Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 173 of 185
Found at i:51920652 original size:6 final size:6
Alignment explanation
Indices: 51920641--51920675 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
51920631 ACAATATTTT
*
51920641 TTAAAA TTAAAA TTAAAA TGAAAA TTAAATA TTAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAA-A TTAA
51920676 TTTAATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (6 bp):
TTAAAA
Found at i:51928959 original size:3 final size:3
Alignment explanation
Indices: 51928951--51928980 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
51928941 ATTAATCTTG
*
51928951 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51928981 ACCTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51929100 original size:26 final size:26
Alignment explanation
Indices: 51929060--51929111 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
51929050 ACATAGATAT
**
51929060 TTTTTTTATTTTTATAATTTTATTTA
1 TTTTTTTATAATTATAATTTTATTTA
**
51929086 TTTTTTTATAATTATTGTTTTATTTA
1 TTTTTTTATAATTATAATTTTATTTA
51929112 ATATTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTTTATAATTATAATTTTATTTA
Found at i:51930817 original size:29 final size:28
Alignment explanation
Indices: 51930778--51930835 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
51930768 AATAAACACT
*
51930778 AAAAATTTATTTTAAAAATAAAAAAATAA
1 AAAAATGTATTTTAAAAAT-AAAAAATAA
51930807 AAAAATGTATTTTAAAAATAAAAAATAA
1 AAAAATGTATTTTAAAAATAAAAAATAA
51930835 A
1 A
51930836 TATTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATGTATTTTAAAAATAAAAAATAA
Found at i:51930841 original size:21 final size:21
Alignment explanation
Indices: 51930799--51930840 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51930789 TTAAAAATAA
**
51930799 AAAAATAAAAAAATGTATTTT
1 AAAAATAAAAAAAAATATTTT
51930820 AAAAATAAAAAATAAATATTT
1 AAAAATAAAAAA-AAATATTT
51930841 ATTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATAAAAAAAAATATTTT
Found at i:51933558 original size:16 final size:15
Alignment explanation
Indices: 51933510--51933560 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
51933500 TATTATTTTC
51933510 CTATTATTTATTATA
1 CTATTATTTATTATA
*
51933525 CTATT-TTT-TTACA
1 CTATTATTTATTATA
51933538 CTATTATTTATTATA
1 CTATTATTTATTATA
51933553 CTTATTAT
1 C-TATTAT
51933561 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:51945419 original size:14 final size:14
Alignment explanation
Indices: 51945400--51945426 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51945390 TAATGTTACT
51945400 ATTTTTTTATTATC
1 ATTTTTTTATTATC
51945414 ATTTTTTTATTAT
1 ATTTTTTTATTAT
51945427 TTTCCTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTTTATTATC
Found at i:51945479 original size:16 final size:15
Alignment explanation
Indices: 51945431--51945481 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
51945421 TATTATTTTC
51945431 CTATTATTTATTATA
1 CTATTATTTATTATA
*
51945446 CTATT-TTT-TTACA
1 CTATTATTTATTATA
51945459 CTATTATTTATTATA
1 CTATTATTTATTATA
51945474 CTTATTAT
1 C-TATTAT
51945482 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 10 0.32
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
CTATTATTTATTATA
Found at i:51948318 original size:24 final size:24
Alignment explanation
Indices: 51948291--51948337 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51948281 AATAAAATGG
*
51948291 GTGTAGCTAGTCTATATTGGTTAC
1 GTGTAGCTAGTCTACATTGGTTAC
51948315 GTGTAGCTAGTCTACATTGGTTA
1 GTGTAGCTAGTCTACATTGGTTA
51948338 TCTTTCGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (24 bp):
GTGTAGCTAGTCTACATTGGTTAC
Found at i:51951565 original size:20 final size:19
Alignment explanation
Indices: 51951533--51951577 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
51951523 TCACTTAAAT
*
51951533 AAATAATTTAAAATTTATAA
1 AAAT-ATTTAAAAATTATAA
*
51951553 AAATATTTAAAAAATTATTA
1 AAATATTT-AAAAATTATAA
51951573 AAATA
1 AAATA
51951578 AAATAATAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTTAAAAATTATAA
Found at i:51957873 original size:2 final size:2
Alignment explanation
Indices: 51957866--51957895 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51957856 GATACTTGTG
51957866 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51957896 TATTAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:51964039 original size:20 final size:19
Alignment explanation
Indices: 51963979--51964039 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
51963969 ATCAACAAAT
* *
51963979 AATTTAAAAATTATAAAAC
1 AATTCAAAAATTATAAAAA
* *
51963998 TATTCAAAAA-AATAAGAAAA
1 AATTCAAAAATTAT-A-AAAA
51964018 AATTCAAAAATTATAAAGAA
1 AATTCAAAAATTATAAA-AA
51964038 AA
1 AA
51964040 ATAACATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 17 0.53
21 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (19 bp):
AATTCAAAAATTATAAAAA
Found at i:51964300 original size:18 final size:18
Alignment explanation
Indices: 51964277--51964311 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51964267 AAATGTAATT
51964277 TATCAAATAAACTTTAAG
1 TATCAAATAAACTTTAAG
* *
51964295 TATCAAGTAATCTTTAA
1 TATCAAATAAACTTTAA
51964312 CCAAGAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (18 bp):
TATCAAATAAACTTTAAG
Found at i:51970695 original size:14 final size:14
Alignment explanation
Indices: 51970676--51970703 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51970666 TCCCTTCCTT
51970676 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
51970690 CCTTCTACCTTCTG
1 CCTTCTACCTTCTG
51970704 TCGATTTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.43, G:0.07, T:0.43
Consensus pattern (14 bp):
CCTTCTACCTTCTG
Found at i:51970758 original size:5 final size:5
Alignment explanation
Indices: 51970748--51970774 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51970738 GCTCCATCTG
51970748 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
51970775 CGATTTGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:51971409 original size:17 final size:16
Alignment explanation
Indices: 51971389--51971420 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
51971379 CCGTTTTCAT
51971389 TTTCTTTTACTTTTATA
1 TTTCTTTTA-TTTTATA
51971406 TTTCTTTTATTTTAT
1 TTTCTTTTATTTTAT
51971421 TCATTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:51974201 original size:21 final size:21
Alignment explanation
Indices: 51974159--51974218 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
51974149 ATACTAAGAA
51974159 TTTTATTAAATTATA--T-AT
1 TTTTATTAAATTATATTTAAT
*
51974177 TTTTGTTAAATTATATTTAAT
1 TTTTATTAAATTATATTTAAT
51974198 TTTTATTAAATTATATTTAAT
1 TTTTATTAAATTATATTTAAT
51974219 AATAATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 14 0.38
20 1 0.03
21 22 0.59
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTATTAAATTATATTTAAT
Found at i:51974226 original size:21 final size:21
Alignment explanation
Indices: 51974182--51974226 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
51974172 TATATTTTTG
** *
51974182 TTAAATTATATTTAATTTTTA
1 TTAAATTATATTTAATAATAA
51974203 TTAAATTATATTTAATAATAA
1 TTAAATTATATTTAATAATAA
51974224 TTA
1 TTA
51974227 TGTTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAATTATATTTAATAATAA
Found at i:51977580 original size:111 final size:110
Alignment explanation
Indices: 51977427--51977889 Score: 554
Period size: 109 Copynumber: 4.1 Consensus size: 110
51977417 TACGAAAGAA
* * **
51977427 AAAAAACAAAAAAAAAAATTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
1 AAAAAA-ATAAAAAAAAA--TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
***** * * *
51977492 CAAAATTTTTTTTTGTTTTTTTTTGTGTCAGAATCAGATTTAAAAATACG
63 CAAAA-AAAAATTTATTTTTTTTCGTGTCAGAATCAGA-TAAAAAATACG
***** *
51977542 AAAAAAAT-AAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-CA
*
51977606 GAAAAAAAATTTTTTATTTTTTTCGTGTCAGAATCAGATTAAAAAAATACG
65 -AAAAAAAA-TTTAT-TTTTTTTCGTGTCAGAATCAGA-T-AAAAAATACG
*
51977657 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTACACAGTA-CAA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAA
*
51977721 AAAAAAATTTATTTTTTTTCGTGTAAGAATCAGATAAAAAATACG
66 AAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* * * * * *
51977766 AAAAAATTAAAAAAAAAATTTAGGTGCTCGCCTGTCAATGGCCGGCACCCAGTGCACAGTA-CGA
1 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAA
51977830 AAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
66 AAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
51977875 AAAAAAAATAAAAAA
1 -AAAAAAATAAAAAA
51977890 TTTTTTTCTT
Statistics
Matches: 305, Mismatches: 36, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
109 111 0.36
110 14 0.05
111 63 0.21
112 5 0.02
113 18 0.06
114 25 0.08
115 23 0.08
116 46 0.15
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (110 bp):
AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAA
AAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:51977995 original size:107 final size:102
Alignment explanation
Indices: 51977884--51978276 Score: 446
Period size: 107 Copynumber: 3.8 Consensus size: 102
51977874 GAAAAAAAAT
* *
51977884 AAAAAATTTTTTTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCAATTTTT
1 AAAAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA-----
**
51977949 TTTTTAATTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAA
61 AATTT--TTTTTTTCGTATTTTTTTATCTGATTCTGACACG-AAA
*
51977993 AAATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCTAAAATT
1 AAA-AAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
*
51978058 TTTTTTTTCGTATTTTTTTATTTGATTCTGACACGAAAAA
65 TTTTTTTTCGTATTTTTTTATCTGATTCTGACACG--AAA
*
51978098 AATTAAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCAAAA
1 AA--AAAA-TTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* ** *
51978163 -ATTTTTTTTCGTATTTTTAAATCTAATTCTGACAC-AAA
63 TTTTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAA
* **
51978201 AAAAAA------T-TTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
1 AAAAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
* *
51978259 TTTTTTTTGTTTTTTTTT
66 TTTTTTTCGTATTTTTTT
51978277 CGTATATCCG
Statistics
Matches: 255, Mismatches: 22, Indels: 29
0.83 0.07 0.09
Matches are distributed among these distances:
93 44 0.17
94 16 0.06
101 4 0.02
103 16 0.06
104 21 0.08
105 9 0.04
106 33 0.13
107 55 0.22
109 3 0.01
110 54 0.21
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.41
Consensus pattern (102 bp):
AAAAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
TTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAA
Found at i:51978017 original size:110 final size:104
Alignment explanation
Indices: 51977878--51978276 Score: 462
Period size: 110 Copynumber: 3.8 Consensus size: 104
51977868 AAATACGAAA
* * *
51977878 AAAAATAAAAAATTTTTTTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAACACCCA
1 AAAAA-AATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
**
51977943 ATTTTTTTTTTAATTTTTTTCGTA-TTTTTTATCTGATTCTGACACG
65 A-----AATTT--TTTTTTTCGTATTTTTTTATCTGATTCTGACACG
*
51977989 AAAAAAATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCTAA
1 AAAAAAATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
*
51978054 AATTTTTTTTTTCGTATTTTTTTATTTGATTCTGACACG
66 AATTTTTTTTTTCGTATTTTTTTATCTGATTCTGACACG
*
51978093 AAAAAAATTAAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGTCAGCACC
1 AAAAAAA-T-AAA-TTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
* ** *
51978158 CAAAA-ATTTTTTTTCGTATTTTTAAATCTAATTCTGACAC-
63 CAAAATTTTTTTTTTCGTATTTTTTTATCTGATTCTGACACG
* **
51978198 -AAAAAA-AAA------T-TTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
1 AAAAAAATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
* *
51978254 AATTTTTTTTTTTGTTTTTTTTT
66 AATTTTTTTTTTCGTATTTTTTT
51978277 CGTATATCCG
Statistics
Matches: 260, Mismatches: 23, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
93 44 0.17
94 16 0.06
101 3 0.01
103 11 0.04
104 34 0.13
105 4 0.02
106 33 0.13
107 54 0.21
110 56 0.22
111 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (104 bp):
AAAAAAATAAATTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAA
AATTTTTTTTTTCGTATTTTTTTATCTGATTCTGACACG
Found at i:51978215 original size:93 final size:97
Alignment explanation
Indices: 51977956--51978264 Score: 313
Period size: 93 Copynumber: 3.1 Consensus size: 97
51977946 TTTTTTTTAA
* * * *
51977956 TTTTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAATAAATTTTTTTCTTTGTACTGTGT
1 TTTTTTTCGTATTTTTAAATCTAATTCTGACAC--AAAAAATAAA----ATTCTTGGTACTGTGT
*
51978020 ACTGGGTGCCGGCCATTGACAGGCCAGCACCTAAAATTT
60 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TT
** * * *
51978059 TTTTTTTCGTATTTTTTTATTTGATTCTGACACGAAAAAAATTAAAATTTTTTTTCTTTGTACTG
1 TTTTTTTCGTATTTTTAAATCTAATTCTGACAC--AAAAAA-TAAAA------TTCTTGGTACTG
* *
51978124 TGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCAAAAAT
57 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
**
51978165 TTTTTTTCGTATTTTTAAATCTAATTCTGACAC-AAAAA-AAAA-T-TTGGTACTGTACACTGGG
1 TTTTTTTCGTATTTTTAAATCTAATTCTGACACAAAAAATAAAATTCTTGGTACTGTGTACTGGG
51978226 TGCCGGCCATTGACAGGCCAGCACCCAAAATT
66 TGCCGGCCATTGACAGGCCAGCACCCAAAATT
51978258 TTTTTTT
1 TTTTTTT
51978265 TTGTTTTTTT
Statistics
Matches: 184, Mismatches: 14, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
93 52 0.28
94 1 0.01
101 4 0.02
103 21 0.11
104 23 0.12
105 4 0.02
106 30 0.16
107 49 0.27
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (97 bp):
TTTTTTTCGTATTTTTAAATCTAATTCTGACACAAAAAATAAAATTCTTGGTACTGTGTACTGGG
TGCCGGCCATTGACAGGCCAGCACCCAAAATT
Found at i:51981360 original size:77 final size:77
Alignment explanation
Indices: 51981219--51981374 Score: 183
Period size: 77 Copynumber: 2.0 Consensus size: 77
51981209 GCTTATTTTA
* * *
51981219 ATTGTTATCTTTGTAGTTGCCTCGGACCAACGGCAACTTTTCACCTTATTTTTTTCAAGG-TTTT
1 ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGCAACTTTT-ACCTTATTTCTTTCAAGGTTTTT
51981283 TAGAGGTTTTCTC
65 TAGAGGTTTTCTC
* * * *
51981296 ATTGTTATCTTTCTAGTTGCCTTAGATCAACGTCAAACTTTT-CGTT-TCTTCTTTCAAGGTTTT
1 ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGC-AACTTTTACCTTAT-TTCTTTCAAGG--TT
51981359 TTTTAGAGGTTTTCTC
62 TTTTAGAGGTTTTCTC
51981375 TAATCTCGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
75 1 0.01
76 13 0.19
77 29 0.43
78 7 0.10
79 17 0.25
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (77 bp):
ATTGTTATCTTTCTAGTTGCCTCAGACCAACGGCAACTTTTACCTTATTTCTTTCAAGGTTTTTT
AGAGGTTTTCTC
Found at i:51990978 original size:13 final size:14
Alignment explanation
Indices: 51990960--51990988 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51990950 ATATAGTAAT
51990960 ATATT-ATTAAATG
1 ATATTAATTAAATG
51990973 ATATTAATTAAATG
1 ATATTAATTAAATG
51990987 AT
1 AT
51990989 TAATATCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
ATATTAATTAAATG
Found at i:51993619 original size:31 final size:30
Alignment explanation
Indices: 51993556--51993630 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 30
51993546 TATAAGTTAA
* ** *
51993556 GTACCAACTAGGTACTAAAAAAAAGTTTAG
1 GTACCAACTAAGTAAAAAAAAAAAGTTCAG
*
51993586 GTATCAACTAAGTAAAAAAAAGAAAGTTCAG
1 GTACCAACTAAGTAAAAAAAA-AAAGTTCAG
51993617 GTACCAACTAAGTA
1 GTACCAACTAAGTA
51993631 CTTTTAGACA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
30 17 0.45
31 21 0.55
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (30 bp):
GTACCAACTAAGTAAAAAAAAAAAGTTCAG
Found at i:52004411 original size:12 final size:12
Alignment explanation
Indices: 52004394--52004418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52004384 GGCTTAGGCT
52004394 TCCTGCCTAATC
1 TCCTGCCTAATC
52004406 TCCTGCCTAATC
1 TCCTGCCTAATC
52004418 T
1 T
52004419 TTTCTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.40, G:0.08, T:0.36
Consensus pattern (12 bp):
TCCTGCCTAATC
Found at i:52021088 original size:30 final size:30
Alignment explanation
Indices: 52021033--52021111 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
52021023 GTTGATGTGA
*
52021033 AGAGCTTAATTAATTTTCT--TTATTTTAGG
1 AGAGCTTAATTGATTTT-TAATTATTTTAGG
*
52021062 AGGGCTTAATTGATTTTTAATTATTTTAGG
1 AGAGCTTAATTGATTTTTAATTATTTTAGG
52021092 AGAGCTTAATTGATTTTTAA
1 AGAGCTTAATTGATTTTTAA
52021112 GGATTATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 15 0.33
30 29 0.64
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.49
Consensus pattern (30 bp):
AGAGCTTAATTGATTTTTAATTATTTTAGG
Found at i:52021417 original size:30 final size:30
Alignment explanation
Indices: 52021371--52021443 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
52021361 AAATAATGAT
*
52021371 AAAA-AATTAGAAATGATAGAAAAT-TATATA
1 AAAATAATTA-AAATGATAAAAAATCTATA-A
52021401 AAAATAATTAAAATGATAAAAAATCTATAA
1 AAAATAATTAAAATGATAAAAAATCTATAA
* *
52021431 AAATTAATAAAAA
1 AAAATAATTAAAA
52021444 GTTATAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.26
Consensus pattern (30 bp):
AAAATAATTAAAATGATAAAAAATCTATAA
Found at i:52021449 original size:20 final size:19
Alignment explanation
Indices: 52021390--52021450 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
52021380 GAAATGATAG
* *
52021390 AAAATTATATAAAAATAATT
1 AAAATTA-ATAAAAATTATA
*
52021410 AAAA-TGATAAAAAATCTATA
1 AAAATTAAT-AAAAAT-TATA
52021430 AAAATTAATAAAAAGTTATA
1 AAAATTAATAAAAA-TTATA
52021450 A
1 A
52021451 GAACTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 20 0.61
21 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTAATAAAAATTATA
Found at i:52021858 original size:20 final size:20
Alignment explanation
Indices: 52021833--52021872 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52021823 TAAAATACAA
52021833 GTTATAAAAAATTATTAAAT
1 GTTATAAAAAATTATTAAAT
52021853 GTTATAAAAAATTATTAAAT
1 GTTATAAAAAATTATTAAAT
52021873 TATTGCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
GTTATAAAAAATTATTAAAT
Found at i:52023522 original size:2 final size:2
Alignment explanation
Indices: 52023515--52023544 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52023505 CACATCCTGT
52023515 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
52023545 AAAAAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:52026677 original size:29 final size:26
Alignment explanation
Indices: 52026623--52026681 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
52026613 ATCCCTTTTT
52026623 TTTTTTAAATTTACCGAAATAAGCCA
1 TTTTTTAAATTTACCGAAATAAGCCA
* **
52026649 CTTTTTTAATTATTTACCGGAATGGGCCA
1 -TTTTTTAA--ATTTACCGAAATAAGCCA
52026678 TTTT
1 TTTT
52026682 CCGCGAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (26 bp):
TTTTTTAAATTTACCGAAATAAGCCA
Found at i:52064255 original size:14 final size:14
Alignment explanation
Indices: 52064236--52064275 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
52064226 TTGATTGCCA
52064236 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
52064250 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
52064264 GGAAAATGTTTT
1 GTAAAATGTTTT
52064276 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:52064284 original size:20 final size:20
Alignment explanation
Indices: 52064259--52064298 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
52064249 CGTAAAATGA
*
52064259 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
52064279 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
52064299 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:52064288 original size:34 final size:35
Alignment explanation
Indices: 52064244--52064310 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
52064234 CAGTAAAATG
*
52064244 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
52064278 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
52064311 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:52067130 original size:18 final size:18
Alignment explanation
Indices: 52067107--52067159 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
52067097 ATTTGAAGGA
52067107 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
*** *
52067125 ATGAAGGGAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
52067143 ATGAAGGGAGAAGAATG
1 ATGAAGGGAGAAGAATG
52067160 CCTGAAAGCT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.42, T:0.15
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:52083466 original size:31 final size:30
Alignment explanation
Indices: 52083423--52083519 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 30
52083413 TATCAAAATT
* *
52083423 GTCACTTTTGTTTACCTCATGTTACATTTTA
1 GTCACTTATGTTTA-CTAATGTTACATTTTA
52083454 GTCACTTATGTTTGA--AATGTTACATTTTA
1 GTCACTTATGTTT-ACTAATGTTACATTTTA
* ** *
52083483 GTCACTTATGTTAACGTGTTGTAACATTTTA
1 GTCACTTATGTTTAC-TAATGTTACATTTTA
52083514 GTCACT
1 GTCACT
52083520 GAGCCGTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 25 0.45
31 29 0.52
32 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.47
Consensus pattern (30 bp):
GTCACTTATGTTTACTAATGTTACATTTTA
Found at i:52092896 original size:23 final size:23
Alignment explanation
Indices: 52092869--52092912 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
52092859 AATGTTGTTG
52092869 AAAGAAGTAATTATAAATTCTGA
1 AAAGAAGTAATTATAAATTCTGA
52092892 AAAGAAGTAATTATAAATTCT
1 AAAGAAGTAATTATAAATTCT
52092913 TAGTACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (23 bp):
AAAGAAGTAATTATAAATTCTGA
Found at i:52094623 original size:253 final size:253
Alignment explanation
Indices: 52094175--52094681 Score: 1014
Period size: 253 Copynumber: 2.0 Consensus size: 253
52094165 CGGGATCATT
52094175 CTTGCCTCCACCTGCACCGCCGGCTGCTACGGGGATAACCATATATTTGGCTGGCGGACAAGGCC
1 CTTGCCTCCACCTGCACCGCCGGCTGCTACGGGGATAACCATATATTTGGCTGGCGGACAAGGCC
52094240 AAGTTGTGGGCGGTAGTGTTGTTGGGACACTCACTTGTTCAGGCCCGGTTGTGATTATGGCAGCT
66 AAGTTGTGGGCGGTAGTGTTGTTGGGACACTCACTTGTTCAGGCCCGGTTGTGATTATGGCAGCT
52094305 TCTTTTAGTAACGCCGCATATGAGCGGCTTCCATTGGAAGAAGAAGATGAAGGACAGCTTCCAGT
131 TCTTTTAGTAACGCCGCATATGAGCGGCTTCCATTGGAAGAAGAAGATGAAGGACAGCTTCCAGT
52094370 GCAAGGGGATGGAATTGGATCACCCGCTGCAGTTGGAGGGCAACAACAGCAGCAGCAG
196 GCAAGGGGATGGAATTGGATCACCCGCTGCAGTTGGAGGGCAACAACAGCAGCAGCAG
52094428 CTTGCCTCCACCTGCACCGCCGGCTGCTACGGGGATAACCATATATTTGGCTGGCGGACAAGGCC
1 CTTGCCTCCACCTGCACCGCCGGCTGCTACGGGGATAACCATATATTTGGCTGGCGGACAAGGCC
52094493 AAGTTGTGGGCGGTAGTGTTGTTGGGACACTCACTTGTTCAGGCCCGGTTGTGATTATGGCAGCT
66 AAGTTGTGGGCGGTAGTGTTGTTGGGACACTCACTTGTTCAGGCCCGGTTGTGATTATGGCAGCT
52094558 TCTTTTAGTAACGCCGCATATGAGCGGCTTCCATTGGAAGAAGAAGATGAAGGACAGCTTCCAGT
131 TCTTTTAGTAACGCCGCATATGAGCGGCTTCCATTGGAAGAAGAAGATGAAGGACAGCTTCCAGT
52094623 GCAAGGGGATGGAATTGGATCACCCGCTGCAGTTGGAGGGCAACAACAGCAGCAGCAG
196 GCAAGGGGATGGAATTGGATCACCCGCTGCAGTTGGAGGGCAACAACAGCAGCAGCAG
52094681 C
1 C
52094682 AGCAGCAGCA
Statistics
Matches: 254, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 254 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.22
Consensus pattern (253 bp):
CTTGCCTCCACCTGCACCGCCGGCTGCTACGGGGATAACCATATATTTGGCTGGCGGACAAGGCC
AAGTTGTGGGCGGTAGTGTTGTTGGGACACTCACTTGTTCAGGCCCGGTTGTGATTATGGCAGCT
TCTTTTAGTAACGCCGCATATGAGCGGCTTCCATTGGAAGAAGAAGATGAAGGACAGCTTCCAGT
GCAAGGGGATGGAATTGGATCACCCGCTGCAGTTGGAGGGCAACAACAGCAGCAGCAG
Found at i:52105775 original size:33 final size:32
Alignment explanation
Indices: 52105679--52105792 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
52105669 CTTAAATAAC
*
52105679 ATTTGGTACCTGAAA-TTGATATATTTTTTCCCTA
1 ATTTGGTACCT-AAACTTGAT-T-TTTTTTTCCTA
* **
52105713 ATTTGGTACTTAAAC-T--TTTTTTGGT-CTA
1 ATTTGGTACCTAAACTTGATTTTTTTTTCCTA
52105741 ATTTGGTACCTAAACTTGACTTTTTTTTTCCTA
1 ATTTGGTACCTAAACTTGA-TTTTTTTTTCCTA
*
52105774 ATTTGATACCTAAACTTGA
1 ATTTGGTACCTAAACTTGA
52105793 CACTTTTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
28 17 0.26
29 5 0.08
30 1 0.02
31 1 0.02
32 7 0.11
33 25 0.38
34 10 0.15
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.48
Consensus pattern (32 bp):
ATTTGGTACCTAAACTTGATTTTTTTTTCCTA
Found at i:52105800 original size:33 final size:33
Alignment explanation
Indices: 52105738--52105800 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
52105728 TTTTTTTGGT
* **
52105738 CTAATTTGGTACCTAAACTTGACTTTTTTTTTC
1 CTAATTTGATACCTAAACTTGACACTTTTTTTC
52105771 CTAATTTGATACCTAAACTTGACACTTTTT
1 CTAATTTGATACCTAAACTTGACACTTTTT
52105801 CTTAAGTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (33 bp):
CTAATTTGATACCTAAACTTGACACTTTTTTTC
Found at i:52105811 original size:31 final size:32
Alignment explanation
Indices: 52105738--52105813 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 32
52105728 TTTTTTTGGT
* * **
52105738 CTAATTTGGTACCTAAACTTGACTTTTTTTTTC
1 CTAAGTTGATACCTAAACTTGAC-TACTTTTTC
*
52105771 CTAATTTGATACCTAAACTTGAC-ACTTTTTC
1 CTAAGTTGATACCTAAACTTGACTACTTTTTC
*
52105802 TTAAGTTGATAC
1 CTAAGTTGATAC
52105814 TTAATCTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 16 0.42
33 22 0.58
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.46
Consensus pattern (32 bp):
CTAAGTTGATACCTAAACTTGACTACTTTTTC
Found at i:52106328 original size:60 final size:57
Alignment explanation
Indices: 52106247--52106396 Score: 185
Period size: 59 Copynumber: 2.5 Consensus size: 57
52106237 ATTGAACTAA
*
52106247 AAAAAAATTTAGGTACCAAATTAGGAAAAAATTATCAAGTTCAGGCAT-CAAATTGGGGCC
1 AAAAAAATTTAGGTACCAAATTA-GAAAAAATTATCAAGTTCA--CATACAAATT-GGGAC
* * *
52106307 CAAAAAATTTAGGTACCAAATTAGAAAAAAGTGTCAAGTTCACATACCAAATTGGGAC
1 AAAAAAATTTAGGTACCAAATTAGAAAAAATTATCAAGTTCACATA-CAAATTGGGAC
* *
52106365 AAAAAAATTTTAAGTACCAAATTAAAAAAAAT
1 AAAAAAA-TTTAGGTACCAAATTAGAAAAAAT
52106397 CAAATTTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.04
58 10 0.13
59 44 0.56
60 22 0.28
ACGTcount: A:0.50, C:0.13, G:0.14, T:0.23
Consensus pattern (57 bp):
AAAAAAATTTAGGTACCAAATTAGAAAAAATTATCAAGTTCACATACAAATTGGGAC
Found at i:52106903 original size:15 final size:15
Alignment explanation
Indices: 52106868--52106897 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52106858 AAATTTATAA
52106868 AATATTTTTTATTTT
1 AATATTTTTTATTTT
*
52106883 AATATTTTTTGTTTT
1 AATATTTTTTATTTT
52106898 TGTATTGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
AATATTTTTTATTTT
Found at i:52107325 original size:19 final size:19
Alignment explanation
Indices: 52107291--52107327 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52107281 AAAATAAAAA
* *
52107291 AAAATATTTTTTAAATTTT
1 AAAATATTTATAAAATTTT
52107310 AAAATATTTATAAAATTT
1 AAAATATTTATAAAATTT
52107328 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATATTTATAAAATTTT
Found at i:52112741 original size:30 final size:29
Alignment explanation
Indices: 52112695--52112761 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
52112685 AGAAATTATA
*
52112695 AATTGATTTTTCTATTATTTTATAAGCGTTT
1 AATTGATTTTTCTATTATTTT-TAA-AGTTT
*
52112726 AATT-ATTTTTTTATTATTTTTAAAGTTT
1 AATTGATTTTTCTATTATTTTTAAAGTTT
52112754 AATTGATT
1 AATTGATT
52112762 GTTTAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 8 0.24
29 6 0.18
30 15 0.45
31 4 0.12
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.61
Consensus pattern (29 bp):
AATTGATTTTTCTATTATTTTTAAAGTTT
Found at i:52114086 original size:16 final size:17
Alignment explanation
Indices: 52114065--52114100 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
52114055 TCTACTTCAA
*
52114065 TATTTTTTGAAT-TTTT
1 TATTTTTTAAATATTTT
52114081 TATTTTTTAAATATTTT
1 TATTTTTTAAATATTTT
52114098 TAT
1 TAT
52114101 AATTTGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTTTTAAATATTTT
Found at i:52114110 original size:19 final size:19
Alignment explanation
Indices: 52114075--52114116 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
52114065 TATTTTTTGA
* *
52114075 ATTTTTTATTTTTTAAA-T
1 ATTTTTTAATTTGTAAATT
52114093 ATTTTTATAATTTGTAAATT
1 ATTTTT-TAATTTGTAAATT
52114113 ATTT
1 ATTT
52114117 GTTGATGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 9 0.45
20 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTAATTTGTAAATT
Found at i:52115800 original size:25 final size:25
Alignment explanation
Indices: 52115771--52115834 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
52115761 TATATATATC
**
52115771 TAAATACATATTTATTTA-ATTTTCA
1 TAAATACATATACATTTACATTTT-A
*
52115796 TAAATATATATACATTTACATTTTA
1 TAAATACATATACATTTACATTTTA
52115821 T-AATACATATACAT
1 TAAATACATATACAT
52115835 CTTCCACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.35
25 17 0.50
26 5 0.15
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (25 bp):
TAAATACATATACATTTACATTTTA
Found at i:52115961 original size:30 final size:30
Alignment explanation
Indices: 52115908--52115966 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
52115898 TTTAAAATTA
*
52115908 TTATAAATATATATTTCATTATATATATAC
1 TTATAAATATATATTTCAATATATATATAC
* * * *
52115938 TTATATATATGTATTTTAATATATGTATA
1 TTATAAATATATATTTCAATATATATATA
52115967 TACATATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
TTATAAATATATATTTCAATATATATATAC
Found at i:52116010 original size:19 final size:17
Alignment explanation
Indices: 52115987--52116034 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
52115977 CAAAATTTAC
52115987 TTATATATAT-CATACTT
1 TTATATATATACATA-TT
52116004 TTATATATATACATATT
1 TTATATATATACATATT
*
52116021 TTGTA-A-ATACATAT
1 TTATATATATACATAT
52116035 ACATATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 16 0.55
18 4 0.14
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (17 bp):
TTATATATATACATATT
Found at i:52127749 original size:45 final size:45
Alignment explanation
Indices: 52127684--52128250 Score: 456
Period size: 45 Copynumber: 12.8 Consensus size: 45
52127674 AACAGATCGG
* * * **
52127684 TGAAGATAACAAATCATATCTCCATGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * ** **
52127729 TGAAGATAGCAAGTCTTATCTCCCTGAAAATGCAGCAGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * **
52127774 TGAAGATAGCAAATCCTATCTACCTAAAGTTACAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
52127819 TGAAGATAGCAAGTCTTATCTCCCTGAGGTTGCAGCGGAGTAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
**
52127864 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * * *
52127909 TGAAAATAACAAGTCTTATCTCCCTAAAATTGCAGCGGAGCAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
52127954 TGAGGATAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
52127999 CGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
52128044 TGAAGA-A-AATAATCCTATCTTCCTGAAGTTGCAGTGGAGCTGAT
1 TGAAGATAGCA-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
52128088 T-AAAACT-GTAGATCTTATCTCTCTGAAGTTGCAGAGG-GCAGA-
1 TGAAGA-TAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
52128130 T-CACAT--CTAGTCTTATCTCCCTGAAGTTGCAGAT-GAGTAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAG-TGGAGCAGAT
* * * * *
52128172 TGAATA-AACCAAT-CTGATTTCCCTGAAAATTGCAGTGGAGCAGAT
1 TGAAGATAGCAAATCCT-ATCTCCCTG-AAGTTGCAGTGGAGCAGAT
* *
52128217 TGAAGATAACAAATCCTATCTCCATGAAGTTGCA
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCA
52128251 ATGTAGCATA
Statistics
Matches: 409, Mismatches: 98, Indels: 30
0.76 0.18 0.06
Matches are distributed among these distances:
40 22 0.05
41 5 0.01
42 4 0.01
43 11 0.03
44 66 0.16
45 286 0.70
46 13 0.03
47 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:52127804 original size:90 final size:90
Alignment explanation
Indices: 52127684--52128250 Score: 541
Period size: 90 Copynumber: 6.4 Consensus size: 90
52127674 AACAGATCGG
* * *
52127684 TGAAGATAACAAATCATATCTCCATGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
* *
52127749 TCCCTGAAAATGCAGCAGAGCAGAT
66 TCCCTGAAAATGCAGCGGAGCAGAC
* * *
52127774 TGAAGATAGCAAATCCTATCTACCTAAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
*** *
52127839 TCCCTGAGGTTGCAGCGGAGTAGAC
66 TCCCTGAAAATGCAGCGGAGCAGAC
* *
52127864 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAACAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
52127929 TCCCT-AAAATTGCAGCGGAGCAGAC
66 TCCCTGAAAA-TGCAGCGGAGCAGAC
* * * ** *
52127954 TGAGGATAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
** * *
52128019 TCCCTGAAGTTGCAGTGGAGCAGAT
66 TCCCTGAAAATGCAGCGGAGCAGAC
* * * *
52128044 TGAAGA-A-AATAATCCTATCTTCCTGAAGTTGCAGTGGAGCT-GATT-AAAACT-G-TAGATCT
1 TGAAGATAGCA-AATCCTATCTCCCTGAAGTTGCAGTGGAG-TGGATTGAAGA-TAGCAAG-TCT
* ** *
52128103 TATCTCTCTGAAGTTGCAGAGG-GCAGA-
62 TATCTCCCTGAAAATGCAGCGGAGCAGAC
* * * * * * * * * * *
52128130 T-CACAT--CTAGTCTTATCTCCCTGAAGTTGCAGAT-GAGTAGACTGAATAAACCAA-TCTGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAG-TGGAGTGGATTGAAGATAGCAAGTCTTAT
* * *
52128190 TTCCCTGAAAATTGCAGTGGAGCAGAT
65 CTCCCTGAAAA-TGCAGCGGAGCAGAC
* *
52128217 TGAAGATAACAAATCCTATCTCCATGAAGTTGCA
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCA
52128251 ATGTAGCATA
Statistics
Matches: 391, Mismatches: 68, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
83 1 0.00
84 39 0.10
85 13 0.03
86 7 0.02
87 8 0.02
88 31 0.08
89 32 0.08
90 258 0.66
91 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (90 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
TCCCTGAAAATGCAGCGGAGCAGAC
Found at i:52129991 original size:19 final size:17
Alignment explanation
Indices: 52129968--52130003 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
52129958 CAAAATTTAC
52129968 TTATATATAT-CATACTT
1 TTATATATATACATA-TT
52129985 TTATATATATACATATT
1 TTATATATATACATATT
52130002 TT
1 TT
52130004 GTAAATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATATACATATT
Found at i:52131351 original size:39 final size:40
Alignment explanation
Indices: 52131308--52131400 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
52131298 AAAAATTATA
* *
52131308 TTTAATAAAATAAAACATTTCTTATATTTAT-TTGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
* *
52131347 TTTAATATAACAAAACATTTATTATATTTATGATAGTGTTT
1 TTTAATAAAATAAAACATTTATTATATTTAT-ATAGTGTTT
52131388 TTTAATATAAATA
1 TTTAATA-AAATA
52131401 CTTTTTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 28 0.62
41 14 0.31
42 3 0.07
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATATTTATATAGTGTTT
Found at i:52133163 original size:9 final size:9
Alignment explanation
Indices: 52133132--52133180 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
52133122 CATTGTTAAG
52133132 TTAA-ATTT
1 TTAATATTT
52133140 TTAATATTT
1 TTAATATTT
*
52133149 AT-ATATTT
1 TTAATATTT
52133157 TTAATATTTT
1 TTAATA-TTT
*
52133167 TTGA-ATTT
1 TTAATATTT
52133175 TTAATA
1 TTAATA
52133181 AATTTAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 17 0.52
9 10 0.30
10 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTAATATTT
Found at i:52166326 original size:32 final size:32
Alignment explanation
Indices: 52166252--52166327 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
52166242 AATTAGAGGC
*
52166252 ATTGATAAATTTGACTTTCATTTTTATTTTCA
1 ATTGATAAATTTGACTTTCATTATTATTTTCA
*
52166284 ATATTA-AAATTTGACTTT-ATTATTATTATTCA
1 AT-TGATAAATTTGACTTTCATTATTATT-TTCA
52166316 ATTGATAAATTT
1 ATTGATAAATTT
52166328 TTACTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 10 0.26
32 26 0.68
33 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (32 bp):
ATTGATAAATTTGACTTTCATTATTATTTTCA
Found at i:52167390 original size:18 final size:19
Alignment explanation
Indices: 52167369--52167419 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
52167359 CAAGTAAAGA
52167369 GAGATGGAAGA-AGAGATG
1 GAGATGGAAGATAGAGATG
*
52167387 GAGATGG-AGATGGAGATG
1 GAGATGGAAGATAGAGATG
52167405 GAGATGG-AGATAGAG
1 GAGATGGAAGATAGAG
52167420 GCAGTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 3 0.10
18 27 0.90
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (19 bp):
GAGATGGAAGATAGAGATG
Found at i:52167392 original size:6 final size:6
Alignment explanation
Indices: 52167381--52167415 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
52167371 GATGGAAGAA
52167381 GAGATG GAGATG GAGATG GAGATG GAGATG GAGAT
1 GAGATG GAGATG GAGATG GAGATG GAGATG GAGAT
52167416 AGAGGCAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.49, T:0.17
Consensus pattern (6 bp):
GAGATG
Found at i:52172302 original size:18 final size:18
Alignment explanation
Indices: 52172261--52172302 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
52172251 GATAATTCTC
52172261 ATATTTTATTTTTAAAAT
1 ATATTTTATTTTTAAAAT
*
52172279 AAATTTTATTTTTAACAA-
1 ATATTTTATTTTTAA-AAT
52172297 ATATTT
1 ATATTT
52172303 AGATTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTTTATTTTTAAAAT
Found at i:52175737 original size:14 final size:14
Alignment explanation
Indices: 52175714--52175743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
52175704 AAAATGTTGG
*
52175714 TTAAATTTCTTATA
1 TTAAACTTCTTATA
52175728 TTAAACTTCTTATA
1 TTAAACTTCTTATA
52175742 TT
1 TT
52175744 GATTGCAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAACTTCTTATA
Found at i:52185416 original size:38 final size:38
Alignment explanation
Indices: 52185373--52185449 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
52185363 TTAGAAATTA
*
52185373 TTTTCACATTAAAATTATAATTTATTT-TTCAAATTAAT
1 TTTTCACATTAAAATTAGAATTT-TTTATTCAAATTAAT
*
52185411 TTTTCATATTAAAATTAGAATTTTTTCATTCAAATTAAT
1 TTTTCACATTAAAATTAGAATTTTTT-ATTCAAATTAAT
52185450 CCTTGATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
37 3 0.09
38 21 0.60
39 11 0.31
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (38 bp):
TTTTCACATTAAAATTAGAATTTTTTATTCAAATTAAT
Found at i:52198665 original size:46 final size:46
Alignment explanation
Indices: 52198558--52198713 Score: 255
Period size: 46 Copynumber: 3.5 Consensus size: 46
52198548 TACGTATGAT
* *
52198558 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52198601 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
52198647 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
52198693 CACTTATCACTTTATCACTTG
1 CACTTATCACTTTGTCACTTG
52198714 TCACTGATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 10 0.10
44 4 0.04
45 20 0.19
46 71 0.68
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:52199208 original size:140 final size:140
Alignment explanation
Indices: 52198946--52199225 Score: 472
Period size: 140 Copynumber: 2.0 Consensus size: 140
52198936 TTTTTCTCGA
* * *
52198946 CTTGTTTCGAGTTCTGGATCTAAAATGCAAATTTATTCATTCATCAGCATCTAATTCTATTCTAA
1 CTTGCTTCGAGTTCTCGATCTAAAATGCAAATTTATTCATTCATCAGCATATAATTCTATTCTAA
**
52199011 TTCATTTCACAATTTATGCCCTTAAATTTTTGAAATTACACTTTTACCCTAAACTTTACAATTTT
66 TTCATTTCACAATTTATGCCCTTAAATTTTCAAAATTACACTTTTACCCTAAACTTTACAATTTT
52199076 TACAATTTGG
131 TACAATTTGG
*
52199086 CTTGCTTCGGGTTCTCGATCTAAAATGCAAATTTATTCATTCATCAGCATATAATTCTATTCTAA
1 CTTGCTTCGAGTTCTCGATCTAAAATGCAAATTTATTCATTCATCAGCATATAATTCTATTCTAA
* *
52199151 TTCATTTCACAATTTCTGCCCTTAAATTTTCAAAATTACACTTTTA-CCTCAAACTTTACAGTTT
66 TTCATTTCACAATTTATGCCCTTAAATTTTCAAAATTACACTTTTACCCT-AAACTTTACAATTT
52199215 TTACAATTTGG
130 TTACAATTTGG
52199226 TCCCTACTCA
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
139 3 0.02
140 128 0.98
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (140 bp):
CTTGCTTCGAGTTCTCGATCTAAAATGCAAATTTATTCATTCATCAGCATATAATTCTATTCTAA
TTCATTTCACAATTTATGCCCTTAAATTTTCAAAATTACACTTTTACCCTAAACTTTACAATTTT
TACAATTTGG
Found at i:52199378 original size:20 final size:20
Alignment explanation
Indices: 52199353--52199395 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
52199343 CCAACTTTTT
52199353 TCACAATTAGGTCCCTAAAA
1 TCACAATTAGGTCCCTAAAA
52199373 TCACAATTAGGTCCCTAAAA
1 TCACAATTAGGTCCCTAAAA
52199393 TCA
1 TCA
52199396 ATTTCTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (20 bp):
TCACAATTAGGTCCCTAAAA
Found at i:52216063 original size:66 final size:66
Alignment explanation
Indices: 52215952--52216148 Score: 340
Period size: 66 Copynumber: 3.0 Consensus size: 66
52215942 TTTCCATTTT
*
52215952 AGAGGGCACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
52216017 A
66 A
52216018 AGAGAGCACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
52216083 A
66 A
* * * *
52216084 AGAGAGCACACTCCCGCGAACCTTATTCCTTATAGAGGGATTACCAGTCCAAGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTG
52216149 TAATATAAAC
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 89 0.71
67 36 0.29
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
A
Found at i:52216364 original size:57 final size:56
Alignment explanation
Indices: 52216275--52216382 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 56
52216265 AATTCGGATT
* *
52216275 ACCCGTCCGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCGTCCGAGCTAAATCCATTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
* **
52216331 ACCCGTCCGAGCTAGATCTTTTTCACACATATTCTTCAGGAGGGCTATATCA
1 ACCCGTCCGAGCTAAATCCATTTC-CACATATTCTTCAGGAGGGCTATATCA
52216383 GGATAGGATC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 20 0.43
57 26 0.57
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (56 bp):
ACCCGTCCGAGCTAAATCCATTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
Found at i:52217020 original size:14 final size:14
Alignment explanation
Indices: 52217001--52217028 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52216991 GATACCAATA
52217001 AATGTAACACCCCT
1 AATGTAACACCCCT
52217015 AATGTAACACCCCT
1 AATGTAACACCCCT
52217029 TACTCGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (14 bp):
AATGTAACACCCCT
Found at i:52218755 original size:30 final size:29
Alignment explanation
Indices: 52218721--52218785 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
52218711 TAATCCACCA
52218721 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
52218751 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
52218781 CCCAA
1 CCCAA
52218786 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:52218759 original size:31 final size:30
Alignment explanation
Indices: 52218728--52218785 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
52218718 CCACCCAACT
52218728 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
52218758 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
52218786 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:52221656 original size:46 final size:46
Alignment explanation
Indices: 52221501--52221779 Score: 427
Period size: 46 Copynumber: 6.0 Consensus size: 46
52221491 ACAATACTAT
* * *
52221501 AACTTAGTATGATTTTCTTTACTGAAATACCATACCTACCTTTTCA-
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTA-CTTTTCAC
52221547 ACACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTTCA-
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAC-TTTTCAC
* *
52221594 ACACTGAGTATGGTTTTCTTTATTGAAATACCATACCTACATTTCAC
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
*
52221641 AAATCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
52221687 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* * *
52221733 AACTCGGTATGGTTTTCTTTATTGAAATACCATGCCTACTTTACAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
52221779 A
1 A
52221780 CTTTGCCATG
Statistics
Matches: 218, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 138 0.63
47 80 0.37
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
Found at i:52221895 original size:31 final size:31
Alignment explanation
Indices: 52221860--52221923 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
52221850 TACGTATTTC
52221860 TTAATTTGAACTTACAAAGTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
*
52221891 TTAATTTGAACTTACAAATTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
52221922 TT
1 TT
52221924 TTACCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (31 bp):
TTAATTTGAACTTACAAAGTGATTTTCACAT
Found at i:52226186 original size:363 final size:364
Alignment explanation
Indices: 52225441--52227053 Score: 2401
Period size: 382 Copynumber: 4.4 Consensus size: 364
52225431 ACTCAATATC
*
52225441 CTTTAAGTCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
*
52225506 TTGCCAGCTATTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
*
52225571 CTCTCCACTCTAGGGGCAATTGAACTTGTCATTTTAGCAAATCCTAACTTTGC--T--TATTATT
131 CTCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTTACTATTATT
*
52225632 ATTATT-TTA--A---T---AATTTGAAGTACTCAGAATTCAAGTGGGATTTTTATAGGGCAGTG
195 ATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGT-GGATTTTTATAGGGCAGTG
* * * *
52225688 TATGTATGGGAAGCTGTTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTG
259 TATGTATGAGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTG
*
52225753 TATTATACAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
324 TATTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
52225794 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* *
52225859 TTGCCATCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCTACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
52225924 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC-TTACTATTATTA
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTTACTATTATTA
52225988 TTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTA
196 TTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTA
*
52226053 TGTATGAGAAGCTATTCACGTGAGTGAGTGGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTA
261 TGTATGAGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTA
*
52226118 TTATACAAGGGAACCTGAGCTTAACAATGTCATCCTTAT
326 TTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
* *
52226157 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTTTTCGAATACATTGTCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* *
52226222 TTACCAGCTCTTCCTTAAGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
52226287 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC-------T-TTA-
52226352 TCTTATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGAT
187 -C-------TATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGAT
* * *
52226417 TTTTATAGGGCAGTGTATGTACGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGT
244 TTTTATAGGGCAGTGTATGTATGAGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGT
52226482 TGACTGGAAGATTTGTATTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
309 TGACTGGAAGATTTGTATTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
** * * *
52226538 CTTTAAATCAATGGTTGGAACCAATGGTCCTCCATTTTTCCCTTCTTCTAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* *
52226603 TTGCCAGCTCTTCCTTAGGTCTAATATACTCCTTCGGGATTGACTGATTCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
*
52226668 CTCTCCACTCCGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTA
131 CTCTCCACT-CTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC------------
*
52226733 TTATTATTATTACTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGA
183 -T-TTACTA-T--TATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGA
*
52226798 TTTTTATAGGGCAGTGTATGTGT-AGGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGA
243 TTTTTATAGGGCAGTGTATGTATGA-GAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGA
* * * *
52226862 GTTGACTGGAAGATTTGTATTATATAAGGGAACATGAGCTTAAAAATGTCACCCTTTT
307 GTTGACTGGAAGATTTGTATTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
*
52226920 CTTTAAATCAATGGTTGGAACCTATGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* ** * * * *
52226985 TTACCAATTCTTCCTTAGGTTTAATATACTCTTTCGGGATTGACTGATTCCTACTGCTTGCCATG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
52227050 CTCT
131 CTCT
52227054 GTGACACCCC
Statistics
Matches: 1163, Mismatches: 56, Indels: 53
0.91 0.04 0.04
Matches are distributed among these distances:
352 40 0.03
353 138 0.12
355 13 0.01
356 3 0.00
358 1 0.00
361 1 0.00
363 294 0.25
364 24 0.02
372 3 0.00
374 1 0.00
379 2 0.00
380 1 0.00
381 300 0.26
382 330 0.28
388 12 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (364 bp):
CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTTACTATTATTA
TTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTA
TGTATGAGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTA
TTATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
Found at i:52226347 original size:3 final size:3
Alignment explanation
Indices: 52226339--52226382 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
52226329 CTAACTTTGC
*
52226339 TTA TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52226383 TTACGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52226729 original size:3 final size:3
Alignment explanation
Indices: 52226721--52226764 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
52226711 CTAACTTTGC
*
52226721 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52226765 TTACGAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:52240666 original size:3 final size:3
Alignment explanation
Indices: 52240658--52240752 Score: 181
Period size: 3 Copynumber: 31.7 Consensus size: 3
52240648 CTAACTTTGC
52240658 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
52240706 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52240753 TTACGAATTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52241099 original size:3 final size:3
Alignment explanation
Indices: 52241091--52241131 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
52241081 CTAACTTTGC
*
52241091 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52241132 TTACGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52241461 original size:3 final size:3
Alignment explanation
Indices: 52241453--52241505 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
52241443 CTAACTTTGC
52241453 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
52241501 TTA TT
1 TTA TT
52241506 TTACAAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:52241686 original size:374 final size:372
Alignment explanation
Indices: 52240895--52242216 Score: 1829
Period size: 374 Copynumber: 3.6 Consensus size: 372
52240885 GAGCTTAAAA
52240895 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
1 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
52240960 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
66 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
52241025 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
131 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
*
52241090 C------------TTATTATTATTATTATTATTATTATTATTATTGTTATTATTTTACGAATTTG
196 CTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTAC-AATTTG
*
52241143 AAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAATGTATGTATGGGAAGCTGTTCACGTGAGT
260 AAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGT
*
52241208 GAGTAGCCATGGTCAAAGTAAGTTGACTGGAAGATTTGTATTATACAAG
325 G-GTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTATACAAG
*
52241257 ATGTCACCCTTATCTTTAAGTCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
1 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
52241322 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
66 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
52241387 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
131 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
52241452 CTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAAATTTG
196 CTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTAC-AATTTG
52241517 AAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGT
260 AAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGT
52241582 GGGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTATACAAG
325 -GGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTATACAAG
* *
52241631 ATGTCACCCTTATCTTTAAGTCAATGGTTGGAACTTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
1 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
*
52241696 ACATTGCCTATGCTTACAAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
66 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
52241761 ACTGCTTGCCAAGCTCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
131 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
** * ** ** *
52241825 CTTATTATTATTATTATTATTATTATT-TTACGA--ATT-TGA--AGTGCTTAGAATT-CAA-GT
196 CTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTA-TTATTA-TTTTACAATTT
* ** *** * * * * * * *
52241882 GGA-TTTTTATG-GGGC-AGT-G-TATGTAT-GGGAAGCTATTCATGTGAGTGAGTAGCCATGGT
259 GAAGTACTTA-GAATTCAAGTGGATTTTTATAGGGCAG-T-GT-ATGT-A-TGGGAAG-C-TGTT
* * * * * * ** *
52241941 CAAAGTGAGT--T-GACA-GG--AAGATTTGTA-TTATACAAGGGAACATGAG-CTTA-A-AA-
316 C-ACGTGAGTGGTAGCCATGGTCAA-A-GTG-AGTT-GAC--TGGAAGATTTGTATTATACAAG
*
52241994 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCTTCCTTTTTTCTCTTCTTCGAAT
1 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
* *
52242059 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTAACCGATTCCC
66 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
52242124 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
131 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
52242189 CTTATTATTATTATTATTATTATTATTA
196 CTTATTATTATTATTATTATTATTATTA
52242217 AGGGTGCGCA
Statistics
Matches: 885, Mismatches: 43, Indels: 61
0.89 0.04 0.06
Matches are distributed among these distances:
361 5 0.01
362 203 0.23
363 151 0.17
364 82 0.09
365 13 0.01
366 13 0.01
367 11 0.01
368 9 0.01
369 11 0.01
370 3 0.00
372 4 0.00
373 67 0.08
374 312 0.35
375 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (372 bp):
ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
CTTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAATTTGA
AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTG
GTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTATACAAG
Found at i:52241834 original size:3 final size:3
Alignment explanation
Indices: 52241826--52241851 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
52241816 CTAACTTTGC
52241826 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
52241852 TTACGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:52242180 original size:737 final size:726
Alignment explanation
Indices: 52240700--52242216 Score: 2425
Period size: 737 Copynumber: 2.0 Consensus size: 726
52240690 ATTATTATTA
* *
52240700 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTGTTATTATTTTACGAATTTGA
1 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAAATTTGA
52240765 AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTACGGGAAGCTGTTCACGTGAGTG
66 AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTACGGGAAGCTGTTCACGTGAGTG
52240830 AGTAGCCATGGTCAAAGTGAGTTGACAGGAAGATTTGTATTATACAAGGGAACATGAGCTTAAAA
131 AGTAGCCATGGTCAAAGTGAGTTGACAGGAAGATTTGTATTAT-------AACA-GAG------A
52240895 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
182 ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAAT
*
52240960 ACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
247 ACATTGCCTATGCTTACAAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCC
52241025 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
312 ACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTG
52241090 CTTATTATTATTATTATTATTATTATTATTATTGTTATTATTTTACGAATTTGAAGTACTTAGAA
377 C----------T-TTATTATTATTATTATTA-T-TTATTATTTTACGAATTTGAAGTACTTAGAA
*
52241155 TTCAAGTGGATTTTTATAGGGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGG
429 TTCAAGTGGATTTTTATAGGGCAATGTATGTATGGGAAGCTATTCACGTGAGTGAGTAGCCATGG
* *
52241220 TCAAAGTAAGTTGACTGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGT
494 TCAAAGTAAGTTGACAGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAATCAATGGT
52241285 TGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCT
559 TGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCT
* *
52241350 TAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGG
624 TAGGTCTAATATACTCTTTCGGGATTAACCGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGG
52241415 GCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC
689 GCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC
52241453 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAAATTTGA
1 TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAAATTTGA
*
52241518 AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTG
66 AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTACGGGAAGCTGTTCACGTGAGTG
* *
52241583 GGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT-ACA-AG-ATGTCACCCTTATC
131 AGTAGCCATGGTCAAAGTGAGTTGACAGGAAGATTTGTATTATAACAGAGAATGTCACCCTTATC
* *
52241645 TTTAAGTCAATGGTTGGAACTTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCT
196 TTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCT
52241710 TACAAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAAGC
261 TACAAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAAGC
52241775 TCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC-TTATTATTATTA
326 TCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTTATTATTATTA
* * *
52241838 TTATTA-TTATTATTTTACGAATTTGAAGTGCTTAGAATTCAAGTGGATTTTTATGGGGCAGTGT
391 TTATTATTTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAATGT
* *
52241902 ATGTATGGGAAGCTATTCATGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACAGGAAGATTTGT
456 ATGTATGGGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTAAGTTGACAGGAAGATTTGT
52241967 ATTATACAAGGGAACATGAGCTTAAAAATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGT
521 ATTAT--------ACA--AG-------ATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGT
*
52242032 GGTCTTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAAT
569 GGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAAT
52242097 ATACTCTTTCGGGATTAACCGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAAC
634 ATACTCTTTCGGGATTAACCGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAAC
52242162 TCGTCATTTTAGCAAATCCTAACTTTGC
699 TCGTCATTTTAGCAAATCCTAACTTTGC
52242190 TTATTATTATTATTATTATTATTATTA
1 TTATTATTATTATTATTATTATTATTA
52242217 AGGGTGCGCA
Statistics
Matches: 728, Mismatches: 19, Indels: 50
0.91 0.02 0.06
Matches are distributed among these distances:
720 121 0.17
723 18 0.02
728 3 0.00
730 2 0.00
735 41 0.06
736 151 0.21
737 219 0.30
743 2 0.00
745 3 0.00
753 168 0.23
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (726 bp):
TTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTATTTTACAAATTTGA
AGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTACGGGAAGCTGTTCACGTGAGTG
AGTAGCCATGGTCAAAGTGAGTTGACAGGAAGATTTGTATTATAACAGAGAATGTCACCCTTATC
TTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCT
TACAAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAAGC
TCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTTATTATTATTA
TTATTATTTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAATGT
ATGTATGGGAAGCTATTCACGTGAGTGAGTAGCCATGGTCAAAGTAAGTTGACAGGAAGATTTGT
ATTATACAAGATGTCACCCTTATCTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTC
TTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTA
ACCGATTCCCACTGCTTGCCAAGCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAAT
CCTAACTTTGC
Found at i:52242198 original size:3 final size:3
Alignment explanation
Indices: 52242190--52242216 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52242180 CTAACTTTGC
52242190 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
52242217 AGGGTGCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52242603 original size:18 final size:18
Alignment explanation
Indices: 52242580--52242618 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
52242570 GTAGTGATTC
*
52242580 AATTCAGTTAATTCGGGT
1 AATTCAGGTAATTCGGGT
*
52242598 AATTCAGGTAATTCGGTT
1 AATTCAGGTAATTCGGGT
52242616 AAT
1 AAT
52242619 GTGGTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (18 bp):
AATTCAGGTAATTCGGGT
Found at i:52246062 original size:43 final size:43
Alignment explanation
Indices: 52246012--52246136 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
52246002 AAGGCTAGTA
* * * *
52246012 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAC-AGAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-T
* *
52246055 CGATGCC-ACTGTCCCAGGCAG-GGTCTTACACGAAAACACAAGT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGT
52246098 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
52246137 TTTTCAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
42 3 0.04
43 61 0.88
44 5 0.07
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.18
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGT
Found at i:52246316 original size:98 final size:98
Alignment explanation
Indices: 52246145--52246346 Score: 379
Period size: 98 Copynumber: 2.1 Consensus size: 98
52246135 ACTTTTCAAA
*
52246145 AATCCTATGTCATGACATAAGTATCCCATTTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
1 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
52246210 TATCAATCGAATCGAACTCGAAATAAAATCCCT
66 TATCAATCGAATCGAACTCGAAATAAAATCCCT
52246243 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
1 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
*
52246308 TATTAATCGAATCGAACTCGAAATAAAATCCCT
66 TATCAATCGAATCGAACTCGAAATAAAATCCCT
52246341 -ATCCTA
1 AATCCTA
52246347 GCATACACAT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 6 0.06
98 96 0.94
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (98 bp):
AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
TATCAATCGAATCGAACTCGAAATAAAATCCCT
Found at i:52246907 original size:21 final size:21
Alignment explanation
Indices: 52246882--52246923 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
52246872 TAAAACTCAA
52246882 ACATTCATCAATGACACATTT
1 ACATTCATCAATGACACATTT
*
52246903 ACATTCATCAATGGCACATTT
1 ACATTCATCAATGACACATTT
52246924 CAAAATCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (21 bp):
ACATTCATCAATGACACATTT
Found at i:52246935 original size:22 final size:21
Alignment explanation
Indices: 52246886--52246935 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
52246876 ACTCAAACAT
* *
52246886 TCATCAATGACACATTTACAT
1 TCATCAATGACACATTTAAAA
*
52246907 TCATCAATGGCACATTTCAAAA
1 TCATCAATGACACATTT-AAAA
52246929 TCATCAA
1 TCATCAA
52246936 CAATTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (21 bp):
TCATCAATGACACATTTAAAA
Found at i:52248712 original size:21 final size:21
Alignment explanation
Indices: 52248670--52248712 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
52248660 TATCTTATTC
*
52248670 ATTGATAATATATAAAACTAT
1 ATTGATAATACATAAAACTAT
*
52248691 ATTGATTAATACATCAAA-TAT
1 ATTGA-TAATACATAAAACTAT
52248712 A
1 A
52248713 AATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTGATAATACATAAAACTAT
Found at i:52248999 original size:22 final size:23
Alignment explanation
Indices: 52248953--52248996 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
52248943 TTTCATAGAA
*
52248953 AAGTCTAAAAATTATCATATTTT
1 AAGTCTAAAAAGTATCATATTTT
52248976 AAGTCT-AAAAGTATC-TATTTT
1 AAGTCTAAAAAGTATCATATTTT
52248997 TAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
AAGTCTAAAAAGTATCATATTTT
Found at i:52250437 original size:2 final size:2
Alignment explanation
Indices: 52250430--52250460 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52250420 TGTCCCTTTA
52250430 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
52250461 AGTTCCATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:52252870 original size:33 final size:33
Alignment explanation
Indices: 52252803--52252870 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
52252793 GCATGATCAA
* * *
52252803 GAATTTGATATTCCTTAACAAAGTCTCCTGTTT
1 GAATTCGATATTCCTTAACAAAATCTCCTATTT
*
52252836 GAATTCGATATTCCTTGAA-AAAATCTCTTATTT
1 GAATTCGATATTCCTT-AACAAAATCTCCTATTT
52252869 GA
1 GA
52252871 GTTCAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (33 bp):
GAATTCGATATTCCTTAACAAAATCTCCTATTT
Found at i:52257642 original size:6 final size:7
Alignment explanation
Indices: 52257624--52257649 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
52257614 TTCTTCACTT
52257624 GAAAAAG
1 GAAAAAG
52257631 GAAAAAG
1 GAAAAAG
52257638 GAAAAAG
1 GAAAAAG
52257645 GAAAA
1 GAAAA
52257650 CTATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:52271642 original size:21 final size:21
Alignment explanation
Indices: 52271610--52271650 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
52271600 GAACATCTGG
52271610 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
52271631 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
52271651 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:52274410 original size:31 final size:31
Alignment explanation
Indices: 52274375--52274435 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
52274365 CTAAATCCAA
52274375 CTTATTAGCATAATAATATAGATAGGTGGGG
1 CTTATTAGCATAATAATATAGATAGGTGGGG
*
52274406 CTTATTAGCATAGTAATATAGATAGGTGGG
1 CTTATTAGCATAATAATATAGATAGGTGGG
52274436 AAGGCAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (31 bp):
CTTATTAGCATAATAATATAGATAGGTGGGG
Found at i:52274534 original size:4 final size:4
Alignment explanation
Indices: 52274527--52274556 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
52274517 GAATAAAAGA
52274527 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
52274557 GATAAAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:52276202 original size:17 final size:16
Alignment explanation
Indices: 52276155--52276209 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
52276145 GGCCTAGAAT
*
52276155 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
52276172 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
52276190 ATTTGATAGATTAATTA
1 ATTTGATAGATT-ATTA
52276207 ATT
1 ATT
52276210 ATGGGATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.09
17 19 0.59
18 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:52276774 original size:21 final size:21
Alignment explanation
Indices: 52276696--52276783 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
52276686 TTCGGGTGGA
* *
52276696 TCAGCTCTTACGAGCTTC-AGT
1 TCAGTTCTTATGAGCTTCTA-T
52276717 TCAGCTTCTTATGAGCTTCTAT
1 TCAG-TTCTTATGAGCTTCTAT
* * * *
52276739 TCAGCTCTCACGAGCTTCTGT
1 TCAGTTCTTATGAGCTTCTAT
**
52276760 TCTTTTCTTATGAGCTTCTAT
1 TCAGTTCTTATGAGCTTCTAT
52276781 TCA
1 TCA
52276784 ACTTTCGAGC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 34 0.65
22 17 0.33
23 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.42
Consensus pattern (21 bp):
TCAGTTCTTATGAGCTTCTAT
Found at i:52276780 original size:42 final size:42
Alignment explanation
Indices: 52276696--52276800 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
52276686 TTCGGGTGGA
*
52276696 TCAGCTCTTACGAGCTTCAGTTCAGCTTCTTATGAGCTTCTAT
1 TCAGCTC-TACGAGCTTCTGTTCAGCTTCTTATGAGCTTCTAT
**
52276739 TCAGCTCTCACGAGCTTCTGTTC-TTTTCTTATGAGCTTCTAT
1 TCAGCTCT-ACGAGCTTCTGTTCAGCTTCTTATGAGCTTCTAT
* *
52276781 TCAACT-TTCGAGCTTCTGTT
1 TCAGCTCTACGAGCTTCTGTT
52276801 AGCGTATTCG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
40 12 0.21
41 1 0.02
42 23 0.41
43 20 0.36
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.43
Consensus pattern (42 bp):
TCAGCTCTACGAGCTTCTGTTCAGCTTCTTATGAGCTTCTAT
Found at i:52281690 original size:17 final size:18
Alignment explanation
Indices: 52281648--52281690 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
52281638 TCTCTCTTCG
* *
52281648 TTTTATTTTATTTTATCT
1 TTTTAATTTATCTTATCT
52281666 TTTT-ATTTATCTT-TCT
1 TTTTAATTTATCTTATCT
52281682 TTTTAATTT
1 TTTTAATTT
52281691 TGTTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTAATTTATCTTATCT
Found at i:52283725 original size:23 final size:23
Alignment explanation
Indices: 52283689--52283739 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
52283679 TACCAATTAG
* **
52283689 AAGAAGACCTAAGAGGGCACTCA
1 AAGAAGACCGAAGAAAGCACTCA
* *
52283712 AAGAAGATCGAAGAAAGCACTCG
1 AAGAAGACCGAAGAAAGCACTCA
52283735 AAGAA
1 AAGAA
52283740 CGTCATCAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.25, T:0.08
Consensus pattern (23 bp):
AAGAAGACCGAAGAAAGCACTCA
Found at i:52284675 original size:98 final size:98
Alignment explanation
Indices: 52284499--52284695 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
52284489 CTAGTACTTT
*
52284499 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGTTTG
1 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
* *
52284564 CCTTAGTCGTATTTATAGTTAGTTTAGTGACCA
66 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
* *
52284597 TAGTCCTCGTGGATACGATATTTCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
1 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
52284662 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
66 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
52284695 T
1 T
52284696 CAAGTGAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (98 bp):
TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
CCTTAATCATATTTATAGTTAGTTTAGTGACCA
Found at i:52301481 original size:43 final size:41
Alignment explanation
Indices: 52301434--52301517 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 41
52301424 ACATATATTT
*
52301434 TAAAAAAATAATAA-TAATTAAATATGAAAAAGAAATAAAAAAA
1 TAAAAAAA-AATAATTAATTAAAAAT-AAAAA-AAATAAAAAAA
* *
52301477 TAAAAAAAACTAATTAATTAAAAATAAAGAAAATAAAAAAA
1 TAAAAAAAAATAATTAATTAAAAATAAAAAAAATAAAAAAA
52301518 GCTAATTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 11 0.30
42 8 0.22
43 18 0.49
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (41 bp):
TAAAAAAAAATAATTAATTAAAAATAAAAAAAATAAAAAAA
Found at i:52323279 original size:17 final size:17
Alignment explanation
Indices: 52323257--52323290 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52323247 ATCCACTAAT
*
52323257 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
52323274 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
52323291 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:52327918 original size:17 final size:17
Alignment explanation
Indices: 52327896--52327929 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
52327886 ATCCACTAAT
*
52327896 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
52327913 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
52327930 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:52329969 original size:21 final size:22
Alignment explanation
Indices: 52329912--52329970 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
52329902 TCCAAACCCG
*
52329912 AACCCT-GAACCCTGAATCCTA
1 AACCCTAGAACCCTGAGTCCTA
*
52329933 AACCCTA-AACCTTGAGT-CTCA
1 AACCCTAGAACCCTGAGTCCT-A
52329954 AA-CCTAGAACCCTGAGT
1 AACCCTAGAACCCTGAGT
52329971 TTGAGTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (22 bp):
AACCCTAGAACCCTGAGTCCTA
Found at i:52330032 original size:18 final size:19
Alignment explanation
Indices: 52329999--52330034 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52329989 AAATTCAAGG
52329999 TTCAAGATTTACGTTTGGA
1 TTCAAGATTTACGTTTGGA
*
52330018 TTCAAG-TTTAGGTTTGG
1 TTCAAGATTTACGTTTGG
52330035 GGTTTAGAGT
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:0.22, C:0.08, G:0.25, T:0.44
Consensus pattern (19 bp):
TTCAAGATTTACGTTTGGA
Found at i:52332703 original size:4 final size:4
Alignment explanation
Indices: 52332694--52332733 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
52332684 AAGTCAAGAA
52332694 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC CATC
52332734 ATGTCTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:52338084 original size:36 final size:36
Alignment explanation
Indices: 52338043--52338351 Score: 348
Period size: 36 Copynumber: 8.0 Consensus size: 36
52338033 GGTAGCTTTA
52338043 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52338079 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
52338124 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52338161 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52338197 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA---GT
52338236 AGCTTTAGCTACAGTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GC--TA-C-AC--TTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
52338279 GTTATACTTATCTGATCAAGTGAAAAAGTGATATGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52338315 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52338351 G
1 G
52338352 GTAGCTTAGC
Statistics
Matches: 237, Mismatches: 16, Indels: 40
0.81 0.05 0.14
Matches are distributed among these distances:
36 158 0.67
37 2 0.01
38 2 0.01
39 2 0.01
40 6 0.03
42 5 0.02
43 3 0.01
44 2 0.01
45 2 0.01
46 55 0.23
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52338144 original size:82 final size:81
Alignment explanation
Indices: 52338007--52338377 Score: 418
Period size: 82 Copynumber: 4.7 Consensus size: 81
52337997 TTTGAGTACT
* *
52338007 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
52338072 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
* *
52338089 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
52338154 GATAAGTGCTATACTTA
65 GATAAGTGCTACACTTA
* *
52338171 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGAGACAAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
52338227 ATAAGTGGTAGCTTTAGCTACAGTTA
66 ATAA---GT-GC--TA-C-AC--TTA
52338253 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTATCTGATCAAGTGAAAAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
* *
52338309 ATATGTGCTATACTTA
66 ATAAGTGCTACACTTA
*
52338325 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
52338378 GGGATAAATG
Statistics
Matches: 253, Mismatches: 12, Indels: 49
0.81 0.04 0.16
Matches are distributed among these distances:
72 58 0.23
73 1 0.00
74 2 0.01
75 4 0.02
76 7 0.03
77 3 0.01
78 4 0.02
79 3 0.01
80 2 0.01
81 14 0.06
82 151 0.60
83 1 0.00
84 2 0.01
85 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:52338256 original size:118 final size:118
Alignment explanation
Indices: 52338043--52338377 Score: 609
Period size: 118 Copynumber: 2.8 Consensus size: 118
52338033 GGTAGCTTTA
*
52338043 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
52338108 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52338161 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
52338226 GATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * * *
52338279 GTTATACTTATCTGATCAAGTGAAAAAGTGATATGTGCTATACTTATCTGATCAAGTGACAAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
52338344 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCA
66 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCA
52338378 GGGATAAATG
Statistics
Matches: 210, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
117 20 0.10
118 190 0.90
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (118 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52349110 original size:27 final size:28
Alignment explanation
Indices: 52349083--52349148 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 28
52349073 TTTAAAGTTA
52349083 AAATA-TATATTATA-ATATTATACCTT
1 AAATATTATATTATATATATTATACCTT
*
52349109 AATTATTATATTATATTATATTATA--TT
1 AAATATTATATTATA-TATATTATACCTT
52349136 --ATATTATATTATA
1 AAATATTATATTATA
52349149 GTGATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 12 0.34
26 4 0.11
27 11 0.31
29 8 0.23
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (28 bp):
AAATATTATATTATATATATTATACCTT
Found at i:52349122 original size:5 final size:5
Alignment explanation
Indices: 52349112--52349148 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
52349102 ATACCTTAAT
52349112 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
52349149 GTGATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:52350145 original size:41 final size:40
Alignment explanation
Indices: 52350100--52350233 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
52350090 ACTTCGAGTT
*
52350100 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATCC
* * * *
52350141 GATGAGGCACTAGGTGCCAA-TT-TACTTCGGTTTAA-CC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
* * *
52350178 GATGAAACACTGGATGTCAATTTATTACTTCGAATT-ATCC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATCC
*
52350218 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
52350234 CCAAAATAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 16 0.22
38 14 0.19
39 1 0.01
40 26 0.35
41 17 0.23
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
Found at i:52353023 original size:10 final size:10
Alignment explanation
Indices: 52353008--52353032 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52352998 CATTTTTAAG
52353008 TTTATAATAT
1 TTTATAATAT
52353018 TTTATAATAT
1 TTTATAATAT
52353028 TTTAT
1 TTTAT
52353033 TTTTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:52356315 original size:2 final size:2
Alignment explanation
Indices: 52356308--52356333 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52356298 GGGTTTCAAA
52356308 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
52356334 CGTGTGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:52356524 original size:2 final size:2
Alignment explanation
Indices: 52356519--52356551 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
52356509 GGGGGAAGGG
*
52356519 GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
52356552 GTGGTAGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:52357898 original size:21 final size:22
Alignment explanation
Indices: 52357860--52357901 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52357850 GGGAGGTACC
**
52357860 TTTTATTAAATTTTATTCATTT
1 TTTTATTAAATTGCATTCATTT
52357882 TTTTATTAAA-TGCATTCATT
1 TTTTATTAAATTGCATTCATT
52357902 CTGAGGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATTAAATTGCATTCATTT
Found at i:52367326 original size:6 final size:6
Alignment explanation
Indices: 52367316--52367354 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
52367306 AGTTGAATCT
*
52367316 TTTGGT TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTT
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTT
52367355 TTCAAGCAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (6 bp):
TTTGGA
Found at i:52380554 original size:16 final size:18
Alignment explanation
Indices: 52380523--52380558 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
52380513 TGAATTTTTG
52380523 TATTATTTTAATATTAAA
1 TATTATTTTAATATTAAA
52380541 TATT-TTTTAA-ATTAAA
1 TATTATTTTAATATTAAA
52380557 TA
1 TA
52380559 ACATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTTTAATATTAAA
Found at i:52387259 original size:12 final size:12
Alignment explanation
Indices: 52387242--52387270 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
52387232 ATGGGAAAGC
52387242 TTTAATTTTTTA
1 TTTAATTTTTTA
52387254 TTTAA-TTTTTA
1 TTTAATTTTTTA
52387265 TTTAAT
1 TTTAAT
52387271 GTAATTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTAATTTTTTA
Done.