Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 226 of 320
Found at i:75145344 original size:120 final size:120
Alignment explanation
Indices: 75145220--75145517 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
75145210 AATTATTTTA
* * *
75145220 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
75145284 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
75145340 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
75145405 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
75145460 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
75145518 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 161 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:75145360 original size:61 final size:61
Alignment explanation
Indices: 75145293--75145480 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
75145283 TTATAGTATC
75145293 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
75145354 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
75145412 C
61 T
*
75145413 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
75145474 ATATATT
1 ATATATT
75145481 TTAATTAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:75145380 original size:15 final size:15
Alignment explanation
Indices: 75145345--75145396 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
75145335 TTAAGAATTT
*
75145345 TATTAAATTAT-ATA
1 TATTTAATTATAATA
75145359 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
75145373 TATTTAATAATAAT-
1 TATTTAATTATAATA
75145387 TATGTTAATT
1 TAT-TTAATT
75145397 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:75145489 original size:18 final size:17
Alignment explanation
Indices: 75145461--75145495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
75145451 ATTATTAAGA
*
75145461 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
75145478 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
75145496 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:75145722 original size:44 final size:45
Alignment explanation
Indices: 75145657--75145747 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
75145647 ACCTCTATTC
* * *
75145657 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
*** *
75145701 CATTCAACCAAACAGTGGATTAGTTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
75145746 CA
1 CA
75145748 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 19 0.49
45 20 0.51
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:75145749 original size:16 final size:16
Alignment explanation
Indices: 75145728--75145796 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
75145718 GATTAGTTAT
75145728 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
75145744 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
75145761 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
75145777 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
75145793 TACA
1 TACA
75145797 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:75145770 original size:33 final size:32
Alignment explanation
Indices: 75145728--75145796 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
75145718 GATTAGTTAT
75145728 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
75145761 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
75145793 TACA
1 TACA
75145797 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:75146606 original size:15 final size:15
Alignment explanation
Indices: 75146575--75146605 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
75146565 ATAATTTAAA
75146575 TTCAATACTTAAATT
1 TTCAATACTTAAATT
75146590 TTCAATACTT-AATT
1 TTCAATACTTAAATT
75146604 TT
1 TT
75146606 TTTTAGCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (15 bp):
TTCAATACTTAAATT
Found at i:75146866 original size:30 final size:29
Alignment explanation
Indices: 75146845--75146910 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
75146835 TTTTTAAACT
75146845 TAAAAA-ATAGAAGAACTAAATTCTTAAAAA
1 TAAAAATATA-AAG-ACTAAATTCTTAAAAA
* *
75146875 TAAAAATATAAAGACTAAACTCTAAAAATA
1 TAAAAATATAAAGACTAAATTCTTAAAA-A
75146905 TAAAAA
1 TAAAAA
75146911 AAAAAACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.41
30 16 0.50
31 3 0.09
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.23
Consensus pattern (29 bp):
TAAAAATATAAAGACTAAATTCTTAAAAA
Found at i:75146891 original size:29 final size:31
Alignment explanation
Indices: 75146845--75146911 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
75146835 TTTTTAAACT
*
75146845 TAAAAAATAGAAGAACTAAATTCTTAAAAATA
1 TAAAAAATAGAAGAACTAAACTC-TAAAAATA
*
75146877 -AAAATATA-AAG-ACTAAACTCTAAAAATA
1 TAAAAAATAGAAGAACTAAACTCTAAAAATA
75146905 TAAAAAA
1 TAAAAAA
75146912 AAAAACTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.26
29 13 0.42
30 3 0.10
31 7 0.23
ACGTcount: A:0.66, C:0.07, G:0.04, T:0.22
Consensus pattern (31 bp):
TAAAAAATAGAAGAACTAAACTCTAAAAATA
Found at i:75147556 original size:31 final size:31
Alignment explanation
Indices: 75147521--75147619 Score: 153
Period size: 31 Copynumber: 3.2 Consensus size: 31
75147511 AAAAAAACTT
*
75147521 AATAGTCTAGTGACTTAAATAAAAACTTTCG
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
*
75147552 AATAGTCCAATGACTTAAATAAAAACTTTCG
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
* * *
75147583 AATAGTCTAATGACTTAAATGAATACTTTCA
1 AATAGTCTAATGACTTAAATAAAAACTTTCG
75147614 AATAGT
1 AATAGT
75147620 TCAATGATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (31 bp):
AATAGTCTAATGACTTAAATAAAAACTTTCG
Found at i:75148443 original size:20 final size:19
Alignment explanation
Indices: 75148418--75148484 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
75148408 ATTCTAGAAA
75148418 TTTTATAATTTTTTAACTTT
1 TTTTATAATTTTTTAA-TTT
75148438 TTTTATATATTTTTTAGAATTT
1 TTTTATA-ATTTTTT--AATTT
* * *
75148460 GTTTAAAAATTTTATAATTT
1 -TTTTATAATTTTTTAATTT
75148480 TTTTA
1 TTTTA
75148485 AAAATATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.10
20 12 0.31
21 7 0.18
22 9 0.23
23 7 0.18
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTAATTT
Found at i:75148459 original size:10 final size:10
Alignment explanation
Indices: 75148418--75148482 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
75148408 ATTCTAGAAA
75148418 TTTTATAATT
1 TTTTATAATT
*
75148428 TTTTA-ACTTT
1 TTTTATA-ATT
75148438 TTTTATATATT
1 TTTTATA-ATT
*
75148449 TTTTAGAATT
1 TTTTATAATT
**
75148459 TGTTTA-AAAA
1 T-TTTATAATT
75148469 TTTTATAATT
1 TTTTATAATT
75148479 TTTT
1 TTTT
75148483 TAAAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
9 5 0.12
10 25 0.58
11 13 0.30
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:75148464 original size:22 final size:20
Alignment explanation
Indices: 75148419--75148464 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
75148409 TTCTAGAAAT
* *
75148419 TTTATAATTTTTTAACTTTT
1 TTTATAATTTTTTAAATTTG
75148439 TTTATATATTTTTTAGAATTTG
1 TTTATA-ATTTTTTA-AATTTG
75148461 TTTA
1 TTTA
75148465 AAAATTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATAATTTTTTAAATTTG
Found at i:75148485 original size:20 final size:20
Alignment explanation
Indices: 75148449--75148489 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
75148439 TTTATATATT
75148449 TTTTAGAATTTGTTTAAAAA
1 TTTTAGAATTTGTTTAAAAA
* *
75148469 TTTTATAATTTTTTTAAAAA
1 TTTTAGAATTTGTTTAAAAA
75148489 T
1 T
75148490 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAGAATTTGTTTAAAAA
Found at i:75148670 original size:14 final size:14
Alignment explanation
Indices: 75148651--75148681 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
75148641 GTTACTCAAG
75148651 TAATTCGAATAACT
1 TAATTCGAATAACT
*
75148665 TAATTCGATTAACT
1 TAATTCGAATAACT
75148679 TAA
1 TAA
75148682 AATTCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (14 bp):
TAATTCGAATAACT
Found at i:75148888 original size:7 final size:7
Alignment explanation
Indices: 75148876--75148906 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
75148866 CTCTCGTTCA
75148876 ATAATCT
1 ATAATCT
75148883 ATAATCT
1 ATAATCT
75148890 ATAATCT
1 ATAATCT
*
75148897 ATAATAT
1 ATAATCT
75148904 ATA
1 ATA
75148907 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (7 bp):
ATAATCT
Found at i:75152084 original size:33 final size:33
Alignment explanation
Indices: 75152039--75152109 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
75152029 TGGCTTTGAT
75152039 AAAAAAAATTAATTTAATTTCGGCTCCTTCAAC
1 AAAAAAAATTAATTTAATTTCGGCTCCTTCAAC
* *
75152072 AAAAAAATTTAATTTAATTTCGGCTCCTTCAGC
1 AAAAAAAATTAATTTAATTTCGGCTCCTTCAAC
75152105 AAAAA
1 AAAAA
75152110 TTCTGCCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (33 bp):
AAAAAAAATTAATTTAATTTCGGCTCCTTCAAC
Found at i:75158710 original size:87 final size:87
Alignment explanation
Indices: 75158600--75158799 Score: 206
Period size: 87 Copynumber: 2.3 Consensus size: 87
75158590 CGACCTACCT
* * ** * *
75158600 GCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGGATTCT-ATCCACTCCACTGTAACCTCAGGGAGATA
* *
75158664 GGATAGTG-TCTTCGATCTGCTCC
65 AGAT-CTGATCTTCGATCTGCTCC
* **
75158687 GCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCTATCTGCTCCACTGTAACCTCAGGGAGATAA
1 GCTGTAATCTCAGGGAGATAAGATCTCTGGATTCTATCCACTCCACTGTAACCTCAGGGAGATAA
* * *
75158752 GATCTGAAATTCTTTGGTCTGTTCC
66 GATCTG--A-TCTTCGATCTGCTCC
*
75158777 ACTGTAATCTCAGGGAGATAAGA
1 GCTGTAATCTCAGGGAGATAAGA
75158800 CCTGATGTGA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 52 0.56
88 5 0.05
90 34 0.37
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (87 bp):
GCTGTAATCTCAGGGAGATAAGATCTCTGGATTCTATCCACTCCACTGTAACCTCAGGGAGATAA
GATCTGATCTTCGATCTGCTCC
Found at i:75158792 original size:46 final size:44
Alignment explanation
Indices: 75158640--75158969 Score: 240
Period size: 44 Copynumber: 7.6 Consensus size: 44
75158630 TTTTAATCCA
* * *
75158640 CTCCACTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAAT-TCTTTGATCTG
* * *
75158683 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCT-ATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAAT-TCTT-TGATCTG
* *
75158727 CTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT--AATTCTTTGATCTG
* * * * *
75158773 TTCCACTGTAATCTCAGGGAGATAAGACCTGA---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATTCTTTGATCTG
* * * *
75158814 CTCTACTGTAA-CTTCAGAGAGATAAGATC-----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATTCTTTGATCTG
* * * * *
75158853 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCCTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAAT-TCTTTGATCTG
* *
75158897 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA--TCTAATTCTTTGATCTG
*
75158943 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
75158970 CCTGTATAAT
Statistics
Matches: 225, Mismatches: 42, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 23 0.10
44 70 0.31
45 2 0.01
46 69 0.31
47 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTAATTCTTTGATCTG
Found at i:75170065 original size:29 final size:31
Alignment explanation
Indices: 75170032--75170102 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
75170022 ACATCAGATT
*
75170032 TTCATGTATAA-AATTGCACA-AAA-TCAAAG
1 TTCATGTATAACAATTACACATAAACT-AAAG
*
75170061 TTCATGTA-AACAATTACACATTAAACTATAG
1 TTCATGTATAACAATTACACA-TAAACTAAAG
75170092 TTCATGTATAA
1 TTCATGTATAA
75170103 TTTTGATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
28 2 0.06
29 16 0.46
31 14 0.40
32 3 0.09
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
TTCATGTATAACAATTACACATAAACTAAAG
Found at i:75170444 original size:93 final size:93
Alignment explanation
Indices: 75170288--75170477 Score: 380
Period size: 93 Copynumber: 2.0 Consensus size: 93
75170278 TAGTTAAAAT
75170288 TTTTAAAAATTTTGAAAAAAATATTAATGAGAATTTTCAAAAGGTTCAAAGGTTTTAGTAAATTT
1 TTTTAAAAATTTTGAAAAAAATATTAATGAGAATTTTCAAAAGGTTCAAAGGTTTTAGTAAATTT
75170353 TTTAAAAAAAAAATTTGAAGCCCTTAAA
66 TTTAAAAAAAAAATTTGAAGCCCTTAAA
75170381 TTTTAAAAATTTTGAAAAAAATATTAATGAGAATTTTCAAAAGGTTCAAAGGTTTTAGTAAATTT
1 TTTTAAAAATTTTGAAAAAAATATTAATGAGAATTTTCAAAAGGTTCAAAGGTTTTAGTAAATTT
75170446 TTTAAAAAAAAAATTTGAAGCCCTTAAA
66 TTTAAAAAAAAAATTTGAAGCCCTTAAA
75170474 TTTT
1 TTTT
75170478 TTAGGGGGCG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (93 bp):
TTTTAAAAATTTTGAAAAAAATATTAATGAGAATTTTCAAAAGGTTCAAAGGTTTTAGTAAATTT
TTTAAAAAAAAAATTTGAAGCCCTTAAA
Found at i:75188269 original size:106 final size:106
Alignment explanation
Indices: 75188140--75188353 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 106
75188130 TTACCTGGCA
75188140 GAGCCTTTGGGCTGCAAAAGGGCTTCTGATGAAAGGAATAGGGTGGAGGATCGGCGATAGTCATC
1 GAGCCTTTGGGCTGCAAAAGGGCTTCTGATGAAAGGAATAGGGTGGAGGATCGGCGATAGTCATC
75188205 GCATATCGATCTAGGGTGATGCATGGGTACCTGGAAGTCTT
66 GCATATCGATCTAGGGTGATGCATGGGTACCTGGAAGTCTT
75188246 GAGCCTTTGGGCTGCAAAAGGGCTTCTGATGAAAGGAATAGGGTGGAGGATCGGCGATAGTCATC
1 GAGCCTTTGGGCTGCAAAAGGGCTTCTGATGAAAGGAATAGGGTGGAGGATCGGCGATAGTCATC
*
75188311 GCATATCGATCTGGGGTGATGCATGGGTACCTGGAAGTCTT
66 GCATATCGATCTAGGGTGATGCATGGGTACCTGGAAGTCTT
75188352 GA
1 GA
75188354 TTACAAAGTT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (106 bp):
GAGCCTTTGGGCTGCAAAAGGGCTTCTGATGAAAGGAATAGGGTGGAGGATCGGCGATAGTCATC
GCATATCGATCTAGGGTGATGCATGGGTACCTGGAAGTCTT
Found at i:75192111 original size:7 final size:7
Alignment explanation
Indices: 75192099--75192128 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
75192089 AATATGAATA
75192099 TAAACCC
1 TAAACCC
75192106 TAAACCC
1 TAAACCC
75192113 TAAACCC
1 TAAACCC
75192120 TAAACCC
1 TAAACCC
75192127 TA
1 TA
75192129 TCATTAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:75196018 original size:19 final size:19
Alignment explanation
Indices: 75195994--75196030 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
75195984 TTCTATATTA
*
75195994 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
75196013 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
75196031 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:75196091 original size:185 final size:186
Alignment explanation
Indices: 75195755--75196093 Score: 601
Period size: 185 Copynumber: 1.8 Consensus size: 186
75195745 TTTTTTAAAT
* *
75195755 TATTTTATTTTAATATTATTATATTATGTTTAGTTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
*
75195820 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTAT
66 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTAT
* *
75195885 TATCATTATTATTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
131 TATCATTAATATTACTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
75195941 TATTTTATTTTAATATCATTATATTATGTTTA-CTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
75196005 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTAT
66 ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTAT
*
75196070 TATTATTACAT-TTACTATTATTAT
131 TATCATTA-ATATTACTATTATTAT
75196094 TTATAAATAT
Statistics
Matches: 146, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
185 114 0.78
186 32 0.22
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (186 bp):
TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
ATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTACTAT
TATCATTAATATTACTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:75196094 original size:3 final size:3
Alignment explanation
Indices: 75195804--75196077 Score: 108
Period size: 3 Copynumber: 89.7 Consensus size: 3
75195794 TGAATTTCTA
* * * *
75195804 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
75195852 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
75195897 TAT TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT
* *
75195944 T-T TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT
* * *
75195986 CTA- TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
75196032 GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAC TAT TAT TAT TA
1 -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
75196078 CATTTACTAT
Statistics
Matches: 203, Mismatches: 36, Indels: 64
0.67 0.12 0.21
Matches are distributed among these distances:
2 24 0.12
3 148 0.73
4 27 0.13
5 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:75196261 original size:3 final size:3
Alignment explanation
Indices: 75196248--75196290 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
75196238 CTTTCTTTTG
* ** *
75196248 TAT TTT TAT TAT TAT TGC TAT TAT TGT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
75196291 TATATTTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:75196638 original size:11 final size:11
Alignment explanation
Indices: 75196601--75196639 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
75196591 ACATTTTTCA
*
75196601 ATATTTATTAT
1 ATATATATTAT
*
75196612 ATATATATAAT
1 ATATATATTAT
*
75196623 GTATATATTAT
1 ATATATATTAT
75196634 ATATAT
1 ATATAT
75196640 TTTAACATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (11 bp):
ATATATATTAT
Found at i:75230201 original size:16 final size:16
Alignment explanation
Indices: 75230180--75230210 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75230170 TTGCAATTAT
75230180 ATGGTTGTTGCTGGTG
1 ATGGTTGTTGCTGGTG
*
75230196 ATGGTTGTTGTTGGT
1 ATGGTTGTTGCTGGT
75230211 AATCATCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.42, T:0.48
Consensus pattern (16 bp):
ATGGTTGTTGCTGGTG
Found at i:75234221 original size:27 final size:27
Alignment explanation
Indices: 75234178--75234236 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
75234168 TTGATATGAA
75234178 AAATCTCTTTATGAATTATTTATATAT
1 AAATCTCTTTATGAATTATTTATATAT
* *
75234205 AAAT-TCTTCTATTAATTATTTATATGT
1 AAATCTCTT-TATGAATTATTTATATAT
75234232 AAATC
1 AAATC
75234237 CCCCTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (27 bp):
AAATCTCTTTATGAATTATTTATATAT
Found at i:75235388 original size:9 final size:10
Alignment explanation
Indices: 75235360--75235403 Score: 61
Period size: 11 Copynumber: 4.1 Consensus size: 10
75235350 GTCCTCGCAC
75235360 AATTCTCTCTA
1 AATTCTCTC-A
75235371 AATTCTCTCCA
1 AATTCTCT-CA
75235382 AATTCTCTCA
1 AATTCTCTCA
75235392 AATTTCTCTCA
1 AA-TTCTCTCA
75235403 A
1 A
75235404 TTTTTGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.13
11 26 0.84
12 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTCTCTCA
Found at i:75235388 original size:22 final size:22
Alignment explanation
Indices: 75235360--75235401 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
75235350 GTCCTCGCAC
75235360 AATTCTCTCTAAA-TTCTCTCCA
1 AATTCTCTC-AAATTTCTCTCCA
75235382 AATTCTCTCAAATTTCTCTC
1 AATTCTCTCAAATTTCTCTC
75235402 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAAATTTCTCTCCA
Found at i:75235420 original size:21 final size:21
Alignment explanation
Indices: 75235396--75235435 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
75235386 CTCTCAAATT
75235396 TCTC-TCAATTTTTGTCAAAGC
1 TCTCTTCAATTTTTG-CAAAGC
*
75235417 TCTCTTTAATTTTTGCAAA
1 TCTCTTCAATTTTTGCAAA
75235436 AAAGCTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (21 bp):
TCTCTTCAATTTTTGCAAAGC
Found at i:75236594 original size:7 final size:7
Alignment explanation
Indices: 75236574--75236623 Score: 82
Period size: 7 Copynumber: 7.0 Consensus size: 7
75236564 CATAATAAAA
75236574 TAGTCATT
1 TAGT-ATT
*
75236582 TCGTATT
1 TAGTATT
75236589 TAGTATT
1 TAGTATT
75236596 TAGTATT
1 TAGTATT
75236603 TAGTATT
1 TAGTATT
75236610 TAGTATT
1 TAGTATT
75236617 TAGTATT
1 TAGTATT
75236624 ACGTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
7 37 0.93
8 3 0.08
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (7 bp):
TAGTATT
Found at i:75236603 original size:21 final size:21
Alignment explanation
Indices: 75236574--75236629 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
75236564 CATAATAAAA
75236574 TAGTCATTTCGTATTTAGTATT
1 TAGT-ATTTCGTATTTAGTATT
*
75236596 TAGTATTTAGTATTTAGTATT
1 TAGTATTTCGTATTTAGTATT
*
75236617 TAGTATTACGTAT
1 TAGTATTTCGTAT
75236630 ATAACTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (21 bp):
TAGTATTTCGTATTTAGTATT
Found at i:75237173 original size:30 final size:30
Alignment explanation
Indices: 75237137--75237203 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
75237127 TCAGCGGCAT
** *
75237137 CCACACAATCAGTGGGCCCATCAATAGCAC
1 CCACACAATCACCGGGCCCATCAACAGCAC
*
75237167 CCACACAATCACCGGGCCCATCAACAGCGC
1 CCACACAATCACCGGGCCCATCAACAGCAC
75237197 CCACACA
1 CCACACA
75237204 GCCACCTGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.43, G:0.15, T:0.09
Consensus pattern (30 bp):
CCACACAATCACCGGGCCCATCAACAGCAC
Found at i:75237215 original size:30 final size:30
Alignment explanation
Indices: 75237150--75237216 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
75237140 CACAATCAGT
* *
75237150 GGGCCCATCAATAGCACCCACACAATCACC
1 GGGCCCATCAACAGCACCCACACAACCACC
* *
75237180 GGGCCCATCAACAGCGCCCACACAGCCACC
1 GGGCCCATCAACAGCACCCACACAACCACC
*
75237210 TGGCCCA
1 GGGCCCA
75237217 GCACTTCAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.46, G:0.18, T:0.07
Consensus pattern (30 bp):
GGGCCCATCAACAGCACCCACACAACCACC
Found at i:75237849 original size:15 final size:15
Alignment explanation
Indices: 75237824--75237858 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
75237814 AAATTAGCCA
*
75237824 ATATTTTTATTATTT
1 ATATATTTATTATTT
*
75237839 TTATATTTATTATTT
1 ATATATTTATTATTT
75237854 ATATA
1 ATATA
75237859 GTTTTAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATATTTATTATTT
Found at i:75237871 original size:129 final size:132
Alignment explanation
Indices: 75237722--75237967 Score: 428
Period size: 131 Copynumber: 1.9 Consensus size: 132
75237712 AGAAACTTTT
*
75237722 TTTATATAGTTTCATATAATAAAATAAAAGTTG-TTTTTAATATTTTAATTGTAC-TTTACTTTT
1 TTTATATAGTTTAATATAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
*
75237785 TTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTATTTTTATATTTAT
66 TTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTATTTTTATATTTAT
75237849 TA
131 TA
75237851 TTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTT
1 TTTATATAG-TTTAATATAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTT
*
75237915 TTTTAATTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
65 TTTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTA
75237968 AAATAAATGT
Statistics
Matches: 110, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
129 26 0.24
130 26 0.24
131 48 0.44
132 10 0.09
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (132 bp):
TTTATATAGTTTAATATAATAAAATAAAAGTTGTTTTTTAATATTTTAATTGTACTTTTACTTTT
TTTAATTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATAATTTTTATTATTTTTATATTTAT
TA
Found at i:75237996 original size:39 final size:38
Alignment explanation
Indices: 75237921--75238005 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
75237911 CTTTTTTTAA
* *
75237921 TTTTAATACAATAAATGTTCTTTTAAATTAGCCAATAAT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGCCAAT-AT
* * *
75237960 TTTTATTAAAATAAATGTTATTTTGAA-TACGGCAATAT
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GCCAATAT
75237998 TTTTAATA
1 TTTTAATA
75238006 TTTTTTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 11 0.28
39 28 0.72
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (38 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGCCAATAT
Found at i:75238012 original size:10 final size:9
Alignment explanation
Indices: 75237993--75238024 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
75237983 TGAATACGGC
75237993 AATATTTTT
1 AATATTTTT
75238002 AATATTTTTT
1 AATA-TTTTT
75238012 AATATTTTT
1 AATATTTTT
75238021 AATA
1 AATA
75238025 AAATATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
AATATTTTT
Found at i:75240176 original size:15 final size:16
Alignment explanation
Indices: 75240153--75240187 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
75240143 TTTCCTTAAA
75240153 AAACACTAAAAA-CCT
1 AAACACTAAAAACCCT
*
75240168 AAACCCTAAAAACCCT
1 AAACACTAAAAACCCT
75240184 AAAC
1 AAAC
75240188 TAAACCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.57, C:0.31, G:0.00, T:0.11
Consensus pattern (16 bp):
AAACACTAAAAACCCT
Found at i:75242041 original size:31 final size:31
Alignment explanation
Indices: 75241985--75242050 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
75241975 AAGAGTCCAA
*
75241985 TGACTTAAATAAAACCTTCTAAATAGCTCAG
1 TGACTTAAATAAAAACTTCTAAATAGCTCAG
* * * *
75242016 TGACTTAAATAAAAATTTTTGAATAGTTCAG
1 TGACTTAAATAAAAACTTCTAAATAGCTCAG
75242047 TGAC
1 TGAC
75242051 AATTTTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTCTAAATAGCTCAG
Found at i:75243441 original size:30 final size:29
Alignment explanation
Indices: 75243387--75243521 Score: 85
Period size: 30 Copynumber: 4.5 Consensus size: 29
75243377 AATTTTTTAG
*
75243387 AATTTTACTTAAAC-CTACAAAAGTTTTAAA
1 AATTTTAATTAAACTCT--AAAAGTTTTAAA
* *
75243417 AATTTTAATTAAAGCTCTATAAGTTTTAGA
1 AATTTTAATTAAA-CTCTAAAAGTTTTAAA
* * * * *
75243447 GATTTTCATTAATTCTCT-CAATTTTTAAAAAA
1 AATTTTAATTAA-ACTCTAAAAGTTTT---AAA
* *
75243479 AATTTTAATTAAACCCTAAAAATTTTAAA
1 AATTTTAATTAAACTCTAAAAGTTTTAAA
* *
75243508 AATTCTCATTAAAC
1 AATTTTAATTAAAC
75243522 CCCTCAAAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
29 21 0.26
30 36 0.44
31 4 0.05
32 20 0.25
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.41
Consensus pattern (29 bp):
AATTTTAATTAAACTCTAAAAGTTTTAAA
Found at i:75243518 original size:29 final size:31
Alignment explanation
Indices: 75243476--75243533 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
75243466 AATTTTTAAA
*
75243476 AAAAATTTTAATTAAA-CCCT-AAAAATTTT
1 AAAAATTCTAATTAAACCCCTCAAAAATTTT
*
75243505 AAAAATTCTCATTAAACCCCTCAAAAATT
1 AAAAATTCTAATTAAACCCCTCAAAAATT
75243534 CTGAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.56
30 4 0.16
31 7 0.28
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAATTCTAATTAAACCCCTCAAAAATTTT
Found at i:75247492 original size:13 final size:13
Alignment explanation
Indices: 75247474--75247498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
75247464 TAATCCACAA
75247474 GTTTCGCATGGTG
1 GTTTCGCATGGTG
75247487 GTTTCGCATGGT
1 GTTTCGCATGGT
75247499 AGAGGTGTTA
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:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (13 bp):
GTTTCGCATGGTG
Found at i:75249696 original size:29 final size:29
Alignment explanation
Indices: 75249653--75249726 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
75249643 CAATTCAAGT
* *
75249653 TTCATATGTATAATTGCAC-CAAATTAAAA
1 TTCATATATA-AATTGCACACAAATCAAAA
* *
75249682 TTCATGTATCAAATTGCACATCAGATCAAAA
1 TTCATATAT-AAATTGCACA-CAAATCAAAA
75249713 TTCATATATAAATT
1 TTCATATATAAATT
75249727 TAATATTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 15 0.41
30 6 0.16
31 16 0.43
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (29 bp):
TTCATATATAAATTGCACACAAATCAAAA
Found at i:75253867 original size:21 final size:22
Alignment explanation
Indices: 75253841--75253888 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
75253831 ATCGAAATAA
*
75253841 TAGCAAAACAATGAAAAA-CAG
1 TAGCAAAACAATAAAAAACCAG
* *
75253862 TAGCAACACAGTAAAAAACCAG
1 TAGCAAAACAATAAAAAACCAG
75253884 TAGCA
1 TAGCA
75253889 GTTTTTTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.56, C:0.19, G:0.15, T:0.10
Consensus pattern (22 bp):
TAGCAAAACAATAAAAAACCAG
Found at i:75255818 original size:20 final size:19
Alignment explanation
Indices: 75255795--75255839 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
75255785 AGGGACTAAA
75255795 ATGAAAATTTGTAAAATTTG
1 ATGAAAATTT-TAAAATTTG
*
75255815 ATGAAAAATTTTAAAATTTT
1 ATG-AAAATTTTAAAATTTG
75255835 ATGAA
1 ATGAA
75255840 TACATGTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (19 bp):
ATGAAAATTTTAAAATTTG
Found at i:75256706 original size:19 final size:20
Alignment explanation
Indices: 75256677--75256716 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
75256667 CAATAGACAT
75256677 AAAACTCTTGACATGGCATG
1 AAAACTCTTGACATGGCATG
* *
75256697 AAAA-TCTTGAGATGGTATG
1 AAAACTCTTGACATGGCATG
75256716 A
1 A
75256717 TAATGACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (20 bp):
AAAACTCTTGACATGGCATG
Found at i:75267141 original size:19 final size:19
Alignment explanation
Indices: 75267117--75267154 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
75267107 CGGATACCTA
75267117 TAAAATAAATCCATATGTT
1 TAAAATAAATCCATATGTT
*
75267136 TAAAATAAATCTATATGTT
1 TAAAATAAATCCATATGTT
75267155 ATCCCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAATAAATCCATATGTT
Found at i:75270209 original size:46 final size:46
Alignment explanation
Indices: 75270162--75270430 Score: 342
Period size: 46 Copynumber: 5.8 Consensus size: 46
75270152 GCTCTCTGAT
** * *
75270162 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
75270208 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACTACTTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
75270254 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
75270300 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
75270346 ATGAAATGAATAAGACCATGGCTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
75270392 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
75270431 TCATATCAAA
Statistics
Matches: 197, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 196 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:75270416 original size:138 final size:138
Alignment explanation
Indices: 75270172--75270430 Score: 385
Period size: 138 Copynumber: 1.9 Consensus size: 138
75270162 ATGAAATGTG
* ** *
75270172 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGCTGAAAGA
* * * * *
75270237 TACCATGACTACTTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGACAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
75270302 GAAATGAA
131 GAAATGAA
* *
75270310 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGCTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGCTGAAAGA
* *
75270375 TACCATGACAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
66 TACCATGACAACATGACATG-AAATGAATAAGACCATAGTTGAAAGACACCATGGCA
75270431 TCATATCAAA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
137 1 0.01
138 106 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGCTGAAAGA
TACCATGACAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATGAA
Found at i:75279716 original size:14 final size:15
Alignment explanation
Indices: 75279692--75279722 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
75279682 ATATATATTT
75279692 ATAATTATTAAATAA
1 ATAATTATTAAATAA
75279707 ATAA-TATTAAATAA
1 ATAATTATTAAATAA
75279721 AT
1 AT
75279723 TTTAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATTATTAAATAA
Found at i:75281239 original size:37 final size:38
Alignment explanation
Indices: 75281164--75281245 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
75281154 TAAATCAAAA
*
75281164 TTTC-TCATTTTGGAGAAACTAATTGTGATGTCATTTT
1 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
75281201 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
1 TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
75281239 TTTCTTC
1 TTTCTTC
75281246 TAGATAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.51
Consensus pattern (38 bp):
TTTCTTCATTTTGAAGAAACTAATTGTGATGTCATTTT
Found at i:75292795 original size:32 final size:34
Alignment explanation
Indices: 75292759--75292823 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
75292749 TAACAGTGGT
*
75292759 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
75292791 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
75292824 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:75294700 original size:26 final size:26
Alignment explanation
Indices: 75294669--75294776 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
75294659 TGAAATGCCC
*
75294669 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
75294695 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
75294721 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
75294747 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
75294773 ATCA
1 ATCA
75294777 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:75299821 original size:32 final size:34
Alignment explanation
Indices: 75299785--75299849 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
75299775 TAATAGTGGT
*
75299785 ACTGGACCAGAGCCC-TT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCTTTATTCAGATAACAATAA
* **
75299817 ACTGGGCCTTAGCCCTTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCTTTATTCAGATAACAATA
75299850 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 2 0.07
34 13 0.48
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (34 bp):
ACTGGACCAGAGCCCTTTATTCAGATAACAATAA
Found at i:75301731 original size:26 final size:26
Alignment explanation
Indices: 75301694--75301802 Score: 182
Period size: 26 Copynumber: 4.2 Consensus size: 26
75301684 ATGAAATGCC
*
75301694 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
*
75301720 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
75301746 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
75301772 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
75301798 TATCA
1 TATCA
75301803 ATTGGTACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:75305973 original size:47 final size:47
Alignment explanation
Indices: 75305902--75306011 Score: 120
Period size: 47 Copynumber: 2.3 Consensus size: 47
75305892 ACGATATATG
*
75305902 AATATATACAT-ATATGTATTAAAATATATACGTAATAATAG-GAGTAAA
1 AATATATACATAATATGTA-TAAAATATATACATAAT-ATAGCG-GTAAA
* *
75305950 AGATATATACATAATAT-TA-AAAATATGTACATAATATAGCGTTAAA
1 A-ATATATACATAATATGTATAAAATATATACATAATATAGCGGTAAA
*
75305996 AATACATACATAATAT
1 AATATATACATAATAT
75306012 AGTTCTTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 14 0.25
46 9 0.16
47 15 0.27
48 1 0.02
49 12 0.22
50 4 0.07
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (47 bp):
AATATATACATAATATGTATAAAATATATACATAATATAGCGGTAAA
Found at i:75305980 original size:20 final size:21
Alignment explanation
Indices: 75305946--75305986 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
75305936 ATAATAGGAG
75305946 TAAAAGATATATACATAATAT
1 TAAAAGATATATACATAATAT
*
75305967 TAAAA-ATATGTACATAATAT
1 TAAAAGATATATACATAATAT
75305987 AGCGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
TAAAAGATATATACATAATAT
Found at i:75306005 original size:25 final size:25
Alignment explanation
Indices: 75305902--75306035 Score: 97
Period size: 27 Copynumber: 5.5 Consensus size: 25
75305892 ACGATATATG
*
75305902 AATATATACAT-ATAT-GTATT-AA
1 AATATATACATAATATAGTCTTAAA
* ***
75305924 AATATATACGTAATAATAGGAGTAAA
1 AATATATACATAAT-ATAGTCTTAAA
75305950 AGATATATACAT-A-ATA---TTAAA
1 A-ATATATACATAATATAGTCTTAAA
*
75305971 AATATGTACATAATATAG-CGTTAAA
1 AATATATACATAATATAGTC-TTAAA
*
75305996 AATACATACATAATATAGTTCTTAAAA
1 AATATATACATAATATAG-TCTT-AAA
75306023 AATATATACATAA
1 AATATATACATAA
75306036 GATAATATGT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
20 9 0.10
21 6 0.07
22 13 0.14
23 2 0.02
24 5 0.06
25 24 0.27
26 6 0.07
27 25 0.28
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (25 bp):
AATATATACATAATATAGTCTTAAA
Found at i:75306158 original size:24 final size:22
Alignment explanation
Indices: 75306112--75306175 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 22
75306102 TTAAAAAGAT
*
75306112 ATATATACGTAATATATAAAAA
1 ATATATACATAATATATAAAAA
* *
75306134 ATGTATACATAATATAGTATTAAA
1 ATATATACATAATATA-TA-AAAA
* *
75306158 ATATTTACATAGTATATA
1 ATATATACATAATATATA
75306176 CATATTAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 14 0.41
23 4 0.12
24 16 0.47
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATATACATAATATATAAAAA
Found at i:75306243 original size:23 final size:23
Alignment explanation
Indices: 75306202--75306280 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
75306192 AAACGACTAT
*
75306202 TAATAATACTACATAAATATATACA
1 TAATAATATTA-A-AAATATATACA
*
75306227 T-ATATATATTAAAAATAAATACA
1 TAATA-ATATTAAAAATATATACA
* *
75306250 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
75306273 TAA-AATAT
1 TAATAATAT
75306281 ATACATATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 5 0.11
23 29 0.62
24 7 0.15
25 6 0.13
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:75306353 original size:24 final size:24
Alignment explanation
Indices: 75306273--75306353 Score: 58
Period size: 26 Copynumber: 3.2 Consensus size: 24
75306263 AGTATGTACA
*
75306273 TAAAATATATACATATGATATAGTTAT
1 TAAAAAATATACATA--ATATAG-TAT
* *
75306300 T-GAAAATATGCACATAATACATGTA-
1 TAAAAAATAT--ACATAATATA-GTAT
*
75306325 AAAAAAATATACATAATATAGTAT
1 TAAAAAATATACATAATATAGTAT
75306349 TAAAA
1 TAAAA
75306354 GTATAGTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
23 3 0.07
24 13 0.31
26 19 0.45
27 2 0.05
28 5 0.12
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
TAAAAAATATACATAATATAGTAT
Found at i:75306360 original size:14 final size:14
Alignment explanation
Indices: 75306341--75306367 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75306331 ATATACATAA
75306341 TATAGTATTAAAAG
1 TATAGTATTAAAAG
75306355 TATAGTATTAAAA
1 TATAGTATTAAAA
75306368 AAACATGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
TATAGTATTAAAAG
Found at i:75306515 original size:27 final size:28
Alignment explanation
Indices: 75306434--75306516 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 28
75306424 TATATACATA
* *
75306434 AATATATACAATAATAATAATCATAAAAAT
1 AATATATATAATAATGATAAT-A-AAAAAT
* *
75306464 AATATAAATAAT-ATG-TACATGAAAAAT
1 AATATATATAATAATGATA-ATAAAAAAT
75306491 AATA-ATATAATAATGATAATAAAAAA
1 AATATATATAATAATGATAATAAAAAA
75306517 CAAAAAAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
26 6 0.14
27 20 0.45
28 4 0.09
29 4 0.09
30 10 0.23
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (28 bp):
AATATATATAATAATGATAATAAAAAAT
Found at i:75308355 original size:71 final size:71
Alignment explanation
Indices: 75308238--75308392 Score: 240
Period size: 71 Copynumber: 2.2 Consensus size: 71
75308228 TTGAAAAACG
*
75308238 GAAATTGAAAAAACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
75308303 GA-AACA
65 GACAACA
* * * *
75308309 TAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTG
1 GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
75308374 ACGAACA
66 AC-AACA
75308381 GAAATTGAAAAA
1 GAAATTGAAAAA
75308393 TAGAAATTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 6 0.08
71 55 0.73
72 14 0.19
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (71 bp):
GAAATTGAAAAAACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
ACAACA
Found at i:75308450 original size:88 final size:86
Alignment explanation
Indices: 75308310--75308480 Score: 238
Period size: 88 Copynumber: 2.0 Consensus size: 86
75308300 TTTGAAACAT
* * *
75308310 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGA-TTTTG
1 AAATTGAAAATACCTCAGCGTGGCCAGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
75308374 ACGAACAGAAATTGAAAAATAG
66 ACGAACAGAAATT-AAAAATAG
*
75308396 AAATTGAAAATACCTCAGCATGTGAGCCAG-GGCTTAACTCACCTCTCGTAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGC--GTG-GCCAGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TT
*
75308460 TTTGATGAACAGAAATTAAAA
62 TTTGACGAACAGAAATTAAAA
75308481 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
86 19 0.25
88 32 0.43
89 7 0.09
90 17 0.23
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (86 bp):
AAATTGAAAATACCTCAGCGTGGCCAGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
ACGAACAGAAATTAAAAATAG
Found at i:75308525 original size:162 final size:156
Alignment explanation
Indices: 75308177--75308553 Score: 497
Period size: 162 Copynumber: 2.4 Consensus size: 156
75308167 CGGCATGTGA
* * * *
75308177 CCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTGAAACATAAATTGAAAAACGGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAACAGAAA
* ** *
75308242 TTGAAAAAACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
66 TTGAAAAAACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
75308307 CATAAATTGAAAATACCTCAGCGTGT
131 CAGAAATTGAAAATACCTCAGCGTGT
* * *
75308333 CCCGAGGCTCAACTCACTTCTCGTAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAATAGA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AACAGAAATTGAAAAACAGA
* * *
75308397 AATTGAAAATACCTCAGCATGTGAGCCAGGGCTTAACTCACCTCTCGTAATATGAGTTGATTTTT
64 AATTGAAAAAACCTCAGCATGT-AGCCA-GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
75308462 TGATGAACAGAAATT-AAAATTACCTCAGCGTGT
126 TGA--AACAGAAATTGAAAA-TACCTCAGCGTGT
* *
75308495 CCTGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AA-ACAGAAATTGAAA
75308554 GTACCTCAAC
Statistics
Matches: 191, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
155 6 0.03
156 32 0.17
157 37 0.19
158 2 0.01
159 29 0.15
160 7 0.04
161 4 0.02
162 55 0.29
163 18 0.09
164 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (156 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTGAAAAACAGAAA
TTGAAAAAACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
CAGAAATTGAAAATACCTCAGCGTGT
Found at i:75308573 original size:73 final size:72
Alignment explanation
Indices: 75308426--75308624 Score: 283
Period size: 73 Copynumber: 2.7 Consensus size: 72
75308416 TGTGAGCCAG
* * * * * *
75308426 GGCTTAACTCACCTCTCGTAATATGAGTTGATTTTTTGATGAACAGAAATTAAAATTACCTCAGC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAG-ACAGAAATTGAAAGTACCTCAAC
75308491 GTGTCCTGA
64 GTGTCCTGA
*
75308500 GGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTGAAAGACAGAAATTGAAAGTACCTCAACG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAGACAGAAATTGAAAGTACCTCAACG
*
75308565 TGTTCTGA
65 TGTCCTGA
*
75308573 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA-ACAGAAATAGAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGACAGAAATTGAAA
75308625 CATCAGAATA
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
71 12 0.11
72 2 0.02
73 70 0.61
74 30 0.26
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (72 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGACAGAAATTGAAAGTACCTCAACGT
GTCCTGA
Found at i:75324623 original size:4 final size:4
Alignment explanation
Indices: 75324585--75324612 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
75324575 ATGTATATGC
75324585 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
75324613 TTAAATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:75328597 original size:27 final size:25
Alignment explanation
Indices: 75328530--75328644 Score: 85
Period size: 25 Copynumber: 4.6 Consensus size: 25
75328520 ATATACATAA
*
75328530 TATTAAAAATATGTACATAATATAG
1 TATTAAAAATATATACATAATATAG
** * *
75328555 CGTTAAAAGTACATACATAATATAG
1 TATTAAAAATATATACATAATATAG
* *
75328580 TTATTAAAAAATATATACATAAGATAA
1 -TATT-AAAAATATATACATAATATAG
*
75328607 TATGTAAAAA-A-AT--GTAATATAG
1 TAT-TAAAAATATATACATAATATAG
* *
75328629 TATTAGAAACATATAC
1 TATTAAAAATATATAC
75328645 GTGACATATA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
21 5 0.07
22 10 0.15
23 2 0.03
24 2 0.03
25 21 0.31
26 10 0.15
27 18 0.26
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATAG
Found at i:75328724 original size:24 final size:22
Alignment explanation
Indices: 75328678--75328848 Score: 72
Period size: 23 Copynumber: 7.8 Consensus size: 22
75328668 TTAAAAAGAT
*
75328678 ATATATACGTAATATATAAAAA
1 ATATATACATAATATATAAAAA
* *
75328700 ATGTATACATAATATAGTATTAAA
1 ATATATACATAATATA-TA-AAAA
* * *
75328724 ATATTTACATAGTATAT---AC
1 ATATATACATAATATATAAAAA
*
75328743 ATAT-TAGA-AATA-A-AAAAA
1 ATATATACATAATATATAAAAA
* *
75328761 ATGACTATTA-ATAATACTA-CATAA
1 AT-A-TA-TACATAATA-TATAAAAA
*
75328785 ATATATACATATATATATTAAAA
1 ATATATACATA-ATATATAAAAA
* *
75328808 ATAAATACATAATAATATTAAAA
1 ATATATACATAAT-ATATAAAAA
* * *
75328831 GTATGTACATAAAATATA
1 ATATATACATAATATATA
75328849 TACATATGAT
Statistics
Matches: 113, Mismatches: 20, Indels: 32
0.68 0.12 0.19
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 6 0.05
19 6 0.05
20 1 0.01
21 3 0.03
22 33 0.29
23 38 0.34
24 22 0.19
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.34
Consensus pattern (22 bp):
ATATATACATAATATATAAAAA
Found at i:75328810 original size:23 final size:23
Alignment explanation
Indices: 75328769--75328847 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
75328759 AAATGACTAT
*
75328769 TAATAATACTACATAAATATATACA
1 TAATAATATTA-A-AAATATATACA
*
75328794 T-ATATATATTAAAAATAAATACA
1 TAATA-ATATTAAAAATATATACA
* *
75328817 TAATAATATTAAAAGTATGTACA
1 TAATAATATTAAAAATATATACA
75328840 TAA-AATAT
1 TAATAATAT
75328848 ATACATATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
22 5 0.11
23 29 0.62
24 7 0.15
25 6 0.13
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (23 bp):
TAATAATATTAAAAATATATACA
Found at i:75329144 original size:3 final size:3
Alignment explanation
Indices: 75329109--75329242 Score: 69
Period size: 3 Copynumber: 44.0 Consensus size: 3
75329099 CATATAAGTG
* * * * *
75329109 TAA TAA TAG TAA TTA TAA TAC TAA TAC TAA TAA TAA -ATA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * *
75329154 TAG TAA AAA TAA -ATA CAA TAA TAA TAA TCA TAA AAA TAA T-A TAAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
75329199 TAA TATG TACA TGAA AAA TAA TAA TAA T-A TAA TAA TGA TAA TAA
1 TAA TA-A TA-A T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
75329243 AAAACAAAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
2 6 0.06
3 83 0.85
4 8 0.08
5 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:75330012 original size:21 final size:22
Alignment explanation
Indices: 75329979--75330022 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
75329969 AAAAATCACC
75329979 TTTGTTTCCGATT-T-TGATTT
1 TTTGTTTCCGATTCTCTGATTT
*
75329999 TTTGTTTTCTGATTCTCTGATTT
1 TTTG-TTTCCGATTCTCTGATTT
75330022 T
1 T
75330023 GGGTTCGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 1 0.05
23 7 0.35
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTGTTTCCGATTCTCTGATTT
Found at i:75331103 original size:51 final size:49
Alignment explanation
Indices: 75331034--75331278 Score: 171
Period size: 49 Copynumber: 4.9 Consensus size: 49
75331024 TATCATGGCG
* * *
75331034 AATCTAGTTCC-CTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGTCATA
1 AATCTAGTACCTCTAAAGTTGCAGTGGAATAGATTTAAGCTACAAGGC--A
* * * * * *
75331084 AATCTTA-TACCTCTAAAGTTACAGTAGGACT-GATTGAAGTTATCATGGCG
1 AATC-TAGTACCTCTAAAGTTGCAGT-GGAATAGATTTAAGCTA-CAAGGCA
* * *
75331134 AATCTAGTTCCT-TGAAGTTGCAGTGGAATAGATTTAAGCTACAAGTCATA
1 AATCTAGTACCTCTAAAGTTGCAGTGGAATAGATTTAAGCTACAAGGC--A
* * * * * *
75331184 AATCTTA-TACCTCTAAAGTTACAGTAGGACT-GATTGAAGTTATCATGGCG
1 AATC-TAGTACCTCTAAAGTTGCAGT-GGAATAGATTTAAGCTA-CAAGGCA
* *
75331234 AATCTAGTTCC-CTGAAGTTGCAGTGGAATAGATTTAAGCTACAAG
1 AATCTAGTACCTCTAAAGTTGCAGTGGAATAGATTTAAGCTACAAG
75331279 CCTTATCTCC
Statistics
Matches: 147, Mismatches: 34, Indels: 30
0.70 0.16 0.14
Matches are distributed among these distances:
48 15 0.10
49 43 0.29
50 30 0.20
51 43 0.29
52 16 0.11
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (49 bp):
AATCTAGTACCTCTAAAGTTGCAGTGGAATAGATTTAAGCTACAAGGCA
Found at i:75331156 original size:100 final size:100
Alignment explanation
Indices: 75331015--75331278 Score: 519
Period size: 100 Copynumber: 2.6 Consensus size: 100
75331005 TAGTGGGATG
75331015 GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGT
1 GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGT
75331080 CATAAATCTTATACCTCTAAAGTTACAGTAGGACT
66 CATAAATCTTATACCTCTAAAGTTACAGTAGGACT
*
75331115 GATTGAAGTTATCATGGCGAATCTAGTTCCTTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGT
1 GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGT
75331180 CATAAATCTTATACCTCTAAAGTTACAGTAGGACT
66 CATAAATCTTATACCTCTAAAGTTACAGTAGGACT
75331215 GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAG
1 GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAG
75331279 CCTTATCTCC
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 162 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (100 bp):
GATTGAAGTTATCATGGCGAATCTAGTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGT
CATAAATCTTATACCTCTAAAGTTACAGTAGGACT
Found at i:75331335 original size:45 final size:44
Alignment explanation
Indices: 75331242--75331580 Score: 257
Period size: 44 Copynumber: 7.5 Consensus size: 44
75331232 CGAATCTAGT
* ** * * * **
75331242 TCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGCCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
* * *
75331286 TCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATT
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTATC
* * * *
75331331 TCCCTAAAGTTGCAATGGAATAGATTAAAGCTGAAAATTACAAATCTTATC
1 TCCCTAAAGTTGCAGTGG---AG--CAGA-CTGAAGA-TACAAATCTTATC
* * * * *
75331382 TCCTTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAACCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTATC
* * * * ** * *
75331427 TCTCTGAAGTTGCAATAGAGCAGGTTGAA-ATTACAATTCTTCTC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TACAAATCTTATC
** *
75331471 TCCCTGGAGTTGCAGTGGAGCAGACTGAAGATACCAATCTTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
* * * * *
75331515 TCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCCTATC
1 TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
75331559 TCCCTAAAGTTGCAGTGGAGCA
1 TCCCTAAAGTTGCAGTGGAGCA
75331581 AATTAAAGCA
Statistics
Matches: 234, Mismatches: 50, Indels: 22
0.76 0.16 0.07
Matches are distributed among these distances:
44 129 0.55
45 64 0.27
46 3 0.01
48 4 0.02
50 2 0.01
51 30 0.13
52 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCCCTAAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTATC
Found at i:75331355 original size:89 final size:89
Alignment explanation
Indices: 75331242--75331580 Score: 313
Period size: 89 Copynumber: 3.7 Consensus size: 89
75331232 CGAATCTAGT
* * * * * *
75331242 TCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGCCTTATCTCCCTAAAGTTGCAGTAGAGC
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
*
75331307 AGACTGAAGATAGCGAATCTTATT
66 AGACTGAAGATAGCGAATCTTATC
* * * * *
75331331 TCCCTAAAGTTGCAATGGAATAGATTAAAGCTGAAAATTACAAATCTTATCTCCTTGAAGTTGCA
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCT-ACAA-T-C----CTTATCTCCCTAAAGTTGCA
* * * *
75331396 GTGGAGCAAATTGAAGATAGCAAACCTTATC
59 GTGGAGCAGACTGAAGATAGCGAATCTTATC
* * * * * ** * * **
75331427 TCTCTGAAGTTGCAATAGAGCAGGTTGAAATTACAATTCTTCTCTCCCTGGAGTTGCAGTGGAGC
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
*
75331492 AGACTGAAGATA-CCAATCTTATC
66 AGACTGAAGATAGCGAATCTTATC
** *
75331515 TCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCC-TATCTCCCTAAAGTTGCAGTGGAG
1 TCCCTAAAGTTGCAATGGAACAGATTGAAGCTA-CAATCCTTATCTCCCTAAAGTTGCAGTGGAG
75331579 CA
65 CA
75331581 AATTAAAGCA
Statistics
Matches: 199, Mismatches: 43, Indels: 17
0.77 0.17 0.07
Matches are distributed among these distances:
88 57 0.29
89 68 0.34
90 3 0.02
92 1 0.01
94 1 0.01
95 3 0.02
96 66 0.33
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (89 bp):
TCCCTAAAGTTGCAATGGAACAGATTGAAGCTACAATCCTTATCTCCCTAAAGTTGCAGTGGAGC
AGACTGAAGATAGCGAATCTTATC
Found at i:75331411 original size:96 final size:90
Alignment explanation
Indices: 75331280--75331528 Score: 268
Period size: 96 Copynumber: 2.7 Consensus size: 90
75331270 AGCTACAAGC
* * * *
75331280 CTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGC-
*
75331345 ATGGAATAGATTAAAGCTGAAAATTACAAAT
65 A---AATAGA-GAAAGCTG-AAATTACAAAT
* * * * * *
75331376 CTTATCTCCTTGAAGTTGCAGTGGAGCAAATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGC-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
* * * *
75331440 AATAGAGCAGGTTGAAATTACAATT
66 AATAGAGAAAGCTGAAATTACAAAT
* * *
75331465 CTTCTCTCCCTGGAGTTGCAGTGGAGCAGACTGAAGATA-CCAATCTTATCTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
75331529 GCGGAGCAGA
Statistics
Matches: 128, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
88 20 0.16
89 44 0.34
90 4 0.03
91 6 0.05
96 54 0.42
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (90 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCA
AATAGAGAAAGCTGAAATTACAAAT
Found at i:75331760 original size:141 final size:141
Alignment explanation
Indices: 75331506--75331787 Score: 422
Period size: 141 Copynumber: 2.0 Consensus size: 141
75331496 TGAAGATACC
* * * *
75331506 AATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTG
1 AATCTTATCACCCTAAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTA
*
75331571 CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTTTGAAGTTACAGTAGGTCGAATTAAATCTA
66 CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCTA
75331636 CTATAACTACA
131 CTATAACTACA
* *
75331647 AATCTTATCACCCTGAAA-TTGCAACGGAACAGATTGAAGCTACTAATCCTATCTCCCTGAAGTT
1 AATCTTATCACCCT-AAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTT
* ** ** * *
75331711 ATAGTGGAGCGGATTAAAGTGACAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCT
65 ACAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCT
75331776 ACTATAACTACA
130 ACTATAACTACA
75331788 GGTTGCATGG
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
141 123 0.98
142 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (141 bp):
AATCTTATCACCCTAAAGTTGCAACGGAACAGATTGAAGCTACCAATCCTATCTCCCTAAAGTTA
CAGTGGAGCAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTAGGTCGAATTAAATCTA
CTATAACTACA
Found at i:75340715 original size:104 final size:104
Alignment explanation
Indices: 75340532--75340834 Score: 367
Period size: 104 Copynumber: 2.9 Consensus size: 104
75340522 GAAAAATCGT
* ** *
75340532 AGGCTGCGAAT-TTAAATTAGCTAGACC-TAGTAAAACCAGCTGTGAATATAGGTCATCGAGCTG
1 AGGCTGC-AATCTTAAATTAGCTAG-CCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGAGCTG
* * *
75340595 TTAGGAGTTGCAATATTAAATCAACTAACTCAAATTATTAG
64 TTAGGAGTTGCGATATTAAATCAACTAACTCAAATAATCAG
* * *
75340636 AGGCTGCAATCTTAATTTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGTTCAGCGAGCTGTT
1 AGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGAGCTGTT
* * * *
75340701 AGGAGTTGCGATATTAAACCAGCTAACTCTAATAATCGG
66 AGGAGTTGCGATATTAAATCAACTAACTCAAATAATCAG
* * * * * * **
75340740 AGGTTGCGATCTTAAATCAGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAATAAGCTGTT
1 AGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGAGCTGTT
*
75340805 AGGAGTTGCGATATTAAATCAACTAGCTCA
66 AGGAGTTGCGATATTAAATCAACTAACTCA
75340835 TAAAATTGGA
Statistics
Matches: 169, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
103 5 0.03
104 164 0.97
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (104 bp):
AGGCTGCAATCTTAAATTAGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGGTCAACGAGCTGTT
AGGAGTTGCGATATTAAATCAACTAACTCAAATAATCAG
Found at i:75340851 original size:104 final size:105
Alignment explanation
Indices: 75340590--75340888 Score: 361
Period size: 104 Copynumber: 2.9 Consensus size: 105
75340580 TAGGTCATCG
* * * * * * *
75340590 AGCTGTTAGGAGTTGCAATATTAAATCAACTAACTCA-AATTATTAGAGGCTGCAATCTTAATTT
1 AGCTGTTAGGAGTTGCGATATTAAATCAACTAACTCATAATAATTGGAGGTTGCGATCTTAAATC
* * ** * *
75340654 AGCTAGCCTTAGTAAAATCAGCTGTGAACGTAGTTCAGCG
66 AGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
* * *
75340694 AGCTGTTAGGAGTTGCGATATTAAACCAGCTAACTC-TAATAATCGGAGGTTGCGATCTTAAATC
1 AGCTGTTAGGAGTTGCGATATTAAATCAACTAACTCATAATAATTGGAGGTTGCGATCTTAAATC
*
75340758 AGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAATA
66 AGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
* ** *
75340798 AGCTGTTAGGAGTTGCGATATTAAATCAACTAGCTCATAA-AATTGGAAATTGCGATATTAAATC
1 AGCTGTTAGGAGTTGCGATATTAAATCAACTAACTCATAATAATTGGAGGTTGCGATCTTAAATC
* **
75340862 ATCTAGCCTTAAAAAAATTAGTTGTGA
66 AGCTAGCCTTAGTAAAATTAGTTGTGA
75340889 GAATCGAATG
Statistics
Matches: 166, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
104 163 0.98
105 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (105 bp):
AGCTGTTAGGAGTTGCGATATTAAATCAACTAACTCATAATAATTGGAGGTTGCGATCTTAAATC
AGCTAGCCTTAGTAAAATTAGTTGTGAACGTAGGCCAACA
Found at i:75349228 original size:3 final size:3
Alignment explanation
Indices: 75349220--75349413 Score: 66
Period size: 3 Copynumber: 65.7 Consensus size: 3
75349210 TAGTAATAGG
* * * * *
75349220 AAT AAT AAT AAT -AT ATT AAT GAT AAC GAT AAT AGAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* ** * * *
75349265 AAA AAT AAT AA- AAT -AT GTT AAC AAG GAT AAT AAT AAT -AT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
75349308 AAT GAAG AAT TAT AAT GCATT AAT AA- AAT CAAG AAT AAT AAT AAC AAC
1 AAT -AAT AAT AAT AAT --AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
**
75349356 AAT AAT ACA- AAT AAT AAT ACAT AA- AA- AAT GGT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
**
75349400 AAT GGT AAT AAT AA
1 AAT AAT AAT AAT AA
75349414 CTTTAAAAAT
Statistics
Matches: 138, Mismatches: 38, Indels: 30
0.67 0.18 0.15
Matches are distributed among these distances:
2 19 0.14
3 107 0.78
4 10 0.07
5 2 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:75351145 original size:15 final size:15
Alignment explanation
Indices: 75351122--75351151 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
75351112 GTTATGAAAA
*
75351122 ATTTCTATATAAATT
1 ATTTATATATAAATT
75351137 ATTTATATATAAATT
1 ATTTATATATAAATT
75351152 CCCCTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATATATAAATT
Found at i:75352999 original size:3 final size:3
Alignment explanation
Indices: 75352993--75353050 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
75352983 ATGAATGATG
75352993 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
75353041 ATA ATA ATA A
1 ATA ATA ATA A
75353051 AAGGGATAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:75355584 original size:19 final size:19
Alignment explanation
Indices: 75355560--75355611 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
75355550 AAATTTTTAT
75355560 AAATATTTTGAATCTTAAA
1 AAATATTTTGAATCTTAAA
* * *
75355579 AAATATTTTAAATTTTTGAA
1 AAATATTTTGAA-TCTTAAA
*
75355599 AATTATTTTGAAT
1 AAATATTTTGAAT
75355612 TATTTTGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (19 bp):
AAATATTTTGAATCTTAAA
Found at i:75356765 original size:3 final size:3
Alignment explanation
Indices: 75356759--75356808 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
75356749 TAATATAAGT
75356759 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
75356807 AA
1 AA
75356809 TAATAATAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:75356984 original size:12 final size:12
Alignment explanation
Indices: 75356950--75356984 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
75356940 ATTGAATAAA
75356950 TAAATAAAATAT
1 TAAATAAAATAT
* *
75356962 TAAACAGAATAT
1 TAAATAAAATAT
75356974 TAAATAAAATA
1 TAAATAAAATA
75356985 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:75360913 original size:26 final size:26
Alignment explanation
Indices: 75360877--75360929 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
75360867 TCTACGAGTT
75360877 CATTTTTCAGATTTGGTGGTTTTGAA
1 CATTTTTCAGATTTGGTGGTTTTGAA
75360903 CATTTTTCAGATTTGGTGGTTTTGAA
1 CATTTTTCAGATTTGGTGGTTTTGAA
75360929 C
1 C
75360930 CACTATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.49
Consensus pattern (26 bp):
CATTTTTCAGATTTGGTGGTTTTGAA
Found at i:75361075 original size:44 final size:44
Alignment explanation
Indices: 75361033--75361181 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
75361023 CTCTACTGCT
* * *
75361033 ACTTCAGGGAGATAAGGTTAATGGTTTTAATCTGTTTCACTGCA
1 ACTTCAGGGAGATAAGGTTAATGGTTTTAATCTGCTCCACTACA
* ** * * * ** *
75361077 ACTTCAGGGAAATAAAATTTACT-ATCTTCAGCCTGCTCCACTACT
1 ACTTCAGGGAGAT-AAGGTTAATGGT-TTTAATCTGCTCCACTACA
* *
75361122 ACTTCAGGGAGATAAGGTTAATGGCTTTAATTTGCTCCACTACA
1 ACTTCAGGGAGATAAGGTTAATGGTTTTAATCTGCTCCACTACA
*
75361166 ACTTTAGGGAGATAAG
1 ACTTCAGGGAGATAAG
75361182 ATTTGCCATG
Statistics
Matches: 78, Mismatches: 24, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
44 48 0.62
45 30 0.38
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGGTTAATGGTTTTAATCTGCTCCACTACA
Found at i:75361124 original size:89 final size:89
Alignment explanation
Indices: 75360967--75361185 Score: 276
Period size: 89 Copynumber: 2.5 Consensus size: 89
75360957 GGCTATTACA
* * *** * * *
75360967 GCTTAAATCTGTTCCACTGCAACTTTAGGGAAATAATATCCGCTATCTTTAACCTACTCTACTGC
1 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAATTTACTATCTTCAACCTACTCCACTAC
75361032 TACTTCAGGGAGATAAGGTTAATG
66 TACTTCAGGGAGATAAGGTTAATG
* * * * *
75361056 GTTTTAATCTGTTTCACTGCAACTTCAGGGAAATAAAATTTACTATCTTCAGCCTGCTCCACTAC
1 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAATTTACTATCTTCAACCTACTCCACTAC
75361121 TACTTCAGGGAGATAAGGTTAATG
66 TACTTCAGGGAGATAAGGTTAATG
* * * * *
75361145 GCTTTAATTTGCTCCACTACAACTTTAGGGAGATAAGATTT
1 GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAATTT
75361186 GCCATGGTAG
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
89 109 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
GCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAAATTTACTATCTTCAACCTACTCCACTAC
TACTTCAGGGAGATAAGGTTAATG
Found at i:75375515 original size:9 final size:9
Alignment explanation
Indices: 75375501--75375526 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
75375491 TAATATAAGT
75375501 AACAACAAC
1 AACAACAAC
75375510 AACAACAAC
1 AACAACAAC
75375519 AACAACAA
1 AACAACAA
75375527 TAATAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAACAAC
Found at i:75379914 original size:12 final size:12
Alignment explanation
Indices: 75379897--75379923 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
75379887 TTAAGTTTGA
75379897 AATTTATTATCG
1 AATTTATTATCG
75379909 AATTTATTATCG
1 AATTTATTATCG
75379921 AAT
1 AAT
75379924 CTACTGGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTTATTATCG
Found at i:75383769 original size:20 final size:20
Alignment explanation
Indices: 75383746--75383792 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
75383736 AGAGATACAT
*
75383746 ATATATAACAAGACATATAG
1 ATATATAACAAGACATAAAG
* *
75383766 ATATATAATAAGATATAAAG
1 ATATATAACAAGACATAAAG
75383786 ATATATA
1 ATATATA
75383793 TAAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (20 bp):
ATATATAACAAGACATAAAG
Found at i:75383889 original size:14 final size:13
Alignment explanation
Indices: 75383849--75383896 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
75383839 TAAATAAGTA
*
75383849 AATATAAAATAAA
1 AATATAAAATAAT
75383862 AATATAACAATAAT
1 AATATAA-AATAAT
75383876 AATATAAAACTAAT
1 AATATAAAA-TAAT
*
75383890 GATATAA
1 AATATAA
75383897 TAGTAGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:75385427 original size:43 final size:44
Alignment explanation
Indices: 75385378--75385533 Score: 111
Period size: 43 Copynumber: 3.4 Consensus size: 44
75385368 TCGCTTCAAT
*
75385378 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTACT-GG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTCGG
* * * ** * * *
75385421 CTTCAATGTACTCTACTG-TAATCACAAAGAGGTAAAATCTATCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAA-C-CAGGGAGATAGAA--T-T-A-C-TCG-G
*
75385473 CTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-TCGG
1 CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTCGG
*
75385516 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
75385534 TAACCACAGG
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
42 2 0.02
43 32 0.39
44 12 0.15
46 1 0.01
47 2 0.02
48 2 0.02
49 2 0.02
50 1 0.01
51 10 0.12
52 16 0.20
53 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCCAACCAGGGAGATAGAATTACTCGG
Found at i:75385485 original size:95 final size:95
Alignment explanation
Indices: 75385371--75385552 Score: 303
Period size: 95 Copynumber: 1.9 Consensus size: 95
75385361 TGTCTTGTCG
*
75385371 CTTCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-CTGGCTTCAATGTACTCT
1 CTTCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATC-GGCTTCAATGTACTCC
*
75385435 ACTGTAATCACAAAGAGGTAAAATCTATCAT
65 ACTGTAACCACAAAGAGGTAAAATCTATCAT
*
75385466 CTTCGATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCA
1 CTTCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCA
**
75385531 CTGTAACCACAGGGAGGTAAAA
66 CTGTAACCACAAAGAGGTAAAA
75385553 CCTGAAATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 80 0.99
96 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (95 bp):
CTTCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCA
CTGTAACCACAAAGAGGTAAAATCTATCAT
Found at i:75385680 original size:44 final size:44
Alignment explanation
Indices: 75385617--75385728 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 44
75385607 GATCTACTCT
* * * *
75385617 ACTGTAA-CTTCAGAGAGATAAGATAATTTA-TTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATAA-CTAGCTTCAATCCGCTCC
* * * *
75385661 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATAACTAGCTTCAATCCGCTCC
*
75385705 ACTGTAATCTCAGGGAGATCAGAT
1 ACTGTAATCTCAGGGAGATAAGAT
75385729 CTGCAATTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.04
44 53 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATAACTAGCTTCAATCCGCTCC
Found at i:75385795 original size:87 final size:88
Alignment explanation
Indices: 75385725--75386088 Score: 389
Period size: 87 Copynumber: 4.2 Consensus size: 88
75385715 CAGGGAGATC
* * *
75385725 AGATCTGCAATTCTTCAACCAGCTCCACTACAACCGA-GAGAGGTAAGG-TTTGTCTTCGACCTG
1 AGATCTGCTA-TCTTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTCTTCGATCTG
* **
75385788 CTTCACTGTCAACGTAGGAAGATA
65 CTTCACTGTTAACGTAGGAAGGCA
* * * * * ** * *
75385812 AAATCAGTTGTCTTCAACCAACTCTTCTACACCCGA-GAGAGGCAAGGCTTTGTTTTCGATCTGC
1 AGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTCTTCGATCTGC
*
75385876 TTCGCTGTTAACGTAGGAAGGCA
66 TTCACTGTTAACGTAGGAAGGCA
* * * *
75385899 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCAATCTAC
1 AGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTCTTCGATCTGC
* *
75385963 TTCGCTGTTAACGCAGGAAGGCA
66 TTCACTGTTAACGTAGGAAGGCA
* * * *
75385986 AGATCTGCTATCTTCAACCAGCTCCACTGCAACCAATGA-AGGCAAGGTTTATGTCTTCGACCTG
1 AGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTT-TGTCTTCGATCTG
* * * *
75386050 CTTCACTATCAATGCAGGAAGGCA
65 CTTCACTGTTAACGTAGGAAGGCA
*
75386074 AGATCTG-TAACTTCA
1 AGATCTGCTATCTTCA
75386089 TTGATCTGTC
Statistics
Matches: 234, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
86 32 0.14
87 165 0.71
88 37 0.16
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (88 bp):
AGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGAGAGGCAAGGCTTTGTCTTCGATCTGC
TTCACTGTTAACGTAGGAAGGCA
Found at i:75385987 original size:43 final size:43
Alignment explanation
Indices: 75385851--75385987 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
75385841 CACCCGAGAG
* * *
75385851 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGGA
1 AGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGCAGGA
* * * * * *
75385894 AGGCAA-GATCTGCTATCTTCAA-CCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAGGCTTTG-T-T-TTCAATCTA-CTTCGCTGTTAACGC-A-GGA
75385938 AGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGCAGGA
75385981 AGGCAAG
1 AGGCAAG
75385988 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
42 17 0.25
43 21 0.31
44 14 0.21
45 16 0.24
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCAATCTACTTCGCTGTTAACGCAGGA
Found at i:75386029 original size:44 final size:43
Alignment explanation
Indices: 75385892--75386031 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 43
75385882 GTTAACGTAG
75385892 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGAT
1 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACC-AT
* * * * * * * *
75385936 GGAGGCAAGGCTTTG-T-T-TTCAATCTA-CTTCGCTGTTAACGCAG
1 GAAGGCAA-GATCTGCTATCTTCAA-CCAGCTCCACTG-CAAC-CAT
75385979 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCAAT
1 GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACC-AT
75386023 GAAGGCAAG
1 GAAGGCAAG
75386032 GTTTATGTCT
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
42 15 0.21
43 16 0.23
44 25 0.35
45 15 0.21
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (43 bp):
GAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCAT
Found at i:75388229 original size:9 final size:9
Alignment explanation
Indices: 75388217--75388244 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
75388207 CTATTTTGAC
75388217 TTTGATTTT
1 TTTGATTTT
75388226 TTTGATTTT
1 TTTGATTTT
75388235 TTTGATTTT
1 TTTGATTTT
75388244 T
1 T
75388245 GAATTCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:75390839 original size:19 final size:20
Alignment explanation
Indices: 75390808--75390858 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
75390798 GGTCACTTCG
* *
75390808 TGAAATCTAATGCATATG-A
1 TGAAATGTAATGCAAATGCA
*
75390827 TGCAATGTAATGCAAATGCA
1 TGAAATGTAATGCAAATGCA
75390847 TGAAATG-AATGC
1 TGAAATGTAATGC
75390859 CTAAAGAGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGCA
Found at i:75403400 original size:12 final size:12
Alignment explanation
Indices: 75403377--75403412 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
75403367 ATCACCCCCA
75403377 CACCCTACTAAAT
1 CACCC-ACTAAAT
75403390 CACCCACTAAAT
1 CACCCACTAAAT
75403402 CACCCCACTAA
1 CA-CCCACTAA
75403413 CTCCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (12 bp):
CACCCACTAAAT
Found at i:75403408 original size:13 final size:13
Alignment explanation
Indices: 75403377--75403412 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
75403367 ATCACCCCCA
*
75403377 CACCCTACTAAAT
1 CACCCCACTAAAT
75403390 CA-CCCACTAAAT
1 CACCCCACTAAAT
75403402 CACCCCACTAA
1 CACCCCACTAA
75403413 CTCCATCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (13 bp):
CACCCCACTAAAT
Found at i:75403456 original size:29 final size:29
Alignment explanation
Indices: 75403388--75403452 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
75403378 ACCCTACTAA
*
75403388 ATCACCCACTAAATCACCCCACTAACTCC
1 ATCACCCACTAAACCACCCCACTAACTCC
* *
75403417 ATCATCCCACTAAACCA-TCCACTATCTCC
1 ATCA-CCCACTAAACCACCCCACTAACTCC
75403446 ATCACCC
1 ATCACCC
75403453 CACTTGCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 11 0.34
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (29 bp):
ATCACCCACTAAACCACCCCACTAACTCC
Found at i:75403836 original size:3 final size:3
Alignment explanation
Indices: 75403813--75403992 Score: 88
Period size: 3 Copynumber: 60.7 Consensus size: 3
75403803 GGGGAGAGTG
* * *
75403813 TTA TTT TTA ATA TTG TTA TTA TTA TTA TTA -TA TTA TTA TTA -TA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
75403860 TT- TTA TTA CTG TTA CTA TTA TTT TGTA TATA TTTA TTA TCA TTA TTGA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA TTA TT-A
** ** * * *
75403908 TTTA TTA TTA TTA TTA GAA ACA TT- TTT TTA TT- TTT TTA TT- TTT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
75403951 TTA TTT TTA -TA TTA TTA TTT TTA TTA ATA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
75403993 GTCTTCTATT
Statistics
Matches: 133, Mismatches: 31, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
2 16 0.12
3 104 0.78
4 10 0.08
5 3 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:75403848 original size:14 final size:14
Alignment explanation
Indices: 75403829--75403992 Score: 62
Period size: 14 Copynumber: 11.9 Consensus size: 14
75403819 TTAATATTGT
75403829 TATTATTATTATTA
1 TATTATTATTATTA
75403843 TATTATTATTA-TA
1 TATTATTATTATTA
*
75403856 -CTTATT-TTATTA
1 TATTATTATTATTA
* *
75403868 CTGTTACTATTATT-
1 -TATTATTATTATTA
75403882 T-TGTATATATTTATTA
1 TAT-TAT-TA-TTATTA
75403898 TCATTATTGATTTATTA
1 T-ATTATT-A-TTATTA
** **
75403915 TTATTATTAGAAACA
1 -TATTATTATTATTA
* * * *
75403930 TTTTTTTATTTTTT
1 TATTATTATTATTA
*
75403944 TATT-TTTTTATT-
1 TATTATTATTATTA
75403956 T-TTA-TATTATTA
1 TATTATTATTATTA
*
75403968 T-TT-TTATTAATA
1 TATTATTATTATTA
75403980 TATTATTATTATT
1 TATTATTATTATT
75403993 GTCTTCTATT
Statistics
Matches: 111, Mismatches: 22, Indels: 34
0.66 0.13 0.20
Matches are distributed among these distances:
11 11 0.10
12 20 0.18
13 13 0.12
14 33 0.30
15 12 0.11
16 3 0.03
17 17 0.15
18 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:75403850 original size:17 final size:17
Alignment explanation
Indices: 75403828--75403992 Score: 94
Period size: 17 Copynumber: 9.8 Consensus size: 17
75403818 TTTAATATTG
75403828 TTATTATTATTATTATA
1 TTATTATTATTATTATA
*
75403845 TTATTATTA-TACT-TA
1 TTATTATTATTATTATA
* *
75403860 TT-TTATTACTGTTACTA
1 TTATTATTATTATTA-TA
*
75403877 TTATTTTGTATATATT-TA
1 TTATTAT-TAT-TATTATA
*
75403895 TTATCATTATTGATT-TA
1 TTATTATTATT-ATTATA
** *
75403912 TTATTATTATTAGAAACA
1 TTATTATTATTA-TTATA
* * *
75403930 TT-TTTTTATTTTTTTA
1 TTATTATTATTATTATA
* *
75403946 TT-TTTTTATTTTTATA
1 TTATTATTATTATTATA
*
75403962 TTATTATTTTTATTA-A
1 TTATTATTATTATTATA
75403978 TATATTATTATTATT
1 T-TATTATTATTATT
75403993 GTCTTCTATT
Statistics
Matches: 114, Mismatches: 23, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
14 6 0.05
15 6 0.05
16 25 0.22
17 59 0.52
18 13 0.11
19 2 0.02
20 3 0.03
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:75403851 original size:20 final size:20
Alignment explanation
Indices: 75403822--75403992 Score: 92
Period size: 20 Copynumber: 8.7 Consensus size: 20
75403812 GTTATTTTTA
*
75403822 ATATTGTTATTATTATTATT
1 ATATTATTATTATTATTATT
75403842 ATATTATTATTA-TACTTATT
1 ATATTATTATTATTA-TTATT
* *
75403862 TTATTACTGTTACTATTATT-TT
1 ATATTA---TTATTATTATTATT
* *
75403884 GTATATATTTATTATCATTATT
1 ATAT-TA-TTATTATTATTATT
*
75403906 GAT-TTATTATTATTATTA-G
1 -ATATTATTATTATTATTATT
** *
75403925 A-AACATT-TTTTTATT-TT
1 ATATTATTATTATTATTATT
* *
75403942 -T-TTATT-TTTTTATTTTT
1 ATATTATTATTATTATTATT
* *
75403959 ATATTATTATTTTTATTAAT
1 ATATTATTATTATTATTATT
75403979 ATATTATTATTATT
1 ATATTATTATTATT
75403993 GTCTTCTATT
Statistics
Matches: 117, Mismatches: 19, Indels: 30
0.70 0.11 0.18
Matches are distributed among these distances:
16 11 0.09
17 9 0.08
18 5 0.04
19 7 0.06
20 54 0.46
21 11 0.09
22 8 0.07
23 10 0.09
24 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
ATATTATTATTATTATTATT
Found at i:75403942 original size:8 final size:8
Alignment explanation
Indices: 75403929--75403963 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
75403919 TATTAGAAAC
75403929 ATTTTTTT
1 ATTTTTTT
75403937 ATTTTTTT
1 ATTTTTTT
75403945 ATTTTTTT
1 ATTTTTTT
*
75403953 ATTTTTAT
1 ATTTTTTT
75403961 ATT
1 ATT
75403964 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:75404050 original size:18 final size:18
Alignment explanation
Indices: 75404009--75404052 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
75403999 TATTTTGTTG
*
75404009 TTGTTATTATTATTTTAA
1 TTGTTATTACTATTTTAA
*
75404027 TCGTTATTACTATGTTT-A
1 TTGTTATTACTAT-TTTAA
75404045 TTGTTATT
1 TTGTTATT
75404053 GTAGCATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.64
Consensus pattern (18 bp):
TTGTTATTACTATTTTAA
Found at i:75404809 original size:126 final size:126
Alignment explanation
Indices: 75404579--75404812 Score: 387
Period size: 126 Copynumber: 1.9 Consensus size: 126
75404569 TTCTCAATTG
* * * * * *
75404579 TTTTTAAAATAATGGCAATGTTCGGTATTTAAAGACTTTGAAGAATCGTGCCCTAACGTATTGGG
1 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
* *
75404644 TTTTGCTTTCTTTGTTTGTCTTGAATATTCGGATATCCTCTTACCAGTTCACTCTAAAAAA
66 TTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
75404705 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
1 TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
*
75404770 TTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
75404813 AGGCTAAAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 99 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (126 bp):
TTTTCAAAATAAAGGCAATGGTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGG
TTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
Found at i:75409350 original size:129 final size:129
Alignment explanation
Indices: 75409218--75409553 Score: 355
Period size: 126 Copynumber: 2.6 Consensus size: 129
75409208 GAATGAGAAA
* * *
75409218 AAAAAAACACCTTCAACATAATATAGTTTATTTTGT-AAAT-GATATTTTTGTTATTACTTAACT
1 AAAAAAACACC-TCAACATAATATAGTTTACTTTGTAAAATAAATATTTTTGTTATTACTTAGCT
*
75409281 AAATTAGTGCATAGTTGACTCGTAGA-AACAAATTCACTAAAAGATTTAATATTAGTGGAGATGA
65 AAATTAGTGCATAGTTGACTCGT-GACAACAAATTCACTAAAAGATGTAATATTAGTGGAGATGA
75409345 C
129 C
* * * * *
75409346 ---AAAA-ATCTCAAGATTATATAATCTACTTTGTAAAATAAATATATTTTGTTATTACTTAGCT
1 AAAAAAACACCTCAACATAATATAGTTTACTTTGTAAAATAAATAT-TTTTGTTATTACTTAGCT
* * * * * * * *
75409407 GAATTGGTGCATAATTGACTCGTGACACCAAATTTAGTAAAAGGTGTAATATTAGTTGAGATGAC
65 AAATTAGTGCATAGTTGACTCGTGACAACAAATTCACTAAAAGATGTAATATTAGTGGAGATGAC
* * * * *
75409472 AAAAATAC-CCTGAACATAATAGAGTTTACTTTGTAAAATAAAAGTATTTTTGTCATTACTTGGC
1 AAAAAAACACCTCAACATAATATAGTTTACTTTGTAAAAT-AAA-TATTTTTGTTATTACTTAGC
* *
75409536 TAAATTAATGCACAGTTG
64 TAAATTAGTGCATAGTTG
75409554 GCTTGTGATA
Statistics
Matches: 166, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
123 19 0.11
124 6 0.04
125 10 0.06
126 70 0.42
129 27 0.16
130 31 0.19
131 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (129 bp):
AAAAAAACACCTCAACATAATATAGTTTACTTTGTAAAATAAATATTTTTGTTATTACTTAGCTA
AATTAGTGCATAGTTGACTCGTGACAACAAATTCACTAAAAGATGTAATATTAGTGGAGATGAC
Found at i:75409827 original size:18 final size:17
Alignment explanation
Indices: 75409796--75409832 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
75409786 TATTAAAAAA
*
75409796 TATATTTTTTATAATTT
1 TATATTTTTAATAATTT
75409813 TATACTTTTTAATAATTT
1 TATA-TTTTTAATAATTT
75409831 TA
1 TA
75409833 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATAATTT
Found at i:75412037 original size:16 final size:16
Alignment explanation
Indices: 75412008--75412040 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
75411998 TATTTTATTC
75412008 AAAAGTAAAAAAAGAA
1 AAAAGTAAAAAAAGAA
75412024 AAAAG-AAAAGAAAGAA
1 AAAAGTAAAA-AAAGAA
75412040 A
1 A
75412041 GTAAAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGTAAAAAAAGAA
Done.