Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167953.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_213, whole genome shotgun sequence
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: 50268
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Found at i:559 original size:16 final size:17
Alignment explanation
Indices: 529--562 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
519 CACAATGATT
*
529 AATTATTAATTAAAATA
1 AATTATTAATAAAAATA
546 AATTA-TAATAAAAATA
1 AATTATTAATAAAAATA
562 A
1 A
563 CTATTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTATTAATAAAAATA
Found at i:1707 original size:293 final size:295
Alignment explanation
Indices: 1175--2985 Score: 1153
Period size: 293 Copynumber: 6.0 Consensus size: 295
1165 TAATTTTTCA
* * *
1175 TTGTGTTTCATACTTATTTGCTTTTAGATACATTTTTAGGTGCTCAAAGGATGTTGAGAATAAAT
1 TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCAAAGAATGTTGAGAATAAAT
*
1240 AATAATTATCCAATGATGGAATTTTTTGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
66 AATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
1305 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
131 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
1370 CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAAT-A-ATATATATTTA
196 CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
1433 ACAAAATAGCTACAATTAACACAGTTATTAATTAT
261 ACAAAATAGCTACAATTAACACAGTTATTAATTAT
*
1468 TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCTAAGAATGTTGAGAATAAAT
1 TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCAAAGAATGTTGAGAATAAAT
1533 AATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
66 AATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
1598 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
131 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
1663 CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
196 CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
1728 ACAAAATAGCTACAATTAACACAGTTATTAATTA-
261 ACAAAATAGCTACAATTAACACAGTTATTAATTAT
** * * * * ** *** * * * ** *
1762 -T-TAAATAAAAATAAATTATAATAAAAAATAAACTATTTGTTATGTGAT-ATAATTATATT-A-
1 TTGTATTTCATACT-TATT-TGCTTTTAGAT--AC-ATTT-TTAAGTGCTCA-AAGAATGTTGAG
* * * * * * * *
1822 CATAATTATATAAATTTATACGCTATCCAAT-AAATTTATTCA-TAA-TT-AAAAATTA--ATAT
59 AATAAATA-AT-AA-TTAT-C-CAAT--GATGGAATTT-TT-AGAAATTTCAAATATTAGTATCT
* * * * * * * * *
1881 AAATCTTAAAAATTAATATTTAAATATG---TTTACCAATTAATAATTATATTCTGAATAAAAGC
115 TATTATTTAAAATTAA-A--CAAAT-TGAAACTTA--AATT-AGAATAATATTC---A-AATAG-
** * * * * * * * *
1943 TT-T-AAT-TTTGTCCTGAGATCTTATATCTACTATTATCTAAT-TTATCATAATAA-ATTTAAT
168 TTATGAATATTTG-AATG-CAT-TAACAT-AACCA-TATTTATTGTTAT-A-AATAATTTTTAAT
* * * * * *
2003 T--CAAATTGAAT-TATCTAATAA-A-ATATATATAACAATAAT---TA-AA-TAAGA-A--TAT
226 TAGCTACTT-AATAAATCAAATAATATATATATTTAACAA-AATAGCTACAATTAACACAGTTAT
*
2055 TAAATTCT
289 T-AATTAT
* * ** * * *
2063 TAGTTATAATCTATACAGTTATAATT-AATTTA-ATTAAATAATTTTAA-T--TAAAACAATTGA
1 TTG-TAT-TTC-ATAC--TTAT--TTGCTTTTAGA-TACAT--TTTTAAGTGCTCAAAGAA-TG-
*** * * * * * ** * *
2123 TTTTCAACT-TATAAGCTTATTTGAAGCAAAATAATACTAATTTTTTA-ATACTTCAAGA-ATTA
54 TTGAGAA-TAAATAA---TAATT--ATC-CAATGAT-GGAA-TTTTTAGAAATTTCAA-ATATTA
* ** * * * * * ** **
2185 GTA---AAAGATTTAAAAAATAAATTAATTTACCAAACCGGTTTAAATAATTATGACCACTTCAA
109 GTATCTTATTATTT-AAAATTAAA-CAAATT--GAAA-C---TTAAATTAGAAT-AATA-TTCAA
* * * * * ******
2247 ATAATTATTACTATTTGAA--C---AA-AT-ATC-TATTTCAAATTATTATAAATAGAAAAAGCC
164 ATAGTTATGAATATTTGAATGCATTAACATAACCATATTT---ATTGTTATAAAT--AATTTTTA
* * * * * * * ** *
2304 ATATAGATA-ATAATTATGATTTAAA-ACATCAGACTTTGTTTCCTGAACAATTTTGGGCTTAAA
224 AT-TAGCTACTTAA-TA--AATCAAATA-AT-ATA-TAT-ATT--T-AACAA-AAT-AGC-T---
* ** *
2367 AACCATTCGCACAATTATTGCAAGATTTTAATTTT
272 -ACAATTAACACAGTTATT---A-A--TT-A---T
* * *
2402 CATTGTGTTTAATACTTA-TTGCTTTTAGATACA-TTTTAAGGTGCTCAAAGGATGTTGAGAATA
1 --TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAA-GTGCTCAAAGAATGTTGAGAATA
*
2465 AATAATAATTATCCAATGATGGAATTTTTTGAAATTTCAAATATTAGTATCTTATTATTTAAAAT
63 AATAATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAAT
2530 TAAACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACA
128 TAAACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACA
2595 TAACCATATTTATTGTTAT-AATAATTTTTAATTAGCTACTTAATAAATCAAAT-A-A-ATATAT
193 TAACCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATAT
2656 TTAACAAAATAGCTACAATTAACACAGTTATTAATTAT
258 TTAACAAAATAGCTACAATTAACACAGTTATTAATTAT
*
2694 TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCTAAGAATGTTGAGAAT-AAT
1 TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCAAAGAATGTTGAGAATAAAT
2758 AATAATTATCCAATGATGGAA-TTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
66 AATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
2822 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
131 ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
2887 CCATATTTATTGTTATAAAT-A-TTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
196 CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
2950 ACAAAATAGCTACAATTAACACAGTTATTAATTAT
261 ACAAAATAGCTACAATTAACACAGTTATTAATTAT
2985 T
1 T
2986 AATTAAAATA
Statistics
Matches: 1163, Mismatches: 192, Indels: 328
0.69 0.11 0.19
Matches are distributed among these distances:
288 28 0.02
289 125 0.11
290 42 0.04
291 80 0.07
292 13 0.01
293 245 0.21
294 6 0.01
295 46 0.04
296 10 0.01
297 7 0.01
298 20 0.02
299 24 0.02
300 13 0.01
301 14 0.01
302 45 0.04
303 26 0.02
304 13 0.01
305 17 0.01
306 37 0.03
307 36 0.03
308 45 0.04
309 21 0.02
310 20 0.02
311 14 0.01
312 8 0.01
313 6 0.01
314 4 0.00
315 2 0.00
316 7 0.01
317 1 0.00
318 5 0.00
319 21 0.02
320 9 0.01
321 18 0.02
323 3 0.00
324 10 0.01
325 12 0.01
326 19 0.02
327 16 0.01
328 11 0.01
329 5 0.00
330 8 0.01
331 6 0.01
332 3 0.00
333 12 0.01
334 9 0.01
335 8 0.01
336 3 0.00
338 4 0.00
339 2 0.00
340 2 0.00
341 2 0.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (295 bp):
TTGTATTTCATACTTATTTGCTTTTAGATACATTTTTAAGTGCTCAAAGAATGTTGAGAATAAAT
AATAATTATCCAATGATGGAATTTTTAGAAATTTCAAATATTAGTATCTTATTATTTAAAATTAA
ACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTATGAATATTTGAATGCATTAACATAA
CCATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAATAAATCAAATAATATATATATTTA
ACAAAATAGCTACAATTAACACAGTTATTAATTAT
Found at i:3001 original size:17 final size:18
Alignment explanation
Indices: 2979--3019 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
2969 CACAGTTATT
*
2979 AATTATTAAT-TAAAATA
1 AATTATTAATAAAAAATA
2996 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
3013 AACTATT
1 AATTATT
3020 TGTTATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:3945 original size:17 final size:18
Alignment explanation
Indices: 3914--3955 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
3904 CACAATTATT
*
3914 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
3932 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
3949 AACTATT
1 AATTATT
3956 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:4045 original size:18 final size:18
Alignment explanation
Indices: 4022--4066 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
4012 ATTTATTCAT
4022 AATTAATAAATAAT-TAAA
1 AATTAATAAA-AATATAAA
*
4040 AATTAATATAAATATAAA
1 AATTAATAAAAATATAAA
4058 AATTAATAA
1 AATTAATAA
4067 TTATATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAATAAAAATATAAA
Found at i:4068 original size:25 final size:28
Alignment explanation
Indices: 4010--4083 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
4000 GCAATCCAAT
*
4010 AAATT-TATTCATAATTAATAAATAATTAA
1 AAATTATATT-ATAAAT-ATAAATAATTAA
4039 AAATTA-A-TATAAATATAAA-AATTAA
1 AAATTATATTATAAATATAAATAATTAA
* *
4064 TAATTATATTATGAATATAA
1 AAATTATATTATAAATATAA
4084 TCTTTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 11 0.28
26 6 0.15
27 15 0.38
28 1 0.03
29 6 0.15
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
AAATTATATTATAAATATAAATAATTAA
Found at i:4072 original size:18 final size:18
Alignment explanation
Indices: 4022--4072 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
4012 ATTTATTCAT
*
4022 AATTAATAAATA-ATTAAA
1 AATTAATAATTATA-TAAA
*
4040 AATTAAT-ATAAATATAAA
1 AATTAATAAT-TATATAAA
4058 AATTAATAATTATAT
1 AATTAATAATTATAT
4073 TATGAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 1 0.04
18 23 0.85
19 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTAATAATTATATAAA
Found at i:5170 original size:16 final size:17
Alignment explanation
Indices: 5149--5181 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5139 TATTGATTTC
5149 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
5165 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
5182 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:5644 original size:22 final size:22
Alignment explanation
Indices: 5606--5647 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5596 GAATGTTAAT
*
5606 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
5628 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
5648 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:6997 original size:17 final size:18
Alignment explanation
Indices: 6966--7007 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
6956 CACAGTTATT
*
6966 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
6984 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
7001 AACTATT
1 AATTATT
7008 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:7311 original size:17 final size:16
Alignment explanation
Indices: 7271--7320 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
7261 ATCTATACAG
7271 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
7286 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
7300 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
7318 TTA
1 TTA
7321 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:8628 original size:17 final size:18
Alignment explanation
Indices: 8597--8638 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
8587 CACAGTTATT
*
8597 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
8615 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
8632 AACTATT
1 AATTATT
8639 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:9550 original size:16 final size:18
Alignment explanation
Indices: 9519--9559 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
9509 CACAATTATT
9519 AATTATTAATTAAAAATA
1 AATTATTAATTAAAAATA
9537 AATTA-TAA-TAAAAATA
1 AATTATTAATTAAAAATA
*
9553 AACTATT
1 AATTATT
9560 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATTAAAAATA
Found at i:9653 original size:19 final size:19
Alignment explanation
Indices: 9631--9669 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9621 TTCATAATTA
* *
9631 ATAAGTAATTAAAATTAAT
1 ATAAATAATAAAAATTAAT
*
9650 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
9669 A
1 A
9670 ATTATATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:9858 original size:17 final size:15
Alignment explanation
Indices: 9822--9868 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
9812 ATATAGTTCT
9822 AATTAA-TTTAATTA
1 AATTAATTTTAATTA
9836 AA-TAATTTTAATTA
1 AATTAATTTTAATTA
9850 TCAATTAATTTATAATTA
1 --AATTAATTT-TAATTA
9868 A
1 A
9869 TAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
16 3 0.11
17 6 0.21
18 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTTAATTA
Found at i:10775 original size:16 final size:17
Alignment explanation
Indices: 10754--10786 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10744 TATTGATTTC
10754 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
10770 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
10787 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:11176 original size:157 final size:155
Alignment explanation
Indices: 10827--11131 Score: 389
Period size: 156 Copynumber: 1.9 Consensus size: 155
10817 TAAATCACTT
* * *
10827 ATTAATTTTTGAAATATTAATAAATTACTATTATTTTATTTCAAATAAGCTTGTATAAACTGAAA
1 ATTAATTTTTGAAATATTAA-GAATTAGTAATATTTTATTTCAAATAAGCTTGTATAAACTGAAA
* *
10892 CAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAATATTCAAATAGCCATA
65 CAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATATTCAAATAGCCACA
*
10957 ACTATTTAAATTTATTAAATAAACAA
130 ACTATTTAAATTGATTAAATAAACAA
* * * * *
10983 ATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATCTTC-GATAAGCTTTTCTGAACTGAA
1 ATTAATTTTTGAAATATTAAG-AATTAGTAATATTTTAT-TTCAAATAAGCTTGTATAAACTGAA
* * * *
11047 ACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAAT-TGTACAAATAGT
64 ACAATTG-TTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATAT-T-CAAATAGC
*
11111 CACAACTATTTGAACTTGATT
126 CACAACTATTT-AAATTGATT
11132 GGTAAACATA
Statistics
Matches: 129, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
156 61 0.47
157 44 0.34
158 17 0.13
159 7 0.05
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (155 bp):
ATTAATTTTTGAAATATTAAGAATTAGTAATATTTTATTTCAAATAAGCTTGTATAAACTGAAAC
AATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATATTCAAATAGCCACAA
CTATTTAAATTGATTAAATAAACAA
Found at i:11225 original size:22 final size:22
Alignment explanation
Indices: 11187--11228 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11177 GAATGTTAAT
*
11187 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
11209 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
11229 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:12227 original size:16 final size:17
Alignment explanation
Indices: 12206--12238 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12196 TATTGATTTC
12206 AAATAG-ATAATTATTG
1 AAATAGAATAATTATTG
12222 AAATAGACATAATTATT
1 AAATAGA-ATAATTATT
12239 TGAACTAATT
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:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGAATAATTATTG
Found at i:12483 original size:156 final size:158
Alignment explanation
Indices: 12279--12573 Score: 443
Period size: 156 Copynumber: 1.9 Consensus size: 158
12269 TAAATCACTT
* *
12279 ATTAATTTTTGAAATATTAATAAATTTCTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAA
1 ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAA
*
12344 CAATTG-TTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAA-TATTCAAATAGCCA
66 CAATTGTTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATTATTCAAATAGCCA
*
12407 TAACTATTTAAATTTGTTAAATAAACAA
131 CAACTATTTAAATTTGTTAAATAAACAA
* ** *
12435 ATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATCTT-GGATAAGCTTTTATGAACTGAA
1 ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTAT-TTCAAATAAGCTTGTATGAACTGAA
* * * * *
12499 ACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTC
65 ACAATTGTTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATTATTCAAATAGCC
12564 ACAACTATTT
130 ACAACTATTT
12574 GAACTTGATT
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
156 62 0.50
157 41 0.33
158 20 0.16
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.40
Consensus pattern (158 bp):
ATTAATTTTTGAAATATTAAGAAATTACTATTATTTTATTTCAAATAAGCTTGTATGAACTGAAA
CAATTGTTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAAATAATTATTCAAATAGCCA
CAACTATTTAAATTTGTTAAATAAACAA
Found at i:12677 original size:22 final size:22
Alignment explanation
Indices: 12639--12680 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12629 GAATGGTAAT
*
12639 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
12661 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
12681 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:13390 original size:173 final size:176
Alignment explanation
Indices: 12958--13392 Score: 407
Period size: 173 Copynumber: 2.5 Consensus size: 176
12948 CTGTTTGACC
* ** * * *
12958 AATTGTCTATTTAAAATTGTTGTGACCTTTCG-TTTGTCATAAAACAATTGTTTT-AGTTCATAC
1 AATTATCTATTTAAAATCCTTATGACCTTTCGTTTTGTCATAAAATAATTGTTTTCA--ACATAC
*
13021 AAGCTTATTCAAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTATTAACTAAGTGATTT
64 AAGCTTATT--AAATAAAATAAAACTAATTTATTAATATTCCAAAAA-TATTAACTAAGAGATTT
* * **** * * * * *
13086 AAAAAGTTAATTTTTTTATCGAATCAGCTCAAATAGTGATGTCCATTTGAAT
126 AAAAAATAAATCAACTTACCAAATCAGATCAAATAATGATGGCCA-TTGAAT
* * * * * ** *
13138 AGTTATCTATTTAAAATCGTTATGAGCTTTTGTTTTTTCATAAAATAATTG-TTTCAGTATAAAA
1 AATTATCTATTTAAAATCCTTATGACCTTTCGTTTTGTCATAAAATAATTGTTTTCAACATACAA
* * * *
13202 GCTTATGCAAAATAAAATAATACTACTTTATTAATATTTC-AAAA-ATTAA-TAAGAGATTTAAA
66 GCTTAT--TAAATAAAATAAAACTAATTTATTAATATTCCAAAAATATTAACTAAGAGATTTAAA
* * * *
13264 AAATAAATCAACTTGCCAAATTATATCAAATAATTATGGCC-TTGAAT
129 AAATAAATCAACTTACCAAATCAGATCAAATAATGATGGCCATTGAAT
** *
13311 AATTATCTATTTCCAATCCTTATTACCTTTCGTTTTGTCATAAAATAATTGTTTTCCAACATACA
1 AATTATCTATTTAAAATCCTTATGACCTTTCGTTTTGTCATAAAATAATTGTTTT-CAACATACA
13376 AGCTTATTAAATAAAAT
65 AGCTTATTAAATAAAAT
13393 TGTTATTACC
Statistics
Matches: 206, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
173 58 0.28
174 3 0.01
175 51 0.25
176 5 0.02
178 4 0.02
179 39 0.19
180 29 0.14
181 17 0.08
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (176 bp):
AATTATCTATTTAAAATCCTTATGACCTTTCGTTTTGTCATAAAATAATTGTTTTCAACATACAA
GCTTATTAAATAAAATAAAACTAATTTATTAATATTCCAAAAATATTAACTAAGAGATTTAAAAA
ATAAATCAACTTACCAAATCAGATCAAATAATGATGGCCATTGAAT
Found at i:14012 original size:17 final size:18
Alignment explanation
Indices: 13981--14022 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
13971 CACAGTTATT
*
13981 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
13999 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
14016 AACTATT
1 AATTATT
14023 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:14048 original size:13 final size:13
Alignment explanation
Indices: 14032--14056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14022 TTGTTATGTG
14032 ATATAATTATATT
1 ATATAATTATATT
14045 ATATAATTATAT
1 ATATAATTATAT
14057 AAATTTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATAATTATATT
Found at i:14295 original size:11 final size:10
Alignment explanation
Indices: 14263--14305 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
14253 ATCTATACAG
14263 TTATAATTAA
1 TTATAATTAA
14273 TTA-AATTTAA
1 TTATAA-TTAA
14283 TTATCAATTAA
1 TTAT-AATTAA
14294 TTTATAATTAA
1 -TTATAATTAA
14305 T
1 T
14306 AAAAACTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 2 0.07
10 11 0.38
11 10 0.34
12 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATAATTAA
Found at i:15209 original size:16 final size:17
Alignment explanation
Indices: 15188--15220 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15178 TATTGATTTC
15188 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
15204 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
15221 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:15427 original size:176 final size:180
Alignment explanation
Indices: 15166--15583 Score: 463
Period size: 180 Copynumber: 2.3 Consensus size: 180
15156 TATATGATCG
* * * * * *
15166 AACAAAAGGTAATATTGATTTCAAATAGATAATTATTGAAATAGCCATAATTATTTGAACTAATT
1 AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATT
* * * * *
15231 CAGTAAACAAAATCA-TTTTTTAAA-TC-ACTTATTAATTTTGGAAATATTAATAAATT-GCTAC
66 AAATAAACAAAATAATTTTTTTAAACTCTACTCATTAATTTTGGAAATATTAAGAAATTAG-TAC
*
15292 TATTTT-TTTTCGAATAAGCTTGTATGAACTGAAACAATT-ATTTTACGACAA
130 TATTTTATCTT-G-ATAAGCTTGTATGAACTGAAACAATTGATTTTACGACAA
* * * **
15343 AACAAAAGATCATAATGATTTTAAATAGATAA-TATTCAAATAGCCCTAACTATTTAAATTTGTT
1 AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATT
* * * *
15407 AAATAAACAAATTAATTTTTTTAAACTCTTGCTCATTAATTTTTGAAATATTAAGAAATTAGTAT
66 AAATAAACAAAATAATTTTTTTAAACTC-TACTCATTAATTTTGGAAATATTAAGAAATTAGTAC
* * ** *
15472 TATTTTATCTTGATAAGCTTTTATGAACTGAAACAATTGTTTTTTTGTCAA
130 TATTTTATCTTGATAAGCTTGTATGAACTGAAACAATTGATTTTACGACAA
* * * * * *
15523 AACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATTGTCACAACTATTTGAACT
1 AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACT
15584 TGATTGGTAA
Statistics
Matches: 198, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
176 36 0.18
177 37 0.19
178 2 0.01
179 25 0.13
180 73 0.37
181 25 0.13
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (180 bp):
AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATT
AAATAAACAAAATAATTTTTTTAAACTCTACTCATTAATTTTGGAAATATTAAGAAATTAGTACT
ATTTTATCTTGATAAGCTTGTATGAACTGAAACAATTGATTTTACGACAA
Found at i:15682 original size:22 final size:22
Alignment explanation
Indices: 15644--15685 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15634 GAATGTTAAT
*
15644 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
15666 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
15686 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:16453 original size:66 final size:65
Alignment explanation
Indices: 16330--16454 Score: 162
Period size: 66 Copynumber: 1.9 Consensus size: 65
16320 ATTTGTTTCC
* **
16330 AATTATTATTACCTTTCGTTTTGTCGTAAAACAATTGTTTTCCAACATACATGCTTATTAAATAA
1 AATTATTATTACCTTTCGTTTTGTCATAAAACAATTGTTTTCCAACATACAAACTTATTAAATAA
* * * *
16395 AATTGTTATTACCTTTTCTTTTTGTCATAAAACAATTGATTTT-CAACTTATAAACTTATT
1 AATTATTATTACC-TTTCGTTTTGTCATAAAACAATTG-TTTTCCAACATACAAACTTATT
16455 TAAAACAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
65 12 0.24
66 35 0.69
67 4 0.08
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.46
Consensus pattern (65 bp):
AATTATTATTACCTTTCGTTTTGTCATAAAACAATTGTTTTCCAACATACAAACTTATTAAATAA
Found at i:17033 original size:17 final size:18
Alignment explanation
Indices: 17002--17043 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
16992 CACAATTATT
*
17002 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
17020 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
17037 AACTATT
1 AATTATT
17044 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:17140 original size:20 final size:19
Alignment explanation
Indices: 17115--17154 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17105 TTCATAATTA
17115 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
17135 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
17154 A
1 A
17155 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:17343 original size:17 final size:16
Alignment explanation
Indices: 17303--17352 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
17293 ATCTATACAG
17303 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
17318 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
17332 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
17350 TTA
1 TTA
17353 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:18261 original size:16 final size:17
Alignment explanation
Indices: 18240--18272 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18230 TATTGATTTC
18240 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
18256 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
18273 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:18479 original size:176 final size:180
Alignment explanation
Indices: 18233--18635 Score: 467
Period size: 180 Copynumber: 2.3 Consensus size: 180
18223 ATGGTAATAT
* * * * * * * *
18233 TGATTTCAAATAGATAATTATTGAAATAGCCATAATTATTTGAACTAATTCAGTGAACAAAATCA
1 TGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATAA
* *
18298 -TTTTTTAAA-TC-ACTTATTAATTTTTCAAATATTAATAAATTACTATTATTTTAT-TTCGAAT
66 TTTTTTTAAACTCTACTCATTAATTTTTCAAATATTAAGAAATTACTATTATTTTATCTT-GAAT
18359 AAGATTGTATGAACTGAAACAATTG-TTTTACGACAAAACAAAAGATCATAA
130 AAGATTGTAT-AACTGAAACAATTGTTTTTACGACAAAACAAAAGATCATAA
* ** *
18410 TGATTTTAAATAGATAA-TATTCAAATAGCCATAACTATTTAAATTTGTTAAATAAACAAATTAA
1 TGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATAA
* * * *
18474 TTTTTTTAAACTCTTGCTCATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATCTTGGAT
66 TTTTTTTAAACTC-TACTCATTAATTTTTCAAATATTAAGAAATTACTATTATTTTATCTTGAAT
* * * ** * *
18539 AAGCTTTTATTACTGAAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAA
130 AAGATTGTATAACTGAAACAATTGTTTTTACGACAAAACAAAAGATCATAA
* * * * *
18590 TGATTTTAAATAAATAATTGTTCAAATAGTCACAACTATTTGAACT
1 TGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACT
18636 TGATTGGTAA
Statistics
Matches: 188, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
176 36 0.19
177 25 0.13
178 2 0.01
179 13 0.07
180 87 0.46
181 25 0.13
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
TGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATAA
TTTTTTTAAACTCTACTCATTAATTTTTCAAATATTAAGAAATTACTATTATTTTATCTTGAATA
AGATTGTATAACTGAAACAATTGTTTTTACGACAAAACAAAAGATCATAA
Found at i:18734 original size:22 final size:22
Alignment explanation
Indices: 18696--18737 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18686 GAATGTTAAT
*
18696 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
18718 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
18738 GTTTGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:20082 original size:17 final size:18
Alignment explanation
Indices: 20051--20092 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
20041 CACAGTTATT
*
20051 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
20069 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
20086 AACTATT
1 AATTATT
20093 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:21026 original size:177 final size:174
Alignment explanation
Indices: 20801--21232 Score: 444
Period size: 174 Copynumber: 2.5 Consensus size: 174
20791 TATGATAAAA
* * ** * *
20801 AAACAATTATTATATGACCGAACAAAAGGTAATATTG-ATTTCAAATAGATAATTATTGAAATAG
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGAATTT-AAATAGATAATTATT-AAATAG
* * * *
20865 CCATAACTATTTGAACTAGTTCAGGAAACAAAATCATTTTTTAAATC-ACTTAT-TAATTTTTCA
64 CCATAACTATTTGAACTAGTTAAAGAAACAAAATAATTTTTTAAATCTACTCATATAATTTTT--
*
20928 AATATTAATAAATTACTATTATTTTAT-TTCGAATAAGCTTGTATGAACTG
127 AATATTAAGAAA-TACTATTATTTTATCTT-GAATAAGCTTGTATG-ACTG
* *
20978 AAACAATTGTTTTATGACAAAACAAAAGCTCATAATGAATTTAAATAGATAA-TATTCAATAGCC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGAATTTAAATAGATAATTATTAAATAGCC
* * * * * * * *
21042 -TAACTATTTAAATTTGTTAAATAAACAAATTAATTTTTTAACTCTTGCTCATATAATTTTTGAT
66 ATAACTATTTGAACTAGTTAAAGAAACAAAATAATTTTTTAAATC-TACTCATATAATTTTTAAT
* * *
21106 ATTAAGAAATAGTATTATTTTATCTTGGATAAGCTTTTATGACTG
130 ATTAAGAAATACTATTATTTTATCTTGAATAAGCTTGTATGACTG
* * * * * *
21151 AAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAACTAG
1 AAACAATTG-TTTTATGACAAAACAAAAGGTCATAATGAATTTAAATAGATAATTATT-AAATAG
* *
21216 TCACAACTATTTGAACT
64 CCATAACTATTTGAACT
21233 TGATTGGTAA
Statistics
Matches: 210, Mismatches: 36, Indels: 18
0.80 0.14 0.07
Matches are distributed among these distances:
173 13 0.06
174 99 0.47
175 22 0.10
176 13 0.06
177 59 0.28
178 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (174 bp):
AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGAATTTAAATAGATAATTATTAAATAGCC
ATAACTATTTGAACTAGTTAAAGAAACAAAATAATTTTTTAAATCTACTCATATAATTTTTAATA
TTAAGAAATACTATTATTTTATCTTGAATAAGCTTGTATGACTG
Found at i:22678 original size:17 final size:18
Alignment explanation
Indices: 22647--22688 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
22637 CACAGTTATT
*
22647 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
22665 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
22682 AACTATT
1 AATTATT
22689 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:23614 original size:17 final size:18
Alignment explanation
Indices: 23583--23624 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
23573 CACAATTATT
*
23583 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
23601 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
23618 AACTATT
1 AATTATT
23625 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:23721 original size:20 final size:19
Alignment explanation
Indices: 23696--23735 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23686 TTCATAATTA
23696 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
23716 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
23735 A
1 A
23736 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:23924 original size:17 final size:16
Alignment explanation
Indices: 23884--23933 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
23874 ATCTATACAG
23884 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
23899 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
23913 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
23931 TTA
1 TTA
23934 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:24840 original size:16 final size:17
Alignment explanation
Indices: 24819--24851 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24809 TATTGATTTC
24819 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
24835 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
24852 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:25060 original size:177 final size:178
Alignment explanation
Indices: 24698--25215 Score: 562
Period size: 177 Copynumber: 2.9 Consensus size: 178
24688 AAATAAATTT
* * * ** * *
24698 ATTTTTTAAATTTCTTACTTACTAACTTTTGAAAGGTTAATAAATTAGTGTTATTTTA-TTC-AG
1 ATTTTTTAAA-CTC-TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGAT
** * * ** * * *
24761 AAGCTTGTATGATA-AAAAACAATTATTATATGACCGAACAAAAGGTAATATTGATTTCAAATAG
64 AAGCTTGTATGA-ACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAG
* * * * * *
24825 ATAATTATTGAAATAGCCATAATTATTTGAACTAATTCAGTAAACAAAATC
128 ATAATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATA
*
24876 ATTTTTTAAA-TC-ACTTATTAATTTTTGAAATATTAATAAATTACTATTATTTTATTTCGAATA
1 ATTTTTTAAACTCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCG-ATA
*
24939 AGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGAT
65 AGCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGAT
* ** *
25004 AA-TATTCAAATAGCCATAACTATTTAAATTTGTTAAATAAACAAATTA
130 AATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATA
* * * *
25052 ATTTTTTTAAACTCTTGCTCATTAATTTTTGAAATATTAAGAAATTAGTATTATTTTATCTTGGA
1 A-TTTTTTAAACTC-TACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAT-TTCGA
* * *
25117 TAAGCTTTTATGAACTGAAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATA
63 TAAGCTTGTATGAACTGAAACAATTG-TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATA
* * * * *
25182 AATAATTGTTCAAATAGTCACAACTATTTGAACT
127 GATAATTATTCAAATAGCCATAACTATTTAAACT
25216 TGATTGGTAA
Statistics
Matches: 287, Mismatches: 42, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
174 36 0.13
175 3 0.01
176 40 0.14
177 66 0.23
178 12 0.04
180 65 0.23
181 42 0.15
182 23 0.08
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (178 bp):
ATTTTTTAAACTCTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCGATAA
GCTTGTATGAACTGAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATA
ATTATTCAAATAGCCATAACTATTTAAACTAATTAAATAAACAAAATA
Found at i:25131 original size:180 final size:177
Alignment explanation
Indices: 24777--25215 Score: 531
Period size: 180 Copynumber: 2.5 Consensus size: 177
24767 GTATGATAAA
* * ** * * * *
24777 AAACAATTATTATATGACCGAACAAAAGGTAATATTGATTTCAAATAGATAATTATTGAAATAGC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
* * * * * *
24842 CATAATTATTTGAACTAATTCAGTAAACAAAATCATTTTTTAAATCACTTATTAATTTTTGAAAT
66 CATAACTATTTAAACTAATTAAATAAACAAAATAATTTTTTAAATCACTCATTAATTTTTGAAAT
*
24907 ATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
131 ATTAAGAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
*
24954 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAA-TATTCAAATAGC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
* ** * *
25018 CATAACTATTTAAATTTGTTAAATAAACAAATTAATTTTTTTAAACTCTTGCTCATTAATTTTTG
66 CATAACTATTTAAACTAATTAAATAAACAAAATAA-TTTTTTAAA-TC--ACTCATTAATTTTTG
* * *
25083 AAATATTAAGAAATTAGTATTATTTTATCTT-GGATAAGCTTTTATGAACTG
127 AAATATTAAGAAATTACTATTATTTTAT-TTCGAATAAGCTTGTATGAACTG
* * * *
25134 AAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAG
1 AAACAATTG-TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAG
* * *
25199 TCACAACTATTTGAACT
65 CCATAACTATTTAAACT
25216 TGATTGGTAA
Statistics
Matches: 222, Mismatches: 33, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
176 37 0.17
177 53 0.24
178 2 0.01
180 66 0.30
181 41 0.18
182 23 0.10
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (177 bp):
AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
CATAACTATTTAAACTAATTAAATAAACAAAATAATTTTTTAAATCACTCATTAATTTTTGAAAT
ATTAAGAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
Found at i:25314 original size:22 final size:22
Alignment explanation
Indices: 25276--25317 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25266 GAATGTTAAT
*
25276 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
25298 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
25318 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:26027 original size:173 final size:176
Alignment explanation
Indices: 25595--26029 Score: 427
Period size: 173 Copynumber: 2.5 Consensus size: 176
25585 CTATTTGACC
* * ** *
25595 AATTGTCTATTTAAAATTGTTATGACCTTTCG-TTTGTCATAAAACAATTGTTTT-AGTTCATAC
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCA--ACATAC
*
25658 AAGCTTATTCAAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTAATAACTAAGTGATTT
64 AAGCTTATT--AAATAAAATAAAACTAATTTATTAATATTCCAAAAATT-ATAACTAAGAGATTT
* * **** * * * *
25723 AAAAAGTTAATTTTTTTATCGAATCAGTTCAAATAGTCATGTCCATTTGAAT
126 AAAAAATAAATCAGCTTACCAAATCAGTTCAAATAATCATGGCCA-TTGAAT
* * * * * ** *
25775 AGTTATCTATTTCAAATCGTTATGACCTTTTGTTTTTTCATAAAATAATTG-TTTCAGTATAAAA
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCAACATACAA
* * * *
25839 GCTTATGCAAAATAAAATAATACTACTTTATTAATATTTCAAAAA-T-TAA-TAAGAGATTTAAA
66 GCTTAT--TAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTATAACTAAGAGATTTAAA
* * *
25901 AAATAAATCAGCTTGCCAAATTA-TATCAAATAATTATGGCC-TTGAAT
129 AAATAAATCAGCTTACCAAATCAGT-TCAAATAATCATGGCCATTGAAT
* *
25948 AATTATCTATTTCCAATCATTATTACCTTTCGTTTTGTCATAAAACAATTGTTTTCCAACATACA
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTT-CAACATACA
26013 AGCTTATTAAATAAAAT
65 AGCTTATTAAATAAAAT
26030 TGTTATTACC
Statistics
Matches: 209, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
173 59 0.28
174 4 0.02
175 51 0.24
176 3 0.01
178 1 0.00
179 44 0.21
180 30 0.14
181 17 0.08
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (176 bp):
AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCAACATACAA
GCTTATTAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTATAACTAAGAGATTTAAAAA
ATAAATCAGCTTACCAAATCAGTTCAAATAATCATGGCCATTGAAT
Found at i:26664 original size:17 final size:18
Alignment explanation
Indices: 26633--26674 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
26623 CACAGTTATT
*
26633 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
26651 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
26668 AACTATT
1 AATTATT
26675 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:27598 original size:17 final size:18
Alignment explanation
Indices: 27567--27608 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
27557 CACAATTATT
*
27567 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
27585 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
27602 AACTATT
1 AATTATT
27609 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:27906 original size:17 final size:15
Alignment explanation
Indices: 27870--27916 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
27860 ATATAGTTCT
27870 AATTAA-TTTAATTA
1 AATTAATTTTAATTA
27884 AA-TAATTTTAATTA
1 AATTAATTTTAATTA
27898 TCAATTAATTTATAATTA
1 --AATTAATTT-TAATTA
27916 A
1 A
27917 TAAAAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
16 3 0.11
17 6 0.21
18 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTTAATTA
Found at i:29292 original size:22 final size:22
Alignment explanation
Indices: 29254--29295 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29244 GAATGTTAAT
*
29254 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
29276 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
29296 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:30005 original size:173 final size:176
Alignment explanation
Indices: 29573--30007 Score: 427
Period size: 173 Copynumber: 2.5 Consensus size: 176
29563 CTATTTGACC
* * ** *
29573 AATTGTCTATTTAAAATTGTTATGACCTTTCG-TTTGTCATAAAACAATTGTTTT-AGTTCATAC
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCA--ACATAC
*
29636 AAGCTTATTCAAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTAATAACTAAGTGATTT
64 AAGCTTATT--AAATAAAATAAAACTAATTTATTAATATTCCAAAAATT-ATAACTAAGAGATTT
* * **** * * * *
29701 AAAAAGTTAATTTTTTTATCGAATCAGTTCAAATAGTCATGTCCATTTGAAT
126 AAAAAATAAATCAGCTTACCAAATCAGTTCAAATAATCATGGCCA-TTGAAT
* * * * * ** *
29753 AGTTATCTATTTCAAATCGTTATGACCTTTTGTTTTTTCATAAAATAATTG-TTTCAGTATAAAA
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCAACATACAA
* * * *
29817 GCTTATGCAAAATAAAATAATACTACTTTATTAATATTTCAAAAA-T-TAA-TAAGAGATTTAAA
66 GCTTAT--TAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTATAACTAAGAGATTTAAA
* * *
29879 AAATAAATCAGCTTGCCAAATTA-TATCAAATAATTATGGCC-TTGAAT
129 AAATAAATCAGCTTACCAAATCAGT-TCAAATAATCATGGCCATTGAAT
* *
29926 AATTATCTATTTCCAATCATTATTACCTTTCGTTTTGTCATAAAACAATTGTTTTCCAACATACA
1 AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTT-CAACATACA
29991 AGCTTATTAAATAAAAT
65 AGCTTATTAAATAAAAT
30008 TGTTATTACC
Statistics
Matches: 209, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
173 59 0.28
174 4 0.02
175 51 0.24
176 3 0.01
178 1 0.00
179 44 0.21
180 30 0.14
181 17 0.08
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (176 bp):
AATTATCTATTTCAAATCATTATGACCTTTCGTTTTGTCATAAAACAATTGTTTTCAACATACAA
GCTTATTAAATAAAATAAAACTAATTTATTAATATTCCAAAAATTATAACTAAGAGATTTAAAAA
ATAAATCAGCTTACCAAATCAGTTCAAATAATCATGGCCATTGAAT
Found at i:30748 original size:20 final size:19
Alignment explanation
Indices: 30725--30764 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
30715 TCATTAATTA
30725 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
30745 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
30764 A
1 A
30765 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:30952 original size:17 final size:16
Alignment explanation
Indices: 30912--30961 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
30902 ATCTATACAG
30912 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
30927 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
30941 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
30959 TTA
1 TTA
30962 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:31869 original size:16 final size:17
Alignment explanation
Indices: 31848--31880 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
31838 TATTGATTTC
31848 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
31864 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
31881 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:32102 original size:175 final size:174
Alignment explanation
Indices: 31752--32239 Score: 536
Period size: 175 Copynumber: 2.8 Consensus size: 174
31742 ACTTACTAAC
** * * *** *
31752 TTTTGAAAGGTTAATAAATTAGTGTTATTTTA-TTC-AGAAGCTTGTATGATAAAAAAACAATTA
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGATAAGCTTGTATGA-ACTGAAACAATTG
* ** * * * * *
31815 TTATATGACCGAACAAAAGGTAATATTGATTTCAAATAGATAATTATTGAAATAGCCATAATTAT
65 TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTAT
* * * *
31880 TTGAACTAATTCAGTAAACAAAATCATTTTTTAAATCACTTATTAAT
130 TTAAACTAATTAAATAAAC-AAA-CATTTTTTAAATCACTCATTAAT
*
31927 TTTTGAAATATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTGAAACAATTG
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCG-ATAAGCTTGTATGAACTGAAACAATTG
*
31992 TTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAA-TATTCAAATAGCCATAACTAT
65 TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTAT
* ** *
32056 TTAAATTTGTTAAATAAAC-AA-ATTTTTTAAACTCTTGCTCATTAAT
130 TTAAACTAATTAAATAAACAAACATTTTTTAAA-TC--ACTCATTAAT
* * *
32102 TTTTGAAATATTAAGAAATTAGTATTATTTTATCTTGGATAAGCTTTTATGAACTGAAACAATTG
1 TTTTGAAATATTAATAAATTAGTATTATTTTAT-TTCGATAAGCTTGTATGAACTGAAACAATTG
* * * * * *
32167 TTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTCACAACTA
65 -TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTA
*
32232 TTTGAACT
129 TTTAAACT
32240 TGATTGGTAA
Statistics
Matches: 265, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
172 10 0.04
173 2 0.01
174 2 0.01
175 93 0.35
176 77 0.29
177 68 0.26
178 13 0.05
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (174 bp):
TTTTGAAATATTAATAAATTAGTATTATTTTATTTCGATAAGCTTGTATGAACTGAAACAATTGT
TTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATT
TAAACTAATTAAATAAACAAACATTTTTTAAATCACTCATTAAT
Found at i:32205 original size:176 final size:175
Alignment explanation
Indices: 31806--32239 Score: 516
Period size: 176 Copynumber: 2.5 Consensus size: 175
31796 TATGATAAAA
* * ** * * * *
31806 AAACAATTATTATATGACCGAACAAAAGGTAATATTGATTTCAAATAGATAATTATTGAAATAGC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
* * * * *
31871 CATAATTATTTGAACTAATTCAGTAAACAAAATCATTTTTTAAATCACTTATTAATTTTTGAAAT
66 CATAACTATTTAAACTAATTAAATAAAC-AAA-CATTTTTTAAATCACTCATTAATTTTTGAAAT
*
31936 ATTAATAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
129 ATTAAGAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
*
31983 AAACAATTGTTTTATGACAAAACAAAAGATCATAATGATTTTAAATAGATAA-TATTCAAATAGC
1 AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
* ** *
32047 CATAACTATTTAAATTTGTTAAATAAAC-AA-ATTTTTTAAACTCTTGCTCATTAATTTTTGAAA
66 CATAACTATTTAAACTAATTAAATAAACAAACATTTTTTAAA-TC--ACTCATTAATTTTTGAAA
* * *
32110 TATTAAGAAATTAGTATTATTTTATCTT-GGATAAGCTTTTATGAACTG
128 TATTAAGAAATTACTATTATTTTAT-TTCGAATAAGCTTGTATGAACTG
* * * *
32158 AAACAATTGTTTTTTTGTCAAAACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAG
1 AAACAATTG-TTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAG
* * *
32223 TCACAACTATTTGAACT
65 CCATAACTATTTAAACT
32240 TGATTGGTAA
Statistics
Matches: 220, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
172 10 0.05
173 2 0.01
174 2 0.01
175 66 0.30
176 73 0.33
177 67 0.30
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (175 bp):
AAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGC
CATAACTATTTAAACTAATTAAATAAACAAACATTTTTTAAATCACTCATTAATTTTTGAAATAT
TAAGAAATTACTATTATTTTATTTCGAATAAGCTTGTATGAACTG
Found at i:32338 original size:22 final size:22
Alignment explanation
Indices: 32300--32341 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32290 GAATGTTAAT
*
32300 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
32322 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
32342 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:33682 original size:16 final size:18
Alignment explanation
Indices: 33651--33691 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
33641 CACAATTATT
33651 AATTATTAATTAAAAATA
1 AATTATTAATTAAAAATA
33669 AATTA-TAA-TAAAAATA
1 AATTATTAATTAAAAATA
*
33685 AACTATT
1 AATTATT
33692 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATTAAAAATA
Found at i:33781 original size:18 final size:18
Alignment explanation
Indices: 33758--33802 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
33748 ATTTATTCAT
*
33758 AATTAATAAATAATTA-AA
1 AATTAATAAA-AATCATAA
*
33776 AATTAATATAAATCATAA
1 AATTAATAAAAATCATAA
33794 AATTAATAA
1 AATTAATAA
33803 TTATATTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAATAAAAATCATAA
Found at i:33989 original size:17 final size:16
Alignment explanation
Indices: 33949--33998 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
33939 ATCTATACAG
33949 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
33964 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
33978 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
33996 TTA
1 TTA
33999 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:34905 original size:16 final size:17
Alignment explanation
Indices: 34884--34916 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34874 TATTGATTTC
34884 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
34900 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
34917 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:35239 original size:181 final size:176
Alignment explanation
Indices: 34862--35280 Score: 491
Period size: 176 Copynumber: 2.3 Consensus size: 176
34852 TATATGACCG
* * * * * *
34862 AACAAAAGGTAATATTGATTTCAAATAGATAATTATTGAAATAGCCATAATTATTTGAACTAATT
1 AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATT
* * * * *
34927 CAGTAAACAAAATCATTTTTTAAATCAGTTATTAATTTTTGAAATATTAATAAATTACTATTATT
66 AAATAAACAAAATAATTTTTTAAATCAGTCATTAATTTTTGAAATATTAAGAAATTACTATTATT
34992 TTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTTAGACAA
131 TTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTTAGACAA
* * * **
35038 AACGAAAGATCATAAATGATTTTAAATAGATAA-TATTCAAATAGCCATAACTATTTAAATTTGT
1 AACAAAAGGTCAT-AATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAAT
* * *
35102 TAAATAAACAAATTAATTTTTTTAAACTCTTGCTCATTAATTTTTGAAATATTAAGAAATTAGTA
65 TAAATAAACAAAATAA-TTTTTTAAA-TC-AG-TCATTAATTTTTGAAATATTAAGAAATTACTA
* * * * *
35167 TTATTTTATTCTTGGATAAGCTTTTATGAACTGAAACAATTGTTTTTTTGTC-A
126 TTATTTTATT-TCGAATAAGCTTGTATGAACTGAAACAATTG--TTTTAGACAA
* * * * *
35220 AACAAAAGGTCATAATGATTTTAAATAAATAATTGTTCAAATAGTCACAACTATTTGAACT
1 AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACT
35281 TGATTGGTAA
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
176 47 0.23
177 26 0.13
178 2 0.01
179 1 0.00
180 39 0.19
181 46 0.23
182 35 0.17
183 6 0.03
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (176 bp):
AACAAAAGGTCATAATGATTTTAAATAGATAATTATTCAAATAGCCATAACTATTTAAACTAATT
AAATAAACAAAATAATTTTTTAAATCAGTCATTAATTTTTGAAATATTAAGAAATTACTATTATT
TTATTTCGAATAAGCTTGTATGAACTGAAACAATTGTTTTAGACAA
Found at i:36732 original size:17 final size:18
Alignment explanation
Indices: 36701--36737 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
36691 CACAGTTATT
*
36701 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
36719 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
36736 AA
1 AA
36738 CTTTTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:36767 original size:13 final size:13
Alignment explanation
Indices: 36751--36775 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36741 TTGTTATGTG
36751 ATATAATTATATT
1 ATATAATTATATT
36764 ATATAATTATAT
1 ATATAATTATAT
36776 AAATTTATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATAATTATATT
Found at i:37666 original size:17 final size:18
Alignment explanation
Indices: 37635--37676 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
37625 CACAATTATT
*
37635 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
37653 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
37670 AACTATT
1 AATTATT
37677 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:37773 original size:20 final size:19
Alignment explanation
Indices: 37748--37787 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
37738 TTCATAATTA
37748 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
37768 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
37787 A
1 A
37788 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:37976 original size:17 final size:16
Alignment explanation
Indices: 37936--37985 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
37926 ATCTATACAG
37936 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
37951 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
37965 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
37983 TTA
1 TTA
37986 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:38335 original size:18 final size:19
Alignment explanation
Indices: 38312--38360 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
38302 AAAAAAGGTC
38312 ATAATTATTTGAAATAA-A
1 ATAATTATTTGAAATAATA
* *
38330 ATAATTA-TTCAAATAATT
1 ATAATTATTTGAAATAATA
38348 ATAATTATTTGAA
1 ATAATTATTTGAA
38361 CTGGTTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 14 0.54
19 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
ATAATTATTTGAAATAATA
Found at i:38894 original size:16 final size:17
Alignment explanation
Indices: 38873--38905 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
38863 TATTGATTTC
38873 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
38889 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
38906 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:39368 original size:22 final size:22
Alignment explanation
Indices: 39330--39371 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
39320 GATTGGTAAT
*
39330 AATTAAAAGTTTTAAATATTTA
1 AATTAAAAGTTTAAAATATTTA
39352 AATTAAAA-TATTAAAATATT
1 AATTAAAAGT-TTAAAATATT
39372 ATTAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTAAAAGTTTAAAATATTTA
Found at i:40705 original size:17 final size:18
Alignment explanation
Indices: 40674--40715 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
40664 CACAGTTATT
*
40674 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
40692 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
40709 AACTATT
1 AATTATT
40716 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:41640 original size:17 final size:18
Alignment explanation
Indices: 41609--41650 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
41599 CACAATTATT
*
41609 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
41627 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
41644 AACTATT
1 AATTATT
41651 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:41747 original size:20 final size:19
Alignment explanation
Indices: 41722--41761 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
41712 TTCATAATTA
41722 ATAAATAATTAAAAATGAAT
1 ATAAATAA-TAAAAATGAAT
* *
41742 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATGAAT
41761 A
1 A
41762 ATTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAATAATAAAAATGAAT
Found at i:41950 original size:17 final size:16
Alignment explanation
Indices: 41910--41959 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
41900 ATCTATACAG
41910 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
41925 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
41939 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
41957 TTA
1 TTA
41960 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:42345 original size:27 final size:28
Alignment explanation
Indices: 42307--42370 Score: 96
Period size: 27 Copynumber: 2.3 Consensus size: 28
42297 AAAATTATTC
42307 AAATAATTATAATTATTTG-ACTGGTTA-
1 AAATAATTATAATTA-TTGAACTGGTTAG
42334 AAATAATTATAATTATTGAACTGGTTAG
1 AAATAATTATAATTATTGAACTGGTTAG
*
42362 TAATAATTA
1 AAATAATTA
42371 CTTTGATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 3 0.09
27 23 0.68
28 8 0.24
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (28 bp):
AAATAATTATAATTATTGAACTGGTTAG
Found at i:43349 original size:20 final size:19
Alignment explanation
Indices: 43324--43363 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43314 TTCCTAATTA
43324 ATAAATAATTAAAAAGTAAT
1 ATAAATAA-TAAAAAGTAAT
* *
43344 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAAGTAAT
43363 A
1 A
43364 ATTATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAATAATAAAAAGTAAT
Found at i:43552 original size:17 final size:16
Alignment explanation
Indices: 43512--43561 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 16
43502 ATCTATACAG
43512 TTATAATTAA-TTTAA
1 TTATAATTAATTTTAA
43527 TTA-AA-TAATTTTAA
1 TTATAATTAATTTTAA
43541 TTATCAATTAATTTATAA
1 TTAT-AATTAATTT-TAA
43559 TTA
1 TTA
43562 ATAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.10
14 10 0.33
15 3 0.10
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAATTAATTTTAA
Found at i:44568 original size:17 final size:18
Alignment explanation
Indices: 44546--44586 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
44536 CACAGTTATT
*
44546 AATTATTAAT-TAAAATA
1 AATTATTAATAAAAAATA
44563 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
44580 AACTATT
1 AATTATT
44587 TGTTATGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:45255 original size:913 final size:903
Alignment explanation
Indices: 44106--45791 Score: 2852
Period size: 913 Copynumber: 1.9 Consensus size: 903
44096 TTTAAAAACT
44106 AAATAGTTATTACTATTTGAACAATATCTATTTCAAATTATTATAAATAAAAAAAGCCATATAGA
1 AAATAGTTATTACTATTTGAACAATATCTATTTCAAATTATTATAAATAAAAAAAGCCATATAGA
44171 TAATAATTATGATTTAAACATCAGACTTTGTTCTAAACAATTCTGGGCTTAAAAACCATTCGCAC
66 TAATAATTATGATTTAAACATCAGACTTTGTTCTAAACAATTCTGGGCTTAAAAACCATTCGCAC
* * *
44236 AATTATTCCGCGATTTAATTTTTCATTGTGTTTCATTCTTATTTTCTTTTAAATAATTTTTAGGT
131 AATTATTCCACGATTTAATTTTTCATTGTGTTTCATACTTATTTGCTTTTAAATAATTTTTAGGT
*
44301 GCTCTAAGGATGTTGAGAATAAATAATAATTATCCAATGATGGAATTTTTTGAAATTTCAAATGT
196 GCTCTAAGGATGTTGAGAATAAATAATAATTATCCAATGATGGAATTTTTTGAAATTTCAAATAT
* *
44366 TAGTATC-TGTTATTTAAAATTAAAGAAATTGAAAACTTAAATTAGAATAATATTCAAATAGTTA
261 TACTATCTTGTTATTTAAAATTAAACAAATTG-AAACTTAAATTAGAATAATATTCAAATAGTTA
*
44430 TGAATATTTAATGCATTGATATAACTATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAA
325 TGAATATTTAATGCATTGACATAACTATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAA
*
44495 TAAATCAAATAATATATATTTAACAAAATAGCTACAATTAACACAGTTATTAATTATTAATT-AA
390 TAAATCAAATAATATATATTTAACAAAATAGCTACAATTAACACAATTATTAATTATTAATTAAA
44559 AATAAATTATAATAAAAAATAAACTATTTGTTATGTGATATAATTATATTACATAA-TATAT-AA
455 AATAAATTATAATAAAAAATAAACTATTTGTTATGTGATATAATTATATTACATAATTATATAAA
* * * ** *
44622 -TTATACGCTATCCAATAAATTTATTCATAATTAATAAA-ATTTAAAATATTTAA-ATATGT-TT
520 TTTATAAGCAATCCAATAAATTTATTCATAATTAATAAATAATTAAAA-A-TTAATATAAATCAT
** * *
44683 ACCAATTAATAATTATATTCTGAAT-AAAGCTTTAATTTTGTCCTAGAGATCTTATATCTACTAT
583 AAAAATTAATAATTATATTATGAATAAAAGCTTTAAATTTGTCCT-GAGATCTTATATCTACTAT
44747 TATCTAATTTATCATAAATAAATTTAATTCAAATTGAATTATCTAATAAAATATATATAACAATA
647 TATCTAATTTATCATAAAT--A---AA-T----TT-AATTATCTAATAAAATATATATAACAATA
* * *
44812 ATTAAATAAGAATATTAAATTCTTAGTTATAATTTATACAGTTATAATTAATTTAATT-AATAAT
701 ATTAAATAAGAATATTAAATTCTTAGTTATAATCTATACAGCTATAATGAATTTAATTAAATAAT
44876 TTTAATTAAAACAATTGATTTCAACTTATAAGCTTATTTGAAACAAAATAATACTAATTTTTAAT
766 TTTAATTAAAACAATTGATTTCAACTTATAAGCTTATTTGAAACAAAATAATACTAATTTTTAAT
44941 ACTTTAAGAATTAGTAAAAGATTTAAAAAATAAATTGATTTACCAAACCGGTTTAAATAATTATA
831 ACTTTAAGAATTAGTAAAAGATTTAAAAAATAAATTGATTTACCAAACCGGTTTAAATAATTATA
45006 ACCAGTTC
896 ACCAGTTC
45014 AAATAGTTATTACTATTTGAACAATTATCTATTTCAAATTATTATAAATAAAAAAAGCCATATAG
1 AAATAGTTATTACTATTTGAACAA-TATCTATTTCAAATTATTATAAATAAAAAAAGCCATATAG
* *
45079 ATAATAATTATGATTTAAAACATCAGACTTTGTTTCTGAACAATTTTGGGCTTAAAAACCATTCG
65 ATAATAATTATGATTT-AAACATCAGACTTTG-TTCTAAACAATTCTGGGCTTAAAAACCATTCG
* * *
45144 CACAATTATTGCACGATTTTAATTTTTTATTGTGTTTCATACTTATTTGCTTTTAGATACATTTT
128 CACAATTATTCCACGA-TTTAATTTTTCATTGTGTTTCATACTTATTTGCTTTTAAATA-ATTTT
45209 TAGGTGCTCTAAGGATGTTGAGAATAAATAATAATTATCCAATGATGGAATTTTTTGAAATTTCA
191 TAGGTGCTCTAAGGATGTTGAGAATAAATAATAATTATCCAATGATGGAATTTTTTGAAATTTCA
45274 AATATTACTATCTTGTTATTTAAAATTAAACAAATTGAAACTTAAATTAGAATAATATTCAAATA
256 AATATTACTATCTTGTTATTTAAAATTAAACAAATTGAAACTTAAATTAGAATAATATTCAAATA
45339 GTTATGAATATTTAATGCATTGACATAACTATATTTATTGTTATAAATAATTTTTAATTAGCTAC
321 GTTATGAATATTTAATGCATTGACATAACTATATTTATTGTTATAAATAATTTTTAATTAGCTAC
45404 TTAATAAATCAAATAATATATATTTAACAAAATAGCTACAATTAACACAATTATTAATTATTAAT
386 TTAATAAATCAAATAATATATATTTAACAAAATAGCTACAATTAACACAATTATTAATTATTAAT
*
45469 TAAAAATAAATTATAATAAAAAATAAACTATTTGTTATGTGATATAATTATATTACGTAATTATA
451 TAAAAATAAATTATAATAAAAAATAAACTATTTGTTATGTGATATAATTATATTACATAATTATA
45534 TAAATTTATAAGCAATCCAATAAATTTATTCATAATTAATAAATAATTAAAAATTAATATAAATC
516 TAAATTTATAAGCAATCCAATAAATTTATTCATAATTAATAAATAATTAAAAATTAATATAAATC
*
45599 ATAAAAATTAATAATTATATTATGAATAAAAGCTTTAAATTTGTCCTGAGATTTTATATCTACTA
581 ATAAAAATTAATAATTATATTATGAATAAAAGCTTTAAATTTGTCCTGAGATCTTATATCTACTA
* *
45664 TTATCTAATTTATCATAAATAAATTTAATTATCTAATAAAATGTATATAATAATAATTAAATAAG
646 TTATCTAATTTATCATAAATAAATTTAATTATCTAATAAAATATATATAACAATAATTAAATAAG
45729 AATATTAAATTCTTAGTTATAATCTATACAGCTATAATGAATTTAATTAAATAATTTTAATTA
711 AATATTAAATTCTTAGTTATAATCTATACAGCTATAATGAATTTAATTAAATAATTTTAATTA
45792 TCAATTAATT
Statistics
Matches: 733, Mismatches: 30, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
907 82 0.11
908 40 0.05
909 56 0.08
910 15 0.02
911 44 0.06
912 39 0.05
913 239 0.33
914 80 0.11
915 5 0.01
916 7 0.01
917 41 0.06
918 67 0.09
919 18 0.02
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (903 bp):
AAATAGTTATTACTATTTGAACAATATCTATTTCAAATTATTATAAATAAAAAAAGCCATATAGA
TAATAATTATGATTTAAACATCAGACTTTGTTCTAAACAATTCTGGGCTTAAAAACCATTCGCAC
AATTATTCCACGATTTAATTTTTCATTGTGTTTCATACTTATTTGCTTTTAAATAATTTTTAGGT
GCTCTAAGGATGTTGAGAATAAATAATAATTATCCAATGATGGAATTTTTTGAAATTTCAAATAT
TACTATCTTGTTATTTAAAATTAAACAAATTGAAACTTAAATTAGAATAATATTCAAATAGTTAT
GAATATTTAATGCATTGACATAACTATATTTATTGTTATAAATAATTTTTAATTAGCTACTTAAT
AAATCAAATAATATATATTTAACAAAATAGCTACAATTAACACAATTATTAATTATTAATTAAAA
ATAAATTATAATAAAAAATAAACTATTTGTTATGTGATATAATTATATTACATAATTATATAAAT
TTATAAGCAATCCAATAAATTTATTCATAATTAATAAATAATTAAAAATTAATATAAATCATAAA
AATTAATAATTATATTATGAATAAAAGCTTTAAATTTGTCCTGAGATCTTATATCTACTATTATC
TAATTTATCATAAATAAATTTAATTATCTAATAAAATATATATAACAATAATTAAATAAGAATAT
TAAATTCTTAGTTATAATCTATACAGCTATAATGAATTTAATTAAATAATTTTAATTAAAACAAT
TGATTTCAACTTATAAGCTTATTTGAAACAAAATAATACTAATTTTTAATACTTTAAGAATTAGT
AAAAGATTTAAAAAATAAATTGATTTACCAAACCGGTTTAAATAATTATAACCAGTTC
Found at i:45490 original size:17 final size:18
Alignment explanation
Indices: 45459--45500 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
45449 CACAATTATT
*
45459 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
45477 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
45494 AACTATT
1 AATTATT
45501 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:45597 original size:20 final size:19
Alignment explanation
Indices: 45572--45611 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45562 TTCATAATTA
45572 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
45592 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
45611 A
1 A
45612 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:46715 original size:16 final size:17
Alignment explanation
Indices: 46694--46726 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46684 TATTGATTTC
46694 AAATAG-ATAATTATTG
1 AAATAGCATAATTATTG
46710 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
46727 TGAACTAATT
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:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTG
Found at i:47038 original size:180 final size:180
Alignment explanation
Indices: 46787--47363 Score: 548
Period size: 180 Copynumber: 3.2 Consensus size: 180
46777 AAATTTTAAT
* * * * *
46787 AAATAATTATGACCTTTTGTTTTGACAAAAAAACAATTGTTTCAGTTCATAAAAGCTTATCCAAG
1 AAATCATTATGACCTTTTGTTTTG-TAATAAAACAATTGTTTCA-TTCATAAAAGCTTATTCAAA
*
46852 ATAAAATAATACTAATTTCTTAATATTTCAAAAATTAATTAGCAAGAGTTTAAAAAAATTAATTT
64 ATAAAATAATACTAATTTATTAATATTTCAAAAATTAATTAGCAAGAGTTTAAAAAAATTAATTT
** * * * *
46917 GTTTATTTAA-CAAATTTAAATAGTTATGGCTATTTGAATA-TTATCTATTTA
129 GTTTATCGAATC-AATTCAAACAGTCATGGCCATTTGAATAGTTATCTATTTA
* * * *
46968 AAATCATTATGATCTTTTGTTTTGTAATAAAACAATTATTTCATTTCATACAAGCTTATTCGAAA
1 AAATCATTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCA-TTCATAAAAGCTTATTCAAAA
* * * * *
47033 TAAAATAATAGTAATTTATTAATATTCCAAAAATTAA-TAACTAAGTGATTT-AAAAAGTTAATT
65 TAAAATAATACTAATTTATTAATATTTCAAAAATTAATTAGC-AAGAG-TTTAAAAAAATTAATT
* * * *
47096 TTTTTATCGAATCAGTTCAAACAGTCATGTCCATTTGAATAGTTATCTATTTC
128 TGTTTATCGAATCAATTCAAACAGTCATGGCCATTTGAATAGTTATCTATTTA
* * * * * *
47149 AAATCGTTATGACCTTTTTGTTTTTTCATAAAATAATTGTTTCAGT-ATAAAAGCTTATGCAAAA
1 AAATCATTATGACC-TTTTGTTTTGTAATAAAACAATTGTTTCATTCATAAAAGCTTATTCAAAA
* * * **
47213 TAAAATAATACTACTTTATTAATATTTCAAAAATTAATAAG--AGA-TTT-AAAAAATAAATCAG
65 TAAAATAATACTAATTTATTAATATTTCAAAAATTAATTAGCAAGAGTTTAAAAAAATTAATTTG
* ** * * * * * * *
47274 CTTGCCAAAT-TATATCAAATAATTATGGCC--TTGAATAATTATCTATTTC
130 TTTATCGAATCAAT-TCAAACAGTCATGGCCATTTGAATAGTTATCTATTTA
* * * *
47323 CAATCATTATTACCTTTCGTTTTGTCATAAAACAATTGTTT
1 AAATCATTATGACCTTTTGTTTTGTAATAAAACAATTGTTT
47364 TCCAACATAC
Statistics
Matches: 325, Mismatches: 64, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
173 24 0.07
174 29 0.09
175 1 0.00
176 30 0.09
178 2 0.01
179 3 0.01
180 161 0.50
181 50 0.15
182 25 0.08
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (180 bp):
AAATCATTATGACCTTTTGTTTTGTAATAAAACAATTGTTTCATTCATAAAAGCTTATTCAAAAT
AAAATAATACTAATTTATTAATATTTCAAAAATTAATTAGCAAGAGTTTAAAAAAATTAATTTGT
TTATCGAATCAATTCAAACAGTCATGGCCATTTGAATAGTTATCTATTTA
Found at i:48025 original size:16 final size:18
Alignment explanation
Indices: 47994--48034 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
47984 CACAGTTATT
47994 AATTATTAATTAAAAATA
1 AATTATTAATTAAAAATA
48012 AATTA-TAA-TAAAAATA
1 AATTATTAATTAAAAATA
*
48028 AACTATT
1 AATTATT
48035 TGTTATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATTATTAATTAAAAATA
Found at i:48479 original size:19 final size:19
Alignment explanation
Indices: 48455--48492 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48445 TGATTTACCA
48455 AACCGGTTTAAATAATTAT
1 AACCGGTTTAAATAATTAT
*
48474 AACCGGTTTAAATAGTTAT
1 AACCGGTTTAAATAATTAT
48493 TACTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
AACCGGTTTAAATAATTAT
Found at i:49072 original size:20 final size:19
Alignment explanation
Indices: 49047--49086 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49037 ATTCTAACTA
49047 ATAAATAATTAAAAATTAAT
1 ATAAATAA-TAAAAATTAAT
*
49067 ATAAATCATAAAAATTAAT
1 ATAAATAATAAAAATTAAT
49086 A
1 A
49087 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATAAAAATTAAT
Found at i:49261 original size:18 final size:18
Alignment explanation
Indices: 49238--49282 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
49228 ACAGTTATAA
*
49238 TTAATTAATTAAATAATT
1 TTAATTAATCAAATAATT
*
49256 TTAATT-ATCAATTAATT
1 TTAATTAATCAAATAATT
49273 TATAATTAAT
1 T-TAATTAAT
49283 AAAAACTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 10 0.43
18 11 0.48
19 2 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATTAATCAAATAATT
Done.