Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 202 of 213
Found at i:60477322 original size:59 final size:59
Alignment explanation
Indices: 60477259--60477447 Score: 201
Period size: 59 Copynumber: 3.2 Consensus size: 59
60477249 ATTTTATTAA
60477259 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
* * ** * *
60477318 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA-TT--AA-GA-ATTTTATTA
1 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TA
*
60477378 -A
58 GT
60477379 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
60477438 ATCATATATT
1 ATCATATATT
60477448 ATGATTTGAG
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
54 10 0.10
55 6 0.06
56 1 0.01
57 5 0.05
58 3 0.03
59 29 0.28
60 4 0.04
61 19 0.19
62 3 0.03
63 5 0.05
64 1 0.01
65 6 0.06
66 10 0.10
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
Found at i:60477356 original size:66 final size:66
Alignment explanation
Indices: 60477286--60477484 Score: 217
Period size: 66 Copynumber: 3.2 Consensus size: 66
60477276 AAATATATTT
60477286 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
1 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
60477351 G
66 G
* * * * *
60477352 AATATTGATTA-TT--AA-GA-ATTTTATTA-AATCATATATT-TTA-ATTA--AAA-T-ATAT-
1 AATATTAATTATTTCAAATTATATTTTA-TAGTATCATATATTATGATTTTAGTAAATTCATATA
**
60477404 TT
65 AG
*
60477406 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
60477471 G
66 G
*
60477472 AATATTGATTATT
1 AATATTAATTATT
60477485 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
54 10 0.10
55 6 0.06
56 1 0.01
57 5 0.05
58 3 0.03
59 19 0.18
60 4 0.04
61 18 0.17
62 3 0.03
63 5 0.05
64 1 0.01
65 6 0.06
66 22 0.21
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (66 bp):
AATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAA
G
Found at i:60477378 original size:120 final size:120
Alignment explanation
Indices: 60477248--60477537 Score: 544
Period size: 120 Copynumber: 2.4 Consensus size: 120
60477238 AATTATTTTA
60477248 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
*
60477313 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
60477368 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
60477433 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
60477488 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT
60477538 GTTAAAATAT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 166 1.00
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:60477379 original size:130 final size:129
Alignment explanation
Indices: 60477209--60477501 Score: 453
Period size: 120 Copynumber: 2.3 Consensus size: 129
60477199 TAAATTATAC
* * *
60477209 AAATTCATATAAGAAAATTTATTAGTT-ATAATTATTTTAAATTTTATTAAATCATATATTTTAA
1 AAATTCATATAAGAATATTGATTA-TTAAGAATT-TTTTAAATTTTATTAAATCATATATTTTAA
*
60477273 TTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAG
64 TTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAG
60477338 T
129 T
60477339 AAATTCATATAAGAATATTGATTATTAAG---------AATTTTATTAAATCATATATTTTAATT
1 AAATTCATATAAGAATATTGATTATTAAGAATTTTTTAAATTTTATTAAATCATATATTTTAATT
60477395 AAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAGT
66 AAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAGT
60477459 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 AAATTCATATAAGAATATTGATTATTAAGAATTTT-TTAAATT
60477502 ATATATTTTA
Statistics
Matches: 148, Mismatches: 4, Indels: 22
0.85 0.02 0.13
Matches are distributed among these distances:
120 119 0.80
129 2 0.01
130 27 0.18
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (129 bp):
AAATTCATATAAGAATATTGATTATTAAGAATTTTTTAAATTTTATTAAATCATATATTTTAATT
AAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTGAGT
Found at i:60477383 original size:61 final size:61
Alignment explanation
Indices: 60477318--60477508 Score: 191
Period size: 61 Copynumber: 3.2 Consensus size: 61
60477308 ATTTTATAGT
60477318 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * ** * *
60477379 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTA-TT--AA-GA-ATTTTATTA
*
60477436 GT
61 -A
*
60477438 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
*
60477499 ATTATATATT
1 ATCATATATT
60477509 TTAATTATAA
Statistics
Matches: 100, Mismatches: 16, Indels: 28
0.69 0.11 0.19
Matches are distributed among these distances:
54 10 0.10
55 6 0.06
56 1 0.01
57 5 0.05
58 3 0.03
59 19 0.19
60 4 0.04
61 27 0.27
62 3 0.03
63 5 0.05
64 1 0.01
65 6 0.06
66 10 0.10
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:60477505 original size:59 final size:59
Alignment explanation
Indices: 60477322--60477505 Score: 164
Period size: 59 Copynumber: 3.1 Consensus size: 59
60477312 TATAGTATCA
*
60477322 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * ** * * *
60477381 CATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TAGTAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTA-TT--AA-GA-ATTTTATTA-AAT
*
60477440 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
60477501 TATAT
1 TATAT
60477506 ATTTTAATTA
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
54 10 0.11
55 6 0.06
56 9 0.10
57 2 0.02
58 6 0.06
59 16 0.17
61 11 0.12
62 6 0.06
63 2 0.02
64 9 0.10
65 6 0.06
66 10 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:60477528 original size:15 final size:15
Alignment explanation
Indices: 60477493--60477534 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60477483 TTAAGAATTT
*
60477493 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60477507 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60477521 TATTTAATAATAAT
1 TATTTAATTATAAT
60477535 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60482828 original size:14 final size:14
Alignment explanation
Indices: 60482809--60482839 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60482799 GGATGCAAAA
60482809 ATAATATAGAATTT
1 ATAATATAGAATTT
*
60482823 ATAATATAGTATTT
1 ATAATATAGAATTT
60482837 ATA
1 ATA
60482840 TATCTAATTT
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:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATAATATAGAATTT
Found at i:60497510 original size:28 final size:30
Alignment explanation
Indices: 60497465--60497522 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
60497455 TAATTTGATC
*
60497465 AAATCAAAATTTCATGTAT-GAATTGCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
*
60497494 AAATCAAAGTTT-ATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATACAATTGCACA
60497523 TTAAACCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATACAATTGCACA
Found at i:60507135 original size:18 final size:18
Alignment explanation
Indices: 60507090--60507135 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
60507080 TTAAAACAAA
60507090 AGTGAGTGGAATAAAAGCAT
1 AGTGAGT-G-ATAAAAGCAT
*
60507110 AGTTAGTGATAAAAGCAT
1 AGTGAGTGATAAAAGCAT
*
60507128 TGTGAGTG
1 AGTGAGTG
60507136 GAAGAGTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.70
19 1 0.04
20 6 0.26
ACGTcount: A:0.39, C:0.04, G:0.30, T:0.26
Consensus pattern (18 bp):
AGTGAGTGATAAAAGCAT
Found at i:60507465 original size:6 final size:6
Alignment explanation
Indices: 60507454--60507484 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
60507444 GGAAGAAAGA
60507454 AAGTGG AAGTGG AAGTGG AAGTGG AAGTGG A
1 AAGTGG AAGTGG AAGTGG AAGTGG AAGTGG A
60507485 GAAAGTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
AAGTGG
Found at i:60519814 original size:3 final size:3
Alignment explanation
Indices: 60519800--60519836 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
60519790 CAAATGAGTA
* *
60519800 AAT AAT AGT AAT AAT AAT AAT AAT GAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60519837 CAAAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:60520695 original size:20 final size:20
Alignment explanation
Indices: 60520662--60520699 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60520652 CGTATGCAAA
60520662 AAATAAAAAAATAAAAAATG
1 AAATAAAAAAATAAAAAATG
* *
60520682 AAATAGAAAGATAAAAAA
1 AAATAAAAAAATAAAAAA
60520700 AAACAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAATAAAAAAATAAAAAATG
Found at i:60521284 original size:44 final size:44
Alignment explanation
Indices: 60521229--60521425 Score: 145
Period size: 44 Copynumber: 4.6 Consensus size: 44
60521219 GATGCGATCT
* *
60521229 GCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
* * ** *
60521273 GCTCCACTGCAACTTCAGGGAGATAGGAT-TG-GTTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-AATCC
* * ** * *** **
60521317 ACTCCACTACTGCTT-AGGGAGATAAGA-CT-T-GATGCGATTT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
* * * *
60521357 GCTCTACTGTAACTTCAGAGAGATAAGATCTATGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
60521401 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
60521426 GGACTGGTTT
Statistics
Matches: 110, Mismatches: 35, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
40 11 0.10
41 11 0.10
42 6 0.05
43 17 0.15
44 65 0.59
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCC
Found at i:60521351 original size:128 final size:128
Alignment explanation
Indices: 60521213--60521471 Score: 473
Period size: 128 Copynumber: 2.0 Consensus size: 128
60521203 CGGGGAGACG
*
60521213 AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCC
1 AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
*
60521278 ACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
66 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
* * *
60521341 AGACTTGATGCGATTTGCTCTACTGTAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
1 AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
60521406 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
66 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
60521469 AGA
1 AGA
60521472 TCTACAATCT
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (128 bp):
AGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCGCTCC
ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATA
Found at i:60521450 original size:44 final size:43
Alignment explanation
Indices: 60521234--60521560 Score: 127
Period size: 44 Copynumber: 7.6 Consensus size: 43
60521224 GATCTGCTCT
* * ** **
60521234 ACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-CTG-GTTTCTTTGTCTACTCC
* *
60521278 ACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTGGTTTCTT-TGTCTACTCC
* ** * * *
60521322 ACTACTGCTT-AGGGAGATAAGACTTGATGCGATTTG-CT-CT--
1 ACTGCAACTTCAGGGAGATAAGACTGGTTTC--TTTGTCTACTCC
* * ** **
60521362 ACTGTAACTTCAGAGAGATAAGATCTATGG-TT-TTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGA-C--TGGTTTCTTTGTCTACTCC
*
60521406 ACTGCAACTTCAGGGAGATAGGACTGGTTTCTTCTGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGACTGGTTTCTT-TGTCTACTCC
* ** **** **
60521450 ACTACTGCTT-AGGGAGATAAGATCTACAATCTTTAACCTACTCC
1 ACTGCAACTTCAGGGAGATAAGA-CTGGTTTCTTT-GTCTACTCC
** * * *
60521494 ACTGCTGC-TCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTGGTTTCTT-TGTCTACTCC
* **
60521537 ACTACTGCTT-AGGGAGATAAGACT
1 ACTGCAACTTCAGGGAGATAAGACT
60521561 TGATGCGATC
Statistics
Matches: 207, Mismatches: 56, Indels: 41
0.68 0.18 0.13
Matches are distributed among these distances:
40 8 0.04
41 15 0.07
42 10 0.05
43 68 0.33
44 104 0.50
45 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGACTGGTTTCTTTGTCTACTCC
Found at i:60521551 original size:43 final size:43
Alignment explanation
Indices: 60521417--60521555 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
60521407 CTGCAACTTC
*
60521417 AGGGAGATAGGACTGGTTTCTTCTGTCTACTCCACTACTGCTT
1 AGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
* **** ** * *
60521460 AGGGAGATAAGATCTACAATCTT-TAACCTACTCCACTGCTGCTC
1 AGGGAGATAGGAT-TGGTTTCTTCT-GTCTACTCCACTACTGCTT
*
60521504 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
60521547 AGGGAGATA
1 AGGGAGATA
60521556 AGACTTGATG
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
43 40 0.55
44 33 0.45
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
AGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
Found at i:60521722 original size:44 final size:44
Alignment explanation
Indices: 60521674--60521873 Score: 134
Period size: 44 Copynumber: 4.6 Consensus size: 44
60521664 CTTCGATCTG
*
60521674 CTCCACAACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
* * * * * ***** * * *
60521718 CTCCACTGCTACTCAGTGAGATAGGA-CTGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
* * * * ** ** * *
60521761 CTTC-CTACTACCTGGGGAAGATAAGATCCGCTGTCTTCGATCTA
1 CTCCACTACTGCTTAGGG-AGATAAGATCTACAATCTTCAACCTA
60521805 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
* * *
60521849 TTCCACTGCTGCTCAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
60521874 GCTGGTGCTT
Statistics
Matches: 113, Mismatches: 40, Indels: 6
0.71 0.25 0.04
Matches are distributed among these distances:
42 8 0.07
43 19 0.17
44 76 0.67
45 10 0.09
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
Found at i:60521891 original size:131 final size:131
Alignment explanation
Indices: 60521567--60521880 Score: 497
Period size: 131 Copynumber: 2.4 Consensus size: 131
60521557 GACTTGATGC
* *
60521567 GATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAAATAGGACTGGTGGCTTAAATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
* * * * *
60521632 TCCTATTATCTTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACAACTGCTTAGGGAGATA
66 TCCTACTACCTGGGGAAGATAAGATCCGTCGTCTTCGATCTACTCCACAACTGCTTAGGGAGATA
60521697 A
131 A
* *
60521698 GATCTACAATCTTCAACCTACTCCACTGCTACTCAGTGAGATAGGACTGGTGGCTTAAATCTGCT
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
*
60521763 TCCTACTACCTGGGGAAGATAAGATCCG-CTGTCTTCGATCTACTCCACTACTGCTTAGGGAGAT
66 TCCTACTACCTGGGGAAGATAAGATCCGTC-GTCTTCGATCTACTCCACAACTGCTTAGGGAGAT
60521827 AA
130 AA
*
60521829 GATCTACAATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAAGG-CTGGTG
1 GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAT-AGGACTGGTG
60521881 CTTTCGATCT
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
130 1 0.01
131 164 0.98
132 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (131 bp):
GATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCT
TCCTACTACCTGGGGAAGATAAGATCCGTCGTCTTCGATCTACTCCACAACTGCTTAGGGAGATA
A
Found at i:60522186 original size:24 final size:24
Alignment explanation
Indices: 60522153--60522210 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
60522143 CGGATTGACC
60522153 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* * *
60522177 CCACTATAATCTTCAACGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
60522201 CCACTGTAAT
1 CCACTGTAAT
60522211 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:60523175 original size:6 final size:6
Alignment explanation
Indices: 60523164--60523206 Score: 59
Period size: 6 Copynumber: 6.7 Consensus size: 6
60523154 TTTTCTTTAC
60523164 TTTTCT TTTTCT TTTTCCTT TTTTCCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTT-C-T TTTT-CT TTTTCT TTTTCT TTTT
60523207 TATGAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 22 0.63
7 6 0.17
8 7 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:60523192 original size:21 final size:19
Alignment explanation
Indices: 60523164--60523207 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 19
60523154 TTTTCTTTAC
60523164 TTTTCTTTTTCTTTTTCCTT
1 TTTTCTTTTTCTTTTT-CTT
60523184 TTTTCCTTTTTCTTTTTCTT
1 TTTT-CTTTTTCTTTTTCTT
60523204 TTTT
1 TTTT
60523208 ATGAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTTTTTCTTTTTCTT
Found at i:60528887 original size:21 final size:22
Alignment explanation
Indices: 60528863--60528904 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
60528853 GTACATGTAT
60528863 ATGT-GTATATATATTATAAAA
1 ATGTAGTATATATATTATAAAA
60528884 ATGTACGTATATATATTATAA
1 ATGTA-GTATATATATTATAA
60528905 CGTATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (22 bp):
ATGTAGTATATATATTATAAAA
Found at i:60529013 original size:3 final size:3
Alignment explanation
Indices: 60528999--60529044 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
60528989 CAAATGAGTA
* *
60528999 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60529045 CAAAATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60529901 original size:20 final size:20
Alignment explanation
Indices: 60529868--60529905 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
60529858 CGTATGCAAA
60529868 AAATAAAAAAATAAAAAATG
1 AAATAAAAAAATAAAAAATG
* *
60529888 AAATAGAAAGATAAAAAA
1 AAATAAAAAAATAAAAAA
60529906 AAACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (20 bp):
AAATAAAAAAATAAAAAATG
Found at i:60532023 original size:125 final size:124
Alignment explanation
Indices: 60531780--60532029 Score: 362
Period size: 126 Copynumber: 2.0 Consensus size: 124
60531770 TAATTTTTTT
** * * *
60531780 TAAAAAAAATACAAGTTAGTATAATGGTACATTTGCAATTTGACTCCTCCAAAAATTTATGGTTC
1 TAAAAAAAATACAAGTTAGTATAATAATAAATTTGCAATTTGACTCCTCAAAAAATTTATGATTC
*
60531845 ATCTTTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTCTTTAA
66 ATCTCTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTCTTTAA
*
60531904 TAAAAAAAATTTATAAGTTAGTATAATAATAAAATTT-CAATTTGAC-CCTTCAAAAAATTTATG
1 TAAAAAAAA--TACAAGTTAGTATAATAAT-AAATTTGCAATTTGACTCC-TCAAAAAATTTATG
* *
60531967 ATTCATCTCTGGCCC-CTTAAAGCAATTTGCTTTGCCCCTGATTTGCTTTGTAGCCTCTTTAA
62 ATTCATCTCTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTCTTTAA
60532029 T
1 T
60532030 TTTTTTTTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
124 9 0.08
125 48 0.42
126 51 0.45
127 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (124 bp):
TAAAAAAAATACAAGTTAGTATAATAATAAATTTGCAATTTGACTCCTCAAAAAATTTATGATTC
ATCTCTGGCCCTCTTAAAGCAATTTGCTTTGCCACTAATTTGCTTTGTAGCCTCTTTAA
Found at i:60534601 original size:19 final size:17
Alignment explanation
Indices: 60534569--60534605 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
60534559 ACTTGAAACA
60534569 TATTTGATATAAAAAAT
1 TATTTGATATAAAAAAT
60534586 TATTATGATAATAAAAAAT
1 TATT-TGAT-ATAAAAAAT
60534605 T
1 T
60534606 TAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TATTTGATATAAAAAAT
Found at i:60537760 original size:36 final size:36
Alignment explanation
Indices: 60537714--60537792 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
60537704 CTGGTTTTGG
* **
60537714 CCACATCTTTTTTGTTTTATTTTAGGTTGACATGAT
1 CCACATCTTTTTTGTTTTATTTTAGATCAACATGAT
*
60537750 CCACTTCTTTTTTGTTTTATTTTAGATCAACATGAT
1 CCACATCTTTTTTGTTTTATTTTAGATCAACATGAT
60537786 CCACATC
1 CCACATC
60537793 ATTATGCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.10, T:0.49
Consensus pattern (36 bp):
CCACATCTTTTTTGTTTTATTTTAGATCAACATGAT
Found at i:60550347 original size:16 final size:17
Alignment explanation
Indices: 60550315--60550349 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60550305 AATTTAGTTG
60550315 AAGTATAAACGATGTAT
1 AAGTATAAACGATGTAT
*
60550332 AAGTATATAC-ATGTAT
1 AAGTATAAACGATGTAT
60550348 AA
1 AA
60550350 ATTATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGTATAAACGATGTAT
Found at i:60551058 original size:41 final size:42
Alignment explanation
Indices: 60550997--60551199 Score: 217
Period size: 41 Copynumber: 5.0 Consensus size: 42
60550987 TGAAAATAAG
*
60550997 ATGT-TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTG-A
1 ATGTATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
60551037 AT-TACTTCAGACTTTATGTCTAGCAGGCTT-AGTGCCGGTGAA
1 ATGTA-TTCAGACTTTATGTCTAGCAGGCTTGA-TGCCGGTGAA
*
60551079 ATGTA-TCAGACTTTATGTCTAGTAGGCTTTG-TGCCGGTGAA
1 ATGTATTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* *
60551120 ATGTA-TCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGAGGA
1 ATGTATTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTGAA
* * * * * *
60551161 ATATA-TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
60551200 TTTTATACAA
Statistics
Matches: 143, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 130 0.91
42 5 0.03
43 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (42 bp):
ATGTATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAA
Found at i:60551139 original size:82 final size:81
Alignment explanation
Indices: 60550997--60551199 Score: 248
Period size: 82 Copynumber: 2.5 Consensus size: 81
60550987 TGAAAATAAG
* *
60550997 ATGTTTCAGACTTTACGTCTAGCAGGC-TTGATGCCGGTGAATTACTTCAGACTTTATGTCTAGC
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAATTAC-TCAGACTTTATGTCTAGC
*
60551061 AGGCTTAGTGCCGGTGAA
64 AGGCTTAGTGCCGGAGAA
*
60551079 ATGTATCAGACTTTATGTCTAGTAGGCTTTGTGCCGGTGAAATGTA-TCAGACTTTATGTCTAGC
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTG-AAT-TACTCAGACTTTATGTCTAGC
* *
60551143 AGGCTTTGTGCCGGAGGA
64 AGGCTTAGTGCCGGAGAA
* * * * * *
60551161 ATATATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTG
60551200 TTTTATACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
82 97 0.92
83 6 0.06
84 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (81 bp):
ATGTATCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAATTACTCAGACTTTATGTCTAGCAG
GCTTAGTGCCGGAGAA
Found at i:60553011 original size:35 final size:35
Alignment explanation
Indices: 60552972--60553101 Score: 172
Period size: 35 Copynumber: 3.7 Consensus size: 35
60552962 TTTTCAGTAA
*
60552972 GCATGCTTTACATGCAAATAAGAATCAGTGTAATG
1 GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
* * *
60553007 GCATGCTTAACATGTAGATCAA-AATCGGTGTAATG
1 GCATGCTTAACATGCAAAT-AAGAATCAGTGTAATG
* * *
60553042 GCATGCTTAACATGCGAATCAGAATCAATGTAATG
1 GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
*
60553077 GCATGCTTAACATGCAAATCAGAAT
1 GCATGCTTAACATGCAAATAAGAAT
60553102 ATTGACAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
34 1 0.01
35 79 0.96
36 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGCAAATAAGAATCAGTGTAATG
Found at i:60554776 original size:27 final size:27
Alignment explanation
Indices: 60554743--60554796 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
60554733 TTTTACAAGA
*
60554743 TTACAAACTCATTTATATTATTTACTG
1 TTACAAACTCATTTAGATTATTTACTG
60554770 TTACAAACTCATTTAGATTATTTACTG
1 TTACAAACTCATTTAGATTATTTACTG
60554797 AAGTAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (27 bp):
TTACAAACTCATTTAGATTATTTACTG
Found at i:60555057 original size:179 final size:179
Alignment explanation
Indices: 60554757--60555114 Score: 662
Period size: 179 Copynumber: 2.0 Consensus size: 179
60554747 AAACTCATTT
*
60554757 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTGGCAATAT
1 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATAT
*
60554822 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAATCAATGAACTAATATTTGCT
66 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
60554887 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
131 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
*
60554936 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATGT
1 ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATAT
* * *
60555001 AAATGTTCTTATAGTGTCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
66 AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
60555066 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
131 TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
60555115 GACATAATAG
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 173 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (179 bp):
ATATTATTTACTGTTACAAACTCATTTAGATTATTTACTGAAGTAAGTTATCTTTCTCGCAATAT
AAACGTTCTTATAATGCCACTTATCATCAATTTGAACTTAAACAACCAATGAACTAATATTTGCT
TGTCACAATTTTGCTATGCATGCAAAACATGAAAGAGAAAAACACAAAA
Found at i:60557294 original size:3 final size:3
Alignment explanation
Indices: 60557288--60557341 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
60557278 ATTTATAATA
60557288 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
60557336 AAG AAG
1 AAG AAG
60557342 CATGAAATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:60558971 original size:17 final size:17
Alignment explanation
Indices: 60558949--60558982 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60558939 TATTGATTAA
*
60558949 AATATTAATGTTATAAT
1 AATATTAATGTGATAAT
*
60558966 AATATTGATGTGATAAT
1 AATATTAATGTGATAAT
60558983 TTGCATAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
AATATTAATGTGATAAT
Found at i:60565287 original size:31 final size:31
Alignment explanation
Indices: 60565249--60565321 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
60565239 GGTTAATATA
*
60565249 CAATTTGGTACCTAAGTTTAGCTTGAATGTT
1 CAATTTGGTACCTAAATTTAGCTTGAATGTT
* *
60565280 CAATTTGGTACCTAAATTTGGCTTTAATGTT
1 CAATTTGGTACCTAAATTTAGCTTGAATGTT
*
60565311 CACTTTGGTAC
1 CAATTTGGTAC
60565322 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (31 bp):
CAATTTGGTACCTAAATTTAGCTTGAATGTT
Found at i:60565761 original size:43 final size:43
Alignment explanation
Indices: 60565700--60565782 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
60565690 ATGGCAAATG
*
60565700 CAGCAGCCACATTCTTCTGGCCGCCGGTGAAGGGACTTCAGTA
1 CAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCAGTA
60565743 CAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCA
1 CAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCA
60565783 CCCTGACCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (43 bp):
CAGCAGCCACATTCTTCTGGCCGCCGATGAAGGGACTTCAGTA
Found at i:60566991 original size:19 final size:20
Alignment explanation
Indices: 60566964--60567001 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
60566954 ATCATGTCAT
*
60566964 TGCATATTTCAT-AAAACGA
1 TGCAGATTTCATGAAAACGA
*
60566983 TGCAGATTTTATGAAAACG
1 TGCAGATTTCATGAAAACG
60567002 GTCCTACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
TGCAGATTTCATGAAAACGA
Found at i:60569950 original size:5 final size:5
Alignment explanation
Indices: 60569940--60569974 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
60569930 AAATCACTAT
60569940 TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA
60569975 AACTACAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:60570269 original size:28 final size:28
Alignment explanation
Indices: 60570227--60570282 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
60570217 CAATCAAAGT
*
60570227 AGGGGAAGACTGTTAAGGAATTACAACA
1 AGGGGAAGACCGTTAAGGAATTACAACA
60570255 AGGGGAAGACCGTTAAGGAATTACAACA
1 AGGGGAAGACCGTTAAGGAATTACAACA
60570283 CAATTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (28 bp):
AGGGGAAGACCGTTAAGGAATTACAACA
Found at i:60571247 original size:53 final size:53
Alignment explanation
Indices: 60571167--60571305 Score: 233
Period size: 53 Copynumber: 2.6 Consensus size: 53
60571157 TAACTTGGAC
* *
60571167 CACACGGCCAAGCCACACGCTCGTGTGCTAGGCTGTATTTAAGGTGTAGGGGT
1 CACACGGCCAAGCCACACGCCCGTGTGCTAGGCTGTATTTAAGGTGCAGGGGT
*
60571220 CACACGGCCAAGCCACACGCCCATGTGCTAGGCTGTATTTAAGGTGCAGGGGT
1 CACACGGCCAAGCCACACGCCCGTGTGCTAGGCTGTATTTAAGGTGCAGGGGT
* *
60571273 CACACGGCCAAGCCACAAGCCTGTGTGCTAGGC
1 CACACGGCCAAGCCACACGCCCGTGTGCTAGGC
60571306 CGTGTGTAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.22, C:0.29, G:0.30, T:0.19
Consensus pattern (53 bp):
CACACGGCCAAGCCACACGCCCGTGTGCTAGGCTGTATTTAAGGTGCAGGGGT
Found at i:60571396 original size:83 final size:83
Alignment explanation
Indices: 60571296--60571478 Score: 357
Period size: 83 Copynumber: 2.2 Consensus size: 83
60571286 CACAAGCCTG
*
60571296 TGTGCTAGGCCGTGTGTAAAAACCTGGGCATTTTATTTCTAAATTTTAAGATACAGGGGACACAT
1 TGTGTTAGGCCGTGTGTAAAAACCTGGGCATTTTATTTCTAAATTTTAAGATACAGGGGACACAT
60571361 GGCCGGACCACACGCCCA
66 GGCCGGACCACACGCCCA
60571379 TGTGTTAGGCCGTGTGTAAAAACCTGGGCATTTTATTTCTAAATTTTAAGATACAGGGGACACAT
1 TGTGTTAGGCCGTGTGTAAAAACCTGGGCATTTTATTTCTAAATTTTAAGATACAGGGGACACAT
60571444 GGCCGGACCACACGCCCA
66 GGCCGGACCACACGCCCA
60571462 TGTGTTAGGCCGTGTGT
1 TGTGTTAGGCCGTGTGT
60571479 CACACACGAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 99 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (83 bp):
TGTGTTAGGCCGTGTGTAAAAACCTGGGCATTTTATTTCTAAATTTTAAGATACAGGGGACACAT
GGCCGGACCACACGCCCA
Found at i:60572404 original size:25 final size:25
Alignment explanation
Indices: 60572361--60572454 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
60572351 AGTACATTTG
60572361 CCGTCAATTCATCCTTTTGCATTTTA
1 CCGTCAATTCATCC-TTTGCATTTTA
** *
60572387 TAGTCAATTCATCCTTTGCA-TATA
1 CCGTCAATTCATCCTTTGCATTTTA
*
60572411 CCGTCAATTCATCCTTTTCATTTTA
1 CCGTCAATTCATCCTTTGCATTTTA
*
60572436 CCGTCAATTCATCATTTGC
1 CCGTCAATTCATCCTTTGC
60572455 CACAGAACGA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
24 20 0.34
25 26 0.45
26 12 0.21
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.44
Consensus pattern (25 bp):
CCGTCAATTCATCCTTTGCATTTTA
Found at i:60574115 original size:28 final size:28
Alignment explanation
Indices: 60574081--60574177 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
60574071 TAATGAGATT
* * * *
60574081 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTGATTATTA
*
60574109 AACACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
*
60574137 AGCACTAACTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
60574165 AGCACTAAGTGTG
1 AGCACTAAGTGTG
60574178 AAAACTTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTGATTATTA
Found at i:60574717 original size:70 final size:70
Alignment explanation
Indices: 60574631--60575321 Score: 1084
Period size: 70 Copynumber: 9.8 Consensus size: 70
60574621 TGGATAATTG
60574631 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60574696 TCCAA
66 TCCAA
*
60574701 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGTTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60574766 TCCAA
66 TCCAA
* *
60574771 TTTTGATGCAAAAATGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGCTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60574836 TCCAA
66 TCCAA
* * *
60574841 TTTTGATGTAAAAATGTTGCTTAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATGTTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60574906 TCCAA
66 TCCAA
60574911 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60574976 TCCAA
66 TCCAA
*
60574981 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGGCTAAATTGTTGTATATATGCTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60575046 TCCAA
66 TCCAA
* *
60575051 TTTTGATGTAAAAATGTTGCTCAATTTGTTATATATATGTTGCCTAAATTGTTGTCA-ATATGCT
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGT-ATATATGCT
60575115 GTCCAA
65 GTCCAA
* * *
60575121 TTTTGATGTAAAAATGTTGCTAAATTTGGTATATATATGCTGCCCAATTTGTTGTATATATGCTG
1 TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
60575186 TCCAA
66 TCCAA
* * * * *
60575191 TTTTTGGTGTAAAAATGCTGCTCAATTTTGTTGTATATATGTTGTCC-AAATTGTTGTATATATG
1 -TTTTGATGTAAAAATGTTGCTCAA-TTTGGTATATATATGCTG-CCTAAATTGTTGTATATATG
60575255 CTGTCCAAA
63 CTGTCC-AA
* * * * * *
60575264 TTTTGGTGTGAAAATGATG-TCTAGTTTGGTATATAAATGCTGTCC-AAATTGATGTATA
1 TTTTGATGTAAAAATGTTGCTC-AATTTGGTATATATATGCTG-CCTAAATTGTTGTATA
60575322 AGGGCTGTCC
Statistics
Matches: 580, Mismatches: 34, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
69 1 0.00
70 467 0.81
71 53 0.09
72 55 0.09
73 4 0.01
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (70 bp):
TTTTGATGTAAAAATGTTGCTCAATTTGGTATATATATGCTGCCTAAATTGTTGTATATATGCTG
TCCAA
Found at i:60577070 original size:278 final size:278
Alignment explanation
Indices: 60576568--60577123 Score: 907
Period size: 278 Copynumber: 2.0 Consensus size: 278
60576558 CCAAACCACT
* * * *
60576568 GTTTTCGACGCCACTAAAAATTGGATTGTTACAAAATCGATTAAAAGACTAATATGTCGTCTATC
1 GTTTCCGACGCCACTAAAAATTGGACTGTTACAAAATCAATTAAAAGACTAATATGTCATCTATC
* * *
60576633 AAGTCCAATTTGGGAGATGTCTTGTCTTGGACATCAGAGCGGATGACTCCCAGAAGATAGAAACA
66 AAGTCCAATTCGGAAGATGTCTTGTCTTGGACATCAGAGCGGATGACTCCCAGAAAATAGAAACA
* *
60576698 TAGATGTGACTCACTAGACTAACAATACATTGAACAAGTCCTAAGCAGAATAGATCCTGAATCCG
131 TAGATGTGACTCACTAGACTAACAATACATTGAACAAGACCCAAGCAGAATAGATCCTGAATCCG
* * * *
60576763 TTTATGGATTTATTCACTTGTGACATTCATAGTGTGACATGCCTAAATCTTGAGTGGATGGAAGA
196 TTCATGAATTTATTCACTTGTGACATTCATAGTGTGACATGCCTAAATCCTGAATGGATGGAAGA
60576828 CTATGTATGCATGACTCG
261 CTATGTATGCATGACTCG
* *
60576846 GTTTCCGACGCCACTGAAAATTGGACTGTTACAAATTCAATTAAAAGACTAATATGTCATCTATC
1 GTTTCCGACGCCACTAAAAATTGGACTGTTACAAAATCAATTAAAAGACTAATATGTCATCTATC
* *
60576911 AAGTTCAATTCGGAAGATGTCTTGTCTTGGACATC-GAAGCTGATGACTCCCAGAAAATAGAAAC
66 AAGTCCAATTCGGAAGATGTCTTGTCTTGGACATCAG-AGCGGATGACTCCCAGAAAATAGAAAC
* * *
60576975 ATAGATGTGACTCACTAGACTAACAATACATTGAACATGACCCAAGCAGAATAGATCTTGAATTC
130 ATAGATGTGACTCACTAGACTAACAATACATTGAACAAGACCCAAGCAGAATAGATCCTGAATCC
*
60577040 GTTCATGAATTTATTCACTTGTGACATTCATTGTGTGACATGCCTAAATCCTGAATGGATGGAAG
195 GTTCATGAATTTATTCACTTGTGACATTCATAGTGTGACATGCCTAAATCCTGAATGGATGGAAG
60577105 ACTATGTATGCATGACTCG
260 ACTATGTATGCATGACTCG
60577124 TACACTTTGA
Statistics
Matches: 256, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
277 1 0.00
278 255 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (278 bp):
GTTTCCGACGCCACTAAAAATTGGACTGTTACAAAATCAATTAAAAGACTAATATGTCATCTATC
AAGTCCAATTCGGAAGATGTCTTGTCTTGGACATCAGAGCGGATGACTCCCAGAAAATAGAAACA
TAGATGTGACTCACTAGACTAACAATACATTGAACAAGACCCAAGCAGAATAGATCCTGAATCCG
TTCATGAATTTATTCACTTGTGACATTCATAGTGTGACATGCCTAAATCCTGAATGGATGGAAGA
CTATGTATGCATGACTCG
Found at i:60578010 original size:26 final size:25
Alignment explanation
Indices: 60577954--60578027 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
60577944 ACGAATTTTC
60577954 TCAAAATTTTACAGGGGTAAAATCA
1 TCAAAATTTTACAGGGGTAAAATCA
* **
60577979 TCAAAAATTTATCAGGGGTAAAATTG
1 TCAAAATTTTA-CAGGGGTAAAATCA
*
60578005 TTAAAATTTTACTA-GGGTAAAAT
1 TCAAAATTTTAC-AGGGGTAAAAT
60578028 AAAGATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACAGGGGTAAAATCA
Found at i:60581195 original size:24 final size:24
Alignment explanation
Indices: 60581161--60581222 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
60581151 TCAAGGTTGT
*
60581161 ATAACGAGAAGCTCATAAGAGCC-
1 ATAACGGGAAGCTCATAAGAGCCA
**
60581184 ATAATCGGGAAGCTCATGCGAGCCA
1 ATAA-CGGGAAGCTCATAAGAGCCA
*
60581209 ATAACGGGTAGCTC
1 ATAACGGGAAGCTC
60581223 CGAAGAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 25 0.76
25 4 0.12
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (24 bp):
ATAACGGGAAGCTCATAAGAGCCA
Found at i:60585842 original size:14 final size:14
Alignment explanation
Indices: 60585825--60585852 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60585815 AACGGGAAAT
60585825 GATACTTTAGCCTA
1 GATACTTTAGCCTA
60585839 GATACTTTAGCCTA
1 GATACTTTAGCCTA
60585853 TAAACAGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
GATACTTTAGCCTA
Found at i:60589595 original size:23 final size:23
Alignment explanation
Indices: 60589564--60589614 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
60589554 ACCTACTTTC
* * *
60589564 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
60589587 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
60589610 TTACA
1 TTACA
60589615 CAATTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:60593590 original size:670 final size:672
Alignment explanation
Indices: 60592302--60593650 Score: 2373
Period size: 670 Copynumber: 2.0 Consensus size: 672
60592292 TTGCGCAATA
*
60592302 AGGGGATCAATTTTTGATACCTTGCATGGCTGGAGTTTGTGTTGCAGTAAAATTCTGATTGATGA
1 AGGGGATCAATTTTTGATACCTTGCACGGCTGGAGTTTGTGTTGCAGTAAAATTCTGATTGATGA
*
60592367 GATGCTGGAGTGTGATATGTGGAGGATTTCAAAGAGAGGATTGGATGAGAGATTTTAGGAGGAAA
66 GATGCTGGAG-GTGATATGTGGAGGATTTCAAAGAGAGGATTGGAGGAGAGATTTTAGGAGGAAA
*
60592432 AAGGGGAGTTTGAGTTGTTGAAGGTTGTTGCCGAATTTGCTAAGAGAAAAATAGAGTATTCGGTT
130 AAAGGGAGTTTGAGTTGTTGAAGGTTGTTGCCGAATTTGCTAAGAGAAAAATAGAGTATTCGGTT
*
60592497 TTGGTCATTTCCTGAGTGTGGGTATTCTTTCATTTGTTTAGTGGCCGAATACTGCATTTCTGGGA
195 TTGGTCATTTCCTGAGTGTGGGTATTCTTTCATTTGTTTAGTGGCCGAATACTGCATTTCCGGGA
* *
60592562 ACTCTCTTCTTTGCTTTTTGGTGCAACGTGAGTTGCTCTTTTGGGCTACTGTGTGAAAGTCGAAC
260 ACTCTCTTCCTTGCTTTTTGGTGCAACGCGAGTTGCTCTTTTGGGCTACTGTGTGAAAGTCGAAC
*
60592627 ATTCTTTTACCATTCGAGTACTTTGGGCAATTTGGTTTCTTTTCTCTATTAGCCGAATACCCTTT
325 ATTCTTTTACCATTCGAGTACTTTGGGCAATTTGATTTCTTTTCTCTATTAGCCGAATACCC---
*
60592692 TTCTTTTCTTTTCTTCCATCACTTCACACTGTCAGCAGAATCTCTACTCATCATTTTTTTTCTCC
387 -TCTTTTCTTTTCTTCAATCACTTCACACTGTCAGCAGAATCTCTACTCATCATTTTTTTTCTCC
60592757 ATTTCCTTTCCCTTCTCTTCCCATTTCAGTTAGCATTGGCCAAATGATTGATTAGTTCTTGTTGG
451 ATTTCCTTTCCCTTCTCTTCCCATTTCAGTTAGCATTGGCCAAATGATTGATTAGTTCTTGTTGG
60592822 CCGAACTCAAAATACCATCCTCTCTTTTTCTTTTTTCAACTTCTTTATTGTGTTTAAACCGAGTT
516 CCGAACTCAAAATACCATCCTCTCTTTTTCTTTTTTCAACTTCTTTATTGTGTTTAAACCGAGTT
*
60592887 TCTTCTTCTGCTAATCCTTGGGGTGGTTGCATACTCTGCTTATTTTTCTCTCTAAATCCCGATTG
581 TCTTCTTCTGCTAATCCTTGGAGTGGTTGCATACTCTGCTTATTTTTCTCTCTAAATCCCGATTG
60592952 TTTCCATAATCTGCCGATGGTATATTG
646 TTTCCATAATCTGCCGATGGTATATTG
60592979 AGGGGATCAATTTTTGATACCTTGCACGGCTGGAGTTTGTGTTGCAGTAAAATTCTGATTGATGA
1 AGGGGATCAATTTTTGATACCTTGCACGGCTGGAGTTTGTGTTGCAGTAAAATTCTGATTGATGA
*
60593044 GATGCTGGA-GTGATATGTGGAGGATTTCAATGAGAGGATTGGAGGAGAGATTTTAGGAGGAAAA
66 GATGCTGGAGGTGATATGTGGAGGATTTCAAAGAGAGGATTGGAGGAGAGATTTTAGGAGGAAAA
* *
60593108 AAGGGAGTTTGAGTTGTTGAAGGTTGTTGTCGAATTTGCTAAGGGAAAAATAGAGTATTCGGTTT
131 AAGGGAGTTTGAGTTGTTGAAGGTTGTTGCCGAATTTGCTAAGAGAAAAATAGAGTATTCGGTTT
* **
60593173 TGGTCATTTCCTGAGTGTGGGTATTCTTTTCATTTGTTTAGTGGCTGAATACTGTGTTTCCGGGA
196 TGGTCATTTCCTGAGTGTGGGTATTC-TTTCATTTGTTTAGTGGCCGAATACTGCATTTCCGGGA
* *
60593238 ACTCTCTTCCTTGTTTTTTGGTGCAACGCGAGTTGCTCTTTTGGGCTATTGTGTGAAAGTCGAAC
260 ACTCTCTTCCTTGCTTTTTGGTGCAACGCGAGTTGCTCTTTTGGGCTACTGTGTGAAAGTCGAAC
* *
60593303 ATTCTTTTACCATTCGAGTACTTTGGGCAATTTGATTTTTTTTCTCTATTAGCTGAATACCC-CT
325 ATTCTTTTACCATTCGAGTACTTTGGGCAATTTGATTTCTTTTCTCTATTAGCCGAATACCCTCT
*
60593367 TTTCTTTTCTTCAATCACTTTACACTGTCAGTC-GAATCTCTACTCATCA-TTTTTTTCTCCATT
390 TTTCTTTTCTTCAATCACTTCACACTGTCAG-CAGAATCTCTACTCATCATTTTTTTTCTCCATT
60593430 TCCTTTCCCTTCTCTTCCCATTTCAGTTAGCATTGGCCAAATGATTGATTAGTTCTTGTTGGCCG
454 TCCTTTCCCTTCTCTTCCCATTTCAGTTAGCATTGGCCAAATGATTGATTAGTTCTTGTTGGCCG
* **
60593495 AACTCACAATACCATCCTCTCTTTTTCTTTTTTTGACTTCTTTATTGTGTTTAAACCGAGTTTCT
519 AACTCAAAATACCATCCTCTCTTTTTCTTTTTTCAACTTCTTTATTGTGTTTAAACCGAGTTTCT
*
60593560 TCTTCTGCTAATCCTTGGAGTGGTTGCATACTCTGCTTATTTTTCTCTCTAAATCCTGATTGTTT
584 TCTTCTGCTAATCCTTGGAGTGGTTGCATACTCTGCTTATTTTTCTCTCTAAATCCCGATTGTTT
* *
60593625 CCATACTCTGCTGATGGTATATTG
649 CCATAATCTGCCGATGGTATATTG
60593649 AG
1 AG
60593651 TTGATATCCG
Statistics
Matches: 644, Mismatches: 26, Indels: 11
0.95 0.04 0.02
Matches are distributed among these distances:
670 228 0.35
671 47 0.07
672 1 0.00
675 141 0.22
676 154 0.24
677 73 0.11
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (672 bp):
AGGGGATCAATTTTTGATACCTTGCACGGCTGGAGTTTGTGTTGCAGTAAAATTCTGATTGATGA
GATGCTGGAGGTGATATGTGGAGGATTTCAAAGAGAGGATTGGAGGAGAGATTTTAGGAGGAAAA
AAGGGAGTTTGAGTTGTTGAAGGTTGTTGCCGAATTTGCTAAGAGAAAAATAGAGTATTCGGTTT
TGGTCATTTCCTGAGTGTGGGTATTCTTTCATTTGTTTAGTGGCCGAATACTGCATTTCCGGGAA
CTCTCTTCCTTGCTTTTTGGTGCAACGCGAGTTGCTCTTTTGGGCTACTGTGTGAAAGTCGAACA
TTCTTTTACCATTCGAGTACTTTGGGCAATTTGATTTCTTTTCTCTATTAGCCGAATACCCTCTT
TTCTTTTCTTCAATCACTTCACACTGTCAGCAGAATCTCTACTCATCATTTTTTTTCTCCATTTC
CTTTCCCTTCTCTTCCCATTTCAGTTAGCATTGGCCAAATGATTGATTAGTTCTTGTTGGCCGAA
CTCAAAATACCATCCTCTCTTTTTCTTTTTTCAACTTCTTTATTGTGTTTAAACCGAGTTTCTTC
TTCTGCTAATCCTTGGAGTGGTTGCATACTCTGCTTATTTTTCTCTCTAAATCCCGATTGTTTCC
ATAATCTGCCGATGGTATATTG
Found at i:60595200 original size:27 final size:27
Alignment explanation
Indices: 60595170--60595354 Score: 190
Period size: 27 Copynumber: 6.9 Consensus size: 27
60595160 CCCTAAAATA
* *
60595170 GGTATAATAACGGTAATGCCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAG
* * * *
60595197 GGTAAAATGATCATAATACCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAG
60595224 GGTAAAATAACCGTAATGCCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAG
* * * * ** *
60595251 GATAAAATGACGGTAATACCCCCATAA
1 GGTAAAATAACCGTAATGCCCCTGTAG
* **
60595278 GGTAAAATAACCGTAATACCCCCATAG
1 GGTAAAATAACCGTAATGCCCCTGTAG
* *
60595305 GGTAGAATGACCGTAATGCCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAG
* *
60595332 GATAAAATGACCGTAATGCCCCT
1 GGTAAAATAACCGTAATGCCCCT
60595355 AAAAGGTAAA
Statistics
Matches: 130, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 130 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
GGTAAAATAACCGTAATGCCCCTGTAG
Found at i:60595257 original size:54 final size:53
Alignment explanation
Indices: 60595170--60595354 Score: 217
Period size: 54 Copynumber: 3.4 Consensus size: 53
60595160 CCCTAAAATA
* * *
60595170 GGTATAATAACGGTAATGCCCCTGTAGGGTAAAATGATCATAATACCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGA-CGTAATACCCCTGTAG
* ** *
60595224 GGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACGGTAATACCCCCATAA
1 GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGAC-GTAATACCCCTGTAG
* ** * *
60595278 GGTAAAATAACCGTAATACCCCCATAGGGTAGAATGACCGTAATGCCCCTGTAG
1 GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGA-CGTAATACCCCTGTAG
* *
60595332 GATAAAATGACCGTAATGCCCCT
1 GGTAAAATAACCGTAATGCCCCT
60595355 AAAAGGTAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 107 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (53 bp):
GGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGACGTAATACCCCTGTAG
Found at i:60595318 original size:81 final size:81
Alignment explanation
Indices: 60595210--60595364 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
60595200 AAAATGATCA
** *
60595210 TAATACCCCTGTAGGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACGGTAATACCCCCA
1 TAATACCCCCATAGGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCCA
*
60595275 TAAGGTAAAATAACCG
66 AAAGGTAAAATAACCG
* * * *
60595291 TAATACCCCCATAGGGTAGAATGACCGTAATGCCCCTGTAGGATAAAATGACCGTAATGCCCCTA
1 TAATACCCCCATAGGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCCA
60595356 AAAGGTAAA
66 AAAGGTAAA
60595365 TGACTATTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (81 bp):
TAATACCCCCATAGGGTAAAATAACCGTAATGCCCCTGTAGGATAAAATGACCGTAATACCCCCA
AAAGGTAAAATAACCG
Found at i:60595568 original size:26 final size:26
Alignment explanation
Indices: 60595539--60595592 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
60595529 TTAGCCACAT
*
60595539 ATACTATTATTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGTTGCG
* *
60595565 ATACTGTTGCTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGTTGCG
60595591 AT
1 AT
60595593 GTTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.26, T:0.41
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGTTGCG
Found at i:60595604 original size:26 final size:26
Alignment explanation
Indices: 60595549--60595604 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
60595539 ATACTATTAT
** *
60595549 TGGCAGCTTTGTTGCGATACTGTTGC
1 TGGCAGCTTTGTTGCGATACTACTGA
**
60595575 TGGCAGCTTTGTTGCGATGTTACTGA
1 TGGCAGCTTTGTTGCGATACTACTGA
60595601 TGGC
1 TGGC
60595605 TTTGTGGCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.38
Consensus pattern (26 bp):
TGGCAGCTTTGTTGCGATACTACTGA
Found at i:60595634 original size:32 final size:32
Alignment explanation
Indices: 60595593--60595765 Score: 213
Period size: 32 Copynumber: 5.4 Consensus size: 32
60595583 TTGTTGCGAT
*
60595593 GTTACTGATGGCTTTGTGGCGATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * *
60595625 GTTACTGATGACTTTATGCCGATTATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* *
60595657 ATTACTGATGGCTTTGTGCCAATCATATTACC
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * *
60595689 GTTACTGATGGCTGTGTGCCGATCATATCACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
* * * *
60595721 GCTACTAATGGCTTTGTGCCAATCATATTACT
1 GTTACTGATGGCTTTGTGCCGATCATATTACC
*
60595753 G-TACTTATGGCTT
1 GTTACTGATGGCTT
60595766 GTAGCCATTC
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 11 0.09
32 110 0.91
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
GTTACTGATGGCTTTGTGCCGATCATATTACC
Found at i:60597812 original size:35 final size:36
Alignment explanation
Indices: 60597767--60597839 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
60597757 TTGTGTGACA
*
60597767 AAAATTCTAAGAGATTGTTTGCAAGTCAAGTTAAAC
1 AAAATTCTAAGAGATTGCTTGCAAGTCAAGTTAAAC
60597803 AAAA-TCTAAGAGATTGCTTGCAAGTCAAGTTAAAC
1 AAAATTCTAAGAGATTGCTTGCAAGTCAAGTTAAAC
60597838 AA
1 AA
60597840 TATATATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (36 bp):
AAAATTCTAAGAGATTGCTTGCAAGTCAAGTTAAAC
Found at i:60597916 original size:24 final size:24
Alignment explanation
Indices: 60597871--60597917 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
60597861 ATTTAGTAGT
*
60597871 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
60597895 ATAATATATTTTA-CATTGATTAG
1 ATAATATA-TTTAGCATTGATTAG
60597918 AATTAGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:60601025 original size:16 final size:17
Alignment explanation
Indices: 60601004--60601035 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60600994 TGGATTGGAT
60601004 CCCTTTCAGC-TTTTTC
1 CCCTTTCAGCATTTTTC
60601020 CCCTTTCAGCATTTTT
1 CCCTTTCAGCATTTTT
60601036 GCCGATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.50
Consensus pattern (17 bp):
CCCTTTCAGCATTTTTC
Found at i:60603166 original size:16 final size:16
Alignment explanation
Indices: 60603145--60603175 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60603135 TTCACTAGTA
*
60603145 TGTCTTTTTTATTTTT
1 TGTCTTTTATATTTTT
60603161 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
60603176 ACATGCATAG
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:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:60604301 original size:14 final size:14
Alignment explanation
Indices: 60604278--60604308 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
60604268 TGTCGCGTTC
*
60604278 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
60604292 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
60604306 TTA
1 TTA
60604309 AAACAATCAT
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:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:60613828 original size:12 final size:12
Alignment explanation
Indices: 60613811--60613835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60613801 CCCAAAATAT
60613811 AAAATATAAAAC
1 AAAATATAAAAC
60613823 AAAATATAAAAC
1 AAAATATAAAAC
60613835 A
1 A
60613836 TCTGAATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATATAAAAC
Found at i:60619022 original size:28 final size:28
Alignment explanation
Indices: 60618991--60619047 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
60618981 GAGAAAAAGG
60618991 TACATAAGAAGAATGAACAAATTAACTA
1 TACATAAGAAGAATGAACAAATTAACTA
60619019 TACATAAGAAGAATGAACAAATTAACTA
1 TACATAAGAAGAATGAACAAATTAACTA
60619047 T
1 T
60619048 CATGATCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.23
Consensus pattern (28 bp):
TACATAAGAAGAATGAACAAATTAACTA
Found at i:60620793 original size:3 final size:3
Alignment explanation
Indices: 60620743--60620776 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
60620733 GGAGAGTGAC
60620743 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
60620777 TAAGCTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:60625528 original size:20 final size:20
Alignment explanation
Indices: 60625492--60625531 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60625482 TCCTATTGTT
60625492 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
60625512 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
60625532 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:60626122 original size:44 final size:43
Alignment explanation
Indices: 60626074--60626163 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
60626064 ACTCATATCC
* * *
60626074 TCAACTTGCCCCACTACAACTTCAGGGGGATAAGATTCGTGACT
1 TCAACCTGCCCCACTACAACTTCA-GAGGACAAGATTCGTGACT
*** * *
60626118 TCAACCTGCTTTACTGCAACTTCAGAGGACAAGATTTGTGACT
1 TCAACCTGCCCCACTACAACTTCAGAGGACAAGATTCGTGACT
60626161 TCA
1 TCA
60626164 CTTCCATCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 19 0.50
44 19 0.50
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
TCAACCTGCCCCACTACAACTTCAGAGGACAAGATTCGTGACT
Found at i:60626584 original size:46 final size:45
Alignment explanation
Indices: 60626431--60626761 Score: 214
Period size: 44 Copynumber: 7.6 Consensus size: 45
60626421 ATTTTAATCC
* * *
60626431 GCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* * * **
60626474 GCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
60626518 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
* * *
60626564 GTTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
* * * * *
60626605 TCTCTACTGTAA-CTTCAGAGAGATAAGATC------CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCT
* ** * * *
60626644 GCTCCATTGTAATCTCAATGAGATAGGAT-T-ACTATCCTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
60626688 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
* *
60626734 GTTCCACTGTAATCTCAGAGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
60626762 CCTGTATAAT
Statistics
Matches: 225, Mismatches: 45, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
43 24 0.11
44 71 0.32
45 2 0.01
46 68 0.30
47 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (45 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
Found at i:60659445 original size:20 final size:20
Alignment explanation
Indices: 60659409--60659448 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60659399 TCCTATTGTT
60659409 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
60659429 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
60659449 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:60665130 original size:20 final size:21
Alignment explanation
Indices: 60665105--60665146 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60665095 ACAAATTGTT
60665105 AAAATAAT-TAATTAAAAATA
1 AAAATAATATAATTAAAAATA
**
60665125 AAAATAATATTTTTAAAAATA
1 AAAATAATATAATTAAAAATA
60665146 A
1 A
60665147 TACAAATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAATATAATTAAAAATA
Found at i:60665564 original size:20 final size:18
Alignment explanation
Indices: 60665535--60665573 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
60665525 CTAGCCATTA
60665535 ATATACAATTATTATATAAT
1 ATATACAATTA--ATATAAT
*
60665555 ATATATAATTAATATAAT
1 ATATACAATTAATATAAT
60665573 A
1 A
60665574 ATTTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATACAATTAATATAAT
Found at i:60665569 original size:11 final size:11
Alignment explanation
Indices: 60665531--60665576 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
60665521 TAAACTAGCC
*
60665531 ATTAATATACA
1 ATTAATATATA
*
60665542 ATTATTATATA
1 ATTAATATATA
60665553 A-T-ATATATA
1 ATTAATATATA
60665562 ATTAATATAATA
1 ATTAATAT-ATA
60665574 ATT
1 ATT
60665577 TTATAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
9 7 0.24
10 2 0.07
11 14 0.48
12 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTAATATATA
Found at i:60667101 original size:3 final size:3
Alignment explanation
Indices: 60667093--60667119 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
60667083 ATCTTATATG
60667093 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
60667120 TTCATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60669751 original size:13 final size:15
Alignment explanation
Indices: 60669733--60669765 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
60669723 CGCCATAAAG
60669733 ATTTTTTTGT-TAA-
1 ATTTTTTTGTGTAAC
60669746 ATTTTTTTGTGTAAC
1 ATTTTTTTGTGTAAC
60669761 ATTTT
1 ATTTT
60669766 GAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (15 bp):
ATTTTTTTGTGTAAC
Found at i:60670395 original size:18 final size:18
Alignment explanation
Indices: 60670359--60670401 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 18
60670349 TGGTCGAGTT
*
60670359 ATTTGTTTAAGTTTGAAG
1 ATTTGTTTAAATTTGAAG
60670377 ATTTGTTTAAAATTTAAGAAG
1 ATTTGTTT-AAATTT--GAAG
60670398 ATTT
1 ATTT
60670402 TGATCAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (18 bp):
ATTTGTTTAAATTTGAAG
Found at i:60672543 original size:20 final size:23
Alignment explanation
Indices: 60672498--60672548 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
60672488 GTTTTATGTG
60672498 TATTTTAATGTTTACATATATTAAT
1 TATTTT-AT-TTTACATATATTAAT
60672523 T-TTTTATTTTACAT-T-TTAAT
1 TATTTTATTTTACATATATTAAT
60672543 TATTTT
1 TATTTT
60672549 GTCTTAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 7 0.28
23 2 0.08
24 4 0.16
25 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TATTTTATTTTACATATATTAAT
Found at i:60673633 original size:13 final size:13
Alignment explanation
Indices: 60673615--60673658 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
60673605 TTTAAATAAA
60673615 CAGTTAATAGAAT
1 CAGTTAATAGAAT
*
60673628 CAGTTAGTCA-AAT
1 CAGTTAAT-AGAAT
*
60673641 CGGTTAATAGAAT
1 CAGTTAATAGAAT
60673654 CAGTT
1 CAGTT
60673659 TCTAACACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (13 bp):
CAGTTAATAGAAT
Found at i:60675101 original size:25 final size:25
Alignment explanation
Indices: 60675073--60675146 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
60675063 AACACTCATA
*
60675073 CGAGCATGTAAACGGAAAGCTCTTT
1 CGAGCATGTAAACGGGAAGCTCTTT
* *
60675098 CGAGTCATAT-AACGGGAAGCTCATGT
1 CGAG-CATGTAAACGGGAAGCTC-TTT
60675124 -GAGC-TGTATAACGGGAAGCTCTT
1 CGAGCATGTA-AACGGGAAGCTCTT
60675147 GCAAGCCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 30 0.75
26 6 0.15
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (25 bp):
CGAGCATGTAAACGGGAAGCTCTTT
Found at i:60675137 original size:50 final size:50
Alignment explanation
Indices: 60675074--60675170 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
60675064 ACACTCATAC
* * *
60675074 GAGCATGTAAACGGAAAGCTCTTTCGAGTCATATAACGGGAAGCTCATGT
1 GAGCATGTAAACGGAAAGCTCTTGCAAGCCATATAACGGGAAGCTCATGT
* * *
60675124 GAGC-TGTATAACGGGAAGCTCTTGCAAGCCATTTATCGGGAAGCTCA
1 GAGCATGTA-AACGGAAAGCTCTTGCAAGCCATATAACGGGAAGCTCA
60675171 AGAGAGCCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 4 0.10
50 36 0.90
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
GAGCATGTAAACGGAAAGCTCTTGCAAGCCATATAACGGGAAGCTCATGT
Found at i:60675189 original size:50 final size:50
Alignment explanation
Indices: 60675131--60675302 Score: 206
Period size: 50 Copynumber: 3.4 Consensus size: 50
60675121 TGTGAGCTGT
* **
60675131 ATAACGGGAAGCTCTTGCA-AGCCATTTATCGGGAAGCTCA-AGAGAGCCAA
1 ATAACGGGAAGCTCGTG-AGAGCCAAATATCGGGAAGCTCATA-AGAGCCAA
* * *
60675181 ATATCGGGAAGCTCGTGAGAGCCAAATATCGGGATGCTCATAAGAGCTAA
1 ATAACGGGAAGCTCGTGAGAGCCAAATATCGGGAAGCTCATAAGAGCCAA
* * *
60675231 ATAACGAGAAGCTCGTGAGAGCCAAATATCTGGATA-CTCATAAGAGCTAA
1 ATAACGGGAAGCTCGTGAGAGCCAAATATCGGGA-AGCTCATAAGAGCCAA
*
60675281 ATAACGGAAAGCTCGTGAGAGC
1 ATAACGGGAAGCTCGTGAGAGC
60675303 TGTGGTGTAT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 105 0.98
51 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (50 bp):
ATAACGGGAAGCTCGTGAGAGCCAAATATCGGGAAGCTCATAAGAGCCAA
Found at i:60675302 original size:75 final size:75
Alignment explanation
Indices: 60675163--60675303 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
60675153 CATTTATCGG
* * * * *
60675163 GAAGCTCAAGAGAGCCAAATATCGGGAAGCTCGTGAGAGCCAAATATCGGGATGCTCATAAGAGC
1 GAAGCTCAAGAGAGCCAAATATCGGGAAGCTCATAAGAGCCAAATAACGGAAAGCTCATAAGAGC
60675228 TAAATAACGA
66 TAAATAACGA
** * * * *
60675238 GAAGCTCGTGAGAGCCAAATATCTGGATA-CTCATAAGAGCTAAATAACGGAAAGCTCGTGAGAG
1 GAAGCTCAAGAGAGCCAAATATCGGGA-AGCTCATAAGAGCCAAATAACGGAAAGCTCATAAGAG
60675302 CT
65 CT
60675304 GTGGTGTATC
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
75 53 0.98
76 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (75 bp):
GAAGCTCAAGAGAGCCAAATATCGGGAAGCTCATAAGAGCCAAATAACGGAAAGCTCATAAGAGC
TAAATAACGA
Found at i:60675303 original size:25 final size:25
Alignment explanation
Indices: 60675157--60675302 Score: 125
Period size: 25 Copynumber: 5.8 Consensus size: 25
60675147 GCAAGCCATT
* **
60675157 TATCGGGAAGCTCAAGAGAGCCAAA
1 TATCGGAAAGCTCGTGAGAGCCAAA
*
60675182 TATCGGGAAGCTCGTGAGAGCCAAA
1 TATCGGAAAGCTCGTGAGAGCCAAA
* * * * *
60675207 TATCGGGATGCTCATAAGAGCTAAA
1 TATCGGAAAGCTCGTGAGAGCCAAA
*
60675232 TAAC-GAGAAGCTCGTGAGAGCCAAA
1 TATCGGA-AAGCTCGTGAGAGCCAAA
* * * *
60675257 TATCTGGATA-CTCATAAGAGCTAAA
1 TATC-GGAAAGCTCGTGAGAGCCAAA
*
60675282 TAACGGAAAGCTCGTGAGAGC
1 TATCGGAAAGCTCGTGAGAGC
60675303 TGTGGTGTAT
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
24 5 0.05
25 88 0.92
26 1 0.01
27 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (25 bp):
TATCGGAAAGCTCGTGAGAGCCAAA
Found at i:60675479 original size:22 final size:23
Alignment explanation
Indices: 60675449--60675495 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
60675439 AACTACACAT
*
60675449 TTCACACACATA-ACAATATTCAA
1 TTCACACACATACA-AATATACAA
60675472 TTCA-ACACATACAAATATACAA
1 TTCACACACATACAAATATACAA
60675494 TT
1 TT
60675496 TAGTTATACG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
TTCACACACATACAAATATACAA
Found at i:60679056 original size:23 final size:23
Alignment explanation
Indices: 60679025--60679073 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
60679015 AAATTTTCCT
*
60679025 AATATTTTTTTATAGTTTTTAATA
1 AATATTTTTTTATAATTTTT-ATA
60679049 AATA-TTTTTTATAATTTTTATA
1 AATATTTTTTTATAATTTTTATA
60679071 AAT
1 AAT
60679074 TCTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
AATATTTTTTTATAATTTTTATA
Found at i:60679648 original size:3 final size:3
Alignment explanation
Indices: 60679640--60679669 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
60679630 CACATTTTTA
60679640 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
60679670 ATAATTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:60688634 original size:28 final size:27
Alignment explanation
Indices: 60688560--60688659 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 27
60688550 AAATTGTTAA
60688560 AAAAATAAGAAATATATAAATTATAAAACTTT
1 AAAAA-AAGAAATATATAAATTA-AAAA---T
60688592 AAAAAAAGAACATATATAAATTAAAAAT
1 AAAAAAAGAA-ATATATAAATTAAAAAT
* *
60688620 AAAAAAATATAATATATAAATTGAAAAT
1 AAAAAAAGA-AATATATAAATTAAAAAT
60688648 AAAACAAA-AAAT
1 AAAA-AAAGAAAT
60688660 TTAGTTAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.05
28 30 0.48
29 4 0.06
31 9 0.14
32 17 0.27
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (27 bp):
AAAAAAAGAAATATATAAATTAAAAAT
Found at i:60688695 original size:21 final size:20
Alignment explanation
Indices: 60688671--60688709 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60688661 TAGTTAAAAT
60688671 TTCAAAAAAAAATAAAATATG
1 TTCAAAAAAAAA-AAAATATG
*
60688692 TTCAAAAAATAAAAAATA
1 TTCAAAAAAAAAAAAATA
60688710 AAAAATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
TTCAAAAAAAAAAAAATATG
Found at i:60688984 original size:24 final size:25
Alignment explanation
Indices: 60688928--60688984 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
60688918 TTGACTATTT
*
60688928 TTTATTTTTTTTATTTTATTTGTCA
1 TTTATTTTTTTGATTTTATTTGTCA
* *
60688953 TATA-TTTTTAGATTTTATTT-T-A
1 TTTATTTTTTTGATTTTATTTGTCA
60688975 TTTATTTTTT
1 TTTATTTTTT
60688985 AAACTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 14 0.52
25 3 0.11
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTATTTTTTTGATTTTATTTGTCA
Found at i:60691439 original size:9 final size:9
Alignment explanation
Indices: 60691427--60691451 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60691417 CAAATAACTC
60691427 GAATAATTT
1 GAATAATTT
60691436 GAATAATTT
1 GAATAATTT
60691445 GAATAAT
1 GAATAAT
60691452 AGATTGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (9 bp):
GAATAATTT
Found at i:60691597 original size:20 final size:20
Alignment explanation
Indices: 60691551--60691598 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
60691541 AATTTACATT
60691551 TTATAAAATTCTTTAAAAAA
1 TTATAAAATTCTTTAAAAAA
* *
60691571 TTTTAAAATT-TTTTAAAAA
1 TTATAAAATTCTTTAAAAAA
60691590 TATATAAAA
1 T-TATAAAA
60691599 AGTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATAAAATTCTTTAAAAAA
Found at i:60696175 original size:4 final size:4
Alignment explanation
Indices: 60696130--60696165 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
60696120 TATATTAACC
*
60696130 CATA TATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
60696166 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
CATA
Found at i:60716097 original size:22 final size:22
Alignment explanation
Indices: 60716067--60716117 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
60716057 ATAAATTGAG
* *
60716067 AATAACATTAAAACAAGAAGAA
1 AATAACATTAAAACAACAAAAA
* *
60716089 AATAGCATTGAAACAACAAAAA
1 AATAACATTAAAACAACAAAAA
60716111 AATAACA
1 AATAACA
60716118 GATATTTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.67, C:0.12, G:0.08, T:0.14
Consensus pattern (22 bp):
AATAACATTAAAACAACAAAAA
Found at i:60718762 original size:20 final size:20
Alignment explanation
Indices: 60718737--60718775 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
60718727 GTAAATTTTA
60718737 TTTAAAAATT-TACAAAAATT
1 TTTAAAAATTCTA-AAAAATT
60718757 TTTAAAAATTCTAAAAAAT
1 TTTAAAAATTCTAAAAAAT
60718776 AAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTAAAAATTCTAAAAAATT
Found at i:60718892 original size:28 final size:29
Alignment explanation
Indices: 60718833--60718893 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
60718823 AAAATTGCAG
* *
60718833 AAAAAATTGTAAAATTTATTAAACATTAT
1 AAAAAATTGTAAAATTTATTAAAAATCAT
*
60718862 AAAAAATTG-AACAA-TTATTAAAAATCGT
1 AAAAAATTGTAA-AATTTATTAAAAATCAT
60718890 AAAA
1 AAAA
60718894 TTATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAAAATTGTAAAATTTATTAAAAATCAT
Found at i:60718952 original size:18 final size:18
Alignment explanation
Indices: 60718857--60718955 Score: 66
Period size: 18 Copynumber: 5.7 Consensus size: 18
60718847 TTTATTAAAC
60718857 ATTATAAAAAATTGAACA
1 ATTATAAAAAATTGAACA
* *
60718875 ATTATTAAAAATCGTAA-A
1 ATTATAAAAAATTG-AACA
*
60718893 ATTATAATAAA---AA-A
1 ATTATAAAAAATTGAACA
* * *
60718907 ACTGTAAAAATATTAAAC-
1 ATTATAAAAA-ATTGAACA
* *
60718925 ATTTTGAAAAATTGAACA
1 ATTATAAAAAATTGAACA
60718943 ATTATAAAAAATT
1 ATTATAAAAAATT
60718956 TAAAAAGTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
17 6 0.10
18 42 0.69
19 2 0.03
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
ATTATAAAAAATTGAACA
Found at i:60718988 original size:18 final size:18
Alignment explanation
Indices: 60718948--60718988 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
60718938 GAACAATTAT
* *
60718948 AAAAAATTTAAAAAGTAG
1 AAAAAATTTAAAAACTAA
*
60718966 TAAAAATTTAAAAACTAA
1 AAAAAATTTAAAAACTAA
60718984 AAAAA
1 AAAAA
60718989 TATATATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAATTTAAAAACTAA
Found at i:60719008 original size:29 final size:29
Alignment explanation
Indices: 60718968--60719029 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
60718958 AAAAGTAGTA
*
60718968 AAAATTTAAAAACTA-AAAAAATATATATT
1 AAAATTTAAAAACTATAAAAAAT-TAAATT
* *
60718997 AAAATTTGAAAATTATAAAAAATTAAATT
1 AAAATTTAAAAACTATAAAAAATTAAATT
60719026 AAAA
1 AAAA
60719030 CAATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATTTAAAAACTATAAAAAATTAAATT
Found at i:60725906 original size:245 final size:245
Alignment explanation
Indices: 60725471--60725966 Score: 850
Period size: 245 Copynumber: 2.0 Consensus size: 245
60725461 GGACTCTAAA
60725471 ACAAG-CAAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCAGAAGCATGGCAATGTAG
1 ACAAGTCAAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCAGAAGCATGGCAATGTAG
* * *
60725535 CATCATAAAGGTAGCTTAAGGATCCATATTAAAGATGCAATAACAGTTTCTTTGTTTTTATTTCT
66 CATCATAAAGGTAACTTAAGGACCCATATTAAAGATGCAATAACAGTTTCTCTGTTTTTATTTCT
*
60725600 TGCATAGCTTCAATTCAGCCTCCATCAGTTTCGCTAAAGACATTTAATTATCAAGTAGTTGCCTC
131 TGCATAGCTCCAATTCAGCCTCCATCAGTTTCGCTAAAGACATTTAATTATCAAGTAGTTGCCTC
*
60725665 AACGTTCTATGCTAAGTTCTCAAGCACAACAACAAAAACAGAAGTCAGTG
196 AACGTTCTATGATAAGTTCTCAAGCACAACAACAAAAACAGAAGTCAGTG
* *
60725715 ACAAGTCAAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACGCCAGAAGCATGTCAATGTAG
1 ACAAGTCAAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCAGAAGCATGGCAATGTAG
*
60725780 CATCATAAAGGTAATTTAAGGACCCATATTAAAGATGCAATAACAGTTTCTCTGTTTTTATTTCT
66 CATCATAAAGGTAACTTAAGGACCCATATTAAAGATGCAATAACAGTTTCTCTGTTTTTATTTCT
* * *
60725845 TGCATAGCTCCAATTCGGCCTCCATCAGTTTTGGTAAAGACATTTAATTATCAAGTAGTTGCCTC
131 TGCATAGCTCCAATTCAGCCTCCATCAGTTTCGCTAAAGACATTTAATTATCAAGTAGTTGCCTC
* * * *
60725910 GATGTTCTATGATAAGTTCTCAAGCACAATACCAAAAACAGAAGTCAGTG
196 AACGTTCTATGATAAGTTCTCAAGCACAACAACAAAAACAGAAGTCAGTG
60725960 ACAAGTC
1 ACAAGTC
60725967 TGTTTCAGCT
Statistics
Matches: 236, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
244 5 0.02
245 231 0.98
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (245 bp):
ACAAGTCAAGTTAGCACATAAGTTAATCCTACCAGATAAGCAACACCAGAAGCATGGCAATGTAG
CATCATAAAGGTAACTTAAGGACCCATATTAAAGATGCAATAACAGTTTCTCTGTTTTTATTTCT
TGCATAGCTCCAATTCAGCCTCCATCAGTTTCGCTAAAGACATTTAATTATCAAGTAGTTGCCTC
AACGTTCTATGATAAGTTCTCAAGCACAACAACAAAAACAGAAGTCAGTG
Found at i:60728426 original size:27 final size:28
Alignment explanation
Indices: 60728396--60728456 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
60728386 TTTTATATTT
60728396 AAATATTTAAGA-A-TTTAAGAATTTAA-A
1 AAATATTTAA-ACATTTTAAG-ATTTAATA
60728423 AAATATTTAAACATTTTAAGATTTAATA
1 AAATATTTAAACATTTTAAGATTTAATA
60728451 AAATAT
1 AAATAT
60728457 ATATTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.03
27 17 0.55
28 13 0.42
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (28 bp):
AAATATTTAAACATTTTAAGATTTAATA
Found at i:60728566 original size:9 final size:9
Alignment explanation
Indices: 60728532--60728564 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
60728522 CTAAAAAATC
60728532 AAAATTGTT
1 AAAATTGTT
60728541 AAAATTGTT
1 AAAATTGTT
60728550 AAAATT-TT
1 AAAATTGTT
60728558 AAGAATT
1 AA-AATT
60728565 TTCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (9 bp):
AAAATTGTT
Found at i:60728571 original size:18 final size:19
Alignment explanation
Indices: 60728530--60728571 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
60728520 TTCTAAAAAA
60728530 TCAAAATTGTTAAAATTGT
1 TCAAAATTGTTAAAATTGT
60728549 T-AAAATT-TTAAGAATT-T
1 TCAAAATTGTTAA-AATTGT
60728566 TCAAAA
1 TCAAAA
60728572 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (19 bp):
TCAAAATTGTTAAAATTGT
Found at i:60728944 original size:24 final size:24
Alignment explanation
Indices: 60728899--60728963 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
60728889 TAAAAGTTTA
*
60728899 ACTAAAATCTTAGAGTAATTTTATT-
1 ACTAAAATCTTA-ACTAATTTT-TTC
* *
60728924 TCTAAAATTTTAACTAATTTTTTC
1 ACTAAAATCTTAACTAATTTTTTC
60728948 ACTAAAATCTTAACTA
1 ACTAAAATCTTAACTA
60728964 CATTGTACGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 22 0.65
25 10 0.29
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (24 bp):
ACTAAAATCTTAACTAATTTTTTC
Found at i:60737257 original size:5 final size:5
Alignment explanation
Indices: 60737247--60737298 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
60737237 AAGTCAAAGG
* *
60737247 GAGAA GAGAA GAGAA G-GAA GAGAA -A-AA GGGAA GAGAA AAGAA GAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA
60737294 GAGAA
1 GAGAA
60737299 CGCCGAGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 5 0.12
5 33 0.82
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:60738147 original size:17 final size:17
Alignment explanation
Indices: 60738127--60738363 Score: 58
Period size: 18 Copynumber: 13.4 Consensus size: 17
60738117 TACGGTATTT
60738127 AAAAAAATTCGTGTTTC
1 AAAAAAATTCGTGTTTC
**
60738144 AAAAATCTTCGTGTTTTC
1 AAAAAAATTCGTG-TTTC
60738162 ---AAAATTCCAGTGTTTC
1 AAAAAAATT-C-GTGTTTC
*
60738178 -AAAAATTGTCGTGTTTTC
1 AAAAAAAT-TCGTG-TTTC
*
60738196 AAAAAAATTTCCTTGTTTTC
1 AAAAAAA-TT-CGTG-TTTC
* * * *
60738216 --AAAAGTCCCGTATTCC
1 AAAAAAAT-TCGTGTTTC
* ** *
60738232 GAAAATTTTCTTGTTTTC
1 AAAAAAATTCGTGTT-TC
60738250 AAAAAAATTCTGTGTTTC
1 AAAAAAATTC-GTGTTTC
* * *
60738268 -ATAAATTTCCATGTTTTC
1 AAAAAAATT-CGTG-TTTC
*
60738286 -AAAAAATCTCGTCTTTC
1 AAAAAAAT-TCGTGTTTC
**
60738303 AAAAATTTTCGTGTTTTC
1 AAAAAAATTCGTG-TTTC
60738321 AAAAAAATTGACCGTGTTTC
1 AAAAAAATT---CGTGTTTC
* ** *
60738341 ATAAATTTTCGCGTTTC
1 AAAAAAATTCGTGTTTC
60738358 AAAAAA
1 AAAAAA
60738364 TCCTCGTGTT
Statistics
Matches: 157, Mismatches: 40, Indels: 46
0.65 0.16 0.19
Matches are distributed among these distances:
15 4 0.03
16 8 0.05
17 51 0.32
18 59 0.38
19 12 0.08
20 19 0.12
21 4 0.03
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAAAAATTCGTGTTTC
Found at i:60738177 original size:34 final size:32
Alignment explanation
Indices: 60738130--60738199 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 32
60738120 GGTATTTAAA
60738130 AAAATTCGTGTTTCAAAAATCT-TCGTGTTTTC
1 AAAATTCGTGTTTCAAAAAT-TGTCGTGTTTTC
60738162 AAAATTCCAGTGTTTCAAAAATTGTCGTGTTTTC
1 AAAATT-C-GTGTTTCAAAAATTGTCGTGTTTTC
60738196 AAAA
1 AAAA
60738200 AAATTTCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 6 0.17
33 2 0.06
34 27 0.77
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (32 bp):
AAAATTCGTGTTTCAAAAATTGTCGTGTTTTC
Found at i:60738203 original size:20 final size:20
Alignment explanation
Indices: 60738178--60738219 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
60738168 CCAGTGTTTC
60738178 AAAAATTGT-CGTGTTTTCAA
1 AAAAATT-TCCGTGTTTTCAA
*
60738198 AAAAATTTCCTTGTTTTCAA
1 AAAAATTTCCGTGTTTTCAA
60738218 AA
1 AA
60738220 GTCCCGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (20 bp):
AAAAATTTCCGTGTTTTCAA
Found at i:60738215 original size:54 final size:52
Alignment explanation
Indices: 60738144--60738324 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 52
60738134 TTCGTGTTTC
*
60738144 AAAAATCTTCGTGTTTTCAAAATTCCAGTGTTTCAAAAATTGTCGTGTTTTCAA
1 AAAAAT-TTC-TGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCAA
* * * * * * *
60738198 AAAAATTTCCTTGTTTTCAAAAGTCCCGTATTCCGAAAATTTTCTTGTTTTCAA
1 AAAAATTT-C-TGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCAA
* *
60738252 AAAAA-TTCTGTGTTTCATAAATTTCCA-TGTTTTCAAAAAATCTCGT-CTTTC-A
1 AAAAATTTCTGT-TTTCA-AAA-TTCCAGTG-TTTCAAAAATTCTCGTGTTTTCAA
*
60738304 AAAATTTTCGTGTTTTCAAAA
1 AAAAATTTC-TGTTTTCAAAA
60738325 AAATTGACCG
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
51 3 0.03
52 14 0.14
53 20 0.20
54 65 0.64
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (52 bp):
AAAAATTTCTGTTTTCAAAATTCCAGTGTTTCAAAAATTCTCGTGTTTTCAA
Found at i:60738303 original size:35 final size:34
Alignment explanation
Indices: 60738199--60738326 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
60738189 TGTTTTCAAA
* * *
60738199 AAAATTTCCTTGTTTTC-AAAAGTCCCGTATTCC
1 AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
60738232 GAAAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTC
1 -AAAATTTCCTTGTTTTC-AAAAAATCTC-GTATTTC
* *
60738268 ATAAATTTCCATGTTTTCAAAAAATCTCGTCTTTC
1 A-AAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
* *
60738303 AAAAATTTTCGTGTTTTCAAAAAA
1 -AAAATTTCCTTGTTTTCAAAAAA
60738327 ATTGACCGTG
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
34 16 0.21
35 35 0.45
36 27 0.35
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (34 bp):
AAAATTTCCTTGTTTTCAAAAAATCTCGTATTTC
Found at i:60738372 original size:35 final size:36
Alignment explanation
Indices: 60738234--60738375 Score: 150
Period size: 35 Copynumber: 3.9 Consensus size: 36
60738224 CGTATTCCGA
*
60738234 AAATTTTCTTGTTTTCAAAAAAAT-TCTGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAATCTC-GTGTTTCAT
* * * *
60738270 AAATTTCCATGTTTTC-AAAAAATCTCGTCTTTCAA
1 AAATTTTCGTGTTTTCAAAAAAATCTCGTGTTTCAT
60738305 AAATTTTCGTGTTTTCAAAAAAAT-TGACCGTGTTTCAT
1 AAATTTTCGTGTTTTCAAAAAAATCT---CGTGTTTCAT
*
60738343 AAATTTTCGCG-TTTC-AAAAAATCCTCGTGTTTC
1 AAATTTTCGTGTTTTCAAAAAAAT-CTCGTGTTTC
60738376 GTATTTTATC
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
35 37 0.41
36 30 0.33
37 4 0.04
38 19 0.21
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (36 bp):
AAATTTTCGTGTTTTCAAAAAAATCTCGTGTTTCAT
Found at i:60738374 original size:18 final size:18
Alignment explanation
Indices: 60738246--60738375 Score: 83
Period size: 18 Copynumber: 7.2 Consensus size: 18
60738236 ATTTTCTTGT
60738246 TTTCAAAAAAATTCT-GTG
1 TTTC-AAAAAATTCTCGTG
* * *
60738264 TTTCATAAATTTC-CATG
1 TTTCAAAAAATTCTCGTG
*
60738281 TTTTCAAAAAA-TCTCGTC
1 -TTTCAAAAAATTCTCGTG
*
60738299 TTTC-AAAAATTTTCGTG
1 TTTCAAAAAATTCTCGTG
60738316 TTTTCAAAAAAATTGAC-CGTG
1 -TTTC-AAAAAATT--CTCGTG
* * *
60738337 TTTC-ATAAATTTTCGCG
1 TTTCAAAAAATTCTCGTG
*
60738354 TTTCAAAAAATCCTCGTG
1 TTTCAAAAAATTCTCGTG
60738372 TTTC
1 TTTC
60738376 GTATTTTATC
Statistics
Matches: 84, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.06
17 27 0.32
18 37 0.44
20 11 0.13
21 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.42
Consensus pattern (18 bp):
TTTCAAAAAATTCTCGTG
Found at i:60738411 original size:20 final size:18
Alignment explanation
Indices: 60738386--60738425 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
60738376 GTATTTTATC
*
60738386 AAAAATTTTATGTTTTCAA
1 AAAAAATTTATGTTTT-AA
*
60738405 AAAAAATTTGTGTTTTAA
1 AAAAAATTTATGTTTTAA
60738423 AAA
1 AAA
60738426 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (18 bp):
AAAAAATTTATGTTTTAA
Found at i:60738424 original size:16 final size:17
Alignment explanation
Indices: 60738405--60738498 Score: 66
Period size: 16 Copynumber: 5.4 Consensus size: 17
60738395 ATGTTTTCAA
*
60738405 AAAAAATTT-GTGTTTT
1 AAAAAATTTCGTGTTTC
*
60738421 AAAAATTTTCGTGTTTC
1 AAAAAATTTCGTGTTTC
*
60738438 AAAAAGAAAATTCGTGTTTCC
1 --AAA-AAATTTCGTGTTT-C
*
60738459 TAAAAAATCTCGTGTTTC
1 -AAAAAATTTCGTGTTTC
* * *
60738477 -AAAATTTTCGTTTTTT
1 AAAAAATTTCGTGTTTC
60738493 AAAAAA
1 AAAAAA
60738499 AAGAGTTTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
16 20 0.33
17 10 0.17
18 1 0.02
19 14 0.23
20 14 0.23
21 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:60738428 original size:35 final size:37
Alignment explanation
Indices: 60738386--60738480 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 37
60738376 GTATTTTATC
* *
60738386 AAAAATTTT-ATGTTTTC-AAAA-AAAATTTGTGTTTT
1 AAAAATTTTCGTG-TTTCAAAAAGAAAATTCGTGTTTT
60738421 AAAAATTTTCGTGTTTCAAAAAGAAAATTCGTGTTTCCT
1 AAAAATTTTCGTGTTTCAAAAAGAAAATTCGTGTTT--T
* *
60738460 AAAAAATCTCGTGTTTCAAAA
1 AAAAATTTTCGTGTTTCAAAA
60738481 TTTTCGTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
35 13 0.25
36 6 0.12
37 12 0.24
39 20 0.39
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (37 bp):
AAAAATTTTCGTGTTTCAAAAAGAAAATTCGTGTTTT
Found at i:60738453 original size:20 final size:19
Alignment explanation
Indices: 60738399--60738480 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
60738389 AATTTTATGT
*
60738399 TTTC-AAAAAAAATTTGTG
1 TTTCAAAAAAAAATTCGTG
* **
60738417 TTT--TAAAAATTTTCGTG
1 TTTCAAAAAAAAATTCGTG
60738434 TTTCAAAAAGAAAATTCGTG
1 TTTCAAAAA-AAAATTCGTG
**
60738454 TTTC-CTAAAAAATCTCGTG
1 TTTCAAAAAAAAAT-TCGTG
60738473 TTTCAAAA
1 TTTCAAAA
60738481 TTTTCGTTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 13 0.27
18 8 0.17
19 14 0.29
20 13 0.27
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTCAAAAAAAAATTCGTG
Found at i:60738464 original size:55 final size:54
Alignment explanation
Indices: 60738405--60738558 Score: 143
Period size: 55 Copynumber: 2.8 Consensus size: 54
60738395 ATGTTTTCAA
60738405 AAAAAATTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAGAAAA-TTCGTGTTTCCT
1 AAAAAATTTGTGTTTTAAAAATTTTCGTGTTTCAAAAA-AAAAGTTCGTGTTT-CT
* * * * *
60738460 AAAAAATCTCGTG-TTTCAAAATTTTCGTTTTTTAAAAAAAAGAGTTTTGTGTTTCT
1 AAAAAAT-TTGTGTTTTAAAAATTTTCGTGTTTCAAAAAAAA-AG-TTCGTGTTTCT
*** *
60738516 AAAATGCTTGTATTTTAAAAAATTTT-GTGTTTTCAAAAAAAAA
1 AAAAAATTTGTGTTTT-AAAAATTTTCGTG-TTTCAAAAAAAAA
60738559 AGGAAAAGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
54 3 0.04
55 33 0.42
56 16 0.20
57 27 0.34
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (54 bp):
AAAAAATTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAAAAAGTTCGTGTTTCT
Found at i:60738480 original size:17 final size:18
Alignment explanation
Indices: 60738405--60738476 Score: 58
Period size: 20 Copynumber: 3.9 Consensus size: 18
60738395 ATGTTTTCAA
*
60738405 AAAAAATTTGTGTTT--T
1 AAAAAATTCGTGTTTCCT
* **
60738421 AAAAATTTTCGTGTTTCAAA
1 AAAAA-ATTCGTGTTTC-CT
60738441 AAGAAAATTCGTGTTTCCT
1 AA-AAAATTCGTGTTTCCT
60738460 AAAAAATCTCGTGTTTC
1 AAAAAAT-TCGTGTTTC
60738477 AAAATTTTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.11
17 8 0.18
18 5 0.11
19 11 0.25
20 12 0.27
21 3 0.07
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (18 bp):
AAAAAATTCGTGTTTCCT
Found at i:60756983 original size:36 final size:35
Alignment explanation
Indices: 60756940--60757042 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 35
60756930 GGCTTGCGAA
**
60756940 AGAGAAAGGAAAAGAGAGGGGAGAAGAGAAGAAAAG
1 AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAG-AAAG
** * *
60756976 AGAGAAAGTCAAAGGGAGAAGAGAAGAGAAGGAAG
1 AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAGAAAG
* * *
60757011 AGAAAAAGGGAAGAGAAAAGAAGAGAAGAGAA
1 AGAGAAA-GGAAAAG-AGAGAAGAGAAGAGAA
60757043 CGCCGAGACT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
35 9 0.17
36 30 0.57
37 14 0.26
ACGTcount: A:0.59, C:0.01, G:0.39, T:0.01
Consensus pattern (35 bp):
AGAGAAAGGAAAAGAGAGAAGAGAAGAGAAGAAAG
Found at i:60757001 original size:5 final size:5
Alignment explanation
Indices: 60756991--60757042 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
60756981 AAGTCAAAGG
* *
60756991 GAGAA GAGAA GAGAA G-GAA GAGAA -A-AA GGGAA GAGAA AAGAA GAGAA
1 GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA GAGAA
60757038 GAGAA
1 GAGAA
60757043 CGCCGAGACT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 5 0.12
5 33 0.82
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:60757889 original size:17 final size:17
Alignment explanation
Indices: 60757867--60757903 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
60757857 AAATACGGTA
60757867 TTTAAAAAAAATTCGTG
1 TTTAAAAAAAATTCGTG
**
60757884 TTTAAAAAATCTTCGTG
1 TTTAAAAAAAATTCGTG
60757901 TTT
1 TTT
60757904 TCAAAATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTAAAAAAAATTCGTG
Done.