Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007027.1 Hibiscus syriacus cultivar Beakdansim tig00018191_pilon, 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: 263012
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
File 1 of 2
Found at i:2238 original size:22 final size:21
Alignment explanation
Indices: 2219--2264 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2209 TTAGATTTTA
2219 TTTCCACCTTTAACTAATTTCT
1 TTTCCA-CTTTAACTAATTTCT
**
2241 TTTTTACTTTAACTAATTTCT
1 TTTCCACTTTAACTAATTTCT
2262 TTT
1 TTT
2265 TGTTTTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTCCACTTTAACTAATTTCT
Found at i:2250 original size:21 final size:21
Alignment explanation
Indices: 2226--2265 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2216 TTATTTCCAC
2226 CTTTAACTAATTTCTTTTTTA
1 CTTTAACTAATTTCTTTTTTA
2247 CTTTAACTAATTTCTTTTT
1 CTTTAACTAATTTCTTTTT
2266 GTTTTTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (21 bp):
CTTTAACTAATTTCTTTTTTA
Found at i:2463 original size:30 final size:28
Alignment explanation
Indices: 2406--2463 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
2396 TTGGAGGGGC
* *
2406 AAAAATCGTGAGATAATGGTGTGGAGAA
1 AAAAATCATGAGATAATAGTGTGGAGAA
*
2434 AAAAATTCATGAGATAATATTGTTGGAGAA
1 AAAAA-TCATGAGATAATAGTG-TGGAGAA
2464 TTATTTGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.45, C:0.03, G:0.26, T:0.26
Consensus pattern (28 bp):
AAAAATCATGAGATAATAGTGTGGAGAA
Found at i:3317 original size:7 final size:7
Alignment explanation
Indices: 3301--3330 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
3291 TTGTTGCTAA
3301 AAACCCT
1 AAACCCT
*
3308 AAACCTT
1 AAACCCT
3315 AAACCCT
1 AAACCCT
3322 AAACCCT
1 AAACCCT
3329 AA
1 AA
3331 CCATTCTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:3594 original size:14 final size:14
Alignment explanation
Indices: 3572--3622 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
3562 TTATTGTTGA
* *
3572 AAACTCTAAACGCT
1 AAACCCTAAACACT
**
3586 AAACCCTAAATTCT
1 AAACCCTAAACACT
3600 AAACCCTAAACACT
1 AAACCCTAAACACT
*
3614 AAATCCTAA
1 AAACCCTAA
3623 CCATTATCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACACT
Found at i:3602 original size:21 final size:21
Alignment explanation
Indices: 3576--3622 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3566 TGTTGAAAAC
* *
3576 TCTAAACGCTAAACCCTAAAT
1 TCTAAACCCTAAACACTAAAT
3597 TCTAAACCCTAAACACTAAAT
1 TCTAAACCCTAAACACTAAAT
*
3618 CCTAA
1 TCTAA
3623 CCATTATCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
TCTAAACCCTAAACACTAAAT
Found at i:3997 original size:278 final size:285
Alignment explanation
Indices: 3301--4003 Score: 941
Period size: 291 Copynumber: 2.5 Consensus size: 285
3291 TTGTTGCTAA
3301 AAACCCTAAACCTTAAACCCTAAACCCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
1 AAACCCTAAACC-TAAACCCTAAA-CCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAA
* *
3366 ACAATATGTAACCACTATCATGGTAGATATCACCATCCTCTACCCCCTTCATTGCCCTCAACATA
64 ACAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACATA
* *
3431 TCATGAATTTATAAAGGTTTCAGCAATAATCAAAATATTTTAGGGTTTAAGGTTCCAAAATAAAT
129 CCATGAACTTATAAAGGTTTCAGCAATAATCAAAATATTTTAGGGTTTAAGGTTCCAAAATAAAT
*
3496 ATACAATAAATAATATAAGGAACTATTGATTTTGTGAACCTTAACCCTAAACCCTAAAAATTTTG
194 ATACAACAAATAATATAAGGAACTATTGA-TTTGT-AA-C--AACCCTAAACCCTAAAAATTTTG
* * *
3561 CTTATTGTTGAAAACTCTAAACGCTAAACCCT
254 CTTATTATTGAAAACCCTAAACGCTAAAACCT
** * * *
3593 AAATTCTAAACCCTAAACACTAAATCCTAACCATTATCCCTCCAATCAATGTCTTCTTATAAAAA
1 AAACCCTAAA-CCTAAACCCTAAA-CCTAACCATTCTCCCTCCAATCAATTTCTTCTTAT--AAA
*
3658 AAACAATTTGTAACCACCATCATGG--G-TATCACCATCCTCTACCCCTTTCATTGCCCTCAACA
62 AAACAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACA
* *
3720 TACCATGAACTTATAAAGGTTTCAGCAATAA-CCAAATATTTTAGGGTTT-AGGCTTCC-AAATC
127 TACCATGAACTTATAAAGGTTTCAGCAATAATCAAAATATTTTAGGGTTTAAGG-TTCCAAAATA
* * * *
3782 AATATACAACAAATAATATCAGTAATTATTGA-TTGT-A-AACCTTAAACCCTAAAAATATTTAG
191 AATATACAACAAATAATATAAGGAACTATTGATTTGTAACAACCCTAAACCCTAAAAAT-TTT-G
* **
3844 -TTGTTATTG-AAACCCTAAAAC-CTAAAATTT
254 CTTATTATTGAAAACCCT-AAACGCTAAAACCT
*
3874 AAACCCTAAACACTAAACCCTAAA-CTAAACATTCTCCCTCCAATCAATTTCTTCTTATAAAAAA
1 AAACCCTAAAC-CTAAACCCTAAACCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAAA
3938 CAA-ATGTAACCACCATCATGGTAGATA-CACCATCCTCTACCCCTTTCATTGCCCTCAACATAC
65 CAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACATAC
4001 CAT
130 CAT
4004 TGCCCTATCT
Statistics
Matches: 369, Mismatches: 31, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
276 17 0.05
277 9 0.02
278 40 0.11
279 33 0.09
280 1 0.00
281 49 0.13
282 14 0.04
283 1 0.00
285 1 0.00
287 4 0.01
289 35 0.09
290 21 0.06
291 64 0.17
292 52 0.14
293 2 0.01
294 26 0.07
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (285 bp):
AAACCCTAAACCTAAACCCTAAACCTAACCATTCTCCCTCCAATCAATTTCTTCTTATAAAAAAC
AATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCTTTCATTGCCCTCAACATACC
ATGAACTTATAAAGGTTTCAGCAATAATCAAAATATTTTAGGGTTTAAGGTTCCAAAATAAATAT
ACAACAAATAATATAAGGAACTATTGATTTGTAACAACCCTAAACCCTAAAAATTTTGCTTATTA
TTGAAAACCCTAAACGCTAAAACCT
Found at i:4203 original size:22 final size:21
Alignment explanation
Indices: 4181--4221 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4171 GCTATTTTTA
4181 AATCA-TTAGATAATAAAAATT
1 AATCATTTA-ATAATAAAAATT
4202 AATCATTTAATAATAAAAAT
1 AATCATTTAATAATAAAAAT
4222 AATATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AATCATTTAATAATAAAAATT
Found at i:4207 original size:21 final size:19
Alignment explanation
Indices: 4181--4228 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 19
4171 GCTATTTTTA
4181 AATCATTAGATAATAAAAATT
1 AATCATTA-ATAATAAAAA-T
4202 AATCATTTAATAATAAAAAT
1 AATCA-TTAATAATAAAAAT
4222 AAT-ATTA
1 AATCATTA
4229 TAAAACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 4 0.15
21 15 0.58
22 3 0.12
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AATCATTAATAATAAAAAT
Found at i:4316 original size:33 final size:31
Alignment explanation
Indices: 4279--4368 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 31
4269 TAAAAAAAAC
4279 ATATATCAATACTATAAAAAA-ATATCAATGTTA
1 ATATAT-AATACTATAAAAAATATATC-AT-TTA
**
4312 ATATAATAATAAAATAAAAACATATATCATTTA
1 ATAT-ATAATACTATAAAAA-ATATATCATTTA
*
4345 ATAAAAATAATACTATAAAAAATA
1 AT--ATATAATACTATAAAAAATA
4369 AATCTAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
33 23 0.49
34 18 0.38
35 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.31
Consensus pattern (31 bp):
ATATATAATACTATAAAAAATATATCATTTA
Found at i:5775 original size:15 final size:16
Alignment explanation
Indices: 5755--5784 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5745 ATACAAACAT
5755 ACTAAAAAAA-TAAAA
1 ACTAAAAAAACTAAAA
5770 ACTAAAAAAACTAAA
1 ACTAAAAAAACTAAA
5785 TCATGGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (16 bp):
ACTAAAAAAACTAAAA
Found at i:7768 original size:12 final size:14
Alignment explanation
Indices: 7751--7799 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 14
7741 ACTACCCATT
7751 TTATTAT-TAT-TA
1 TTATTATATATATA
7763 TTATTATATATATA
1 TTATTATATATATA
7777 TATATATATATATATA
1 T-TAT-TATATATATA
*
7793 TTTTTAT
1 TTATTAT
7800 TAAATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.22
13 3 0.09
14 6 0.19
15 5 0.16
16 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTATATATATA
Found at i:7774 original size:2 final size:2
Alignment explanation
Indices: 7767--7793 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7757 TTATTATTAT
7767 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7794 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7927 original size:39 final size:39
Alignment explanation
Indices: 7809--7927 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
7799 TTAAATTTTT
* *
7809 ATTTATAA-TTCTCAAATTATTTTAC-TCTAACATTCTAA
1 ATTTATAATTTCTTAAATTATTTCACAT-TAACATTCTAA
** * *
7847 ATTCCTAATTTCTTAAATT-TTGGCACCA-TAATATTCTAA
1 ATTTATAATTTCTTAAATTATT-TCA-CATTAACATTCTAA
* *
7886 ATTTTTAATTTCTTAAATTATTTCACATTAACATTCAAA
1 ATTTATAATTTCTTAAATTATTTCACATTAACATTCTAA
7925 ATT
1 ATT
7928 ATTTTTTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
38 10 0.16
39 51 0.80
40 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.02, T:0.47
Consensus pattern (39 bp):
ATTTATAATTTCTTAAATTATTTCACATTAACATTCTAA
Found at i:9649 original size:10 final size:11
Alignment explanation
Indices: 9621--9660 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
9611 GCGACTGCCC
9621 CCACCCCCGGT
1 CCACCCCCGGT
9632 CCACCCCCGGT
1 CCACCCCCGGT
9643 CCACCCCCGGT
1 CCACCCCCGGT
9654 CCACCCC
1 CCACCCC
9661 TGCTCATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.10, C:0.68, G:0.15, T:0.07
Consensus pattern (11 bp):
CCACCCCCGGT
Found at i:10751 original size:18 final size:18
Alignment explanation
Indices: 10730--10783 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
10720 TAAATTTATA
*
10730 TTTTATTAAATTTTCTTT
1 TTTTATTAAATTTTCATT
*
10748 TTTTA-AAGAATTTT-ATT
1 TTTTATTA-AATTTTCATT
10765 TTTTATTAAATTTTCATT
1 TTTTATTAAATTTTCATT
10783 T
1 T
10784 AGTTAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTTTCATT
Found at i:10776 original size:17 final size:17
Alignment explanation
Indices: 10719--10783 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
10709 GAATAATATT
*
10719 TTAAA-TTTATATTTTA
1 TTAAATTTTATTTTTTA
*
10735 TTAAATTTTCTTTTTT-
1 TTAAATTTTATTTTTTA
*
10751 TAAAGAATTTTATTTTTTA
1 T-TA-AATTTTATTTTTTA
10770 TTAAATTTTCATTT
1 TTAAATTTT-ATTT
10784 AGTTAATAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.15
17 15 0.38
18 17 0.44
19 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (17 bp):
TTAAATTTTATTTTTTA
Found at i:13630 original size:49 final size:49
Alignment explanation
Indices: 13558--13655 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
13548 TGTCAGAGCA
13558 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
1 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
*
13607 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCTAGCCTTTT
1 TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
13656 AGGGATGGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (49 bp):
TGTCATTCATGTATATCCTTACTCCAAGTAGAACTGCATCCAGCCTTTT
Found at i:18594 original size:22 final size:22
Alignment explanation
Indices: 18569--18613 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18559 TTTGGACATG
18569 ACTTAAAGAGCTTTTTGACTGA
1 ACTTAAAGAGCTTTTTGACTGA
18591 ACTTAAAGAGCTTTTTGACTGA
1 ACTTAAAGAGCTTTTTGACTGA
18613 A
1 A
18614 TGGGTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (22 bp):
ACTTAAAGAGCTTTTTGACTGA
Found at i:20088 original size:41 final size:41
Alignment explanation
Indices: 20043--20135 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
20033 TGATGGGGAT
20043 AATAT-ATATATATATCTGTAAAATATCTCAATTTGCAGTTG
1 AATATGATA-ATATATCTGTAAAATATCTCAATTTGCAGTTG
* * * * *
20084 AATATGCTAATTTCTCTGTAAAGTATCTCAATTTGTAGTTG
1 AATATGATAATATATCTGTAAAATATCTCAATTTGCAGTTG
*
20125 AATATGCTAAT
1 AATATGATAAT
20136 TTCTTTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (41 bp):
AATATGATAATATATCTGTAAAATATCTCAATTTGCAGTTG
Found at i:20095 original size:20 final size:20
Alignment explanation
Indices: 20072--20137 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
20062 AAAATATCTC
20072 AATTTGCAGTTGAATATGCT
1 AATTTGCAGTTGAATATGCT
** *
20092 AATTT-CTCTGTAAAGTAT-CT
1 AATTTGCAGT-TGAA-TATGCT
*
20112 CAATTTGTAGTTGAATATGCT
1 -AATTTGCAGTTGAATATGCT
20133 AATTT
1 AATTT
20138 CTTTGTTTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 13 0.38
22 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
AATTTGCAGTTGAATATGCT
Found at i:20136 original size:41 final size:41
Alignment explanation
Indices: 20057--20139 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
20047 TATATATATA
20057 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
1 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
* *
20098 TCTGTAAAGTATCTCAATTTGTAGTTGAATATGCTAATTTC
1 TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
20139 T
1 T
20140 TTGTTTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (41 bp):
TCTGTAAAATATCTCAATTTGCAGTTGAATATGCTAATTTC
Found at i:35322 original size:12 final size:10
Alignment explanation
Indices: 35275--35320 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
35265 TTTCTAAAAA
35275 TATATAATTT
1 TATATAATTT
35285 TA-AT--TTT
1 TATATAATTT
35292 TA-A-AATTT
1 TATATAATTT
35300 TATATAATTT
1 TATATAATTT
35310 TATATAATTT
1 TATATAATTT
35320 T
1 T
35321 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 6 0.19
8 5 0.16
9 3 0.09
10 18 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TATATAATTT
Found at i:37968 original size:18 final size:18
Alignment explanation
Indices: 37900--37970 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
37890 AGTTTGTTTG
* *
37900 TTTTTCTTTTCTTTGTCC
1 TTTTTTTTTTCTCTGTCC
*
37918 TTTTTTTTTTCTTTCTCTCC
1 TTTTTTTTTTC--TCTGTCC
37938 GGTTCTGTCTTTTTTCTCTGTCC
1 --TT-T-T-TTTTTTCTCTGTCC
37961 TTTTTTTTTT
1 TTTTTTTTTT
37971 TTTTCAGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
18 16 0.38
19 1 0.02
20 6 0.14
21 2 0.05
22 2 0.05
23 7 0.17
24 1 0.02
25 7 0.17
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTTTTTCTCTGTCC
Found at i:38421 original size:3 final size:3
Alignment explanation
Indices: 38413--38499 Score: 113
Period size: 3 Copynumber: 29.0 Consensus size: 3
38403 TTAATATATT
* *
38413 TAA TAA TAA TAA AAA T-A TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
38460 TTAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TGA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38500 AATGGATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
2 2 0.03
3 67 0.93
4 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38507 original size:12 final size:11
Alignment explanation
Indices: 38418--38512 Score: 55
Period size: 12 Copynumber: 8.8 Consensus size: 11
38408 ATATTTAATA
38418 ATAATAAAAAT-
1 ATAAT-AAAATG
*
38429 ATAATAATAATA
1 ATAATAA-AATG
38441 ATAATAATAATG
1 ATAATAA-AATG
38453 ATAAT--AAT-
1 ATAATAAAATG
38461 -TAAT--AATG
1 ATAATAAAATG
38469 ATAATAATAAT-
1 ATAATAA-AATG
38480 ATTAATAATAATG
1 A-TAATAA-AATG
38493 ATAATAAAATGG
1 ATAATAAAAT-G
38505 ATAA-AAAA
1 ATAATAAAA
38513 AATAGTATCT
Statistics
Matches: 73, Mismatches: 1, Indels: 20
0.78 0.01 0.21
Matches are distributed among these distances:
7 7 0.10
9 7 0.10
10 2 0.03
11 16 0.22
12 40 0.55
13 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (11 bp):
ATAATAAAATG
Found at i:38990 original size:119 final size:118
Alignment explanation
Indices: 38747--39201 Score: 731
Period size: 119 Copynumber: 3.9 Consensus size: 118
38737 GCTCTTGATG
* *
38747 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTTTCATTATGAACT-T
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * * *
38808 TAC-CTGGTAATGTTGATCCATCAACTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAATGATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACA
*
38860 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
38925 TCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TCCTCTGGAAATGATGATCCATCAA-TTGATGAATTCAAGCAAAAGGTTGAACA
38979 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
*
39044 TCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGATTGAACA
66 TCCTCTGGAAATGATGATCCATCAA-TTGATGAATTCAAGCAAAAGGTTGAACA
*
39098 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTGCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
* * * *
39163 TTCTCTGGAAAAGATTGATCCATCAAGTGATGGATTCAA
66 TCCTCTGGAAATGA-TGATCCATCAATTGATGAATTCAA
39202 ATCTTTGCTA
Statistics
Matches: 321, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
113 37 0.12
116 20 0.06
117 3 0.01
118 19 0.06
119 231 0.72
120 11 0.03
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (118 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
TCCTCTGGAAATGATGATCCATCAATTGATGAATTCAAGCAAAAGGTTGAACA
Found at i:39977 original size:50 final size:50
Alignment explanation
Indices: 39916--40318 Score: 770
Period size: 50 Copynumber: 8.1 Consensus size: 50
39906 TCAATGATTG
* * *
39916 ATTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
*
39966 ATTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40016 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40066 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40116 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40166 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40216 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40266 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
40316 ATT
1 ATT
40319 AGTCTCTTTC
Statistics
Matches: 350, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 350 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (50 bp):
ATTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
Found at i:41481 original size:29 final size:27
Alignment explanation
Indices: 41448--41521 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
41438 CCTTGACCCC
* *
41448 CTTTTTCCTTCTTCTTTTTCTCTTTTTCT
1 CTTTTTTCTTCTTCTTTTT-T-TTTTCCT
*
41477 CTTTTTTTTTCTTTTCTTTTTTTTTTCCT
1 CTTTTTTCTTC--TTCTTTTTTTTTTCCT
*
41506 TTTTTTTCTTCTTCTT
1 CTTTTTTCTTCTTCTT
41522 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 5 0.13
29 24 0.63
30 1 0.03
31 8 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (27 bp):
CTTTTTTCTTCTTCTTTTTTTTTTCCT
Found at i:41491 original size:17 final size:17
Alignment explanation
Indices: 41457--41508 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
41447 CCTTTTTCCT
*
41457 TCTTCTTTTTCTCTTTTTC
1 TCTT-TTTTTTTC-TTTTC
41476 TCTTTTTTTTTCTTTTC
1 TCTTTTTTTTTCTTTTC
41493 T-TTTTTTTTTCCTTTT
1 TCTTTTTTTTT-CTTTT
41509 TTTTCTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.29
17 11 0.35
18 7 0.23
19 4 0.13
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TCTTTTTTTTTCTTTTC
Found at i:46500 original size:157 final size:157
Alignment explanation
Indices: 46261--46574 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
46251 TTTGATTAAG
46261 AATTTTCATCAAAGCATTCCTATGCGCTTCTGAATTCATCAATAGATCAAGAATAGAAATTCTCG
1 AATTTTCATCAAAGCATTCCTATGCGCTTCTGAATTCATCAATAGATCAAGAATAGAAATTCTCG
46326 CTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAAGAATTTCAAAAATTCT
66 CTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAAGAATTTCAAAAATTCT
46391 TGAGCTTGTTTTTCTGTCACAGGTTCA
131 TGAGCTTGTTTTTCTGTCACAGGTTCA
46418 AATTTTCATCAAAGCATTCCTATGCGCTTCTGAATTCATCAATAGATCAAGAATAGAAATTCTCG
1 AATTTTCATCAAAGCATTCCTATGCGCTTCTGAATTCATCAATAGATCAAGAATAGAAATTCTCG
46483 CTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAAGAATTTCAAAAATTCT
66 CTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAAGAATTTCAAAAATTCT
46548 TGAGCTTGTTTTTCTGTCACAGGTTCA
131 TGAGCTTGTTTTTCTGTCACAGGTTCA
46575 TTGAATGCTG
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (157 bp):
AATTTTCATCAAAGCATTCCTATGCGCTTCTGAATTCATCAATAGATCAAGAATAGAAATTCTCG
CTTGTTGTTTGTGTAGTTGTTCAACCACACTATACTCACTATGTTTCAAGAATTTCAAAAATTCT
TGAGCTTGTTTTTCTGTCACAGGTTCA
Found at i:51346 original size:110 final size:112
Alignment explanation
Indices: 51134--51356 Score: 432
Period size: 110 Copynumber: 2.0 Consensus size: 112
51124 TGAATATATT
51134 CGACTCTCCAAAGCACCTTCAAGATGTAACAAAGTTGTATATTCTTCAATAGTAGGGACCAAGTC
1 CGACTCTCCAAAGCACCTTCAAGATGTAACAAAGTTGTATATTCTTCAATAGTAGGGACCAAGTC
51199 CTCCTTATTGAAAGTGAAGCAATTGTACCCTGGATTCCAGAATTGAA
66 CTCCTTATTGAAAGTGAAGCAATTGTACCCTGGATTCCAGAATTGAA
51246 CGACTCTCCAAAGCACCTTCAAGATGTAACAAAGTTGTATATTCTTC-ATAGTA-GGACCAAGTC
1 CGACTCTCCAAAGCACCTTCAAGATGTAACAAAGTTGTATATTCTTCAATAGTAGGGACCAAGTC
51309 CTCCTTATTGAAAGTGAAGCAATTGTACCCTGGATTCCAGAATTGAA
66 CTCCTTATTGAAAGTGAAGCAATTGTACCCTGGATTCCAGAATTGAA
51356 C
1 C
51357 TAGGGCTCTG
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
110 58 0.52
111 6 0.05
112 47 0.42
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (112 bp):
CGACTCTCCAAAGCACCTTCAAGATGTAACAAAGTTGTATATTCTTCAATAGTAGGGACCAAGTC
CTCCTTATTGAAAGTGAAGCAATTGTACCCTGGATTCCAGAATTGAA
Found at i:53993 original size:18 final size:18
Alignment explanation
Indices: 53925--53994 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 18
53915 AGTTTGTTTG
* *
53925 TTTTTCTTTTCTTTGTCC
1 TTTTTTTTTTCTCTGTCC
*
53943 TTTTTTTTTTCTTTCTCTCC
1 TTTTTTTTTTC--TCTGTCC
*
53963 GGTTCTGTCTTTTTCTCTGTCC
1 --TT-T-TTTTTTTCTCTGTCC
53985 TTTTTTTTTT
1 TTTTTTTTTT
53995 TTTTTCAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
18 16 0.40
19 1 0.03
20 7 0.17
22 8 0.20
23 1 0.03
24 7 0.17
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTTTTTTTTCTCTGTCC
Found at i:54435 original size:3 final size:3
Alignment explanation
Indices: 54427--54516 Score: 85
Period size: 3 Copynumber: 30.0 Consensus size: 3
54417 ATTTAATATT
* * *
54427 TAA TAA TAA -AA -AA AAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
54473 TAA TAA TAT TATA TGA TAA TATA TAT TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
54517 AATGGATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.06
3 63 0.89
4 4 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:56621 original size:13 final size:13
Alignment explanation
Indices: 56605--56631 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56595 CTAAATCTAC
56605 ATTCTCTAACATA
1 ATTCTCTAACATA
56618 ATTCTCTAACATA
1 ATTCTCTAACATA
56631 A
1 A
56632 AATTATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTCTCTAACATA
Found at i:61774 original size:12 final size:12
Alignment explanation
Indices: 61759--61787 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
61749 AAAACAGTCC
61759 CACATACAGTGT
1 CACATACAGTGT
61771 CACATACAGTGT
1 CACATACAGTGT
61783 CACAT
1 CACAT
61788 GGTTCTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (12 bp):
CACATACAGTGT
Found at i:65921 original size:51 final size:53
Alignment explanation
Indices: 65842--65946 Score: 160
Period size: 51 Copynumber: 2.0 Consensus size: 53
65832 TTTCAAACAC
* * *
65842 TTTAATTTCGATTTTTATCTTAAATTATAACCTCAACTTAATACAAGATTTTT
1 TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
*
65895 TTTAATTTCG-TATTTA-ATTAAATTATAACCTCAACTTAATCCAAGAATTTT
1 TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
65946 T
1 T
65947 AAAATATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 33 0.69
52 5 0.10
53 10 0.21
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (53 bp):
TTTAATTTCGATATTTATATTAAATTATAACCTCAACTTAATACAAGAATTTT
Found at i:78823 original size:2 final size:2
Alignment explanation
Indices: 78816--78864 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
78806 CTTTTTAAAC
78816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78858 AT AT AT A
1 AT AT AT A
78865 GCACGTTGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87403 original size:53 final size:53
Alignment explanation
Indices: 87317--87527 Score: 246
Period size: 51 Copynumber: 4.2 Consensus size: 53
87307 AATTAACACA
*
87317 TAAGTATGTACATCTATCAATATCTTA-ACAATTAACACATACTTACACCGGTG
1 TAAGTATGTACATCTCTCAATATCTTAGA-AATTAACACATACTTACACCGGTG
*
87370 TAGGTATGTACATCTCTCAATATCTTAGAAATTAACAC--ACTTACACCGGTG
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
* * * **
87421 TAAGTTTGTACACCTCTCAATATCTTAGAAATTAACACGTACTTACA-AAGTG
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
* * *
87473 TAAGTA--T--A---CTCAATATCGTAGCAATTAACACATACTTACACTGGTG
1 TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
87519 TAAGTATGT
1 TAAGTATGT
87528 TTCTGTATTT
Statistics
Matches: 139, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
45 29 0.21
46 9 0.06
48 2 0.01
50 1 0.01
51 48 0.35
52 8 0.06
53 41 0.29
54 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (53 bp):
TAAGTATGTACATCTCTCAATATCTTAGAAATTAACACATACTTACACCGGTG
Found at i:90529 original size:2 final size:2
Alignment explanation
Indices: 90522--90555 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90512 TAACTGAGGC
90522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90556 CATAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90945 original size:18 final size:18
Alignment explanation
Indices: 90914--90951 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
90904 TTATGAATTA
*
90914 TTTTATATGGATTTTTAAT
1 TTTTATAT-GAATTTTAAT
90933 TTTTA-ATGAATTTTAAT
1 TTTTATATGAATTTTAAT
90950 TT
1 TT
90952 ATCATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 11 0.61
18 2 0.11
19 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTTATATGAATTTTAAT
Found at i:91117 original size:2 final size:2
Alignment explanation
Indices: 91110--91147 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
91100 CCCTTGATAC
91110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91148 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92126 original size:342 final size:338
Alignment explanation
Indices: 91265--92286 Score: 1753
Period size: 338 Copynumber: 3.0 Consensus size: 338
91255 TATTTGTATA
* *
91265 TGAAAATACGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCCCAT
1 TGAAAAGATGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCCCAT
* *
91330 TCCACAACCATTTTTCAAAATCAAAATAAATTATTCAATTCAAAGCGGAACTATTTTAAATTCAT
66 CCCACAACCATTTTTCAAAATCAAAATAAATTATTCAATTCAAAGCGGAACTGTTTTAAATTCAT
* ** * *
91395 TAGACAATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAATTCAATTCCCGTATG
131 TAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTCTCATATG
*
91460 TAATGGGGTAAGGGGAGGTAGGATAGTAGGCTGCCCCCAACGTCAGGTTGAGAGTAGCTTCCGTG
196 CAATGGGGTAAGGGGAGGTAGGATAGTAGGCTGCCCCCAACGTCAGGTTGAGAGTAGCTTCCGTG
91525 AAAGACCTCC-AGCAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAATAAATA
261 AAAGACCTCCGA-CAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAATAAATA
91589 CATAAATATATAGT
325 CATAAATATATAGT
91603 TGAAAAGATGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCCCAT
1 TGAAAAGATGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCCCAT
* * *
91668 CCCACAACCATTTTTTAAAATCAAAATAAATTATTCAATTCAAAACGAAACTGTTTTAAATTCAT
66 CCCACAACCATTTTTCAAAATCAAAATAAATTATTCAATTCAAAGCGGAACTGTTTTAAATTCAT
*
91733 TAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTTTCATATG
131 TAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTCTCATATG
* * *
91798 CAATGGGATAAGGGGATGTAGGATAGTAGGCTGCCCCCAACGTCAGGTTGAGAGTAACTTCCGTG
196 CAATGGGGTAAGGGGAGGTAGGATAGTAGGCTGCCCCCAACGTCAGGTTGAGAGTAGCTTCCGTG
* * *
91863 AAAGATCTCCGACAGTCAAAAAATTAAAAATATAGATAAAATACAATGTATATATAAATAAATAC
261 AAAGACCTCCGACAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAATAAATAC
91928 ATAAATATATAGT
326 ATAAATATATAGT
91941 TGAAAAGATGAAAC-AAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCATGT
1 TGAAAAGATGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTC----
*
92005 CTCATCCCACAACCATTTTTCAAAATCAAAATAAATTATTTAATTCAAAGCGGAACTGTTTTAAA
62 C-CATCCCACAACCATTTTTCAAAATCAAAATAAATTATTCAATTCAAAGCGGAACTGTTTTAAA
92070 TTCATTAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTCTC
126 TTCATTAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTCTC
92135 ATATGCAATGGGGTAAGGGGAGGTAGGATAGTAGGCT-CCCTCCAACGTCAGGTTGAGAGTAGCT
191 ATATGCAATGGGGTAAGGGGAGGTAGGATAGTAGGCTGCCC-CCAACGTCAGGTTGAGAGTAGCT
* *
92199 TCCGTGAAAGACCTCTGGCAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAAT
255 TCCGTGAAAGACCTCCGACAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAAT
92264 AAATACATAAATATATAGT
320 AAATACATAAATATATAGT
92283 TGAA
1 TGAA
92287 CAATATTCAT
Statistics
Matches: 644, Mismatches: 33, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
337 46 0.07
338 330 0.51
339 1 0.00
341 4 0.01
342 263 0.41
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (338 bp):
TGAAAAGATGAAACAAAAACATATTAAATAATTATCATAAATCTACATGTCATGTCATGTCCCAT
CCCACAACCATTTTTCAAAATCAAAATAAATTATTCAATTCAAAGCGGAACTGTTTTAAATTCAT
TAGACGATTTATATTTTGTCGTCTTTACATATGATACAACAACAACAAAACCCAATTCTCATATG
CAATGGGGTAAGGGGAGGTAGGATAGTAGGCTGCCCCCAACGTCAGGTTGAGAGTAGCTTCCGTG
AAAGACCTCCGACAGTCAAAAAATTAAAAATATAGATAAAATGCAATGCATATATAAATAAATAC
ATAAATATATAGT
Found at i:98997 original size:2 final size:2
Alignment explanation
Indices: 98990--99027 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
98980 CTCAATTTGA
98990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99028 TTGTAAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111350 original size:23 final size:23
Alignment explanation
Indices: 111332--111392 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
111322 CTCGTATAAA
111332 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
111355 TGCACCGAAATGCCGCATAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
111378 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
111393 TATAAAATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:112594 original size:20 final size:20
Alignment explanation
Indices: 112569--112611 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
112559 TCTAAGAGCT
112569 CATTTAGGACCACATAGATG
1 CATTTAGGACCACATAGATG
* * *
112589 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCACATAGATG
112609 CAT
1 CAT
112612 GTGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (20 bp):
CATTTAGGACCACATAGATG
Found at i:113615 original size:21 final size:21
Alignment explanation
Indices: 113543--113640 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
113533 GGTGTTTGAG
*
113543 TGCATGGATGCACTGCATGG-
1 TGCATGGATGCACTGCAGGGA
* * *
113563 TGCATCGATGTACT--AGTGCA
1 TGCATGGATGCACTGCAG-GGA
113583 TGTGCATGGATGCACTGCAGGGA
1 --TGCATGGATGCACTGCAGGGA
* *
113606 TGCATAGATGCACTGCAGGGG
1 TGCATGGATGCACTGCAGGGA
113627 TGCATGGATGCACT
1 TGCATGGATGCACT
113641 TTGACACCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 12 0.19
21 32 0.52
22 12 0.19
23 2 0.03
24 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:113630 original size:42 final size:41
Alignment explanation
Indices: 113542--113640 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
113532 TGGTGTTTGA
* * * *
113542 GTGCATGGATGCACTGCATGGTGCATCGATGTACTAGTGCAT
1 GTGCATGGATGCACTGCAGGGTGCATAGATGCACTAGTG-AG
113584 GTGCATGGATGCACTGCAGGGATGCATAGATGCACTGCAG-G-G
1 GTGCATGGATGCACTGCAGGG-TGCATAGATGCACT--AGTGAG
113626 GTGCATGGATGCACT
1 GTGCATGGATGCACT
113641 TTGACACCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 35 0.70
43 12 0.24
44 1 0.02
45 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (41 bp):
GTGCATGGATGCACTGCAGGGTGCATAGATGCACTAGTGAG
Found at i:113741 original size:29 final size:29
Alignment explanation
Indices: 113709--113771 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
113699 GAAACCTTTT
113709 AAAACTTTGAATAAATTAAATT-AAGTCCAA
1 AAAACTTTG--TAAATTAAATTCAAGTCCAA
* *
113739 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTAAATTCAAGTCCAA
113769 AAA
1 AAA
113772 CCATTTTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 14 0.48
31 5 0.17
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTAAATTCAAGTCCAA
Found at i:121626 original size:555 final size:554
Alignment explanation
Indices: 120576--121681 Score: 1657
Period size: 555 Copynumber: 2.0 Consensus size: 554
120566 AAAATCCAGG
* * * * *
120576 AATGTATTTAGGCTCCCCGTTGGAGATTGGTAGGAATCGATCTTCTATTTTCAATTTTCTGCGAG
1 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATCGATATGCTACTTTCAATTTTCTGCGAG
*
120641 ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCTATT
66 ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCATT
*
120706 TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGTCAGGGAA
131 TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGGAA
*
120771 TATTATTTCTAATATAGAGTCAATCCTCCGATCATATTGGTGGATGGGATCTTTAATGAATCATG
196 TATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGATGGGATCTTTAATGAATCATG
* * *
120836 GTTGGCCAATGCTAGCGTGGGATTCTATATGTCAATCGAAGCCCCTGGATGGTATTGGATTCCGG
261 GTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATCGAAGCCCATGGATGGTATTGGATTCCGG
* * *
120901 GATTTACGATAGTTTAATATTGCTTTGCTTGGGAAACATGTATGGAGGTGTCTGACATATCTAAA
326 GATTTACGACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCTAAA
* ** * * *
120966 TTGTCTTCTGGCTTGTGTTTTGTCTGCTAAATACTTTCTGAGGGGGAGTATTTTGGATGCATCTT
391 TTATCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCATCTT
** *
121031 TGGGAGCGAGACCCTCATTTGCTTGGCAAGGGATATATAAAGTTATGAC-AGAATTTCGATCGGG
456 TGGGAGCGAGACCCTCATTTGCTTGAAAAGGGATATATAAAGTCAT-ACGA-AATTTCGATCGGG
*
121095 TTTTCATT-GACGAGTTGGACAAAATAGTGGATCAAA
519 TTTCCATTAG-CGAGTTGGACAAAATAGTGGATCAAA
*
121131 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAA-CTGATATGCTACTTTCAGTTTTCTGCGA
1 AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATC-GATATGCTACTTTCAATTTTCTGCGA
* * *
121195 GACAAGATTCTTCGATGAGTACGAGGCTGGACAAAGCATTTGATTTCATCTGGAGGACGTGCCAT
65 GACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCAT
* * *
121260 TTATATTCAAGTTGTGGGACA-ATCTATCCCAACTTACACTATGAGTTGCTACCTTCTGCCAGGG
130 TTATATTCAAGTTGTGGGACAGA-CAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGG
* * * ** * * *
121324 AATATTATTTCTGATATGGAGTTAATCCTCCAATCATATTGGTGGATGGTTTTTTTGATGGATCA
194 AATATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGATGGGATCTTTAATGAATCA
* *
121389 TGGTTGGCCAATGCTAGAGTGGGATTCCATATGTCAA-CTGAA-CCACATGGGTGGTTTTGGATT
259 TGGTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATC-GAAGCC-CATGGATGGTATTGGATT
* * * *
121452 CTGGGATTTGCTACAGTTTAATGTTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATC
322 CCGGGATTTACGACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATC
*
121517 TAAATTATCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGTGAGAGTATTTTGGATGCA
387 TAAATTATCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCA
* * *
121582 TCTTTGGGAGTGAGGCCCTCATTTGCTTGAAAATGGATATATAAAGTCATACGAAATTTCGATCG
452 TCTTTGGGAGCGAGACCCTCATTTGCTTGAAAAGGGATATATAAAGTCATACGAAATTTCGATCG
*
121647 GGTTTCCATTAGTGAGTTGGACAAAATAGTGGATC
517 GGTTTCCATTAGCGAGTTGGACAAAATAGTGGATC
121682 TCAGATGTTT
Statistics
Matches: 495, Mismatches: 50, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
554 49 0.10
555 446 0.90
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (554 bp):
AATGTATTTAGGCTCCCCATTGGAGATTGGTAAGAATCGATATGCTACTTTCAATTTTCTGCGAG
ACAAGATTCTTCGACGAGTACGAGGCTGGACAAAACATTTGATTTCATATGGAGGACGTGCCATT
TATATTCAAGTTGTGGGACAGACAATCCCAACTTACACTATGAGCTCCTACCTTCTGCCAGGGAA
TATTATTTCTAATATAGAGTCAATCCTCCAATCATATTGGTGGATGGGATCTTTAATGAATCATG
GTTGGCCAATGCTAGAGTGGGATTCCATATGTCAATCGAAGCCCATGGATGGTATTGGATTCCGG
GATTTACGACAGTTTAATATTGCTTTACTTGGGAAACATGTATGGAGGTGTCTGACAGATCTAAA
TTATCTTCTAACTCGTGTTTTGTCTGCTAAATACTTTCCGAGGGAGAGTATTTTGGATGCATCTT
TGGGAGCGAGACCCTCATTTGCTTGAAAAGGGATATATAAAGTCATACGAAATTTCGATCGGGTT
TCCATTAGCGAGTTGGACAAAATAGTGGATCAAA
Found at i:138907 original size:18 final size:19
Alignment explanation
Indices: 138872--138908 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
138862 CACGGAATGT
138872 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
138892 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
138909 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:145845 original size:20 final size:21
Alignment explanation
Indices: 145820--145871 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
145810 TTTTCCTAAT
*
145820 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
145840 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
145861 TCGCAATGCGA
1 TCGCAATGCGA
145872 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:145888 original size:20 final size:20
Alignment explanation
Indices: 145860--145913 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
145850 AATTGGGAAA
145860 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
145880 ATTGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
145900 ATCGCAATGCGATA
1 ATCGCAATGCGATA
145914 ATACAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:146568 original size:19 final size:19
Alignment explanation
Indices: 146546--146690 Score: 148
Period size: 19 Copynumber: 8.1 Consensus size: 19
146536 GAAACCAAAA
*
146546 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
146565 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
146584 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
146598 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
146617 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
146631 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
146650 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
146669 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
146689 TC
1 TC
146691 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
14 20 0.19
16 5 0.05
17 6 0.06
19 57 0.54
20 17 0.16
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:146606 original size:14 final size:14
Alignment explanation
Indices: 146587--146642 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
146577 TTTCATTTCG
146587 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
146601 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
146620 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
146634 CGTTGCGAT
1 CGTTGCGAT
146643 AGTCATTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:146610 original size:33 final size:33
Alignment explanation
Indices: 146568--146665 Score: 178
Period size: 33 Copynumber: 3.0 Consensus size: 33
146558 TTTCATTTCG
146568 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
146601 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
**
146634 CGTTGCGATAGTCATTTCGCGTTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTC
146666 ATTATCTCGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:146629 original size:52 final size:52
Alignment explanation
Indices: 146546--146690 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 52
146536 GAAACCAAAA
* *
146546 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG-TTG-CGATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGATAGTC-ATT
* *
146597 CTCTCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTC-GTT-GCGATAGTCATT
1 -TCGCGTTGCGATTTTCATTTCGCGTTGCGATT-T-TCATTTCGCGATAGTCATT
* *
146650 TCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATTTC
146691 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
51 2 0.03
52 53 0.68
53 20 0.26
54 3 0.04
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGATAGTCATT
Found at i:148855 original size:42 final size:42
Alignment explanation
Indices: 148779--148981 Score: 167
Period size: 42 Copynumber: 4.8 Consensus size: 42
148769 GACTCGCCTG
* * * * * *
148779 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCATTCAAGAGGCCCCTA
* * * * *
148821 TCATTCATCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCACTCCCACCATTCAAGAGGCCCCTA
* * * * **
148863 TCATCCCTCAAGAGTCCACTCCTATCATTGGAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCACTCCCACCATTCAAGAGGCCCCTA
* * *
148905 TCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCACTCCCACCATTCAAGAGGCCCCTA
* * *
148947 TCA-TCGTTGAAGAGGTTC-CTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCACTCCCACCATTCAAGAG
148982 CCCGATTCAC
Statistics
Matches: 127, Mismatches: 32, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
41 4 0.03
42 120 0.94
43 3 0.02
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCACTCCCACCATTCAAGAGGCCCCTA
Found at i:148960 original size:84 final size:84
Alignment explanation
Indices: 148776--148951 Score: 316
Period size: 84 Copynumber: 2.1 Consensus size: 84
148766 CCCGACTCGC
*
148776 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCATCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCATCGAGAGTCCCCT
*
148841 CCCACCGTTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* *
148860 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGGAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCATCGAGAGTCCCCT
148925 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
148944 CTGTCATC
1 CTGTCATC
148952 GTTGAAGAGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCATCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:150353 original size:13 final size:13
Alignment explanation
Indices: 150337--150363 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
150327 ATTGTTTAAT
150337 TGATTTGTAAAAG
1 TGATTTGTAAAAG
150350 TGATTTGTAAAAG
1 TGATTTGTAAAAG
150363 T
1 T
150364 TAATTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TGATTTGTAAAAG
Found at i:150578 original size:33 final size:32
Alignment explanation
Indices: 150534--150660 Score: 166
Period size: 33 Copynumber: 3.9 Consensus size: 32
150524 ATTAAATTCG
150534 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
150567 CATTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
* *
150600 CGTTGCAATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
150633 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
150661 AGTAATTTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
31 3 0.04
33 74 0.93
35 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:150613 original size:66 final size:66
Alignment explanation
Indices: 150527--150659 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
150517 ACGCGAAATT
* *
150527 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCAATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
150592 G
66 G
* * *
150593 AAATTAGCGTTGCAATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCAATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
150658 G
66 G
150659 A
1 A
150660 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCAATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGC
G
Found at i:152965 original size:12 final size:12
Alignment explanation
Indices: 152948--152972 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
152938 TCTTCGGGGA
152948 CTTTTTCTTCTT
1 CTTTTTCTTCTT
152960 CTTTTTCTTCTT
1 CTTTTTCTTCTT
152972 C
1 C
152973 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:153180 original size:24 final size:24
Alignment explanation
Indices: 153146--153199 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
153136 CTGAAACATC
*
153146 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
153170 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
153194 ATCAAA
1 ATCAAA
153200 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:154221 original size:19 final size:20
Alignment explanation
Indices: 154183--154232 Score: 93
Period size: 19 Copynumber: 2.5 Consensus size: 20
154173 ATTCATTTGA
154183 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
154203 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
154222 CTATCGCAACG
1 CTATCGCAACG
154233 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:154299 original size:19 final size:19
Alignment explanation
Indices: 154258--154322 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
154248 GAAATGAAAA
154258 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
154274 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
154291 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
154310 TCGCATTGCGATT
1 TCGCATTGCGATT
154323 CTCTCGTTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.25
16 3 0.07
17 3 0.07
19 27 0.61
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:154353 original size:20 final size:20
Alignment explanation
Indices: 154328--154366 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
154318 CGATTCTCTC
154328 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
154348 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
154367 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:154468 original size:14 final size:14
Alignment explanation
Indices: 154449--154482 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
154439 CATCAATTAA
154449 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
154463 ACAAATCATCTTTT
1 ACAAATCAACATTT
154477 ACAAAT
1 ACAAAT
154483 TAATTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:156341 original size:19 final size:20
Alignment explanation
Indices: 156317--156361 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
156307 TAGTTTACTT
156317 TCGCAACAC-GAAATGACTA
1 TCGCAACACGGAAATGACTA
** *
156336 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTA
156356 TCGCAA
1 TCGCAA
156362 TGTGAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAACACGGAAATGACTA
Found at i:156351 original size:20 final size:20
Alignment explanation
Indices: 156326--156363 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
156316 TTCGCAACAC
156326 GAAATGACTATCGCAATGCG
1 GAAATGACTATCGCAATGCG
*
156346 GAAATGGCTATCGCAATG
1 GAAATGACTATCGCAATG
156364 TGAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (20 bp):
GAAATGACTATCGCAATGCG
Found at i:156390 original size:14 final size:14
Alignment explanation
Indices: 156371--156428 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
156361 ATGTGAAATG
156371 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
156385 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
156401 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
156417 AAAATCGCAACG
1 AAAATCGCAACG
156429 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:156413 original size:32 final size:33
Alignment explanation
Indices: 156355--156433 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
156345 GGAAATGGCT
*
156355 ATCGCAATGTGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
156388 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
156420 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
156434 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:156517 original size:14 final size:14
Alignment explanation
Indices: 156462--156519 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
156452 TTTCATTTCG
*
156462 CGTTGCGATATTGT
1 CGTTGCGATTTTGT
*
156476 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
156492 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
156508 CGTTGCGATTTT
1 CGTTGCGATTTT
156520 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.24, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:156526 original size:33 final size:33
Alignment explanation
Indices: 156445--156536 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 33
156435 ACAAATCGCA
*
156445 TTGCGATTTTCATTTCGCGTTGCGATATTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATATTGTCG
*
156478 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATATTGTCG
156510 TTGCGATTTTCATTTCGCATTGCGATA
1 TTGCGATTTTCATTTCGCATTGCGATA
156537 GCCATTTCCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATATTGTCG
Found at i:156554 original size:20 final size:19
Alignment explanation
Indices: 156520--156574 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
156510 TTGCGATTTT
*
156520 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
156539 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
156559 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
156575 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:157082 original size:18 final size:18
Alignment explanation
Indices: 157056--157100 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
157046 GTCGATCAGA
*
157056 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
157074 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
157092 TGATGGCTC
1 TGATGGCTC
157101 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:158338 original size:20 final size:20
Alignment explanation
Indices: 158313--158353 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
158303 TAGTTTCTGG
158313 AAATGAAAATCGCAACACGA
1 AAATGAAAATCGCAACACGA
** *
158333 AAATGACTATCGCAACGCGA
1 AAATGAAAATCGCAACACGA
158353 A
1 A
158354 TTTGACTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (20 bp):
AAATGAAAATCGCAACACGA
Found at i:158359 original size:20 final size:20
Alignment explanation
Indices: 158321--158369 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
158311 GGAAATGAAA
*
158321 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
158341 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
158361 ATCGCAACG
1 ATCGCAACG
158370 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:158656 original size:22 final size:22
Alignment explanation
Indices: 158630--158673 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
158620 GATGGAGATA
158630 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
158652 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
158674 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:158923 original size:16 final size:16
Alignment explanation
Indices: 158902--158934 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
158892 GATTTTGAAT
158902 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
158918 TATCGCATTGCGATAG
1 TATCGCATTGCGATAG
158934 T
1 T
158935 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (16 bp):
TATCGCATTGCGATAG
Found at i:158941 original size:20 final size:19
Alignment explanation
Indices: 158841--158951 Score: 75
Period size: 20 Copynumber: 5.7 Consensus size: 19
158831 CGCTTTGAAA
*
158841 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* *
158862 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* * * * *
158882 ATCTCGTTGCGATTTTGAATT
1 ATCGCATTGCGA--TAGTAGT
158903 ATCGCATTGCG--A-TAGT
1 ATCGCATTGCGATAGTAGT
158919 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
158939 ATCGCATTGCGAT
1 ATCGCATTGCGAT
158952 TTTCCCAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
16 13 0.19
18 1 0.01
19 3 0.04
20 30 0.43
21 22 0.31
22 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:159100 original size:19 final size:19
Alignment explanation
Indices: 159076--159126 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
159066 CGATAATAGA
159076 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
159095 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
*
159114 GATCGCATTGCGA
1 GATCGCGTTGCGA
159127 TTTTGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (19 bp):
GATCGCGTTGCGAATTAGC
Found at i:159706 original size:30 final size:31
Alignment explanation
Indices: 159647--159736 Score: 112
Period size: 29 Copynumber: 3.0 Consensus size: 31
159637 TAATTTCTTA
* * *
159647 AAATTTAATGATTGTTTTATAATAATTAATT
1 AAATTTAATGATTATTTTATGATATTTAATT
* * *
159678 AATTTTAGTGATTATTTTAT-ATTTTTAA-T
1 AAATTTAATGATTATTTTATGATATTTAATT
159707 AAATTTAATGATTATTTTATGATATTTAAT
1 AAATTTAATGATTATTTTATGATATTTAAT
159737 AGGGTAAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 19 0.39
30 13 0.27
31 17 0.35
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (31 bp):
AAATTTAATGATTATTTTATGATATTTAATT
Found at i:159733 original size:21 final size:20
Alignment explanation
Indices: 159649--159737 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
159639 ATTTCTTAAA
* *
159649 ATTTAATGATTGTTTTATAAT
1 ATTTAAT-ATTATTTTATGAT
* *
159670 AATTAAT-TAATTTTAGTGATT
1 ATTTAATATTATTTTA-TGA-T
* * *
159691 ATTTTATATT-TTTAAT-AA
1 ATTTAATATTATTTTATGAT
159709 ATTTAATGATTATTTTATGAT
1 ATTTAAT-ATTATTTTATGAT
159730 ATTTAATA
1 ATTTAATA
159738 GGGTAAATTA
Statistics
Matches: 50, Mismatches: 12, Indels: 13
0.67 0.16 0.17
Matches are distributed among these distances:
18 6 0.12
19 10 0.20
20 9 0.18
21 24 0.48
22 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTTAATATTATTTTATGAT
Found at i:172554 original size:24 final size:25
Alignment explanation
Indices: 172517--172563 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
172507 CTATTCTTTC
172517 ACTTCAATCAAGC-TCAAATTTTAG
1 ACTTCAATCAAGCTTCAAATTTTAG
** *
172541 ACTTCAATTGAGCTTCTAATTTT
1 ACTTCAATCAAGCTTCAAATTTT
172564 TTTTAGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (25 bp):
ACTTCAATCAAGCTTCAAATTTTAG
Found at i:177545 original size:31 final size:31
Alignment explanation
Indices: 177507--177566 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
177497 GGGGTAAAAC
*
177507 ATAATTAATTATAAAAAAT-ACGGGGCAAAGT
1 ATAATTAATCATAAAAAATGA-GGGGCAAAGT
*
177538 ATAATTAATCATAGAAAATGAGGGGCAAA
1 ATAATTAATCATAAAAAATGAGGGGCAAA
177567 ATCAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.52, C:0.07, G:0.18, T:0.23
Consensus pattern (31 bp):
ATAATTAATCATAAAAAATGAGGGGCAAAGT
Found at i:180234 original size:26 final size:25
Alignment explanation
Indices: 180204--180262 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
180194 TTATTACAAA
*
180204 TATTAAATACAATAAATAATATTATT
1 TATTAAA-AAAATAAATAATATTATT
* *
180230 TATTATAAAAAATTAATATTATTATT
1 TATTA-AAAAAATAAATAATATTATT
180256 T-TTAAAA
1 TATTAAAA
180263 TTTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 3 0.10
26 21 0.72
27 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAAAAAAATAAATAATATTATT
Found at i:180242 original size:22 final size:23
Alignment explanation
Indices: 180217--180281 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
180207 TAAATACAAT
180217 AAATAATATTATTTA-TTATAAA
1 AAATAATATTATTTATTTATAAA
*
180239 AAATTAATATTA-TTATTTTTAAA
1 AAA-TAATATTATTTATTTATAAA
** *
180262 ATTTAAAATTATTTATTTAT
1 AAATAATATTATTTATTTAT
180282 TATTAAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAATAATATTATTTATTTATAAA
Found at i:180250 original size:23 final size:23
Alignment explanation
Indices: 180220--180278 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
180210 ATACAATAAA
180220 TAATATTATTTATTATAAAAAAT
1 TAATATTATTTATTATAAAAAAT
* * *
180243 TAATATTA-TTATTTTTAAAATT
1 TAATATTATTTATTATAAAAAAT
*
180265 TAAAATTATTTATT
1 TAATATTATTTATT
180279 TATTATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAAAT
Found at i:180289 original size:27 final size:28
Alignment explanation
Indices: 180238--180290 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
180228 TTTATTATAA
*
180238 AAAATTAATATTATTATTTTTAAAATTT
1 AAAATTAATATTATTATTATTAAAATTT
180266 AAAATT-AT-TTATTTATTATTAAAAT
1 AAAATTAATATTA-TTATTATTAAAAT
180291 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 14 0.61
28 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
AAAATTAATATTATTATTATTAAAATTT
Found at i:180329 original size:32 final size:32
Alignment explanation
Indices: 180286--180356 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
180276 ATTTATTATT
180286 AAAATATT-AT-TTT-TATAATTTTATT-AATA
1 AAAATATTAATATTTGTAT-ATTTTATTAAATA
180315 AAAATATTAATATTTGTATATTTTATTGAAATA
1 AAAATATTAATATTTGTATATTTTATT-AAATA
180348 AAAATATTA
1 AAAATATTA
180357 TAAATTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 8 0.22
30 2 0.05
31 11 0.30
32 3 0.08
33 13 0.35
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (32 bp):
AAAATATTAATATTTGTATATTTTATTAAATA
Found at i:180352 original size:33 final size:30
Alignment explanation
Indices: 180277--180356 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 30
180267 AAATTATTTA
*
180277 TTTATT-ATTAAAATATT-ATTTTTATAAT
1 TTTATTAATAAAAATATTAATTTTTATAAT
180305 TTTATTAATAAAAATATTAATATTTGTAT-AT
1 TTTATTAATAAAAATATTAAT-TTT-TATAAT
180336 TTTATTGAAATAAAAATATTA
1 TTTATT--AATAAAAATATTA
180357 TAAATTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
28 6 0.13
29 10 0.22
30 2 0.04
31 11 0.24
32 3 0.07
33 13 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTATTAATAAAAATATTAATTTTTATAAT
Found at i:180442 original size:23 final size:21
Alignment explanation
Indices: 180394--180442 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
180384 GATAGCGTTA
180394 TATTATAATTTTAAAAATATT
1 TATTATAATTTTAAAAATATT
* * *
180415 AATTAGTATATTTTAAATATCTT
1 TATTA-TA-ATTTTAAAAATATT
180438 TATTA
1 TATTA
180443 AAATATTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 2 0.09
23 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTATAATTTTAAAAATATT
Found at i:180597 original size:24 final size:22
Alignment explanation
Indices: 180534--180602 Score: 61
Period size: 24 Copynumber: 3.1 Consensus size: 22
180524 TTTCTATGAA
180534 ATTAATAAATAATATAA-ATATT
1 ATTAATAAA-AATATAATATATT
** *
180556 ATTAA-AAATGTATTATATATT
1 ATTAATAAAAATATAATATATT
*
180577 ATTAAAATAAAAATATAATATCTT
1 ATT--AATAAAAATATAATATATT
180601 AT
1 AT
180603 ATTATTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 4 0.11
21 11 0.31
22 5 0.14
23 2 0.06
24 14 0.39
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (22 bp):
ATTAATAAAAATATAATATATT
Found at i:180689 original size:52 final size:53
Alignment explanation
Indices: 180570--180690 Score: 126
Period size: 52 Copynumber: 2.3 Consensus size: 53
180560 AAAATGTATT
* *
180570 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTGA
1 ATATATT-TTAAATATTAAAAATATAATATCTTATATTATTAAAATATAATTAA
* * *
180622 TTATTTTTTATAATATTAAAAATAT-A-ATGTTATATTATTAGAAATATTAA-TAA
1 ATATATTTTA-AATATTAAAAATATAATATCTTATATTATTA-AAATA-TAATTAA
180675 ATATATTTTAAATATT
1 ATATATTTTAAATATT
180691 TTAATAATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
51 3 0.05
52 26 0.46
53 16 0.28
54 12 0.21
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (53 bp):
ATATATTTTAAATATTAAAAATATAATATCTTATATTATTAAAATATAATTAA
Found at i:188175 original size:23 final size:22
Alignment explanation
Indices: 188144--188197 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
188134 TAACATATTA
*
188144 TCTGCCTTTATAGCACGTTTATC
1 TCTGTCTTTATAGCACGTTT-TC
* * *
188167 TCTGTCTTTGTATCATGTTTTC
1 TCTGTCTTTATAGCACGTTTTC
188189 TCTGTCTTT
1 TCTGTCTTT
188198 TGGTAGCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.11, C:0.22, G:0.13, T:0.54
Consensus pattern (22 bp):
TCTGTCTTTATAGCACGTTTTC
Found at i:190639 original size:16 final size:16
Alignment explanation
Indices: 190618--190651 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
190608 TGAAATAAAT
190618 ATAATTAATAAAAGAA
1 ATAATTAATAAAAGAA
* *
190634 ATAATTATTAAATGAA
1 ATAATTAATAAAAGAA
190650 AT
1 AT
190652 CGAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAATTAATAAAAGAA
Found at i:192028 original size:17 final size:17
Alignment explanation
Indices: 192002--192040 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
191992 AGAATATAAT
*
192002 ATAATGTATATTTAAAG
1 ATAATATATATTTAAAG
192019 ATAATATATATTTAAAG
1 ATAATATATATTTAAAG
192036 ATAAT
1 ATAAT
192041 TTTTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
ATAATATATATTTAAAG
Found at i:198022 original size:34 final size:35
Alignment explanation
Indices: 197984--198051 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
197974 ACAAGTTATA
197984 AATAA-TTTATAT-ATTTTATTTAAAAAATTAAATT
1 AATAATTTTATATAATTTT-TTTAAAAAATTAAATT
*
198018 AATAATTTTTATATAATTTTTTTACAAAATTAAA
1 AATAA-TTTTATATAATTTTTTTAAAAAATTAAA
198052 AATATAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 5 0.17
36 20 0.67
37 5 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (35 bp):
AATAATTTTATATAATTTTTTTAAAAAATTAAATT
Found at i:202862 original size:20 final size:20
Alignment explanation
Indices: 202788--203192 Score: 434
Period size: 20 Copynumber: 20.4 Consensus size: 20
202778 GATTTTCCAT
* ** *
202788 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
202808 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
202828 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
202848 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
202868 AATCGCAACG-GTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
202887 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
202907 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
202927 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
202947 AACCGCAACGTGTATCCGTTA
1 AATCGCAACGCGTATCCG-TA
202968 AATCGCAACGCGTATCCGT-
1 AATCGCAACGCGTATCCGTA
*
202987 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
203007 AATCGCAACGCGTATCCGT-
1 AATCGCAACGCGTATCCGTA
*
203026 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
203046 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
203066 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
203086 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
203106 AATCGC-ACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
203125 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
203145 AATCGCAACG-ATAATCCGT-
1 AATCGCAACGCGT-ATCCGTA
* * *
203164 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
203184 AATCACAAC
1 AATCGCAAC
203193 ACTGAAATTT
Statistics
Matches: 328, Mismatches: 41, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
18 1 0.00
19 82 0.25
20 224 0.68
21 21 0.06
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:202902 original size:39 final size:40
Alignment explanation
Indices: 202788--203192 Score: 434
Period size: 39 Copynumber: 10.2 Consensus size: 40
202778 GATTTTCCAT
* ** * * *
202788 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTA
*
202828 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
** *
202868 AATCGCAACG-GTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
202907 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
* *
202947 AACCGCAACGTGTATCCGTTAAATCGCAACGCGTATCCGT-
1 AATCGCAACGCGTATCCG-TAAATCGCAACGCGTATCCGTA
*
202987 AATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT-
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
203026 AATCGCAACG-ATAATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
* * * *
203066 AATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
* * * *
203106 AATCGC-ACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
* * * *
203145 AATCGCAACG-ATAATCCGT-AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
*
203184 AATCACAAC
1 AATCGCAAC
203193 ACTGAAATTT
Statistics
Matches: 332, Mismatches: 27, Indels: 13
0.89 0.07 0.03
Matches are distributed among these distances:
38 1 0.00
39 157 0.47
40 151 0.45
41 23 0.07
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
Found at i:202912 original size:79 final size:80
Alignment explanation
Indices: 202807--203192 Score: 457
Period size: 79 Copynumber: 4.9 Consensus size: 80
202797 GCGAATATGA
* * *
202807 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAAT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGTATCCGTAAAT
* **
202871 CGCAACGGT-ATGGGT
65 CGCAACGATAATCCGT
* * * *
202886 AAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAACC
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGTATCCGTAAATC
*
202951 GCAACG-TGTATCCGTT
66 GCAACGAT-AATCCG-T
* *
202967 AAATCGCAACGCGTATCCGT-AATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT-AATC
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGTATCCGTAAATC
203030 GCAACGATAATCCGT
66 GCAACGATAATCCGT
* * *
203045 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGAGTATCCGTAAAT
203109 CGC-ACGATAATCCGT
65 CGCAACGATAATCCGT
* * * * * *
203124 AAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT-AATCGCAACGAGAATCTGTAAAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGAGTATCCGTAAAT
*
203187 CACAAC
65 CGCAAC
203193 ACTGAAATTT
Statistics
Matches: 276, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
78 48 0.17
79 159 0.58
80 49 0.18
81 20 0.07
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (80 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGAGTATCCGTAAATC
GCAACGATAATCCGT
Found at i:203185 original size:59 final size:60
Alignment explanation
Indices: 202807--203192 Score: 425
Period size: 59 Copynumber: 6.5 Consensus size: 60
202797 GCGAATATGA
* * *
202807 AAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGAT-AATCCGT
** * * *
202867 AAATCGCAACG-GTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGT-ATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGT
* * *
202926 AAATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTTAAATCGCAACGCGT-ATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG-TAAATCGCAACG-ATAATCCGT
*
202987 -AATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT-AATCGCAACGATAATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
* * *
203045 AAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGATAATCCGT
* * * *
203105 AAATCGC-ACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
* * * *
203164 -AATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGTATCCGTAAATCGCAAC
203193 ACTGAAATTT
Statistics
Matches: 283, Mismatches: 30, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
57 1 0.00
58 24 0.08
59 144 0.51
60 93 0.33
61 21 0.07
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
Found at i:204084 original size:12 final size:12
Alignment explanation
Indices: 204067--204091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
204057 ATATAATCCT
204067 GAAGAAGAAAAA
1 GAAGAAGAAAAA
204079 GAAGAAGAAAAA
1 GAAGAAGAAAAA
204091 G
1 G
204092 TCCCGAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:206365 original size:19 final size:19
Alignment explanation
Indices: 206343--206663 Score: 360
Period size: 19 Copynumber: 18.4 Consensus size: 19
206333 CGGAAAATAC
*
206343 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
206362 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
206376 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
206396 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
206410 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
206428 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
206446 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
206460 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
206479 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
*
206497 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
206511 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
206530 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
206549 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
206568 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
206587 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
206605 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
206619 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
206637 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
206656 AATCGCAA
1 AATCGCAA
206664 CGAGATAATC
Statistics
Matches: 262, Mismatches: 12, Indels: 56
0.79 0.04 0.17
Matches are distributed among these distances:
13 1 0.00
14 49 0.19
15 5 0.02
16 19 0.07
17 3 0.01
18 61 0.23
19 111 0.42
20 13 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:206431 original size:32 final size:35
Alignment explanation
Indices: 206343--206663 Score: 293
Period size: 32 Copynumber: 9.2 Consensus size: 35
206333 CGGAAAATAC
* *
206343 AATCGCAACGCGAAATGAAAATCCCAA-C-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
*
206376 AATCGCAATGCGGAAATGAAAATCGCAA-CGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAAGCGATGAA
206410 AATCGCAATGCG-AATGAAAATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
206446 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
206479 AATCGCAATGCG-AATGAAAATCGCAA-CGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
*
206511 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
*
206549 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
206587 AATCGCAATGCGAAATG-AAATCGCAA-CGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
206618 GAATCGCAATGCG-AATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA-GCG--ATGAA
206656 AATCGCAA
1 AATCGCAA
206664 CGAGATAATC
Statistics
Matches: 250, Mismatches: 12, Indels: 48
0.81 0.04 0.15
Matches are distributed among these distances:
31 6 0.02
32 68 0.27
33 37 0.15
34 35 0.14
35 9 0.04
36 11 0.04
37 29 0.12
38 55 0.22
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (35 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGATGAA
Found at i:206624 original size:159 final size:154
Alignment explanation
Indices: 206371--206685 Score: 517
Period size: 159 Copynumber: 2.0 Consensus size: 154
206361 AAATCCCAAC
*
206371 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAATGAAAATCGCAA
*
206436 TGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAAAAT
66 TGCGAAATGAAATCGCAACGAAAGAATCGCAATGCG-AATGAAAATCGCAATGCGAAATGAAAAT
206500 CGCAACGAGAGAATCGCAATGCGAA
130 CGCAACGAGAGAATCGCAATGCGAA
*
206525 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCG-AATGAAAA
206589 TCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAATGAAAATCGCAATGCGAAATG
60 TCGCAATGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAATGAAAATCGCAATGCGAAATG
*
206654 AAAATCGCAACGAGATAATCGCAATGCGAA
125 AAAATCGCAACGAGAGAATCGCAATGCGAA
206684 AT
1 AT
206686 TATAACGCAT
Statistics
Matches: 150, Mismatches: 4, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
153 13 0.09
154 17 0.11
155 3 0.02
157 1 0.01
158 32 0.21
159 84 0.56
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (154 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAATGAAAATCGCAA
TGCGAAATGAAATCGCAACGAAAGAATCGCAATGCGAATGAAAATCGCAATGCGAAATGAAAATC
GCAACGAGAGAATCGCAATGCGAA
Found at i:206700 original size:51 final size:52
Alignment explanation
Indices: 206371--206685 Score: 505
Period size: 51 Copynumber: 6.0 Consensus size: 52
206361 AAATCCCAAC
206371 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCG-A
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
206423 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
206474 ATGAAAATCGCAATGCG-AATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
206525 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
206582 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAAAGAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
206632 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
206684 AT
1 AT
206686 TATAACGCAT
Statistics
Matches: 246, Mismatches: 7, Indels: 20
0.90 0.03 0.07
Matches are distributed among these distances:
50 54 0.22
51 108 0.44
52 31 0.13
53 1 0.00
54 6 0.02
55 1 0.00
56 8 0.03
57 37 0.15
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:206715 original size:19 final size:19
Alignment explanation
Indices: 206691--206788 Score: 115
Period size: 19 Copynumber: 5.6 Consensus size: 19
206681 GAAATTATAA
206691 CGCATTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
206709 CCGCATTGCGATTTTCA-TT
1 -CGCATTGCGATTTTCATTT
*
206728 CGCATTGCGA---TC-TCT
1 CGCATTGCGATTTTCATTT
206743 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
206760 CGCATTGCGATTTTCA-TT
1 CGCATTGCGATTTTCATTT
206778 CGCATTGCGAT
1 CGCATTGCGAT
206789 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 17
0.78 0.02 0.19
Matches are distributed among these distances:
13 6 0.09
15 5 0.07
16 2 0.03
17 4 0.06
18 23 0.33
19 24 0.35
20 5 0.07
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:206796 original size:37 final size:36
Alignment explanation
Indices: 206691--206788 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 36
206681 GAAATTATAA
206691 CGCATTGCGATTTCATTTCCGCATTGCGATTTTCA-TT
1 CGCATTGCGATTTCA-TT-CGCATTGCGATTTTCATTT
*
206728 CGCATTGCGATCTC--TCG--TTGCGATTTTCATTT
1 CGCATTGCGATTTCATTCGCATTGCGATTTTCATTT
206760 CGCATTGCGATTTTCATTCGCATTGCGAT
1 CGCATTGCGA-TTTCATTCGCATTGCGAT
206789 AGTCATTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
31 12 0.23
32 12 0.23
33 5 0.09
34 1 0.02
35 3 0.06
37 20 0.38
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.42
Consensus pattern (36 bp):
CGCATTGCGATTTCATTCGCATTGCGATTTTCATTT
Found at i:206910 original size:13 final size:14
Alignment explanation
Indices: 206892--206927 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
206882 CATCAATTAC
206892 ACAAAT-AACTTTT
1 ACAAATCAACTTTT
*
206905 ACAAATCATCTTTT
1 ACAAATCAACTTTT
206919 ACAAATCAA
1 ACAAATCAA
206928 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:208855 original size:32 final size:33
Alignment explanation
Indices: 208801--208892 Score: 168
Period size: 32 Copynumber: 2.8 Consensus size: 33
208791 GCGAAACCAA
*
208801 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
208834 AATCGCAACGCG-AATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
208866 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
208893 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.54
33 26 0.46
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:208864 original size:12 final size:14
Alignment explanation
Indices: 208820--208875 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
208810 GCGAAATGAA
*
208820 AATCGCAACGACAG
1 AATCGCAACGAAAG
*
208834 AATCGCAACGCGAATGAA
1 AATCGCAA--CGAA--AG
208852 AATCGCAACGAAAG
1 AATCGCAACGAAAG
208866 AATCGCAACG
1 AATCGCAACG
208876 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 19 0.54
16 7 0.20
18 9 0.26
ACGTcount: A:0.45, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:208890 original size:19 final size:19
Alignment explanation
Indices: 208764--208897 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
208754 ATAGTTACTT
* *
208764 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
208784 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
208803 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
208822 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
208836 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAATGAAAA
208854 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
208868 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
208887 TCGCAATGCGA
1 TCGCAACGCGA
208898 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
15 1 0.01
16 12 0.13
17 7 0.07
18 8 0.08
19 39 0.41
20 12 0.13
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:208915 original size:19 final size:19
Alignment explanation
Indices: 208893--209020 Score: 123
Period size: 19 Copynumber: 7.3 Consensus size: 19
208883 AAAATCGCAA
208893 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
208912 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
208926 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
208945 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
208959 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
208978 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
** *
208997 TGCGATTTAAGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
209016 TGCGA
1 TGCGA
209021 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 60 0.67
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:208935 original size:33 final size:33
Alignment explanation
Indices: 208893--208984 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
208883 AAAATCGCAA
208893 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
208926 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
208959 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
208985 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:209273 original size:92 final size:93
Alignment explanation
Indices: 209064--209437 Score: 681
Period size: 92 Copynumber: 4.1 Consensus size: 93
209054 TTGAATGGAT
209064 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
209129 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
209157 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAG-ATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
209221 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
209249 AAATTTACTTTCAACCAAAAGACAAAACAAAGACCAA-A-TATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
209310 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
209338 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
209402 AGTTTAGCAGAATTGGCAGCAA-CGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
209429 AAATTTACT
1 AAATTTACT
209438 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 2, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
88 13 0.05
89 69 0.25
90 10 0.04
91 14 0.05
92 110 0.40
93 58 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:209372 original size:181 final size:183
Alignment explanation
Indices: 209064--209437 Score: 675
Period size: 181 Copynumber: 2.0 Consensus size: 183
209054 TTGAATGGAT
209064 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
209129 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
209194 TACTATTTCACAGTGTTAAAG-ATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
129 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAA-CGAAC
*
209249 AAATTTACTTTCAACCAAAAGACAAAACAAAGACCAA-A-TATTT-CAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
209311 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAATA
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAATA
*
209376 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACGAAT
131 CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACGAAC
209429 AAATTTACT
1 AAATTTACT
209438 AAGCAATCTA
Statistics
Matches: 186, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
180 36 0.19
181 108 0.58
183 5 0.03
184 1 0.01
185 36 0.19
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (183 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAATA
CTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACGAAC
Found at i:211148 original size:14 final size:14
Alignment explanation
Indices: 211129--211213 Score: 59
Period size: 14 Copynumber: 5.7 Consensus size: 14
211119 TTGAAATGAA
211129 AATCGCAACGAGAG
1 AATCGCAACGAGAG
211143 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
*
211160 ACAATCGCAACGAGATC
1 --AATCGCAACGAGA-G
*
211177 AA-CGCGAA--ATGAA
1 AATCGC-AACGA-GAG
211190 AATCGCAACGAGAG
1 AATCGCAACGAGAG
211204 AATCGCAACG
1 AATCGCAACG
211214 CGAAATGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
13 5 0.09
14 28 0.48
15 5 0.09
16 5 0.09
17 7 0.12
19 8 0.14
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:211166 original size:33 final size:33
Alignment explanation
Indices: 211121--211230 Score: 167
Period size: 33 Copynumber: 3.5 Consensus size: 33
211111 TCTTTTGGTT
211121 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
211154 GAGATGACAATCGCAAC--GAG-AT--CAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
211182 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
211215 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
211231 TGCGATTTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
28 21 0.31
30 5 0.07
31 5 0.07
33 37 0.54
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Done.