 TCCGGGCTAAGCCCGTAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
21841642 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21841681 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
21841720 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21841759 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
21841786 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
39 126 0.64
40 58 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21859022 original size:15 final size:15
Alignment explanation
Indices: 21859002--21859060 Score: 66
Period size: 15 Copynumber: 3.8 Consensus size: 15
21858992 AAAATATTTG
21859002 AAATATTTTAATATA
1 AAATATTTTAATATA
*
21859017 AAATA-TTTAATTTCA
1 AAATATTTTAATAT-A
*
21859032 AAATATAATTTAAAATA
1 AAATAT--TTTAATATA
21859049 AAATATTTTAAT
1 AAATATTTTAAT
21859061 TAATTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.19
15 16 0.44
17 7 0.19
18 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTTTAATATA
Found at i:21859086 original size:24 final size:24
Alignment explanation
Indices: 21859037--21859087 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
21859027 TTTCAAAATA
*
21859037 TAATTTAAAATAAAATATTTTAAT
1 TAATTTAAAATAAAATATTATAAT
*
21859061 TAATTTAATATAAAATAATTAT-AT
1 TAATTTAAAATAAAAT-ATTATAAT
21859085 TAA
1 TAA
21859088 CAATATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATTTAAAATAAAATATTATAAT
Found at i:21859131 original size:16 final size:16
Alignment explanation
Indices: 21859112--21859182 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
21859102 TATATATTTT
21859112 TATTTTTATTAAATTA
1 TATTTTTATTAAATTA
*
21859128 TA--TTTAAT-AATTA
1 TATTTTTATTAAATTA
21859141 TATTTAAATATGATTAAATTA
1 TATTT---T-T-ATTAAATTA
*
21859162 TTTTTTTATTAAATTA
1 TATTTTTATTAAATTA
21859178 T-TTTT
1 TATTTT
21859183 AATAATAATC
Statistics
Matches: 44, Mismatches: 3, Indels: 17
0.69 0.05 0.27
Matches are distributed among these distances:
13 7 0.16
14 5 0.11
15 5 0.11
16 12 0.27
17 1 0.02
18 2 0.05
19 1 0.02
20 2 0.05
21 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (16 bp):
TATTTTTATTAAATTA
Found at i:21859141 original size:13 final size:13
Alignment explanation
Indices: 21859123--21859147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21859113 ATTTTTATTA
21859123 AATTATATTTAAT
1 AATTATATTTAAT
21859136 AATTATATTTAA
1 AATTATATTTAA
21859148 ATATGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTATATTTAAT
Found at i:21859365 original size:44 final size:46
Alignment explanation
Indices: 21859297--21859385 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 46
21859287 TTACAACATC
* *
21859297 ATTCTATTCAACCAAACACATGAA-TACT-ACTACAATTCTATTCT
1 ATTCCATTCAACCAAACACATGAATTACTAACTACAACTCTATTCT
* *
21859341 ATTCCATTCAACTAAACA-ATTGAATTACTAATTACAACTCTATTC
1 ATTCCATTCAACCAAACACA-TGAATTACTAACTACAACTCTATTC
21859386 CATTATAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 20 0.53
45 4 0.11
46 13 0.34
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACACATGAATTACTAACTACAACTCTATTCT
Found at i:21863280 original size:71 final size:71
Alignment explanation
Indices: 21863164--21863321 Score: 217
Period size: 71 Copynumber: 2.2 Consensus size: 71
21863154 AAAAGAAAGA
* * * ** * * *
21863164 GTATCGTGATATCAACACCTTGGAATTGCGATACCTTTAATAGTATTGAAGAATGGAGACATCTT
1 GTATCGCGATATCCACACCTTGGAATCGCGATACCTCAAACAGTATTGAAGAATGGAGACACCCT
*
21863229 TCAGTG
66 TCAATG
* *
21863235 GTATCGCGATATCCACACCTTGGAATCGTGATACCTCAAACAGTATTGAAGAATGGGGACACCCT
1 GTATCGCGATATCCACACCTTGGAATCGCGATACCTCAAACAGTATTGAAGAATGGAGACACCCT
21863300 TCAATG
66 TCAATG
21863306 GTATCGCGATATCCAC
1 GTATCGCGATATCCAC
21863322 CTTTCCAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (71 bp):
GTATCGCGATATCCACACCTTGGAATCGCGATACCTCAAACAGTATTGAAGAATGGAGACACCCT
TCAATG
Found at i:21863411 original size:22 final size:22
Alignment explanation
Indices: 21863358--21863412 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
21863348 CACTGCCTAA
*
21863358 GGTATCGTGATATCCTCTTATG
1 GGTATCGCGATATCCTCTTATG
*** * *
21863380 AAAATTGCGATATCTTCTTATG
1 GGTATCGCGATATCCTCTTATG
21863402 GGTATCGCGAT
1 GGTATCGCGAT
21863413 GTAACAGCCC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (22 bp):
GGTATCGCGATATCCTCTTATG
Found at i:21866056 original size:13 final size:13
Alignment explanation
Indices: 21866038--21866062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21866028 TAACTTATAT
21866038 GTGTGAAAATTTC
1 GTGTGAAAATTTC
21866051 GTGTGAAAATTT
1 GTGTGAAAATTT
21866063 TATCATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:21877736 original size:26 final size:25
Alignment explanation
Indices: 21877707--21877764 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 25
21877697 TTCATCTGAA
21877707 AATATGAGGCACACTCCACAAATTGT
1 AATAT-AGGCACACTCCACAAATTGT
21877733 AATAACATAGGCACACTCCACAAATTGT
1 AAT---ATAGGCACACTCCACAAATTGT
21877761 AATA
1 AATA
21877765 ACATACTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
28 23 0.79
29 2 0.07
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.22
Consensus pattern (25 bp):
AATATAGGCACACTCCACAAATTGT
Found at i:21877744 original size:28 final size:28
Alignment explanation
Indices: 21877713--21877769 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21877703 TGAAAATATG
21877713 AGGCACACTCCACAAATTGTAATAACAT
1 AGGCACACTCCACAAATTGTAATAACAT
21877741 AGGCACACTCCACAAATTGTAATAACAT
1 AGGCACACTCCACAAATTGTAATAACAT
21877769 A
1 A
21877770 CTTATTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.25, G:0.11, T:0.21
Consensus pattern (28 bp):
AGGCACACTCCACAAATTGTAATAACAT
Found at i:21880535 original size:26 final size:26
Alignment explanation
Indices: 21880506--21880562 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
21880496 AACACGTCAG
*
21880506 AAAAGGAAGCCATTGTGGTATAATAT
1 AAAAGGAAGCCATTGTGGCATAATAT
*
21880532 AAAAGGAAGCCTTTGTGGCATAATAT
1 AAAAGGAAGCCATTGTGGCATAATAT
21880558 AAAAG
1 AAAAG
21880563 AAACCCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGAAGCCATTGTGGCATAATAT
Found at i:21880576 original size:26 final size:26
Alignment explanation
Indices: 21880525--21880577 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
21880515 CCATTGTGGT
* * * *
21880525 ATAATATAAAAGGAAGCCTTTGTGGC
1 ATAATATAAAAGAAACCCTCTCTGGC
21880551 ATAATATAAAAGAAACCCTCTCTGGC
1 ATAATATAAAAGAAACCCTCTCTGGC
21880577 A
1 A
21880578 AAACTCGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (26 bp):
ATAATATAAAAGAAACCCTCTCTGGC
Found at i:21883832 original size:18 final size:19
Alignment explanation
Indices: 21883796--21883842 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
21883786 GAATAAAAGA
21883796 AAAAGAAAGC-AAAGAATCG
1 AAAAGAAA-CAAAAGAATCG
21883815 AAAAGAAACAAAAG-ATCG
1 AAAAGAAACAAAAGAATCG
21883833 AGAAA-AAACA
1 A-AAAGAAACA
21883843 GAAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.68, C:0.11, G:0.17, T:0.04
Consensus pattern (19 bp):
AAAAGAAACAAAAGAATCG
Found at i:21888405 original size:43 final size:44
Alignment explanation
Indices: 21888335--21888476 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 44
21888325 TTTTTCAAAT
* * *
21888335 AAACGCCGCTATAGATCAT-TACTTTTAGCGGCGCTTTTAT-ATC
1 AAACACCGCTAAAGATCATGTTC-TTTAGCGGCGCTTTTATCATC
* * *
21888378 AAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTTTATCA-C
1 AAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCATC
* * * *
21888421 AAACACCACTAAAGAACATGATCTTTAGCGGCGCTTTTTTCAT-
1 AAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCATC
21888464 AAACACCGCTAAA
1 AAACACCGCTAAA
21888477 AGTATCGTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 81 0.96
44 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
AAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTATCATC
Found at i:21888489 original size:43 final size:42
Alignment explanation
Indices: 21888358--21888490 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 42
21888348 GATCATTACT
* *
21888358 TTTAGCGGCGCTTTTAT-ATCAAACGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGCTTTTATCAT-AAACACCGCTAAAAGT-ATGTTC
* * * ** *
21888401 TTTAGCAGCGCTTTTATCACAAACACCACTAAAGAACATGATC
1 TTTAGCGGCGCTTTTATCATAAACACCGCTAAA-AGTATGTTC
*
21888444 TTTAGCGGCGCTTTTTTCATAAACACCGCTAAAAGTATCGTTC
1 TTTAGCGGCGCTTTTATCATAAACACCGCTAAAAGTAT-GTTC
21888487 TTTA
1 TTTA
21888491 ATGGCGTTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
42 3 0.04
43 68 0.94
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTATCATAAACACCGCTAAAAGTATGTTC
Found at i:21888823 original size:21 final size:21
Alignment explanation
Indices: 21888799--21888848 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
21888789 TTCTATTCTG
21888799 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
21888820 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
21888841 CTCTGCTT
1 CTCTGCTT
21888849 TAAGTTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.00, C:0.46, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:21894311 original size:9 final size:9
Alignment explanation
Indices: 21894297--21894693 Score: 158
Period size: 9 Copynumber: 43.0 Consensus size: 9
21894287 TAAGTATAAT
21894297 TAAGTTATG
1 TAAGTTATG
21894306 TAAGTTATG
1 TAAGTTATG
21894315 TAAGTTATG
1 TAAGTTATG
* * *
21894324 ATATGATATA
1 -TAAGTTATG
*
21894334 T-ATTTATG
1 TAAGTTATG
21894342 TAAGTTA--
1 TAAGTTATG
21894349 TAAG-TATG
1 TAAGTTATG
21894357 ATTAAGTTATG
1 --TAAGTTATG
21894368 TAAGTTATG
1 TAAGTTATG
* *
21894377 TGAGTTACG
1 TAAGTTATG
21894386 TAAGTTATG
1 TAAGTTATG
* *
21894395 ATATGATATATATA
1 -TA--A-GT-TATG
21894409 TAAGTTAT-
1 TAAGTTATG
21894417 TAAGTTATG
1 TAAGTTATG
*
21894426 TAAGATATG
1 TAAGTTATG
*
21894435 TGAGTTATG
1 TAAGTTATG
* *
21894444 ATATGATATATA
1 -TAAG-T-TATG
* *
21894456 TAAGTAATT
1 TAAGTTATG
21894465 TAAGAATTTTATG
1 TAAG----TTATG
*
21894478 TATG-TATG
1 TAAGTTATG
*
21894486 TGAGTTATG
1 TAAGTTATG
21894495 TAAGTTATG
1 TAAGTTATG
* * *
21894504 ATATGATATA
1 -TAAGTTATG
*
21894514 T-ATTTATG
1 TAAGTTATG
21894522 T-A-TTATG
1 TAAGTTATG
*
21894529 TAAATTATG
1 TAAGTTATG
21894538 TAAGTTATG
1 TAAGTTATG
* *
21894547 TATTTGTTTTG
1 TA--AGTTATG
21894558 TAAGTTATGG
1 TAAGTTAT-G
* *
21894568 TATGATATATA
1 TAAG-T-TATG
21894579 TAAGTTAT-
1 TAAGTTATG
21894587 TAAGTTATG
1 TAAGTTATG
*
21894596 TGAGTTATG
1 TAAGTTATG
* *
21894605 ATATGATATATA
1 -TAAG-T-TATG
21894617 TAAGTTAT-
1 TAAGTTATG
21894625 TAAGTTATG
1 TAAGTTATG
*
21894634 TATG-TATG
1 TAAGTTATG
*
21894642 TGAGTTATG
1 TAAGTTATG
21894651 TAAGTTATG
1 TAAGTTATG
* * *
21894660 ATATGATATA
1 -TAAGTTATG
*
21894670 T-ATTTATG
1 TAAGTTATG
21894678 T-A-TTATG
1 TAAGTTATG
21894685 TAAGTTATG
1 TAAGTTATG
21894694 GTATGATATA
Statistics
Matches: 289, Mismatches: 61, Indels: 76
0.68 0.14 0.18
Matches are distributed among these distances:
6 2 0.01
7 16 0.06
8 52 0.18
9 137 0.47
10 36 0.12
11 24 0.08
12 10 0.03
13 9 0.03
14 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21894439 original size:58 final size:58
Alignment explanation
Indices: 21894286--21894722 Score: 247
Period size: 58 Copynumber: 7.3 Consensus size: 58
21894276 AGGTTTAAGG
* * * * *
21894286 ATAAGTATAATTAAGTTATGTAAGTTATGTAAGTTATGATATGATAT-ATAT-TTATGTAAGTT
1 ATAAGT-T-ATTAAGTTATGTAAGTTATGTGAGTTATG-TAAGTTATGATATGATATAT-A--T
*
21894348 ATAAGTATGATTAAGTTATGTAAGTTATGTGAGTTACGTAAGTTATGATATGATATATAT
1 ATAAGT-T-ATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
*
21894408 ATAAGTTATTAAGTTATGTAAGATATGTGAGTTATG--A--TATGATAT-ATATA-A-
1 ATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
* * ** * *
21894459 GTAATTTAAGAATTTTATGTATG-TATGTGAGTTATGTAAGTTATGATATGATATATAT
1 ATAAGTTATTAA-GTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
* * * * *
21894517 TTATGTATTATGTAAATTATGTAAGTTATGT-ATTTGTTTTGTAAGTTATGGTATG--ATATAT
1 ATAAG--TTAT-TAAGTTATGTAAGTTATGTGA---GTTATGTAAGTTATGATATGATATATAT
* * * *
21894578 ATAAGTTATTAAGTTATGTGAGTTATGAT-ATGATATATATAAGTTATTAAGTTATG-TATGTAT
1 ATAAGTTATTAAGTTATGTAAGTTATG-TGA-G-T-TATGTAAGTTA-T--GATATGATATATAT
* * * * * *
21894641 GTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGGTATGATATATA
1 ATAAGTTAT-TAAGTTATG-TAAG-T-TAT-GTGA-G--TTATGTAAGTTATGATATGATATATA
21894706 T
58 T
21894707 ATAAGTTATTAAGTTA
1 ATAAGTTATTAAGTTA
21894723 AGATCCAAAG
Statistics
Matches: 301, Mismatches: 42, Indels: 61
0.75 0.10 0.15
Matches are distributed among these distances:
51 21 0.07
52 9 0.03
53 6 0.02
54 8 0.03
55 8 0.03
56 6 0.02
57 3 0.01
58 46 0.15
59 16 0.05
60 20 0.07
61 22 0.07
62 45 0.15
63 34 0.11
64 9 0.03
65 14 0.05
66 14 0.05
67 5 0.02
68 13 0.04
69 2 0.01
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (58 bp):
ATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATAT
Found at i:21894482 original size:47 final size:48
Alignment explanation
Indices: 21894359--21894650 Score: 143
Period size: 49 Copynumber: 5.7 Consensus size: 48
21894349 TAAGTATGAT
* * * * *
21894359 TAAGTTATGTAAGTTATGTGAGTTACGTAAGTTATGATATGATATATATA
1 TAAGTAAT-TAAGTTATGTAAGATATGTGAGTTATGATATGA-ATATATA
*
21894409 TAAGTTATTAAGTTATGTAAGATATGTGAGTTATGATATG-ATATATA
1 TAAGTAATTAAGTTATGTAAGATATGTGAGTTATGATATGAATATATA
*
21894456 TAAGTAATTTAAGAATTTTATGTATG-TATGTGAGTTATGTAAGTTATGATATGATATA
1 TAAGTAA-TTAAG----TTATGTAAGATATGTGAGTTATG--A--TATGA-AT-ATATA
* * * * *
21894514 TATTTATGTATTATGTAAATTATGTAAGTTATGT-A-TT-TGTTTTGTAAGT-TATGG
1 TA---A-GTA--AT-TAAGTTATGTAAGATATGTGAGTTATGATATG-AA-TATAT-A
* *
21894568 TATGATATATATAAGTTAT-TAAGTTATGTGAGTTATGATATG-ATATATA
1 TAAG-TA-AT-TAAGTTATGTAAGATATGTGAGTTATGATATGAATATATA
* *
21894617 TAAGTTATTAAGTTATGTATG-TATGTGAGTTATG
1 TAAGTAATTAAGTTATGTAAGATATGTGAGTTATG
21894651 TAAGTTATGA
Statistics
Matches: 193, Mismatches: 20, Indels: 62
0.70 0.07 0.23
Matches are distributed among these distances:
46 21 0.11
47 18 0.09
48 6 0.03
49 42 0.22
50 24 0.12
51 17 0.09
52 13 0.07
53 4 0.02
54 6 0.03
55 6 0.03
57 2 0.01
58 9 0.05
59 2 0.01
60 9 0.05
61 6 0.03
62 3 0.02
63 1 0.01
64 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (48 bp):
TAAGTAATTAAGTTATGTAAGATATGTGAGTTATGATATGAATATATA
Found at i:21894537 original size:34 final size:34
Alignment explanation
Indices: 21894301--21894706 Score: 173
Period size: 34 Copynumber: 12.0 Consensus size: 34
21894291 TATAATTAAG
21894301 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGT-A-TTATGTAAGTTATGATATGATATATAT
* * * *
21894337 TTATGTAAGTTA--TAAG-TATGATTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGA-TATGATATAT-AT
*
21894372 TTATGTGAGTTACGTAAGTTATGATATGATATATAT
1 TTATGT-A-TTATGTAAGTTATGATATGATATATAT
* * *
21894408 ATAAG--TTAT-TAAGTTATG-TAAGATATGTGAGTTAT
1 TTATGTATTATGTAAGTTATGATATGATA--T-A--TAT
* * * ** *
21894443 GATATGATATATATAAGTAATTTAAGA-ATTTTATGTAT
1 -TTATG-TAT-TAT--GTAAGTTATGATATGATATATAT
*
21894481 GTATGTGAGTTATGTAAGTTATGATATGATATATAT
1 TTATGT-A-TTATGTAAGTTATGATATGATATATAT
* * * *
21894517 TTATGTATTATGTAAATTATG-TAAGTTATGTA-
1 TTATGTATTATGTAAGTTATGATATGATATATAT
*
21894549 TT-TGT-TT-TGTAAGTTATGGTATGATATATAT
1 TTATGTATTATGTAAGTTATGATATGATATATAT
*
21894580 AAGTTAT-TAAGTTATGTGAGTTATGATATGATATATA-
1 ---TTATGT-A-TTATGTAAGTTATGATATGATATATAT
* *
21894617 -TAAG--TTAT-TAAGTTATG-TATG---TAT-G
1 TTATGTATTATGTAAGTTATGATATGATATATAT
*
21894642 TGA-G--TTATGTAAGTTATGATATGATATATAT
1 TTATGTATTATGTAAGTTATGATATGATATATAT
*
21894673 TTATGTATTATGTAAGTTATGGTATGATATATAT
1 TTATGTATTATGTAAGTTATGATATGATATATAT
21894707 ATAAGTTATT
Statistics
Matches: 283, Mismatches: 43, Indels: 90
0.68 0.10 0.22
Matches are distributed among these distances:
25 8 0.03
26 10 0.04
27 4 0.01
28 4 0.01
29 18 0.06
30 23 0.08
31 14 0.05
32 7 0.02
33 16 0.06
34 53 0.19
35 26 0.09
36 34 0.12
37 21 0.07
38 30 0.11
39 1 0.00
40 3 0.01
41 1 0.00
43 10 0.04
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.46
Consensus pattern (34 bp):
TTATGTATTATGTAAGTTATGATATGATATATAT
Found at i:21894582 original size:21 final size:20
Alignment explanation
Indices: 21894558--21894624 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
21894548 ATTTGTTTTG
21894558 TAAGTTATGGTATGATATATA
1 TAAGTTAT-GTATGATATATA
* *
21894579 TAAGTTAT-TAAG-T-TATG
1 TAAGTTATGTATGATATATA
*
21894596 TGAGTTATGATATGATATATA
1 TAAGTTATG-TATGATATATA
21894617 TAAGTTAT
1 TAAGTTAT
21894625 TAAGTTATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.28
18 1 0.03
19 6 0.17
20 1 0.03
21 18 0.50
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (20 bp):
TAAGTTATGTATGATATATA
Found at i:21894602 original size:38 final size:38
Alignment explanation
Indices: 21894560--21894634 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
21894550 TTGTTTTGTA
*
21894560 AGTTATGGTATGATATATATAAGTTATTAAGTTATGTG
1 AGTTATGATATGATATATATAAGTTATTAAGTTATGTG
21894598 AGTTATGATATGATATATATAAGTTATTAAGTTATGT
1 AGTTATGATATGATATATATAAGTTATTAAGTTATGT
21894635 ATGTATGTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (38 bp):
AGTTATGATATGATATATATAAGTTATTAAGTTATGTG
Found at i:21894769 original size:9 final size:9
Alignment explanation
Indices: 21894755--21894840 Score: 75
Period size: 9 Copynumber: 9.3 Consensus size: 9
21894745 TCTTTAAAGG
*
21894755 TATGTAAAT
1 TATGTAAGT
21894764 TATGTAAGT
1 TATGTAAGT
*
21894773 TATGATATGAT
1 TATG-TAAG-T
21894784 TAT-TAAGT
1 TATGTAAGT
21894792 TATGTAAGT
1 TATGTAAGT
*
21894801 TATGTGAGT
1 TATGTAAGT
*
21894810 TAATGTAAAT
1 T-ATGTAAGT
*
21894820 TATATAAGT
1 TATGTAAGT
* *
21894829 TACGTAAAT
1 TATGTAAGT
21894838 TAT
1 TAT
21894841 ATATTCATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
8 4 0.07
9 43 0.70
10 10 0.16
11 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:21894796 original size:37 final size:37
Alignment explanation
Indices: 21894755--21894840 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 37
21894745 TCTTTAAAGG
*
21894755 TATGTAAATTATGTAAGTT-ATGATATGATTAT-TAAGT
1 TATGTAAATTATGTAAGTTAATG-TA-AATTATATAAGT
* *
21894792 TATGTAAGTTATGTGAGTTAATGTAAATTATATAAGT
1 TATGTAAATTATGTAAGTTAATGTAAATTATATAAGT
*
21894829 TACGTAAATTAT
1 TATGTAAATTAT
21894841 ATATTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 5 0.12
37 34 0.81
38 3 0.07
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (37 bp):
TATGTAAATTATGTAAGTTAATGTAAATTATATAAGT
Found at i:21894822 original size:28 final size:29
Alignment explanation
Indices: 21894755--21894830 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
21894745 TCTTTAAAGG
21894755 TATGTAAATTATGTAAGTTATGATATGAT
1 TATGTAAATTATGTAAGTTATGATATGAT
*
21894784 TAT-TAAGTTATGTAAGTTATG---TGAGT
1 TATGTAAATTATGTAAGTTATGATATGA-T
*
21894810 TAATGTAAATTATATAAGTTA
1 T-ATGTAAATTATGTAAGTTA
21894831 CGTAAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 3 0.07
26 2 0.05
27 2 0.05
28 31 0.76
29 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (29 bp):
TATGTAAATTATGTAAGTTATGATATGAT
Found at i:21894981 original size:20 final size:20
Alignment explanation
Indices: 21894956--21894996 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21894946 TAGAGTAAAC
21894956 TCAATTTTGCTTTCCTTGTA
1 TCAATTTTGCTTTCCTTGTA
21894976 TCAATTTTGCTTTCCTTGTA
1 TCAATTTTGCTTTCCTTGTA
21894996 T
1 T
21894997 TAGTGGGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.10, T:0.56
Consensus pattern (20 bp):
TCAATTTTGCTTTCCTTGTA
Found at i:21895181 original size:75 final size:75
Alignment explanation
Indices: 21895066--21895246 Score: 301
Period size: 75 Copynumber: 2.4 Consensus size: 75
21895056 TATATAAAAT
* *
21895066 AAAAAAAA-AAGACATTGAGTTGGCATTACAAGATACAATTAATTTGTCTATATTTATCAAAATA
1 AAAAAAAATAAGACTTTGAGTTGGCATTACAAGATACAATTAATTTGTCTATATTGATCAAAATA
*
21895130 AGTTAAATTA
66 AGTAAAATTA
* * *
21895140 AAAAAAAATAAGCCTTTGAGTTGGCATTACAATATATAATTAATTTGTCTATATTGATCAAAATA
1 AAAAAAAATAAGACTTTGAGTTGGCATTACAAGATACAATTAATTTGTCTATATTGATCAAAATA
21895205 AGTAAAATTA
66 AGTAAAATTA
21895215 AAAAAAAATAAGACTTTGAGTTGGCATTACAA
1 AAAAAAAATAAGACTTTGAGTTGGCATTACAA
21895247 AATAAATATA
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
74 8 0.08
75 91 0.92
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (75 bp):
AAAAAAAATAAGACTTTGAGTTGGCATTACAAGATACAATTAATTTGTCTATATTGATCAAAATA
AGTAAAATTA
Found at i:21895476 original size:66 final size:65
Alignment explanation
Indices: 21895379--21895529 Score: 203
Period size: 66 Copynumber: 2.3 Consensus size: 65
21895369 TATAAAATCG
* ** * * * *
21895379 ATAATTTATTAAATTACATAAAAAATTGATAATTTATTGACATAAAATCAAATAAACTAATCAAA
1 ATAATTTATTCAATTA-ATCGATAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
21895444 C
65 C
* *
21895445 ATAATTTATTCAATTTAATCGATAATCGATAATTTATTCACATTAAACCGAATAAACTAATCAAA
1 ATAATTTATTCAA-TTAATCGATAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
21895510 C
65 C
21895511 ATAATTTATTCAATTAATC
1 ATAATTTATTCAATTAATC
21895530 AAATATATAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
65 6 0.08
66 66 0.88
67 3 0.04
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (65 bp):
ATAATTTATTCAATTAATCGATAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAAC
Found at i:21897997 original size:7 final size:7
Alignment explanation
Indices: 21897977--21898189 Score: 117
Period size: 7 Copynumber: 29.9 Consensus size: 7
21897967 ACTAATTAAT
21897977 CTAAACC
1 CTAAACC
*
21897984 TTAAACCC
1 CTAAA-CC
*
21897992 CTAACCC
1 CTAAACC
**
21897999 CTATCCC
1 CTAAACC
21898006 CTAAACC
1 CTAAACC
*
21898013 TTAAACC
1 CTAAACC
*
21898020 CTAAGCC
1 CTAAACC
21898027 CTTAAACC
1 C-TAAACC
21898035 CTAAACC
1 CTAAACC
*
21898042 TTAAACC
1 CTAAACC
*
21898049 TTAAACC
1 CTAAACC
21898056 CT-AACC
1 CTAAACC
*
21898062 CTTAAACT
1 C-TAAACC
21898070 CTAAACC
1 CTAAACC
*
21898077 CATAATCC
1 C-TAAACC
*
21898085 GTAAACC
1 CTAAACC
*
21898092 TTAAA--
1 CTAAACC
*
21898097 ATAGTAACTC
1 CTA--AAC-C
21898107 CTAAACC
1 CTAAACC
*
21898114 TTAAACC
1 CTAAACC
*
21898121 ATAAACC
1 CTAAACC
* *
21898128 ATAATCC
1 CTAAACC
*
21898135 CTAAATC
1 CTAAACC
*
21898142 TTAAACC
1 CTAAACC
* *
21898149 TTAAAAC
1 CTAAACC
21898156 CTAAACC
1 CTAAACC
* *
21898163 ATATACC
1 CTAAACC
21898170 CTAAACC
1 CTAAACC
* *
21898177 ATAAACT
1 CTAAACC
21898184 CTAAAC
1 CTAAAC
21898190 TATAATAATA
Statistics
Matches: 158, Mismatches: 38, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
5 2 0.01
6 5 0.03
7 126 0.80
8 23 0.15
10 2 0.01
ACGTcount: A:0.42, C:0.34, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:21898010 original size:29 final size:30
Alignment explanation
Indices: 21897977--21898048 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 30
21897967 ACTAATTAAT
**
21897977 CTAAACCTTAAACCCCTAA-CCCCTATCCC
1 CTAAACCTTAAACCCCTAAGCCCCTAAACC
*
21898006 CTAAACCTTAAA-CCCTAAGCCCTTAAACC
1 CTAAACCTTAAACCCCTAAGCCCCTAAACC
21898035 CTAAACCTTAAACC
1 CTAAACCTTAAACC
21898049 TTAAACCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.16
29 31 0.82
30 1 0.03
ACGTcount: A:0.36, C:0.42, G:0.01, T:0.21
Consensus pattern (30 bp):
CTAAACCTTAAACCCCTAAGCCCCTAAACC
Found at i:21898660 original size:111 final size:113
Alignment explanation
Indices: 21898482--21898782 Score: 437
Period size: 114 Copynumber: 2.7 Consensus size: 113
21898472 GTTTTTAATT
* * * * *
21898482 TTTTTTGCGGCGTTTTTCAAA-AGCGTCGCTAATGCTCGACATATAGCGACATTTTTCAAAAAAG
1 TTTTTTGCGGCGTTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTC-AACAAG
* *
21898546 CGCCGCTAATGCCACTAAAGCTCAACAT-AAA-ACGGCGTTGTGCTTAA
65 CGCCGCTAATGCCACTAAAGCTCAACATAAAACACGGCATTATGCTTAA
* *
21898593 TTTTTTGCGGCGTGTTTCAAAGAGCGCCACTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGC
1 TTTTTTGCGGCGTTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGC
*
21898658 GCCGCTAATTCCACTAAAGCTCAACATAAAACGACGGCATTATGCTTAA
66 GCCGCTAATGCCACTAAAGCTCAACATAAAAC-ACGGCATTATGCTTAA
* * * *
21898707 ATTTTAGCGGCGTTTTTCAAAGAGCGCCGCTAACGCTCGACCTATAGTGGCGTTTTTCAACAAGC
1 TTTTTTGCGGCGTTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGC
21898772 GCCGCTAATGC
66 GCCGCTAATGC
21898783 ACGACATATT
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
111 52 0.31
112 34 0.20
114 83 0.49
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (113 bp):
TTTTTTGCGGCGTTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGC
GCCGCTAATGCCACTAAAGCTCAACATAAAACACGGCATTATGCTTAA
Found at i:21898803 original size:40 final size:40
Alignment explanation
Indices: 21898711--21898843 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
21898701 GCTTAAATTT
* * *
21898711 TAGCGGCGTTTTTCAA-AGAGCGCCGCTAACGCTCGACCTA
1 TAGCGGCGTTTTTCAACA-AGCGCCGCTAATGCACGACATA
*
21898751 TAGTGGCGTTTTTCAACAAGCGCCGCTAATGCACGACATA
1 TAGCGGCGTTTTTCAACAAGCGCCGCTAATGCACGACATA
* * * * * * * * *
21898791 TTGCGGCATTTTTCGACTATCGCCGCTAATTCCCAATATA
1 TAGCGGCGTTTTTCAACAAGCGCCGCTAATGCACGACATA
*
21898831 TAGCAGCGTTTTT
1 TAGCGGCGTTTTT
21898844 TTGTCCAAAC
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
TAGCGGCGTTTTTCAACAAGCGCCGCTAATGCACGACATA
Found at i:21898935 original size:10 final size:10
Alignment explanation
Indices: 21898917--21898950 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
21898907 AAGTCATTAA
*
21898917 AATCCTAATT
1 AATCTTAATT
21898927 AATCTTAATT
1 AATCTTAATT
*
21898937 AAACTTAATT
1 AATCTTAATT
21898947 AATC
1 AATC
21898951 ATCTATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (10 bp):
AATCTTAATT
Found at i:21902306 original size:2 final size:2
Alignment explanation
Indices: 21902299--21902349 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
21902289 ATACCTTGGG
21902299 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
21902341 GT GT GT GT G
1 GT GT GT GT G
21902350 GTGGGTATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:21905103 original size:19 final size:19
Alignment explanation
Indices: 21905071--21905108 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21905061 TATATACATT
21905071 TTTAGTTTTCAAA-TAAAA
1 TTTAGTTTTCAAATTAAAA
*
21905089 TTTAGTTTTTTAAATTAAAA
1 TTTAG-TTTTCAAATTAAAA
21905109 AATTAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
TTTAGTTTTCAAATTAAAA
Found at i:21910568 original size:43 final size:43
Alignment explanation
Indices: 21910507--21910594 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
21910497 CAGTAACAAA
21910507 CAAAGGCGCGAGTGATATATTGATATCCATTTGGTATGCAGTT
1 CAAAGGCGCGAGTGATATATTGATATCCATTTGGTATGCAGTT
21910550 CAAAGGCGCGAGTGATATATTGATATCCATTTGGTATGCAGTT
1 CAAAGGCGCGAGTGATATATTGATATCCATTTGGTATGCAGTT
21910593 CA
1 CA
21910595 GCGAGTGAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
CAAAGGCGCGAGTGATATATTGATATCCATTTGGTATGCAGTT
Found at i:21913320 original size:74 final size:74
Alignment explanation
Indices: 21913228--21913374 Score: 258
Period size: 74 Copynumber: 2.0 Consensus size: 74
21913218 TCTCCCTATC
21913228 AATAGATCACACGGTAGAGTTATTTATACAAATTTAAATATATAAATTTCATTTATTGTTATTCT
1 AATAGATCACACGGTAGAGTTATTTATACAAATTTAAATATATAAATTTCATTTATTGTTATTCT
21913293 ACTTAAAGG
66 ACTTAAAGG
* * * *
21913302 AATAGATGACTCGGTAGAGTTATTTATACAAATTTGAATATATAAGTTTCATTTATTGTTATTCT
1 AATAGATCACACGGTAGAGTTATTTATACAAATTTAAATATATAAATTTCATTTATTGTTATTCT
21913367 ACTTAAAG
66 ACTTAAAG
21913375 TAGTAAAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.41
Consensus pattern (74 bp):
AATAGATCACACGGTAGAGTTATTTATACAAATTTAAATATATAAATTTCATTTATTGTTATTCT
ACTTAAAGG
Found at i:21914712 original size:13 final size:14
Alignment explanation
Indices: 21914689--21914717 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21914679 AAGATACACC
21914689 AAGATAATAAAAAA
1 AAGATAATAAAAAA
21914703 AAGA-AATAAAAAA
1 AAGATAATAAAAAA
21914716 AA
1 AA
21914718 TCAATATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (14 bp):
AAGATAATAAAAAA
Found at i:21914783 original size:11 final size:11
Alignment explanation
Indices: 21914767--21914798 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
21914757 ATACACGAAT
21914767 TCAAAATAGAC
1 TCAAAATAGAC
21914778 TCAAAATAGAC
1 TCAAAATAGAC
21914789 TCAAAATAGA
1 TCAAAATAGA
21914799 ATTAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (11 bp):
TCAAAATAGAC
Found at i:21914805 original size:11 final size:11
Alignment explanation
Indices: 21914767--21914807 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
21914757 ATACACGAAT
*
21914767 TCAAAATAGAC
1 TCAAAATAGAA
*
21914778 TCAAAATAGAC
1 TCAAAATAGAA
21914789 TCAAAATAGAA
1 TCAAAATAGAA
*
21914800 TTAAAATA
1 TCAAAATA
21914808 AGCATTGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.59, C:0.12, G:0.07, T:0.22
Consensus pattern (11 bp):
TCAAAATAGAA
Found at i:21916212 original size:15 final size:15
Alignment explanation
Indices: 21916192--21916222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21916182 GATCCCCAAT
21916192 ACTTCAATCTGCCCC
1 ACTTCAATCTGCCCC
*
21916207 ACTTCAGTCTGCCCC
1 ACTTCAATCTGCCCC
21916222 A
1 A
21916223 TTGCAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.45, G:0.10, T:0.26
Consensus pattern (15 bp):
ACTTCAATCTGCCCC
Found at i:21918623 original size:40 final size:40
Alignment explanation
Indices: 21918568--21918795 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
21918558 GAGCATTGGA
21918568 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
21918608 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
21918648 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
21918688 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
21918728 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
21918768 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
21918796 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:21920548 original size:217 final size:218
Alignment explanation
Indices: 21920173--21920623 Score: 706
Period size: 217 Copynumber: 2.1 Consensus size: 218
21920163 GGGTGTTACA
* *
21920173 TAACTTCAGGGAGATAAGACTAGATACGATTTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTC
1 TAACTTCAAGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTC
* * *
21920238 ATTTTAATCCGCTTTATTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
66 ATTTTAATCCACTTCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
*
21920303 ACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTTAGGAGGATAAAACCT
131 ACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAAACCT
* * * **
21920368 GCTTTC-TCAGTCTGCTCCGTTG
196 GCTATCTTCAATCCGCTCCACTG
* *
21920390 TAACTTCAATGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTC
1 TAACTTCAAGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTC
* *
21920455 ATTTTAATCCACTTCGCTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
66 ATTTTAATCCACTTCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
* * * * *
21920520 ACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCATTGCAACTTCAGGGGGATAAGACTT
131 ACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAAACCT
21920585 GCTATCTTCAATCCGCTCCACTG
196 GCTATCTTCAATCCGCTCCACTG
*
21920608 TAACTTCAGGGAGATA
1 TAACTTCAAGGAGATA
21920624 GAATTTGTGA
Statistics
Matches: 211, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
217 185 0.88
218 26 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
TAACTTCAAGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTGTC
ATTTTAATCCACTTCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCA
ACTTCAGGGAGATAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAAACCT
GCTATCTTCAATCCGCTCCACTG
Found at i:21920570 original size:45 final size:45
Alignment explanation
Indices: 21920287--21920623 Score: 198
Period size: 45 Copynumber: 7.7 Consensus size: 45
21920277 TATTGGCTTT
*
21920287 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCCATCTTC
* * * * * **
21920332 AGTCTGCCCCACTGCAACTTTA-GGAGGATAAAACCTGCTTTC-TC
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCCATCTTC
* ** * ** * *
21920376 AGTCTGCTCCGTTGTAACTTCAATGAGATAAGACTAG--A--TAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTC
* * * * *
21920417 GATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGTCAT-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATCTTC
** * * * * * *
21920460 AATCCACTTCGCTGTAACTTCAGGGAGATAGGATTATTGGC-T-TT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCCATCTTC
21920504 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCCATCTTC
* * * * *
21920549 AGTCTGCCCCATTGCAACTTCAGGGGGATAAGACTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTC
* *
21920594 AATCCGCTCCACTGTAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
21920624 GAATTTGTGA
Statistics
Matches: 220, Mismatches: 55, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
39 1 0.00
40 20 0.09
41 9 0.04
42 3 0.01
43 7 0.03
44 79 0.36
45 94 0.43
46 6 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTC
Found at i:21929056 original size:15 final size:15
Alignment explanation
Indices: 21929015--21929067 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
21929005 AACTAATACA
21929015 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* * *
21929030 AATTATAGTAACATT
1 AATAATAATAACAAT
*
21929045 AATAATAATAACAAC
1 AATAATAATAACAAT
21929060 AATAATAA
1 AATAATAA
21929068 AAATAGTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:21932696 original size:32 final size:32
Alignment explanation
Indices: 21932655--21932718 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
21932645 AGCCTCTTGG
*
21932655 AATTTTCTTTCCCACCTATTGGCTTTGCTTCT
1 AATTTTCTTTCCCACCTATCGGCTTTGCTTCT
21932687 AATTTTCTTTCCCACCTATCGGCTTTGCTTCT
1 AATTTTCTTTCCCACCTATCGGCTTTGCTTCT
21932719 TTCTTCTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.48
Consensus pattern (32 bp):
AATTTTCTTTCCCACCTATCGGCTTTGCTTCT
Found at i:21936177 original size:34 final size:32
Alignment explanation
Indices: 21936131--21936197 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 32
21936121 TATAAGTAAG
21936131 TTTTTTTTAAAAAGAAATAAATTACATATTAA
1 TTTTTTTTAAAAAGAAATAAATTACATATTAA
21936163 TTTTTTTTAAAAAAAGAAATAAATTACATATTAA
1 TTTTTTTT--AAAAAGAAATAAATTACATATTAA
21936197 T
1 T
21936198 AAAATTGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 8 0.24
34 25 0.76
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (32 bp):
TTTTTTTTAAAAAGAAATAAATTACATATTAA
Found at i:21937872 original size:26 final size:26
Alignment explanation
Indices: 21937843--21937893 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21937833 TTATTGAATT
* *
21937843 TATTT-ATTTGTTTTATTTGGTTTTTA
1 TATTTGATTTATTTTAATT-GTTTTTA
21937869 TATTTGATTTATTTTAATTGTTTTT
1 TATTTGATTTATTTTAATTGTTTTT
21937894 GGGTCGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.73
Consensus pattern (26 bp):
TATTTGATTTATTTTAATTGTTTTTA
Found at i:21940979 original size:40 final size:39
Alignment explanation
Indices: 21940917--21940999 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 39
21940907 CAATTTAACT
* * *
21940917 GATGAGACACTGGGAGTTAATTTACTACTTCAGATTTATTC
1 GATGAGACACTGGGAG-AAATTTAATACTTC-GAATTATTC
21940958 GATGAGACACTGGTGA-AAATTTAATACTTCGAATTATTC
1 GATGAGACACTGG-GAGAAATTTAATACTTCGAATTATTC
21940997 GAT
1 GAT
21941000 AAGGCACTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 11 0.29
40 12 0.32
41 13 0.34
42 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (39 bp):
GATGAGACACTGGGAGAAATTTAATACTTCGAATTATTC
Found at i:21941396 original size:17 final size:18
Alignment explanation
Indices: 21941366--21941400 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21941356 AAATGTTGTT
21941366 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
21941384 TTAAA-ATTTAATTGTGC
1 TTAAATATTCAATTGTGC
21941401 CTATTATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:21945557 original size:17 final size:18
Alignment explanation
Indices: 21945525--21945559 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21945515 AAATGTGGTT
21945525 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
21945543 TTAAA-ATTTAATTGTGC
1 TTAAATATTCAATTGTGC
21945560 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:21946729 original size:17 final size:18
Alignment explanation
Indices: 21946697--21946731 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21946687 AAATGTGGTT
21946697 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
21946715 TTAAA-ATTTAATTGTGC
1 TTAAATATTCAATTGTGC
21946732 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:21947820 original size:17 final size:18
Alignment explanation
Indices: 21947792--21947826 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
21947782 AAATGTGGTT
21947792 TTAAATATTTAATTGTGC
1 TTAAATATTTAATTGTGC
21947810 TTAAA-ATTTAATTGTGC
1 TTAAATATTTAATTGTGC
21947827 CTATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (18 bp):
TTAAATATTTAATTGTGC
Found at i:21960721 original size:17 final size:18
Alignment explanation
Indices: 21960691--21960725 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21960681 AAATATTGTT
21960691 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
21960709 TTAAA-ATTTAATTGTGC
1 TTAAATATTCAATTGTGC
21960726 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:21964195 original size:14 final size:15
Alignment explanation
Indices: 21964172--21964212 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
21964162 TCAACCTTTA
21964172 TTTTAATTTTAT-AT
1 TTTTAATTTTATCAT
*
21964186 TTTTAGTTTTATCA-
1 TTTTAATTTTATCAT
21964200 TTTTAATGTTTAT
1 TTTTAAT-TTTAT
21964213 GAAGATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTAATTTTATCAT
Found at i:21964400 original size:35 final size:35
Alignment explanation
Indices: 21964268--21964400 Score: 131
Period size: 35 Copynumber: 3.8 Consensus size: 35
21964258 TTTAAATGAG
* * * * *
21964268 TATATCCCAATCTTTTTAAGGTTGCCTTAAATATA
1 TATATCCCAACCTTTTTAAGGTTGTCTTAGACAAA
* * * * *
21964303 TTTATCCCAACCTTTTTGAGGTTGCCTTAGACTAG
1 TATATCCCAACCTTTTTAAGGTTGTCTTAGACAAA
* *
21964338 TATATCTCAACCTTTTTAGGGTTGTCTTAGACAAA
1 TATATCCCAACCTTTTTAAGGTTGTCTTAGACAAA
* * *
21964373 TCTATCCCAACCTTTTTAAAGTCGTCTT
1 TATATCCCAACCTTTTTAAGGTTGTCTT
21964401 TGACTTGGGC
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (35 bp):
TATATCCCAACCTTTTTAAGGTTGTCTTAGACAAA
Found at i:21966492 original size:6 final size:6
Alignment explanation
Indices: 21966481--21966509 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21966471 TAATAAAACA
21966481 AATGGG AATGGG AATGGG AATGGG AATGG
1 AATGGG AATGGG AATGGG AATGGG AATGG
21966510 TAGTGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
AATGGG
Found at i:21969082 original size:29 final size:30
Alignment explanation
Indices: 21969016--21969082 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
21969006 AAATATATTT
*
21969016 TTAT-ATTTTTATAATTTTTAAAGGTTAAA
1 TTATAATTTTTATAATTTTTAAAGGTCAAA
* *
21969045 TTA-ATTTTTTATCATTTTTAAA-GTCAAA
1 TTATAATTTTTATAATTTTTAAAGGTCAAA
21969073 TTATAATTTT
1 TTATAATTTT
21969083 AGCGTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (30 bp):
TTATAATTTTTATAATTTTTAAAGGTCAAA
Done.