Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 301 of 311
Found at i:97993249 original size:21 final size:21
Alignment explanation
Indices: 97993218--97993275 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
97993208 TTTTCACCCT
97993218 TCTTT-TTGTCTTTCTTTTCA
1 TCTTTCTTGTCTTTCTTTTCA
97993238 TCTTTCTTGTCTTTCTTTTCA
1 TCTTTCTTGTCTTTCTTTTCA
*
97993259 TCTTTCTTCTC-TTCTTT
1 TCTTTCTTGTCTTTCTTT
97993276 AGCAGGTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 11 0.31
21 25 0.69
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.69
Consensus pattern (21 bp):
TCTTTCTTGTCTTTCTTTTCA
Found at i:97997249 original size:15 final size:14
Alignment explanation
Indices: 97997231--97997261 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
97997221 TTAATTTATT
97997231 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
97997246 TAATAATAATCTAA
1 TAATAATAATCTAA
97997260 TA
1 TA
97997262 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:97997272 original size:21 final size:20
Alignment explanation
Indices: 97997248--97997316 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
97997238 AATGCTAATA
97997248 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
97997269 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
97997288 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
97997309 ATAATAAT
1 ATAATAAT
97997317 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:97999702 original size:37 final size:37
Alignment explanation
Indices: 97999652--97999725 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
97999642 TATTTCTGTT
97999652 TGGTTTTGATATATATGATTTTGGAAAAAAAAAAAGA
1 TGGTTTTGATATATATGATTTTGGAAAAAAAAAAAGA
97999689 TGGTTTTGATATATATGATTTTGGAAAAAAAAAAAGA
1 TGGTTTTGATATATATGATTTTGGAAAAAAAAAAAGA
97999726 AATAGTCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (37 bp):
TGGTTTTGATATATATGATTTTGGAAAAAAAAAAAGA
Found at i:98003807 original size:30 final size:30
Alignment explanation
Indices: 98003773--98003832 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
98003763 TTTCAATTGA
*
98003773 TTTTTAGAACATAAAAATAAAAATAAAAAG
1 TTTTTAAAACATAAAAATAAAAATAAAAAG
98003803 TTTTTAAAACATAAAAATAAAAATAAAAAG
1 TTTTTAAAACATAAAAATAAAAATAAAAAG
98003833 AAAGTTGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
TTTTTAAAACATAAAAATAAAAATAAAAAG
Found at i:98003987 original size:14 final size:13
Alignment explanation
Indices: 98003955--98003983 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
98003945 TTTTTATTTC
98003955 ATTAAATAAAAAA
1 ATTAAATAAAAAA
98003968 ATTAAATAAAAAA
1 ATTAAATAAAAAA
98003981 ATT
1 ATT
98003984 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATTAAATAAAAAA
Found at i:98004012 original size:26 final size:24
Alignment explanation
Indices: 98003971--98004030 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
98003961 TAAAAAAATT
* * *
98003971 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
98003995 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
98004021 AAATAAATAT
1 AAATAAATAT
98004031 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:98004042 original size:22 final size:22
Alignment explanation
Indices: 98004001--98004059 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
98003991 ATAATAAATC
* *
98004001 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
98004021 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
98004043 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
98004060 TTCTTAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:98005980 original size:48 final size:48
Alignment explanation
Indices: 98005898--98005991 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
98005888 TTTCTTGGCT
* * *
98005898 TAAAAACTCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
98005946 TAAAAACACCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACACCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
98005992 ATAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:98008494 original size:48 final size:48
Alignment explanation
Indices: 98008412--98008505 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
98008402 TTTCTTGGCT
* * *
98008412 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
98008460 TAAAAACACCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACACCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
98008506 ATAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:98038789 original size:12 final size:11
Alignment explanation
Indices: 98038759--98038789 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
98038749 TTATCATTTC
98038759 ATATCATTCAA
1 ATATCATTCAA
98038770 ATATCATTCAA
1 ATATCATTCAA
98038781 ATCATCATT
1 AT-ATCATT
98038790 TTAAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATCATTCAA
Found at i:98039299 original size:16 final size:16
Alignment explanation
Indices: 98039265--98039317 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
98039255 ATGGCATTAG
98039265 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
98039281 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
98039297 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
98039313 TCATG
1 TCATG
98039318 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:98039561 original size:40 final size:40
Alignment explanation
Indices: 98039506--98039612 Score: 187
Period size: 40 Copynumber: 2.7 Consensus size: 40
98039496 ACTAGTTTGG
98039506 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
1 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
* * *
98039546 CACCCAGTGTCTCATAGGATAATTCGACGTAGTAAATTGA
1 CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
98039586 CACCCAATGCCTCATAGGATAATTCGA
1 CACCCAATGCCTCATAGGATAATTCGA
98039613 AGTGTCTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (40 bp):
CACCCAATGCCTCATAGGATAATTCGACATAGTAAATTGA
Found at i:98046241 original size:24 final size:22
Alignment explanation
Indices: 98046214--98046286 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 22
98046204 TATCAAAGAT
*
98046214 TTTATTGATTAAAATATATATATA
1 TTTATTAATT-AAATATAT-TATA
* *
98046238 TTTAATAATTAAGTATATTATA
1 TTTATTAATTAAATATATTATA
*
98046260 TTATATTATATTATATTATATTATA
1 TT-TATTA-ATTA-AATATATTATA
98046285 TT
1 TT
98046287 ATATATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.15
23 11 0.27
24 12 0.29
25 12 0.29
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTATTAATTAAATATATTATA
Found at i:98046261 original size:5 final size:5
Alignment explanation
Indices: 98046251--98046290 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
98046241 AATAATTAAG
98046251 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
98046291 ATAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:98047390 original size:12 final size:12
Alignment explanation
Indices: 98047373--98047397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98047363 GCCGACTACT
98047373 GTTACTGTTACC
1 GTTACTGTTACC
98047385 GTTACTGTTACC
1 GTTACTGTTACC
98047397 G
1 G
98047398 ATTCGACACT
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:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:98047439 original size:6 final size:6
Alignment explanation
Indices: 98047420--98047450 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
98047410 GTGCGTCGAA
*
98047420 TACTGT TACCGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
98047451 TCGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:98047496 original size:6 final size:6
Alignment explanation
Indices: 98047485--98047515 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
98047475 CTGTGTACCG
*
98047485 TACTGT TACTGT TACTGT TACTAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
98047516 CCGGCTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:98047500 original size:65 final size:62
Alignment explanation
Indices: 98047420--98047551 Score: 174
Period size: 65 Copynumber: 2.1 Consensus size: 62
98047410 GTGCGTCGAA
* * * * *
98047420 TACTGTTACCGTTACTGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCG
1 TACTGTTACCGTTACTGTTACTATTACTGTTCCGGATTTG-ACCGATGAGGCACTATGTG--CCG
* *
98047485 TACTGTTACTGTTACTGTTACTATTACTGTTCCGGCTTTGACCGATGAGGCACTATGTGCCG
1 TACTGTTACCGTTACTGTTACTATTACTGTTCCGGATTTGACCGATGAGGCACTATGTGCCG
98047547 TACTG
1 TACTG
98047552 GTGTGTTAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
62 8 0.13
64 16 0.27
65 36 0.60
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (62 bp):
TACTGTTACCGTTACTGTTACTATTACTGTTCCGGATTTGACCGATGAGGCACTATGTGCCG
Found at i:98056582 original size:14 final size:15
Alignment explanation
Indices: 98056533--98056582 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
98056523 GTATCTTGGG
*
98056533 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
98056548 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
98056563 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
98056577 TTTCTT
1 TTTCTT
98056583 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:98058123 original size:37 final size:37
Alignment explanation
Indices: 98058079--98058290 Score: 298
Period size: 37 Copynumber: 5.5 Consensus size: 37
98058069 CACTTGTCCC
98058079 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
98058116 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
98058153 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
* **
98058190 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
98058227 TGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTTGTCTCT
1 TGATCAGATAAGTGTAGC----C-A-C-C-TATCACTTTGTTTCT
*
98058272 TGATCAGATAAGTATAGCC
1 TGATCAGATAAGTGTAGCC
98058291 GAAGCTATCA
Statistics
Matches: 159, Mismatches: 8, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
37 124 0.78
41 2 0.01
42 1 0.01
43 1 0.01
45 31 0.19
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:98058258 original size:45 final size:46
Alignment explanation
Indices: 98058208--98058428 Score: 248
Period size: 51 Copynumber: 4.6 Consensus size: 46
98058198 TAAGTGTAGC
*
98058208 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CTAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
98058253 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
98058299 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
** *
98058351 -ACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
98058402 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
98058429 AGTACTCAAA
Statistics
Matches: 156, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
45 34 0.22
46 33 0.21
49 1 0.01
50 4 0.03
51 43 0.28
52 41 0.26
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:98058308 original size:7 final size:7
Alignment explanation
Indices: 98058296--98058329 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
98058286 TAGCCGAAGC
98058296 TATCACT
1 TATCACT
98058303 TATCACT
1 TATCACT
*
98058310 TTTCACT
1 TATCACT
98058317 TATCACT
1 TATCACT
98058324 TGATCA
1 T-ATCA
98058330 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:98058376 original size:51 final size:50
Alignment explanation
Indices: 98058208--98058414 Score: 246
Period size: 52 Copynumber: 4.1 Consensus size: 50
98058198 TAAGTGTAGC
*
98058208 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG-CTAAGCTATCACTTAT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT-ACTTAT
* *
98058260 CAC--T---TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT-ACTTAT
*
98058306 CACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATACTTAT
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATACTTAT
** *
98058357 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA-TACTTAT
98058409 CACTTT
1 CACTTT
98058415 ATCACTTGAT
Statistics
Matches: 136, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
45 23 0.17
46 18 0.13
49 2 0.01
50 3 0.02
51 43 0.32
52 47 0.35
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (50 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATACTTAT
Found at i:98058394 original size:97 final size:97
Alignment explanation
Indices: 98058207--98058428 Score: 242
Period size: 97 Copynumber: 2.3 Consensus size: 97
98058197 ATAAGTGTAG
* * * *
98058207 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTATCACTTATCACTTTGTCTCT
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCGAAGCTATCACTTATCACTTTGCCACT
*
98058272 TGATCAGATAAGTATAGCCGAAGCTATCA-CTTA
66 TGATCAGATAAGTATAGCCGAAGCTA-AAGC-TA
* *
98058305 TCACTTTTCAC-TTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT-ACTTATCACTTT-CCAC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG-CGAAGCTATCACTTATCACTTTGCCAC
* * *
98058367 TTG-TCACTTGATCAG-ATAAG-TGTAGCTAAAGCTA
65 TTGATCA---GATAAGTAT-AGCCGAAGCTAAAGCTA
98058401 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
98058429 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
95 3 0.03
96 17 0.16
97 61 0.58
98 24 0.23
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (97 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCGAAGCTATCACTTATCACTTTGCCACT
TGATCAGATAAGTATAGCCGAAGCTAAAGCTA
Found at i:98061607 original size:49 final size:49
Alignment explanation
Indices: 98061552--98061697 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
98061542 TTCGTTTTCT
* * *
98061552 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
* *
98061601 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
*
98061650 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACA-AATCACAT
98061698 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:98062791 original size:37 final size:37
Alignment explanation
Indices: 98062730--98062875 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
98062720 TACGTATGAT
* *
98062730 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
98062765 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
98062802 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
98062839 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
98062876 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:98062890 original size:46 final size:46
Alignment explanation
Indices: 98062839--98063061 Score: 257
Period size: 52 Copynumber: 4.6 Consensus size: 46
98062829 TAAGTGTAGC
*
98062839 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* * *
98062885 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
98062931 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
* *
98062983 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
*
98063035 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
98063062 AGTACTCAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
46 67 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 86 0.54
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTAT
Found at i:98062940 original size:7 final size:7
Alignment explanation
Indices: 98062928--98062961 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
98062918 TAGCCGAAGC
98062928 TATCACT
1 TATCACT
98062935 TATCACT
1 TATCACT
*
98062942 TTTCACT
1 TATCACT
98062949 TATCACT
1 TATCACT
98062956 TGATCA
1 T-ATCA
98062962 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:98063027 original size:98 final size:98
Alignment explanation
Indices: 98062838--98063061 Score: 253
Period size: 98 Copynumber: 2.3 Consensus size: 98
98062828 ATAAGTGTAG
* * * *
98062838 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
*
98062903 TTGATCAGATAAGTATAGCCGAAGCTATCA-CTTA
66 TTGATCAGATAAGTATAGCCGAAGCTA-AAGC-TA
* * *
98062937 TCACTTTTCAC-TTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-CCAC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
* * *
98063000 TTG-TCACTTGATCAG-ATAAG-TGTAGCTAAAGCTA
66 TTGATCA---GATAAGTAT-AGCCGAAGCTAAAGCTA
98063034 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
98063062 AGTACTCAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 17 0.16
98 70 0.66
99 16 0.15
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGCCAC
TTGATCAGATAAGTATAGCCGAAGCTAAAGCTA
Found at i:98064729 original size:21 final size:21
Alignment explanation
Indices: 98064705--98064746 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
98064695 CTTTTTGTTC
*
98064705 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
98064726 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
98064747 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:98067600 original size:15 final size:15
Alignment explanation
Indices: 98067580--98067632 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
98067570 TTATTGTTCT
98067580 TTCAAAATAAATATA
1 TTCAAAATAAATATA
*
98067595 TTCAAAAT-AATGTA
1 TTCAAAATAAATATA
*
98067609 ---AATATAAATATA
1 TTCAAAATAAATATA
*
98067621 TTTAAAATAAAT
1 TTCAAAATAAAT
98067633 TTAAAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
14 5 0.17
15 16 0.53
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAAAATAAATATA
Found at i:98067645 original size:7 final size:7
Alignment explanation
Indices: 98067633--98067658 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98067623 TAAAATAAAT
98067633 TTAAAAA
1 TTAAAAA
98067640 TTAAAAA
1 TTAAAAA
98067647 TTAAAAA
1 TTAAAAA
98067654 TTAAA
1 TTAAA
98067659 CCAAATTATT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TTAAAAA
Found at i:98079336 original size:53 final size:53
Alignment explanation
Indices: 98079180--98079345 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
98079170 GACGAAAAAT
* **
98079180 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
98079232 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
98079285 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
98079339 TATGTGA
1 -ATGTGA
98079346 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:98085299 original size:50 final size:50
Alignment explanation
Indices: 98085227--98085466 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
98085217 AACATGCAAA
** * *
98085227 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-ATAGGTGCCAAT
* * * *
98085278 GCCATGTCCC-GACATGGTCTTATA-GGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAT
* * * *
98085326 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAT
*
98085376 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---T-AGG-TGCCAAT
*
98085432 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
98085467 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 22 0.14
49 17 0.10
50 70 0.43
51 10 0.06
54 1 0.01
55 2 0.01
56 39 0.24
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAAT
Found at i:98085398 original size:99 final size:103
Alignment explanation
Indices: 98085227--98085466 Score: 330
Period size: 99 Copynumber: 2.3 Consensus size: 103
98085217 AACATGCAAA
**
98085227 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATGTCCCGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATGTCCCGACA
* *
98085292 TGGTCTTATA-GGGACCTCTC-ATC-T-CGG-TGCCAAC
65 TGGTCTTACAGGGGACCTCTCAATCTTAAGGATGCCAAC
*
98085326 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATGTCCC-GAC
*
98085390 ATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
64 ATGGTCTTACAGGGGACCTCTCA--ATCTTAAGGATGCCAAC
*
98085432 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
98085467 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
97 1 0.01
98 25 0.20
99 43 0.34
100 10 0.08
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.32
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.27
Consensus pattern (103 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGTCCCGACAT
GGTCTTACAGGGGACCTCTCAATCTTAAGGATGCCAAC
Found at i:98085581 original size:13 final size:13
Alignment explanation
Indices: 98085560--98085591 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
98085550 GCTTGGATCA
*
98085560 TCATCAAATAAAT
1 TCATAAAATAAAT
98085573 TCATAAAATAAAT
1 TCATAAAATAAAT
98085586 TCATAA
1 TCATAA
98085592 TTTCTGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:98085829 original size:29 final size:29
Alignment explanation
Indices: 98085797--98085852 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
98085787 CCTCGACTCT
*
98085797 AACTTTTTCAAAATTACAATTTTCCCCTA
1 AACTTTTACAAAATTACAATTTTCCCCTA
* *
98085826 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACAATTTTCCCC
98085853 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (29 bp):
AACTTTTACAAAATTACAATTTTCCCCTA
Found at i:98089462 original size:29 final size:30
Alignment explanation
Indices: 98089403--98089460 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
98089393 TCCGAGCCTT
*
98089403 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
98089433 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
98089461 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:98089690 original size:13 final size:13
Alignment explanation
Indices: 98089672--98089703 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
98089662 TTTCCAGCAA
98089672 TTATGAATTTATT
1 TTATGAATTTATT
98089685 TTATGAATTTATT
1 TTATGAATTTATT
*
98089698 TGATGA
1 TTATGA
98089704 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:98089911 original size:50 final size:50
Alignment explanation
Indices: 98089798--98090039 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
98089788 ATTTGGGTAA
* * *
98089798 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
98089854 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
98089904 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
98089954 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
98090004 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
98090040 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:98089987 original size:100 final size:103
Alignment explanation
Indices: 98089798--98090047 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
98089788 ATTTGGGTAA
98089798 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
98089863 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
98089904 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
98089966 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
98090004 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
98090048 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:98101376 original size:66 final size:66
Alignment explanation
Indices: 98101270--98101400 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
98101260 CAAAAGGTTT
* *
98101270 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
98101335 G
66 G
* *
98101336 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
98101401 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:98101668 original size:16 final size:16
Alignment explanation
Indices: 98101641--98101674 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
98101631 ATTTTAGTAA
98101641 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
98101658 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
98101673 AT
1 AT
98101675 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:98101703 original size:47 final size:47
Alignment explanation
Indices: 98101652--98101796 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
98101642 TTATATAAGA
*
98101652 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
98101699 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
98101743 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
98101790 ATATTTA
1 ATATTTA
98101797 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:98101763 original size:44 final size:43
Alignment explanation
Indices: 98101638--98101764 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
98101628 ATGATTTTAG
98101638 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
98101684 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
98101728 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
98101765 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:98101929 original size:43 final size:42
Alignment explanation
Indices: 98101882--98102048 Score: 93
Period size: 37 Copynumber: 4.1 Consensus size: 42
98101872 AATAATTATG
*
98101882 TTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAA
1 TTAA-TTATATTTTACAGTATCATATATTATAATTTCAGTAAA
* * * * *
98101925 TTAA-TATA----AGAATATTA-ATTATTAAAATTTCATTAAA
1 TTAATTATATTTTACAGTATCATA-TATTATAATTTCAGTAAA
* ** * * * **
98101962 TT-A-TATATTTTA-ATTAAAATATATT-TAATAATAATTATG
1 TTAATTATATTTTACAGTATCATATATTATAAT-TTCAGTAAA
*
98102001 TTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAA
1 TTAA-TTATATTTTACAGTATCATATATTATAATTTCAGTAAA
98102044 TTAAT
1 TTAAT
98102049 ATAAGAATAT
Statistics
Matches: 89, Mismatches: 23, Indels: 25
0.65 0.17 0.18
Matches are distributed among these distances:
36 6 0.07
37 23 0.26
38 3 0.03
39 15 0.17
40 3 0.03
41 4 0.04
42 10 0.11
43 22 0.25
44 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.49
Consensus pattern (42 bp):
TTAATTATATTTTACAGTATCATATATTATAATTTCAGTAAA
Found at i:98102165 original size:120 final size:119
Alignment explanation
Indices: 98101861--98102241 Score: 712
Period size: 120 Copynumber: 3.2 Consensus size: 119
98101851 TTTTCAAGTT
98101861 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
98101926 TAATATAAGAATATTAATTATTAA-AATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTT-ATTAAATTATATATTTTAATTAAA
98101980 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
98102045 TAATATAAGAATATTAATTATTAAGAAGTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAA
*
98102100 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAATAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
98102165 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAA-TAAA
66 TAATATAAGAATATTAATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAA
98102219 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
98102242 TAAATATGAT
Statistics
Matches: 258, Mismatches: 2, Indels: 4
0.98 0.01 0.02
Matches are distributed among these distances:
119 116 0.45
120 139 0.54
121 3 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (119 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTATTAAATTATATATTTTAATTAAA
Found at i:98102211 original size:17 final size:17
Alignment explanation
Indices: 98102191--98102224 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98102181 ATTATTAAGA
* *
98102191 ATTTTATTAAATTATAT
1 ATTTTAATAAAATATAT
98102208 ATTTTAATAAAATATAT
1 ATTTTAATAAAATATAT
98102225 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATAAAATATAT
Found at i:98102224 original size:15 final size:16
Alignment explanation
Indices: 98102204--98102244 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
98102194 TTATTAAATT
98102204 ATATATTTTAATAA-A
1 ATATATTTTAATAATA
98102219 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
98102234 AT-TATGTTTAA
1 ATATAT-TTTAA
98102245 ATATGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 10 0.43
15 8 0.35
16 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:98102454 original size:44 final size:45
Alignment explanation
Indices: 98102390--98102474 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 45
98102380 CCTCTATTCC
* *
98102390 ATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTAT
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
***
98102434 ATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCA
1 ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCA
98102475 ATACACCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 18 0.51
45 17 0.49
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
ATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCATTAT
Found at i:98102481 original size:16 final size:16
Alignment explanation
Indices: 98102460--98102528 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
98102450 GATTAGCTAT
98102460 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
98102476 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
98102493 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
98102509 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
98102525 TACA
1 TACA
98102529 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:98102502 original size:33 final size:32
Alignment explanation
Indices: 98102460--98102528 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
98102450 GATTAGCTAT
98102460 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
98102493 TACACCTCTAATCCAATACATCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
98102525 TACA
1 TACA
98102529 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:98110236 original size:41 final size:40
Alignment explanation
Indices: 98110186--98110274 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
98110176 TGCATATATA
* * *
98110186 ATATATAATTTATTAAGAAATTAAAAAATAAGATTATAAAT
1 ATATATAATTTATCAAGAAAGT-AAAAATAAGACTATAAAT
* *
98110227 ATATATAATTTATCAAGAAAGTAAATATGAGACTATAAAT
1 ATATATAATTTATCAAGAAAGTAAAAATAAGACTATAAAT
98110267 ATATATAA
1 ATATATAA
98110275 AAATATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 23 0.53
41 20 0.47
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (40 bp):
ATATATAATTTATCAAGAAAGTAAAAATAAGACTATAAAT
Found at i:98110287 original size:21 final size:20
Alignment explanation
Indices: 98110263--98110322 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
98110253 ATGAGACTAT
98110263 AAATATATATAAAAATATTAA
1 AAATATATAT-AAAATATTAA
**
98110284 AAATATCGAT-AAAT-TT-A
1 AAATATATATAAAATATTAA
98110301 AAATAATATATCAAAATATTAA
1 AAAT-ATATAT-AAAATATTAA
98110323 TACGTATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 4 0.13
20 4 0.13
21 10 0.33
22 1 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATATATATAAAATATTAA
Found at i:98113788 original size:17 final size:17
Alignment explanation
Indices: 98113766--98113809 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
98113756 TTGTAGTGTC
98113766 TATTTATAATTTAAT-TA
1 TATTTATAA-TTAATATA
*
98113783 TATTTAATAATTAATATT
1 TATTT-ATAATTAATATA
98113801 TATTTATAA
1 TATTTATAA
98113810 GCCCATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTATAATTAATATA
Found at i:98126328 original size:29 final size:30
Alignment explanation
Indices: 98126265--98126328 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
98126255 GTTTAATGAG
*
98126265 CAATTGTATATATGAATGTTGATTTTGTAC
1 CAATTGTATATATGAATGTTGATTTAGTAC
* *
98126295 AAATT-TATATATGAAATTTTGATTTAGT-C
1 CAATTGTATATATG-AATGTTGATTTAGTAC
98126324 CAATT
1 CAATT
98126329 CTTGTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (30 bp):
CAATTGTATATATGAATGTTGATTTAGTAC
Found at i:98127620 original size:19 final size:19
Alignment explanation
Indices: 98127577--98127620 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
98127567 TGAGTCGATC
*
98127577 TAAAATTTTAGATTTATCT
1 TAAAAATTTAGATTTATCT
*
98127596 TTAAAATTTAGATTTGAT-T
1 TAAAAATTTAGATTT-ATCT
98127615 TAAAAA
1 TAAAAA
98127621 ATGTGTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TAAAAATTTAGATTTATCT
Found at i:98129625 original size:3 final size:3
Alignment explanation
Indices: 98129610--98129641 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
98129600 AACTGATCAT
*
98129610 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
98129642 CCATAGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:98138600 original size:3 final size:3
Alignment explanation
Indices: 98138562--98138622 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
98138552 AAATTATATA
* *
98138562 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
*
98138606 TAT TAA TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
98138623 AATAAATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 6 0.13
3 35 0.74
4 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:98138619 original size:19 final size:19
Alignment explanation
Indices: 98138554--98138617 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
98138544 TTTTATTTAA
98138554 ATTATATATATTA-TATTAT
1 ATTATATA-ATTATTATTAT
98138573 ATTATATAATTGATTATTAT
1 ATTATATAATT-ATTATTAT
98138593 AATTAT-TAATTATTATTAAT
1 -ATTATATAATTATTATT-AT
98138613 ATTAT
1 ATTAT
98138618 TATTAAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.07
19 20 0.49
20 13 0.32
21 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTATATAATTATTATTAT
Found at i:98138632 original size:31 final size:31
Alignment explanation
Indices: 98138572--98138632 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
98138562 TATTATATTA
*
98138572 TATTATATAATTGATTATTATAATTATTAAT
1 TATTATATAATTGATTATTATAATAATTAAT
*
98138603 TATTAT-TAATATTATTATTA-AATAAATTAA
1 TATTATATAAT-TGATTATTATAAT-AATTAA
98138633 ATAGTAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (31 bp):
TATTATATAATTGATTATTATAATAATTAAT
Found at i:98139034 original size:33 final size:33
Alignment explanation
Indices: 98138997--98139066 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
98138987 TATTTGTATA
*
98138997 ATTATAATATT-TTATTTAAATT-AGTAGATATTT
1 ATTAT-ATATTGTTATTAAAATTAAG-AGATATTT
*
98139030 ATTATTTATTGTTATTAAAATTAAGAGATATTT
1 ATTATATATTGTTATTAAAATTAAGAGATATTT
98139063 ATTA
1 ATTA
98139067 ATTAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 27 0.82
34 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (33 bp):
ATTATATATTGTTATTAAAATTAAGAGATATTT
Found at i:98139230 original size:16 final size:16
Alignment explanation
Indices: 98139209--98139261 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
98139199 TATTTATTAT
98139209 TAAATATAA-TATAAAG
1 TAAATA-AAGTATAAAG
*
98139225 TAAATAAAGTAAAAAG
1 TAAATAAAGTATAAAG
*
98139241 -AAATAAAGTATAAAA
1 TAAATAAAGTATAAAG
98139256 TAAATA
1 TAAATA
98139262 GAAACAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (16 bp):
TAAATAAAGTATAAAG
Found at i:98140105 original size:41 final size:40
Alignment explanation
Indices: 98140037--98140118 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
98140027 AATTATGGGA
** *
98140037 TACTGAATATTATTTTGAATATCGAATTGAATTGTGAAAAT
1 TACTGAATATTATTACGAATATCGAATTGAACTGT-AAAAT
*
98140078 TACTGAATATTATTACGTATA-CTGAATTGAACTGTAAAAT
1 TACTGAATATTATTACGAATATC-GAATTGAACTGTAAAAT
98140118 T
1 T
98140119 TCTAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 7 0.19
41 29 0.81
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (40 bp):
TACTGAATATTATTACGAATATCGAATTGAACTGTAAAAT
Found at i:98140382 original size:45 final size:45
Alignment explanation
Indices: 98140332--98140430 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
98140322 CGACTACTGT
* * * *
98140332 TACTGTTACCGTTACTGTTGCCGTTTCAATACTTTGTATGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTATGTCGAA
* * *
98140377 TACTGTTACCGTTACTGTTATAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTATGTCGAA
98140422 TACTGTTAC
1 TACTGTTAC
98140431 TATTACCGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTATGTCGAA
Found at i:98142743 original size:21 final size:20
Alignment explanation
Indices: 98142711--98142750 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
98142701 TCTACTATTC
*
98142711 TCTCTTGTTTATTATATAAT
1 TCTCTTGTTTATAATATAAT
98142731 TCTCTTAGTTTATAATATAA
1 TCTCTT-GTTTATAATATAA
98142751 GCTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (20 bp):
TCTCTTGTTTATAATATAAT
Found at i:98146483 original size:23 final size:24
Alignment explanation
Indices: 98146444--98146491 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
98146434 TTAGGTTGGC
98146444 TTTCTTTAAAAAAAAATTATTATTT
1 TTTCTTT-AAAAAAAATTATTATTT
98146469 TTTCTTT-AAAAAAATTATTATTT
1 TTTCTTTAAAAAAAATTATTATTT
98146492 ACTTTGTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 16 0.70
25 7 0.30
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TTTCTTTAAAAAAAATTATTATTT
Found at i:98149684 original size:37 final size:39
Alignment explanation
Indices: 98149593--98149686 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 39
98149583 GACCTCGAGT
**
98149593 CGATGAGACACTGAGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTG-G-GTCATACTGTTACTTCGGATAGAGC
** *
98149634 CGATGAGGTACTGGGT-ACTACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTCA-TACTGTTACTTCGGATAGAGC
98149671 CGATGAGACACTGGGT
1 CGATGAGACACTGGGT
98149687 GTTAACTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 14 0.31
38 13 0.29
39 6 0.13
40 1 0.02
41 11 0.24
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTCATACTGTTACTTCGGATAGAGC
Found at i:98149695 original size:38 final size:38
Alignment explanation
Indices: 98149593--98149725 Score: 108
Period size: 38 Copynumber: 3.4 Consensus size: 38
98149583 GACCTCGAGT
* * * *
98149593 CGATGAGACACTGAGTGTCATACTGTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTTA-ACT-TTACTTCGGCTAG-TC
** ** *
98149634 CGATGAGGTACTGGGTACT-ACTTTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGTC
* *
98149671 CGATGAGACACTGGGTGTTAACTTTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTTAACTTTACTTCG-GCTAGTC
*
98149709 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
98149726 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 15 0.21
38 39 0.53
39 6 0.08
41 13 0.18
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTTAACTTTACTTCGGCTAGTC
Found at i:98156306 original size:16 final size:17
Alignment explanation
Indices: 98156274--98156306 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
98156264 GACACATATG
98156274 TAAGCTACAGTCAAGCCC
1 TAAGCTACAG-CAAGCCC
98156292 TAAGCTACA-CAAGCC
1 TAAGCTACAGCAAGCC
98156307 AAGCTCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (17 bp):
TAAGCTACAGCAAGCCC
Found at i:98165352 original size:20 final size:20
Alignment explanation
Indices: 98165324--98165362 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
98165314 TTGGCCCTTT
* *
98165324 TGGACTTAGGGAGAGAAGTG
1 TGGACTTAGAGAGAAAAGTG
*
98165344 TGGATTTAGAGAGAAAAGT
1 TGGACTTAGAGAGAAAAGT
98165363 TGGGTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.23
Consensus pattern (20 bp):
TGGACTTAGAGAGAAAAGTG
Found at i:98170172 original size:21 final size:21
Alignment explanation
Indices: 98170148--98170197 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
98170138 GCGGTGGCGA
* *
98170148 TGAGATTAGTTACTGTAGCGG
1 TGAGATTAGATACTGTAGCAG
*
98170169 TGAGATTGGATACTGTAGCAG
1 TGAGATTAGATACTGTAGCAG
98170190 TGAGATTA
1 TGAGATTA
98170198 AAAAGAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCAG
Found at i:98173021 original size:21 final size:21
Alignment explanation
Indices: 98172995--98173077 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
98172985 TGATCAGTAT
*
98172995 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
98173016 ACGACACACGAGGTGTCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
98173037 ACGACACACGAGGTGCTTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
98173059 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
98173078 GATCGATAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
21 31 0.67
22 1 0.02
23 14 0.30
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:98173498 original size:30 final size:29
Alignment explanation
Indices: 98173451--98173507 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
98173441 CATATATATT
*
98173451 AAATAATTCAATCAATATAAATTCAATCA
1 AAATAATTCAATAAATATAAATTCAATCA
98173480 AAATAATTTCAATAAATATAAATTCAAT
1 AAATAA-TTCAATAAATATAAATTCAAT
98173508 AAATTCATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (29 bp):
AAATAATTCAATAAATATAAATTCAATCA
Found at i:98173508 original size:15 final size:15
Alignment explanation
Indices: 98173455--98173511 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
98173445 TATATTAAAT
*
98173455 AATTCAATCAATATA
1 AATTCAATAAATATA
98173470 AATTCAATCAAA-ATA
1 AATTCAAT-AAATATA
*
98173485 ATTTCAATAAATATA
1 AATTCAATAAATATA
98173500 AATTCAATAAAT
1 AATTCAATAAAT
98173512 TCATCGCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 32 0.86
16 2 0.05
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTCAATAAATATA
Found at i:98174608 original size:13 final size:13
Alignment explanation
Indices: 98174590--98174622 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
98174580 TAATTTCATC
98174590 AAAACTTTGTTCT
1 AAAACTTTGTTCT
98174603 AAAACTTTGTTCT
1 AAAACTTTGTTCT
98174616 AAAACTT
1 AAAACTT
98174623 CTAAAACATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (13 bp):
AAAACTTTGTTCT
Found at i:98176784 original size:12 final size:13
Alignment explanation
Indices: 98176767--98176801 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
98176757 AGATATTTAC
98176767 TTATTATTAT-TT
1 TTATTATTATATT
98176779 TTATTATTATATT
1 TTATTATTATATT
98176792 TTATCTATTA
1 TTAT-TATTA
98176802 ATTGAGATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 6 0.29
14 5 0.24
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:98178374 original size:13 final size:13
Alignment explanation
Indices: 98178358--98178382 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98178348 TGAATTTATA
98178358 TGTATGATTTGTG
1 TGTATGATTTGTG
98178371 TGTATGATTTGT
1 TGTATGATTTGT
98178383 TAATTATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (13 bp):
TGTATGATTTGTG
Found at i:98185465 original size:39 final size:40
Alignment explanation
Indices: 98185373--98185470 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 40
98185363 AAGATATTTT
* *
98185373 TTATATA-AAAAT-ATATATTATATATTATATTAACTTAA
1 TTATATATAATATAATATATAATATATTATATTAACTTAA
98185411 -TAT-T-TAAGTATTAATATATAATATATTATATT-A-TTATA
1 TTATATATAA-TA-TAATATATAATATATTATATTAACTTA-A
98185449 TTATATATAATATAATATATAA
1 TTATATATAATATAATATATAA
98185471 AACATAAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
36 3 0.06
37 7 0.14
38 3 0.06
39 31 0.62
40 3 0.06
41 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (40 bp):
TTATATATAATATAATATATAATATATTATATTAACTTAA
Found at i:98185470 original size:7 final size:7
Alignment explanation
Indices: 98185382--98185470 Score: 55
Period size: 7 Copynumber: 13.3 Consensus size: 7
98185372 TTTATATAAA
98185382 AATATAT
1 AATATAT
*
98185389 ATTATAT
1 AATATAT
*
98185396 ATTATATT
1 AATATA-T
*
98185404 AA-CT-T
1 AATATAT
*
98185409 AATATTT
1 AATATAT
98185416 AAGTAT-T
1 AA-TATAT
98185423 AATATAT
1 AATATAT
98185430 AATATAT
1 AATATAT
*
98185437 TATAT-T
1 AATATAT
*
98185443 ATTATAT
1 AATATAT
*
98185450 TATATAT
1 AATATAT
98185457 -A-ATAT
1 AATATAT
98185462 AATATAT
1 AATATAT
98185469 AA
1 AA
98185471 AACATAAGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 7 0.11
6 10 0.15
7 43 0.66
8 5 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
AATATAT
Found at i:98186633 original size:29 final size:30
Alignment explanation
Indices: 98186601--98186657 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
98186591 GCGCTCTCTG
98186601 ATTATTAGCACATT-AGTGCTCTCTGTTCT
1 ATTATTAGCACATTAAGTGCTCTCTGTTCT
*
98186630 ATTATTAGCACGTTAAGTGCTCTCTGTT
1 ATTATTAGCACATTAAGTGCTCTCTGTT
98186658 TAGCATATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAGTGCTCTCTGTTCT
Found at i:98186673 original size:22 final size:22
Alignment explanation
Indices: 98186634--98186702 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
98186624 TGTTCTATTA
*
98186634 TTAGCACGTTAAGTGCTCTCTGT
1 TTAGCAC-TTTAGTGCTCTCTGT
98186657 TTAGCA-TATCT-GTGCTCTCTGT
1 TTAGCACT-T-TAGTGCTCTCTGT
*
98186679 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACTTTAGTGCTCTCTGT
98186701 TT
1 TT
98186703 GTTTGTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.05
22 30 0.77
23 7 0.18
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (22 bp):
TTAGCACTTTAGTGCTCTCTGT
Found at i:98187554 original size:13 final size:13
Alignment explanation
Indices: 98187536--98187570 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
98187526 TGTATGTGAA
98187536 ATTGAATTGTATG
1 ATTGAATTGTATG
98187549 ATTGAATTGTATG
1 ATTGAATTGTATG
98187562 ATTGAATTG
1 ATTGAATTG
98187571 AGTAATGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
ATTGAATTGTATG
Found at i:98194185 original size:21 final size:21
Alignment explanation
Indices: 98194159--98194230 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
98194149 GACACATAAA
*
98194159 TGCCTGAAACGACACACGAGG
1 TGCCTGAAACGACACACAAGG
***
98194180 TGCCTGCTGCGACACACAAGG
1 TGCCTGAAACGACACACAAGG
* * *
98194201 TGCCTAAAATACGACACATAAAG
1 TGCCT-GAA-ACGACACACAAGG
98194224 TGCCTGA
1 TGCCTGA
98194231 TCAGTAAAGC
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
21 22 0.58
22 1 0.03
23 15 0.39
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (21 bp):
TGCCTGAAACGACACACAAGG
Found at i:98194447 original size:23 final size:24
Alignment explanation
Indices: 98194421--98194515 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
98194411 AAATGTCCAA
98194421 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
98194444 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
98194472 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
98194501 CCAAAACACACCAGA
1 CCAAAACACACCAGA
98194516 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:98194517 original size:29 final size:28
Alignment explanation
Indices: 98194435--98194518 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
98194425 AACACACCAG
* *
98194435 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
98194463 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
98194491 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
98194519 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:98200628 original size:12 final size:12
Alignment explanation
Indices: 98200609--98200656 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
98200599 TAGTAATACT
98200609 TTTGAAAAGTGC
1 TTTGAAAAGTGC
*
98200621 TGTGAAAAAGTGC
1 TTTG-AAAAGTGC
*
98200634 TTTTGAGAAGTGC
1 -TTTGAAAAGTGC
98200647 TTTGAAAAGT
1 TTTGAAAAGT
98200657 TTGGTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 12 0.40
13 15 0.50
14 3 0.10
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (12 bp):
TTTGAAAAGTGC
Found at i:98206551 original size:21 final size:22
Alignment explanation
Indices: 98206527--98206577 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
98206517 CTTACCTAAA
*
98206527 AATTTTAAATAT-TTTTTTACT
1 AATTTTAAATATATTTTTTAAT
*
98206548 AATTTTTAATATATTTTTTAAT
1 AATTTTAAATATATTTTTTAAT
*
98206570 ATTTTTAA
1 AATTTTAA
98206578 GTACTAACGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTTTAAATATATTTTTTAAT
Found at i:98206553 original size:10 final size:11
Alignment explanation
Indices: 98206528--98206577 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
98206518 TTACCTAAAA
*
98206528 ATTTTAAATAT
1 ATTTTTAATAT
* *
98206539 TTTTTTACTA-
1 ATTTTTAATAT
98206549 ATTTTTAATAT
1 ATTTTTAATAT
*
98206560 ATTTTTTA-AT
1 ATTTTTAATAT
98206570 ATTTTTAA
1 ATTTTTAA
98206578 GTACTAACGT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 17 0.55
11 14 0.45
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:98207661 original size:20 final size:20
Alignment explanation
Indices: 98207638--98207702 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
98207628 TCTTAAAAGT
98207638 ATATTTATTTTTCTATTTTG
1 ATATTTATTTTTCTATTTTG
* ** *
98207658 ATATTCA--AATC-ATTTTTT
1 ATATTTATTTTTCTA-TTTTG
98207676 ATATTTATTTTTCTATTTTG
1 ATATTTATTTTTCTATTTTG
98207696 ATATTTA
1 ATATTTA
98207703 AATCATTTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 1 0.03
18 12 0.36
20 19 0.58
21 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (20 bp):
ATATTTATTTTTCTATTTTG
Found at i:98207688 original size:38 final size:38
Alignment explanation
Indices: 98207637--98207711 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
98207627 CTCTTAAAAG
98207637 TATATTTATTTTTCTATTTTGATATTCAAATCATTTTT
1 TATATTTATTTTTCTATTTTGATATTCAAATCATTTTT
*
98207675 TATATTTATTTTTCTATTTTGATATTTAAATCATTTT
1 TATATTTATTTTTCTATTTTGATATTCAAATCATTTT
98207712 GTCTTAGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.64
Consensus pattern (38 bp):
TATATTTATTTTTCTATTTTGATATTCAAATCATTTTT
Found at i:98207918 original size:16 final size:16
Alignment explanation
Indices: 98207888--98207918 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98207878 GTATAAACTA
*
98207888 TAAAATTTTATAAAAC
1 TAAAATTTTAAAAAAC
98207904 TAAAATTTTAAAAAA
1 TAAAATTTTAAAAAA
98207919 TACGATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTTTAAAAAAC
Found at i:98212420 original size:4 final size:4
Alignment explanation
Indices: 98212411--98212440 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
98212401 AAAAACCCCA
*
98212411 TATG TATG TATG TATG TATG TATG AATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
98212441 AGGCTTCTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:98217687 original size:28 final size:29
Alignment explanation
Indices: 98217651--98217708 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
98217641 CAGCAAATTT
*
98217651 AAATCTAATTTTCTA-CTTTTATTTTAAA
1 AAATCTAATTTTCTATCTTTTAATTTAAA
* * *
98217679 AAATTTAATTTTTTATTTTTTAATTTAAA
1 AAATCTAATTTTCTATCTTTTAATTTAAA
98217708 A
1 A
98217709 GTTCAGCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
AAATCTAATTTTCTATCTTTTAATTTAAA
Found at i:98219163 original size:23 final size:24
Alignment explanation
Indices: 98219117--98219163 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
98219107 ATTTGGATGC
*
98219117 ATATATATATTTAATAATTTTTAAA
1 ATATATATATTTAATAA-TGTTAAA
*
98219142 ATATATATATTTGATAA-GTTAA
1 ATATATATATTTAATAATGTTAA
98219164 TAGATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATATATATTTAATAATGTTAAA
Found at i:98219827 original size:19 final size:20
Alignment explanation
Indices: 98219799--98219837 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
98219789 TCCCATTATT
98219799 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
98219818 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
98219838 ATGTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:98226062 original size:19 final size:20
Alignment explanation
Indices: 98226034--98226072 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
98226024 TCCCATTATT
98226034 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
98226053 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
98226073 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:98226090 original size:25 final size:23
Alignment explanation
Indices: 98226053--98226098 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
98226043 TTTGTTTTAA
*
98226053 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
98226076 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
98226099 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:98228123 original size:14 final size:15
Alignment explanation
Indices: 98228105--98228143 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
98228095 CTTTATTCAT
*
98228105 TTTTTTCAAATAATA
1 TTTTTTAAAATAATA
*
98228120 TTTTTTAAAACAATA
1 TTTTTTAAAATAATA
98228135 TTTTTTAAA
1 TTTTTTAAA
98228144 TAGATTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTTTAAAATAATA
Found at i:98228402 original size:21 final size:21
Alignment explanation
Indices: 98228378--98228428 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
98228368 TCATTTTGAA
*
98228378 ATTTTTTTAATAATTAAG-TTT
1 ATTTTTTTAA-AATTAAGAGTT
98228399 ATTTTCTTT-AAATTAAGAGTT
1 ATTTT-TTTAAAATTAAGAGTT
98228420 ATTTTTTTA
1 ATTTTTTTA
98228429 TTCTCGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 10 0.38
21 13 0.50
22 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTTTTAAAATTAAGAGTT
Found at i:98237030 original size:17 final size:16
Alignment explanation
Indices: 98237006--98237039 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
98236996 ACCCAGATGG
*
98237006 AAAATATCAGTCCTCT
1 AAAATATCAGACCTCT
98237022 AAAATTATCAGACCTCT
1 AAAA-TATCAGACCTCT
98237039 A
1 A
98237040 GAAAACAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAATATCAGACCTCT
Found at i:98238704 original size:21 final size:21
Alignment explanation
Indices: 98238676--98238722 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
98238666 TTTGATTATC
98238676 ATTT-TACATATT-TTAAAATA
1 ATTTATACA-ATTATTAAAATA
*
98238696 ATTTATACAATTATTTAAATA
1 ATTTATACAATTATTAAAATA
*
98238717 TTTTAT
1 ATTTAT
98238723 TGAGCTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTATACAATTATTAAAATA
Found at i:98246107 original size:3 final size:3
Alignment explanation
Indices: 98246099--98246128 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98246089 ATCAATACCT
98246099 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
98246129 AAGTCAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:98261700 original size:3 final size:3
Alignment explanation
Indices: 98261692--98261721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98261682 ATCAATACCT
98261692 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
98261722 AAGTCAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:98267061 original size:30 final size:30
Alignment explanation
Indices: 98267026--98267085 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
98267016 GATGAGTCCC
98267026 TTCAGCATGGTTGACCAATTTGAGGTTTAA
1 TTCAGCATGGTTGACCAATTTGAGGTTTAA
98267056 TTCAGCATGGTTGACCAATTTGAGGTTTAA
1 TTCAGCATGGTTGACCAATTTGAGGTTTAA
98267086 CTCGTTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (30 bp):
TTCAGCATGGTTGACCAATTTGAGGTTTAA
Found at i:98271169 original size:15 final size:15
Alignment explanation
Indices: 98271147--98271180 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
98271137 CAAATTAGGT
98271147 TTAT-AATTATTATA
1 TTATAAATTATTATA
*
98271161 TTATAAATTTTTATA
1 TTATAAATTATTATA
98271176 TTATA
1 TTATA
98271181 TTTTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATAAATTATTATA
Found at i:98280106 original size:18 final size:18
Alignment explanation
Indices: 98280083--98280120 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
98280073 TACCACTAAA
98280083 TTAATAATTT-ATTTTAAT
1 TTAAT-ATTTAATTTTAAT
98280101 TTAATATTTACATTTTAAT
1 TTAATATTTA-ATTTTAAT
98280120 T
1 T
98280121 GTATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 5 0.28
19 9 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATATTTAATTTTAAT
Found at i:98282037 original size:27 final size:28
Alignment explanation
Indices: 98282007--98282076 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
98281997 TATTTATATA
98282007 TATATATAAATATTAAAAGAAAAAAAT-
1 TATATATAAATATTAAAAGAAAAAAATC
**
98282034 TATA-ATAAAATATT-ATTGAAAAAAATC
1 TATATAT-AAATATTAAAAGAAAAAAATC
*
98282061 TATATATATAT-TTAAA
1 TATATATAAATATTAAA
98282077 GAATCATGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
26 14 0.40
27 19 0.54
28 2 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (28 bp):
TATATATAAATATTAAAAGAAAAAAATC
Found at i:98285125 original size:29 final size:29
Alignment explanation
Indices: 98285058--98285124 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
98285048 ACTTAAAGTA
98285058 TACTCTTTTTCTCATCTTAATATCTAAAC
1 TACTCTTTTTCTCATCTTAATATCTAAAC
98285087 TACTCTTTTTCTCATCTTAATATCTAAAC
1 TACTCTTTTTCTCATCTTAATATCTAAAC
*
98285116 T-CTTTTTTT
1 TACTCTTTTT
98285125 TTCTGTCATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 7 0.19
29 30 0.81
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (29 bp):
TACTCTTTTTCTCATCTTAATATCTAAAC
Found at i:98298825 original size:40 final size:40
Alignment explanation
Indices: 98298770--98298856 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
98298760 TACGCCCCTG
98298770 TTTCTCATCCCTTTCCAATAGGAGAATGACAAAGTAAATT
1 TTTCTCATCCCTTTCCAATAGGAGAATGACAAAGTAAATT
*
98298810 TTTCTCATCCCTTTCCAATAGGAGAATGACAAATTAAATT
1 TTTCTCATCCCTTTCCAATAGGAGAATGACAAAGTAAATT
98298850 TTTCTCA
1 TTTCTCA
98298857 GTATTTTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (40 bp):
TTTCTCATCCCTTTCCAATAGGAGAATGACAAAGTAAATT
Found at i:98299628 original size:20 final size:18
Alignment explanation
Indices: 98299550--98299637 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 18
98299540 TTTATTGTAA
* *
98299550 TTTAAAATAATTTAATTTT
1 TTTAAAA-ATTTTAATTAT
*
98299569 TTTAATAATTCTTAATTAT
1 TTTAAAAATT-TTAATTAT
*
98299588 TTTAAAATATTTTTATATAT
1 TTTAAAA-ATTTTAAT-TAT
98299608 TTTAAAAATTTAATAATTAT
1 TTTAAAAATTT--TAATTAT
*
98299628 TTGAAAAATT
1 TTTAAAAATT
98299638 GCATCCAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.04
19 27 0.47
20 25 0.44
21 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (18 bp):
TTTAAAAATTTTAATTAT
Found at i:98305304 original size:14 final size:14
Alignment explanation
Indices: 98305282--98305314 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
98305272 AGGTCATTTA
*
98305282 GCCCAACCAAACTG
1 GCCCGACCAAACTG
98305296 GCCCGACCAAACTG
1 GCCCGACCAAACTG
98305310 GCCCG
1 GCCCG
98305315 GTGATTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.45, G:0.21, T:0.06
Consensus pattern (14 bp):
GCCCGACCAAACTG
Found at i:98310411 original size:14 final size:14
Alignment explanation
Indices: 98310392--98310423 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
98310382 AGGTCATTTA
98310392 GCCCAACCAAACTG
1 GCCCAACCAAACTG
98310406 GCCCAACCAAACTG
1 GCCCAACCAAACTG
98310420 GCCC
1 GCCC
98310424 GGTGATTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:98317775 original size:47 final size:47
Alignment explanation
Indices: 98317719--98317821 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
98317709 GTCGATGAGA
* *
98317719 CACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTCCGATGAAG
1 CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTCCAATGAAG
* * *
98317766 TACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTCCAATGAAG
1 CACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTCCAATGAAG
98317813 CACTATGTG
1 CACTATGTG
98317822 CTTATCCCGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (47 bp):
CACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTCCAATGAAG
Found at i:98319604 original size:30 final size:30
Alignment explanation
Indices: 98319568--98319627 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
98319558 TTCCCGAGCC
98319568 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
98319598 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
98319628 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:98325082 original size:39 final size:39
Alignment explanation
Indices: 98325039--98325151 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
98325029 TCGGATAGTT
*
98325039 CGAAGTAATAGTTGACATCCAGTGTCTCATCGACCTAGC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
** ** * *
98325078 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCG-ACCTAGC
*
98325117 CGAAGAAATA-TAGTGACACCCAGTGTCTCATCGAC
1 CGAAGTAATAGT--TGACACCCAGTGTCTCATCGAC
98325152 TCGAGGTCGA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
38 18 0.32
39 21 0.37
40 2 0.04
41 16 0.28
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (39 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCGACCTAGC
Found at i:98326730 original size:5 final size:5
Alignment explanation
Indices: 98326720--98326749 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
98326710 TTTATATATA
98326720 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
98326750 GTACTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:98329658 original size:11 final size:11
Alignment explanation
Indices: 98329644--98329693 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
98329634 TTTCAATATT
98329644 CTCTCAAATTC
1 CTCTCAAATTC
98329655 CTCTCAAA-T-
1 CTCTCAAATTC
*
98329664 CTCTCAAATTT
1 CTCTCAAATTC
* *
98329675 GTCTTAAATTC
1 CTCTCAAATTC
*
98329686 TTCTCAAA
1 CTCTCAAA
98329694 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 8 0.25
10 2 0.06
11 22 0.69
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.40
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:98329683 original size:20 final size:21
Alignment explanation
Indices: 98329636--98329693 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
98329626 CTTCAATCTT
98329636 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
**
98329658 TCAAA-TCTCTCAAATTTGTC
1 TCAAATTCTCTCAAATTCCTC
*
98329678 TTAAATTCTTCTCAAA
1 TCAAATTC-TCTCAAA
98329694 ACTCTCGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 17 0.55
21 3 0.10
22 11 0.35
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Done.