Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 16 of 352
Found at i:4999324 original size:3 final size:3
Alignment explanation
Indices: 4999305--4999358 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
4999295 GAAAGAAAGG
* * * * *
4999305 AGA AGA A-A AAA AAA AGA AGA ATA AGA AGA AAA AGA AGA AAA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
4999352 AGA AGA A
1 AGA AGA A
4999359 AAAAGGTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:4999332 original size:9 final size:9
Alignment explanation
Indices: 4999315--4999362 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
4999305 AGAAGAAAAA
4999315 AAAAAGAAG
1 AAAAAGAAG
*
4999324 AATAAGAAG
1 AAAAAGAAG
4999333 AAAAAGAAG
1 AAAAAGAAG
4999342 AAAAAGAAG
1 AAAAAGAAG
*
4999351 AAGAAGAA-
1 AAAAAGAAG
4999359 AAAA
1 AAAA
4999363 GGTAATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
8 3 0.09
9 32 0.91
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:4999570 original size:33 final size:32
Alignment explanation
Indices: 4999527--4999634 Score: 84
Period size: 33 Copynumber: 3.4 Consensus size: 32
4999517 GTTTTTTATA
*
4999527 ATTATTTTAAAATTAATTTGTTAGTGATTTAGG
1 ATTATGTTAAAATTAATTT-TTAGTGATTTAGG
*
4999560 ATTATGTTAAAA--AA-TTTT-GTG-TTT-GTA
1 ATTATGTTAAAATTAATTTTTAGTGATTTAG-G
* * *
4999587 ATTATTTTAAAATTAATTTATTAGTAAATTAGG
1 ATTATGTTAAAATTAATTT-TTAGTGATTTAGG
*
4999620 ATTAAGTTATAAATT
1 ATTATGTTA-AAATT
4999635 GTTGTGTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
26 1 0.02
27 14 0.24
28 3 0.05
29 4 0.07
30 4 0.07
31 4 0.07
32 2 0.03
33 20 0.34
34 6 0.10
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (32 bp):
ATTATGTTAAAATTAATTTTTAGTGATTTAGG
Found at i:4999611 original size:60 final size:60
Alignment explanation
Indices: 4999525--4999643 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
4999515 TTGTTTTTTA
* * * *
4999525 TAATTATTTTAAAATTAATTTGTTAGTGATTTAGGATTATGTTAAAAAATT-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTT-AAAAATTGTTGTGTTTG
*
4999585 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTGTTGTGTTT
4999644 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 47 0.89
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.51
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTGTTGTGTTTG
Found at i:4999980 original size:15 final size:15
Alignment explanation
Indices: 4999960--4999992 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4999950 ATTTGATCCG
4999960 TAAAATTGAAATCTT
1 TAAAATTGAAATCTT
4999975 TAAAATTGAAATCTT
1 TAAAATTGAAATCTT
4999990 TAA
1 TAA
4999993 TTTTATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
TAAAATTGAAATCTT
Found at i:5001922 original size:5 final size:5
Alignment explanation
Indices: 5001896--5001953 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
5001886 ATGTGTTAAA
* *
5001896 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
5001945 ATATT ATAT
1 ATATT ATAT
5001954 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:5001932 original size:10 final size:9
Alignment explanation
Indices: 5001897--5001954 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
5001887 TGTGTTAAAA
5001897 TATATATAT
1 TATATATAT
*
5001906 TAAAT-TAT
1 TATATATAT
5001914 TAT-TATAT
1 TATATATAT
5001922 TATAGTATAT
1 TATA-TATAT
5001932 TATAT-TA-
1 TATATATAT
5001939 TATATTATAT
1 TATA-TATAT
5001949 TATATA
1 TATATA
5001955 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:5001944 original size:12 final size:12
Alignment explanation
Indices: 5001899--5001954 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
5001889 TGTTAAAATA
*
5001899 TATATATTAAAT
1 TATATATTATAT
5001911 TAT-TATTATATT
1 TATATATTATA-T
5001923 ATAGTATATTATAT
1 -TA-TATATTATAT
5001937 TATATATTATAT
1 TATATATTATAT
5001949 TATATA
1 TATATA
5001955 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:5003286 original size:18 final size:19
Alignment explanation
Indices: 5003263--5003301 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
5003253 ATATATAGAT
5003263 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
5003281 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
5003300 AT
1 AT
5003302 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:5003651 original size:39 final size:39
Alignment explanation
Indices: 5003541--5003675 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
5003531 GACCTCGAGT
* * * *
5003541 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
5003582 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
5003620 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
5003659 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
5003676 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:5003819 original size:18 final size:19
Alignment explanation
Indices: 5003798--5003838 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
5003788 AATGAAATGA
5003798 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
5003816 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
5003835 GAAA
1 GAAA
5003839 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:5009420 original size:21 final size:21
Alignment explanation
Indices: 5009396--5009454 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 21
5009386 AATACATTAA
*
5009396 AAATATTTAAAAAATAAAAGT
1 AAATATTTAAAAAATAAAAAT
5009417 AAATATTTTTTAAGAAAATAAAAAT
1 AAATA---TTTAA-AAAATAAAAAT
5009442 AAAT-TTTAAAAAA
1 AAATATTTAAAAAA
5009455 CACGTAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
24 5 0.15
25 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (21 bp):
AAATATTTAAAAAATAAAAAT
Found at i:5026455 original size:16 final size:17
Alignment explanation
Indices: 5026434--5026466 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5026424 CTAACATGCA
5026434 TCTC-TTTCATAATTTC
1 TCTCTTTTCATAATTTC
*
5026450 TCTCTTTTCATTATTTC
1 TCTCTTTTCATAATTTC
5026467 AATTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (17 bp):
TCTCTTTTCATAATTTC
Found at i:5027099 original size:33 final size:35
Alignment explanation
Indices: 5027062--5027158 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
5027052 ATGGTTATAT
5027062 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
5027095 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
5027130 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
5027159 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:5031406 original size:13 final size:14
Alignment explanation
Indices: 5031384--5031415 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
5031374 AAAAATTAAT
5031384 TAAATAAAAATATC
1 TAAATAAAAATATC
5031398 TAAATAAAAATATC
1 TAAATAAAAATATC
5031412 -AAAT
1 TAAAT
5031416 GTACTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAATAAAAATATC
Found at i:5032503 original size:11 final size:11
Alignment explanation
Indices: 5032489--5032529 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
5032479 TATTTTCTCT
5032489 CTATTTTGCTA
1 CTATTTTGCTA
*
5032500 CTATTTTACTA
1 CTATTTTGCTA
* *
5032511 TTATATTGCTA
1 CTATTTTGCTA
5032522 CTATTTTG
1 CTATTTTG
5032530 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:5032613 original size:30 final size:29
Alignment explanation
Indices: 5032569--5032627 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
5032559 TATTTTATTA
5032569 TTAATTTTTTATTATTTTA-AAGACATTTG
1 TTAATTTTTTATTATTTTAGAA-ACATTTG
5032598 TTAATTTTGTTATTATTTTAGAAACATTTG
1 TTAATTTT-TTATTATTTTAGAAACATTTG
5032628 CTTATTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.29
30 18 0.64
31 2 0.07
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (29 bp):
TTAATTTTTTATTATTTTAGAAACATTTG
Found at i:5032766 original size:11 final size:11
Alignment explanation
Indices: 5032750--5032778 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5032740 TATATATTAT
5032750 AAAATTATATA
1 AAAATTATATA
5032761 AAAATTATATA
1 AAAATTATATA
5032772 AAAATTA
1 AAAATTA
5032779 ATATGGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTATATA
Found at i:5035577 original size:15 final size:14
Alignment explanation
Indices: 5035557--5035595 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5035547 CTCACATTGG
5035557 ATATAATAAAAATAA
1 ATATAATAAAAAT-A
*
5035572 ATATAATAATAATA
1 ATATAATAAAAATA
5035586 ATAATAATAA
1 AT-ATAATAA
5035596 GAGAGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:5035582 original size:12 final size:13
Alignment explanation
Indices: 5035559--5035595 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5035549 CACATTGGAT
*
5035559 ATAATAAAAATAA
1 ATAATAATAATAA
5035572 AT-ATAATAAT-A
1 ATAATAATAATAA
5035583 ATAATAATAATAA
1 ATAATAATAATAA
5035596 GAGAGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:5051129 original size:27 final size:27
Alignment explanation
Indices: 5051067--5051141 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
5051057 TGGTCCATTT
* *
5051067 TAAT-TTTAACTGAT-GTATAATTTTAA
1 TAATATTTAACTGATAAT-TAATTTAAA
* *
5051093 TATTAATTAACTGATAATTAATTTAAA
1 TAATATTTAACTGATAATTAATTTAAA
5051120 TAATATTTAA-T-ATTAATTAATT
1 TAATATTTAACTGA-TAATTAATT
5051142 AATATTACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
25 1 0.03
26 13 0.32
27 25 0.62
28 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (27 bp):
TAATATTTAACTGATAATTAATTTAAA
Found at i:5052090 original size:20 final size:20
Alignment explanation
Indices: 5052041--5052092 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
5052031 TTATGCCACA
5052041 TTAGTATTCTTATCCTAAATT
1 TTAGTATT-TTATCCTAAATT
* *
5052062 TCA-TGATTTTATCCTGAATT
1 TTAGT-ATTTTATCCTAAATT
5052082 TTAGTATTTTA
1 TTAGTATTTTA
5052093 ATTTAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.54
Consensus pattern (20 bp):
TTAGTATTTTATCCTAAATT
Found at i:5057266 original size:15 final size:15
Alignment explanation
Indices: 5057231--5057282 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
5057221 TTAAGAATTT
*
5057231 TATTAAATTAT-ATA
1 TATTTAATTATAATA
5057245 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
5057259 TATTTAATAATAAT-
1 TATTTAATTATAATA
5057273 TATGTTAATT
1 TAT-TTAATT
5057283 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:5057378 original size:18 final size:17
Alignment explanation
Indices: 5057347--5057381 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5057337 ATTATTAAGA
5057347 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
5057364 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
5057382 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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:5057389 original size:120 final size:120
Alignment explanation
Indices: 5057176--5057518 Score: 641
Period size: 120 Copynumber: 2.9 Consensus size: 120
5057166 AGCAATAACA
5057176 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
5057241 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
5057296 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
5057361 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
*
5057416 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
5057481 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTATAATATATTTAATAATAATTATGTT
5057519 TAAATATGAT
Statistics
Matches: 217, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 217 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGT
Found at i:5057484 original size:61 final size:61
Alignment explanation
Indices: 5057179--5057486 Score: 255
Period size: 61 Copynumber: 5.1 Consensus size: 61
5057169 AATAACAATC
5057179 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
5057240 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
5057298 C
61 T
5057299 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
5057360 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
5057419 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
5057480 ATATATT
1 ATATATT
5057487 TTAATTAAAA
Statistics
Matches: 184, Mismatches: 41, Indels: 44
0.68 0.15 0.16
Matches are distributed among these distances:
57 11 0.06
58 14 0.08
59 48 0.26
60 30 0.16
61 56 0.30
62 14 0.08
63 11 0.06
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:5057495 original size:18 final size:17
Alignment explanation
Indices: 5057467--5057501 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5057457 ATTATTAAGA
*
5057467 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5057484 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5057502 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:5057615 original size:147 final size:149
Alignment explanation
Indices: 5057455--5057729 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
5057445 ATAAGAATAT
*
5057455 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
5057520 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
5057583 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
5057602 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
5057667 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
5057730 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:5057642 original size:18 final size:17
Alignment explanation
Indices: 5057614--5057648 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5057604 ATTATTAAGA
*
5057614 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5057631 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5057649 TAAATAATAA
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:5057906 original size:16 final size:16
Alignment explanation
Indices: 5057885--5057920 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
5057875 GATTTGCTAT
5057885 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5057901 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
5057917 TACA
1 TACA
5057921 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:5063545 original size:18 final size:19
Alignment explanation
Indices: 5063506--5063549 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
5063496 AACTTTCTTT
*
5063506 TTTAT-TTTATTTCATATT
1 TTTATATTTATTTCATATA
*
5063524 TTTATATTTATTTTATA-A
1 TTTATATTTATTTCATATA
5063542 TTTATATT
1 TTTATATT
5063550 CGGGATTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATATTTATTTCATATA
Found at i:5069881 original size:24 final size:26
Alignment explanation
Indices: 5069849--5069899 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
5069839 GAGTTGTTAT
*
5069849 TTTAGTCA-TTTAATT-TTTTATTAA
1 TTTAATCATTTTAATTATTTTATTAA
5069873 TTTAATCATTTTAATTACTTTTATTAA
1 TTTAATCATTTTAATTA-TTTTATTAA
5069900 AAATTCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 7 0.30
27 9 0.39
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTAATCATTTTAATTATTTTATTAA
Found at i:5073977 original size:17 final size:18
Alignment explanation
Indices: 5073955--5073989 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5073945 AATTAATTAA
*
5073955 TTATTACAT-TAAAAATT
1 TTATTAAATATAAAAATT
5073972 TTATTAAATATAAAAATT
1 TTATTAAATATAAAAATT
5073990 ATTTAAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTAAATATAAAAATT
Found at i:5076356 original size:39 final size:39
Alignment explanation
Indices: 5076313--5076461 Score: 194
Period size: 39 Copynumber: 3.8 Consensus size: 39
5076303 TAAAATATGA
* *
5076313 TTTTAATTAATAATAAAACAAAATAGTATGAGGAAATAG
1 TTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAG
* *
5076352 TTTTAATTAACAATAAAACAAAATAGTATGGGGAAATAG
1 TTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAG
* *
5076391 TTTTAATTAACAATAAAACAAAATAGCATG-GGGAGT-G
1 TTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAG
* * *
5076428 TTTTTGATTAATAATAAAACAAAGTAGCATGAGG
1 -TTTTAATTAACAATAAAACAAAATAGCATGAGG
5076462 GGAGTGGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.01
38 31 0.31
39 68 0.68
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (39 bp):
TTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAG
Found at i:5089461 original size:210 final size:210
Alignment explanation
Indices: 5088915--5090092 Score: 1530
Period size: 210 Copynumber: 5.7 Consensus size: 210
5088905 CTTCATCAGG
* ** * * *
5088915 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCAAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCTG
* *
5088980 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * *
5089045 AAACGAATCGAAGTTTGGTATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
5089108 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* *** * * * ** * * *
5089125 GCGGATCCAAGATGGTTTG-GCAT-TC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAGCT
1 GCAGATCCAAGAT-GACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCT
* *
5089185 GATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
5089250 AGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGATCTTACCTTC
130 AGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTC
5089315 AGATGTTTACGCTGAA
195 AGATGTTTACGCTGAA
*
5089331 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCTG
*
5089396 ATTTGGCTTTCACGTGTTTACGATGAGGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
5089461 GAACAAATTGAAGGCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
5089526 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
5089541 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCTG
*
5089606 ATTTGGC-TTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
5089670 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
5089735 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
5089750 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCTG
* * *
5089815 ATTTGGCTTTCACATGTTTTCGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * **
5089880 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATATCGCCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
* *
5089943 CGGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* ** * ** * *
5089960 GCGGATCCAAGATG---G-T-TTGGCATC-CT-TATGCTTACAAGGACCAAATCG-A-ATCATAG
1 GCAGATCCAAGATGACAGATCTTATC-TCTCTGTATTC-GGCAAGGAGCAGATCGAAGAT-ATAG
* * * * * * **
5090016 TTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAAATGATTTGGCACCTCTGTATTGTC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
*
5090081 AGGGAACAAATC
128 AGAGAACAAATC
5090093 AAAGAAACAG
Statistics
Matches: 860, Mismatches: 94, Indels: 34
0.87 0.10 0.03
Matches are distributed among these distances:
203 2 0.00
204 73 0.08
205 19 0.02
206 164 0.19
207 10 0.01
208 4 0.00
209 209 0.24
210 375 0.44
211 4 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:5089738 original size:209 final size:210
Alignment explanation
Indices: 5088915--5089973 Score: 1535
Period size: 210 Copynumber: 5.1 Consensus size: 210
5088905 CTTCATCAGG
* * * * *
5088915 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCAAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
5088980 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * *
5089045 AAACGAATCGAAGTTTGGTATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
5089108 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* *** * * * ** * * * *
5089125 GCGGATCCAAGATGGTTTG-GCAT-TC-CT-TGTGTT-TACAAGGAACAAATCGAAGACATAGCT
1 GCAGATCCAAGAT-GACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCT
* *
5089185 GATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
5089250 AGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGATCTTACCTTC
130 AGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTC
5089315 AGATGTTTACGCTGAA
195 AGATGTTTACGCTGAA
* *
5089331 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
5089396 ATTTGGCTTTCACGTGTTTACGATGAGGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
5089461 GAACAAATTGAAGGCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
5089526 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
5089541 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
5089606 ATTTGGC-TTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
5089670 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
5089735 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* *
5089750 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* * *
5089815 ATTTGGCTTTCACATGTTTTCGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * **
5089880 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGG-AGAGCAGACACATAGCAGATATCGCCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
* *
5089943 CGGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
*
5089960 GCGGATCCAAGATG
1 GCAGATCCAAGATG
5089974 GTTTGGCATC
Statistics
Matches: 766, Mismatches: 72, Indels: 22
0.89 0.08 0.03
Matches are distributed among these distances:
205 4 0.01
206 161 0.21
207 9 0.01
208 4 0.01
209 209 0.27
210 375 0.49
211 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:5089779 original size:419 final size:415
Alignment explanation
Indices: 5088915--5090092 Score: 1650
Period size: 419 Copynumber: 2.8 Consensus size: 415
5088905 CTTCATCAGG
* * * *
5088915 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCAAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGTTG
* *
5088980 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
5089045 AAACGAATCGAAGTTTGGTATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTGACCTTCA
131 GAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCA
*** * *
5089110 GATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATTCCTTGTGTTTACAAGGAACAAATCGA
196 GATGTTTATGCTGAAGCGGATCCAAGAT-GACAGGCATTCCTTGTATTGACAAGGAACAAATCGA
*
5089175 AGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAACAAATCTAAGATGATTTGTCGTCTCT
260 AGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCT
5089240 GTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGA
325 GTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGA
*
5089305 TCTTACCTTCAGATGTTTACGCTGAA
390 TCTTACCCTCAGATGTTTACGCTGAA
*
5089331 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAAGGAGCAGATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGTTG
*
5089396 ATTTGGCTTTCACGTGTTTACGATGAGGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * ** * *
5089461 GAACAAATTGAAGGCTGGCAT-TTCCACTTTAATGGA-AGGCAGACACATAGCAGATCTTACCTT
131 GAACGAATCGAAGTTTGGCATCTT-CACTTTGATGGAGA-GCAGACACATAGCAGATCTCACCTT
* * * * ** * *
5089524 CAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTAGGGAGCA
194 CAGATGTTTATGCTGAAGCGGATCCAAGATGACAG-GCAT-TC-CT-TGTATT-GACAAGGAACA
* * * *
5089589 GATCGAAGATATAGCTGATTTGGC-TTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTC
254 AATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTC
*
5089653 GTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACAT
319 GTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACAT
5089718 AGCAGATCTTACCCTCAGATGTTTACGCTGAA
384 AGCAGATCTTACCCTCAGATGTTTACGCTGAA
* * *
5089750 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGTTG
* * *
5089815 ATTTGGCTTTCACATGTTTTCGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
5089880 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATATCGCCTTCG
131 GAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCA
*** * * *
5089945 GATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCA-TCCTTATGCTT-ACAAGGACCAAATCG
196 GATGTTTATGCTGAAGCGGATCCAAGAT-GACAGGCATTCCTTGT-ATTGACAAGGAACAAATCG
* * * * * * **
5090008 AA-TCATAGTTGATTTGGCTTTCACGTGCTTACG-TTAAAGCAAATCTAAAATGATTTGGCACCT
259 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAA-CAAATCTAAGATGATTTGTCGTCT
*
5090071 CTGTATTGTCAGGGAACAAATC
323 CTGTATTGTCAGAGAACAAATC
5090093 AAAGAAACAG
Statistics
Matches: 669, Mismatches: 80, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
413 16 0.02
414 65 0.10
415 7 0.01
416 206 0.31
417 4 0.01
418 2 0.00
419 336 0.50
420 33 0.05
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (415 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGTTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCA
GATGTTTATGCTGAAGCGGATCCAAGATGACAGGCATTCCTTGTATTGACAAGGAACAAATCGAA
GACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAACAAATCTAAGATGATTTGTCGTCTCTG
TATTGTCAGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAAACACATAGCAGAT
CTTACCCTCAGATGTTTACGCTGAA
Found at i:5090245 original size:45 final size:45
Alignment explanation
Indices: 5090190--5090281 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
5090180 GAAGAAGCAA
* * *
5090190 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAATAG
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAACAG
* *
5090235 ATTTGTCGTCTCTGTAGTAGACGGGGGGCAGATCAAAGATAACAG
1 ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAACAG
5090280 AT
1 AT
5090282 ATTGCCTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:5091555 original size:39 final size:38
Alignment explanation
Indices: 5091511--5091645 Score: 173
Period size: 39 Copynumber: 3.5 Consensus size: 38
5091501 ATAAAGTATG
*
5091511 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGTATG-GGAAGTA
*
5091550 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGTAT-GGGAAGTA
* * *
5091589 GTTTTAATCAACAATAAAACAAAATAGCATGGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGTATGGGAAGTA
* *
5091626 GTTTTTGATTAATAATAAAA
1 G-TTTTAATTAACAATAAAA
5091646 TAAAGTAGCA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 20 0.24
39 63 0.74
40 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGTATGGGAAGTA
Found at i:5093826 original size:3 final size:3
Alignment explanation
Indices: 5093818--5093844 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
5093808 CTCAGCACCC
5093818 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
5093845 ATTTCTTTAC
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):
TAA
Found at i:5095558 original size:13 final size:13
Alignment explanation
Indices: 5095522--5095559 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
5095512 ATATATATTT
5095522 TAAAAAATT-ATA
1 TAAAAAATTAATA
5095534 TATAAAAA-TAATA
1 TA-AAAAATTAATA
5095547 TAAAAAATTAATA
1 TAAAAAATTAATA
5095560 CGTGTAGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:5108584 original size:21 final size:20
Alignment explanation
Indices: 5108552--5108593 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
5108542 TTAATTTGTT
5108552 ATAAATTATATAATATATAAA
1 ATAAATTATATAA-ATATAAA
*
5108573 ATAAA-TATTATAAATTTAAA
1 ATAAATTA-TATAAATATAAA
5108593 A
1 A
5108594 ATGGATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATTATATAAATATAAA
Found at i:5113017 original size:14 final size:14
Alignment explanation
Indices: 5112998--5113025 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5112988 ACATTCAAAT
5112998 GCAGAGATCATGGC
1 GCAGAGATCATGGC
5113012 GCAGAGATCATGGC
1 GCAGAGATCATGGC
5113026 ATTGATGTTT
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:0.36, T:0.14
Consensus pattern (14 bp):
GCAGAGATCATGGC
Found at i:5118498 original size:29 final size:28
Alignment explanation
Indices: 5118411--5118498 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
5118401 TAACATGTTA
5118411 TAACATTTTAATGTAAGTGATTAAAACG
1 TAACATTTTAATGTAAGTGATTAAAACG
5118439 TAACATTTTAATGTAAGTGATTAAAACG
1 TAACATTTTAATGTAAGTGATTAAAACG
* * *
5118467 TAACATTTTAAATATAAGTAATTAAAATG
1 TAACATTTT-AATGTAAGTGATTAAAACG
5118496 TAA
1 TAA
5118499 TATGAAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 37 0.66
29 19 0.34
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (28 bp):
TAACATTTTAATGTAAGTGATTAAAACG
Found at i:5120626 original size:28 final size:29
Alignment explanation
Indices: 5120567--5120634 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
5120557 TTAGACGCTT
* * * *
5120567 TTTAAAATTTTGAAAACTCACATTATATC
1 TTTAAAATTTTAAAAAATCACATTAAAAC
*
5120596 TTTAAATTTTTAAAAAATCA-ATTAAAAC
1 TTTAAAATTTTAAAAAATCACATTAAAAC
5120624 TTTTAAAATTT
1 -TTTAAAATTT
5120635 ATTATTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.44
Consensus pattern (29 bp):
TTTAAAATTTTAAAAAATCACATTAAAAC
Found at i:5122205 original size:30 final size:30
Alignment explanation
Indices: 5122171--5122232 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
5122161 TAATATGTAG
*
5122171 AAGGCGTTAAATGAAGCATATAATTGAAGT
1 AAGGCGTTAAATGAAGCATATAATTAAAGT
5122201 AAGGCGTTAAATGAAGCATATAATTAAAGT
1 AAGGCGTTAAATGAAGCATATAATTAAAGT
5122231 AA
1 AA
5122233 AATCGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (30 bp):
AAGGCGTTAAATGAAGCATATAATTAAAGT
Found at i:5126763 original size:17 final size:18
Alignment explanation
Indices: 5126720--5126766 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
5126710 TTTAATATAA
5126720 TTATTCAGTAATCATCAG
1 TTATTCAGTAATCATCAG
*
5126738 TTATTCAGTAAT-ATTAG
1 TTATTCAGTAATCATCAG
5126755 TCT-TTCAGTAAT
1 T-TATTCAGTAAT
5126767 TATTTAAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTATTCAGTAATCATCAG
Found at i:5128443 original size:23 final size:24
Alignment explanation
Indices: 5128387--5128449 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
5128377 AAATAAATTA
* *
5128387 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAATTGTACATATATC
5128411 TATTTATTACAATTGTACCA-ATAT-
1 T-TTTATTACAATTGTA-CATATATC
5128435 TTTTATTACAATTGT
1 TTTTATTACAATTGT
5128450 CATTATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 14 0.40
24 2 0.06
25 17 0.49
26 2 0.06
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTTATTACAATTGTACATATATC
Found at i:5128676 original size:3 final size:3
Alignment explanation
Indices: 5128661--5128726 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
5128651 TTAATTTATT
* * *
5128661 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAAA TAG TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * *
5128707 TAC TAC TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
5128727 TGCCGTCAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5138227 original size:42 final size:41
Alignment explanation
Indices: 5138140--5138230 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
5138130 TTTAGTCTCT
*
5138140 ATATTTATATTTTTAGATTTTAAATTTAGGTCTAACTATTA
1 ATATTTTTATTTTTAGATTTTAAATTTAGGTCTAACTATTA
** * * *
5138181 ATATTTTTATTTTTATTTTGTTAAGTTTAGGT-TAATTATATC
1 ATATTTTTATTTTTAGATT-TTAAATTTAGGTCTAACTAT-TA
5138223 ATATTTTT
1 ATATTTTT
5138231 TAGTTACACG
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 22 0.52
42 20 0.48
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (41 bp):
ATATTTTTATTTTTAGATTTTAAATTTAGGTCTAACTATTA
Found at i:5155663 original size:59 final size:59
Alignment explanation
Indices: 5155576--5155696 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
5155566 GCATTCAATG
5155576 TGTATTCTTGAATAATCTCATTATTCAATTATTCAACCATTTCATTTTACCAAGTTCAA
1 TGTATTCTTGAATAATCTCATTATTCAATTATTCAACCATTTCATTTTACCAAGTTCAA
5155635 TGTATTCTTGAATAATCTCATTATTCAATTATTCAACCATTTCATTTTACCAAGTTCAA
1 TGTATTCTTGAATAATCTCATTATTCAATTATTCAACCATTTCATTTTACCAAGTTCAA
5155694 TGT
1 TGT
5155697 TAGCCAGATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (59 bp):
TGTATTCTTGAATAATCTCATTATTCAATTATTCAACCATTTCATTTTACCAAGTTCAA
Found at i:5161306 original size:28 final size:29
Alignment explanation
Indices: 5161275--5161336 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
5161265 TTAAAATTAG
5161275 TAAAAATA-AAAT-TATACTTTAATTCTCT
1 TAAAAATATAAATATATACTTTAATTCT-T
* *
5161303 TAAAAATATAAATATTTATTTTAATTCTT
1 TAAAAATATAAATATATACTTTAATTCTT
5161332 TAAAA
1 TAAAA
5161337 TTCATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 8 0.27
29 10 0.33
30 12 0.40
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAAAATATAAATATATACTTTAATTCTT
Found at i:5172325 original size:3 final size:3
Alignment explanation
Indices: 5172317--5172362 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
5172307 ATTGGAGGAA
* * * *
5172317 CTG CTG CTG CTG CTG CTG CTG TTG TTG TTG TTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG C
5172363 AAAAGCATTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.41
Consensus pattern (3 bp):
CTG
Found at i:5176690 original size:21 final size:21
Alignment explanation
Indices: 5176666--5176732 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
5176656 ATTTAATCTT
5176666 AAACTCTAAACCTTAAAATCC
1 AAACTCTAAACCTTAAAATCC
* * *
5176687 AAACTCTAAATCAT-AAATCTT
1 AAACTCTAAACCTTAAAATC-C
*
5176708 AAACAT-TAAACCTTAAATTCC
1 AAAC-TCTAAACCTTAAAATCC
5176729 AAAC
1 AAAC
5176733 ATCGAATCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 5 0.14
21 26 0.72
22 5 0.14
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACTCTAAACCTTAAAATCC
Found at i:5182190 original size:19 final size:18
Alignment explanation
Indices: 5182161--5182197 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
5182151 TTCTCCTCCT
5182161 TTAATTTTTCTCATTTAA
1 TTAATTTTTCTCATTTAA
5182179 TTAATCTTTTCTCATTTAA
1 TTAAT-TTTTCTCATTTAA
5182198 AAATTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTTTTCTCATTTAA
Found at i:5182761 original size:19 final size:18
Alignment explanation
Indices: 5182734--5182788 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
5182724 ATTAATTTGC
*
5182734 AATTCAAATATTTATTATA
1 AATTTAAATATTT-TTATA
5182753 AATTTAAATATTTTT-TA
1 AATTTAAATATTTTTATA
*
5182770 TAATTTTAATATTTTTATA
1 -AATTTAAATATTTTTATA
5182789 GTTATTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.06
18 16 0.50
19 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAAATATTTTTATA
Found at i:5182780 original size:18 final size:19
Alignment explanation
Indices: 5182734--5182785 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
5182724 ATTAATTTGC
* *
5182734 AATTCAAATATTTATTATA
1 AATTTAAATATTTTTTATA
5182753 AATTTAAATATTTTTTAT-
1 AATTTAAATATTTTTTATA
*
5182771 AATTTTAATATTTTT
1 AATTTAAATATTTTT
5182786 ATAGTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTAAATATTTTTTATA
Found at i:5184137 original size:17 final size:18
Alignment explanation
Indices: 5184114--5184151 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
5184104 TCGAAAAATA
5184114 TATTTTTAAA-TATTTTTT
1 TATTTTTAAAGT-TTTTTT
5184132 TATTTTTAAAGTTTTTTT
1 TATTTTTAAAGTTTTTTT
5184150 TA
1 TA
5184152 AATTTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TATTTTTAAAGTTTTTTT
Found at i:5184871 original size:21 final size:22
Alignment explanation
Indices: 5184847--5184897 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
5184837 ATCTTTCCAT
*
5184847 TTTTGTTTTC-AGGTATATTTC
1 TTTTGTTTTCGAGGTAGATTTC
* *
5184868 TTTTGTTTCCGAGTTAGATTTC
1 TTTTGTTTTCGAGGTAGATTTC
5184890 -TTTGTTTT
1 TTTTGTTTT
5184898 GTTGTTGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.12, C:0.10, G:0.16, T:0.63
Consensus pattern (22 bp):
TTTTGTTTTCGAGGTAGATTTC
Found at i:5185945 original size:27 final size:27
Alignment explanation
Indices: 5185873--5185947 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
5185863 TGGACAAGGG
*
5185873 TCTGAAAATGCTGAAAAGAAATCTCAT
1 TCTGATAATGCTGAAAAGAAATCTCAT
* * * * **
5185900 TCTAATAAGGATGACAAGAAATCTGGT
1 TCTGATAATGCTGAAAAGAAATCTCAT
5185927 TCTGATAATGCTGAAAAGAAA
1 TCTGATAATGCTGAAAAGAAA
5185948 GGAGATGAAA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (27 bp):
TCTGATAATGCTGAAAAGAAATCTCAT
Found at i:5186231 original size:159 final size:159
Alignment explanation
Indices: 5185975--5186533 Score: 881
Period size: 159 Copynumber: 3.5 Consensus size: 159
5185965 CAGGACTTAT
* * * * * *
5185975 GGGGATAAGGTTGATAAAAATGATGACAA--GGTGTCGGATAAACGCTCAGCT-GATCAGGTGAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGT-TC-GATAAAAGCTCTGATAG-TCAAGTG--
*
5186037 AAAGAAGAGTTCAAATGAAGATTCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATC
61 AAA-AAGAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATC
5186102 AGGTGAAAAAGAGCTCAAATGAAGTTTTCCCTAAA
125 AGGTGAAAAAGAGCTCAAATGAAGTTTTCCCTAAA
5186137 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
* *
5186202 GAGTTCAAATGAAGATGCCCCGAAAGGAGATAAGGTGTTTGATAATAGCTTTGATGATCAGGTGA
66 GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
5186267 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
131 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
* *
5186296 GTGGATAAGGTTGACAAAAATAATGACAATGTGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
* *
5186361 GAGTTCAAATGAAGATGCCCCAAAAGGCGATAAGGTGTTTGATAAAAGCTCTGATGATCAGGTGA
66 GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
*
5186426 AAAAGAGCTCAAAAGAAGTTTTCCCTAAA
131 AAAAGAGCTCAAATGAAGTTTTCCCTAAA
* * *
5186455 GGGGATAAGGTTGACAAAAGTAATGACAATGTGTTCGATAAAAGCTCTGGTAGTCAAGTGAAAAA
1 GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
*
5186520 GAGCTCAAATGAAG
66 GAGTTCAAATGAAG
5186534 TTTTCCCATC
Statistics
Matches: 374, Mismatches: 20, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
159 320 0.86
160 3 0.01
162 45 0.12
163 3 0.01
164 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (159 bp):
GGGGATAAGGTTGACAAAAATAATGACAATGGGTTCGATAAAAGCTCTGATAGTCAAGTGAAAAA
GAGTTCAAATGAAGATGCCCCAAAAGGAGATAAGGTGTTTGATAAAAGCTTTGATGATCAGGTGA
AAAAGAGCTCAAATGAAGTTTTCCCTAAA
Found at i:5190358 original size:3 final size:3
Alignment explanation
Indices: 5190350--5190380 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
5190340 GGCCTTTAGT
5190350 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5190381 CCTTTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:5194467 original size:31 final size:31
Alignment explanation
Indices: 5194432--5194493 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
5194422 GAGATGGGGT
5194432 CTACAAAGGCACCAGGAGAGGATGGATTTCC
1 CTACAAAGGCACCAGGAGAGGATGGATTTCC
* *
5194463 CTACAAATGCACCAGGAGATGATGGATTTCC
1 CTACAAAGGCACCAGGAGAGGATGGATTTCC
5194494 AGCCCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (31 bp):
CTACAAAGGCACCAGGAGAGGATGGATTTCC
Found at i:5199046 original size:46 final size:46
Alignment explanation
Indices: 5198978--5199342 Score: 518
Period size: 46 Copynumber: 8.0 Consensus size: 46
5198968 GCTTTCTGAA
* * *
5198978 ATGAAATGCATAAGACCGTGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
5199024 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5199070 ATGAAA-GAATAAGACCATGTTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
5199115 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
5199161 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
5199207 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
5199253 ATGAAAAGAATAAGACCGTGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
5199299 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
5199343 TCAAAGATAA
Statistics
Matches: 290, Mismatches: 27, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
45 41 0.14
46 249 0.86
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:5203829 original size:46 final size:46
Alignment explanation
Indices: 5203777--5204096 Score: 507
Period size: 46 Copynumber: 7.0 Consensus size: 46
5203767 AGTGTGCTCT
5203777 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5203823 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
5203869 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5203915 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5203961 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
5204007 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
5204053 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
5204097 TCACATCAAA
Statistics
Matches: 258, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 257 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:5204402 original size:23 final size:25
Alignment explanation
Indices: 5204357--5204403 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5204347 AATAAATATA
*
5204357 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
5204382 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
5204404 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:5205739 original size:42 final size:42
Alignment explanation
Indices: 5205688--5205771 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
5205678 ACATTATTAA
5205688 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
1 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
5205730 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
1 TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
5205772 ATGATGTACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (42 bp):
TTTATTACGTTATCATTACTTAATCGATAACTCCTATTAAAG
Found at i:5205908 original size:14 final size:14
Alignment explanation
Indices: 5205871--5205910 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
5205861 TCTCTTTAAA
*
5205871 TTTCTTCTTTTCTT
1 TTTCTTCTTTTTTT
*
5205885 TTTCTCCTTTTTTT
1 TTTCTTCTTTTTTT
*
5205899 TTTTTTCTTTTT
1 TTTCTTCTTTTT
5205911 CCTCTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTCTTCTTTTTTT
Found at i:5213595 original size:29 final size:29
Alignment explanation
Indices: 5213544--5213615 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
5213534 GTATGAGTAA
5213544 AACTCCAAC-AATTAAAAAACGCCTATGT
1 AACTCCAACAAATTAAAAAACGCCTATGT
5213572 AACTCCAACAAATTAAAAAACGCCTATGT
1 AACTCCAACAAATTAAAAAACGCCTATGT
5213601 AACTCCAACAAATTA
1 AACTCCAACAAATTA
5213616 CACGTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 9 0.21
29 34 0.79
ACGTcount: A:0.49, C:0.25, G:0.06, T:0.21
Consensus pattern (29 bp):
AACTCCAACAAATTAAAAAACGCCTATGT
Found at i:5214960 original size:29 final size:29
Alignment explanation
Indices: 5214927--5214984 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
5214917 GTGTTGGTTT
5214927 GGGATCTGAAGGGCAGCCATTGGCGTTGG
1 GGGATCTGAAGGGCAGCCATTGGCGTTGG
5214956 GGGATCTGAAGGGCAGCCATTGGCGTTGG
1 GGGATCTGAAGGGCAGCCATTGGCGTTGG
5214985 ACATACCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.21
Consensus pattern (29 bp):
GGGATCTGAAGGGCAGCCATTGGCGTTGG
Found at i:5217875 original size:16 final size:16
Alignment explanation
Indices: 5217854--5217884 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5217844 GATATTTTAA
5217854 TATATTATATTAATAT
1 TATATTATATTAATAT
*
5217870 TATATTATGTTAATA
1 TATATTATATTAATA
5217885 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:5217981 original size:12 final size:12
Alignment explanation
Indices: 5217964--5217994 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5217954 GAAGCAGGGG
5217964 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
5217976 AGAAAAAGGGAA
1 AGAAAAAGAGAA
5217988 AGAAAAA
1 AGAAAAA
5217995 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:5223799 original size:131 final size:130
Alignment explanation
Indices: 5223561--5223855 Score: 425
Period size: 131 Copynumber: 2.3 Consensus size: 130
5223551 TAATTATTCA
*
5223561 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTACCCTACC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTCGCAATTCGGGGAATCGTACCCTACC
* * *
5223626 ATGCTGGGTTGCAATATCCCGTTTGTTCAAAATGATCGAATATCCCTTTGGAATTTCACTCATGT
66 ATGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
* * * *
5223691 CTTTAAAAATTCTTTAAAACGAAGGGAATGTTTGATGTTTCGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTCGCAATTCGGGGAATCGTACCCTAC
* * *
5223756 CGTGCTGGGTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATG
65 CATGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATG
5223821 T
130 T
** * *
5223822 TTTCTAAATTC--TAAAAC-AAGGCAATGTTCAATGT
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGT
5223856 CTAGAAATTC
Statistics
Matches: 148, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
127 14 0.09
128 6 0.04
130 9 0.06
131 119 0.80
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTCGCAATTCGGGGAATCGTACCCTACC
ATGCTGGGTTGCAATATCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
Found at i:5224672 original size:21 final size:21
Alignment explanation
Indices: 5224648--5224689 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
5224638 AAAGATCCTA
*
5224648 TTTTACCATATATT-TTGTTT
1 TTTTTCCATATATTATTGTTT
* *
5224668 TTTTTTCATCTATTATTGTTT
1 TTTTTCCATATATTATTGTTT
5224689 T
1 T
5224690 ATATACATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTCCATATATTATTGTTT
Found at i:5240515 original size:21 final size:21
Alignment explanation
Indices: 5240475--5240517 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5240465 ATTACAAGTC
* * *
5240475 ATTTTGAATTTTATTTATTTT
1 ATTTTGAATTTAAATCATTTT
5240496 ATTTTGAATTTAAATCATTTT
1 ATTTTGAATTTAAATCATTTT
5240517 A
1 A
5240518 AGATTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
ATTTTGAATTTAAATCATTTT
Found at i:5247351 original size:16 final size:16
Alignment explanation
Indices: 5247330--5247363 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5247320 TTAAAGTTTC
5247330 ATTTATAAATATAAAG
1 ATTTATAAATATAAAG
5247346 ATTTATAAATATAAAG
1 ATTTATAAATATAAAG
5247362 AT
1 AT
5247364 GGAGAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (16 bp):
ATTTATAAATATAAAG
Found at i:5247896 original size:13 final size:13
Alignment explanation
Indices: 5247878--5247915 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
5247868 AAAATAAATC
*
5247878 TAAAAATTTAAAA
1 TAAAAAATTAAAA
*
5247891 TAAAAAATTAATA
1 TAAAAAATTAAAA
5247904 TAAAAAA-TAAAA
1 TAAAAAATTAAAA
5247916 AATCAAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAAATTAAAA
Found at i:5252037 original size:22 final size:22
Alignment explanation
Indices: 5252009--5252053 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
5251999 TTATGCTGAT
*
5252009 TCATAGAGCTGATTTGTAGGGA
1 TCATAGAACTGATTTGTAGGGA
5252031 TCATAGAACTGATTTGTAGGGA
1 TCATAGAACTGATTTGTAGGGA
5252053 T
1 T
5252054 TTGTTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.33
Consensus pattern (22 bp):
TCATAGAACTGATTTGTAGGGA
Found at i:5259919 original size:35 final size:35
Alignment explanation
Indices: 5259873--5259951 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
5259863 TGTTTTATAC
* *
5259873 TTAATTTTTATGGTT-CTTTATGATTATCCTGCCCA
1 TTAATTTTTAT-GTTGCATTATGATTACCCTGCCCA
5259908 TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
1 TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
*
5259943 TCAATTTTT
1 TTAATTTTT
5259952 TTCATGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 3 0.08
35 37 0.93
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.51
Consensus pattern (35 bp):
TTAATTTTTATGTTGCATTATGATTACCCTGCCCA
Found at i:5264505 original size:34 final size:33
Alignment explanation
Indices: 5264453--5264557 Score: 201
Period size: 33 Copynumber: 3.2 Consensus size: 33
5264443 TATTAACATG
5264453 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
5264486 TTATAACTTAAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTT-AAATAAGGTTGCTTTAAAATGCAT
5264520 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
1 TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
5264553 TTATA
1 TTATA
5264558 GTGCCAATAG
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 38 0.54
34 33 0.46
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (33 bp):
TTATAACTTAAATAAGGTTGCTTTAAAATGCAT
Found at i:5279702 original size:29 final size:29
Alignment explanation
Indices: 5279656--5279711 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
5279646 TAACATCATT
* * * *
5279656 TTATATTTATATATTACATACATAAATAA
1 TTATATTTATACAATACAAAAATAAATAA
*
5279685 TTATATTTATCCAATACAAAAATAAAT
1 TTATATTTATACAATACAAAAATAAAT
5279712 TAATGTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (29 bp):
TTATATTTATACAATACAAAAATAAATAA
Found at i:5282352 original size:27 final size:27
Alignment explanation
Indices: 5282299--5282349 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5282289 ATTTATAAAC
5282299 ATTTTATATATTTAAAATTTAATTTCT
1 ATTTTATATATTTAAAATTTAATTTCT
* *
5282326 ATTTT-TATTTTTAAAATTTTATTT
1 ATTTTATATATTTAAAATTTAATTT
5282350 TCTTTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATATATTTAAAATTTAATTTCT
Found at i:5282674 original size:21 final size:19
Alignment explanation
Indices: 5282641--5282680 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
5282631 TTCTTTTCAT
5282641 TTTAAAACTTTAAAATATG
1 TTTAAAACTTTAAAATATG
5282660 TTTAAATATCTTTAAAATATG
1 TTTAAA-A-CTTTAAAATATG
5282681 AAACTACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTAAAACTTTAAAATATG
Found at i:5284754 original size:44 final size:44
Alignment explanation
Indices: 5284692--5284776 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
5284682 ACGAAAACTT
* * **
5284692 CGAGCTTATCCTTGAAAGAAATGGAACAAAGGGCTTCTAGACTG
1 CGAGATTATCCTTAAAAGAAATGGAACAAAGCACTTCTAGACTG
*
5284736 CGAGATTATCTTTAAAAGAAATGGAACAAAGCACTTCTAGA
1 CGAGATTATCCTTAAAAGAAATGGAACAAAGCACTTCTAGA
5284777 TATGAAAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (44 bp):
CGAGATTATCCTTAAAAGAAATGGAACAAAGCACTTCTAGACTG
Found at i:5290660 original size:62 final size:65
Alignment explanation
Indices: 5290590--5290713 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 65
5290580 AAGAGTTAAT
* *
5290590 TTTTCTTAGATAA-TTACGTTTATTTTCTTT-AATTAAGAGTT-TTT-TTTAATTTAATGTATAA
1 TTTTCTTAGATAAGTAAC-TTTATTTTCTTTAAATTAAAAGTTGTTTCTTTAATTTAATGTATAA
5290651 A
65 A
*
5290652 TTTTCTTAGATAAGTAACTTTATTTTTTTTAAATTAAAAGTTGTTTCTTTAATTTAATGTAT
1 TTTTCTTAGATAAGTAACTTTATTTTCTTTAAATTAAAAGTTGTTTCTTTAATTTAATGTAT
5290714 TATTTATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
62 24 0.44
63 13 0.24
64 3 0.05
65 15 0.27
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (65 bp):
TTTTCTTAGATAAGTAACTTTATTTTCTTTAAATTAAAAGTTGTTTCTTTAATTTAATGTATAAA
Found at i:5293309 original size:30 final size:30
Alignment explanation
Indices: 5293238--5293309 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
5293228 CTACCCCAAG
* * *
5293238 TTTTTGAAAATTTTAGTTATACCCTTAAAC
1 TTTTTGAAAATTTTAATTAGACCCTCAAAC
*
5293268 TTTTCTG-AAATTTTAATTAGGCCCCTCAAA-
1 TTTT-TGAAAATTTTAATTA-GACCCTCAAAC
5293298 TTTTTGAAAATT
1 TTTTTGAAAATT
5293310 ATTATTAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.06
30 24 0.69
31 9 0.26
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (30 bp):
TTTTTGAAAATTTTAATTAGACCCTCAAAC
Found at i:5296083 original size:19 final size:19
Alignment explanation
Indices: 5296047--5296084 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5296037 AGAACTTGAA
*
5296047 CTTATAAATTTTGAAAATT
1 CTTATAAATATTGAAAATT
5296066 CTTAT-AATATTGATAAATT
1 CTTATAAATATTGA-AAATT
5296085 GTGGTTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
CTTATAAATATTGAAAATT
Found at i:5297979 original size:24 final size:25
Alignment explanation
Indices: 5297941--5297987 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
5297931 TTGTGGCACA
5297941 AAAAATTTGATTTTTTTTTCTTCAC
1 AAAAATTTGATTTTTTTTTCTTCAC
5297966 AAAAATTTGA-TTTTTTTTCTTC
1 AAAAATTTGATTTTTTTTTCTTC
5297988 TAAGGATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (25 bp):
AAAAATTTGATTTTTTTTTCTTCAC
Found at i:5301142 original size:186 final size:186
Alignment explanation
Indices: 5300828--5301175 Score: 482
Period size: 186 Copynumber: 1.9 Consensus size: 186
5300818 ACTAATGATC
* ***** *
5300828 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTTTTTGTTGCGTCTG
1 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTTGTAACAACCTCTG
* * *
5300893 TTGTTCCGACAATATTCACCAATATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
66 TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
*
5300958 AAACATAATCATTCATTCATTATTATTATCATAATTAGTTTTTTTTAATGGCGTTT
131 AAACATAATCATTCATTCATTATTATCATCATAATTAGTTTTTTTTAATGGCGTTT
*
5301014 ATAACATTCTAATGATTCAAGGCCATTGCATGCATATATTTGATAAGCTCTTGTAACAACCTCTG
1 ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTTGTAACAACCTCTG
* * * * ** *
5301079 TCGTTTCAACGATATTCACCAAAATAGACACTTGCTGTCT-TATCTTTGTTGCTGTAAATGCATG
66 TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCT-TCTTCATAGCTGTAAATGCATG
* * *
5301143 CAAACATGATCATTTATTCTTTATTATCATCAT
130 CAAACATAATCATTCATTCATTATTATCATCAT
5301176 CATCAATTTT
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
185 1 0.01
186 138 0.99
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (186 bp):
ATAACATTCTAATGATTCAAGGCCACTGCATGCATATATTTGATAAGCTCTTGTAACAACCTCTG
TCGTTCCAACAATATTCACCAAAATAGACACTTACTGACTCTTCTTCATAGCTGTAAATGCATGC
AAACATAATCATTCATTCATTATTATCATCATAATTAGTTTTTTTTAATGGCGTTT
Found at i:5310807 original size:12 final size:12
Alignment explanation
Indices: 5310790--5310814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5310780 TGTGAAAAAT
5310790 AAAATAAAATAA
1 AAAATAAAATAA
5310802 AAAATAAAATAA
1 AAAATAAAATAA
5310814 A
1 A
5310815 GAACACACAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:5317131 original size:13 final size:12
Alignment explanation
Indices: 5317073--5317135 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 12
5317063 TAAACAATTC
5317073 AATAATATAAAT
1 AATAATATAAAT
5317085 AAT-ATA-AAAT
1 AATAATATAAAT
* * *
5317095 ATAAAATTTAATTT
1 A-ATAATATAA-AT
5317109 AATAATATAAAT
1 AATAATATAAAT
5317121 AATAGATATAAAT
1 AATA-ATATAAAT
5317134 AA
1 AA
5317136 AATTATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 5 0.12
11 4 0.10
12 10 0.25
13 19 0.47
14 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:5318492 original size:29 final size:29
Alignment explanation
Indices: 5318459--5318516 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
5318449 AAAATGGTAA
*
5318459 ACAAAATTTTAATTGTTTGATTGGAGCCT
1 ACAAAATTTTAATTGTTTGATTAGAGCCT
*
5318488 ACAAAATTTTAATTGTTTGGTTAGAGCCT
1 ACAAAATTTTAATTGTTTGATTAGAGCCT
5318517 TATACAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (29 bp):
ACAAAATTTTAATTGTTTGATTAGAGCCT
Found at i:5335209 original size:26 final size:24
Alignment explanation
Indices: 5335179--5335226 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
5335169 AATAAAAAAA
*
5335179 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
5335205 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
5335227 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:5335331 original size:15 final size:16
Alignment explanation
Indices: 5335301--5335333 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5335291 AAATGGTTAT
5335301 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
5335318 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
5335333 A
1 A
5335334 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:5336739 original size:90 final size:87
Alignment explanation
Indices: 5336628--5336811 Score: 233
Period size: 90 Copynumber: 2.1 Consensus size: 87
5336618 CATTTGACTG
* * * * * * * *
5336628 CTTGAACTTTCATAATGTATTAGAAAGACCTTTAAATTTTTTTAAAAAAGCAATTAAGCTCCTGT
1 CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCT-CT-C
5336693 TTTTATTTTTGCACTAAATTGGGTA
64 TTTT-TTTTTGCACTAAATTGGGTA
* * *
5336718 CTTGAACTTTTAAAATATATTAAAAAGGCCCTCAAACTTTTTCAGAAAAGCAATTAAGCTCTCTT
1 CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCTCTCTT
*
5336783 TTTTTTTGCACTCAATTGGGTA
66 TTTTTTTGCACTAAATTGGGTA
5336805 CTTGAAC
1 CTTGAAC
5336812 CACACCTAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
87 26 0.32
88 4 0.05
89 2 0.02
90 50 0.61
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
CTTGAACTTTCAAAATATATTAAAAAGACCCTCAAACTTTTTCAAAAAAGCAATTAAGCTCTCTT
TTTTTTTGCACTAAATTGGGTA
Found at i:5336921 original size:19 final size:20
Alignment explanation
Indices: 5336887--5336941 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
5336877 ATGATAAAAA
* *
5336887 AATAAAAATCACTAAAAGTT
1 AATAAAAATAATTAAAAGTT
**
5336907 -ATAAAAATAATTAAATTTT
1 AATAAAAATAATTAAAAGTT
*
5336926 AATAAAAATATTTAAA
1 AATAAAAATAATTAAA
5336942 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAAAAATAATTAAAAGTT
Found at i:5336930 original size:20 final size:20
Alignment explanation
Indices: 5336907--5336954 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5336897 ACTAAAAGTT
5336907 ATAAAAATAATTAAATTTTA
1 ATAAAAATAATTAAATTTTA
*
5336927 ATAAAAATATTTAAATTTTA
1 ATAAAAATAATTAAATTTTA
*
5336947 TTAAAAAT
1 ATAAAAAT
5336955 TAGAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAATAATTAAATTTTA
Found at i:5336976 original size:9 final size:9
Alignment explanation
Indices: 5336962--5337053 Score: 51
Period size: 9 Copynumber: 9.4 Consensus size: 9
5336952 AATTAGAAGA
5336962 AAAAATTAT
1 AAAAATTAT
*
5336971 AAAAATTGTTT
1 AAAAA-T-TAT
5336982 AAAAATTAT
1 AAAAATTAT
*
5336991 AAAATTTTAT
1 AAAA-ATTAT
*
5337001 AAAAATCTTAA
1 AAAAA--TTAT
5337012 AAAAATT-T
1 AAAAATTAT
*
5337020 ATAATATATAT
1 A-AAAAT-TAT
* *
5337031 AGAAATATAG
1 AAAAAT-TAT
5337041 AAAAATTAT
1 AAAAATTAT
5337050 AAAA
1 AAAA
5337054 TTTTATAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
8 1 0.02
9 23 0.37
10 22 0.35
11 17 0.27
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:5336985 original size:20 final size:19
Alignment explanation
Indices: 5336962--5337062 Score: 82
Period size: 19 Copynumber: 5.2 Consensus size: 19
5336952 AATTAGAAGA
5336962 AAAAATTATAAAAATTGTT-T
1 AAAAATTAT-AAAATT-TTAT
5336982 AAAAATTATAAAATTTTAT
1 AAAAATTATAAAATTTTAT
* *
5337001 AAAAATCTTAAAAAAATTTAT
1 AAAAA--TTATAAAATTTTAT
* * *
5337022 -AATATATATAGAAA-TATAG
1 AAAAAT-TATA-AAATTTTAT
5337041 AAAAATTATAAAATTTTAT
1 AAAAATTATAAAATTTTAT
5337060 AAA
1 AAA
5337063 GTCGTAAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
18 6 0.09
19 28 0.43
20 19 0.29
21 12 0.18
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAATTATAAAATTTTAT
Found at i:5337003 original size:30 final size:29
Alignment explanation
Indices: 5336967--5337062 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
5336957 GAAGAAAAAA
**
5336967 TTATAAAAATTGTTTAAAAATTATAAAATT
1 TTATAAAAATT-TAAAAAAATTATAAAATT
*
5336997 TTATAAAAATCTTAAAAAAATT-TATAATAT
1 TTATAAAAAT-TTAAAAAAATTATAAAAT-T
* * * *
5337027 ATATAGAAATATAGAAAAATTATAAAATT
1 TTATAAAAATTTAAAAAAATTATAAAATT
5337056 TTATAAA
1 TTATAAA
5337063 GTCGTAAGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 20 0.38
30 32 0.60
31 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (29 bp):
TTATAAAAATTTAAAAAAATTATAAAATT
Found at i:5337005 original size:11 final size:11
Alignment explanation
Indices: 5336967--5337023 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
5336957 GAAGAAAAAA
5336967 TTATAAAAATT
1 TTATAAAAATT
5336978 GTT-TAAAAA--
1 -TTATAAAAATT
5336987 TTAT-AAAATT
1 TTATAAAAATT
*
5336997 TTATAAAAATC
1 TTATAAAAATT
*
5337008 TTA-AAAAAAT
1 TTATAAAAATT
5337018 TTATAA
1 TTATAA
5337024 TATATATAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
8 6 0.16
9 1 0.03
10 12 0.32
11 16 0.43
12 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TTATAAAAATT
Found at i:5337094 original size:59 final size:59
Alignment explanation
Indices: 5336982--5337098 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
5336972 AAAATTGTTT
* * * *
5336982 AAAAATTATAAAATTTTATAAAAATCTTAAAAAAATTTATAATATATATAGAAATATAG
1 AAAAATTATAAAATTTTATAAAAATCGTAAAAAAATTTAAAAAATATAAAGAAATATAG
* * *
5337041 AAAAATTATAAAATTTTAT-AAAGTCGTAAGAAAATTATAAAAAATGTAAAGAAATATA
1 AAAAATTATAAAATTTTATAAAAATCGTAAAAAAATT-TAAAAAATATAAAGAAATATA
5337099 AAATTCGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 14 0.28
59 36 0.72
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (59 bp):
AAAAATTATAAAATTTTATAAAAATCGTAAAAAAATTTAAAAAATATAAAGAAATATAG
Found at i:5337321 original size:20 final size:20
Alignment explanation
Indices: 5337298--5337363 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
5337288 TTTTGATACA
5337298 TTTTATAATTTTTTTATGAT
1 TTTTATAATTTTTTTATGAT
**** *
5337318 TTTTATAA-AAAATTATAATT
1 TTTTATAATTTTTTTATGA-T
*
5337338 TTTTATAATTTTTTTACGAT
1 TTTTATAATTTTTTTATGAT
5337358 TTTTAT
1 TTTTAT
5337364 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 5 0.15
20 24 0.73
21 4 0.12
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTTTATGAT
Found at i:5337387 original size:65 final size:64
Alignment explanation
Indices: 5337318--5337440 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 64
5337308 TTTTTATGAT
*
5337318 TTTTATAAAAAATT-ATAATTTTTTATAA-TTTT-TTTACGATTTTTATTTTTTAAATTTTTATA
1 TTTTATAAAAAATTAATAA-TTTTTATAACTTTTATTT---ATTTTTACTTTTTAAATTTTTATA
5337380 TTG
62 TTG
* * *
5337383 TTTTATTAAAATTTAATAATTTTTATAACTTTTATTTATTTTTACTTTTTATATTTTT
1 TTTTATAAAAAATTAATAATTTTTATAACTTTTATTTATTTTTACTTTTTAAATTTTT
5337441 TCCACATGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
64 19 0.37
65 21 0.41
66 8 0.16
67 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (64 bp):
TTTTATAAAAAATTAATAATTTTTATAACTTTTATTTATTTTTACTTTTTAAATTTTTATATTG
Found at i:5338145 original size:15 final size:15
Alignment explanation
Indices: 5338127--5338156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5338117 AAATTTTAAT
*
5338127 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
5338142 TTTTTATAATTTATA
1 TTTTTATAATTTATA
5338157 AATAATTAAA
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:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:5342056 original size:82 final size:81
Alignment explanation
Indices: 5341912--5342075 Score: 294
Period size: 82 Copynumber: 2.0 Consensus size: 81
5341902 TAGTTATGCC
5341912 AGCTTATGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCATGCTCAT
1 AGCTTATGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCATGCTCAT
5341977 ACACCTAATGTCCTTT
66 ACACCTAATGTCCTTT
*
5341993 AGCTTATGGTTGTTTGAAGACCC-TCTCATTTCAATTCAGGGATTAGTGCATGCTAATCGTGCTC
1 AGCTTAT-GTTGTTTGAAGACCCTTCT-ATTTCAATTCAGGGATTAGTGCATGCTAATCATGCTC
5342057 ATACACCTAATGTCCTTT
64 ATACACCTAATGTCCTTT
5342075 A
1 A
5342076 ATAGTGTTTT
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
81 10 0.12
82 70 0.88
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (81 bp):
AGCTTATGTTGTTTGAAGACCCTTCTATTTCAATTCAGGGATTAGTGCATGCTAATCATGCTCAT
ACACCTAATGTCCTTT
Found at i:5345528 original size:13 final size:13
Alignment explanation
Indices: 5345512--5345538 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5345502 TTATTTTTTA
5345512 AATTTTAAAATAT
1 AATTTTAAAATAT
5345525 AATTTTAAAATAT
1 AATTTTAAAATAT
5345538 A
1 A
5345539 TGAAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTTTAAAATAT
Found at i:5350422 original size:56 final size:56
Alignment explanation
Indices: 5350355--5350467 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
5350345 CACAAAACTC
5350355 ATGCTCGAGCACAAGTAAGCCAGCTTTACTATTGCTGCAACTTCTAAATTTTTCTA
1 ATGCTCGAGCACAAGTAAGCCAGCTTTACTATTGCTGCAACTTCTAAATTTTTCTA
5350411 ATGCTCGAGCACAAGTAAGCCAGCTTTACTATTGCTGCAACTTCTAAATTTTTCTA
1 ATGCTCGAGCACAAGTAAGCCAGCTTTACTATTGCTGCAACTTCTAAATTTTTCTA
5350467 A
1 A
5350468 GTAATAAGCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (56 bp):
ATGCTCGAGCACAAGTAAGCCAGCTTTACTATTGCTGCAACTTCTAAATTTTTCTA
Found at i:5363772 original size:16 final size:16
Alignment explanation
Indices: 5363751--5363783 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5363741 TACTAATCTT
5363751 AATTGATTTTAAATTA
1 AATTGATTTTAAATTA
5363767 AATTGATTTTAAATTA
1 AATTGATTTTAAATTA
5363783 A
1 A
5363784 TATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
AATTGATTTTAAATTA
Found at i:5374769 original size:17 final size:18
Alignment explanation
Indices: 5374728--5374767 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
5374718 TATAATTTTA
5374728 AAAAATACAAAATACATC
1 AAAAATACAAAATACATC
5374746 AAAAATACTAAAAT-CATC
1 AAAAATAC-AAAATACATC
5374764 AAAA
1 AAAA
5374768 TAAATATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATACAAAATACATC
Found at i:5374886 original size:30 final size:30
Alignment explanation
Indices: 5374850--5374912 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
5374840 ACTTAACAAG
5374850 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
5374880 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
5374910 CAA
1 CAA
5374913 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:5376217 original size:25 final size:25
Alignment explanation
Indices: 5376189--5376237 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
5376179 ATATATAAAA
5376189 TTAATTTAAAATTTTCATTGACCGG
1 TTAATTTAAAATTTTCATTGACCGG
5376214 TTAATTTAAAATTTTCATTGACCG
1 TTAATTTAAAATTTTCATTGACCG
5376238 AGTTGGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (25 bp):
TTAATTTAAAATTTTCATTGACCGG
Found at i:5378137 original size:19 final size:18
Alignment explanation
Indices: 5378113--5378156 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
5378103 ACTTGAAAAC
*
5378113 AATTTTTACATTTAAACTT
1 AATTTTTACATCTAAA-TT
**
5378132 AATTTTTTTATCTAAATT
1 AATTTTTACATCTAAATT
5378150 AATTTTT
1 AATTTTT
5378157 GAAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTACATCTAAATT
Found at i:5378172 original size:22 final size:21
Alignment explanation
Indices: 5378144--5378184 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
5378134 TTTTTTTATC
*
5378144 TAAATTAATTTTTGAAATTTTT
1 TAAATTAATCTTT-AAATTTTT
5378166 TAAATTAATCTTTAAATTT
1 TAAATTAATCTTTAAATTT
5378185 GATAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TAAATTAATCTTTAAATTTTT
Found at i:5378205 original size:24 final size:24
Alignment explanation
Indices: 5378177--5378222 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5378167 AAATTAATCT
* * *
5378177 TTAAATTTGATAATTTTTCTTATC
1 TTAAACTTGACAAATTTTCTTATC
5378201 TTAAACTTGACAAATTTTCTTA
1 TTAAACTTGACAAATTTTCTTA
5378223 CGATGACTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAACTTGACAAATTTTCTTATC
Found at i:5385149 original size:8 final size:8
Alignment explanation
Indices: 5385136--5385160 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5385126 AAAATAAAAA
5385136 TCTTGCTC
1 TCTTGCTC
5385144 TCTTGCTC
1 TCTTGCTC
5385152 TCTTGCTC
1 TCTTGCTC
5385160 T
1 T
5385161 TCATCCACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.36, G:0.12, T:0.52
Consensus pattern (8 bp):
TCTTGCTC
Found at i:5411178 original size:25 final size:26
Alignment explanation
Indices: 5411144--5411192 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5411134 TCATACATTA
5411144 TAAAAG-AAAATACAAAAAAAAAAAG
1 TAAAAGAAAAATACAAAAAAAAAAAG
* **
5411169 TAAAGGAAAAATGTAAAAAAAAAA
1 TAAAAGAAAAATACAAAAAAAAAA
5411193 TGAAAATCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (26 bp):
TAAAAGAAAAATACAAAAAAAAAAAG
Found at i:5411198 original size:12 final size:13
Alignment explanation
Indices: 5411157--5411198 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
5411147 AAGAAAATAC
*
5411157 AAAAAAAAAAAGT
1 AAAAAAAAAATGT
**
5411170 AAAGGAAAAATGT
1 AAAAAAAAAATGT
5411183 AAAAAAAAAATG-
1 AAAAAAAAAATGT
5411195 AAAA
1 AAAA
5411199 TCGGTTGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (13 bp):
AAAAAAAAAATGT
Found at i:5414917 original size:22 final size:24
Alignment explanation
Indices: 5414883--5414936 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
5414873 TTAGTCATAT
*
5414883 ATTTTTTCGTTTTA-AATAATTTA
1 ATTTTTTCATTTTATAATAATTTA
* *
5414906 ATTTTTT-ATTTTATATTATTTTA
1 ATTTTTTCATTTTATAATAATTTA
5414929 ACTTTTTT
1 A-TTTTTT
5414937 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 15 0.58
24 6 0.23
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (24 bp):
ATTTTTTCATTTTATAATAATTTA
Found at i:5422503 original size:14 final size:13
Alignment explanation
Indices: 5422478--5422502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5422468 ATTCAATCGA
5422478 GAGGTTTTTTTTG
1 GAGGTTTTTTTTG
5422491 GAGGTTTTTTTT
1 GAGGTTTTTTTT
5422503 TATTTTCATA
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:0.00, G:0.28, T:0.64
Consensus pattern (13 bp):
GAGGTTTTTTTTG
Done.