Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 152 of 195
Found at i:25476496 original size:26 final size:25
Alignment explanation
Indices: 25476448--25476500 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
25476438 ATAAATTTAA
*
25476448 AAAAAATTTTCATCTGAAGATTTCTT
1 AAAAAATTTTCATCTGAAAATTT-TT
*
25476474 AAAAAATTTATCAT-TTAAAATTTTT
1 AAAAAATTT-TCATCTGAAAATTTTT
25476499 AA
1 AA
25476501 GATTTTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.17
26 16 0.67
27 4 0.17
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (25 bp):
AAAAAATTTTCATCTGAAAATTTTT
Found at i:25476657 original size:28 final size:28
Alignment explanation
Indices: 25476626--25476679 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
25476616 TATTTTAGTT
*
25476626 AAATTTAAAAAAAAAATCTCTCATTTAC
1 AAATTTAAAAAAAAAATCACTCATTTAC
**
25476654 AAATTTCTAAAAAAAATCACTCATTT
1 AAATTTAAAAAAAAAATCACTCATTT
25476680 GTGATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATTTAAAAAAAAAATCACTCATTTAC
Found at i:25478767 original size:23 final size:23
Alignment explanation
Indices: 25478741--25478787 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25478731 TTTCATATCT
* * *
25478741 AAATTCAAAGGTTCTCATTCAAA
1 AAATTCAAAAGTTCACATCCAAA
*
25478764 AAATTTAAAAGTTCACATCCAAA
1 AAATTCAAAAGTTCACATCCAAA
25478787 A
1 A
25478788 TTTTAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (23 bp):
AAATTCAAAAGTTCACATCCAAA
Found at i:25478844 original size:79 final size:79
Alignment explanation
Indices: 25478737--25478896 Score: 232
Period size: 79 Copynumber: 2.0 Consensus size: 79
25478727 AGAGTTTCAT
* * *
25478737 ATCTAAATTCAAAGGTTCTCATTCAAAAAATTTAA-AAGTTCACATCCAAAATTTTAAAACATGT
1 ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAA-TTCACATCCAAAATTTCAAAACATGT
25478801 CATTTGAATTCAAAG
65 CATTTGAATTCAAAG
* * * *
25478816 ATCTAAATTCAAAGATTCTTATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAGCTTTTC
1 ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAACATGTC
*
25478881 ATTTGAGTTCAAAG
66 ATTTGAATTCAAAG
25478895 AT
1 AT
25478897 TCTCATTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 70 0.97
80 2 0.03
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.34
Consensus pattern (79 bp):
ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAACATGTC
ATTTGAATTCAAAG
Found at i:25478933 original size:65 final size:64
Alignment explanation
Indices: 25478823--25478947 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 64
25478813 AAGATCTAAA
* *
25478823 TTCAAAGATTCTTATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAGCTTTTCATTTGAG
1 TTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAA-TTCAAAGCTTCTCATTTGAG
* * * * * *
25478888 TTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCACAT-CTAAATTCAAAGGTTCTCATT
1 TTCAAAGATTCTCATTAAAAAAATTTAAGA-ATTCACATCCAAAATTCAAAGCTTCTCATT
25478948 CAAAAACTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
64 14 0.27
65 30 0.59
66 7 0.14
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (64 bp):
TTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTCAAAGCTTCTCATTTGAG
Found at i:25478953 original size:109 final size:109
Alignment explanation
Indices: 25478816--25479015 Score: 292
Period size: 109 Copynumber: 1.8 Consensus size: 109
25478806 GAATTCAAAG
* * *
25478816 ATCTAAATTCAAAGATTCTTATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAGCTTTTC
1 ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAACTTCTC
25478881 ATTTGAGTTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCAC
66 ATTTGAGTTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCAC
* * * * ** *
25478925 ATCTAAATTCAAAGGTTCTCATTCAAAAACTTTAGGGGTTCATATCCAAAATTTCAAAACTTCTC
1 ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAACTTCTC
* *
25478990 TTTTGAGTTCAAATATTCTCATTTAA
66 ATTTGAGTTCAAAGATTCTCATTTAA
25479016 AACTCCTTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (109 bp):
ATCTAAATTCAAAGATTCTCATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAACTTCTC
ATTTGAGTTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCAC
Found at i:25478977 original size:44 final size:45
Alignment explanation
Indices: 25478888--25478982 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 45
25478878 TTCATTTGAG
* * * *
25478888 TTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCACATCTAAA-
1 TTCAAAGATTCTCATTCAACAAACTTTAGAGGTTCACATCAAAAT
* * *
25478932 TTCAAAGGTTCTCATTCAA-AAACTTTAGGGGTTCATATCCAAAAT
1 TTCAAAGATTCTCATTCAACAAACTTTAGAGGTTCACAT-CAAAAT
25478977 TTCAAA
1 TTCAAA
25478983 ACTTCTCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 15 0.36
44 21 0.50
45 6 0.14
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (45 bp):
TTCAAAGATTCTCATTCAACAAACTTTAGAGGTTCACATCAAAAT
Found at i:25479058 original size:21 final size:21
Alignment explanation
Indices: 25478998--25479074 Score: 84
Period size: 21 Copynumber: 3.5 Consensus size: 21
25478988 TCTTTTGAGT
*
25478998 TCAAATATTCTCATTTAAAAC
1 TCAAAAATTCTCATTTAAAAC
* *
25479019 TCCTTAAAGATTCTTATTTAAAAC
1 T-C--AAAAATTCTCATTTAAAAC
25479043 TCAAAAATTCTCATTTAAAAC
1 TCAAAAATTCTCATTTAAAAC
25479064 T-AAAAGATTCT
1 TCAAAA-ATTCT
25479075 TATAATTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.08
21 24 0.50
22 1 0.02
23 1 0.02
24 18 0.38
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TCAAAAATTCTCATTTAAAAC
Found at i:25479064 original size:109 final size:109
Alignment explanation
Indices: 25478816--25479062 Score: 253
Period size: 109 Copynumber: 2.3 Consensus size: 109
25478806 GAATTCAAAG
* * * * * * ** * *
25478816 ATCTAAATTCAAAGATTCTTATTAAAAAAATTTAAGAATTCACATCCAAAATTTCAAAGCTTTTC
1 ATCTAAACTCAAAAATTCTCATTCAAAAACTTTAGGGGTTCACATCCAAAATTTCAAAACTTCTC
* * *
25478881 ATTTGAGTTCAAAGATTCTCATTTAACAAATTTTAGAGTTTCAC
66 ATTTGAGTTCAAAGATTCTCATTTAACAAATCTTAAAGATTCAC
* ** *
25478925 ATCTAAATTCAAAGGTTCTCATTCAAAAACTTTAGGGGTTCATATCCAAAATTTCAAAACTTCTC
1 ATCTAAACTCAAAAATTCTCATTCAAAAACTTTAGGGGTTCACATCCAAAATTTCAAAACTTCTC
* * * **
25478990 TTTTGAGTTCAAATATTCTCATTTAA-AACTCCTTAAAGATTCTT
66 ATTTGAGTTCAAAGATTCTCATTTAACAAAT-CTTAAAGATTCAC
* *
25479034 ATTTAAAACTCAAAAATTCTCATTTAAAA
1 ATCT-AAACTCAAAAATTCTCATTCAAAA
25479063 CTAAAAGATT
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
108 3 0.03
109 90 0.80
110 20 0.18
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (109 bp):
ATCTAAACTCAAAAATTCTCATTCAAAAACTTTAGGGGTTCACATCCAAAATTTCAAAACTTCTC
ATTTGAGTTCAAAGATTCTCATTTAACAAATCTTAAAGATTCAC
Found at i:25480338 original size:8 final size:8
Alignment explanation
Indices: 25480325--25480378 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
25480315 TTTTTCCACA
25480325 TTTTTCAT
1 TTTTTCAT
25480333 TTTTTCACT
1 TTTTTCA-T
*
25480342 TCTTTCAT
1 TTTTTCAT
*
25480350 TTTTTTA-
1 TTTTTCAT
25480357 TTTTTCATT
1 TTTTTCA-T
25480366 TTTTTCAT
1 TTTTTCAT
25480374 TTTTT
1 TTTTT
25480379 TTATCTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 6 0.15
8 19 0.49
9 14 0.36
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:25480338 original size:18 final size:17
Alignment explanation
Indices: 25480309--25480369 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
25480299 TTAAGTCTTC
* *
25480309 CTTTTATTTTTCCACATT
1 CTTTCATTTTTTCAC-TT
25480327 -TTTCATTTTTTCACTT
1 CTTTCATTTTTTCACTT
*
25480343 CTTTCATTTTTTTA-TT
1 CTTTCATTTTTTCACTT
25480359 -TTTCATTTTTT
1 CTTTCATTTTTT
25480370 TCATTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.28
16 4 0.10
17 24 0.62
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTCATTTTTTCACTT
Found at i:25480378 original size:24 final size:24
Alignment explanation
Indices: 25480333--25480379 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25480323 CATTTTTCAT
25480333 TTTTTCACTTCTTTCATTTTTTTA
1 TTTTTCACTTCTTTCATTTTTTTA
* *
25480357 TTTTTCATTTTTTTCATTTTTTT
1 TTTTTCACTTCTTTCATTTTTTT
25480380 TATCTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTCACTTCTTTCATTTTTTTA
Found at i:25480380 original size:10 final size:9
Alignment explanation
Indices: 25480325--25480379 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
25480315 TTTTTCCACA
25480325 TTTTTCA-T
1 TTTTTCATT
*
25480333 TTTTTCACT
1 TTTTTCATT
*
25480342 TCTTTCATT
1 TTTTTCATT
25480351 TTTTT-A--
1 TTTTTCATT
25480357 TTTTTCATT
1 TTTTTCATT
25480366 TTTTTCATT
1 TTTTTCATT
25480375 TTTTT
1 TTTTT
25480380 TATCTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 5 0.12
7 1 0.03
8 8 0.20
9 26 0.65
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:25481551 original size:21 final size:21
Alignment explanation
Indices: 25481527--25481566 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25481517 TTTCAATAGA
*
25481527 ATAATCTACATTTC-CATTATG
1 ATAATC-ACATGTCGCATTATG
25481548 ATAATCACATGTCGCATTA
1 ATAATCACATGTCGCATTA
25481567 GCATCATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAATCACATGTCGCATTATG
Found at i:25484661 original size:163 final size:159
Alignment explanation
Indices: 25484419--25484730 Score: 432
Period size: 163 Copynumber: 1.9 Consensus size: 159
25484409 ACGATTTGCA
* **
25484419 ATTACTAAAAATTTTATCATTGAAATTTATTTTATTTTTTTAATTTTTATTTCTAAATTTTTCAC
1 ATTACTAAAAATTTCATCATCAAAATTTATTTTATTTTTTTAATTTTTATTTCTAAATTTTTCAC
*
25484484 TATTTAGGTCTATTTAGAAA-TTTTCTTTTTGATTTCCAAATTTTCTATCATTT-GAGCCAATTT
66 CATTTAGGTCTATTTA-AAATTTTTCTTTTTGATTTCCAAATTTTCTATCATTTGGA-CCAATTT
* *
25484547 AGAATTGTTTTTTGTTTTTTTAACCATTTGTG
129 AGAAAT-TTTTTTATTTTTTTAACCATTTGTG
* *
25484579 ATTACTAAAAATTTCATTATCAAAATTTATTTTATTTTATTTTTTATTTTTATTTCTAAATTTTT
1 ATTACTAAAAATTTCATCATCAAAATTTATTTTA--TT-TTTTTAATTTTTATTTCTAAATTTTT
* * * *
25484644 CACCATTT-GTTTCTATTTAAAATTTTTCTTTTTGATTTCTAAATTTTTTATCTTTTGGACCAAT
63 CACCATTTAG-GTCTATTTAAAATTTTTCTTTTTGATTTCCAAATTTTCTATCATTTGGACCAAT
25484708 TTAGAAATTTTTTTATTTTTTTA
127 TTAGAAATTTTTTTATTTTTTTA
25484731 TTTTTTAAAA
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
160 30 0.22
162 20 0.15
163 82 0.61
164 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.05, T:0.58
Consensus pattern (159 bp):
ATTACTAAAAATTTCATCATCAAAATTTATTTTATTTTTTTAATTTTTATTTCTAAATTTTTCAC
CATTTAGGTCTATTTAAAATTTTTCTTTTTGATTTCCAAATTTTCTATCATTTGGACCAATTTAG
AAATTTTTTTATTTTTTTAACCATTTGTG
Found at i:25484843 original size:27 final size:28
Alignment explanation
Indices: 25484800--25484853 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
25484790 TGAGACAAAT
*
25484800 TTAAAAAATTCTTTCATTTAAAAATTTC
1 TTAAAAAATTCTATCATTTAAAAATTTC
*
25484828 TTAAAAAATT-TATCATTTGAAAATTT
1 TTAAAAAATTCTATCATTTAAAAATTT
25484854 TAAGATTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
TTAAAAAATTCTATCATTTAAAAATTTC
Found at i:25486297 original size:4 final size:4
Alignment explanation
Indices: 25486288--25486335 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
25486278 ACCACAAAAT
* *
25486288 ATAA ATAA ATAA A-AA ATAA ATAA GTAA ATAA GATAA GTAA A-AA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA
25486335 A
1 A
25486336 ATGAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 6 0.16
4 27 0.73
5 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:25487519 original size:28 final size:27
Alignment explanation
Indices: 25487483--25487553 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
25487473 ATTTAATTTA
*
25487483 ATTTATATATT-ATATTAATAAATTATT
1 ATTTATATATTAAT-TTAATAAAATATT
25487510 ATTTAATATATTAATTTAATAAAATATT
1 ATTT-ATATATTAATTTAATAAAATATT
25487538 ATATT-TATATATAATT
1 AT-TTATATAT-TAATT
25487554 ACGATGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 9 0.23
28 26 0.67
29 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATTTATATATTAATTTAATAAAATATT
Found at i:25487526 original size:13 final size:13
Alignment explanation
Indices: 25487480--25487530 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
25487470 TTTATTTAAT
25487480 TTAATTT-ATATA
1 TTAATTTAATATA
*
25487492 TT-ATATTAATAAA
1 TTAAT-TTAATATA
25487505 TTATTATTTAATATA
1 TTA--ATTTAATATA
25487520 TTAATTTAATA
1 TTAATTTAATA
25487531 AAATATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 2 0.06
12 4 0.12
13 14 0.44
15 10 0.31
16 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTTAATATA
Found at i:25487541 original size:23 final size:22
Alignment explanation
Indices: 25487471--25487545 Score: 55
Period size: 28 Copynumber: 3.2 Consensus size: 22
25487461 ATTTTATTAT
**
25487471 TTATTTAATTTAAT-TTATATA
1 TTATTTAATAAAATATTATATA
25487492 TTATATTAATAAATTATTATTTAATATA
1 TTAT-TTAATAAA--A-TA-TT-ATATA
25487520 TTAATTTAATAAAATATTATAT-
1 TT-ATTTAATAAAATATTATATA
25487542 TTAT
1 TTAT
25487546 ATATAATTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
21 6 0.14
22 8 0.18
23 4 0.09
24 3 0.07
25 3 0.07
26 1 0.02
27 2 0.05
28 15 0.34
29 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTTAATAAAATATTATATA
Found at i:25488117 original size:2 final size:2
Alignment explanation
Indices: 25488112--25488139 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25488102 ATATATATAT
25488112 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25488140 GATAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25490747 original size:13 final size:14
Alignment explanation
Indices: 25490729--25490757 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25490719 TTTGCCTAAA
25490729 TAAAATA-TATAAT
1 TAAAATATTATAAT
25490742 TAAAATATTATAAT
1 TAAAATATTATAAT
25490756 TA
1 TA
25490758 GATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:25490800 original size:7 final size:6
Alignment explanation
Indices: 25490780--25490821 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
25490770 TATGTAGATC
*
25490780 TTTATT TTTATT TTTATT TTTAATT TTT-TT TTAATT TTTATT
1 TTTATT TTTATT TTTATT TTT-ATT TTTATT TTTATT TTTATT
25490822 ATATAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:25490817 original size:10 final size:11
Alignment explanation
Indices: 25490784--25490818 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
25490774 TAGATCTTTA
*
25490784 TTTTTATTTTT
1 TTTTTAATTTT
25490795 ATTTTTAATTTT
1 -TTTTTAATTTT
25490807 TTTTTAATTTT
1 TTTTTAATTTT
25490818 T
1 T
25490819 ATTATATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:25491514 original size:22 final size:22
Alignment explanation
Indices: 25491489--25491556 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
25491479 TGTCAAATAA
25491489 TAATTTATTAATAAATAAATTT
1 TAATTTATTAATAAATAAATTT
* *
25491511 TAA-TAATATATTAAATAATATTT
1 TAATTTAT-TAATAAATAA-ATTT
*
25491534 T-ATTATATTAAATTAATAAATTT
1 TAATT-TATT-AATAAATAAATTT
25491557 ATTTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
21 3 0.08
22 13 0.36
23 11 0.31
24 9 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTATTAATAAATAAATTT
Found at i:25491530 original size:25 final size:25
Alignment explanation
Indices: 25491486--25491556 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
25491476 TTATGTCAAA
*
25491486 TAATAATTTATT-AATAAATAAATTT
1 TAATAATATATTAAAT-AATAAATTT
25491511 TAATAATATATTAAATAAT--ATTT
1 TAATAATATATTAAATAATAAATTT
25491534 T-AT--TATATTAAATTAATAAATTT
1 TAATAATATATTAAA-TAATAAATTT
25491557 ATTTTATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
20 9 0.22
21 4 0.10
22 2 0.05
23 9 0.22
25 14 0.34
26 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATAATATATTAAATAATAAATTT
Found at i:25492372 original size:20 final size:19
Alignment explanation
Indices: 25492336--25492374 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
25492326 TGATTTTTTA
*
25492336 TTTATTTTACATCAAAATT
1 TTTATTTTACATAAAAATT
*
25492355 TTTATTTTTATATAAAAATT
1 TTTA-TTTTACATAAAAATT
25492375 ATTAGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATTTTACATAAAAATT
Found at i:25493596 original size:39 final size:41
Alignment explanation
Indices: 25493517--25493597 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 41
25493507 CAATTTTGTG
* **
25493517 AGTATTATTATTTTTATGACATATTCTTTTATTTTTTATTT
1 AGTATTATTATTTTTATGAAATATTCTTTTATTGATTATTT
*
25493558 AGTATTA-TATTTTTGT-AAATATAT-TTTTATTGATTATTT
1 AGTATTATTATTTTTATGAAATAT-TCTTTTATTGATTATTT
25493597 A
1 A
25493598 AGTTAGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 19 0.54
40 9 0.26
41 7 0.20
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.63
Consensus pattern (41 bp):
AGTATTATTATTTTTATGAAATATTCTTTTATTGATTATTT
Found at i:25496475 original size:18 final size:17
Alignment explanation
Indices: 25496445--25496478 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25496435 TTATAGTCAT
*
25496445 TAAAAAAATAATAAAAA
1 TAAAAAAAAAATAAAAA
25496462 TAAAAAATAAAATAAAA
1 TAAAAAA-AAAATAAAA
25496479 TATTAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAAAAAATAAAAA
Found at i:25496479 original size:17 final size:16
Alignment explanation
Indices: 25496447--25496480 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25496437 ATAGTCATTA
*
25496447 AAAAAATAATAAAAAT
1 AAAAAATAAAAAAAAT
25496463 AAAAAATAAAATAAAAT
1 AAAAAATAAAA-AAAAT
25496480 A
1 A
25496481 TTAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:25496502 original size:38 final size:37
Alignment explanation
Indices: 25496454--25496534 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
25496444 TTAAAAAAAT
*
25496454 AATAAAAATAAAAAATAAA-ATAAAATATTAAATTATTA
1 AATAAAAAT-AAAAATAAATATAAAAAATT-AATTATTA
* *
25496492 AATAATAATAATAATAAATATAAAAAATTAATTATTA
1 AATAAAAATAAAAATAAATATAAAAAATTAATTATTA
25496529 AA-AAAA
1 AATAAAA
25496535 GGGCTTGTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 3 0.08
37 18 0.47
38 17 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (37 bp):
AATAAAAATAAAAATAAATATAAAAAATTAATTATTA
Found at i:25497573 original size:17 final size:17
Alignment explanation
Indices: 25497531--25497580 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
25497521 TAAACTAGAT
25497531 AGAAGCAAAAATGAAAA
1 AGAAGCAAAAATGAAAA
*
25497548 ACCAA-CAAAAA-GAACAA
1 A-GAAGCAAAAATGAA-AA
25497565 AGAAGCAAAAAT-AAAA
1 AGAAGCAAAAATGAAAA
25497581 TACCAGTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
16 7 0.26
17 18 0.67
18 2 0.07
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.04
Consensus pattern (17 bp):
AGAAGCAAAAATGAAAA
Found at i:25498979 original size:14 final size:14
Alignment explanation
Indices: 25498960--25499007 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
25498950 AGAAATTATT
25498960 AAATAATAAAAATA
1 AAATAATAAAAATA
25498974 AAATAATAAAAGAT-
1 AAATAATAAAA-ATA
25498988 AAATAAATAATAAATA
1 AAAT-AATAA-AAATA
25499004 AAAT
1 AAAT
25499008 TTTTTAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 15 0.50
15 9 0.30
16 6 0.20
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AAATAATAAAAATA
Found at i:25498996 original size:15 final size:14
Alignment explanation
Indices: 25498959--25499005 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
25498949 GAGAAATTAT
25498959 TAAAT-AATAAAAA
1 TAAATAAATAAAAA
25498972 TAAA-ATAATAAAAGA
1 TAAATA-AATAAAA-A
25498987 TAAATAAATAATAAA
1 TAAATAAATAA-AAA
25499002 TAAA
1 TAAA
25499006 ATTTTTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 15 0.52
16 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAATAAATAAAAA
Found at i:25499049 original size:10 final size:11
Alignment explanation
Indices: 25499022--25499047 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25499012 TAACGAAAAG
25499022 AAAAATATATA
1 AAAAATATATA
25499033 AAAAATATATA
1 AAAAATATATA
25499044 AAAA
1 AAAA
25499048 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATATATA
Found at i:25499228 original size:37 final size:38
Alignment explanation
Indices: 25499148--25499234 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
25499138 CCTTAAAATG
*
25499148 AAACCCTAAACCCAAGGGGAAACCTTAAACCCTAGGTA
1 AAACCCTAAACCCAAGGGGAAACCTTAAACCCTAGATA
* * *
25499186 AAACCCTAAACCCAAGTGGAATCC-TAAATCCTAGATA
1 AAACCCTAAACCCAAGGGGAAACCTTAAACCCTAGATA
25499223 AAACCCTAAACC
1 AAACCCTAAACC
25499235 TTAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
37 23 0.51
38 22 0.49
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.15
Consensus pattern (38 bp):
AAACCCTAAACCCAAGGGGAAACCTTAAACCCTAGATA
Found at i:25499232 original size:19 final size:19
Alignment explanation
Indices: 25499148--25499290 Score: 83
Period size: 19 Copynumber: 7.5 Consensus size: 19
25499138 CCTTAAAATG
* ***
25499148 AAACCCTAAACCCAAGGGG
1 AAACCCTAAACCCTAGATA
* *
25499167 AAACCTTAAACCCTAGGTA
1 AAACCCTAAACCCTAGATA
* *
25499186 AAACCCTAAACCCAAG-TG
1 AAACCCTAAACCCTAGATA
* * *
25499204 GAATCCTAAATCCTAGATA
1 AAACCCTAAACCCTAGATA
* *
25499223 AAACCCTAAACCTTAAATA
1 AAACCCTAAACCCTAGATA
** *
25499242 AAACTTTAAACCCTA-AGTG
1 AAACCCTAAACCCTAGA-TA
* * *
25499261 AAACCTTAAAACCCTAGTTG
1 AAACCCT-AAACCCTAGATA
25499281 AAACCCTAAA
1 AAACCCTAAA
25499291 TAAAATCTTG
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.15
19 66 0.69
20 16 0.17
ACGTcount: A:0.45, C:0.27, G:0.10, T:0.19
Consensus pattern (19 bp):
AAACCCTAAACCCTAGATA
Found at i:25499274 original size:20 final size:20
Alignment explanation
Indices: 25499249--25499290 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25499239 ATAAAACTTT
*
25499249 AAACCCTAAG-TGAAACCTTA
1 AAACCCT-AGTTGAAACCCTA
25499269 AAACCCTAGTTGAAACCCTA
1 AAACCCTAGTTGAAACCCTA
25499289 AA
1 AA
25499291 TAAAATCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (20 bp):
AAACCCTAGTTGAAACCCTA
Found at i:25503979 original size:28 final size:28
Alignment explanation
Indices: 25503938--25504006 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
25503928 TTGACTGTTG
25503938 GGGGATTCTGGGA-CTAGGTGCAAGGCTGA
1 GGGG-TTCTGGGACCTA-GTGCAAGGCTGA
* * *
25503967 GGGGTTTTGGGACCTAGTGCAAGGTTGG
1 GGGGTTCTGGGACCTAGTGCAAGGCTGA
25503995 GGGGTTCTGGGA
1 GGGGTTCTGGGA
25504007 TTTGGTGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.16, C:0.12, G:0.48, T:0.25
Consensus pattern (28 bp):
GGGGTTCTGGGACCTAGTGCAAGGCTGA
Found at i:25504543 original size:8 final size:8
Alignment explanation
Indices: 25504532--25504562 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
25504522 TTTTTTAAAG
25504532 TTTTTTTA
1 TTTTTTTA
25504540 TTTTTTTA
1 TTTTTTTA
*
25504548 TTTTTTGA
1 TTTTTTTA
25504556 TTTTTTT
1 TTTTTTT
25504563 TTGTAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:25505022 original size:83 final size:82
Alignment explanation
Indices: 25504870--25505031 Score: 263
Period size: 83 Copynumber: 2.0 Consensus size: 82
25504860 TTATGCCCAG
* *
25504870 AGGTATTACAAATTTTAAAATCTTTGAATGCTTCTTGTATTAGAGGCATTGAAACTTTGAAATTT
1 AGGTATTACAAATTTTAAAATCTTTGAATGCTTCTCGTATTAGAGGCATTGAAACTTTGAAAATT
25504935 TAAAATATTTTGTCTGA
66 TAAAATATTTTGTCTGA
* *
25504952 AGGTTTTACAAATCTTTAAAATCTTTGAATGC-TCATCGTATTAGAGGTATTGAAACTTTGAAAA
1 AGGTATTACAAAT-TTTAAAATCTTTGAATGCTTC-TCGTATTAGAGGCATTGAAACTTTGAAAA
25505016 TTTAAAATATTTTGTC
64 TTTAAAATATTTTGTC
25505032 CAAAAGTCTT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
82 14 0.19
83 60 0.81
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (82 bp):
AGGTATTACAAATTTTAAAATCTTTGAATGCTTCTCGTATTAGAGGCATTGAAACTTTGAAAATT
TAAAATATTTTGTCTGA
Found at i:25505313 original size:22 final size:22
Alignment explanation
Indices: 25505278--25505358 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 22
25505268 TAAAATGTTT
* * *
25505278 TGCTCGGAGGTCTTATAGATTA
1 TGCTCGAAGATCTTAGAGATTA
25505300 TGCTCGAAGATCTTAGAGATTA
1 TGCTCGAAGATCTTAGAGATTA
* * *
25505322 TGC-CTAAAGGTTTTAGAGATTA
1 TGCTC-GAAGATCTTAGAGATTA
* *
25505344 TGCCCGGAGATCTTA
1 TGCTCGAAGATCTTA
25505359 TAAATTTCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 1 0.02
22 45 0.96
23 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (22 bp):
TGCTCGAAGATCTTAGAGATTA
Found at i:25505314 original size:104 final size:102
Alignment explanation
Indices: 25505090--25505314 Score: 283
Period size: 104 Copynumber: 2.2 Consensus size: 102
25505080 GATCTTAGAA
* * * * *
25505090 ATTATACTCGAAGGTCTTACAAATCTCAGTCTTTGAATGCTCCTTGTAGCAAAGGCATTGAAACT
1 ATTATGCTCGAAGGTCTTACAAATCTCAATCTTTAAATGCTCCTCGTAGCAAAGACATTGAAACT
25505155 TTAAAAATTTAAAAAGTTTTACCGAGAGGTCTTATAG
66 TTAAAAATTTAAAAAGTTTTACCGAGAGGTCTTATAG
* * * * *
25505192 ATTATGTTTGGAGGTCTTACAAATCTCAAAATTTTTAAATGCTCCTCGTAGCATAA-ATATTGAA
1 ATTATGCTCGAAGGTCTTACAAATCTC--AATCTTTAAATGCTCCTCGTAGCA-AAGACATTGAA
* *
25505256 ACTTTAAAAATTTAAAATGTTTTGCTCG-GAGGTCTTATAG
63 ACTTTAAAAATTTAAAAAGTTTTAC-CGAGAGGTCTTATAG
*
25505296 ATTATGCTCGAAGATCTTA
1 ATTATGCTCGAAGGTCTTA
25505315 GAGATTATGC
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
102 23 0.22
104 76 0.74
105 4 0.04
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (102 bp):
ATTATGCTCGAAGGTCTTACAAATCTCAATCTTTAAATGCTCCTCGTAGCAAAGACATTGAAACT
TTAAAAATTTAAAAAGTTTTACCGAGAGGTCTTATAG
Found at i:25505668 original size:21 final size:22
Alignment explanation
Indices: 25505643--25505699 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
25505633 CAACTAATTT
25505643 GGCTTGGGTGCCAGC-AATCTG
1 GGCTTGGGTGCCAGCTAATCTG
* * *
25505664 GGCTTAGATGCCACCTAATCTG
1 GGCTTGGGTGCCAGCTAATCTG
25505686 GGCTTGGGTGCCAG
1 GGCTTGGGTGCCAG
25505700 TTGATCTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.25
Consensus pattern (22 bp):
GGCTTGGGTGCCAGCTAATCTG
Found at i:25505729 original size:23 final size:23
Alignment explanation
Indices: 25505697--25505740 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25505687 GCTTGGGTGC
* *
25505697 CAGTTGATCTTAGCTTAAAGTAT
1 CAGTTAATCTAAGCTTAAAGTAT
25505720 CAGTTAATCTAAGCTTAAAGT
1 CAGTTAATCTAAGCTTAAAGT
25505741 GCCAACTAAT
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:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
CAGTTAATCTAAGCTTAAAGTAT
Found at i:25505750 original size:23 final size:22
Alignment explanation
Indices: 25505724--25505772 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25505714 AAGTATCAGT
25505724 TAATCTAAGCTTAAAGTGCCAAC
1 TAATCT-AGCTTAAAGTGCCAAC
* * *
25505747 TAATCTAGTTTTAGGTGCCAAC
1 TAATCTAGCTTAAAGTGCCAAC
25505769 TAAT
1 TAAT
25505773 ATGGGCTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (22 bp):
TAATCTAGCTTAAAGTGCCAAC
Found at i:25505782 original size:22 final size:22
Alignment explanation
Indices: 25505739--25505782 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25505729 TAAGCTTAAA
* **
25505739 GTGCCAACTAATCTAGTTTTAG
1 GTGCCAACTAATATAGGCTTAG
*
25505761 GTGCCAACTAATATGGGCTTAG
1 GTGCCAACTAATATAGGCTTAG
25505783 ATTTTATCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (22 bp):
GTGCCAACTAATATAGGCTTAG
Found at i:25506388 original size:15 final size:15
Alignment explanation
Indices: 25506368--25506399 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25506358 GTCTTTATGA
*
25506368 TGATGCACATGTAAT
1 TGATGCAAATGTAAT
25506383 TGATGCAAATGTAAT
1 TGATGCAAATGTAAT
25506398 TG
1 TG
25506400 TTTTTGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (15 bp):
TGATGCAAATGTAAT
Found at i:25507212 original size:29 final size:29
Alignment explanation
Indices: 25507176--25507241 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
25507166 TCATGTTCTT
25507176 GTATATATTCGTATTAGTCATGCCTATTC
1 GTATATATTCGTATTAGTCATGCCTATTC
* * * * * *
25507205 GTGTATATTTGTGTTTGTCATGTCTATTT
1 GTATATATTCGTATTAGTCATGCCTATTC
25507234 GTATATAT
1 GTATATAT
25507242 CCATATTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.52
Consensus pattern (29 bp):
GTATATATTCGTATTAGTCATGCCTATTC
Found at i:25508491 original size:152 final size:152
Alignment explanation
Indices: 25508335--25508684 Score: 376
Period size: 153 Copynumber: 2.3 Consensus size: 152
25508325 TTTATTTGGG
* * *
25508335 ATTCTTACTGATACTTCATTCATTTTTTACCTTAGGCTCTTATTTCTGAA-GAGCATGTTTTCAT
1 ATTCTAACTGATACTTCATTCACTTTTTACCTTAGGCTCTTATCTCT-AAGGAGCATG-TTTC-T
25508399 TTCTT-TGCTTTTTT-TTCTTT-T-TTTTTTTAATTT-TTTGTTTTAAACATTTAACTTCATCTT
63 TTCTTAT--TTTTTTGTT-TTTCTATTTTTTTAATTTCTTTGTTTTAAACATTTAACTTCATCTT
*
25508459 TGGCAAACTACTTTCTTGAATTTTTACA
125 TAGCAAACTACTTTCTTGAATTTTTACA
* * * *
25508487 ATTCTAACTG-TAACCTT-ATTCACTTTTTACCTCAGACTCTCATCTCTAAGGTGCATGTTTCTT
1 ATTCTAACTGAT-A-CTTCATTCACTTTTTACCTTAGGCTCTTATCTCTAAGGAGCATGTTTCTT
* ** * *
25508550 TGTTATTTTTTTGTTTTTGCTATTTTTTTCTTTTCTTTTTTTTAAACATTTGACTTCATCTTTAG
64 TCTTATTTTTTTGTTTTT-CTATTTTTTTAATTTCTTTGTTTTAAACATTTAACTTCATCTTTAG
* * **
25508615 TAAACTACTTTCTTGAGTTTTTGGA
128 CAAACTACTTTCTTGAATTTTTACA
* *
25508640 ATTCTAATTGAAACTTCATTCACTTTTTATCC-TAGGCTCTTATCT
1 ATTCTAACTGATACTTCATTCACTTTTTA-CCTTAGGCTCTTATCT
25508685 TTGAGGTGTA
Statistics
Matches: 164, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
149 9 0.05
150 7 0.04
151 9 0.05
152 54 0.33
153 83 0.51
154 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.09, T:0.54
Consensus pattern (152 bp):
ATTCTAACTGATACTTCATTCACTTTTTACCTTAGGCTCTTATCTCTAAGGAGCATGTTTCTTTC
TTATTTTTTTGTTTTTCTATTTTTTTAATTTCTTTGTTTTAAACATTTAACTTCATCTTTAGCAA
ACTACTTTCTTGAATTTTTACA
Found at i:25508573 original size:17 final size:17
Alignment explanation
Indices: 25508548--25508583 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25508538 TGCATGTTTC
* *
25508548 TTTGTTATTTTTTTGTT
1 TTTGCTATTTTTTTCTT
25508565 TTTGCTATTTTTTTCTT
1 TTTGCTATTTTTTTCTT
25508582 TT
1 TT
25508584 CTTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.81
Consensus pattern (17 bp):
TTTGCTATTTTTTTCTT
Found at i:25511842 original size:17 final size:16
Alignment explanation
Indices: 25511799--25511854 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
25511789 GAATCTCTAC
*
25511799 ATTTTT-TATTAGTTT
1 ATTTTTATATTAATTT
* *
25511814 AGTATTATTATTAAATTT
1 ATTTTTA-TATT-AATTT
*
25511832 ATTTTTATATTATTTT
1 ATTTTTATATTAATTT
25511848 ATTTTTA
1 ATTTTTA
25511855 AAGTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.12
16 11 0.34
17 8 0.25
18 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTTTATATTAATTT
Found at i:25512593 original size:24 final size:24
Alignment explanation
Indices: 25512561--25512614 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
25512551 TCGGTGAGAC
**
25512561 TTTTTTTTTAT-ATTCTGACTCTTT
1 TTTTTTTTTATGAAACTGAC-CTTT
25512585 TTTTTTTTTATGAAACTGACCTTT
1 TTTTTTTTTATGAAACTGACCTTT
25512609 TTTTTT
1 TTTTTT
25512615 CGTGCAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.15, C:0.11, G:0.06, T:0.69
Consensus pattern (24 bp):
TTTTTTTTTATGAAACTGACCTTT
Found at i:25512943 original size:21 final size:21
Alignment explanation
Indices: 25512917--25512956 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25512907 CCATCCTCGA
*
25512917 TTTTTTTCTGTTTTTTGTTCT
1 TTTTTTTCTATTTTTTGTTCT
*
25512938 TTTTTTTTTATTTTTTGTT
1 TTTTTTTCTATTTTTTGTT
25512957 TTGTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.85
Consensus pattern (21 bp):
TTTTTTTCTATTTTTTGTTCT
Found at i:25512965 original size:21 final size:21
Alignment explanation
Indices: 25512927--25512994 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
25512917 TTTTTTTCTG
* *
25512927 TTTTTTGTTCTTTTTTTTTTA
1 TTTTTTGTTCTTTATTTTGTA
25512948 TTTTTTGTT-TTGTATTTTGTA
1 TTTTTTGTTCTT-TATTTTGTA
* *
25512969 TTATTCTTGGTATTT-TTTTGTA
1 TT-TT-TTGTTCTTTATTTTGTA
25512991 TTTT
1 TTTT
25512995 GTATTTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 2 0.05
21 20 0.50
22 11 0.28
23 5 0.12
24 2 0.05
ACGTcount: A:0.09, C:0.03, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTTTTGTTCTTTATTTTGTA
Found at i:25512996 original size:7 final size:7
Alignment explanation
Indices: 25512984--25513027 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
25512974 CTTGGTATTT
25512984 TTTTGTA
1 TTTTGTA
25512991 TTTTGTA
1 TTTTGTA
25512998 TTTTGTA
1 TTTTGTA
* *
25513005 ATAT-TA
1 TTTTGTA
*
25513011 TTTCGTA
1 TTTTGTA
25513018 TTTTGTA
1 TTTTGTA
25513025 TTT
1 TTT
25513028 CTGGACGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 3 0.10
7 27 0.90
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (7 bp):
TTTTGTA
Found at i:25513280 original size:41 final size:42
Alignment explanation
Indices: 25513196--25513280 Score: 104
Period size: 41 Copynumber: 2.0 Consensus size: 42
25513186 GGCTCAACAA
* *
25513196 CTTTAAAAATCTCATCTTGGAAAAAGCTCCTCTCACTTAAGG
1 CTTTAAAAATCTCATCTTGGAAAAAGCTCATCTCACGTAAGG
*
25513238 CTTT-AAAATCTCATCTT-GAAAATGGCTCATCTCA-GTAGAGG
1 CTTTAAAAATCTCATCTTGGAAAA-AGCTCATCTCACGTA-AGG
25513279 CT
1 CT
25513281 CAACAACTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 7 0.18
41 27 0.71
42 4 0.11
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (42 bp):
CTTTAAAAATCTCATCTTGGAAAAAGCTCATCTCACGTAAGG
Found at i:25513320 original size:49 final size:49
Alignment explanation
Indices: 25513238--25514566 Score: 996
Period size: 49 Copynumber: 27.3 Consensus size: 49
25513228 TCACTTAAGG
* *
25513238 CTTTAAAATCTCATCTT-GAAAATG-GCTCATCTCAGTAGAGGCTCAACAA
1 CTTTAAAATCTCAT-TTGGAAAA-GAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25513287 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGTAGAGGCTCAATAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
*
25513336 CTTTAAAATCTCATTTGGAAAA-AGGCTTCTCTCAGCAGAGGCTCAACAA
1 CTTTAAAATCTCATTTGGAAAAGA-GCTCCTCTCAGCAGAGGCTCAACAA
* *
25513385 ATTTAAAATC-CATCTT-G-AAA-AGCTCCTCTCAGCAGAGGCTTAACAA
1 CTTTAAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25513431 CTTTAAAA--TC--TTGAAAAAG-GCTCCTCTCAGCAGAGGCTCAACGA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25513475 CTTTAAAA-ATCATCTTGGAAATG-GCTCCTCTCAGCAGAGGCTCAACAA
1 CTTTAAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * ** * * *
25513523 CTTTAAAA-ATC--TT-GAAAAAAGCTCATCTCAATAAAAGATCAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * **
25513568 CTTTAAAAATCTCATCT-GAAAA-AGCTCATTTCAATAGAGGCTCAACAA
1 CTTT-AAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * *
25513616 CTTTAAAATC-CATCTT----AAGGGCTCCTCTCAGCAGAGGCTCGATAA
1 CTTTAAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
25513661 CTTTAAAA-AT--TTTGAAAAAG-GCTCCTCTCAGCAGAGGCTTAACGA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * * *
25513706 CTTTAAAAAT-TTATCATGAAAAAG-GCTCCTCTCAGCAAAAGCTCAACAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * * *
25513755 CTTCAAAATCTCATAT-GAAAA-AGTTCCTCTCAACAGAGGCTCAATAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* ** * *
25513802 CTTTAAAATTTTTTTTTGG-AAAGGGCTCCTCTCAGCAGAGGCTTAACAA
1 CTTTAAAA-TCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
25513851 CTTTAAAAATCTCATCTT-GAAAAAAGCTCTTATTAGCAGAGGCTCAACAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
*
25513901 CTTTAAAATCTCATTTTG-AAA-AGCTCCTCTCAGCAGAGGCTCAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25513948 CTTTAAAAATCTCATATTGAAAAAG-GCTCCTCTCAGCGGAGGCTCAACAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
** * *
25513998 CTTTCAACAACTTAAAAATCTTGTTTGGAAAAGGGCTCCTCTCAGCAGAGGTTCAACAA
1 C--T-------TT-AAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * ** *
25514057 CTTTAAAAATCTCATCT-GAAAA-AGTTTCTCTCAATAAAGGCTCAACAA
1 CTTT-AAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * * *
25514105 CTTTAAAATC-CATCTT-GAAAGGGGCTCTTTTCAGCAGAGGCTCAACGA
1 CTTTAAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* ** * * *
25514153 CTTTAAAAAT-TCATCTTGGAAATG-GCTAATCTCAGTAAAGGCTCAATAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * ** *
25514202 CTTTAAAATCTCATCT-GAAAA-AGCTCATCTTAATAGAGGCTTAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * * *
25514249 CTTTAAAATTTTC-TTTTGAAAAGGGCTCATCTCAGCAGAGACTCAACAA
1 CTTTAAAA-TCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25514298 CTTTAAAAATATCATCTTGGAAAA-AGCTCCTATCAGCAGAGGCTCAACAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
25514348 CTTTAAAATCTCATTTTG-AAA-AGCTCCTCTTAGCATATGCTCAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25514395 CTTTAAAAATCTCATATTGAAAAAG-GCTCTTCTCAGCAGAGGCTCAACAACTTTCAACAA
1 CTTT-AAAATCTCAT-TTGGAAAAGAGCTCCTCTCAGCAGAGG--------C--TCAACAA
* * *
25514455 CTTTAAAATCTCATTTGAAAAAGGGCTCCTCTCAGTAGAGGCTCAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
* * * **
25514504 CTTTAAAATTTCATTTGAAAAAGGGCTCCTCTCAATAGAGGCTCAACAA
1 CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
*
25514553 CTTTAAAATTTCAT
1 CTTTAAAATCTCAT
25514567 CTTTTTCTCA
Statistics
Matches: 1048, Mismatches: 152, Indels: 160
0.77 0.11 0.12
Matches are distributed among these distances:
42 4 0.00
43 1 0.00
44 40 0.04
45 80 0.08
46 48 0.05
47 144 0.14
48 177 0.17
49 329 0.31
50 126 0.12
51 8 0.01
52 1 0.00
57 1 0.00
58 18 0.02
59 60 0.06
60 11 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (49 bp):
CTTTAAAATCTCATTTGGAAAAGAGCTCCTCTCAGCAGAGGCTCAACAA
Found at i:25513565 original size:45 final size:47
Alignment explanation
Indices: 25513516--25513623 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 47
25513506 CAGCAGAGGC
25513516 TCAACAACTTTAAAAA-TC-T-TGAAAAAAGCTCATCTCAATAAAAGA
1 TCAACAACTTTAAAAACTCATCTG-AAAAAGCTCATCTCAATAAAAGA
* * * *
25513561 TCAACAACTTTAAAAATCTCATCTGAAAAAGCTCATTTCAATAGAGGC
1 TCAACAACTTTAAAAA-CTCATCTGAAAAAGCTCATCTCAATAAAAGA
25513609 TCAACAACTTTAAAA
1 TCAACAACTTTAAAA
25513624 TCCATCTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 16 0.29
47 2 0.04
48 35 0.64
49 2 0.04
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.26
Consensus pattern (47 bp):
TCAACAACTTTAAAAACTCATCTGAAAAAGCTCATCTCAATAAAAGA
Found at i:25513639 original size:138 final size:140
Alignment explanation
Indices: 25513160--25514560 Score: 1007
Period size: 146 Copynumber: 9.6 Consensus size: 140
25513150 AAAATTTAAA
* ** *
25513160 ATCTGAAAAAGACTCCTATCAATAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAAGCTC
1 ATCTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-G-AAAGGCTC
* * * * * * *
25513225 CTCTCA-CTTA-AGGCTTTAA-AA-TCT---CATCTTGAAAATGGCTCATCTCAGTAGAGGCTCA
62 CTCTCAGC--AGAGGC-TCAACAACTTTAAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
25513283 ACAACTTT-AAAATCTC
124 ACAACTTTAAAAATCTC
* * *
25513299 ATTTGGAAAAGAGCTCCTCTCAGTAGAGGCTCAATAACTTTAAAATCTCAT-TTGGAAAAAGGCT
1 ATCT-GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G--AAAGGCT
* *
25513363 TCTCTCAGCAGAGGCTCAACAAATTTAAAATCCATCTTG-AAAA-GCTCCTCTCAGCAGAGGCTT
61 CCTCTCAGCAGAGGCTCAACAACTTTAAAA---ATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTT
25513426 AACAACTTT-AAAA--TC
123 AACAACTTTAAAAATCTC
* *
25513441 -T-TGAAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAA-ATCATCTTGGAAATGGCTCC
1 ATCTGAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-GAAA-GGCTCC
* * ** * * * *
25513503 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAAGCTCATCTCAATAAAAGATCAACAA
63 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTAACAA
25513568 CTTTAAAAATCTC
128 CTTTAAAAATCTC
* * ** *
25513581 ATCTGAAAAAGCTCATTTCAATAGAGGCTCAACAACTTTAAAATC-CATCTT-AAGGGCTCCTCT
1 ATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAGGCTCCTCT
* * * *
25513644 CAGCAGAGGCTCGATAACTTTAAAAATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTTAACGACTT
66 CAGCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTAACAACTT
*
25513709 TAAAAAT-TT
131 TAAAAATCTC
* * * * * *
25513718 ATCATGAAAAAGGCTCCTCTCAGCAAAAGCTCAACAACTTCAAAATCTCAT-ATGAAAAAGTTCC
1 ATC-TGAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAGGCTCC
* * * * * *
25513782 TCTCAACAGAGGCTCAATAACTTTAAAATTTTTTTTTGGAAAGGGCTCCTCTCAGCAGAGGCTTA
63 TCTCAGCAGAGGCTCAACAACTTTAAAA----ATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
25513847 ACAACTTTAAAAATCTC
124 ACAACTTTAAAAATCTC
* * * * *
25513864 ATCTTGAAAAAAGCTCTTATTAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAGCTCCT
1 ATC-TG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAGGCTCCT
* *
25513929 CTCAGCAGAGGCTCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCGGAGGCTCA
64 CTCAGCAGAGGCTCAACAACTTTAAAAA--TC---TTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
*
25513994 ACAACTTTCAACAACTTAAAAATCTT
124 ACAAC--T-------TTAAAAATCTC
* * * * * * *
25514020 GTTTGGAAAAGGGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAATCTCATC-TGAAAAAGTTT
1 ATCT-GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG-AAAGGCTC
** * ** * * *
25514084 CTCTCAATAAAGGCTCAACAACTTTAAAATCCATCTTGAAAGGGGCTCTTTTCAGCAGAGGCTCA
62 CTCTCAGCAGAGGCTCAACAACTTTAAAA---ATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
*
25514149 ACGACTTTAAAAAT-TC
124 ACAACTTTAAAAATCTC
** ** * * * * *
25514165 ATCTTGGAAATGGCTAATCTCAGTAAAGGCTCAATAACTTTAAAATCTCATC-TGAAAAAGCTCA
1 ATC-T-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAGGCTCC
* ** * * * * * *
25514229 TCTTAATAGAGGCTTAACAACTTTAAAATTTTCTTTTGAAAAGGGCTCATCTCAGCAGAGACTCA
63 TCTCAGCAGAGGCTCAACAACTTTAAAA--ATC--TTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
*
25514294 ACAACTTTAAAAATATC
124 ACAACTTTAAAAATCTC
* * *
25514311 ATCTTGGAAAAAGCTCCTATCAGCAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAGCTCCT
1 ATC-T-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAGGCTCCT
* * * * *
25514376 CTTAGCATATGCTCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCTTCTCAGCAGAGGCTCA
64 CTCAGCAGAGGCTCAACAACTTTAAAAA--TC---TTGAAAAAGGCTCCTCTCAGCAGAGGCTTA
25514441 ACAACTTTCAACAACTTTAAAATCTC
124 ACAACTTT-----A----AAAATCTC
* * *
25514467 ATTTGAAAAAGGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCAT-TTGAAAAAGGGCT
1 ATCTGAAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG--AAA-GGCT
**
25514531 CCTCTCAATAGAGGCTCAACAACTTTAAAA
61 CCTCTCAGCAGAGGCTCAACAACTTTAAAA
25514561 TTTCATCTTT
Statistics
Matches: 1027, Mismatches: 156, Indels: 139
0.78 0.12 0.11
Matches are distributed among these distances:
135 6 0.01
136 4 0.00
137 29 0.03
138 125 0.12
139 102 0.10
140 39 0.04
141 70 0.07
142 9 0.01
143 2 0.00
144 76 0.07
145 111 0.11
146 171 0.17
147 76 0.07
149 1 0.00
152 1 0.00
153 1 0.00
154 6 0.01
155 38 0.04
156 84 0.08
157 45 0.04
158 30 0.03
160 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (140 bp):
ATCTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAGGCTCCTCT
CAGCAGAGGCTCAACAACTTTAAAAATCTTGAAAAAGGCTCCTCTCAGCAGAGGCTTAACAACTT
TAAAAATCTC
Found at i:25513947 original size:97 final size:99
Alignment explanation
Indices: 25513238--25514569 Score: 1131
Period size: 97 Copynumber: 13.7 Consensus size: 99
25513228 TCACTTAAGG
* * * *
25513238 CTTTAAAATCTCATCTTGAAAATGGCTCATCTCAGTAGAGGCTCAACAACTTT-AAAATCTCAT-
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
25513301 TTGGAAAAGAGCTCCTCTCAGTAGAGGCTCAATAA
66 TT-GAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * *
25513336 CTTTAAAATCTCATTTGGAAAAAGGCTTCTCTCAGCAGAGGCTCAACAAATTT-AAAATC-CATC
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
*
25513399 TTG--AAAAGCTCCTCTCAGCAGAGGCTTAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
*
25513431 CTTTAAAA--TC---TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAAA--TCATC
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* **
25513489 TTGGAAATGGCTCCTCTCAGCAGAGGCTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * ** * * *
25513523 CTTTAAAA----ATCTTGAAAAAAGCTCATCTCAATAAAAGATCAACAACTTTAAAAATCTCATC
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * **
25513584 -TG-AAAAAGCTCATTTCAATAGAGGCTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
25513616 CTTTAAAATC-CATCTT---AAGGGCTCCTCTCAGCAGAGGCTCGATAACTTTAAAAA--T--T-
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
25513672 TTGAAAAAGGCTCCTCTCAGCAGAGGCTTAACGA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* ** * * *
25513706 CTTTAAAAAT-TTATCATGAAAAAGGCTCCTCTCAGCAAAAGCTCAACAAC-TTCAAAATCTCAT
1 CTTT-AAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
* * * *
25513769 -ATG-AAAAAGTTCCTCTCAACAGAGGCTCAATAA
65 CTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* ** * * *
25513802 CTTTAAAATTTTTTTTTGGAAAGGGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATCTCATC
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* * *
25513867 TTGAAAAAAGCTCTTATTAGCAGAGGCTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
*
25513901 CTTTAAAATCTCATTTTG-AAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* *
25513964 TTGAAAAAGGCTCCTCTCAGCGGAGGCTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
25513998 CTTTCAACAACTTAAAAATCTTGTTTGGAAAAGGGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
1 CTTT-AA-AA--T----CTCAT-TTT-GAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
* * ** *
25514063 AAATCTCATC-TG-AAAAAGTTTCTCTCAATAAAGGCTCAACAA
56 AAATCTCATCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* ** * * *
25514105 CTTTAAAATC-CATCTTGAAAGGGGCTCTTTTCAGCAGAGGCTCAACGACTTTAAAAAT-TCATC
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
* ** ** * * *
25514168 TTGGAAATGGCTAATCTCAGTAAAGGCTCAATAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * ** * * * *
25514202 CTTTAAAATCTCA-TCTGAAAAA-GCTCATCTTAATAGAGGCTTAACAACTTTAAAATTTTC-TT
1 CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
** * *
25514264 TTGAAAAGGGCTCATCTCAGCAGAGACTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * *
25514298 CTTTAAAAATATCATCTTGGAAAAA-GCTCCTATCAGCAGAGGCTCAACAACTTT-AAAATCTCA
1 CTTT-AAAATCTCAT-TTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA
* * * *
25514361 TTTTG--AAAAGCTCCTCTTAGCATATGCTCAACAA
64 TCTTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* *
25514395 CTTTAAAAATCTCATATTGAAAAAGGCTCTTCTCAGCAGAGGCTCAACAACTTTCAACAACTTTA
1 CTTT-AAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-----A----A
* *
25514460 AAATCTCAT-TTGAAAAAGGGCTCCTCTCAGTAGAGGCTCAACAA
56 AAATCTCATCTTGAAAAA-AGCTCCTCTCAGCAGAGGCTCAACAA
* ** *
25514504 CTTTAAAATTTCA-TTTGAAAAAGGGCTCCTCTCAATAGAGGCTCAACAACTTT-AAAATTTCAT
1 CTTTAAAATCTCATTTTGAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
25514567 CTT
65 CTT
25514570 TTTCTCAAAA
Statistics
Matches: 998, Mismatches: 172, Indels: 127
0.77 0.13 0.10
Matches are distributed among these distances:
89 3 0.00
90 68 0.07
91 14 0.01
92 34 0.03
93 103 0.10
94 27 0.03
95 49 0.05
96 170 0.17
97 204 0.20
98 80 0.08
99 78 0.08
101 1 0.00
103 1 0.00
105 5 0.01
106 8 0.01
107 46 0.05
108 43 0.04
109 64 0.06
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (99 bp):
CTTTAAAATCTCATTTTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC
TTGAAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
Found at i:25514035 original size:59 final size:60
Alignment explanation
Indices: 25513941--25514060 Score: 172
Period size: 59 Copynumber: 2.0 Consensus size: 60
25513931 CAGCAGAGGC
*
25513941 TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCGGAGGCTCAACAACTT
1 TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
** * *
25514001 TCAACAAC-TTAAAAATCTTGT-TTGGAAAAGGGCTCCTCTCAGCAGAGGTTCAACAACTT
1 TCAACAACTTTAAAAATCTCATATT-GAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
25514060 T
1 T
25514061 AAAAATCTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 2 0.04
59 44 0.81
60 8 0.15
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (60 bp):
TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
Found at i:25514103 original size:107 final size:107
Alignment explanation
Indices: 25513894--25514108 Score: 290
Period size: 107 Copynumber: 2.0 Consensus size: 107
25513884 TAGCAGAGGC
* *
25513894 TCAACAACTTTAAAATCTCATTTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
1 TCAACAACTTAAAAATCTCATTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
* * **
25513959 TCATATTGAAAAAGGCTCCTCTCAGCGGAGGCTCAACAACTT
66 TCATACTGAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTT
** *
25514001 TCAACAACTTAAAAATCTTGTTTGGAAAAGGGCTCCTCTCAGCAGAGGTTCAACAACTTTAAAAA
1 TCAACAACTTAAAAATCTCATTTGGAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA
* * *
25514066 TCTCAT-CTGAAAAA-GTTTCTCTCAATAAAGGCTCAACAACTT
64 TCTCATACTGAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTT
25514108 T
1 T
25514109 AAAATCCATC
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 48 0.51
108 7 0.07
109 39 0.41
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (107 bp):
TCAACAACTTAAAAATCTCATTTGGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
TCATACTGAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTT
Found at i:25514482 original size:59 final size:60
Alignment explanation
Indices: 25514388--25514507 Score: 199
Period size: 59 Copynumber: 2.0 Consensus size: 60
25514378 TAGCATATGC
*
25514388 TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCTTCTCAGCAGAGGCTCAACAACTT
1 TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
*
25514448 TCAACAACTTT-AAAATCTCAT-TTGAAAAAGGGCTCCTCTCAGTAGAGGCTCAACAACTT
1 TCAACAACTTTAAAAATCTCATATTGAAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTT
25514507 T
1 T
25514508 AAAATTTCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
58 8 0.14
59 38 0.67
60 11 0.19
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (60 bp):
TCAACAACTTTAAAAATCTCATATTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTT
Found at i:25514527 original size:107 final size:108
Alignment explanation
Indices: 25514341--25514556 Score: 305
Period size: 108 Copynumber: 2.0 Consensus size: 108
25514331 CAGCAGAGGC
* * *
25514341 TCAACAACTTTAAAATCTCATTTTGAAAAGCTCCTCTTAGCATATGCTCAACAACTTTAAAAATC
1 TCAACAACTTTAAAATCTCATTTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
* *
25514406 TCATATTGAAAAA-GGCTCTTCTCAGCAGAGGCTCAACAACTT
66 TCATATTGAAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTT
*
25514448 TCAACAACTTTAAAATCTCA-TTTGAAAAAGGGCTCCTCTCAGTAGAGGCTCAACAACTTT-AAA
1 TCAACAACTTTAAAATCTCATTTTG-AAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
* *
25514511 ATTTCAT-TTGAAAAAGGGCTCCTCTCAATAGAGGCTCAACAACTT
63 ATCTCATATTGAAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTT
25514556 T
1 T
25514557 AAAATTTCAT
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
106 4 0.04
107 32 0.33
108 36 0.37
109 25 0.26
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (108 bp):
TCAACAACTTTAAAATCTCATTTTGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC
TCATATTGAAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTT
Found at i:25527938 original size:22 final size:21
Alignment explanation
Indices: 25527886--25527924 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25527876 CCATCCTCGA
25527886 TTTTTTT-TA-TTTTTTGTTC
1 TTTTTTTATATTTTTTTGTTC
25527905 TTTTTTTATATTTTTTTGTT
1 TTTTTTTATATTTTTTTGTT
25527925 TTGTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.85
Consensus pattern (21 bp):
TTTTTTTATATTTTTTTGTTC
Found at i:25528700 original size:12 final size:12
Alignment explanation
Indices: 25528676--25528716 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
25528666 ATGCAATAAT
*
25528676 AATAAATAAATA
1 AATAAATATATA
*
25528688 AATAACTATATA
1 AATAAATATATA
*
25528700 AATAAATATATT
1 AATAAATATATA
25528712 AATAA
1 AATAA
25528717 TCATACAATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAAATATATA
Found at i:25528774 original size:20 final size:20
Alignment explanation
Indices: 25528745--25528841 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
25528735 AAATTAATTA
*
25528745 ATAATAATGCAATTAAAAAT
1 ATAATTATGCAATTAAAAAT
*
25528765 ATAATTATGCAATTAACAAT
1 ATAATTATGCAATTAAAAAT
* *
25528785 GTAA--AT-C-ATT-CAAAT
1 ATAATTATGCAATTAAAAAT
* *
25528800 A-AA-TATGTAATTAAATAT
1 ATAATTATGCAATTAAAAAT
* *
25528818 ATAATCATGCAACTAATAAAT
1 ATAATTATGCAATTAA-AAAT
25528839 ATA
1 ATA
25528842 TTAATAATCA
Statistics
Matches: 57, Mismatches: 13, Indels: 13
0.69 0.16 0.16
Matches are distributed among these distances:
14 2 0.04
15 5 0.09
16 3 0.05
17 4 0.07
18 6 0.11
19 2 0.04
20 29 0.51
21 6 0.11
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATTATGCAATTAAAAAT
Found at i:25528928 original size:24 final size:24
Alignment explanation
Indices: 25528818--25528928 Score: 111
Period size: 24 Copynumber: 4.5 Consensus size: 24
25528808 AATTAAATAT
25528818 ATAATCATGCAACTAATAAATATATTA
1 ATAATCATGC-A--AATAAATATATTA
* *
25528845 ATAATCAAGCAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
25528869 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
* *
25528891 TATAATCATACAAATAAATATAGTA
1 -ATAATCATGCAAATAAATATATTA
25528916 ATAATCATGCAAA
1 ATAATCATGCAAA
25528929 AGTATTAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
22 1 0.01
23 17 0.24
24 42 0.59
25 1 0.01
26 1 0.01
27 9 0.13
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:25528936 original size:47 final size:42
Alignment explanation
Indices: 25528845--25528970 Score: 114
Period size: 47 Copynumber: 2.8 Consensus size: 42
25528835 AAATATATTA
*
25528845 ATAATCAAGCAATTAAATATATTAATAATCATGCAATCAAATTAAAT
1 ATAATCAA-CAAATAAATATA-TAATAATCATGCAA--AAATT-AAT
25528892 ATAATCATACAAATAAATATAGTAATAATCATGCAAAAGTATTAAT
1 ATAATCA-ACAAATAAATATA-TAATAATCATGCAAAA--ATTAAT
* *
25528938 A-AATC-ACAAA-AATTAATATATTAATCATGCAAA
1 ATAATCAACAAATAAAT-ATATAATAATCATGCAAA
25528971 CAAATATATT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
42 17 0.24
43 8 0.11
45 6 0.08
46 4 0.06
47 35 0.49
48 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (42 bp):
ATAATCAACAAATAAATATATAATAATCATGCAAAAATTAAT
Found at i:25534027 original size:4 final size:4
Alignment explanation
Indices: 25534018--25534060 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
25534008 ATCATAATTG
* * * *
25534018 TTTA TTTA TTTA TTTA TTTG TTTG TTTT TTTT TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
25534061 GACTATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (4 bp):
TTTA
Found at i:25534040 original size:20 final size:20
Alignment explanation
Indices: 25534015--25534056 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25534005 TTTATCATAA
25534015 TTGTTTATTTATTTATTTAT
1 TTGTTTATTTATTTATTTAT
* * *
25534035 TTGTTTGTTTTTTTTTTTAT
1 TTGTTTATTTATTTATTTAT
25534055 TT
1 TT
25534057 ATTTGACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (20 bp):
TTGTTTATTTATTTATTTAT
Found at i:25534053 original size:24 final size:24
Alignment explanation
Indices: 25534015--25534061 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25534005 TTTATCATAA
25534015 TTGTTTATTTATTTATTTATTTGT
1 TTGTTTATTTATTTATTTATTTGT
* *
25534039 TTGTTTTTTTTTTTATTTATTTG
1 TTGTTTATTTATTTATTTATTTG
25534062 ACTATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.79
Consensus pattern (24 bp):
TTGTTTATTTATTTATTTATTTGT
Found at i:25540285 original size:22 final size:22
Alignment explanation
Indices: 25540260--25540303 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25540250 ATCTATATTT
*
25540260 GTATTTGTATCTCTAGAATTAA
1 GTATTTGTATCCCTAGAATTAA
25540282 GTATTTGTATCCCTAGAATTAA
1 GTATTTGTATCCCTAGAATTAA
25540304 AGACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
GTATTTGTATCCCTAGAATTAA
Found at i:25541892 original size:27 final size:27
Alignment explanation
Indices: 25541833--25541886 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25541823 GGGATTCAAA
25541833 GACTTGGGGTGGTGTTGGAGGCTCTAG
1 GACTTGGGGTGGTGTTGGAGGCTCTAG
* *
25541860 GACTTGGGGCT-GTGTTGGCGGTTCTAG
1 GACTTGGGG-TGGTGTTGGAGGCTCTAG
25541887 TGCTTGTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.09, C:0.13, G:0.46, T:0.31
Consensus pattern (27 bp):
GACTTGGGGTGGTGTTGGAGGCTCTAG
Found at i:25553923 original size:8 final size:8
Alignment explanation
Indices: 25553916--25553955 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
25553906 ATATATAGAG
*
25553916 AGAGAGAG
1 AGAGAGAA
25553924 AGAGAGAA
1 AGAGAGAA
*
25553932 ACAGAGAA
1 AGAGAGAA
25553940 AGAGAGAA
1 AGAGAGAA
*
25553948 AAAGAGAA
1 AGAGAGAA
25553956 TTATACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (8 bp):
AGAGAGAA
Found at i:25555707 original size:13 final size:13
Alignment explanation
Indices: 25555689--25555713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25555679 TTTGGTGCAA
25555689 TTTCAATAATATC
1 TTTCAATAATATC
25555702 TTTCAATAATAT
1 TTTCAATAATAT
25555714 TTTAGCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCAATAATATC
Found at i:25561706 original size:22 final size:21
Alignment explanation
Indices: 25561681--25561721 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25561671 AGAATGGTTG
25561681 TTGATCTTTTCTCATAAAATAA
1 TTGAT-TTTTCTCATAAAATAA
* *
25561703 TTGATTTTTTTTATAAAAT
1 TTGATTTTTCTCATAAAAT
25561722 TATTAGAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (21 bp):
TTGATTTTTCTCATAAAATAA
Found at i:25562164 original size:24 final size:25
Alignment explanation
Indices: 25562137--25562183 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
25562127 TTGTAATATA
*
25562137 TATTTATAAAAGGTAA-AAATATTT
1 TATTTATAAAAGATAATAAATATTT
* *
25562161 TATTTTTACAAGATAATAAATAT
1 TATTTATAAAAGATAATAAATAT
25562184 ACTTAACTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (25 bp):
TATTTATAAAAGATAATAAATATTT
Found at i:25565469 original size:16 final size:16
Alignment explanation
Indices: 25565448--25565485 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
25565438 TTTGTTAATA
*
25565448 AAAAAAATTAAAACTT
1 AAAAAAATTAAAAATT
25565464 AAAAAAATTAAAAATT
1 AAAAAAATTAAAAATT
25565480 AAAAAA
1 AAAAAA
25565486 TGAGAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAATTAAAAATT
Found at i:25566409 original size:51 final size:50
Alignment explanation
Indices: 25566339--25566480 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 50
25566329 TATTATTTTC
* * *
25566339 TTTCAAAAAAAAAGAATTTCTAAA-TAGGCCCAAATGGTGAAAATTTTAAAA
1 TTTCAAAAAAAAA-TATTTCTAAATTA-ACCCAAATGGTGAAAAATTTAAAA
25566390 TTTTCAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAAAA
1 -TTTCAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAAAA
* * * *
25566441 ATTCAAAAACAGAAATATTTCTAATTTGACCTAAATGGTG
1 TTTCAAAAA-A-AAATATTTCTAAATTAACCCAAATGGTG
25566481 GAATAATTAG
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
50 8 0.10
51 32 0.40
52 40 0.50
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (50 bp):
TTTCAAAAAAAAATATTTCTAAATTAACCCAAATGGTGAAAAATTTAAAA
Found at i:25568984 original size:24 final size:26
Alignment explanation
Indices: 25568957--25569007 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
25568947 CCTGCTGTGA
25568957 ACAAT-ACCTTATCTTA-CC-CATACC
1 ACAATCACCTTA-CTTATCCACATACC
*
25568981 ACAATCATCTTACTTATCCACATACC
1 ACAATCACCTTACTTATCCACATACC
25569007 A
1 A
25569008 ACCTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 9 0.39
25 7 0.30
26 7 0.30
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.29
Consensus pattern (26 bp):
ACAATCACCTTACTTATCCACATACC
Found at i:25570535 original size:9 final size:9
Alignment explanation
Indices: 25570523--25570571 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
25570513 GAAAAAGGAA
*
25570523 AAAAAAAAG
1 AAAAAAATG
25570532 AAAAAAATG
1 AAAAAAATG
*
25570541 ATAAAAATG
1 AAAAAAATG
*
25570550 -AAAGAATG
1 AAAAAAATG
25570558 AAAAAAGATG
1 AAAAAA-ATG
25570568 AAAA
1 AAAA
25570572 TGAGAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
8 6 0.18
9 20 0.61
10 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:25570568 original size:18 final size:18
Alignment explanation
Indices: 25570525--25570571 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
25570515 AAAAGGAAAA
25570525 AAAAAAGA--AAAAAATG
1 AAAAAAGATGAAAAAATG
* *
25570541 ATAAAA-ATGAAAGAATG
1 AAAAAAGATGAAAAAATG
25570558 AAAAAAGATGAAAA
1 AAAAAAGATGAAAA
25570572 TGAGAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 5 0.21
17 12 0.50
18 6 0.25
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (18 bp):
AAAAAAGATGAAAAAATG
Found at i:25570571 original size:25 final size:25
Alignment explanation
Indices: 25570533--25570584 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
25570523 AAAAAAAAGA
*
25570533 AAAAAATGATAAAAATGA-AAGAATG
1 AAAAAATGAT-AAAATGAGAAAAATG
25570558 AAAAAA-GATGAAAATGAGAAAAATG
1 AAAAAATGAT-AAAATGAGAAAAATG
25570583 AA
1 AA
25570585 GACTCAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (25 bp):
AAAAAATGATAAAATGAGAAAAATG
Found at i:25570580 original size:9 final size:8
Alignment explanation
Indices: 25570533--25570584 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
25570523 AAAAAAAAGA
25570533 AAAAAATG
1 AAAAAATG
25570541 ATAAAAATG
1 A-AAAAATG
*
25570550 AAAGAATG
1 AAAAAATG
25570558 AAAAAA-G
1 AAAAAATG
*
25570565 ATGAAAATG
1 A-AAAAATG
25570574 AGAAAAATG
1 A-AAAAATG
25570583 AA
1 AA
25570585 GACTCAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
7 2 0.06
8 17 0.47
9 17 0.47
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:25571429 original size:70 final size:70
Alignment explanation
Indices: 25571282--25571461 Score: 172
Period size: 70 Copynumber: 2.6 Consensus size: 70
25571272 ACAGAATTTA
* * * * *
25571282 TTCTAAAATGGCTAGTACTG-AGAAGCCTGTGAATTGTGGTAAAAATAGTATGGGTCAATAGATG
1 TTCTGAAATTGCTAGTACTGAAGAAGCCTGTGAATTGTGATAAAAATAGTATGGGGCAATAGACG
25571346 AAATT
66 AAATT
* * * *
25571351 TATATGAAATTGCTAGTACTGAAG-AGCCTGTGAGTTGTGAT-TAAAT-GATATGGGGCAATGGA
1 T-TCTGAAATTGCTAGTACTGAAGAAGCCTGTGAATTGTGATAAAAATAG-TATGGGGCAATAGA
25571413 CGAAACTT
64 CGAAA-TT
* * * *
25571421 GTTCTGAAATTGTTAGTGCTG-AGAAGCCTATGAATGGTGAT
1 -TTCTGAAATTGCTAGTACTGAAGAAGCCTGTGAATTGTGAT
25571462 CAAGTGATGA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
68 1 0.01
69 23 0.26
70 63 0.70
71 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (70 bp):
TTCTGAAATTGCTAGTACTGAAGAAGCCTGTGAATTGTGATAAAAATAGTATGGGGCAATAGACG
AAATT
Found at i:25571479 original size:23 final size:22
Alignment explanation
Indices: 25571453--25571496 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
25571443 GAAGCCTATG
*
25571453 AATGGTGATCAAGTGATGAAAAT
1 AATGATGATCAAGTGAT-AAAAT
*
25571476 AATGATGATCAATTGATAAAA
1 AATGATGATCAAGTGATAAAA
25571497 CTTGTTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (22 bp):
AATGATGATCAAGTGATAAAAT
Found at i:25572019 original size:77 final size:78
Alignment explanation
Indices: 25571847--25572019 Score: 262
Period size: 75 Copynumber: 2.2 Consensus size: 78
25571837 TTTTTGAGTT
* * *
25571847 CTCAAATGAGAATCTTTGAATTTCAACTAAGAATCTTTAAGGTGTGAAACCCAAAATTTGTCGAA
1 CTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGATGTGAAA-CCAAAATTTATCGAA
*
25571912 TGTGAATCTTCGAA
65 TATGAATCTTCGAA
* *
25571926 CTCAAATGAGAA--TTTGAATTTCAAATGAGAATCTTTAAGATGTGAAA-CTAAATTTATCGAAT
1 CTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGATGTGAAACCAAAATTTATCGAAT
25571988 ATGAATCTTCGAA
66 ATGAATCTTCGAA
25572001 CTCAAATGAGAATCTTTGA
1 CTCAAATGAGAATCTTTGA
25572020 GATGTGAAAC
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
75 37 0.43
77 37 0.43
79 12 0.14
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (78 bp):
CTCAAATGAGAATCTTTGAATTTCAAATAAGAATCTTTAAGATGTGAAACCAAAATTTATCGAAT
ATGAATCTTCGAA
Found at i:25572074 original size:56 final size:56
Alignment explanation
Indices: 25571945--25572075 Score: 217
Period size: 56 Copynumber: 2.3 Consensus size: 56
25571935 GAATTTGAAT
* *
25571945 TTCAAATGAGAATCTTTAAGATGTGAAACTAAATTTATCGAATATGAATCTTCGAA
1 TTCAAATGAGAATCTTTGAGATGTGAAACCAAATTTATCGAATATGAATCTTCGAA
* * *
25572001 CTCAAATGAGAATCTTTGAGATGTGAAACCAAATTTGTCGAATGTGAATCTTCGAA
1 TTCAAATGAGAATCTTTGAGATGTGAAACCAAATTTATCGAATATGAATCTTCGAA
25572057 TTCAAATGAGAATCTTTGA
1 TTCAAATGAGAATCTTTGA
25572076 ATTTCAAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (56 bp):
TTCAAATGAGAATCTTTGAGATGTGAAACCAAATTTATCGAATATGAATCTTCGAA
Found at i:25572083 original size:21 final size:20
Alignment explanation
Indices: 25572041--25572094 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
25572031 AAATTTGTCG
* *
25572041 AATGTGAATCTTCGAATTCA
1 AATGAGAATCTTTGAATTCA
25572061 AATGAGAATCTTTGAATTTCA
1 AATGAGAATCTTTGAA-TTCA
*
25572082 AATGGGAATCTTT
1 AATGAGAATCTTT
25572095 AAAGTGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (20 bp):
AATGAGAATCTTTGAATTCA
Found at i:25572142 original size:79 final size:78
Alignment explanation
Indices: 25572002--25572233 Score: 308
Period size: 79 Copynumber: 3.0 Consensus size: 78
25571992 ATCTTCGAAC
* * *
25572002 TCAAATGAGAATCTTTGAGATGTGAAACC--AAATTTGTCGAATGTGAATCTTCGAATTCAAATG
1 TCAAATGAGAATCTTTAAG-TGTGAAACCTAAAATTTATCGAATGTGAATCTTCGAACTCAAATG
25572065 AGAATCTTTGAATT
65 AGAATCTTTGAATT
* * *
25572079 TCAAATGGGAATCTTTAAAGTGTGAAACCTAAAATTTATCGAATGTGAATATTTGAACTCAAATG
1 TCAAATGAGAATCTTT-AAGTGTGAAACCTAAAATTTATCGAATGTGAATCTTCGAACTCAAATG
25572144 AGAATCTTTGAATT
65 AGAATCTTTGAATT
* * * *
25572158 TTAATTGAGAATCTTTGAGGTGTGAAA-CTCAAAATTTATCGAATGTAAATCTTCGAACTCAAAT
1 TCAAATGAGAATCTTT-AAGTGTGAAACCT-AAAATTTATCGAATGTGAATCTTCGAACTCAAAT
*
25572222 GAAAATCTTTGA
64 GAGAATCTTTGA
25572234 GGGGTCAAAC
Statistics
Matches: 136, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
77 24 0.18
78 4 0.03
79 108 0.79
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (78 bp):
TCAAATGAGAATCTTTAAGTGTGAAACCTAAAATTTATCGAATGTGAATCTTCGAACTCAAATGA
GAATCTTTGAATT
Found at i:25572710 original size:43 final size:42
Alignment explanation
Indices: 25572571--25572716 Score: 186
Period size: 42 Copynumber: 3.5 Consensus size: 42
25572561 AAAATTTTGT
25572571 TGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAGTTGTAG
1 TGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAGTTGTAG
* * * *
25572613 TGCCTTTGTTTAGAGGAACATTTTACTTTTCCAAAGTTGTGG
1 TGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAGTTGTAG
* * * *
25572655 TGCCTCTATTTAGAGGAGCATTTTATTTTTTTCAAAGTCGT-T
1 TGCCTCTGTTTAGAGGAGCATTTTA-TTTTTCCAAAGTTGTAG
*
25572697 TAGCCTCTGTTTAGAAGAGC
1 T-GCCTCTGTTTAGAGGAGC
25572717 TTTGTTTACT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 61 0.69
43 28 0.31
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (42 bp):
TGCCTCTGTTTAGAGGAGCATTTTATTTTTCCAAAGTTGTAG
Found at i:25573801 original size:51 final size:51
Alignment explanation
Indices: 25573726--25573848 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
25573716 TTTTCTTTCC
* *
25573726 AAAAAAAAAAGAATTTCTAAATAGGCCTAAATGGTGAAAAATTTAGAGATA
1 AAAAAAAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAGATA
* * *
25573777 AAAAATAAAAAAAATTT-TAAATAGGCCCAAATTGTGAAAAATTTAGAAATTC
1 AAAAA-AAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAGA-TA
* *
25573829 AAAAAGAAAAATATTTCTAA
1 AAAAAAAAAAAAATTTCTAA
25573849 TTTGACCCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 43 0.69
52 19 0.31
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (51 bp):
AAAAAAAAAAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAGATA
Found at i:25576829 original size:49 final size:49
Alignment explanation
Indices: 25576740--25576859 Score: 145
Period size: 49 Copynumber: 2.5 Consensus size: 49
25576730 CTCATATTTG
*
25576740 CAAGATTTTTAAATTTGTAA-AACTTAGATTCACAAAAAATCAAATTCA
1 CAAGAATTTTAAATTTGTAAGAACTTAGATTCACAAAAAATCAAATTCA
* * * * **
25576788 CAAGAA-TTTAAGATTTGTAAGAACTTAGATTCGCTAGAAATCATATTTG
1 CAAGAATTTTAA-ATTTGTAAGAACTTAGATTCACAAAAAATCAAATTCA
*
25576837 CAAGAATTTTAAATTCGTAAGAA
1 CAAGAATTTTAAATTTGTAAGAA
25576860 TATTCAGATT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
47 5 0.08
48 13 0.21
49 38 0.62
50 5 0.08
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (49 bp):
CAAGAATTTTAAATTTGTAAGAACTTAGATTCACAAAAAATCAAATTCA
Found at i:25576979 original size:20 final size:20
Alignment explanation
Indices: 25576933--25576980 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25576923 TCCAAAGTTC
*
25576933 AATTCAAGGATTCACATCAA
1 AATTCAAGGACTCACATCAA
25576953 AATTTCAAGG-CTCACATCTAA
1 AA-TTCAAGGACTCACATC-AA
*
25576974 CATTCAA
1 AATTCAA
25576981 ATATTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (20 bp):
AATTCAAGGACTCACATCAA
Found at i:25577215 original size:21 final size:23
Alignment explanation
Indices: 25577189--25577239 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
25577179 ACAAGTTTTC
25577189 AAGATTCTAATTT-AAAA-CTCA
1 AAGATTCTAATTTGAAAATCTCA
25577210 AAGATTCTAATTTGAAAATTCTCA
1 AAGATTCTAATTTGAAAA-TCTCA
25577234 AAGATT
1 AAGATT
25577240 ATGTCTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.48
22 4 0.15
24 10 0.37
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
AAGATTCTAATTTGAAAATCTCA
Found at i:25578392 original size:8 final size:8
Alignment explanation
Indices: 25578381--25578459 Score: 61
Period size: 8 Copynumber: 9.4 Consensus size: 8
25578371 TCCTTTTTTT
25578381 TTTTTTCA
1 TTTTTTCA
25578389 TTTTTTCA
1 TTTTTTCA
25578397 TTTTTTCA
1 TTTTTTCA
*
25578405 TTTTTTTA
1 TTTTTTCA
**
25578413 -CATTTCA
1 TTTTTTCA
* *
25578420 TTTTCTAA
1 TTTTTTCA
25578428 TTTTCTTTCA
1 -TTT-TTTCA
25578438 TTTTTTTTCA
1 --TTTTTTCA
25578448 TTTTTTTCA
1 -TTTTTTCA
25578457 TTT
1 TTT
25578460 CATTCATTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
7 4 0.07
8 29 0.51
9 12 0.21
10 8 0.14
11 4 0.07
ACGTcount: A:0.14, C:0.13, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTTCA
Found at i:25578392 original size:10 final size:10
Alignment explanation
Indices: 25578379--25578459 Score: 73
Period size: 10 Copynumber: 8.3 Consensus size: 10
25578369 TTTCCTTTTT
25578379 TTTTTTTTCA
1 TTTTTTTTCA
25578389 --TTTTTTCA
1 TTTTTTTTCA
25578397 --TTTTTTCA
1 TTTTTTTTCA
*
25578405 TTTTTTTACA
1 TTTTTTTTCA
*
25578415 TTTCATTTTCTAA
1 TTT--TTTT-TCA
*
25578428 TTTTCTTTCA
1 TTTTTTTTCA
25578438 TTTTTTTTCA
1 TTTTTTTTCA
25578448 -TTTTTTTCA
1 TTTTTTTTCA
25578457 TTT
1 TTT
25578460 CATTCATTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
8 16 0.27
9 9 0.15
10 23 0.39
11 3 0.05
12 4 0.07
13 4 0.07
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:25578393 original size:16 final size:16
Alignment explanation
Indices: 25578369--25578459 Score: 69
Period size: 15 Copynumber: 5.5 Consensus size: 16
25578359 CTTCATTTTC
*
25578369 TTTCCTTTTTTT-TTT
1 TTTCATTTTTTTATTT
*
25578384 TTTCATTTTTTCATTT
1 TTTCATTTTTTTATTT
**
25578400 TTTCATTTTTTTA-CA
1 TTTCATTTTTTTATTT
* *
25578415 TTTCATTTTCTAATTTT
1 TTTCATTTTTTTA-TTT
25578432 CTTTCATTTTTTTTCATTTT
1 -TTTCA-TTTTTTT-A-TTT
25578452 TTTCATTT
1 TTTCATTT
25578460 CATTCATTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
15 21 0.36
16 15 0.25
18 8 0.14
19 10 0.17
20 5 0.08
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCATTTTTTTATTT
Found at i:25578418 original size:23 final size:22
Alignment explanation
Indices: 25578392--25578463 Score: 87
Period size: 23 Copynumber: 3.3 Consensus size: 22
25578382 TTTTTCATTT
25578392 TTTCATTTTTTCATTTTTTTACA
1 TTTCATTTTTTCATTTTTTT-CA
* *
25578415 TTTCATTTTCTAATTTTCTTTCA
1 TTTCATTTTTTCATTTT-TTTCA
25578438 -TT--TTTTTTCATTTTTTTCA
1 TTTCATTTTTTCATTTTTTTCA
25578457 TTTCATT
1 TTTCATT
25578464 CATTATTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 5 0.12
20 12 0.29
22 4 0.10
23 17 0.41
24 3 0.07
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTTTTTCATTTTTTTCA
Found at i:25585806 original size:27 final size:27
Alignment explanation
Indices: 25585747--25585800 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25585737 GGGATTCAAA
25585747 GACTTGGGGTGGTGTTGGAGGCTCTAG
1 GACTTGGGGTGGTGTTGGAGGCTCTAG
* *
25585774 GACTTGGGGCT-GTGTTGGCGGTTCTAG
1 GACTTGGGG-TGGTGTTGGAGGCTCTAG
25585801 TGCTTGTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.09, C:0.13, G:0.46, T:0.31
Consensus pattern (27 bp):
GACTTGGGGTGGTGTTGGAGGCTCTAG
Found at i:25597836 original size:8 final size:8
Alignment explanation
Indices: 25597827--25597866 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
25597817 ATATATATAG
*
25597827 AGAGAGAG
1 AGAGAGAA
25597835 AGAGAGAA
1 AGAGAGAA
*
25597843 ACAGAGAA
1 AGAGAGAA
25597851 AGAGAGAA
1 AGAGAGAA
*
25597859 AAAGAGAA
1 AGAGAGAA
25597867 TTATACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.62, C:0.03, G:0.35, T:0.00
Consensus pattern (8 bp):
AGAGAGAA
Found at i:25600420 original size:13 final size:13
Alignment explanation
Indices: 25600402--25600426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25600392 TTTGGTGCAA
25600402 TTTCAATAATATC
1 TTTCAATAATATC
25600415 TTTCAATAATAT
1 TTTCAATAATAT
25600427 TTTAGCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCAATAATATC
Found at i:25604810 original size:118 final size:117
Alignment explanation
Indices: 25604612--25605057 Score: 639
Period size: 117 Copynumber: 3.8 Consensus size: 117
25604602 TTGTATAGGA
* *
25604612 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTA-TTTCTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTTC-AAGGAAAATT
* * *
25604676 CATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTAAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGG
25604729 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAA-TTT-ATTTTCAAGGAAAAT
** * *
25604793 TGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGGAAATTTATTTCTAAGG
64 TGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGG
*
25604846 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-GAAAATTT-ATTTTCAAGGAAAAT
*
25604911 TGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTTGAAATTTTATTTTTAAGG
64 TGATACTTTCAACTTTTCCCCAAAAATCCC-TTTTTTGAAAATTTATTTTTAAGG
* * * *
25604966 AAAATTGATACTTTCAACTTTT-CCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGCAAAA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAA--ATATTTTTTTGAAAATTTATTTTCAAGGAAAA
*
25605030 TTGATACTTTCAACTTTTCCCTAAAAAT
63 TTGATACTTTCAACTTTTCCCCAAAAAT
25605058 ATTTTTTTGG
Statistics
Matches: 298, Mismatches: 21, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
116 10 0.03
117 89 0.30
118 87 0.29
119 11 0.04
120 86 0.29
121 7 0.02
122 8 0.03
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.44
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTGAAAATTTATTTTTAAGG
Found at i:25604885 original size:60 final size:58
Alignment explanation
Indices: 25604612--25605073 Score: 617
Period size: 60 Copynumber: 7.8 Consensus size: 58
25604602 TTGTATAGGA
* *
25604612 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTTAAGG
* ** **
25604670 AAAATTCATACTTTCAACTTTT-CCTCAAAAATCCCTTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTTGGAAATTTATTTTTAAGG
* *
25604729 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTT-ATTTTTAAGG
* *
25604788 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTTAAGG
*
25604846 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTT-ATTTTTAAGG
* *
25604906 AAAATTGATACTTTCAACTTTTCCCCAAAAATCCCTTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAT--ATTTTTTTGGAAA-TTTATTTTTAAGG
* * * *
25604966 AAAATTGATACTTTCAACTTTT-CCTCAAAATCTTTTTTTTTTGAAAATTTATTTTTAAGC
1 AAAATTGATACTTTCAACTTTTCCCT-AAAA--ATATTTTTTTGGAAATTTATTTTTAAGG
*
25605026 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAGATTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT
25605074 TGATTTTTCT
Statistics
Matches: 359, Mismatches: 30, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
57 12 0.03
58 96 0.27
59 97 0.27
60 132 0.37
61 14 0.04
62 8 0.02
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTTTAAGG
Found at i:25605131 original size:22 final size:23
Alignment explanation
Indices: 25605089--25605132 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25605079 TTTCTTTAAA
25605089 GAAAATAGAATAATAAAAAAAGT
1 GAAAATAGAATAATAAAAAAAGT
*
25605112 GAAAATA-AATAAAAATAAAAA
1 GAAAATAGAATAATAA-AAAAA
25605133 AATTAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (23 bp):
GAAAATAGAATAATAAAAAAAGT
Found at i:25606138 original size:31 final size:30
Alignment explanation
Indices: 25606085--25606187 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 30
25606075 ATATTATAGG
* *
25606085 ATAAATAAAAGAAATAACAAATATATAATTA
1 ATAAATATAA-AAATAAAAAATATATAATTA
* *
25606116 ATAAATATAAAAATACAAAAATAAATATATAA
1 ATAAATATAAAAATA-AAAAATATATA-ATTA
* * * *
25606148 AAATAATAATAATAATAATAAATATATAACTA
1 ATA-AAT-ATAAAAATAAAAAATATATAATTA
25606180 TATAAATA
1 -ATAAATA
25606188 ATATACGTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
30 5 0.09
31 19 0.34
32 10 0.18
33 14 0.25
34 8 0.14
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (30 bp):
ATAAATATAAAAATAAAAAATATATAATTA
Found at i:25606149 original size:14 final size:14
Alignment explanation
Indices: 25606116--25606176 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
25606106 TATATAATTA
* *
25606116 ATAAATATAAAAAT
1 ATAAAAATAAATAT
*
25606130 ACAAAAATAAATAT
1 ATAAAAATAAATAT
25606144 ATAAAAAT-AATAAT
1 ATAAAAATAAAT-AT
*
25606158 AATAATAATAAATAT
1 -ATAAAAATAAATAT
25606173 ATAA
1 ATAA
25606177 CTATATAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 3 0.08
14 24 0.62
15 9 0.23
16 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAAATAAATAT
Found at i:25606155 original size:37 final size:37
Alignment explanation
Indices: 25606087--25606190 Score: 86
Period size: 37 Copynumber: 2.7 Consensus size: 37
25606077 ATTATAGGAT
* * *
25606087 AAATAAAAGAAATAACAAATATATAATTAATAA-ATATAA
1 AAAT-AAAGAAATAA-ATATATAAAAATAATAATA-ATAA
25606126 AAATACAA-AAATAAATATATAAAAATAATAATAATAA
1 AAATA-AAGAAATAAATATATAAAAATAATAATAATAA
* * * *
25606163 TAATAAATATATAACTATATAAATAATA
1 AAATAAAGAAATAAATATATAAA-AATA
25606191 TACGTATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
36 2 0.04
37 35 0.64
38 12 0.22
39 6 0.11
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (37 bp):
AAATAAAGAAATAAATATATAAAAATAATAATAATAA
Found at i:25606158 original size:20 final size:20
Alignment explanation
Indices: 25606109--25606190 Score: 66
Period size: 20 Copynumber: 4.2 Consensus size: 20
25606099 TAACAAATAT
25606109 ATAATTAATAAATATA-AAAA
1 ATAA-TAATAAATATATAAAA
* *
25606129 TACAAAAATAAATATATAAAA
1 -ATAATAATAAATATATAAAA
25606150 ATAATAAT-AATA-ATAATAA
1 ATAATAATAAATATATAA-AA
*
25606169 AT-AT-ATAACTATATAAATA
1 ATAATAATAAATATATAAA-A
25606188 ATA
1 ATA
25606191 TACGTATAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.04
18 10 0.20
19 15 0.30
20 16 0.32
21 7 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAATAATAAATATATAAAA
Found at i:25606198 original size:17 final size:16
Alignment explanation
Indices: 25606136--25606192 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
25606126 AAATACAAAA
**
25606136 ATAAATATATAAAAAT
1 ATAAATATATAACTAT
25606152 A-ATAATA-ATAA-TA-
1 ATA-AATATATAACTAT
25606165 ATAAATATATAACTAT
1 ATAAATATATAACTAT
25606181 ATAAATAATATA
1 ATAAAT-ATATA
25606193 CGTATAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 7 0.21
16 11 0.32
17 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATATAACTAT
Found at i:25610374 original size:23 final size:23
Alignment explanation
Indices: 25610348--25610394 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25610338 GTCTGACTTC
25610348 GTTTTAATTTA-AATATTTTTTTT
1 GTTTTAATTTATAAT-TTTTTTTT
* *
25610371 GTTTTTATTTATAGTTTTTTTTT
1 GTTTTAATTTATAATTTTTTTTT
25610394 G
1 G
25610395 GGTTCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (23 bp):
GTTTTAATTTATAATTTTTTTTT
Found at i:25611914 original size:107 final size:109
Alignment explanation
Indices: 25611714--25612167 Score: 387
Period size: 119 Copynumber: 4.0 Consensus size: 109
25611704 AAAAAGCATT
* * * * * *
25611714 ATTAAT-AAAAAATAAAATCATAAATAGTGATTTTATTAAAAATATTTAC-TCAAAGAATTTTTT
1 ATTAATAAAAAAATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACAT-AAAAAATTTTCT
* *
25611777 TAAATATTCTAAAAGTGTTAGAAATGTTTTAAAATTTTTC-AAAC
65 AAAATATTCTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAAAC
* * *
25611821 A-TACT-AAAACATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACGTAAACAAATTTTCT
1 ATTAATAAAAAAATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACATAAA-AAATTTTCT
* * *
25611884 AAAATATTCTAAAAGTATTAGAAATATTTTAGAATTTTTCAAGTATAAAAAA
65 AAAATATTCTAAAAGTGTTAGAAATATTTTAAAATTTTTC-------AAAAC
* * * * * *
25611936 ATTATTAATAAGAAATAAAATTACAAATGGTGGTTTTATTAAAAATATTTACACAAATAAACTCT
1 ATTAATAA-AA-AAATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACATAAA-AAATTTT
* * *
25612001 CTAAAATATTCTAAAAGTGTAAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATT
63 CTAAAATATTCTAAAAGTGTTAGAAATATTTTAAAATTTTT----C-----AAAA-C
* * * *
25612058 ATTAATAAAAAAATAAAGTTACAAAGTGGTGATTTTATTGAAAATATTCATATAAAAAAATTTTC
1 ATTAATAAAAAAATAAAATTAC-AAGTGGTGATTTTATTAAAAATATTTACAT-AAAAAATTTTC
* *
25612123 TAAAGTATTCTAAAAAGTGTTAGTAATATTTTAAAATTTTTCAAA
64 TAAAATATTCT-AAAAGTGTTAGAAATATTTTAAAATTTTTCAAA
25612168 CACAAAAAAA
Statistics
Matches: 284, Mismatches: 41, Indels: 38
0.78 0.11 0.10
Matches are distributed among these distances:
106 44 0.15
107 45 0.16
113 3 0.01
115 4 0.01
116 3 0.01
117 1 0.00
118 3 0.01
119 84 0.30
120 11 0.04
121 49 0.17
122 36 0.13
123 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (109 bp):
ATTAATAAAAAAATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACATAAAAAATTTTCTA
AAATATTCTAAAAGTGTTAGAAATATTTTAAAATTTTTCAAAAC
Found at i:25612042 original size:119 final size:120
Alignment explanation
Indices: 25611826--25612185 Score: 497
Period size: 119 Copynumber: 3.0 Consensus size: 120
25611816 CAAACATACT
* * * *
25611826 AAAACATAAAATTACAAGTGGTGATTTTATTAAAAATATTTACGTAAACAAATTTTCTAAAATAT
1 AAAAAATAAAATTACAAATGGTGATTTTATTAAAAATATTTACATAAAAAAATTTTCTAAAATAT
* *
25611891 TCTAAAAGTATTAGAAATATTTTAGAATTTTTCAAGTATAAAAAAATTATTAAT-
66 TCTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATTAATA
* * * * * *
25611945 AAGAAATAAAATTACAAATGGTGGTTTTATTAAAAATATTTACACAAATAAACTCTCTAAAATAT
1 AAAAAATAAAATTACAAATGGTGATTTTATTAAAAATATTTACATAAAAAAATTTTCTAAAATAT
*
25612010 TCTAAAAGTGTAAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATTAATA
66 TCTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATTAATA
* * * * *
25612065 AAAAAATAAAGTTACAAAGTGGTGATTTTATTGAAAATATTCATATAAAAAAATTTTCTAAAGTA
1 AAAAAATAAAATTACAAA-TGGTGATTTTATTAAAAATATTTACATAAAAAAATTTTCTAAAATA
* * * *
25612130 TTCTAAAAAGTGTTAGTAATATTTTAAAATTTTTCAAACACAAAAAAATTATTAAT
65 TTCT-AAAAGTGTTAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATTAAT
25612186 GGGATAATAA
Statistics
Matches: 210, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
119 107 0.51
120 16 0.08
121 41 0.20
122 46 0.22
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (120 bp):
AAAAAATAAAATTACAAATGGTGATTTTATTAAAAATATTTACATAAAAAAATTTTCTAAAATAT
TCTAAAAGTGTTAGAAATATTTTAGAATTTTTCAAGCATAAAAAAATTATTAATA
Found at i:25612984 original size:13 final size:13
Alignment explanation
Indices: 25612966--25612995 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25612956 TCTAGTTTTC
*
25612966 TTTATTTATTCAT
1 TTTATTGATTCAT
25612979 TTTATTGATTCAT
1 TTTATTGATTCAT
25612992 TTTA
1 TTTA
25612996 CTAATTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTATTGATTCAT
Found at i:25623823 original size:42 final size:43
Alignment explanation
Indices: 25623742--25623825 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
25623732 TTTTTTTAAG
* *
25623742 TTGTAGAGCCTCTGCTTAGAGGAGCATTTTAAATTTTCAAAAA
1 TTGTAGAGCCTCTACTTAGAGAAGCATTTTAAATTTTCAAAAA
* *
25623785 TTGTCGAGCCTCTACTTAGATAAGC-TTTTAAATTTTCAAAA
1 TTGTAGAGCCTCTACTTAGAGAAGCATTTTAAATTTTCAAAA
25623826 TTTCTTGAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 16 0.43
43 21 0.57
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (43 bp):
TTGTAGAGCCTCTACTTAGAGAAGCATTTTAAATTTTCAAAAA
Found at i:25623995 original size:43 final size:43
Alignment explanation
Indices: 25623885--25624047 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
25623875 GAACCTTTGT
*
25623885 TTAAAAGAGC-TTTTAAATTTTTAAAA-TTATCAAGTATCTAC
1 TTAAAAGAGCTTTTTAAATTTTTAAAAGTTATCAAGTTTCTAC
* * ** *
25623926 TTAAAAGAACTTTTTAAAGTCATAAAAGTTGTCAAGTTTCTAC
1 TTAAAAGAGCTTTTTAAATTTTTAAAAGTTATCAAGTTTCTAC
* * *
25623969 TTAAAAGAGCTTTTTAAATTTTTAAAAGCTATCGAGTCTT-TGC
1 TTAAAAGAGCTTTTTAAATTTTTAAAAGTTATCAAGT-TTCTAC
* * * *
25624012 TT-AAAGAATCTTTTTAAATTTTCAACAGTTGTCAAG
1 TTAAAAG-AGCTTTTTAAATTTTTAAAAGTTATCAAG
25624048 CCTCTTTTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 9 0.09
42 17 0.17
43 70 0.71
44 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (43 bp):
TTAAAAGAGCTTTTTAAATTTTTAAAAGTTATCAAGTTTCTAC
Found at i:25624063 original size:86 final size:85
Alignment explanation
Indices: 25623861--25624063 Score: 209
Period size: 86 Copynumber: 2.4 Consensus size: 85
25623851 CCTTTCGAAC
*
25623861 TTTCAAAAGTTGTCGAA-CCT-TTGTTTAAAAGAGCTTTTAAATTTTTAAAATTATCAAGTATCT
1 TTTCAAAAGTTGTC-AAGCCTCTT-TTTAAAAGAGCTTTTAAATTTTTAAAACTATCAAGTATCT
25623924 ACTTAAAAGAACTTTTTAAAGT
64 ACTTAAAAGAACTTTTTAAAGT
** ** ** * * *
25623946 CAT-AAAAGTTGTCAAGTTTCTACTTAAAAGAGCTTTTTAAATTTTTAAAAGCTATCGAGTCTTT
1 TTTCAAAAGTTGTCAAGCCTCTTTTTAAAAGAGC-TTTTAAATTTTTAAAA-CTATCAAGTATCT
*
25624010 GCTT-AAAGAATCTTTTTAAA-T
64 ACTTAAAAGAA-CTTTTTAAAGT
* *
25624031 TTTCAACAGTTGTCAAGCCTCTTTTTAGAAGAG
1 TTTCAAAAGTTGTCAAGCCTCTTTTTAAAAGAG
25624064 TCTAAAAAAT
Statistics
Matches: 93, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
83 2 0.02
84 21 0.23
85 26 0.28
86 44 0.47
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (85 bp):
TTTCAAAAGTTGTCAAGCCTCTTTTTAAAAGAGCTTTTAAATTTTTAAAACTATCAAGTATCTAC
TTAAAAGAACTTTTTAAAGT
Found at i:25624788 original size:11 final size:11
Alignment explanation
Indices: 25624759--25624788 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25624749 AGTTTTTATG
*
25624759 ATTTTTTAAAA
1 ATTTTTTGAAA
25624770 ATTTTTTGAAA
1 ATTTTTTGAAA
25624781 ATTTTTTG
1 ATTTTTTG
25624789 GTTGCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (11 bp):
ATTTTTTGAAA
Done.