Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 113 of 325
Found at i:35796842 original size:3 final size:3
Alignment explanation
Indices: 35796834--35796926 Score: 125
Period size: 3 Copynumber: 30.7 Consensus size: 3
35796824 CTTTATTAAA
* * * *
35796834 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAC TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35796879 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
35796925 TA
1 TA
35796927 GTGTATATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.01
3 75 0.95
4 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:35796953 original size:6 final size:6
Alignment explanation
Indices: 35796942--35796966 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35796932 TATTTTTTAT
35796942 TGTATA TGTATA TGTATA TGTATA T
1 TGTATA TGTATA TGTATA TGTATA T
35796967 ATATTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TGTATA
Found at i:35797057 original size:3 final size:3
Alignment explanation
Indices: 35797049--35797084 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
35797039 ATATGATCAC
35797049 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
35797085 ATGTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:35797235 original size:29 final size:29
Alignment explanation
Indices: 35797203--35797266 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
35797193 TGATTACTAT
*
35797203 TATTATTATCAT-TAT-TATATATTATAGTA
1 TATTATTATCATATATGTATAT-GTATA-TA
* *
35797232 TATTTTTATTATATATGTATATGTATATA
1 TATTATTATCATATATGTATATGTATATA
35797261 TATTAT
1 TATTAT
35797267 ATATAGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 17 0.59
30 7 0.24
31 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (29 bp):
TATTATTATCATATATGTATATGTATATA
Found at i:35797242 original size:23 final size:25
Alignment explanation
Indices: 35797214--35797275 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
35797204 ATTATTATCA
35797214 TTATTATATAT-TATA-GTATATTT
1 TTATTATATATGTATATGTATATTT
35797237 TTATTATATATGTATATGTATA--T
1 TTATTATATATGTATATGTATATTT
*
35797260 ATATTATATATAGTAT
1 TTATTATATAT-GTAT
35797276 TTTTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 22 0.63
24 8 0.23
25 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (25 bp):
TTATTATATATGTATATGTATATTT
Found at i:35797432 original size:280 final size:283
Alignment explanation
Indices: 35796895--35797639 Score: 891
Period size: 280 Copynumber: 2.6 Consensus size: 283
35796885 TATTATTATT
*
35796895 ATTATTATTATTATTATTATTATTATATATTAGTGTATATTTTTTATTGTATATGTATATGTATA
1 ATTACTATTATTATTATTATTATTATATATTAGTGTATA-TTTTTA---T-TA--TATATGTATA
*
35796960 TGTATATATATTTATATATAGTATTATTTTTATTACTTTATTTTAATATTTTTATTATATTTGTT
59 TGTATATATATTTATATATAGTATTTTTTTTATTACTTTATTTTAATATTTTTATTATA-TTG-T
* * *
35797025 TTTTTTGTATTTCAATATGATCACTATTATTATTATTATTATTATTATTATTATATATTAATGTA
122 TTTTTTGTATTTCAATATTATTACTATTATTATTATTATTA-TATTATTAGTATATATT-ATGTA
* * * *
35797090 TTTTTATTGTATATGTATATGTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTA
185 TTTATATCGTATACGTATA--TATATATATTTATATATAATATTA-TTTTTATTACTTTATTTTA
35797155 ATACTTTTATTATATTTACTTTTTTTTGTATTTCAATATG
247 ATACTTTTATTATATTTAC---TTTTTGTATTTCAATATG
*
35797195 ATTACTATTATTATTATCATTATTATATATTA-TAGTATATTTTTATTATATATGTATATGTATA
1 ATTACTATTATTATTATTATTATTATATATTAGT-GTATATTTTTATTATATATGTATATGTATA
* **
35797259 TATA-TTATATATAGTATTTTTTTTATTA-TTTGTTTTAATATTTTTATTATATTGGCTTTTTGT
65 TATATTTATATATAGTATTTTTTTTATTACTTTATTTTAATATTTTTATTATATTGTTTTTTTGT
* *
35797322 ATTTCAATATTATTACTATTATTATTATTATTATA-TATTAGTGTATACTT-TTTA-TTATATAC
130 ATTTCAATATTATTACTATTATTATTATTATTATATTATTAGTATATA-TTATGTATTTATAT-C
* * *
35797384 GTATACGTA-A-ATGTATATTTATATATAATATTA-TTTTATTATTTTATTTTAATATTTTTATT
193 GTATACGTATATATATATATTTATATATAATATTATTTTTATTACTTTATTTTAATACTTTTATT
* *
35797446 ATATTTGCTTTTTGTATTTCAATATT
258 ATATTTACTTTTTGTATTTCAATATG
*
35797472 ATTACTATTATCATTATTATTATTA-ATATTAGTGTATATTTTTATTATATATGTATGTATACGT
1 ATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTA--TAT--GT
* * * ** * *
35797536 ATATATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACGTTATTATTATTATTATTTT
62 ATATATATTTATATATAGTA-TTTTTTTTATTACTTTATTTTAATATTTTTATTA-TATTGTTTT
* * *
35797601 TTTGTATTTCATTATTATTGCTAGTT-TTATTATCATTAT
125 TTTGTATTTCAATATTATTACTA-TTATTATTATTATTAT
35797640 CATCATTATT
Statistics
Matches: 397, Mismatches: 35, Indels: 42
0.84 0.07 0.09
Matches are distributed among these distances:
276 28 0.07
277 41 0.10
278 3 0.01
280 43 0.11
281 11 0.03
282 31 0.08
283 17 0.04
284 39 0.10
285 8 0.02
286 11 0.03
287 10 0.03
288 4 0.01
289 38 0.10
290 3 0.01
291 22 0.06
292 23 0.06
293 20 0.05
295 2 0.01
296 1 0.00
299 7 0.02
300 35 0.09
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (283 bp):
ATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATAT
ATATTTATATATAGTATTTTTTTTATTACTTTATTTTAATATTTTTATTATATTGTTTTTTTGTA
TTTCAATATTATTACTATTATTATTATTATTATATTATTAGTATATATTATGTATTTATATCGTA
TACGTATATATATATATTTATATATAATATTATTTTTATTACTTTATTTTAATACTTTTATTATA
TTTACTTTTTGTATTTCAATATG
Found at i:35797615 original size:142 final size:139
Alignment explanation
Indices: 35797050--35797617 Score: 665
Period size: 142 Copynumber: 4.1 Consensus size: 139
35797040 TATGATCACT
* * *
35797050 ATTATTATTATTATTATTATTATTATTATATATTAATG--TATTTTTATTGTATATGTATATGTA
1 ATTATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTA
* * *
35797113 TATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTATTATATTTACTTTT
66 TATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATA-TTA--TCT
35797178 TTTTGTATTTCA
128 TTTTGTATTTCA
*
35797190 ATATGATTACTATTATTATTATCATTATTATATATTA-TAGTATATTTTTATTATATATGTATAT
1 AT-T-ATTACTATTATTATTATTATTATTATATATTAGT-GTATATTTTTATTATATATGTATAT
* * **
35797254 GTATATATA-TTATATATAGTATT-TTTTTTATTA-TTTGTTTTAATATTTTTATTATATTGGCT
63 GTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTATCT
35797316 TTTTGTATTTCA
128 TTTTGTATTTCA
* * * *
35797328 A-TATTATTACTATTATTATTATTATTATATATTAGTGTATACTTTTTATTATATACGTATACGT
1 ATTATTACTATTATTATTATTATTATTATATATTAGTGTATA-TTTTTATTATATATGTATATGT
* * * *
35797392 AAATGTATATTTATATATAATATTA--TTTTATTATTTTATTTTAATATTTTTATTATATT-TGC
65 --ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTAT-C
35797454 TTTTTGTATTTCAA
127 TTTTTGTATTTC-A
*
35797468 TATTATTACTATTATCATTATTATTATTA-ATATTAGTGTATATTTTTATTATATATGTATGTAT
1 -ATTATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTA--TAT
* * * * *
35797532 ACGTATATATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACGTTATTATTATTATTA
63 --GTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTA-TATTA
*
35797597 TTTTTTTGTATTTC-
125 TCTTTTTGTATTTCA
35797611 ATTATTA
1 ATTATTA
35797618 TTGCTAGTTT
Statistics
Matches: 372, Mismatches: 32, Indels: 46
0.83 0.07 0.10
Matches are distributed among these distances:
135 34 0.09
136 22 0.06
138 28 0.08
139 50 0.13
140 21 0.06
141 37 0.10
142 92 0.25
143 14 0.04
144 57 0.15
145 16 0.04
146 1 0.00
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (139 bp):
ATTATTACTATTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTA
TATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTATCTTTT
TGTATTTCA
Found at i:35797631 original size:142 final size:138
Alignment explanation
Indices: 35797052--35797639 Score: 692
Period size: 139 Copynumber: 4.2 Consensus size: 138
35797042 TGATCACTAT
* * *
35797052 TATTATTATTATTATTATTATTATTATATATTAATG--TATTTTTATTGTATATGTATATGTATA
1 TATTATTACTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATA
* * *
35797115 TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAATACTTTTATTATATTTACTTTTTT
66 TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATA-TTA--TCTTT
35797180 TTGTATTTCAA
128 TTGTATTTCAA
*
35797191 TATGATTACTATTATTATTATCATTATTATATATTA-TAGTATATTTTTATTATATATGTATATG
1 TATTATTACTATTATTA-T-T-ATTATTATATATTAGT-GTATATTTTTATTATATATGTATATG
* * **
35797255 TATATATA-TTATATATAGTATT-TTTTTTATTA-TTTGTTTTAATATTTTTATTATATTGGCTT
62 TATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTATCTT
35797317 TTTGTATTTCAA
127 TTTGTATTTCAA
* *
35797329 TATTATTACTATTATTATTATTATTATATATTAGTGTATACTTTTTATTATATACGTATACGTAA
1 TATTATTACTATTATTATTATTATTATATATTAGTGTATA-TTTTTATTATATATGTATATGT--
* * * *
35797394 ATGTATATTTATATATAATATTA--TTTTATTATTTTATTTTAATATTTTTATTATATT-TGCTT
63 ATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTAT-CTT
35797456 TTTGTATTTCAA
127 TTTGTATTTCAA
*
35797468 TATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATA
1 TATTATTACTATTATTATTATTATTA-T-ATATTAGTGTATATTTTTATTATATATGTA--TAT-
* * * * *
35797533 CGTATATATATTTATACATAGTACTATTTTTAATTACTTTATTTTAACGTTATTATTATTATTAT
61 -GTATATATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTA-TATTAT
* *
35797598 TTTTTTGTATTTCAT
124 CTTTTTGTATTTCAA
* *
35797613 TATTATTGCTAGTT-TTATTATCATTAT
1 TATTATTACTA-TTATTATTATTATTAT
35797640 CATCATTATT
Statistics
Matches: 392, Mismatches: 32, Indels: 45
0.84 0.07 0.10
Matches are distributed among these distances:
135 19 0.05
136 22 0.06
137 1 0.00
138 44 0.11
139 92 0.23
140 20 0.05
141 36 0.09
142 46 0.12
143 14 0.04
144 58 0.15
145 37 0.09
146 3 0.01
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (138 bp):
TATTATTACTATTATTATTATTATTATATATTAGTGTATATTTTTATTATATATGTATATGTATA
TATATTTATATATAGTATTATTTTTTATTACTTTATTTTAACATTTTTATTATATTATCTTTTTG
TATTTCAA
Found at i:35799125 original size:22 final size:22
Alignment explanation
Indices: 35799091--35799139 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
35799081 ATTTAAATTC
35799091 TAAAATTTAAAAAATAAAGAAT-
1 TAAAATTTAAAAAATAAA-AATA
* *
35799113 TAAATTTTTAAAAATAAAAATA
1 TAAAATTTAAAAAATAAAAATA
35799135 TAAAA
1 TAAAA
35799140 ACTAATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATTTAAAAAATAAAAATA
Found at i:35805276 original size:18 final size:20
Alignment explanation
Indices: 35805236--35805278 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
35805226 TTTCAGGATG
* *
35805236 TTAACATTTTTAAATTTACA
1 TTAACATTTTTAAATTAAAA
35805256 TTAACA-TTTT-AATTAAAA
1 TTAACATTTTTAAATTAAAA
35805274 TTAAC
1 TTAAC
35805279 TAATAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 4 0.19
20 6 0.29
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAACATTTTTAAATTAAAA
Found at i:35819957 original size:6 final size:6
Alignment explanation
Indices: 35819941--35819970 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
35819931 AGTTGATAAC
35819941 GATTGAG GATTAG GATTAG GATTAG GATTA
1 GATT-AG GATTAG GATTAG GATTAG GATTA
35819971 AAGAGAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (6 bp):
GATTAG
Found at i:35827531 original size:29 final size:29
Alignment explanation
Indices: 35827499--35827557 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
35827489 TTTTAGTTTT
*
35827499 AAATAAATTATATTTATTAAATTCATTAA
1 AAATAAATGATATTTATTAAATTCATTAA
* *
35827528 AAATAAATGGTCTTTATTAAATTCATTAA
1 AAATAAATGATATTTATTAAATTCATTAA
35827557 A
1 A
35827558 TTAAGTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATAAATGATATTTATTAAATTCATTAA
Found at i:35831053 original size:24 final size:24
Alignment explanation
Indices: 35831038--35831087 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
35831028 AATCAAATTC
35831038 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
35831062 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
35831086 AA
1 AA
35831088 CTCTTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:35832172 original size:20 final size:19
Alignment explanation
Indices: 35832130--35832175 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
35832120 AAAAAATTAG
* * *
35832130 AAAAATTATTAGGAATTGT
1 AAAAATTATTAGAAATAGC
35832149 AAAATATTATTAGAAATAGC
1 AAAA-ATTATTAGAAATAGC
35832169 AAAAATT
1 AAAAATT
35832176 GTTATTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (19 bp):
AAAAATTATTAGAAATAGC
Found at i:35833927 original size:26 final size:26
Alignment explanation
Indices: 35833898--35833980 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
35833888 ATACAATACT
35833898 AACTATCTTCATCTT-AATACCATTCA
1 AACTATCTTCAT-TTCAATACCATTCA
* * * * * *
35833924 AACTTTAATT-ATTTTCATTACAATACT
1 AACTAT-CTTCA-TTTCAATACCATTCA
*
35833951 AACTATCTTCATTTGAATACCATTCA
1 AACTATCTTCATTTCAATACCATTCA
35833977 AACT
1 AACT
35833981 TTAACTATTT
Statistics
Matches: 40, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
26 24 0.60
27 16 0.40
ACGTcount: A:0.36, C:0.22, G:0.01, T:0.41
Consensus pattern (26 bp):
AACTATCTTCATTTCAATACCATTCA
Found at i:35834000 original size:32 final size:32
Alignment explanation
Indices: 35833950--35834013 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
35833940 ATTACAATAC
35833950 TAACTATCTTCATTTGAATACCATTCAAACTT
1 TAACTATCTTCATTTGAATACCATTCAAACTT
*
35833982 TAACTATTTTC-TTCTGAATACCATTCAAACTT
1 TAACTATCTTCATT-TGAATACCATTCAAACTT
35834014 GAACAAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (32 bp):
TAACTATCTTCATTTGAATACCATTCAAACTT
Found at i:35834002 original size:53 final size:53
Alignment explanation
Indices: 35833889--35833992 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
35833879 TAGCTATCAA
*
35833889 TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAATTATTTTCAT
1 TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAACTATTTTCAT
35833942 TACAATACTAACTATCTTCAT-TTGAATACCATTCAAACTTTAACTATTTTC
1 TACAATACTAACTATCTTCATCTT-AATACCATTCAAACTTTAACTATTTTC
35833993 TTCTGAATAC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 2 0.04
53 47 0.96
ACGTcount: A:0.36, C:0.21, G:0.01, T:0.42
Consensus pattern (53 bp):
TACAATACTAACTATCTTCATCTTAATACCATTCAAACTTTAACTATTTTCAT
Found at i:35846410 original size:18 final size:19
Alignment explanation
Indices: 35846383--35846418 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35846373 AATTAAACTC
*
35846383 AACTCTAAAATATTATATT
1 AACTCTAAAAAATTATATT
35846402 AACTC-AAAAAATTATAT
1 AACTCTAAAAAATTATAT
35846419 ATACTCATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (19 bp):
AACTCTAAAAAATTATATT
Found at i:35848624 original size:19 final size:20
Alignment explanation
Indices: 35848602--35848641 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35848592 TTATGTTTTT
*
35848602 AAAAATTTTAAATAT-ATTA
1 AAAAATGTTAAATATAATTA
*
35848621 AAAAATGTTAAGTATAATTA
1 AAAAATGTTAAATATAATTA
35848641 A
1 A
35848642 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATGTTAAATATAATTA
Found at i:35848749 original size:17 final size:17
Alignment explanation
Indices: 35848729--35848769 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35848719 TAAAAAATTT
35848729 AAAAAATAAATATATTA
1 AAAAAATAAATATATTA
** *
35848746 AAAATTTAAATATGTTA
1 AAAAAATAAATATATTA
35848763 AAAAAAT
1 AAAAAAT
35848770 GTTGATTATA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAAAATAAATATATTA
Found at i:35858551 original size:26 final size:26
Alignment explanation
Indices: 35858515--35858565 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
35858505 TTAAAATTTA
*
35858515 TAAATGACTATTATGCCACTATGAGG
1 TAAATAACTATTATGCCACTATGAGG
*
35858541 TAAATAACTATTATGCCCCTATGAG
1 TAAATAACTATTATGCCACTATGAG
35858566 ATGTATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (26 bp):
TAAATAACTATTATGCCACTATGAGG
Found at i:35861756 original size:27 final size:26
Alignment explanation
Indices: 35861691--35861774 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
35861681 ACCCCTTAAT
* *
35861691 TGATAAAATGACTGATATACCCCATT
1 TGATAAAATGACTGTTATACCCCATG
**
35861717 TGATAAAATGACTGTTATACCTTTATG
1 TGATAAAATGACTGTTATACC-CCATG
* *
35861744 TGGTAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATACCCC-ATG
35861771 TGAT
1 TGAT
35861775 GTATGATTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.43
27 27 0.57
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (26 bp):
TGATAAAATGACTGTTATACCCCATG
Found at i:35865471 original size:43 final size:43
Alignment explanation
Indices: 35865431--35865510 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
35865421 AATAGTTTGA
* **
35865431 AAATAAATA-AT-ATATGTAAAATTTAAAATGAATAACAGTTT
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
* *
35865472 AAGTATATATATAATATGTAAAACTTAAAACAAATAACA
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACA
35865511 AATAGAAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 7 0.22
42 2 0.06
43 23 0.72
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (43 bp):
AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
Found at i:35867503 original size:45 final size:44
Alignment explanation
Indices: 35867396--35867593 Score: 161
Period size: 44 Copynumber: 4.5 Consensus size: 44
35867386 GATCTGACCT
* * * **
35867396 ACTACAACTTCAGAGG-TATAGGATTTGTAACTTTAATCTGC-CC
1 ACTACAACTTCAG-GGAGATAAGATTTGTAACTTCAGCCTGCTCC
* * * *
35867439 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGGCTGCTCC
1 -ACTACAACTTCAGGGAGATAAGATTTG-TAACTTCAGCCTGCTCC
* * *
35867485 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTC-GACCTGCCCC
1 ACTACAACTTCAGGGAGATAAGATTTGTAACTTCAG-CCTGCTCC
* ** ** *
35867529 ACTACAACTTCAAGGGA-ATAAGGTTTGTGGCTTCAATCTACTCC
1 ACTACAACTTC-AGGGAGATAAGATTTGTAACTTCAGCCTGCTCC
35867573 ACTACAACTTCAGGGAGATAA
1 ACTACAACTTCAGGGAGATAA
35867594 ACTCCACCAT
Statistics
Matches: 125, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
43 7 0.06
44 76 0.61
45 40 0.32
46 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGATTTGTAACTTCAGCCTGCTCC
Found at i:35867692 original size:44 final size:44
Alignment explanation
Indices: 35867394--35867778 Score: 127
Period size: 44 Copynumber: 8.6 Consensus size: 44
35867384 TTGATCTGAC
* * * * * *
35867394 CTACTACAACTTCAGAG-GTATAGGATTTGTAACTTTAATCTGCC
1 CTACTGCAACTTTAGAGAG-ATAAGATTTGTAGCTTTAATCTACT
* * * ** *
35867438 CTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGGCTGCT
1 CTACTGCAACTTTAGAGAGATAAGATTTG-TAGCTTTAATCTACT
* * * * * ** * * *
35867483 CCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGACCTGCC
1 CTACTGCAACTTTAGAGAGATAAGATTTGTAGCTTTAATCTACT
* * * * * * *
35867527 CCACTACAACTTCA-AGGGAATAAGGTTTGTGGCTTCAATCTACT
1 CTACTGCAACTTTAGAGAG-ATAAGATTTGTAGCTTTAATCTACT
* * * * * * *
35867571 CCACTACAACTTCAGGGAGATAA-ACTCCACCATGGTAGATTTGATCTGAC-
1 CTACTGCAACTTTAGAGAGATAAGA-T------TTGTAGCTTTAATCT-ACT
*
35867621 CTACTGCAACTTTAGAG-GTATAGGATTTGTAGCTTTAATCTACT
1 CTACTGCAACTTTAGAGAG-ATAAGATTTGTAGCTTTAATCTACT
* * * *
35867665 CTACTGCAGCTTTAGAGAGATAAGATTTGCTATCTTTAGTTTACT
1 CTACTGCAACTTTAGAGAGATAAGATTTG-TAGCTTTAATCTACT
* * ** * * * * * *
35867710 CCACTACCGC-TTAGGGAGATAGGA-TGGTGGCTTAAATCTGCT
1 CTACTGCAACTTTAGAGAGATAAGATTTGTAGCTTTAATCTACT
* *
35867752 CTACTGCAACTTCAGAGAGACAAGATT
1 CTACTGCAACTTTAGAGAGATAAGATT
35867779 CGTCGTCTTC
Statistics
Matches: 255, Mismatches: 67, Indels: 38
0.71 0.19 0.11
Matches are distributed among these distances:
42 15 0.06
43 16 0.06
44 134 0.53
45 59 0.23
49 1 0.00
50 27 0.11
51 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTACTGCAACTTTAGAGAGATAAGATTTGTAGCTTTAATCTACT
Found at i:35867843 original size:132 final size:132
Alignment explanation
Indices: 35867706--35868349 Score: 850
Period size: 132 Copynumber: 4.9 Consensus size: 132
35867696 ATCTTTAGTT
*
35867706 TACTCCACTACCGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCA-GAGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGA-A
* ** * * **
35867770 GACAAGATTCGTCGTCTTCGATCTGTTCCACTGCAACCTCAGGGAAGCAAGATCTGTAATCTTCA
65 GACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCA
35867835 GCC
130 GCC
* * * *
35867838 TACTCCACTACTTCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAGGAAG
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGAAG
* * * * *
35867903 ACAAGATTTGCCGTCTTCGATCTAATCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAG
66 ACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCAG
35867968 CC
131 CC
*
35867970 TACTCCACTACTGCTTAGGGAGATAGGATGGTGG-TTCAATTCTGCT-TCACTGCAACTTCAGGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTT-AAATCTGCTCT-ACTGCAACTTCAGGA
* * * * *
35868033 ATACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTGAGGGAGACAAGATCTA-AATCTTC
64 AGACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTC
35868097 AGCC
129 AGCC
* *
35868101 TACTCCACTACTGTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTGCAACTTCA-GAGA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGA-A
* ** *
35868165 GACAAGATTCGCCGTCTTCGATCTACTCCACTACAACTTCAAAGAGGAAAGATCTACAATCTTCA
65 GACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCA
35868230 GCC
130 GCC
* * * *
35868233 TACACCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATTTGCT-TCACTGTAACTTCAGGAA
1 TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCT-ACTGCAACTTCAGGAA
* * * * * *
35868297 GACAAGTTTCACCTTCTTCGATCTATTCTACTGTAACTTCAGGGAGGCAAGAT
65 GACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGAT
35868350 ATGTAGAATT
Statistics
Matches: 444, Mismatches: 59, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
130 2 0.00
131 115 0.26
132 323 0.73
133 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (132 bp):
TACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCTACTGCAACTTCAGGAAG
ACAAGATTCGCCGTCTTCGATCTACTCCACTGCAACTTCAGGGAGGCAAGATCTACAATCTTCAG
CC
Found at i:35868204 original size:263 final size:264
Alignment explanation
Indices: 35867658--35868349 Score: 925
Period size: 263 Copynumber: 2.6 Consensus size: 264
35867648 TGTAGCTTTA
* * * * * * * ** *
35867658 ATCTACTCTACTGCAGCTTTAGAGAGATAAGATTTGCTATCTTTAGTTTACTCCACTACCGCTTA
1 ATCTACTCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAGCCTACTCCACTACTGCTTA
* * *
35867723 GGGAGATAGGATGGTGGCTTAAATCTGC-TCTACTGCAACTTCA-GAGAGACAAGATTCGTCGTC
66 GGGAGATAGGATGGTGGCTTAATTCTGCTTC-ACTGCAACTTCAGGA-AGACAAGATTCGCCATC
* *
35867786 TTCGATCTGTTCCACTGCAACCTCAGGGA-AGCAAGATCTGTAATCTTCAGCCTACTCCACTACT
129 TTCGATCTGTTCCACTGCAACTTCAGGGAGA-CAAGATCTGAAATCTTCAGCCTACTCCACTACT
*
35867850 TCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAGGAAGACAAGATTTGCC
193 TCTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAGGAAGACAAGATTCGCC
35867915 GTCTTCG
258 GTCTTCG
*
35867922 ATCTAATCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAGCCTACTCCACTACTGCTTA
1 ATCTACTCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAGCCTACTCCACTACTGCTTA
*
35867987 GGGAGATAGGATGGTGG-TTCAATTCTGCTTCACTGCAACTTCAGGAATACAAGATTCGCCATCT
66 GGGAGATAGGATGGTGGCTT-AATTCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCATCT
* *
35868051 TCGATCTGCTCCACTGCAACTTGAGGGAGACAAGATCT-AAATCTTCAGCCTACTCCACTACTGT
130 TCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGAAATCTTCAGCCTACTCCACTACT-T
* *
35868115 -TTAGGGAGATAGGATGGTGGCTTAAATCTGCTC-CACTGCAACTTCA-GAGAGACAAGATTCGC
194 CTTAGGGAGATAGGATGGTAGCTTAAATCTGCGCTC-CTGCAACTTCAGGA-AGACAAGATTCGC
35868177 CGTCTTCG
257 CGTCTTCG
* * * * *
35868185 ATCTACTCCACTACAACTTCAAAGAGGAAAGATCTACAATCTTCAGCCTACACCACTACTGCTTA
1 ATCTACTCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAGCCTACTCCACTACTGCTTA
* * * * *
35868250 GGAAGATAGGATGGTGGCTTAAATT-TGCTTCACTGTAACTTCAGGAAGACAAGTTTCACCTTCT
66 GGGAGATAGGATGGTGGCTT-AATTCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCATCT
* * * *
35868314 TCGATCTATTCTACTGTAACTTCAGGGAGGCAAGAT
130 TCGATCTGTTCCACTGCAACTTCAGGGAGACAAGAT
35868350 ATGTAGAATT
Statistics
Matches: 379, Mismatches: 41, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
262 3 0.01
263 226 0.60
264 145 0.38
265 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (264 bp):
ATCTACTCCACTGCAACTTCAGAGAGGTAAGATTTACAATCTTCAGCCTACTCCACTACTGCTTA
GGGAGATAGGATGGTGGCTTAATTCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCATCTT
CGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTGAAATCTTCAGCCTACTCCACTACTTCT
TAGGGAGATAGGATGGTAGCTTAAATCTGCGCTCCTGCAACTTCAGGAAGACAAGATTCGCCGTC
TTCG
Found at i:35875131 original size:17 final size:18
Alignment explanation
Indices: 35875105--35875139 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35875095 AAAACAAAAC
*
35875105 CCCAAGACCC-ATTACAA
1 CCCAAAACCCAATTACAA
35875122 CCCAAAACCCAATTACAA
1 CCCAAAACCCAATTACAA
35875140 AATCAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.40, G:0.03, T:0.11
Consensus pattern (18 bp):
CCCAAAACCCAATTACAA
Found at i:35876401 original size:3 final size:3
Alignment explanation
Indices: 35876393--35876520 Score: 59
Period size: 3 Copynumber: 43.7 Consensus size: 3
35876383 ATTCATTAAT
** * * *
35876393 TTA TTA TTA TTA ACA -TA TTA TTA TTC TTAA TGTA TTA TCA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA
* * * * * * * *
35876439 TTA TTT TTA TTT TTA CTA CTA TTA TCA TT- TTT TTA -AA TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
35876485 CTA TTA TTA -TA TTG TTA TTA TTA CTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35876521 GTATTATCTT
Statistics
Matches: 90, Mismatches: 28, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
2 8 0.09
3 78 0.87
4 3 0.03
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:35876508 original size:23 final size:23
Alignment explanation
Indices: 35876476--35876527 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
35876466 TTTTTTTAAA
*
35876476 TTATTGTTACTATTAT-TATATTG
1 TTATTATTACTATTATAT-TATTG
35876499 TTATTATTACTATTATATTATTG
1 TTATTATTACTATTATATTATTG
35876522 -TATTAT
1 TTATTAT
35876528 CTTTTCCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 6 0.22
23 20 0.74
24 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (23 bp):
TTATTATTACTATTATATTATTG
Found at i:35878073 original size:43 final size:43
Alignment explanation
Indices: 35878033--35878112 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
35878023 AATAGTTTGA
* **
35878033 AAATAAATA-AT-ATATGTAAAATTTAAAATGAATAACAGTTT
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
* *
35878074 AAGTATATATATAATATGTAAAACTTAAAACAAATAACA
1 AAATAAATATATAATATGTAAAACTTAAAACAAATAACA
35878113 AATAGAAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 7 0.22
42 2 0.06
43 23 0.72
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (43 bp):
AAATAAATATATAATATGTAAAACTTAAAACAAATAACAGTTT
Found at i:35886170 original size:20 final size:22
Alignment explanation
Indices: 35886145--35886186 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
35886135 TTTTTATTAA
35886145 ATAAATA-AAAACT-ATAAAAT
1 ATAAATATAAAACTAATAAAAT
35886165 ATAAATATAAAACTAATAAAAT
1 ATAAATATAAAACTAATAAAAT
35886187 TTTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAATATAAAACTAATAAAAT
Found at i:35893600 original size:38 final size:38
Alignment explanation
Indices: 35893552--35893625 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
35893542 AATCAAAATC
* *
35893552 AAAGTTTCATGTATATAATTGCATCCATTTAAAGTTCA
1 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
35893590 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTT
1 AAAGTTTCATGTATATAATTGCACCCAATTAAAGTT
35893626 TATATAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (38 bp):
AAAGTTTCATGTATATAATTGCACCCAATTAAAGTTCA
Found at i:35898360 original size:21 final size:21
Alignment explanation
Indices: 35898321--35898392 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
35898311 ATATATATAA
*
35898321 ATATATATAATGGTATTAGAAAT
1 ATATATATAATAG--TTAGAAAT
35898344 ATATATAGTAAT-GTTAGAAAT
1 ATATATA-TAATAGTTAGAAAT
* *
35898365 ATACATATAATAGTTCA-AAAG
1 ATATATATAATAGTT-AGAAAT
35898386 ATATATA
1 ATATATA
35898393 ACTAACAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 4 0.09
21 26 0.60
22 1 0.02
23 8 0.19
24 4 0.09
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATATATAATAGTTAGAAAT
Found at i:35899993 original size:41 final size:41
Alignment explanation
Indices: 35899906--35899994 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
35899896 GGGTTAGGTA
* * *
35899906 TTGGGCTAGTTATTGGGCTAGGTTGGTTTAGGTTAGTGGGT
1 TTGGGTTAGTTATTGGGCTAGGTAGGTTTAGGGTAGTGGGT
*
35899947 GTGGGTTAG-TATTGGGCTGAGGGTAGGTTT-GGGTAGTGGGT
1 TTGGGTTAGTTATTGGGCT-A-GGTAGGTTTAGGGTAGTGGGT
35899988 TTGGGTT
1 TTGGGTT
35899995 TTGTAAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 9 0.22
41 24 0.59
42 8 0.20
ACGTcount: A:0.11, C:0.03, G:0.46, T:0.39
Consensus pattern (41 bp):
TTGGGTTAGTTATTGGGCTAGGTAGGTTTAGGGTAGTGGGT
Found at i:35902413 original size:17 final size:17
Alignment explanation
Indices: 35902391--35902424 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35902381 TTTAACATAT
35902391 TGTTAAAATACTATTTA
1 TGTTAAAATACTATTTA
* *
35902408 TGTTAAACTAGTATTTA
1 TGTTAAAATACTATTTA
35902425 AACAATATAA
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:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
TGTTAAAATACTATTTA
Found at i:35909207 original size:53 final size:53
Alignment explanation
Indices: 35909127--35909232 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
35909117 CAACTCACTA
*
35909127 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATATTAAGAT
1 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
35909180 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
1 AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
35909233 TTTAAACAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (53 bp):
AGTGAATAAATCTACAGTATCACTTATACATATAATTCCTAGCATAGTAAGAT
Found at i:35909214 original size:26 final size:26
Alignment explanation
Indices: 35909132--35909214 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
35909122 CACTAAGTGA
35909132 ATAAATCTACAGTATCACTTATACAT
1 ATAAATCTACAGTATCACTTATACAT
* * ** *
35909158 ATAATTCCTAGCA-TATTA-AGATA-GT
1 ATAAAT-CTA-CAGTATCACTTATACAT
35909183 GAATAAATCTACAGTATCACTTATACAT
1 --ATAAATCTACAGTATCACTTATACAT
35909211 ATAA
1 ATAA
35909215 TTCCTAGCAT
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
25 3 0.08
26 19 0.47
27 15 0.38
28 3 0.08
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (26 bp):
ATAAATCTACAGTATCACTTATACAT
Found at i:35909882 original size:21 final size:21
Alignment explanation
Indices: 35909858--35909921 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
35909848 TAGAAACCCG
35909858 TAAGGGTTGAAA-AGAAGCTCA
1 TAAGGGTT-AAACAGAAGCTCA
* * * *
35909879 TAAGAGCTAAACGGAAGCCCA
1 TAAGGGTTAAACAGAAGCTCA
*
35909900 TAAGGGTTAAACAGAAACTCA
1 TAAGGGTTAAACAGAAGCTCA
35909921 T
1 T
35909922 GTGAGTTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (21 bp):
TAAGGGTTAAACAGAAGCTCA
Found at i:35909888 original size:42 final size:42
Alignment explanation
Indices: 35909829--35909921 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
35909819 AGGCTAAATT
* * * *
35909829 GAAGCACATAAGTGCTAAATAGAAACCCGTAAGGGTTGAAA-A
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTT-AAACA
* *
35909871 GAAGCTCATAAGAGCTAAACGGAAGCCCATAAGGGTTAAACA
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
*
35909913 GAAACTCAT
1 GAAGCTCAT
35909922 GTGAGTTAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.07
42 40 0.93
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
Found at i:35910040 original size:24 final size:24
Alignment explanation
Indices: 35910008--35910055 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35909998 TACTTTGGTA
*
35910008 ATTTGCCGTCAATTCATCCTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
*
35910032 ATTTACCGTCAATTCATCTTTTGC
1 ATTTACCGTCAATTCATCCTTTGC
35910056 CATAGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (24 bp):
ATTTACCGTCAATTCATCCTTTGC
Found at i:35910170 original size:45 final size:45
Alignment explanation
Indices: 35910115--35910207 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
35910105 ATTCAATTTC
* *
35910115 ATAATTTAACAATATTCCATTTTTCAACAAC-ATGCTATATACATA
1 ATAATTTAACAATATTCCATTTTTCAAC-ACTATACTAAATACATA
*
35910160 ATAATTTAACAATATTCTATTTTTCAACACTATACTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACACTATACTAAATACATA
35910205 ATA
1 ATA
35910208 TCATTCATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.05
45 42 0.95
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (45 bp):
ATAATTTAACAATATTCCATTTTTCAACACTATACTAAATACATA
Found at i:35916492 original size:27 final size:27
Alignment explanation
Indices: 35916462--35916659 Score: 272
Period size: 27 Copynumber: 7.3 Consensus size: 27
35916452 TACTAAATTG
* *
35916462 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35916489 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35916516 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
35916543 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35916570 CCCTCGAATTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35916597 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
35916624 CCCTC-AGTTTAGAAAATTACCATTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
35916651 CCCTCGATT
1 CCCTCGATT
35916660 GTGAAATTAT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 150 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:35916582 original size:81 final size:80
Alignment explanation
Indices: 35916462--35916657 Score: 320
Period size: 81 Copynumber: 2.4 Consensus size: 80
35916452 TACTAAATTG
* *
35916462 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTCACCCTCGATTTA
35916527 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
*
35916543 CCCTCGATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTC-ATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTCACCCTCGATTTA
35916608 CAAAATTACCATTTTA
65 CAAAATTACCATTTTA
* *
35916624 CCCTCAGTTTAGAAAATTACCATTTTACCCTCGA
1 CCCTCA-TTTATAGAATTACCATTTTACCCTCGA
35916658 TTGTGAAATT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 107 0.99
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (80 bp):
CCCTCATTTATAGAATTACCATTTTACCCTCGAATTATAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTA
Found at i:35916721 original size:27 final size:27
Alignment explanation
Indices: 35916691--35916841 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
35916681 TATAGGATAG
35916691 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTATAA
*
35916718 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTATAA
* * * *
35916745 AATTACCAAAATACCACTGGTTTTTGA
1 AATTACCAAAATACCCCTAGTTTATAA
* * *
35916772 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTATAA
* *
35916799 AATTACTAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTATAA
35916826 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
35916842 TTGACTTTCT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 95 0.92
28 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTATAA
Found at i:35916732 original size:54 final size:52
Alignment explanation
Indices: 35916672--35916841 Score: 180
Period size: 54 Copynumber: 3.2 Consensus size: 52
35916662 GAAATTATTG
** *
35916672 AAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGTTTATAAAATTACCA
1 AAATACCCCTATTTG-TAAAATTACCAAAATACCCCT-GTTTATAAAATTACCA
* * * *
35916726 AAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTTTGAAATTACCG
1 AAATACCCCTA-TTTGTAAAATTACCAAAATACCCCT-GTTTATAAAATTACCA
* * *
35916780 AAATACCCTCAATTTGTAAAATTACTAAAATACCCCTGATTTACAAAATTA-CA
1 AAATACCC-CTATTTGTAAAATTACCAAAATACCCCTG-TTTATAAAATTACCA
35916833 GAAATACCC
1 -AAATACCC
35916842 TTGACTTTCT
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.02
54 91 0.94
55 4 0.04
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (52 bp):
AAATACCCCTATTTGTAAAATTACCAAAATACCCCTGTTTATAAAATTACCA
Found at i:35916828 original size:81 final size:81
Alignment explanation
Indices: 35916691--35916840 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
35916681 TATAGGATAG
* **
35916691 AATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AA
1 AATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAGAA
35916755 ATACCACTGGTTTTTGA
65 ATACCACTGGTTTTTGA
* * *
35916772 AATTACCGAAATA-CCCTCAATTTGTAAAATTACTAAAATACCCCT-GATTTACAAAATTACAGA
1 AATTACCAAAATACCCCT-AATTTATAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
35916835 AATACC
64 AATACC
35916841 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
80 7 0.12
81 53 0.88
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTATAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTTTGA
Found at i:35916842 original size:54 final size:54
Alignment explanation
Indices: 35916691--35916898 Score: 188
Period size: 54 Copynumber: 3.8 Consensus size: 54
35916681 TATAGGATAG
* * *
35916691 AATTACCAAAATACCCCT-AGTTTATAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTA-CAGAAATACCCTC-AATTTGTAA
* *** *
35916745 AATTACCAAAATACCACTGGTTTTTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTTGTAA
* * * * *
35916799 AATTACTAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCC-TCAATTTGT-AA
** * * *
35916855 AATTATAAAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCT
35916899 TGGTTTGTAG
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 1 0.01
54 79 0.62
55 8 0.06
56 39 0.31
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:35916893 original size:27 final size:27
Alignment explanation
Indices: 35916691--35916904 Score: 121
Period size: 27 Copynumber: 7.9 Consensus size: 27
35916681 TATAGGATAG
* * * *
35916691 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACTAAAATACCCTTGGTTTACAA
* * * **
35916718 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* ***
35916745 AATTACCAAAATACCAC-TGGTTTTTGA
1 AATTACTAAAATACC-CTTGGTTTACAA
** *** **
35916772 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACTAAAATACCCTTGGTTTACAA
* *
35916799 AATTACTAAAATACCCCTGATTTACAA
1 AATTACTAAAATACCCTTGGTTTACAA
*
35916826 AATTAC-AGAAATACCCTTGACTTT-CTAAA
1 AATTACTA-AAATACCCTTG-GTTTAC--AA
*
35916855 AATTA-TAAAAATACCATTGGTTTACAA
1 AATTACT-AAAATACCCTTGGTTTACAA
*
35916882 AATTACTGAAATACCCTTGGTTT
1 AATTACTAAAATACCCTTGGTTT
35916905 GTAGATTTAC
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.01
27 125 0.81
28 8 0.05
29 18 0.12
30 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTACAA
Found at i:35916988 original size:27 final size:27
Alignment explanation
Indices: 35916945--35917018 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
35916935 AAATGACTAA
*
35916945 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
35916972 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
35916999 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
35917019 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:35917022 original size:27 final size:27
Alignment explanation
Indices: 35916958--35917022 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
35916948 ACCCCTAATA
*
35916958 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
35916985 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
35917012 GGTAAAATGAC
1 GGTAAAATGAC
35917023 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:35917869 original size:25 final size:25
Alignment explanation
Indices: 35917831--35917900 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
35917821 AGGAAGTGCT
* *
35917831 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
35917856 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
35917881 AAAAGCGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
35917901 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:35918169 original size:31 final size:31
Alignment explanation
Indices: 35918120--35918233 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
35918110 CGCTTACAGT
*
35918120 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35918150 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
35918181 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
35918212 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
35918234 TCAAAACTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
30 15 0.19
31 66 0.81
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:35926957 original size:14 final size:14
Alignment explanation
Indices: 35926940--35926969 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35926930 TAAATTTTAC
*
35926940 AAATAATTAATATA
1 AAATAATAAATATA
35926954 AAATAATAAATATA
1 AAATAATAAATATA
35926968 AA
1 AA
35926970 TTCTTGATAC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAATAAATATA
Found at i:35927342 original size:12 final size:12
Alignment explanation
Indices: 35927321--35927359 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
35927311 TGACGTGGCA
*
35927321 GAGGAGGACGAT
1 GAGGACGACGAT
*
35927333 GAGGACGACGAA
1 GAGGACGACGAT
*
35927345 GAGGATGACGAT
1 GAGGACGACGAT
35927357 GAG
1 GAG
35927360 CTTTATGGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.46, T:0.08
Consensus pattern (12 bp):
GAGGACGACGAT
Found at i:35930649 original size:55 final size:55
Alignment explanation
Indices: 35930584--35930693 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
35930574 TTGTTTTTCG
*
35930584 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATATTAATGATGATTCTTTTCAT
1 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
*
35930639 TTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
1 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
35930694 ACTTACGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (55 bp):
TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
Found at i:35930807 original size:125 final size:125
Alignment explanation
Indices: 35930634--35931029 Score: 456
Period size: 125 Copynumber: 3.2 Consensus size: 125
35930624 GATGATTCTT
*
35930634 TTCATTTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATACTTA
1 TTCA-TTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATTCTTA
* * * * * * *
35930699 CGCAATTTGTTGCATATGTTGTTATTCATTTCCATTTCTCGATTTTAATGTTGACATATTC
65 CGCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
* * * * * *
35930760 TTCATTGCAATAGAATAGTGGTTGCACTTTTGATGTATACTAGTGATGATTCTTTCCGGTTCTTA
1 TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTC-ATTCTTA
* * * * * * *
35930825 CACAATTTGTTGCATTTATGGTTATTCGTTTGTATATCTTGAGTTTAATGTCGATACGTTC
65 CGCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
* * * * ** *
35930886 TTCATTGTATTAGCTTAGCGATTGCAC-TTCAATATATACTAATGATGATTCTTTAT-AGTTCTT
1 TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTT-TCA-TTCTT
*
35930949 ACGCAATTT-TCTGCATATATTGTTATTTGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
64 ACGCAATTTGT-TGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
*
35931011 TTCAATGCACTAGCATAGC
1 TTCATTGCACTAGCATAGC
35931030 ATAGTAAGCT
Statistics
Matches: 221, Mismatches: 45, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
124 1 0.00
125 143 0.65
126 77 0.35
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (125 bp):
TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATTCTTAC
GCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
Found at i:35933126 original size:69 final size:69
Alignment explanation
Indices: 35933030--35933225 Score: 295
Period size: 69 Copynumber: 2.8 Consensus size: 69
35933020 TCTCGAATGC
* * *
35933030 ACAAATGAGAAAGAGAG-GAAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACA
1 ACAAATAAGAAAGAGAGTG-AGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACA
35933094 GATAG
65 GATAG
* *
35933099 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAG
35933164 ATAG
66 ATAG
* * * *
35933168 ACAAATAAGAAAGAGAGTGTGGAAGCATGCTTGGAGGCACGGATTGGAGGTTGGGACA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACA
35933226 GTCAAGGATA
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
69 116 0.99
70 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.36, T:0.19
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAG
ATAG
Found at i:35933697 original size:26 final size:26
Alignment explanation
Indices: 35933668--35933719 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35933658 TTGAAAAGAT
*
35933668 AATCTAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
35933694 AATCAAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
35933720 TTAAAGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (26 bp):
AATCAAATTTTGGCATGACTGTATAC
Found at i:35935967 original size:19 final size:18
Alignment explanation
Indices: 35935930--35935970 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
35935920 ATATTAAAAC
*
35935930 ATATACATGACATACATA
1 ATATACATGACAAACATA
*
35935948 ATATACATGATAGAACATA
1 ATATACATGACA-AACATA
35935967 ATAT
1 ATAT
35935971 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (18 bp):
ATATACATGACAAACATA
Found at i:35937499 original size:18 final size:18
Alignment explanation
Indices: 35937476--35937519 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
35937466 GGGTTAGTGG
35937476 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
35937494 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
35937512 GTTTTGGG
1 GTTTTGGG
35937520 CTCAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.55
Consensus pattern (18 bp):
GTTTTGGGTAGGTTATTT
Found at i:35941654 original size:15 final size:15
Alignment explanation
Indices: 35941624--35941652 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35941614 ACTATTAGTA
35941624 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
35941639 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
35941653 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:35942854 original size:25 final size:25
Alignment explanation
Indices: 35942791--35942842 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 25
35942781 TTAATTTCAG
35942791 TATTGTTAATTTTTTTTAATTTGAAA
1 TATTGTTAA-TTTTTTTAATTTGAAA
35942817 TATTGTTAATTTTTTTAATTTGAAA
1 TATTGTTAATTTTTTTAATTTGAAA
35942842 T
1 T
35942843 TGTTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (25 bp):
TATTGTTAATTTTTTTAATTTGAAA
Found at i:35958818 original size:22 final size:22
Alignment explanation
Indices: 35958793--35958881 Score: 60
Period size: 22 Copynumber: 4.1 Consensus size: 22
35958783 TTAATTTTAA
*
35958793 TATTATGTA-TACTATTATATTT
1 TATTATCTATTACTATTATA-TT
*
35958815 TATTA-CTATTATTATTATATT
1 TATTATCTATTACTATTATATT
* *
35958836 TATTATTTATT-GTATTTATTATT
1 TATTATCTATTACTA-TTA-TATT
* * *
35958859 TATTAGC-ATTAGTATTATTTT
1 TATTATCTATTACTATTATATT
35958880 TA
1 TA
35958882 CTTAATACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
21 16 0.29
22 27 0.49
23 12 0.22
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (22 bp):
TATTATCTATTACTATTATATT
Found at i:35958845 original size:16 final size:16
Alignment explanation
Indices: 35958821--35958863 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
35958811 ATTTTATTAC
35958821 TATTA-TTATTATATT
1 TATTATTTATTATATT
*
35958836 TATTATTTATTGTATT
1 TATTATTTATTATATT
35958852 TATTATTTATTA
1 TATTATTTATTA
35958864 GCATTAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTTATTATATT
Found at i:35958874 original size:19 final size:16
Alignment explanation
Indices: 35958833--35958878 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
35958823 TTATTATTAT
*
35958833 ATTTATTATTTATTGT
1 ATTTATTATTTATTGC
35958849 ATTTATTATTTATTAGC
1 ATTTATTATTTATT-GC
35958866 ATTAGTATTATTT
1 ATT--TATTATTT
35958879 TTACTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.54
17 4 0.15
19 8 0.31
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTTATTATTTATTGC
Found at i:35959460 original size:25 final size:26
Alignment explanation
Indices: 35959410--35959482 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
35959400 TTTTTAATAC
35959410 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TATATATTGATG
*
35959437 TATATTCTTAATACTATATATTGTATG
1 TATATTTTTAATACTATATATTG-ATG
35959464 TAT-TTTTTAATAACTATAT
1 TATATTTTTAAT-ACTATAT
35959483 TATATGTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.22
26 8 0.20
27 24 0.59
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (26 bp):
TATATTTTTAATACTATATATTGATG
Found at i:35959638 original size:20 final size:21
Alignment explanation
Indices: 35959613--35959656 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
35959603 ATGTATGTAT
35959613 TATGTATATA-TTTTTAATAC
1 TATGTATATATTTTTTAATAC
35959633 TATGTATATATTTTTTAATAC
1 TATGTATATATTTTTTAATAC
35959654 TAT
1 TAT
35959657 TATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TATGTATATATTTTTTAATAC
Found at i:35959670 original size:47 final size:46
Alignment explanation
Indices: 35959577--35959677 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 46
35959567 TTAATAGTTG
* *
35959577 TTTTTAATATTATTATTATTTCTAATATGTATGTATTATGTATATA
1 TTTTTAATACTATTATTATTTCTAATATCTATGTATTATGTATATA
* *
35959623 TTTTTAATACTATGTATATATTTTTTAATA-CTAT-TATTATGTTTATA
1 TTTTTAATACTAT-TAT-TA-TTTCTAATATCTATGTATTATGTATATA
35959670 -TTTTAATA
1 TTTTTAATA
35959678 TATATACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 20 0.42
47 15 0.31
48 5 0.10
49 8 0.17
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (46 bp):
TTTTTAATACTATTATTATTTCTAATATCTATGTATTATGTATATA
Found at i:35966999 original size:242 final size:244
Alignment explanation
Indices: 35966551--35967042 Score: 799
Period size: 242 Copynumber: 2.0 Consensus size: 244
35966541 TGTCGTAAAT
* * *
35966551 AAATTCTAAAAATAAGCCCGTGCAATACCTTCCATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
1 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
*
35966616 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
66 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
* *
35966681 ATCGTATTCCTGTCATGGAATTTCAACCAGTTCAGTGGCGCCCTTTGATCCCAGTAATATTCATC
131 ATCGTATTCCTATCATCGAATTTCAACCAGTTCAGTGGCGCCCTTTGATCCCAGTAATATTCATC
35966746 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
196 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
*
35966795 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAA-TTTTCCGTTTCCCCTCCACT
1 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
* * * *
35966859 TTCATTCTGTAGCTTATTAATCTGGTTTCTCCTCCGTCTTTGTGTTACTTGGCTATG-AAAAAAA
66 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
* * * *
35966923 GTTGTATTCCTATCATCGAATTTCAACCAGTTCAGTTGCGCCCTTTGCTCCCAGTAATATTCATC
131 ATCGTATTCCTATCATCGAATTTCAACCAGTTCAGTGGCGCCCTTTGATCCCAGTAATATTCATC
* * * *
35966988 CTTTTCAATCTCAAAGTTTCGCTGAATCTTTGTGTCAATTATTTTAGCC
196 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
35967037 AAATTC
1 AAATTC
35967043 GTATCATCCC
Statistics
Matches: 229, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
242 117 0.51
243 71 0.31
244 41 0.18
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (244 bp):
AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCGTTTCCCCTCCACT
TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
ATCGTATTCCTATCATCGAATTTCAACCAGTTCAGTGGCGCCCTTTGATCCCAGTAATATTCATC
ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
Found at i:35970665 original size:28 final size:28
Alignment explanation
Indices: 35970595--35970666 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
35970585 TTTAGGGTTT
*
35970595 TTAGGG-TTAGAGTTTTGCTAAAATAAG
1 TTAGGGTTTAAAGTTTTGCTAAAATAAG
* ** *
35970622 TTA-GGTTTAATGGTTTTTTTAAAATATG
1 TTAGGGTTTAA-AGTTTTGCTAAAATAAG
35970650 TTAGGGTTTAAAGTTTT
1 TTAGGGTTTAAAGTTTT
35970667 AGTAGATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
26 2 0.06
27 6 0.17
28 21 0.58
29 7 0.19
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.47
Consensus pattern (28 bp):
TTAGGGTTTAAAGTTTTGCTAAAATAAG
Found at i:35970791 original size:22 final size:22
Alignment explanation
Indices: 35970764--35970816 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
35970754 AATTAGAGTT
*
35970764 CTAGGGTTTTGAATAAATAAAA
1 CTAGGGTTTTAAATAAATAAAA
* *
35970786 TTAGGGTTTTAAATAAATTAAA
1 CTAGGGTTTTAAATAAATAAAA
35970808 CTAGGGTTT
1 CTAGGGTTT
35970817 ATGGTGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (22 bp):
CTAGGGTTTTAAATAAATAAAA
Found at i:35970820 original size:86 final size:86
Alignment explanation
Indices: 35970717--35970880 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
35970707 TAAAAATTAT
* * * *
35970717 TTAAATTAGCGTTTATGGTTTTTAAATAAATTTAGTAAATTAGAGTTCTAGGGTTTTGAATAAAT
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
35970782 AAAATTAGGGTTTTAAATAAA
66 AAAATTAGGGTTTTAAATAAA
* * *
35970803 TTAAACTAGGGTTTATGGTGTTTAAATAAATTAATTAAATTAGGGTTCTAGGGTTTTAAATAAAT
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
* *
35970868 TAAATTATGGTTT
66 AAAATTAGGGTTT
35970881 AGGGTTAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (86 bp):
TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
AAAATTAGGGTTTTAAATAAA
Found at i:35970839 original size:34 final size:34
Alignment explanation
Indices: 35970795--35970870 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
35970785 ATTAGGGTTT
* *
35970795 TAAATAAATTAAACTAGGGTT-TATGGTGTTTAAA
1 TAAATTAATTAAACTAGGGTTCTAGGGT-TTTAAA
*
35970829 TAAATTAATTAAATTAGGGTTCTAGGGTTTTAAA
1 TAAATTAATTAAACTAGGGTTCTAGGGTTTTAAA
35970863 TAAATTAA
1 TAAATTAA
35970871 ATTATGGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (34 bp):
TAAATTAATTAAACTAGGGTTCTAGGGTTTTAAA
Found at i:35970856 original size:64 final size:58
Alignment explanation
Indices: 35970787--35970907 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 58
35970777 TAAATAAAAT
35970787 TAGGGTTTTAAATAAATTAAACTAGGGTTTATGGTGTTTAAATAAATTAATTAAATTAGGGTTC
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTA-GG-G-TT--A-AAATTAATTAAATTAGGGTTC
* *
35970851 TAGGGTTTTAAATAAATTAAATTATGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
35970908 TAGTTATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
58 20 0.36
59 1 0.02
61 2 0.04
62 1 0.02
63 2 0.04
64 29 0.53
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (58 bp):
TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATTAATTAAATTAGGGTTC
Found at i:35970898 original size:28 final size:29
Alignment explanation
Indices: 35970786--35970910 Score: 135
Period size: 28 Copynumber: 4.1 Consensus size: 29
35970776 ATAAATAAAA
* * *
35970786 TTAGGGTTTTAAATAAATTAAACTAGGGT
1 TTAGGGTTTAAAATTAATTAAATTAGGGT
35970815 TTATGGTGTTTAAATAAATTAATTAAATTAGGGT
1 TTA-GG-GTTT--A-AAATTAATTAAATTAGGGT
* * *
35970849 TCTAGGGTTTTAAATAAATTAAATTATGGT
1 T-TAGGGTTTAAAATTAATTAAATTAGGGT
35970879 TTAGGG-TTAAAATTAATTAAATTAGGGT
1 TTAGGGTTTAAAATTAATTAAATTAGGGT
35970907 TTAG
1 TTAG
35970911 TTATTTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
28 23 0.28
29 8 0.10
30 20 0.25
31 4 0.05
33 4 0.05
34 20 0.25
35 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (29 bp):
TTAGGGTTTAAAATTAATTAAATTAGGGT
Found at i:35971165 original size:126 final size:124
Alignment explanation
Indices: 35970965--35971215 Score: 360
Period size: 126 Copynumber: 2.0 Consensus size: 124
35970955 CTATTTTGAC
* *
35970965 CCTAAAAAAATAATTTTGAGAATACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGT
1 CCTAAAAAAATAATTTTGAGAAGACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGC
** * * *
35971030 ACTGTCAGCAAAATTAT-AGAAAAAAGCTCCCATGTGGACGTTTTTTTTCTACAGTAGTT
66 ACTGTCAGCAAAATT-TCAGAAAAAAGCTCCCACATGGACGCTCTTTTTCCACAGTAGTT
* ** *
35971089 CCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTAAAAAAATAATTTTGAGAAGACATTTCT-AACAAATAGTGT-AAAAAAACTTCAAGAAGGAT
*
35971154 GCACTGTCAGCAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTTTCCACAGTAGTT
64 GCACTGTCAGCAAAATTTCAGAAAAAAGCTCCCACATGGACGCTCTTTTTCCACAGTAGTT
35971215 C
1 C
35971216 ATGCTTGGCC
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
124 29 0.26
125 13 0.12
126 70 0.62
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (124 bp):
CCTAAAAAAATAATTTTGAGAAGACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGC
ACTGTCAGCAAAATTTCAGAAAAAAGCTCCCACATGGACGCTCTTTTTCCACAGTAGTT
Found at i:35974742 original size:18 final size:18
Alignment explanation
Indices: 35974716--35974758 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
35974706 GACTGGGAAA
*
35974716 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGTT
35974734 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
35974752 AGGATAC
1 AGGATAC
35974759 GCACCTGGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:35976362 original size:21 final size:21
Alignment explanation
Indices: 35976324--35976372 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
35976314 CTAATTATAA
* *
35976324 AGAACTTTGAGAAATTTAATG
1 AGAAATTTGAGAAATTTAAGG
** *
35976345 AGAAATTTGAGAGCTTTAGGG
1 AGAAATTTGAGAAATTTAAGG
35976366 AGAAATT
1 AGAAATT
35976373 GTAGAGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (21 bp):
AGAAATTTGAGAAATTTAAGG
Found at i:35978572 original size:69 final size:69
Alignment explanation
Indices: 35978416--35978558 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
35978406 TTCTCGAATG
* * * *
35978416 AACAAACGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
35978481 GATA
66 GATA
* * *
35978485 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGTTTGGAGGTTGGGACAGCTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
35978550 GATA
66 GATA
*
35978554 GACAA
1 AACAA
35978559 TTTGCAAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.17
Consensus pattern (69 bp):
AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
GATA
Found at i:35983141 original size:16 final size:16
Alignment explanation
Indices: 35983120--35983171 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
35983110 TTATATTTAA
35983120 TAATATAATAAATTAT
1 TAATATAATAAATTAT
35983136 TAATATAATAAATTAT
1 TAATATAATAAATTAT
35983152 T--T-TAATAAATTACT
1 TAATATAATAAATTA-T
35983166 TAATAT
1 TAATAT
35983172 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 18 0.56
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATAAATTAT
Found at i:35983141 original size:26 final size:27
Alignment explanation
Indices: 35983104--35983178 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 27
35983094 ATACATATTT
*
35983104 AATTATTTATATTTAA-TAATATAATA
1 AATTATTAATATTTAATTAATATAATA
* * *
35983130 AATTATTAATATAATAAATTATTTTAATA
1 AATTATTAATAT--TTAATTAATATAATA
35983159 AATTACTTAATATTTTAATT
1 AATTA-TTAATA-TTTAATT
35983179 TTATTTTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 11 0.28
28 3 0.08
29 18 0.46
30 6 0.15
31 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTATTAATATTTAATTAATATAATA
Found at i:35983207 original size:16 final size:16
Alignment explanation
Indices: 35983186--35983216 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35983176 ATTTTATTTT
35983186 AATAATAATTTTAAAA
1 AATAATAATTTTAAAA
35983202 AATAATAATTTTAAA
1 AATAATAATTTTAAA
35983217 TTACATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAA
Found at i:35983275 original size:15 final size:15
Alignment explanation
Indices: 35983255--35983311 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
35983245 ATTCAATATT
35983255 AATATTTTAATAATA
1 AATATTTTAATAATA
*
35983270 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
35983289 AATATATTAATAATA
1 AATATTTTAATAATA
35983304 AATATTTT
1 AATATTTT
35983312 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:35983613 original size:39 final size:39
Alignment explanation
Indices: 35983545--35983621 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
35983535 GTTATAAAAA
* * *
35983545 GTATTTAGTTACAAAGTTGAGTTTCCAATAGGAGTTTGT
1 GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTGT
* * *
35983584 GTATTTGGCTACAAAATTGTGTTTTCAATAGGAATTTG
1 GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTG
35983622 AGTAATAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (39 bp):
GTATTTAGCTACAAAATTGAGTTTCCAATAGGAATTTGT
Found at i:36003226 original size:43 final size:42
Alignment explanation
Indices: 36003122--36003230 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
36003112 CGAGATGTGT
* * *
36003122 TTACATGTAATACCATGTCTGGGACATTGGAATGTATTGCGA
1 TTACGTGTAATACCATGTCTGGGACATTAGAATGTAATGCGA
*
36003164 TTACGTGTAATACCATGTCTGGGACATTAGCATCGTTAAT-CGA
1 TTACGTGTAATACCATGTCTGGGACATTAGAAT-G-TAATGCGA
* * *
36003207 TTTCGTGTAAGACCCTGTCTGGGA
1 TTACGTGTAATACCATGTCTGGGA
36003231 TAGTGGCATC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
42 30 0.52
43 25 0.43
44 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACGTGTAATACCATGTCTGGGACATTAGAATGTAATGCGA
Found at i:36005167 original size:43 final size:43
Alignment explanation
Indices: 36005114--36005212 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
36005104 TGGTTACATA
* * * * *
36005114 TAAGAGCATGTCTGAGACATTGGAATTG-TATTGTGATTATGTG
1 TAAGACCATGTCTGAGACATTGGAATCGTTAAT-CGATTACGTG
* * *
36005157 TAAGACCATGTTTGGGACATTGGCATCGTTAATCGATTACGTG
1 TAAGACCATGTCTGAGACATTGGAATCGTTAATCGATTACGTG
36005200 TAAGACCATGTCT
1 TAAGACCATGTCT
36005213 AGGATAGTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (43 bp):
TAAGACCATGTCTGAGACATTGGAATCGTTAATCGATTACGTG
Found at i:36009732 original size:18 final size:18
Alignment explanation
Indices: 36009689--36009732 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
36009679 CGTGTGGGCC
* *
36009689 ACACGGGAGTGTGGGAGT
1 ACACGGGCGTGTGGGAGA
36009707 ACACGGGCGTGTGGGAGA
1 ACACGGGCGTGTGGGAGA
36009725 ACACGGGC
1 ACACGGGC
36009733 AGGCCATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.48, T:0.11
Consensus pattern (18 bp):
ACACGGGCGTGTGGGAGA
Found at i:36015095 original size:23 final size:21
Alignment explanation
Indices: 36015064--36015117 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 21
36015054 CTTATATTAT
36015064 ATATGTATATATA-ATCGAGACAC
1 ATAT-TATATATATATCG-GA-AC
36015087 ATATATATATATATATCGGAAC
1 ATAT-TATATATATATCGGAAC
36015109 ATATTATAT
1 ATATTATAT
36015118 GAACTGAGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.17
22 6 0.21
23 14 0.48
24 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (21 bp):
ATATTATATATATATCGGAAC
Found at i:36015097 original size:25 final size:22
Alignment explanation
Indices: 36015062--36015117 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 22
36015052 TGCTTATATT
*
36015062 ATATATGTATATATAATCGAGACAC
1 ATATATATATATAT-ATCG-GA-AC
36015087 ATATATATATATATATCGGAAC
1 ATATATATATATATATCGGAAC
36015109 ATAT-TATAT
1 ATATATATAT
36015118 GAACTGAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 6 0.20
23 2 0.07
24 4 0.13
25 13 0.43
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
ATATATATATATATATCGGAAC
Found at i:36017427 original size:39 final size:39
Alignment explanation
Indices: 36017373--36017454 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
36017363 AATTAACCTT
36017373 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
*
36017412 AAAAAAACAACTTAAACTTTTAACGGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
36017451 AAAA
1 AAAA
36017455 TCTATAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (39 bp):
AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
Found at i:36017918 original size:38 final size:38
Alignment explanation
Indices: 36017838--36017919 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
36017828 AAGGTCATAG
* * *
36017838 CCACAATTAACCCCAACGGTAATGGGTTGGAACAAAAG
1 CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
** * *
36017876 CCACAATTAACCCCAGTGGTAGTGGATTGAAAGAAAAA
1 CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
36017914 CCACAA
1 CCACAA
36017920 ATCACTCCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (38 bp):
CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
Found at i:36021620 original size:34 final size:33
Alignment explanation
Indices: 36021569--36021633 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
36021559 AGTCAAATGT
*
36021569 AGTCTGGGCCTATGCCCATCTT-AGTCTTAGTAAC
1 AGTCCGGGCCTATGCCCAT-TTCAGT-TTAGTAAC
36021603 AGTCCGGGCCT-TAGCCCATTTCAGTTTAGTA
1 AGTCCGGGCCTAT-GCCCATTTCAGTTTAGTA
36021634 TCAAATATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (33 bp):
AGTCCGGGCCTATGCCCATTTCAGTTTAGTAAC
Found at i:36025048 original size:21 final size:21
Alignment explanation
Indices: 36025016--36025062 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
36025006 GTTTTAGTTA
36025016 TTTATTGATTTTAATTTATT-T
1 TTTATTGATTTTAA-TTATTAT
*
36025037 TTTATT-ATTTTTCATTATTAT
1 TTTATTGA-TTTTAATTATTAT
36025058 TTTAT
1 TTTAT
36025063 CTTTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTGATTTTAATTATTAT
Found at i:36025061 original size:28 final size:28
Alignment explanation
Indices: 36025007--36025078 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
36024997 AATTGTTTAG
*
36025007 TTTTAGTTATTTATTGATTTTAATTTAT-T
1 TTTTA-TTATTT-TTCATTTTAATTTATCT
*
36025036 TTTTATTATTTTTCATTATTATTTTATCT
1 TTTTATTATTTTTCATT-TTAATTTATCT
*
36025065 TTTGTTTTATTTTT
1 TTT-TATTATTTTT
36025079 TGTTTCCTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.14
28 14 0.38
29 9 0.24
30 9 0.24
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (28 bp):
TTTTATTATTTTTCATTTTAATTTATCT
Found at i:36032371 original size:34 final size:34
Alignment explanation
Indices: 36032289--36032373 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
36032279 CAGTACTATT
* * *
36032289 TAGTGTACTGGATGGTTTAGCTCATACGAGCATT
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
* * *
36032323 TGGTATGCTGGATGGATTAGCTCATACGAGTATC
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
*
36032357 TAGTGTGCTAGATGGAT
1 TAGTGTGCTGGATGGAT
36032374 AACGTGTACT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (34 bp):
TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
Found at i:36033714 original size:21 final size:21
Alignment explanation
Indices: 36033685--36033725 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36033675 TCAATATCGG
36033685 ACTAAAGTATTAATAATTTAT
1 ACTAAAGTATTAATAATTTAT
* * *
36033706 ACTATAGTATTGATACTTTA
1 ACTAAAGTATTAATAATTTA
36033726 CAAGGGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (21 bp):
ACTAAAGTATTAATAATTTAT
Found at i:36035520 original size:31 final size:31
Alignment explanation
Indices: 36035479--36035552 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
36035469 AGGGAATCTA
* *
36035479 GTGGGTGGTTATTTGTGGGACTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
* *
36035510 GTGGATGGTTAATTATGGGACTTAGTGTGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
36035541 GTGGGTGGTTAA
1 GTGGGTGGTTAA
36035553 GAAATTATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.03, G:0.42, T:0.38
Consensus pattern (31 bp):
GTGGGTGGTTAATTATGGGACTTAGTGGGAT
Found at i:36039310 original size:28 final size:28
Alignment explanation
Indices: 36039279--36039334 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
36039269 TTTCTAATTA
* * *
36039279 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
36039307 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
36039335 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:36039430 original size:14 final size:14
Alignment explanation
Indices: 36039385--36039449 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
36039375 TTATTTTATC
*
36039385 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
36039400 AAATTATATTATATT
1 ATA-TATTTTATTTT
36039415 ATATATTTTATTTT
1 ATATATTTTATTTT
*
36039429 ATATA-TTT-CTTT
1 ATATATTTTATTTT
36039441 ATATATTTT
1 ATATATTTT
36039450 TATAAAATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:36040496 original size:45 final size:45
Alignment explanation
Indices: 36040447--36040568 Score: 201
Period size: 45 Copynumber: 2.7 Consensus size: 45
36040437 TTTCATCGGT
36040447 ATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGGC
1 ATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGGC
* *
36040492 ATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCACCGGC
1 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGC
*
36040537 ATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
36040569 TAATACCAGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 3 0.04
45 69 0.96
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (45 bp):
ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGC
Found at i:36040609 original size:38 final size:38
Alignment explanation
Indices: 36040561--36040769 Score: 301
Period size: 38 Copynumber: 5.5 Consensus size: 38
36040551 GGCTCAAAGG
* * *
36040561 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36040599 CCAGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36040637 CCCGGATATATTACCAGCACGAAGTCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36040675 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36040713 CCCAGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
36040751 CCCGAATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
36040770 TATAACCTGC
Statistics
Matches: 154, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 154 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:36041174 original size:43 final size:44
Alignment explanation
Indices: 36041066--36041200 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
36041056 ACATAACATT
*
36041066 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
36041112 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
36041154 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
36041198 TCA
1 TCA
36041201 CATTTCGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 10 0.13
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:36044367 original size:18 final size:18
Alignment explanation
Indices: 36044341--36044381 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
36044331 TACCATATTA
* *
36044341 TATTTCATACTATATTTT
1 TATTACATACAATATTTT
36044359 TATTACATACAATATTTT
1 TATTACATACAATATTTT
36044377 TATTA
1 TATTA
36044382 TTCAATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTACATACAATATTTT
Found at i:36044389 original size:16 final size:17
Alignment explanation
Indices: 36044347--36044390 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
36044337 ATTATATTTC
*
36044347 ATACTATATTTTTATTA
1 ATACAATATTTTTATTA
36044364 CATACAATATTTTTATT-
1 -ATACAATATTTTTATTA
*
36044381 ATTCAATATT
1 ATACAATATT
36044391 CCTTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
ATACAATATTTTTATTA
Found at i:36044515 original size:21 final size:22
Alignment explanation
Indices: 36044489--36044549 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
36044479 GTAAAATACT
36044489 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
36044510 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
36044532 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
36044550 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:36047426 original size:37 final size:37
Alignment explanation
Indices: 36047383--36047485 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
36047373 TACTTGAAAT
36047383 ACTTGGAAATGATATTTAATTGATATATTGAAACATG
1 ACTTGGAAATGATATTTAATTGATATATTGAAACATG
* * * *
36047420 TCTTGGAAATGATATTTGCA-TGACATATTGAAACGTG
1 ACTTGGAAATGATATTT-AATTGATATATTGAAACATG
* * * *
36047457 ACATGGAAATGGTATTTACTTAATATATT
1 ACTTGGAAATGATATTTAATTGATATATT
36047486 AAAAAGTGAC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 52 0.98
38 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (37 bp):
ACTTGGAAATGATATTTAATTGATATATTGAAACATG
Found at i:36047495 original size:37 final size:37
Alignment explanation
Indices: 36047386--36047503 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 37
36047376 TTGAAATACT
* * * *
36047386 TGGAAATGATATTTAATTGATATATTGAAACA-TGTCT
1 TGGAAATGATATTTACTTGATATATT-AAAAAGTGACA
* * * * *
36047423 TGGAAATGATATTTGCATGACATATTGAAACGTGACA
1 TGGAAATGATATTTACTTGATATATTAAAAAGTGACA
* *
36047460 TGGAAATGGTATTTACTTAATATATTAAAAAGTGACA
1 TGGAAATGATATTTACTTGATATATTAAAAAGTGACA
*
36047497 TGTAAAT
1 TGGAAAT
36047504 ATGTGATTAT
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
36 2 0.03
37 61 0.97
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (37 bp):
TGGAAATGATATTTACTTGATATATTAAAAAGTGACA
Found at i:36050616 original size:22 final size:21
Alignment explanation
Indices: 36050586--36050632 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
36050576 TACAAATTAA
36050586 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
36050608 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
36050629 ATCT
1 ATCT
36050633 AGGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:36050629 original size:21 final size:19
Alignment explanation
Indices: 36050603--36050645 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
36050593 AGATTACAAG
36050603 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
36050624 ATCATATCTAGGATTGCAT
1 ATCATATCTAAGATTGCAT
36050643 ATC
1 ATC
36050646 CTTAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:36051014 original size:14 final size:16
Alignment explanation
Indices: 36050980--36051015 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36050970 AAACAACTTA
*
36050980 ATATAAGCAAATATTT
1 ATATAAACAAATATTT
36050996 ATATAAACAAATATTT
1 ATATAAACAAATATTT
36051012 ATAT
1 ATAT
36051016 TTATGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATAAACAAATATTT
Found at i:36062652 original size:27 final size:26
Alignment explanation
Indices: 36062621--36062960 Score: 367
Period size: 27 Copynumber: 12.5 Consensus size: 26
36062611 ACAAAATTAC
36062621 CGAAATACCCTTGTAGGGTAGAAATA
1 CGAAATACCCTTGTAGGGTAGAAATA
*
36062647 TCGAAATACCCCTGTAGGGTAGAAATA
1 -CGAAATACCCTTGTAGGGTAGAAATA
*
36062674 CCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCTTGTAGGGTAGAAATA
* *
36062701 CTAAAATACCCTTATAGGGTAGAAATA
1 C-GAAATACCCTTGTAGGGTAGAAATA
36062728 CCGAAATACCCTTGTAGGGTAGAAATA
1 -CGAAATACCCTTGTAGGGTAGAAATA
*
36062755 TTGAAATACCCTTGTAGGGTAGAAATA
1 -CGAAATACCCTTGTAGGGTAGAAATA
*
36062782 CTGAAATACCCCTGTAGGGTA-AAATTA
1 C-GAAATACCCTTGTAGGGTAGAAA-TA
* * *
36062809 CTAAAAATACCCCTGTAGGGTAGAATTA
1 C--GAAATACCCTTGTAGGGTAGAAATA
* * * *
36062837 CTAAAATACCCCTATAGGGTAGAATTA
1 C-GAAATACCCTTGTAGGGTAGAAATA
36062864 CCGAAATACCCTTGTAGGGGTAGAAATA
1 -CGAAATACCCTTGTA-GGGTAGAAATA
* * *
36062892 CCAAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCTTGTAGGGTAGAAATA
* *
36062919 CTGAAATACCCCTGTAGGGTAGAATTA
1 C-GAAATACCCTTGTAGGGTAGAAATA
*
36062946 CTGAGATACCCTTGT
1 C-GAAATACCCTTGT
36062961 GGGGAAAAAT
Statistics
Matches: 276, Mismatches: 28, Indels: 18
0.86 0.09 0.06
Matches are distributed among these distances:
26 5 0.02
27 222 0.80
28 47 0.17
29 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (26 bp):
CGAAATACCCTTGTAGGGTAGAAATA
Found at i:36062859 original size:82 final size:81
Alignment explanation
Indices: 36062615--36062960 Score: 478
Period size: 82 Copynumber: 4.2 Consensus size: 81
36062605 TAGTTTACAA
* * * *
36062615 AATTACCGAAATACCCTTGTAGGGTAGAAATATCGAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
*
36062680 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
36062696 AATTACTAAAATACCCTTATAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATATTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
*
36062761 TACCCTTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
36062777 AAATACTGAAATACCCCTGTAGGGTA-AAATTACTAAAAATACCCCTGTAGGGTAGAATTACTAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAA-TAC-CAAAATACCCCTGTAGGGTAGAAATACTGA
*
36062841 AATACCCCTATAGGGTAG
64 AATACCCCTGTAGGGTAG
* *
36062859 AATTACCGAAATACCCTTGTAGGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACTGAAATACCCTTGTA-GGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAA
36062924 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
36062941 AATTACTGAGATACCCTTGT
1 AATTACTGAAATACCCTTGT
36062961 GGGGAAAAAT
Statistics
Matches: 234, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.01
81 99 0.42
82 121 0.52
83 8 0.03
84 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
TACCCCTGTAGGGTAG
Found at i:36062972 original size:54 final size:54
Alignment explanation
Indices: 36062618--36062973 Score: 421
Period size: 54 Copynumber: 6.6 Consensus size: 54
36062608 TTTACAAAAT
36062618 TACCGAAATACCCTTGTAGGGTAGAAA-TA-TCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTA-AAATTACT-GAAATACCCCTGTAGGGTAGAAA
* * * *
36062672 TACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCTTATAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAAA
* *
36062726 TACCGAAATACCCTTGTAGGGTAGAAA-TATTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTA-AAATTACTGAAATACCCCTGTAGGGTAGAAA
* * * *
36062780 TACTGAAATACCCCTGTAGGGTAAAATTACTAAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAAAATTACT-GAAATACCCCTGTAGGGTAGAAA
** * * * * *
36062835 TACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTA-GGGTAGAAA
* * * *
36062890 TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAAA
* * * *
36062944 TACTGAGATACCCTTGTGGGGAAAAATTAC
1 TACCGAAATACCCTTGTAGGGTAAAATTAC
36062974 CATTTTACCC
Statistics
Matches: 263, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.02
54 159 0.60
55 99 0.38
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
TACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAAA
Found at i:36063309 original size:67 final size:67
Alignment explanation
Indices: 36063199--36063383 Score: 280
Period size: 67 Copynumber: 2.7 Consensus size: 67
36063189 GAGGAAACGT
* * *
36063199 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAA
36063264 TA
66 TA
* *
36063266 TTTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTATAGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAA
36063331 TA
66 TA
* * * *
36063333 TCTGGCAGCTTCGCTGCAATCTGGTGGCTTTGCCACATATATATATATATA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTAT-TATA
36063384 TCTGTTCTAG
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 102 0.96
68 4 0.04
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAA
TA
Found at i:36063597 original size:31 final size:31
Alignment explanation
Indices: 36063559--36063637 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
36063549 TTGCATTCAC
* *
36063559 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTAATTCTGATTCTGTCACCTGATACTG
*
36063590 ATTCTAATTCTGATTCTGTCACCTGATTCTG
1 ATTCTAATTCTGATTCTGTCACCTGATACTG
*
36063621 ATTCTGATTCTGATTCT
1 ATTCTAATTCTGATTCT
36063638 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTAATTCTGATTCTGTCACCTGATACTG
Found at i:36063607 original size:6 final size:6
Alignment explanation
Indices: 36063559--36063646 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
36063549 TTGCATTCAC
* * * *
36063559 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
36063608 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
36063647 AATATTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:36067130 original size:18 final size:18
Alignment explanation
Indices: 36067109--36067143 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36067099 ATACAATTAA
* *
36067109 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
36067127 TACAAATAATATAAACA
1 TACAAATAATATAAACA
36067144 ATAAAAAACA
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:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:36067896 original size:32 final size:35
Alignment explanation
Indices: 36067860--36067931 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
36067850 GACTACTAAG
36067860 GTAAAT-CCCTTC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
*
36067892 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTTC-TTCTTTTATTTTAAAATTTCAT
36067928 GTAA
1 GTAA
36067932 TCCTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
35 1 0.03
36 22 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
Found at i:36068367 original size:23 final size:23
Alignment explanation
Indices: 36068339--36068386 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
36068329 GTGCTGGGCT
36068339 ATTTGGGTTAATTGGATTAATAA
1 ATTTGGGTTAATTGGATTAATAA
36068362 ATTTGGGTTAATTGGATTAATAA
1 ATTTGGGTTAATTGGATTAATAA
36068385 AT
1 AT
36068387 GTAAATGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (23 bp):
ATTTGGGTTAATTGGATTAATAA
Done.