Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 89
Found at i:7305463 original size:12 final size:12
Alignment explanation
Indices: 7305428--7305463 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
7305418 TTCATGTTTG
**
7305428 GTTTGGGTTCGG
1 GTTTGGGTTCAA
7305440 GTTTGGGTTCAA
1 GTTTGGGTTCAA
7305452 GTTTGGGTTCAA
1 GTTTGGGTTCAA
7305464 ATTCGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.11, C:0.08, G:0.39, T:0.42
Consensus pattern (12 bp):
GTTTGGGTTCAA
Found at i:7306257 original size:22 final size:21
Alignment explanation
Indices: 7306232--7306329 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
7306222 TTCATCCCTA
*
7306232 TATAATTTATATATAAATTATT
1 TATAATTAATAT-TAAATTATT
* *
7306254 TATAATTAATATTAAAATAAT
1 TATAATTAATATTAAATTATT
* * *
7306275 CATATATT-ATAATAAAAATTA-A
1 TATA-ATTAAT-AT-TAAATTATT
*
7306297 TATAATTAATATTAAATTATA
1 TATAATTAATATTAAATTATT
7306318 T-TAATATAATAT
1 TATAAT-TAATAT
7306330 AGTTTATAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 10 0.16
21 25 0.41
22 21 0.34
23 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TATAATTAATATTAAATTATT
Found at i:7306295 original size:28 final size:27
Alignment explanation
Indices: 7306253--7306310 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
7306243 TATAAATTAT
* *
7306253 TTATAATTAATATTAAAATAATCATATA
1 TTATAATAAAAATTAAAATAATCA-ATA
* *
7306281 TTATAATAAAAATTAATATAATTAATA
1 TTATAATAAAAATTAAAATAATCAATA
7306308 TTA
1 TTA
7306311 AATTATATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATAATAAAAATTAAAATAATCAATA
Found at i:7306383 original size:31 final size:30
Alignment explanation
Indices: 7306345--7306527 Score: 124
Period size: 31 Copynumber: 5.8 Consensus size: 30
7306335 ATAATTTTTG
*
7306345 ATTAATATTAATATAAAATATAGTCTATAAA
1 ATTAATATTAATATAAACTATAGT-TATAAA
7306376 ATTAATATTAATATAAACTATATGTTAT-AA
1 ATTAATATTAATATAAACTATA-GTTATAAA
* *
7306406 ATTATATAGTATAGTTTATAAACTATAGTTAATATA
1 ATTA-ATA-T-TA--ATATAAACTATAGTT-ATAAA
*
7306442 ATTAATATTAATAT--AGTATAGTTTATAAA
1 ATTAATATTAATATAAACTATAG-TTATAAA
** *
7306471 CTATATTCTATTAATATAAA-TTTAGTTA-AGATA
1 --AT-TAATATTAATATAAACTATAGTTATA-A-A
* *
7306504 ATTGACATTAATATAAACTATAGT
1 ATTAATATTAATATAAACTATAGT
7306528 ACATTAATAT
Statistics
Matches: 122, Mismatches: 13, Indels: 34
0.72 0.08 0.20
Matches are distributed among these distances:
29 10 0.08
30 20 0.16
31 40 0.33
32 17 0.14
33 9 0.07
34 5 0.04
35 16 0.13
36 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (30 bp):
ATTAATATTAATATAAACTATAGTTATAAA
Found at i:7306396 original size:24 final size:25
Alignment explanation
Indices: 7306351--7306397 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
7306341 TTTGATTAAT
**
7306351 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
7306376 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
7306398 TGTTATAAAT
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:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:7306424 original size:14 final size:14
Alignment explanation
Indices: 7306407--7306468 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
7306397 ATGTTATAAA
7306407 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
7306421 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
7306435 TAATATAATTAATA-T
1 TTATAT-AGT-ATAGT
*
7306450 TAATATAGTATAGT
1 TTATATAGTATAGT
7306464 TTATA
1 TTATA
7306469 AACTATATTC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 9 0.24
16 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:7306533 original size:20 final size:20
Alignment explanation
Indices: 7306508--7306608 Score: 87
Period size: 20 Copynumber: 4.8 Consensus size: 20
7306498 AAGATAATTG
7306508 ACATTAATATAAACTATAGT
1 ACATTAATATAAACTATAGT
7306528 ACATTAATATAAACTATAGT
1 ACATTAATATAAACTATAGT
** * *
7306548 TTATAAATTATATACTATAGGT
1 ACATTAA-TATAAACTATA-GT
* *
7306570 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAAC--TATAGT
*
7306592 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
7306609 TGTTTATAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
20 27 0.40
21 22 0.33
22 11 0.16
23 7 0.10
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (20 bp):
ACATTAATATAAACTATAGT
Found at i:7306564 original size:21 final size:21
Alignment explanation
Indices: 7306535--7306587 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7306525 AGTACATTAA
* *
7306535 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
7306556 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
7306577 TATAAACTATA
1 TATAAACTATA
7306588 TAGTACACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:7306746 original size:55 final size:57
Alignment explanation
Indices: 7306618--7306753 Score: 197
Period size: 57 Copynumber: 2.4 Consensus size: 57
7306608 TTGTTTATAA
*
7306618 ACTATAGGTTACATATATAGTTTATATAACATATAAATAGATTGTATATATACATGT
1 ACTATAGGTTACATATATAGTTTATATAACATATAAATAGATTGTATACATACATGT
* * *
7306675 ACTATAGGTTAGATATATAGTTTATATATAC-TATACATAG-TT-TATACATGCATGT
1 ACTATAGGTTACATATATAGTTTATATA-ACATATAAATAGATTGTATACATACATGT
*
7306730 ACTATAAGTTACATATATAGTTTA
1 ACTATAGGTTACATATATAGTTTA
7306754 CATGTATACA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 33 0.46
56 2 0.03
57 35 0.49
58 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (57 bp):
ACTATAGGTTACATATATAGTTTATATAACATATAAATAGATTGTATACATACATGT
Found at i:7306930 original size:13 final size:13
Alignment explanation
Indices: 7306912--7306958 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 13
7306902 TAATTTACTT
7306912 TATATAGTTTATA
1 TATATAGTTTATA
7306925 TATATATGGGTTATATA
1 TATATA---GTT-TATA
7306942 TATATAGTTTATA
1 TATATAGTTTATA
7306955 TATA
1 TATA
7306959 CTATATATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 14 0.47
14 3 0.10
16 3 0.10
17 10 0.33
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:7306938 original size:15 final size:15
Alignment explanation
Indices: 7306912--7306963 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
7306902 TAATTTACTT
*
7306912 TATATAGTTTATATA
1 TATATAGGTTATATA
*
7306927 TATATGGGTTATATA
1 TATATAGGTTATATA
*
7306942 TATATAGTTTATATA
1 TATATAGGTTATATA
7306957 TACTATA
1 TA-TATA
7306964 TATAGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (15 bp):
TATATAGGTTATATA
Found at i:7306965 original size:20 final size:20
Alignment explanation
Indices: 7306936--7306979 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
7306926 ATATATGGGT
7306936 TATA-TATATATAGTTTATA
1 TATACTATATATAGTTTATA
7306955 TATACTATATATAGTTTATA
1 TATACTATATATAGTTTATA
*
7306975 CATAC
1 TATAC
7306980 ATGTACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (20 bp):
TATACTATATATAGTTTATA
Found at i:7307192 original size:2 final size:2
Alignment explanation
Indices: 7307185--7307443 Score: 56
Period size: 2 Copynumber: 133.0 Consensus size: 2
7307175 TTCTATAAAC
* *
7307185 TA TA TA TA TA TA TA T- TC TA TA AA T- TA CT- TA TA T- TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
7307222 TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
7307261 TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* *
7307303 TA TA TA CA TA GTT TA TA TA TA TA GT- TCA TA TA TA TA GT- TCA TA
1 TA TA TA TA TA -TA TA TA TA TA TA -TA T-A TA TA TA TA -TA T-A TA
* * **
7307346 TA AA CA TA -A TA TA TA TA TA TA TA GCC TA TA -A TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
7307385 TA GTT TA TA -A TA TA AA TA TA GTT TA TA TA TA AA CT- TA TA T-
1 TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
7307425 TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
7307444 ATTTTTTTCA
Statistics
Matches: 184, Mismatches: 38, Indels: 70
0.63 0.13 0.24
Matches are distributed among these distances:
1 21 0.11
2 150 0.82
3 13 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:7307304 original size:24 final size:25
Alignment explanation
Indices: 7307256--7307308 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
7307246 TAATATAAAT
* *
7307256 TATATTTTATAAACTATATATTTTA
1 TATAGTTTATAAACTATATAGTTTA
*
7307281 TATAGTTTATACA-TATATAGTTTA
1 TATAGTTTATAAACTATATAGTTTA
7307305 TATA
1 TATA
7307309 CATAGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
TATAGTTTATAAACTATATAGTTTA
Found at i:7307308 original size:26 final size:25
Alignment explanation
Indices: 7307256--7307341 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 25
7307246 TAATATAAAT
*
7307256 TATATTTTATAAACTATATA-TTT-TA
1 TATAGTTTAT-AA-TATATAGTTTATA
7307281 TATAGTTTATACATATATAGTTTATA
1 TATAGTTTATA-ATATATAGTTTATA
7307307 TACATAGTTTAT-ATATATAGTTCATATA
1 T--ATAGTTTATAATATATAGTT--TATA
7307335 TATAGTT
1 TATAGTT
7307342 CATATAAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
24 7 0.13
25 13 0.25
26 19 0.36
28 14 0.26
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (25 bp):
TATAGTTTATAATATATAGTTTATA
Found at i:7307313 original size:13 final size:13
Alignment explanation
Indices: 7307279--7307347 Score: 93
Period size: 13 Copynumber: 5.2 Consensus size: 13
7307269 CTATATATTT
7307279 TATATAGTTTATACA
1 TATATAGTTTAT--A
7307294 TATATAGTTTATA
1 TATATAGTTTATA
*
7307307 TACATAGTTTATA
1 TATATAGTTTATA
*
7307320 TATATAGTTCATA
1 TATATAGTTTATA
*
7307333 TATATAGTTCATA
1 TATATAGTTTATA
7307346 TA
1 TA
7307348 AACATAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
13 39 0.76
15 12 0.24
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:7307353 original size:41 final size:40
Alignment explanation
Indices: 7307225--7307366 Score: 112
Period size: 41 Copynumber: 3.5 Consensus size: 40
7307215 TATTAATTAT
* * *
7307225 ACATACATATATATACTATA-TTAATATAAATTATATTTTATAA
1 ACATA-ATATATATA-TATAGTTCATA-ATA-TATAGTTTATAA
* * *
7307268 AC-T-ATATATTTTATATAGTTTATACATATATAGTTTATAT
1 ACATAATATA-TATATATAGTTCATA-ATATATAGTTTATAA
* *
7307308 ACATAGTTTATATATATAGTTCAT-ATATATAGTTCATATAA
1 ACATAATATATATATATAGTTCATAATATATAGTT--TATAA
7307349 ACATAATATATATATATA
1 ACATAATATATATATATA
7307367 TAGCCTATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
39 10 0.12
40 21 0.26
41 43 0.54
42 4 0.05
43 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (40 bp):
ACATAATATATATATATAGTTCATAATATATAGTTTATAA
Found at i:7307399 original size:20 final size:17
Alignment explanation
Indices: 7307355--7307438 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
7307345 ATAAACATAA
* **
7307355 TATATATATATATAGCC
1 TATATATAAATATAGTT
7307372 TATA-ATAATTATATAGTT
1 TATATATAA--ATATAGTT
7307390 TATAATATAAATATAGTT
1 TAT-ATATAAATATAGTT
7307408 TATATATAAACT-TA-TAT
1 TATATATAAA-TATAGT-T
*
7307425 TATATATATATATA
1 TATATATAAATATA
7307439 TTATAATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.09
17 25 0.45
18 21 0.38
19 1 0.02
20 4 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (17 bp):
TATATATAAATATAGTT
Found at i:7307443 original size:13 final size:13
Alignment explanation
Indices: 7307187--7307439 Score: 67
Period size: 13 Copynumber: 19.7 Consensus size: 13
7307177 CTATAAACTA
7307187 TATATATATATAT
1 TATATATATATAT
* * *
7307200 TCTATAAAT-TAC
1 TATATATATATAT
7307212 T-TATAT-TA-AT
1 TATATATATATAT
* *
7307222 TATACATACATA-
1 TATATATATATAT
*
7307234 TATATACTATATTAA
1 TATATA-TATA-TAT
* *
7307249 TATAAATTATATTT
1 TATATA-TATATAT
*
7307263 TATAAACTATATAT
1 TATATA-TATATAT
7307277 T-T-TATATAGT-T
1 TATATATATA-TAT
*
7307288 TATACATATATAGT
1 TATATATATATA-T
*
7307302 T-TATATACATAGT
1 TATATATATATA-T
7307315 T-TATATATATAGT
1 TATATATATATA-T
7307328 TCATATATATAGT-T
1 T-ATATATATA-TAT
* * * *
7307342 CATATAAACATAA
1 TATATATATATAT
7307355 TATATATATATA-
1 TATATATATATAT
7307367 TAGCCTATA-ATA-AT
1 TA---TATATATATAT
7307381 TATATAGT-T-TAT
1 TATATA-TATATAT
* *
7307393 AATATAAATATAGT
1 TATATATATATA-T
*
7307407 T-TATATATAAACT
1 TATATATATATA-T
7307420 TATAT-TATATA-
1 TATATATATATAT
7307431 TATATATAT
1 TATATATAT
7307440 TATAATTTTT
Statistics
Matches: 178, Mismatches: 34, Indels: 57
0.66 0.13 0.21
Matches are distributed among these distances:
10 3 0.02
11 23 0.13
12 28 0.16
13 74 0.42
14 28 0.16
15 21 0.12
16 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
TATATATATATAT
Found at i:7313996 original size:4 final size:4
Alignment explanation
Indices: 7313987--7314063 Score: 154
Period size: 4 Copynumber: 19.2 Consensus size: 4
7313977 TCGCTCAAAG
7313987 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA
7314035 GTTA GTTA GTTA GTTA GTTA GTTA GTTA G
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA G
7314064 GGTTATGAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 73 1.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
GTTA
Found at i:7315821 original size:73 final size:75
Alignment explanation
Indices: 7315723--7315873 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 75
7315713 AAATAAAACT
* *
7315723 TGAGATCCGAATTTTAAAGTTACTCCAAGATTATTAG-AATAAGAACACACAACCAACGA-TAGT
1 TGAGATCCGAATTTTAAAGTCACTCCAAGATTATAAGAAATAAGAACACACAACCAACGATTAGT
*
7315786 GGTACTAATG
66 GGCACTAATG
* * *
7315796 TGAGATTCC-AATTTTGAAGTCACTCCAAGATTATAAGAAATAAGAACACACAGCCAGCGATTAG
1 TGAGA-TCCGAATTTTAAAGTCACTCCAAGATTATAAGAAATAAGAACACACAACCAACGATTAG
7315860 TGGCACTAATG
65 TGGCACTAATG
7315871 TGA
1 TGA
7315874 TGAGAAATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
73 30 0.43
74 23 0.33
75 16 0.23
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (75 bp):
TGAGATCCGAATTTTAAAGTCACTCCAAGATTATAAGAAATAAGAACACACAACCAACGATTAGT
GGCACTAATG
Found at i:7316766 original size:28 final size:28
Alignment explanation
Indices: 7316724--7316780 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
7316714 AGTCTCTGTT
** * *
7316724 ACATTATGTTGTCGAGCTAGTGCTTGAA
1 ACATTATGTCATCGAACCAGTGCTTGAA
7316752 ACATTATGTCATCGAACCAGTGCTTGAA
1 ACATTATGTCATCGAACCAGTGCTTGAA
7316780 A
1 A
7316781 GCAACGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (28 bp):
ACATTATGTCATCGAACCAGTGCTTGAA
Found at i:7317009 original size:60 final size:58
Alignment explanation
Indices: 7316911--7317025 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 58
7316901 TGAATAGTCG
* * *
7316911 ATTGGGTAACCATTTGAAACTTCTAATACTCGGGGGACTCAACAAAATAATGTCCTATA
1 ATTGGGTAACCATTTGAAACTTCTAATACTCGGAGGACTCAA-AAAACAACGTCCTATA
* * *
7316970 ATTGGG-AGACCATTTTACAACTTCTAATAGTTGGAGGACTCAAAAAACAACGTCCT
1 ATTGGGTA-ACCATTTGA-AACTTCTAATACTCGGAGGACTCAAAAAACAACGTCCT
7317026 CCAATCAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 1 0.02
59 25 0.52
60 22 0.46
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (58 bp):
ATTGGGTAACCATTTGAAACTTCTAATACTCGGAGGACTCAAAAAACAACGTCCTATA
Found at i:7322988 original size:17 final size:17
Alignment explanation
Indices: 7322957--7322989 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7322947 TTATATATTA
7322957 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
7322974 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
7322990 AATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:7323424 original size:23 final size:23
Alignment explanation
Indices: 7323398--7323455 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
7323388 TTCACTACTC
7323398 TATTTATAAATAT-TTTGATTTAA
1 TATTTATAAATATATTT-ATTTAA
7323421 TATTTATAAATATATTTATTTAA
1 TATTTATAAATATATTTATTTAA
*
7323444 TATTTATGAATA
1 TATTTATAAATA
7323456 CTAATAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 30 0.91
24 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTTATAAATATATTTATTTAA
Found at i:7323667 original size:30 final size:30
Alignment explanation
Indices: 7323611--7323667 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
7323601 CTAAAGTTTC
*
7323611 ATAAAATTTGGGTAAAATGCACAAATGTTA
1 ATAAAATTTGGGTAAAATACACAAATGTTA
* *
7323641 ATAAAATTTGGGTAAAGTACATAAATG
1 ATAAAATTTGGGTAAAATACACAAATG
7323668 ATCCTCCGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (30 bp):
ATAAAATTTGGGTAAAATACACAAATGTTA
Found at i:7328781 original size:2 final size:2
Alignment explanation
Indices: 7328774--7328821 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7328764 AATATGAACA
7328774 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
7328816 AT AT AT
1 AT AT AT
7328822 TTTTAATATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7333485 original size:24 final size:23
Alignment explanation
Indices: 7333449--7333493 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
7333439 TTCAAAAGAA
7333449 ATTTTAAGATTAT-TTTCGATTCT
1 ATTTTAAGATTATATTT-GATTCT
*
7333472 ATTTTCAAGTTTATATTTGATT
1 ATTTT-AAGATTATATTTGATT
7333494 AAATCATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 11 0.58
25 3 0.16
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.58
Consensus pattern (23 bp):
ATTTTAAGATTATATTTGATTCT
Found at i:7336869 original size:22 final size:22
Alignment explanation
Indices: 7336839--7336905 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
7336829 AGTTGAGGGT
* *
7336839 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCATTCGGGACAAA
* *
7336861 TACAGAGGTCTTTCGGGACAAA
1 TACATAGGTCATTCGGGACAAA
*
7336883 TACATAGGTCATTCGGGATAAA
1 TACATAGGTCATTCGGGACAAA
7336905 T
1 T
7336906 TTCACATGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (22 bp):
TACATAGGTCATTCGGGACAAA
Found at i:7343665 original size:22 final size:22
Alignment explanation
Indices: 7343635--7343701 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
7343625 ATTTGAGGGT
* *
7343635 TACATAGGTCCTTCGAGACATA
1 TACATAGGTCATTCGAGACAAA
*
7343657 TACAGAGGTCATTCGAGACAAA
1 TACATAGGTCATTCGAGACAAA
*
7343679 TACATAGGTCATTCGGGACAAA
1 TACATAGGTCATTCGAGACAAA
7343701 T
1 T
7343702 TTCACATGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
TACATAGGTCATTCGAGACAAA
Found at i:7354909 original size:29 final size:29
Alignment explanation
Indices: 7354876--7354934 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
7354866 CCAAAAATAA
7354876 TTTGATGCCATTGCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
* *
7354905 TTTGATGTCATTTCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
7354934 T
1 T
7354935 AGGTGAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTGATGCCATTGCTTACATCAATTTAGT
Found at i:7358635 original size:5 final size:5
Alignment explanation
Indices: 7358625--7358650 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7358615 TATTATTATT
7358625 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
7358651 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:7358754 original size:39 final size:35
Alignment explanation
Indices: 7358666--7358756 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 35
7358656 AGTCATATAT
* *
7358666 TCGGGTCGGGTCGGGTCGGGTGAAACCTTAATTTTG
1 TCGGGTCGGGTCGGGTCGGGTGAAACCTT-ATCTTC
7358702 TCGGGTCGGGTCGGGTCACGGGTGAAAAACCCTT-TCTTC
1 TCGGGTCGGGTCGGGT--CGGGTG--AAA-CCTTATCTTC
7358741 TCGGGTCGGGTCGGGT
1 TCGGGTCGGGTCGGGT
7358757 GGCCCAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
36 16 0.33
38 6 0.12
39 19 0.40
40 3 0.06
41 4 0.08
ACGTcount: A:0.12, C:0.21, G:0.40, T:0.27
Consensus pattern (35 bp):
TCGGGTCGGGTCGGGTCGGGTGAAACCTTATCTTC
Found at i:7365577 original size:2 final size:2
Alignment explanation
Indices: 7365566--7365599 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7365556 ATTCCAGAAT
7365566 TA TA -A TA 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 TA TA TA TA T
7365600 TAGATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7367315 original size:200 final size:200
Alignment explanation
Indices: 7366972--7367371 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
7366962 TCTTTATATA
7366972 GATTGAATATTAGGTCAATCTTTTAAGTATTTATAATTATGTCACTCATCAAATTATAAATACAA
1 GATTGAATATTAGGTCAATCTTTTAAGTATTTATAATTATGTCACTCATCAAATTATAAATACAA
*
7367037 ATTATGGTATCTACACTTTGATTCAATGACACTTTAATACATATAACATATGTAACATAATTGGT
66 ATTATGGTAACTACACTTTGATTCAATGACACTTTAATACATATAACATATGTAACATAATTGGT
7367102 CAATTAATTTTGTGTCATACTTTATAATAACATTGTACATTATACATTGAAATTTATTCCAACAA
131 CAATTAATTTTGTGTCATACTTTATAATAACATTGTACATTATACATTGAAATTTATTCCAACAA
7367167 TCTCC
196 TCTCC
7367172 GATTGAATATTAGGTCAATCTTTTAAGTATTTATAATTATGTCACTCATCAAATTATAAATACAA
1 GATTGAATATTAGGTCAATCTTTTAAGTATTTATAATTATGTCACTCATCAAATTATAAATACAA
7367237 ATTATGGTAACTACACTTTGATTCAATGACACTTTAATACATATAACATATGTAACATAATTGGT
66 ATTATGGTAACTACACTTTGATTCAATGACACTTTAATACATATAACATATGTAACATAATTGGT
7367302 CAATTAATTTTGTGTCATACTTTATAATAACATTGTACATTATACATTGAAATTTATTCCAACAA
131 CAATTAATTTTGTGTCATACTTTATAATAACATTGTACATTATACATTGAAATTTATTCCAACAA
7367367 TCTCC
196 TCTCC
7367372 CACTAGGACA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (200 bp):
GATTGAATATTAGGTCAATCTTTTAAGTATTTATAATTATGTCACTCATCAAATTATAAATACAA
ATTATGGTAACTACACTTTGATTCAATGACACTTTAATACATATAACATATGTAACATAATTGGT
CAATTAATTTTGTGTCATACTTTATAATAACATTGTACATTATACATTGAAATTTATTCCAACAA
TCTCC
Found at i:7369974 original size:19 final size:20
Alignment explanation
Indices: 7369935--7369974 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7369925 TAAGTGTTAA
*
7369935 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
7369955 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
7369974 T
1 T
7369975 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:7372806 original size:19 final size:20
Alignment explanation
Indices: 7372767--7372806 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7372757 TAAGTGTTAA
*
7372767 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
7372787 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
7372806 T
1 T
7372807 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:7373103 original size:23 final size:23
Alignment explanation
Indices: 7373072--7373115 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
7373062 AACATAATGT
7373072 CCAGAGGGTACCGATTCCCCCAC
1 CCAGAGGGTACCGATTCCCCCAC
* *
7373095 CCAGGGGGTACCTATTCCCCC
1 CCAGAGGGTACCGATTCCCCC
7373116 CTGTGTAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.16
Consensus pattern (23 bp):
CCAGAGGGTACCGATTCCCCCAC
Found at i:7374467 original size:2 final size:2
Alignment explanation
Indices: 7374460--7374497 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7374450 ATCGAATTGA
7374460 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
7374498 TGCATTAACA
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:7378474 original size:88 final size:90
Alignment explanation
Indices: 7378322--7378517 Score: 288
Period size: 88 Copynumber: 2.2 Consensus size: 90
7378312 CCAGAACTGC
* **
7378322 GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGGAGCCAACCTAAGGATATTTCTTGGGGCCT
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAA-GGAACCAACCTAAGGATATGCCTTGGGGCCT
*
7378387 ATGGGCCTACCCAAGGGTATCCTTAG
65 ATGAGCCTACCCAAGGGTATCCTTAG
* *
7378413 GTCCGTAGGG-TTACCCTATGCACACAACAAAA-TAACCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGAACCAACCTAAGGATATGCCTTGGGGCCTA
*
7378476 TGAGCCTACCTAAGGGTATCCTTAG
66 TGAGCCTACCCAAGGGTATCCTTAG
*
7378501 GTCCGTATGGTCTTACC
1 GTCCGTA-GGGCTTACC
7378518 ATCTGGATCA
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
88 57 0.60
89 2 0.02
90 26 0.27
91 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (90 bp):
GTCCGTAGGGCTTACCCTAAGCACACAACAAAAGGAACCAACCTAAGGATATGCCTTGGGGCCTA
TGAGCCTACCCAAGGGTATCCTTAG
Found at i:7390050 original size:32 final size:32
Alignment explanation
Indices: 7389999--7390073 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
7389989 GAAAATAAAT
*
7389999 CGAACCAAAAGAAAACTGAACCAAATTTAACC
1 CGAACCGAAAGAAAACTGAACCAAATTTAACC
* * * * *
7390031 CGAACCGAAAGCAATCTGAATCGAATTTAACT
1 CGAACCGAAAGAAAACTGAACCAAATTTAACC
*
7390063 CGATCCGAAAG
1 CGAACCGAAAG
7390074 TAACCCAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (32 bp):
CGAACCGAAAGAAAACTGAACCAAATTTAACC
Found at i:7393261 original size:2 final size:2
Alignment explanation
Indices: 7393254--7393295 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7393244 TGCGTAAATA
7393254 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
7393296 TTAAAATAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7394599 original size:32 final size:33
Alignment explanation
Indices: 7394548--7394624 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 33
7394538 ACATAACCCG
* *
7394548 AAATCTAACCGATATGATATTGATCCGA-CCCAA
1 AAATC-AACCAATAAGATATTGATCCGAGCCCAA
*
7394581 AAATCAACCAATAAGATATTGATCCGAGCCGAA
1 AAATCAACCAATAAGATATTGATCCGAGCCCAA
7394614 AAA-CAACCAAT
1 AAATCAACCAAT
7394625 CTAATAACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 28 0.70
33 12 0.30
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.19
Consensus pattern (33 bp):
AAATCAACCAATAAGATATTGATCCGAGCCCAA
Found at i:7396972 original size:51 final size:50
Alignment explanation
Indices: 7396909--7397020 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 50
7396899 ACACCATATT
* *
7396909 TAAGCATACATATAACATAATGTACACAA-CTGTAATGCTATAAGTCATCTC
1 TAAGCATGCATATAACATAACGTACA-AAGCTGTAATGCTAT-AGTCATCTC
* * *
7396960 TAATCATGCATATAGCATGACGTACAAAGCTGTAATGCTATAGTCATCTC
1 TAAGCATGCATATAACATAACGTACAAAGCTGTAATGCTATAGTCATCTC
7397010 TAAGCATGCAT
1 TAAGCATGCAT
7397021 CACTGTCAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
50 21 0.39
51 33 0.61
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (50 bp):
TAAGCATGCATATAACATAACGTACAAAGCTGTAATGCTATAGTCATCTC
Found at i:7398456 original size:18 final size:18
Alignment explanation
Indices: 7398433--7398468 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7398423 GGGTGAGAGT
7398433 CGGA-GGTTGTGGTGGAAG
1 CGGAGGGTTG-GGTGGAAG
7398451 CGGAGGGTTGGGTGGAAG
1 CGGAGGGTTGGGTGGAAG
7398469 AGGTGAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.06, G:0.58, T:0.19
Consensus pattern (18 bp):
CGGAGGGTTGGGTGGAAG
Found at i:7403723 original size:32 final size:32
Alignment explanation
Indices: 7403687--7403826 Score: 189
Period size: 32 Copynumber: 4.4 Consensus size: 32
7403677 CCAAGAGTCG
* * *
7403687 AGGATTACGTATGTCCATCGGGATATATGGAC
1 AGGATTACCTATGTCCATTGGGACATATGGAC
*
7403719 AGGATTACCTATGTCCTTTGGGACATATGGAC
1 AGGATTACCTATGTCCATTGGGACATATGGAC
7403751 AGGATTACCTATGT-CATTTGGGACATATGGAC
1 AGGATTACCTATGTCCA-TTGGGACATATGGAC
*
7403783 AGGATTACCTATGT-CATTTGGAACATATGGAC
1 AGGATTACCTATGTCCA-TTGGGACATATGGAC
7403815 A-G-TTACCTATGT
1 AGGATTACCTATGT
7403827 TCTTCGAAAC
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 10 0.10
31 2 0.02
32 89 0.88
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (32 bp):
AGGATTACCTATGTCCATTGGGACATATGGAC
Found at i:7403764 original size:64 final size:64
Alignment explanation
Indices: 7403687--7403843 Score: 205
Period size: 64 Copynumber: 2.5 Consensus size: 64
7403677 CCAAGAGTCG
* * * *
7403687 AGGATTACGTATGTCCA-TCGGGATATATGGACAGGATTACCTATGTCCTTTGGGACATATGGAC
1 AGGATTACCTATGT-CATTCGGGACATATGGACAGGATTACCTATGTCATTTGGAACATATGGAC
*
7403751 AGGATTACCTATGTCATTTGGGACATATGGACAGGATTACCTATGTCATTTGGAACATATGGAC
1 AGGATTACCTATGTCATTCGGGACATATGGACAGGATTACCTATGTCATTTGGAACATATGGAC
**
7403815 A-G-TTACCTATGTTC-TTCGAAACATATGGA
1 AGGATTACCTATG-TCATTCGGGACATATGGA
7403844 TAGGTCATTC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
62 21 0.25
63 5 0.06
64 57 0.69
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
AGGATTACCTATGTCATTCGGGACATATGGACAGGATTACCTATGTCATTTGGAACATATGGAC
Found at i:7404806 original size:12 final size:12
Alignment explanation
Indices: 7404789--7404824 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7404779 TCAAGGGAGT
7404789 TAGAATTTGAAC
1 TAGAATTTGAAC
7404801 TAGAATTTGAAC
1 TAGAATTTGAAC
*
7404813 TAGAAGTTGAAC
1 TAGAATTTGAAC
7404825 CCTTGTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (12 bp):
TAGAATTTGAAC
Found at i:7408022 original size:24 final size:24
Alignment explanation
Indices: 7407995--7408090 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
7407985 AAACGACTTC
7407995 TAAACAAGCTTGTTTATGAACATA
1 TAAACAAGCTTGTTTATGAACATA
* * ** ***
7408019 TAAACAAGGTTATAAATGAGGTTA
1 TAAACAAGCTTGTTTATGAACATA
*
7408043 TAAACGAGCTT-TTTCATGAACATA
1 TAAACAAGCTTGTTT-ATGAACATA
* *
7408067 TAAACGAGCTTGTTTGTGAACATA
1 TAAACAAGCTTGTTTATGAACATA
7408091 AATAAATCAA
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
23 1 0.02
24 51 0.93
25 3 0.05
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (24 bp):
TAAACAAGCTTGTTTATGAACATA
Found at i:7411374 original size:86 final size:86
Alignment explanation
Indices: 7411051--7411616 Score: 513
Period size: 86 Copynumber: 6.6 Consensus size: 86
7411041 AAAACCCACG
* * * * * * * *
7411051 ATTAAAAATTATGTTACTCGGATTCGGA-TGAGCGTTACATTCCG-GTACGTTTTTAATGCAGAT
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACA-TGCGAGTATGTGTTTAATGCAAAT
* *
7411114 ACAC-AA-ATGTGTTACATTAG
65 ATACAAATATGTGTTACATTAA
* * * *
7411134 ATTAAAAATTATGTTACTCGGATTTGGATTGGATTGAATGTTAGATGCGAGTATGTGTTTATTGC
1 ATTAAAAATTATGTTACCCGGATTT-GA----ATTGAGTGTTACATGCGAGTATGTGTTTAATGC
* * *
7411199 AAATATAGAAGTGTGTGTTACATTAA
61 AAATATACAAATATGTGTTACATTAA
* * * *
7411225 ATTAAAAATTATGTT---TGGATTTG-AGTGAGCGTTACATGCGAGTATGTGTTTAATGCAATTA
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTTTAATGCAAATA
* *
7411286 TACAAATATGAGTTACATTAG
66 TACAAATATGTGTTACATTAA
* * *
7411307 ATTAAAAATTATGTTACCCAGATTTGAATTTAGTGTTAGATGCGAGTATGTGTTTAATGCAAATA
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTTTAATGCAAATA
* *
7411372 TACAAGTATGTGTTACGTTAA
66 TACAAATATGTGTTACATTAA
* * *** * * ** *
7411393 ATTAAAAGTTATGATACTTAGA-TTCAAATGAGCATTACATGTGAGTATGTGTTTAATGCAAATA
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTTTAATGCAAATA
* *
7411457 TACAAATATGCGTTACATTAG
66 TACAAATATGTGTTACATTAA
* * * * * *
7411478 ATTAAAATTTGTGTTACCCGGATTTGGATTTACTGTTACATGCGAGTATGTGTTTAATACAAATA
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTTTAATGCAAATA
* *
7411543 TACAAGTATGTGTTACGTTAA
66 TACAAATATGTGTTACATTAA
* * * * * * *
7411564 ATTAAAATTTGTGTTACTCGGATTCGGA-TGAATGATACATGCGAGTATGTGTT
1 ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTT
7411617 GCGTACTAAT
Statistics
Matches: 392, Mismatches: 77, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
82 63 0.16
83 24 0.06
84 1 0.00
85 96 0.24
86 144 0.37
87 1 0.00
88 10 0.03
89 25 0.06
90 1 0.00
91 27 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (86 bp):
ATTAAAAATTATGTTACCCGGATTTGAATTGAGTGTTACATGCGAGTATGTGTTTAATGCAAATA
TACAAATATGTGTTACATTAA
Found at i:7411612 original size:171 final size:171
Alignment explanation
Indices: 7411051--7411616 Score: 671
Period size: 171 Copynumber: 3.3 Consensus size: 171
7411041 AAAACCCACG
* * * * * *
7411051 ATTAAAAATTATGTTACTCGGATTCGGATGAGCGTTACATTCCG-GTACGTTTTTAATGCAGATA
1 ATTAAAAATTATGTTACTCGGATTCGGATGAACGATACA-TGCGAGTATGTGTTTAATGCAAATA
* * *
7411115 CAC-AA-ATGTGTTACATTAGATTAAAAATTATGTTACTCGGATTTGGATTGGATTGAATGTTAG
65 TACAAATATGAGTTACATTAGATTAAAAATTATGTTACCCGGATTTGGA-T---TT-AATGTTAG
* * * *
7411178 ATGCGAGTATGTGTTTATTGCAAATATAGAAGTGTGTGTTACATTAA
125 ATGCGAGTATGTGTTTAATGCAAATATACAAGTATGTGTTACGTTAA
* * * *
7411225 ATTAAAAATTATGTT--T-GGATT-TGAGTGAGCGTTACATGCGAGTATGTGTTTAATGCAATTA
1 ATTAAAAATTATGTTACTCGGATTCGGA-TGAACGATACATGCGAGTATGTGTTTAATGCAAATA
* * *
7411286 TACAAATATGAGTTACATTAGATTAAAAATTATGTTACCCAGATTTGAATTTAGTGTTAGATGCG
65 TACAAATATGAGTTACATTAGATTAAAAATTATGTTACCCGGATTTGGATTTAATGTTAGATGCG
7411351 AGTATGTGTTTAATGCAAATATACAAGTATGTGTTACGTTAA
130 AGTATGTGTTTAATGCAAATATACAAGTATGTGTTACGTTAA
* * ** ** * *
7411393 ATTAAAAGTTATGATACTTAGATTCAAATGAGC-ATTACATGTGAGTATGTGTTTAATGCAAATA
1 ATTAAAAATTATGTTACTCGGATTCGGATGAACGA-TACATGCGAGTATGTGTTTAATGCAAATA
* * * * *
7411457 TACAAATATGCGTTACATTAGATTAAAATTTGTGTTACCCGGATTTGGATTTACTGTTACATGCG
65 TACAAATATGAGTTACATTAGATTAAAAATTATGTTACCCGGATTTGGATTTAATGTTAGATGCG
*
7411522 AGTATGTGTTTAATACAAATATACAAGTATGTGTTACGTTAA
130 AGTATGTGTTTAATGCAAATATACAAGTATGTGTTACGTTAA
* * *
7411564 ATTAAAATTTGTGTTACTCGGATTCGGATGAATGATACATGCGAGTATGTGTT
1 ATTAAAAATTATGTTACTCGGATTCGGATGAACGATACATGCGAGTATGTGTT
7411617 GCGTACTAAT
Statistics
Matches: 340, Mismatches: 42, Indels: 23
0.84 0.10 0.06
Matches are distributed among these distances:
168 63 0.19
169 2 0.01
170 6 0.02
171 210 0.62
172 6 0.02
173 38 0.11
174 15 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (171 bp):
ATTAAAAATTATGTTACTCGGATTCGGATGAACGATACATGCGAGTATGTGTTTAATGCAAATAT
ACAAATATGAGTTACATTAGATTAAAAATTATGTTACCCGGATTTGGATTTAATGTTAGATGCGA
GTATGTGTTTAATGCAAATATACAAGTATGTGTTACGTTAA
Found at i:7411991 original size:25 final size:25
Alignment explanation
Indices: 7411960--7412012 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
7411950 GTAGTCTTTA
7411960 AAATAGAT-ACCATCACCAGGGATTT
1 AAATAGATGA-CATCACCAGGGATTT
*
7411985 AAATAGATGACATCACCAGGTATTT
1 AAATAGATGACATCACCAGGGATTT
7412010 AAA
1 AAA
7412013 CAGTCATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (25 bp):
AAATAGATGACATCACCAGGGATTT
Found at i:7412298 original size:14 final size:14
Alignment explanation
Indices: 7412279--7412305 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7412269 ACAGTTACTA
7412279 AAAAATTATTAATT
1 AAAAATTATTAATT
7412293 AAAAATTATTAAT
1 AAAAATTATTAAT
7412306 GTACCAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAAATTATTAATT
Found at i:7413029 original size:16 final size:16
Alignment explanation
Indices: 7413008--7413041 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7412998 TCCATAAAAA
7413008 GTATGCATTAGACTTT
1 GTATGCATTAGACTTT
7413024 GTATGCATTAGACTTT
1 GTATGCATTAGACTTT
7413040 GT
1 GT
7413042 TGAAAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (16 bp):
GTATGCATTAGACTTT
Found at i:7414903 original size:21 final size:21
Alignment explanation
Indices: 7414869--7414908 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7414859 AAATCCAAAA
*
7414869 AAGATGAGAGTGATTAGGATG
1 AAGATGAGAGTGATGAGGATG
7414890 AAGATGACGA-TGATGAGGA
1 AAGATGA-GAGTGATGAGGA
7414909 AATGGCATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.40, C:0.03, G:0.38, T:0.20
Consensus pattern (21 bp):
AAGATGAGAGTGATGAGGATG
Found at i:7418235 original size:28 final size:28
Alignment explanation
Indices: 7418195--7418259 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
7418185 TGGATGAAGG
7418195 AGGTAAATGTGTAGATGTTAAATTATAT
1 AGGTAAATGTGTAGATGTTAAATTATAT
7418223 AGGTAAATGTGTAGATGTTAAATTATAT
1 AGGTAAATGTGTAGATGTTAAATTATAT
*
7418251 AGGTCAATG
1 AGGTAAATG
7418260 ATTGGATCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (28 bp):
AGGTAAATGTGTAGATGTTAAATTATAT
Found at i:7421084 original size:29 final size:29
Alignment explanation
Indices: 7421052--7421113 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
7421042 CTATTTTCGT
7421052 AATTATTTTAAAAAAAGTGACATTCTGGG
1 AATTATTTTAAAAAAAGTGACATTCTGGG
** *
7421081 AATTATTTTGGAAAAGGTGACATTCTGGG
1 AATTATTTTAAAAAAAGTGACATTCTGGG
7421110 AATT
1 AATT
7421114 TTCGAATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.35
Consensus pattern (29 bp):
AATTATTTTAAAAAAAGTGACATTCTGGG
Found at i:7422068 original size:32 final size:32
Alignment explanation
Indices: 7421995--7422118 Score: 103
Period size: 31 Copynumber: 3.9 Consensus size: 32
7421985 CTAATATGAC
* * *
7421995 TCTTAGGTAGGCTCTGCGGCCCTGAGAT-CAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATGTAT
*
7422026 TC-TCGAGTAGGCCCTGCGGCCCTAAGATGTAT
1 TCTTAG-GTAGGCCCTGCGGCCCTAAGATGTAT
** * * *
7422058 TCTTAGGTAGGCCCCACGGCCCCAAAATCTA-
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATGTAT
* *
7422089 TCTTGGGTAGGCTCT-CAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCTGC-GGCCCTAAGATGT
7422119 TCCCTTAGGG
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
30 3 0.04
31 44 0.60
32 24 0.33
33 2 0.03
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (32 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATGTAT
Found at i:7422188 original size:26 final size:26
Alignment explanation
Indices: 7422135--7422188 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
7422125 AGGGTAACTC
* *
7422135 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
7422161 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
7422187 TT
1 TT
7422189 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:7428318 original size:29 final size:28
Alignment explanation
Indices: 7428275--7428351 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
7428265 GGGTGTTAGT
* * * *
7428275 TTTGTAAATATTTTTAGAAGGTTGCTAGA
1 TTTGTAATTAATTTTAAAAGGATGCTA-A
*
7428304 TTTGTAATTAATTTTAAAAGGATGCTAT
1 TTTGTAATTAATTTTAAAAGGATGCTAA
7428332 TTTCGTAATT-ATTTTGAAAA
1 TTT-GTAATTAATTTT-AAAA
7428352 AAGTGACATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 8 0.20
29 33 0.80
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.47
Consensus pattern (28 bp):
TTTGTAATTAATTTTAAAAGGATGCTAA
Found at i:7428370 original size:29 final size:29
Alignment explanation
Indices: 7428338--7428397 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7428328 CTATTTTCGT
7428338 AATTATTTTGAAAAAAGTGACATTCTGGG
1 AATTATTTTGAAAAAAGTGACATTCTGGG
*
7428367 AATTATTTTGAAAAAGGTGACATTCTGGG
1 AATTATTTTGAAAAAAGTGACATTCTGGG
7428396 AA
1 AA
7428398 CTTTCGAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (29 bp):
AATTATTTTGAAAAAAGTGACATTCTGGG
Found at i:7429367 original size:32 final size:31
Alignment explanation
Indices: 7429282--7429367 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
7429272 CTAATGTGAC
* * *
7429282 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** * *
7429313 TCTCGGGTAGGCCCATAGGGCCCTAAGATGTAT
1 TCTTAGGTAGGCCC-TACGGCCCTAAGAT-CAT
*
7429346 TCTTAGGTAGGCCCCACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
7429368 CGAAATCTAT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
31 11 0.26
32 17 0.40
33 14 0.33
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.24
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:7429476 original size:26 final size:26
Alignment explanation
Indices: 7429423--7429476 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
7429413 AGGGTAACTC
* *
7429423 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
7429449 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
7429475 TT
1 TT
7429477 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:7433975 original size:38 final size:39
Alignment explanation
Indices: 7433927--7434014 Score: 151
Period size: 40 Copynumber: 2.3 Consensus size: 39
7433917 AAAATCTAAT
7433927 AAATTAATAATTTAATATG-TTTTTTGTTGTTTATTATA
1 AAATTAATAATTTAATATGTTTTTTTGTTGTTTATTATA
*
7433965 AAATTAATAATTTAATATGTTTTTTTTGTTTTTTATTATA
1 AAATTAATAATTTAATATG-TTTTTTTGTTGTTTATTATA
7434005 AAATTAATAA
1 AAATTAATAA
7434015 ATTAGTAGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 19 0.40
40 28 0.60
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (39 bp):
AAATTAATAATTTAATATGTTTTTTTGTTGTTTATTATA
Found at i:7434634 original size:60 final size:61
Alignment explanation
Indices: 7434540--7434680 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 61
7434530 TGTCCCTAAA
* * * *
7434540 TTTTTAAACATTTCAATTTCATCCTTAAAATATGACTATT-ATTCTAAATTAATCCTCAAAC
1 TTTTTGAACATTTCATTTTCATCCCTAAAATATGA-TATTCATCCTAAATTAATCCTCAAAC
*** * **
7434601 -TTTTGAACATTTCATTTTCATCCCTAGGTTATGATTTTCATCCTAAATTGGTCCTCAAAC
1 TTTTTGAACATTTCATTTTCATCCCTAAAATATGATATTCATCCTAAATTAATCCTCAAAC
*
7434661 TTTTTGAATATTTCAATTTT
1 TTTTTGAACATTTC-ATTTT
7434681 ATTCTAAATT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
59 3 0.05
60 46 0.70
61 12 0.18
62 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (61 bp):
TTTTTGAACATTTCATTTTCATCCCTAAAATATGATATTCATCCTAAATTAATCCTCAAAC
Found at i:7435143 original size:24 final size:24
Alignment explanation
Indices: 7435065--7435160 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
7435055 TATTTAAAGT
*
7435065 TAATATAAAAATAACTTATTTTTA
1 TAATATACAAATAACTTATTTTTA
* *
7435089 TACTATACAAAAAACTTATTTTTA
1 TAATATACAAATAACTTATTTTTA
*
7435113 TACTATACAAATAACTTATTTTTA
1 TAATATACAAATAACTTATTTTTA
* *
7435137 AAATATA-AAGATATC-TATTTTTA
1 TAATATACAA-ATAACTTATTTTTA
7435160 T
1 T
7435161 TTATAATTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.16
24 53 0.84
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (24 bp):
TAATATACAAATAACTTATTTTTA
Found at i:7435775 original size:64 final size:64
Alignment explanation
Indices: 7435704--7435832 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 64
7435694 GATACCGAAT
* * *
7435704 GACTTACTATAGACCTGAATACAATCAAAAACCAAAATGAA-CC-TATCCGACCCGAACCTGACC
1 GACTTACTATAGACCCGAATAAAATCAAAAACCAAAA-CAACCCGT-TCCGACCCGAACCTGACC
7435767 A
64 A
* * * *
7435768 GACTTACTATAGACCCGAATAAAATCGAAACCCGAAACAACCCGTTCTGACCCGAACCTGACCA
1 GACTTACTATAGACCCGAATAAAATCAAAAACCAAAACAACCCGTTCCGACCCGAACCTGACCA
7435832 G
1 G
7435833 GATAAAACCA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 2 0.04
64 53 0.95
65 1 0.02
ACGTcount: A:0.40, C:0.31, G:0.13, T:0.16
Consensus pattern (64 bp):
GACTTACTATAGACCCGAATAAAATCAAAAACCAAAACAACCCGTTCCGACCCGAACCTGACCA
Found at i:7438104 original size:168 final size:168
Alignment explanation
Indices: 7437894--7438311 Score: 477
Period size: 168 Copynumber: 2.5 Consensus size: 168
7437884 CCGTGGTTCC
* * * *
7437894 ACTGT-TTCGGTTATCACCATTTCGATTGTCAACTATTACTCTTTGCCTGAACTTGAGCCTCCTC
1 ACTGTCTT-GGTTATCACCATTTAGATTGTCAACGATTACTCTTTGCCTGAACTTGAGTCTCCTT
* * * * * *
7437958 GGAGTAAACTCCTTGGCAT-TACCGTTTCGGTTATCTCCATTCCGATTGTCAACGATCA-ATCTT
65 GGAGTAAACTCCTCGAC-TCTACCGTTCCGATTATCACCATTCCGATTGTCAACGATCACCT-TT
*
7438021 TGCCTGAACTTGAGTCTCTTTGGCGTAAACTCCTCGACTCT
128 TGCCTCAACTTGAGTCTCTTTGGCGTAAACTCCTCGACTCT
* * * * *
7438062 ATTGTCTTGGTTATCACCATTTAGATCGTCAACGATTACTCTTTCCCTGAACTTGAGTTTCTTTG
1 ACTGTCTTGGTTATCACCATTTAGATTGTCAACGATTACTCTTTGCCTGAACTTGAGTCTCCTTG
* * * * * * *
7438127 GCGTGAACTCCTCGACTCTACTGTTCCGATTATCACCTTTTCGATTTTCATCGATCACCTTTTGC
66 GAGTAAACTCCTCGACTCTACCGTTCCGATTATCACCATTCCGATTGTCAACGATCACCTTTTGC
* *
7438192 CTCAACTTGAGTCTCTTTGGCGTGAACTCCTCGACTTT
131 CTCAACTTGAGTCTCTTTGGCGTAAACTCCTCGACTCT
* * * *
7438230 GCTGTTTTGGTTATCACCATTTATG-TTG-CCAGGATTTACTCTTTGCCTGAACTTGAGTCTCCT
1 ACTGTCTTGGTTATCACCATTTA-GATTGTCAACGA-TTACTCTTTGCCTGAACTTGAGTCTCCT
* *
7438293 TGGAGTACAGTCCTCGACT
64 TGGAGTAAACTCCTCGACT
7438312 TTGCCTTTCC
Statistics
Matches: 207, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
167 5 0.02
168 198 0.96
169 4 0.02
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (168 bp):
ACTGTCTTGGTTATCACCATTTAGATTGTCAACGATTACTCTTTGCCTGAACTTGAGTCTCCTTG
GAGTAAACTCCTCGACTCTACCGTTCCGATTATCACCATTCCGATTGTCAACGATCACCTTTTGC
CTCAACTTGAGTCTCTTTGGCGTAAACTCCTCGACTCT
Found at i:7438315 original size:84 final size:84
Alignment explanation
Indices: 7437894--7438295 Score: 343
Period size: 84 Copynumber: 4.8 Consensus size: 84
7437884 CCGTGGTTCC
* * * * * * *
7437894 ACTGTTTCGGTTATCACCATTT-CGATTGTCAACTATTACTCTTTGCCTGAACTTGAGCCTCCTC
1 ACTGTTTTGGTTATCACCATTTATGATTG-CCACGATTACTCTTTGCCTGAACTTGAGTCTCTTT
* * * *
7437958 GGAGTAAACTCCTTGGCAT-T
65 GGCGTGAACTCCTCGAC-TCT
* * * ** * * *
7437978 ACCGTTTCGGTTATCTCCA-TTCCGATTGTCAACGATCAATCTTTGCCTGAACTTGAGTCTCTTT
1 ACTGTTTTGGTTATCACCATTTATGATTG-CCACGATTACTCTTTGCCTGAACTTGAGTCTCTTT
*
7438042 GGCGTAAACTCCTCGACTCT
65 GGCGTGAACTCCTCGACTCT
* * * * * *
7438062 ATTGTCTTGGTTATCACCATTTA-GATCGTCAACGATTACTCTTTCCCTGAACTTGAGTTTCTTT
1 ACTGTTTTGGTTATCACCATTTATGATTG-CCACGATTACTCTTTGCCTGAACTTGAGTCTCTTT
7438126 GGCGTGAACTCCTCGACTCT
65 GGCGTGAACTCCTCGACTCT
** * ** * *
7438146 ACTGTTCCGATTATCACC-TTT-TCGATTTTCATCGATCAC-CTTTTGCCTCAACTTGAGTCTCT
1 ACTGTTTTGGTTATCACCATTTAT-GATTGCCA-CGATTACTC-TTTGCCTGAACTTGAGTCTCT
*
7438208 TTGGCGTGAACTCCTCGACTTT
63 TTGGCGTGAACTCCTCGACTCT
* * *
7438230 GCTGTTTTGGTTATCACCATTTATG-TTGCCAGGATTTACTCTTTGCCTGAACTTGAGTCTCCTT
1 ACTGTTTTGGTTATCACCATTTATGATTGCCACGA-TTACTCTTTGCCTGAACTTGAGTCTCTTT
7438294 GG
65 GG
7438296 AGTACAGTCC
Statistics
Matches: 260, Mismatches: 47, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
83 10 0.04
84 242 0.93
85 7 0.03
86 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (84 bp):
ACTGTTTTGGTTATCACCATTTATGATTGCCACGATTACTCTTTGCCTGAACTTGAGTCTCTTTG
GCGTGAACTCCTCGACTCT
Found at i:7446109 original size:131 final size:131
Alignment explanation
Indices: 7445873--7446231 Score: 420
Period size: 131 Copynumber: 2.7 Consensus size: 131
7445863 TTGAGAATAG
* * * * * *
7445873 TAATATCTTTTCATTTCGGTTGGAGTAATAAATGA-CTGCATTAAGGCATGAAAGGTCCTTTATT
1 TAATATCTCTTCATTTCGATTGGAATAATAAATGATC-GCTTTAAGGAATGAAAGGTCATTTATT
* * * * * *
7445937 CTCGATTGGAAATAATTCGATATTA-CAGTTTTCTCTTGAATCAATATTGATTTTTAAGATGGAA
65 CTCGATTGGAAATAATTAGATATTATC-GTTTTCACTCGAATCAATATTGAATTCTAAGATGAAA
7446001 CAA
129 CAA
* * * * *
7446004 TGATATCTCTTCATTTCGATTGGAACAATAAATGATCGCTTTAAGGTATGAGAGGTCATATATTC
1 TAATATCTCTTCATTTCGATTGGAATAATAAATGATCGCTTTAAGGAATGAAAGGTCATTTATTC
* * * *
7446069 TCGACAT-GAAATCATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTCTAATATGAAAT
66 TCGA-TTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTCTAAGATGAAAC
*
7446133 AG
130 AA
* * *
7446135 TAATATCTCTTCATTTCGATT-GAAGTAATAAATGATTGCTTTAAGAAATGAAATGTCATTTATT
1 TAATATCTCTTCATTTCGATTGGAA-TAATAAATGATCGCTTTAAGGAATGAAAGGTCATTTATT
*
7446199 TTCGATTGGAAATAATTAGATATTATCGTTTTC
65 CTCGATTGGAAATAATTAGATATTATCGTTTTC
7446232 TCTCTTAAAA
Statistics
Matches: 191, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
130 4 0.02
131 184 0.96
132 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (131 bp):
TAATATCTCTTCATTTCGATTGGAATAATAAATGATCGCTTTAAGGAATGAAAGGTCATTTATTC
TCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTCTAAGATGAAACA
A
Found at i:7452424 original size:66 final size:65
Alignment explanation
Indices: 7452289--7452419 Score: 201
Period size: 64 Copynumber: 2.0 Consensus size: 65
7452279 AACACATCAC
* *
7452289 TAATAAAATTGTCTTTATTATGTAAAAATGTACAATGGTTTATTTAAAATTAATTAATTAATTAA
1 TAATAAAATTGTCTTTATTATATAAAAA-GTACAATGGTTTATTTAAAATTAATTAAATAATTAA
7452354 T
65 T
* * *
7452355 TAATAAAATTGTCTTTATTATATAAAAA-TATAATGGTTTATTTAAAATTAGTTAAATATTTAAT
1 TAATAAAATTGTCTTTATTATATAAAAAGTACAATGGTTTATTTAAAATTAATTAAATAATTAAT
7452419 T
1 T
7452420 TTAATTTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 33 0.55
66 27 0.45
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (65 bp):
TAATAAAATTGTCTTTATTATATAAAAAGTACAATGGTTTATTTAAAATTAATTAAATAATTAAT
Found at i:7456231 original size:42 final size:41
Alignment explanation
Indices: 7456147--7456254 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 41
7456137 ACGCGGCTAG
* *
7456147 GTGCATGATTATATTG--ACGTTTATTAAAAAACGTCGTTAAA
1 GTGCATGA-T-TATTGCAACGTTTATTAAAAAACATCGATAAA
*
7456188 GTGCATGATTATTGCAACGTTTATTAAAAAAATATCGATAAA
1 GTGCATGATTATTGCAACGTTTATT-AAAAAACATCGATAAA
*
7456230 GTGCATGATTATCGCAACGTTTATT
1 GTGCATGATTATTGCAACGTTTATT
7456255 CCAGAAACGT
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 5 0.08
40 1 0.02
41 17 0.28
42 37 0.62
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (41 bp):
GTGCATGATTATTGCAACGTTTATTAAAAAACATCGATAAA
Found at i:7456277 original size:42 final size:41
Alignment explanation
Indices: 7456163--7456278 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 41
7456153 GATTATATTG
* *
7456163 ACGTTTATT-AAAAAACGTCGTTAAAGTGCATGATTATTGCA
1 ACGTTTATTAAAAAAACGTC-ATAAAGTGCATGATTATCGCA
**
7456204 ACGTTTATTAAAAAAATATCGATAAAGTGCATGATTATCGCA
1 ACGTTTATTAAAAAAACGTC-ATAAAGTGCATGATTATCGCA
** * *
7456246 ACGTTTATTCCAGAAACGTCACTAAAATGCATG
1 ACGTTTATTAAAAAAACGTCA-TAAAGTGCATG
7456279 GCTATTGCTC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 10 0.16
42 53 0.84
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (41 bp):
ACGTTTATTAAAAAAACGTCATAAAGTGCATGATTATCGCA
Found at i:7456534 original size:2 final size:2
Alignment explanation
Indices: 7456527--7456565 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7456517 ATGAAAATTC
7456527 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7456566 AACAAATCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7459775 original size:22 final size:21
Alignment explanation
Indices: 7459733--7459782 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7459723 TACCAAAGTC
7459733 ATAAAAA-ATCCAAATAACAAA
1 ATAAAAATATCCAAATAAC-AA
* * *
7459754 ATAAAAATATTCAAGTACCAA
1 ATAAAAATATCCAAATAACAA
7459775 ATAAAAAT
1 ATAAAAAT
7459783 CAAAGATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.66, C:0.12, G:0.02, T:0.20
Consensus pattern (21 bp):
ATAAAAATATCCAAATAACAA
Found at i:7463583 original size:15 final size:14
Alignment explanation
Indices: 7463563--7463593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7463553 GTTTTTTGTT
7463563 TTCTTTCTTATCTTA
1 TTCTTTCTT-TCTTA
7463578 TTCTTTCTTTCTTA
1 TTCTTTCTTTCTTA
7463592 TT
1 TT
7463594 TTGGAGTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCTTTCTTA
Found at i:7465196 original size:28 final size:28
Alignment explanation
Indices: 7465132--7465235 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
7465122 ATCCGTAACT
* * *
7465132 TTTATAAATTCCAATAATTAGCCAAAAA
1 TTTAAAAATTACAATAATTACCCAAAAA
* *
7465160 TTTTAAAAATTACATTAATTACCCAAAAG
1 -TTTAAAAATTACAATAATTACCCAAAAA
*
7465189 TTTAAAAATTACATTAATTACCCAAAACA
1 TTTAAAAATTACAATAATTACCCAAAA-A
*
7465218 TTTACAAATTACAATAAT
1 TTTAAAAATTACAATAAT
7465236 GGTCAAAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 27 0.41
29 39 0.59
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTAAAAATTACAATAATTACCCAAAAA
Found at i:7465242 original size:28 final size:29
Alignment explanation
Indices: 7465211--7465290 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
7465201 ATTAATTACC
*
7465211 CAAAACATTTACAAATTACAATAATGGT-
1 CAAAACATTTACAAATTACAATAATGATG
* * *
7465239 CAAAACATTTACGAATTATAACAATGATG
1 CAAAACATTTACAAATTACAATAATGATG
**
7465268 CAAAAGTTTTACAAATTACAATA
1 CAAAACATTTACAAATTACAATA
7465291 TAGGCCTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (29 bp):
CAAAACATTTACAAATTACAATAATGATG
Found at i:7466537 original size:81 final size:81
Alignment explanation
Indices: 7466445--7466599 Score: 256
Period size: 81 Copynumber: 1.9 Consensus size: 81
7466435 AAATATACCA
*
7466445 TTAGACATTTAGTCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACCTT
1 TTAGACATTTAGTCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATT
7466510 TCTGCCAAAGGCACAG
66 TCTGCCAAAGGCACAG
* * * *
7466526 TTAGACTTTTAGTCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACACATT
1 TTAGACATTTAGTCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATT
*
7466591 TCTGTCAAA
66 TCTGCCAAA
7466600 TACACAACTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (81 bp):
TTAGACATTTAGTCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATT
TCTGCCAAAGGCACAG
Found at i:7466623 original size:81 final size:81
Alignment explanation
Indices: 7466457--7466625 Score: 221
Period size: 81 Copynumber: 2.1 Consensus size: 81
7466447 AGACATTTAG
* *
7466457 TCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACCTTTCTGCCAAAGGC
1 TCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATTTCTGCCAAAGAC
** ** *
7466522 ACAGTTAGACTTTTAG
66 ACAACTAGACCATTAA
* * * * *
7466538 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATGATTGACACATTTCTGTCAAATAC
1 TCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATTTCTGCCAAAGAC
*
7466603 ACAACTAGGCCATTAA
66 ACAACTAGACCATTAA
7466619 TCTTTTA
1 TCTTTTA
7466626 TTTTAGAACA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (81 bp):
TCTTTTACCCAAAGGTATTTAACATTTCATCTAACTGGCATGATTGACACATTTCTGCCAAAGAC
ACAACTAGACCATTAA
Found at i:7466779 original size:16 final size:16
Alignment explanation
Indices: 7466758--7466789 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7466748 TTACATGGGT
7466758 TGCACACCCACAACCA
1 TGCACACCCACAACCA
*
7466774 TGCACACCCACTACCA
1 TGCACACCCACAACCA
7466790 ATATAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.50, G:0.06, T:0.09
Consensus pattern (16 bp):
TGCACACCCACAACCA
Found at i:7467041 original size:26 final size:26
Alignment explanation
Indices: 7466973--7467167 Score: 134
Period size: 20 Copynumber: 8.4 Consensus size: 26
7466963 TTATTTGTTA
*
7466973 ATTTCATTTATGGCATCCTTTTATGC
1 ATTTCATTTATGGCATCCTTTCATGC
* *
7466999 ----C-TTAAT-GCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGC
7467019 ATTTCATTTATGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
7467045 ATTTCATTTGTGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
7467071 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
*
7467091 ----C-TTAAT-GCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
7467111 ATTTCATTTA-GGCCATCCTTTCATGC
1 ATTTCATTTATGG-CATCCTTTCATGC
* *
7467137 ----C-TTAAT-GCATCATTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
7467157 ATTTCATTTAT
1 ATTTCATTTAT
7467168 TAATTGCTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 39
0.73 0.06 0.21
Matches are distributed among these distances:
20 58 0.42
21 11 0.08
22 3 0.02
24 3 0.02
25 12 0.09
26 51 0.37
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (26 bp):
ATTTCATTTATGGCATCCTTTCATGC
Found at i:7467128 original size:46 final size:46
Alignment explanation
Indices: 7466973--7467167 Score: 224
Period size: 46 Copynumber: 4.2 Consensus size: 46
7466963 TTATTTGTTA
* *
7466973 ATTTCATTTATGGCATCCTTTTATGCCTTAATGCATCCTTTCATGT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
**
7467019 ATTTCATTTATGGCATCCTTTCATGCATTTCATTTGTGGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGC
*
7467071 ----C-TTAAT-GCATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
7467111 ATTTCATTTA-GGCCATCCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTCATTTATGG-CATCCTTTCATGCCTTAATGCATCCTTTCATGC
7467157 ATTTCATTTAT
1 ATTTCATTTAT
7467168 TAATTGCTTT
Statistics
Matches: 126, Mismatches: 9, Indels: 27
0.78 0.06 0.17
Matches are distributed among these distances:
40 14 0.11
41 3 0.02
42 1 0.01
44 1 0.01
45 4 0.03
46 81 0.64
47 4 0.03
48 1 0.01
50 1 0.01
51 3 0.02
52 13 0.10
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.45
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:7467780 original size:21 final size:21
Alignment explanation
Indices: 7467754--7467810 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
7467744 ATTGATACCC
7467754 CATCAGTATCGATATCACTTG
1 CATCAGTATCGATATCACTTG
7467775 CATCAGTATCGATATCACTTG
1 CATCAGTATCGATATCACTTG
*
7467796 CATCAATATCGATAT
1 CATCAGTATCGATAT
7467811 TGTTCGCCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
CATCAGTATCGATATCACTTG
Found at i:7471207 original size:22 final size:22
Alignment explanation
Indices: 7471180--7471249 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
7471170 TACCCCTACC
7471180 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
7471202 ATGGTATCGATACCTTTCTAT--T
1 ATGGTATCGATA-C-TTCTATACT
* *
7471224 A--GTATCGATACTACTACACT
1 ATGGTATCGATACTTCTATACT
7471244 ATGGTA
1 ATGGTA
7471250 CTGATAATCC
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 4 0.10
19 1 0.03
20 11 0.28
22 17 0.43
23 1 0.03
24 6 0.15
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:7472277 original size:26 final size:26
Alignment explanation
Indices: 7472237--7472290 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
7472227 TGACATTATT
* *
7472237 TACATCATATCAATTATAAAATATGA
1 TACATCATATAAATTATAAAAGATGA
*
7472263 TACATCATATAAATTATAAGAGATGA
1 TACATCATATAAATTATAAAAGATGA
7472289 TA
1 TA
7472291 ACTAATTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (26 bp):
TACATCATATAAATTATAAAAGATGA
Found at i:7478721 original size:16 final size:16
Alignment explanation
Indices: 7478674--7478722 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7478664 TCCGTATCCG
*
7478674 ATCCGAAAAATTCGGAT
1 ATCCG-AAAATCCGGAT
* *
7478691 ATCTGAAAATTCGGAT
1 ATCCGAAAATCCGGAT
*
7478707 ATCCGAATATCCGGAT
1 ATCCGAAAATCCGGAT
7478723 CCGAATCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (16 bp):
ATCCGAAAATCCGGAT
Found at i:7480941 original size:21 final size:20
Alignment explanation
Indices: 7480855--7481012 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
7480845 AAATGACCAA
**
7480855 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
7480874 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
7480894 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
7480914 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
7480935 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
7480956 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
7480976 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
7480997 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
7481013 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:7481041 original size:20 final size:20
Alignment explanation
Indices: 7480979--7481171 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
7480969 CGATTTTCCA
* ** *
7480979 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
7480999 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
7481019 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
7481039 AAATCGCAACATGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
7481059 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
7481079 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
7481099 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
7481119 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
7481139 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
7481159 AAATCGCAACGCG
1 AAATCGCAACGCG
7481172 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.01
20 142 0.97
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:7481594 original size:33 final size:33
Alignment explanation
Indices: 7481554--7481624 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
7481544 TTCACTTAGA
*
7481554 TTTCATTTCGCGTTGCGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
7481587 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
7481620 TTTCA
1 TTTCA
7481625 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:7481748 original size:20 final size:20
Alignment explanation
Indices: 7481702--7481813 Score: 112
Period size: 21 Copynumber: 5.8 Consensus size: 20
7481692 TTTGCAGAAG
*
7481702 AATCGCAACGAGATAAATGAA
1 AATCGCAACGAGA-GAATGAA
*
7481723 AATCGCAACGAGAGAATGAC
1 AATCGCAACGAGAGAATGAA
**
7481743 TGTCGCAACGAGAGAAATGAA
1 AATCGCAACGAGAG-AATGAA
7481764 AATCGCAAC--GAG-A-G--
1 AATCGCAACGAGAGAATGAA
*
7481778 AATCGCAACGCGA-AATGAA
1 AATCGCAACGAGAGAATGAA
7481797 AATCGCAACGAGAGAAT
1 AATCGCAACGAGAGAAT
7481814 CGCAACGCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.20
20 20 0.27
21 25 0.33
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
AATCGCAACGAGAGAATGAA
Found at i:7481783 original size:14 final size:14
Alignment explanation
Indices: 7481764--7481820 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7481754 GAGAAATGAA
7481764 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
7481778 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7481797 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7481811 AATCGCAACG
1 AATCGCAACG
7481821 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7481796 original size:33 final size:33
Alignment explanation
Indices: 7481700--7481836 Score: 148
Period size: 33 Copynumber: 3.8 Consensus size: 33
7481690 AATTTGCAGA
7481700 AGAATCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATCGCAACGAG--AAATGAAAATCGCAACGAG
7481735 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AG-A--A---TCGCAAC--GAGAAATGAAAATCGCAACGAG
*
7481776 AGAATCGCAACGCGAAATGAAAATCGCAACGAG
1 AGAATCGCAACGAGAAATGAAAATCGCAACGAG
* **
7481809 AGAATCGCAACGCGAAACCAAAATCGCA
1 AGAATCGCAACGAGAAATGAAAATCGCA
7481837 TTGCGATTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 18
0.81 0.03 0.16
Matches are distributed among these distances:
33 47 0.52
35 9 0.10
36 1 0.01
38 2 0.02
40 1 0.01
41 28 0.31
43 3 0.03
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
AGAATCGCAACGAGAAATGAAAATCGCAACGAG
Found at i:7481873 original size:14 final size:14
Alignment explanation
Indices: 7481854--7481943 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
7481844 TTTCATTTCA
7481854 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7481868 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7481887 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7481901 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
7481920 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7481934 CGTTGCGATT
1 CGTTGCGATT
7481944 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
16 6 0.10
17 6 0.10
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7481879 original size:33 final size:33
Alignment explanation
Indices: 7481837--7481952 Score: 214
Period size: 33 Copynumber: 3.5 Consensus size: 33
7481827 CAAAATCGCA
7481837 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
*
7481870 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
*
7481903 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
7481936 TTGCGATTTTCATTTCA
1 TTGCGATTTTCATTTCA
7481953 ACCAAAAGAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCACGTTGCGATTCTCTCG
Found at i:7483809 original size:93 final size:93
Alignment explanation
Indices: 7483650--7484307 Score: 1257
Period size: 93 Copynumber: 7.1 Consensus size: 93
7483640 TAGATTGCTT
*
7483650 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7483715 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7483743 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7483808 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7483836 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7483901 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7483929 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7483994 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7484022 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7484087 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7484115 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
7484179 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
7484207 AGTAAATAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAT
1 AG----TAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAT
7484272 AGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
62 AGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
7484303 AGTAA
1 AGTAA
7484308 TGCAATCCAT
Statistics
Matches: 559, Mismatches: 1, Indels: 11
0.98 0.00 0.02
Matches are distributed among these distances:
92 52 0.09
93 416 0.74
96 46 0.08
97 45 0.08
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:7484395 original size:19 final size:19
Alignment explanation
Indices: 7484355--7484483 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
7484345 TAGTTTACTT
* *
7484355 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
7484375 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
7484394 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
7484413 TCGCAA--CG--A-CATAA
1 TCGCAACGCGAAACCAAAA
7484427 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
7484446 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
7484460 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
7484479 TCGCA
1 TCGCA
7484484 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:7484434 original size:33 final size:32
Alignment explanation
Indices: 7484391--7484483 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
7484381 CGCGAAACCA
**
7484391 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
7484423 ATAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
7484456 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
7484484 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:7484481 original size:52 final size:52
Alignment explanation
Indices: 7484355--7484483 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
7484345 TAGTTTACTT
**
7484355 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
7484407 T-G-AAAATCGCAACGACATAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
7484460 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
7484484 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:7484520 original size:14 final size:14
Alignment explanation
Indices: 7484501--7484557 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
7484491 TTTCATTTCG
7484501 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
7484515 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
* *
7484532 CGCATTGTGATTCTGT
1 CG--TTGCGATTCTTT
7484548 CGTTGCGATT
1 CGTTGCGATT
7484558 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 15 0.43
16 7 0.20
17 8 0.23
19 5 0.14
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:7484526 original size:33 final size:33
Alignment explanation
Indices: 7484484--7484576 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
7484474 CAAAATCGCA
*
7484484 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
* *
7484517 TTGCGATTTTCATTTCGCATTGTGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
7484550 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
7484577 TTGGTTTCGT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:7484584 original size:19 final size:19
Alignment explanation
Indices: 7484479--7484593 Score: 97
Period size: 19 Copynumber: 6.6 Consensus size: 19
7484469 GAAACCAAAA
*
7484479 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
7484498 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
7484514 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* * *
7484531 TCGCATTGTGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
7484547 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
7484564 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
7484583 TCGTGTTGCGA
1 TCGCGTTGCGA
7484594 AAGTAAACTA
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.18
16 11 0.14
17 11 0.14
19 40 0.53
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:7486537 original size:14 final size:14
Alignment explanation
Indices: 7486518--7486553 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7486508 ATTGTTTAAT
7486518 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
7486532 TGATTTGTATAAGT
1 TGATTTGTAAAAGA
7486546 TGATTTGT
1 TGATTTGT
7486554 GTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:7486676 original size:19 final size:19
Alignment explanation
Indices: 7486660--7486775 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
7486650 AAAAATGACT
7486660 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7486679 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7486698 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7486712 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7486731 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
7486751 ATCGCAA--CGAAA-G--A
1 ATCGCAATGCGAAATGAAA
7486765 ATCGCAATGCG
1 ATCGCAATGCG
7486776 TTTATAATTT
Statistics
Matches: 85, Mismatches: 4, Indels: 19
0.79 0.04 0.18
Matches are distributed among these distances:
14 18 0.21
15 1 0.01
16 5 0.06
17 6 0.07
18 2 0.02
19 37 0.44
20 16 0.19
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7486789 original size:53 final size:53
Alignment explanation
Indices: 7486660--7486775 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
7486650 AAAAATGACT
* *
7486660 ATCGCAATGCGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
7486712 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
7486765 ATCGCAATGCG
1 ATCGCAATGCG
7486776 TTTATAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 28 0.46
53 33 0.54
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAAAGA
Found at i:7486819 original size:33 final size:33
Alignment explanation
Indices: 7486782--7486935 Score: 134
Period size: 33 Copynumber: 4.5 Consensus size: 33
7486772 TGCGTTTATA
7486782 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
7486815 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
7486855 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
7486886 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
7486919 ATTTCCGCATTGAGATT
1 ATTT-CGCATTGCGATT
7486936 TTCATTTCGC
Statistics
Matches: 96, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 40 0.42
34 11 0.11
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:7486828 original size:19 final size:19
Alignment explanation
Indices: 7486804--7487021 Score: 233
Period size: 19 Copynumber: 12.4 Consensus size: 19
7486794 GATTCTCTCG
7486804 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7486823 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7486842 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7486856 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7486875 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7486894 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
7486908 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
7486928 TTGAGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7486947 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
7486961 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
7486981 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
7486995 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7487014 TTGCGATT
1 TTGCGATT
7487022 CTCTCGTTGC
Statistics
Matches: 167, Mismatches: 10, Indels: 44
0.76 0.05 0.20
Matches are distributed among these distances:
14 29 0.17
16 23 0.14
17 18 0.11
18 5 0.03
19 66 0.40
20 26 0.16
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7486839 original size:52 final size:53
Alignment explanation
Indices: 7486782--7486993 Score: 383
Period size: 52 Copynumber: 4.0 Consensus size: 53
7486772 TGCGTTTATA
*
7486782 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
*
7486834 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
*
7486886 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGAGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
7486939 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
7486992 AT
1 AT
7486994 GTTGGGATTT
Statistics
Matches: 156, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
52 88 0.56
53 68 0.44
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (53 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
Found at i:7487013 original size:67 final size:67
Alignment explanation
Indices: 7486823--7487054 Score: 226
Period size: 67 Copynumber: 3.4 Consensus size: 67
7486813 TCATTTCGCA
* *
7486823 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTT-T
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGAGATTTTCATTTCGCATTGCGATTTCT
*
7486885 CA
66 CG
* *
7486887 TTTCGCA-TTGCGATTATCTCG--TTGCGATTTTCATTTCCGCATTGAGATTTTCATTTCGCATT
1 TTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCA--T-CG--TTGAGATTTTCATTTCGCATT
7486949 GCGATTATCTCG
57 GCGATT-TCTCG
*
7486961 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGAGATTTTCATTTCGCATTGCGATT-TC
7487025 TCG
65 TCG
* * **
7487028 TTGCGATTGTAATTTCCGTGTTGCGAT
1 TTGCGATTTTCATTTCCGCATTGCGAT
7487055 AGTCAAATGC
Statistics
Matches: 139, Mismatches: 13, Indels: 29
0.77 0.07 0.16
Matches are distributed among these distances:
64 7 0.05
65 4 0.03
66 11 0.08
67 54 0.39
68 2 0.01
69 2 0.01
70 2 0.01
71 3 0.02
72 28 0.20
73 17 0.12
74 9 0.06
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (67 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTTCATCGTTGAGATTTTCATTTCGCATTGCGATTTCT
CG
Found at i:7487043 original size:33 final size:33
Alignment explanation
Indices: 7486823--7487035 Score: 211
Period size: 33 Copynumber: 6.2 Consensus size: 33
7486813 TCATTTCGCA
7486823 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
7486856 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
7486892 CATTGCGATTATCTCGTTGCG-ATTTTC-ATT-TC-CG
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
* *
7486926 CATTGAGATTTTCATTTCGCATTGCGATTATCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
7486961 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
7486995 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
7487028 TTGCGATT
1 TTGCGATT
7487036 GTAATTTCCG
Statistics
Matches: 151, Mismatches: 14, Indels: 30
0.77 0.07 0.15
Matches are distributed among these distances:
32 10 0.07
33 66 0.44
34 42 0.28
35 7 0.05
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:7489333 original size:12 final size:12
Alignment explanation
Indices: 7489316--7489340 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7489306 TCTTCGGGGA
7489316 CTTTTTCTTCTT
1 CTTTTTCTTCTT
7489328 CTTTTTCTTCTT
1 CTTTTTCTTCTT
7489340 C
1 C
7489341 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:7489549 original size:24 final size:24
Alignment explanation
Indices: 7489515--7489561 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7489505 CTGAAACATC
7489515 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
7489539 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
7489562 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:7490271 original size:20 final size:20
Alignment explanation
Indices: 7490243--7490472 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
7490233 AAATTTCAGT
* * *
7490243 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
7490263 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
7490283 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
7490303 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
7490323 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
7490343 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
7490363 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
7490383 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
7490403 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
7490423 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
7490443 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
7490463 GTTGCGATTT
1 GTTGCGATTT
7490473 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:7490489 original size:21 final size:21
Alignment explanation
Indices: 7490459--7490541 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
7490449 ATTTTCATAT
*
7490459 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
7490480 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
7490501 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
7490522 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
7490542 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:7490532 original size:42 final size:43
Alignment explanation
Indices: 7490439--7490537 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
7490429 ATTTATGTGT
* *
7490439 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
7490480 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
7490522 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
7490538 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:7490933 original size:31 final size:31
Alignment explanation
Indices: 7490897--7490955 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
7490887 AACTTAAAAG
* *
7490897 AGTTTTGCAATTCTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
7490928 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
7490956 CTATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:7491004 original size:22 final size:22
Alignment explanation
Indices: 7490976--7491122 Score: 181
Period size: 22 Copynumber: 6.7 Consensus size: 22
7490966 ACAATAATAA
*
7490976 ATATTTTAAAATAAATCAACCC
1 ATATTTTAAAATAAATCAATCC
*
7490998 ATATTTTAAAATAAATCAATCT
1 ATATTTTAAAATAAATCAATCC
* *
7491020 ATATTTTAAAATAAA--ATTTTC
1 ATATTTTAAAATAAATCA-ATCC
*
7491041 ATATTTTAAAATAAATAAATCC
1 ATATTTTAAAATAAATCAATCC
*** *
7491063 ATATTTTAAAATAAATTTTTCT
1 ATATTTTAAAATAAATCAATCC
*
7491085 ATATTTTAAAATAAATCAATCT
1 ATATTTTAAAATAAATCAATCC
7491107 ATATTTTAAAATAAAT
1 ATATTTTAAAATAAAT
7491123 TTTAAAATAG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.01
21 16 0.15
22 90 0.83
23 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:7491045 original size:65 final size:66
Alignment explanation
Indices: 7490976--7491122 Score: 208
Period size: 65 Copynumber: 2.2 Consensus size: 66
7490966 ACAATAATAA
* * *
7490976 ATATTTTAAAATAAATCAACCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAA--ATTT
1 ATATTTTAAAATAAATAAACCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATC
7491039 T
66 T
* ***
7491040 CATATTTTAAAATAAATAAATCCATATTTTAAAATAAATTTTTCTATATTTTAAAATAAATCAAT
1 -ATATTTTAAAATAAATAAACCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAAT
7491105 CT
65 CT
7491107 ATATTTTAAAATAAAT
1 ATATTTTAAAATAAAT
7491123 TTTAAAATAG
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
65 54 0.74
66 16 0.22
67 3 0.04
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (66 bp):
ATATTTTAAAATAAATAAACCCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATC
T
Found at i:7491111 original size:44 final size:43
Alignment explanation
Indices: 7490997--7491125 Score: 222
Period size: 43 Copynumber: 3.0 Consensus size: 43
7490987 TAAATCAACC
*
7490997 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAAATTTT
1 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTT
* *
7491040 CATATTTTAAAATAAATAAATCCATATTTTAAAATAAATTTTT
1 CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTT
7491083 CTATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTT
1 C-ATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTT
7491126 AAAATAGATT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 41 0.51
44 39 0.49
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (43 bp):
CATATTTTAAAATAAATCAATCTATATTTTAAAATAAATTTTT
Found at i:7494271 original size:19 final size:19
Alignment explanation
Indices: 7494247--7494301 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
7494237 GTAATTAAAG
7494247 TAGAAA-AAATAGAAATTAT
1 TAGAAAGAAATA-AAATTAT
* *
7494266 TAGAAAGATATAAAATAAT
1 TAGAAAGAAATAAAATTAT
*
7494285 T-GAAATAAATAAAATTA
1 TAGAAAGAAATAAAATTA
7494302 AAAATATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 13 0.43
19 13 0.43
20 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (19 bp):
TAGAAAGAAATAAAATTAT
Done.