Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 197 of 253
Found at i:64731845 original size:40 final size:40
Alignment explanation
Indices: 64731522--64731833 Score: 453
Period size: 40 Copynumber: 7.8 Consensus size: 40
64731512 GAGAATTGAG
64731522 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
64731562 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
64731602 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
64731642 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
64731682 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
64731722 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
64731762 AGTGATATATCTGTGCTAAGTTCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
64731802 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
64731834 ATCATGCTGG
Statistics
Matches: 244, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:64735850 original size:47 final size:47
Alignment explanation
Indices: 64735765--64736266 Score: 846
Period size: 47 Copynumber: 10.6 Consensus size: 47
64735755 GTATATTTGA
64735765 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
64735814 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64735861 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
64735910 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64735956 ATGAATGTGAAAGT-TATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
64736002 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64736049 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64736096 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
64736143 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
64736190 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
64736237 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
64736267 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 16, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
45 22 0.05
46 46 0.11
47 305 0.70
49 60 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:64736435 original size:37 final size:37
Alignment explanation
Indices: 64736385--64736529 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
64736375 CCGAGCTCTA
* *
64736385 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
64736422 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
64736459 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
64736496 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
64736530 AGCTAAAGGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:64740575 original size:16 final size:15
Alignment explanation
Indices: 64740545--64740573 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64740535 GTGTCTCTTT
64740545 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
64740560 TTTTTAAAATATTT
1 TTTTTAAAATATTT
64740574 TACTATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATTTA
Found at i:64743932 original size:21 final size:21
Alignment explanation
Indices: 64743885--64743934 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
64743875 GAAAATAGTG
*
64743885 AGAATT-TATTTTCTGAGTAC
1 AGAATTCTATTTTCTGAATAC
64743905 A-AATTCTATTTTCTGGAATA-
1 AGAATTCTATTTTCT-GAATAC
64743925 AGAATTCTAT
1 AGAATTCTAT
64743935 CGGTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (21 bp):
AGAATTCTATTTTCTGAATAC
Found at i:64748451 original size:6 final size:6
Alignment explanation
Indices: 64748433--64748472 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
64748423 ATAAAAACTT
64748433 TCTTTC T-TTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTT
64748473 AATGTTAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TCTTTC
Found at i:64751403 original size:43 final size:42
Alignment explanation
Indices: 64751334--64751481 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
64751324 TATTCTTGTA
* * *
64751334 TAAGACCATGTCTGGAACGTTTGCATCGATATGTGATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTA-GTG
* *
64751377 TAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAGTG
* ** *
64751418 TAAGACCCTAACTGGGACAGTGGCATCGATATGTGA-TAGCATG
1 TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAG--TG
* *
64751461 TAAGACCACGTTTGGGACATT
1 TAAGACCATGTCTGGGACATT
64751482 TGAATTGTAC
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
41 29 0.34
42 14 0.16
43 42 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATGTGATTAGTG
Found at i:64751433 original size:41 final size:43
Alignment explanation
Indices: 64751356--64751468 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 43
64751346 TGGAACGTTT
* ** *
64751356 GCATCGATATGTGATTATGTGTAAGACCATGTCTGGGACATTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
* *
64751399 GCATCG-TATTTGATT-CGTGTAAGACCCTAACTGGGACAGTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
*
64751440 GCATCGATATGTGA-TAGCATGTAAGACCA
1 GCATCGATATGTGATTA-CGTGTAAGACCA
64751469 CGTTTGGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 28 0.48
42 14 0.24
43 16 0.28
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
Found at i:64768050 original size:11 final size:11
Alignment explanation
Indices: 64768031--64768074 Score: 79
Period size: 11 Copynumber: 4.0 Consensus size: 11
64768021 AATGTAATCA
*
64768031 CAATAAAAATG
1 CAATGAAAATG
64768042 CAATGAAAATG
1 CAATGAAAATG
64768053 CAATGAAAATG
1 CAATGAAAATG
64768064 CAATGAAAATG
1 CAATGAAAATG
64768075 TGTACTTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.57, C:0.09, G:0.16, T:0.18
Consensus pattern (11 bp):
CAATGAAAATG
Found at i:64768166 original size:21 final size:22
Alignment explanation
Indices: 64768120--64768167 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
64768110 ATGCATGAAT
64768120 ACTACAGGTAAAGCTTAAAATAA
1 ACTACAGGTAAAGCTT-AAATAA
* *
64768143 ACTACAGGTGAAGCTT-ATTAA
1 ACTACAGGTAAAGCTTAAATAA
64768164 ACTA
1 ACTA
64768168 ACTCAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (22 bp):
ACTACAGGTAAAGCTTAAATAA
Found at i:64768232 original size:14 final size:15
Alignment explanation
Indices: 64768206--64768235 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
64768196 CTGCACAATG
64768206 TTTCTTCCTCCTCCT
1 TTTCTTCCTCCTCCT
64768221 TTTCTT-CTCCTCCT
1 TTTCTTCCTCCTCCT
64768235 T
1 T
64768236 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCTTCCTCCTCCT
Found at i:64771645 original size:43 final size:42
Alignment explanation
Indices: 64771511--64771672 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
64771501 AGGATTTTCG
* * *
64771511 ATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATC
1 ATATTTGATTTCTTGTAAGACCATGTCTGGGACAG-AGGCATC
* * **
64771553 A-ATTTGAGATTTATGTGTAAGACCATTTCTGGGACATCGGCATC
1 ATATTT--GATTTCT-TGTAAGACCATGTCTGGGACAGAGGCATC
* *
64771597 ATATTTGATTTCTTGTAAGACCCTGTCGGGGACAGAGGCATC
1 ATATTTGATTTCTTGTAAGACCATGTCTGGGACAGAGGCATC
* * *
64771639 GATATTTGATTACATGTAAGACCACGTCTGGGAC
1 -ATATTTGATTTCTTGTAAGACCATGTCTGGGAC
64771673 TTTGGCATTG
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
41 3 0.03
42 25 0.26
43 39 0.40
44 26 0.27
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
ATATTTGATTTCTTGTAAGACCATGTCTGGGACAGAGGCATC
Found at i:64777495 original size:25 final size:25
Alignment explanation
Indices: 64777467--64777578 Score: 98
Period size: 25 Copynumber: 4.5 Consensus size: 25
64777457 CGCCATACAG
64777467 GCTTTCCAGATAACATGCCACAAAA
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
64777492 GCTTTCTAGATAACATGCAACACAG
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
64777517 GCTATCTAGATAACATGTCACAAAG
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
64777542 GTTTTCCGGATAATATGTCACAAAA
1 GCTTTCCAGATAACATGCCACAAAA
**
64777567 AATTTCCAGATA
1 GCTTTCCAGATA
64777579 TTATGATACA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (25 bp):
GCTTTCCAGATAACATGCCACAAAA
Found at i:64782050 original size:12 final size:12
Alignment explanation
Indices: 64782033--64782058 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64782023 CATTCCGAAG
64782033 TATATATATACA
1 TATATATATACA
64782045 TATATATATACA
1 TATATATATACA
64782057 TA
1 TA
64782059 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:64782589 original size:27 final size:28
Alignment explanation
Indices: 64782505--64782602 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64782495 CATGAGATTG
* * * *
64782505 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64782534 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64782562 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64782589 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64782603 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64782613 original size:27 final size:27
Alignment explanation
Indices: 64782533--64782615 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64782523 TAAATTGTAC
* *
64782533 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64782561 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64782588 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64782615 A
1 A
64782616 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64790001 original size:12 final size:12
Alignment explanation
Indices: 64789984--64790009 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64789974 CATTCCGAAG
64789984 TATATATATACA
1 TATATATATACA
64789996 TATATATATACA
1 TATATATATACA
64790008 TA
1 TA
64790010 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:64790540 original size:27 final size:28
Alignment explanation
Indices: 64790456--64790553 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
64790446 CATGAGATTG
* * * *
64790456 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
64790485 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64790513 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64790540 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64790554 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64790564 original size:27 final size:27
Alignment explanation
Indices: 64790484--64790566 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64790474 TAAATTGTAC
* *
64790484 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64790512 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64790539 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64790566 A
1 A
64790567 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64796096 original size:17 final size:17
Alignment explanation
Indices: 64796074--64796108 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
64796064 CTCATGGTAC
64796074 ACATGTTCAAGTTCACA
1 ACATGTTCAAGTTCACA
64796091 ACATGTTCAAGTTCACA
1 ACATGTTCAAGTTCACA
64796108 A
1 A
64796109 TTGAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (17 bp):
ACATGTTCAAGTTCACA
Found at i:64801453 original size:42 final size:41
Alignment explanation
Indices: 64801365--64801515 Score: 196
Period size: 42 Copynumber: 3.7 Consensus size: 41
64801355 TGATGAATCA
* * *
64801365 GCTATATGTGGCACTTAGTGTGTGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAATGTGCGAGATTGAGATAGCTTCG
*
64801406 GCTATATATGGCACTTAATGTGCGAGATTCGACATAGCTTCG
1 GCTATATATGGCACTTAATGTGCGAGATT-GAGATAGCTTCG
* * *
64801448 GCTATATATGGCACTTAGTGTGCGA-TTTGAGATAGCGTCG
1 GCTATATATGGCACTTAATGTGCGAGATTGAGATAGCTTCG
* * *
64801488 GCTATGTATGGCACTTAAAGTGTGAGAT
1 GCTATATATGGCACTTAATGTGCGAGAT
64801516 ATAGAGTATG
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
40 31 0.33
41 29 0.31
42 35 0.37
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (41 bp):
GCTATATATGGCACTTAATGTGCGAGATTGAGATAGCTTCG
Found at i:64801542 original size:28 final size:28
Alignment explanation
Indices: 64801493--64801552 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
64801483 CGTCGGCTAT
* *
64801493 GTATGGCACTTAAAGTGTGAGATATAGA
1 GTATGGCACTTAAAGTGCGAGACATAGA
** *
64801521 GTATGGCACTTAGTGTGCGAGACATTGA
1 GTATGGCACTTAAAGTGCGAGACATAGA
64801549 GTAT
1 GTAT
64801553 TCAATGGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (28 bp):
GTATGGCACTTAAAGTGCGAGACATAGA
Found at i:64815887 original size:15 final size:15
Alignment explanation
Indices: 64815831--64815910 Score: 60
Period size: 15 Copynumber: 5.4 Consensus size: 15
64815821 TAAAGATAAC
*
64815831 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
64815845 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
*
64815860 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
64815875 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
64815890 AA-ATGATCCAGGATA
1 AAGA-AATCCAGAATA
64815905 AAGAAA
1 AAGAAA
64815911 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
14 11 0.22
15 36 0.71
16 4 0.08
ACGTcount: A:0.60, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:64818971 original size:93 final size:93
Alignment explanation
Indices: 64818855--64819027 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
64818845 CGCCCATAAG
* * * * * *
64818855 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGGGAACTCAGACTCAAATCA
64818920 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
64818948 CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGGGAACTCAGACTCAAATCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGGGAACTCAGACTCAAATCA
*
64819013 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
64819028 CAAATATCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGGGAACTCAGACTCAAATCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:64819023 original size:46 final size:46
Alignment explanation
Indices: 64818848--64819023 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
64818838 TGTAACCCGC
* * *
64818848 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
64818894 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * *
64818944 -C-TCA-CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
64818987 CCATAAGGGAACTCAGACTCAAATCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
64819024 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:64820179 original size:11 final size:12
Alignment explanation
Indices: 64820153--64820182 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
64820143 TACCTCGATG
64820153 AAAACAGTTATA
1 AAAACAGTTATA
64820165 AAAACAGTTATA
1 AAAACAGTTATA
64820177 AAAACA
1 AAAACA
64820183 AAGTTGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAACAGTTATA
Found at i:64830635 original size:28 final size:29
Alignment explanation
Indices: 64830577--64830635 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
64830567 CTTTTTTTAC
* *
64830577 TTTTGTCATTTCTCTTACATTTGTTTTTT
1 TTTTGTCATTTATCTTACATTTATTTTTT
* *
64830606 TTTTGTC-TTTATCTT-TATTTATTTTAT
1 TTTTGTCATTTATCTTACATTTATTTTTT
64830633 TTT
1 TTT
64830636 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 12 0.46
28 7 0.27
29 7 0.27
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.73
Consensus pattern (29 bp):
TTTTGTCATTTATCTTACATTTATTTTTT
Found at i:64830733 original size:24 final size:23
Alignment explanation
Indices: 64830666--64830734 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
64830656 AAAAAACTTG
* *
64830666 AAATGTATA-TTTGAAATGTTTT
1 AAATATATATTTTGAAATATTTT
*
64830688 ATAATATATATTTTTAAA-ATTTT
1 A-AATATATATTTTGAAATATTTT
64830711 AAATATATATTTTGAAATTATTTT
1 AAATATATATTTTGAAA-TATTTT
64830735 TCTAAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 16 0.41
23 12 0.31
24 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
AAATATATATTTTGAAATATTTT
Found at i:64830763 original size:22 final size:22
Alignment explanation
Indices: 64830729--64830845 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 22
64830719 ATTTTGAAAT
*
64830729 TATTTTTCTAAATTTTAAATATA
1 TATTTTT-AAAATTTTAAATATA
* ** *
64830752 TATTTTTGAAATTATT-TTTCTA
1 TATTTTTAAAATT-TTAAATATA
* *
64830774 AATTTTAAATATTATTTTTAAAT-TA
1 TATTTTTAA-A--ATTT-TAAATATA
64830799 T-TTTTTAAAATTTTAAATAT-
1 TATTTTTAAAATTTTAAATATA
* *
64830819 TATTTTTTAAATATTAAATATA
1 TATTTTTAAAATTTTAAATATA
64830841 T-TTTT
1 TATTTT
64830846 AATAATATAA
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
20 6 0.08
21 26 0.36
22 15 0.21
23 11 0.15
24 7 0.10
25 6 0.08
26 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.60
Consensus pattern (22 bp):
TATTTTTAAAATTTTAAATATA
Found at i:64830766 original size:35 final size:33
Alignment explanation
Indices: 64830696--64830830 Score: 193
Period size: 33 Copynumber: 4.0 Consensus size: 33
64830686 TTATAATATA
*
64830696 TATTTTTAAAATTTTAAATA-TATATTTTGAAAT
1 TATTTTTTAAATTTTAAATATTAT-TTTTGAAAT
64830729 TATTTTTCTAAATTTTAAATATATATTTTTGAAAT
1 TATTTTT-TAAATTTTAAATAT-TATTTTTGAAAT
64830764 TATTTTTCTAAATTTTAAATATTATTTTT-AAAT
1 TATTTTT-TAAATTTTAAATATTATTTTTGAAAT
*
64830797 TATTTTTTAAAATTTTAAATATTATTTTTTAAAT
1 TATTTTTT-AAATTTTAAATATTATTTTTGAAAT
64830831 ATTAAATATA
Statistics
Matches: 96, Mismatches: 1, Indels: 9
0.91 0.01 0.08
Matches are distributed among these distances:
32 1 0.01
33 38 0.40
34 23 0.24
35 31 0.32
36 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTTTTTAAATTTTAAATATTATTTTTGAAAT
Found at i:64830811 original size:21 final size:20
Alignment explanation
Indices: 64830787--64830845 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
64830777 TTTAAATATT
64830787 ATTTTTAAATTATTTTTTAAA
1 ATTTTTAAATTATTTTTT-AA
*
64830808 ATTTTAAATATTATTTTTTAA
1 ATTTTTAA-ATTATTTTTTAA
*
64830829 A-TATTAAATATATTTTT
1 ATTTTTAAAT-TATTTTT
64830846 AATAATATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 10 0.30
22 10 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTAAATTATTTTTTAA
Found at i:64830828 original size:14 final size:13
Alignment explanation
Indices: 64830776--64830834 Score: 58
Period size: 14 Copynumber: 4.9 Consensus size: 13
64830766 TTTTTCTAAA
64830776 TTTTAAATATTAT
1 TTTTAAATATTAT
64830789 TTTT-AA-ATTAT
1 TTTTAAATATTAT
*
64830800 TTTTTAA-A--A-
1 TTTTAAATATTAT
64830809 TTTTAAATATTATT
1 TTTTAAATATTA-T
64830823 TTTTAAATATTA
1 TTTTAAATATTA
64830835 AATATATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 9 0.23
12 6 0.15
13 4 0.10
14 12 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:64830846 original size:33 final size:33
Alignment explanation
Indices: 64830702--64830847 Score: 109
Period size: 34 Copynumber: 4.3 Consensus size: 33
64830692 TATATATTTT
* **
64830702 TAAAATTTTAAATATATATTTTGAAATTATT-TT
1 TAAAATTTTAAATAT-TATTTTTAAATTATTAAA
* **
64830735 TCTAAATTTTAAATATATATTTTTGAAATTATT-TT
1 T-AAAATTTTAAATAT-TATTTTT-AAATTATTAAA
* ***
64830770 TCTAAATTTTAAATATTATTTTTAAATTATTTTT
1 T-AAAATTTTAAATATTATTTTTAAATTATTAAA
64830804 TAAAATTTTAAATATTATTTTTTAAA-TATTAAA
1 TAAAATTTTAAATATTA-TTTTTAAATTATTAAA
* *
64830837 TATATTTTTAA
1 TAAAATTTTAA
64830848 TAATATAAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
33 37 0.37
34 38 0.38
35 26 0.26
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
TAAAATTTTAAATATTATTTTTAAATTATTAAA
Found at i:64830849 original size:18 final size:21
Alignment explanation
Indices: 64830795--64830845 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
64830785 TTATTTTTAA
*
64830795 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTT-AAATATTAAAT
64830817 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
64830838 A-TATTTTT
1 ATTATTTTT
64830846 AATAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:64830853 original size:68 final size:69
Alignment explanation
Indices: 64830704--64830854 Score: 186
Period size: 68 Copynumber: 2.2 Consensus size: 69
64830694 TATATTTTTA
*
64830704 AAATTTTAAATATATATTTTGAAATTATTTTTCTAAATTTTAAATATATATTTTTGAAATTATTT
1 AAATTTTAAATATATATTTTGAAATTATTTTTCTAAATTTTAAATATATATTTTTGAAATTATTA
* *
64830769 TTCT
66 ATAT
* *
64830773 AAATTTTAAATAT-TATTTTTAAATTATTTTT-TAAAATTTTAAATAT-TATTTTTTAAA-TATT
1 AAATTTTAAATATATATTTTGAAATTATTTTTCT-AAATTTTAAATATATATTTTTGAAATTATT
64830834 AA-AT
65 AATAT
* *
64830838 ATATTTTTAATAATATA
1 AAATTTTAAAT-ATATA
64830855 AAACATTTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
65 10 0.14
66 6 0.08
67 13 0.18
68 30 0.42
69 13 0.18
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (69 bp):
AAATTTTAAATATATATTTTGAAATTATTTTTCTAAATTTTAAATATATATTTTTGAAATTATTA
ATAT
Found at i:64830856 original size:20 final size:21
Alignment explanation
Indices: 64830795--64830853 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
64830785 TTATTTTTAA
*
64830795 ATTATTTTTTAAAATTTTAAAT
1 ATTA-TTTTTAAAATATTAAAT
*
64830817 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTAAAATATTAAAT
64830838 A-TATTTTTAATAATAT
1 ATTATTTTTAA-AATAT
64830854 AAAACATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 21 0.64
22 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTAAAATATTAAAT
Found at i:64830998 original size:161 final size:161
Alignment explanation
Indices: 64830808--64831249 Score: 821
Period size: 161 Copynumber: 2.7 Consensus size: 161
64830798 ATTTTTTAAA
* *
64830808 ATTTTAAATATTATTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTA
1 ATTTTTAA-ATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTA
64830873 AAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTTGAAATGTTTT
65 AAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTTGAAATGTTTT
64830938 ATAATATATATATTTTTTAAATTTTAAATATT
130 ATAATATATATATTTTTTAAATTTTAAATATT
64830970 ATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAA
1 ATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAA
64831035 AGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTTGAAATGTTTTA
66 AGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTTGAAATGTTTTA
*
64831100 TAATATATATGTTTTTTAAATTTTAAATATT
131 TAATATATATATTTTTTAAATTTTAAATATT
64831131 ATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAA
1 ATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAA
* * *
64831196 AAATATGAACTTTCAAATTTATTATTAGTTTTATAATATTTTAAATGTATATTT
66 AGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTT
64831250 TTAATTTTTA
Statistics
Matches: 274, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
161 267 0.97
162 7 0.03
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (161 bp):
ATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAA
AGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATATATTTGAAATGTTTTA
TAATATATATATTTTTTAAATTTTAAATATT
Found at i:64831015 original size:91 final size:91
Alignment explanation
Indices: 64830764--64831015 Score: 207
Period size: 91 Copynumber: 2.7 Consensus size: 91
64830754 TTTTTGAAAT
64830764 TATTTTTCTAAATTTTAAATATTATTTTTAAATTATTTTTTAAAATTTTAAATATTATTTTT--T
1 TATTTTT-TAAATTTTAAATATTATTTTTAAATTA-TTTTT-AAATTTTAAATA-TATTTTTAAT
*
64830827 AA-ATATTAAATATATTTTTAATAATATAA
62 AATATATTAAATATATTTATAATAATATAA
* ** * * * * * * * *
64830856 AACATTTAAATATTTTAAAGATATGACCTTTCAAATTTATTATT-AGTTTTATA-ATATTTTAAA
1 TATTTTTTAA-ATTTT-AA-ATATTA-TTTTTAAA-TTATTTTTAAATTTTAAATATATTTTTAA
*
64830919 T-ATATATTTGAAATGT-TTTATAAT-ATAT-A
61 TAATATA-TT-AAATATATTTATAATAATATAA
*
64830948 TATTTTTTAAATTTTAAATATTATTTTTAAATTACTTTTTAAATATTAAATATATTTTTAATAAT
1 TATTTTTTAAATTTTAAATATTATTTTTAAATTA-TTTTTAAATTTTAAATATATTTTTAATAAT
64831013 ATA
65 ATA
64831016 AAACATTTAA
Statistics
Matches: 121, Mismatches: 25, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
87 3 0.02
88 10 0.08
89 11 0.09
90 12 0.10
91 18 0.15
92 18 0.15
93 17 0.14
94 14 0.12
95 15 0.12
96 3 0.02
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (91 bp):
TATTTTTTAAATTTTAAATATTATTTTTAAATTATTTTTAAATTTTAAATATATTTTTAATAATA
TATTAAATATATTTATAATAATATAA
Found at i:64831138 original size:13 final size:14
Alignment explanation
Indices: 64831120--64831156 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
64831110 GTTTTTTAAA
64831120 TTTTAAATATTA-T
1 TTTTAAATATTACT
64831133 TTTT-AA-ATTACT
1 TTTTAAATATTACT
64831145 TTTTAAATATTA
1 TTTTAAATATTA
64831157 AATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 6 0.29
14 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAATATTACT
Found at i:64831251 original size:14 final size:14
Alignment explanation
Indices: 64831234--64831297 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 14
64831224 TTTTATAATA
*
64831234 TTTTAAATGTATAT
1 TTTTAAATTTATAT
*
64831248 TTTT-AATTTTTA-
1 TTTTAAATTTATAT
* *
64831260 ATTTAAATTTTTACT
1 TTTTAAATTTATA-T
*
64831275 TTTTAATATATATAT
1 TTTTAA-ATTTATAT
64831290 TTTTAAAT
1 TTTTAAAT
64831298 AAATTCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 3 0.08
13 14 0.35
14 6 0.15
15 12 0.30
16 5 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTAAATTTATAT
Found at i:64831254 original size:22 final size:21
Alignment explanation
Indices: 64831224--64831295 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
64831214 TTATTATTAG
*
64831224 TTTTATAATATTTTAAATGTATA
1 TTTT-TAAT-TTTTAAATATATA
* *
64831247 TTTTTAATTTTT-AATTTAAA
1 TTTTTAATTTTTAAATATATA
*
64831267 TTTTTACTTTTTAATATATATA
1 TTTTTAATTTTTAA-ATATATA
64831289 TTTTTAA
1 TTTTTAA
64831296 ATAAATTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 17 0.41
21 5 0.12
22 15 0.37
23 4 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTTTAATTTTTAAATATATA
Found at i:64831740 original size:23 final size:21
Alignment explanation
Indices: 64831706--64831773 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
64831696 AAAATATTTA
* *
64831706 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TAAAAAAT
64831728 ATATATTTAATATTTAAAAAAT
1 A-ATATTTAATATTTAAAAAAT
* *
64831750 AATATTCAAAATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
64831771 AAT
1 AAT
64831774 TTCAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 21 0.51
22 9 0.22
23 11 0.27
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:64831744 original size:21 final size:20
Alignment explanation
Indices: 64831720--64831809 Score: 75
Period size: 21 Copynumber: 4.7 Consensus size: 20
64831710 TTTTATATTA
*
64831720 TTAAAAATATATATTTAATAT
1 TTAAAAA-ATATATTTAAAAT
*
64831741 TTAAAAAATAATATTCAAAAT
1 TTAAAAAAT-ATATTTAAAAT
*
64831762 TTAAAAAATA-ATTTCAAA-
1 TTAAAAAATATATTTAAAAT
*
64831780 -T---ATATATATTTAAAATT
1 TTAAAAAATATATTTAAAA-T
64831797 TTAAAAAATATAT
1 TTAAAAAATATAT
64831810 ATTATAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.07
15 7 0.13
17 1 0.02
18 1 0.02
19 6 0.11
20 3 0.06
21 32 0.59
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:64831811 original size:23 final size:22
Alignment explanation
Indices: 64831771--64831851 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
64831761 TTTAAAAAAT
* *
64831771 AATTTCAAATATATATATTTAA
1 AATTTTAAAAATATATATTTAA
64831793 AATTTTAAAAAATATATATTATAA
1 AATTTT-AAAAATATATATT-TAA
* *
64831817 AATATTT-CAAATATACATTTCAA
1 AAT-TTTAAAAATATATATTT-AA
*
64831840 AATTTTTAAAAT
1 AATTTTAAAAAT
64831852 TAATAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.18
23 31 0.63
24 6 0.12
25 3 0.06
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTTAAAAATATATATTTAA
Found at i:64831844 original size:21 final size:23
Alignment explanation
Indices: 64831766--64831835 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 23
64831756 CAAAATTTAA
* *
64831766 AAAATAATTTCAAATATATATATTT
1 AAAAT-ATTTCAAATATACAT-TAT
* *
64831791 AAAAT-TTTAAAAAATATATATTAT
1 AAAATATTT--CAAATATACATTAT
64831815 AAAATATTTCAAATATACATT
1 AAAATATTTCAAATATACATT
64831836 TCAAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 13 0.34
24 7 0.18
25 18 0.47
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATATTTCAAATATACATTAT
Found at i:64831865 original size:46 final size:48
Alignment explanation
Indices: 64831763--64831866 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 48
64831753 ATTCAAAATT
* * *
64831763 TAAAAAATAATTTCAAATATATATATTTAAAATTTTAAAAAATATATAT
1 TAAAAAAT-ATTTCAAATATACATATTCAAAATTTTAAAAAATATATAA
* * *
64831812 TATAAAATATTTCAAATATACAT-TTCAAAATTTTTAAAATTA-ATAA
1 TAAAAAATATTTCAAATATACATATTCAAAATTTTAAAAAATATATAA
64831858 TAAAAAATA
1 TAAAAAATA
64831867 AGTAAAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 11 0.23
47 16 0.33
48 14 0.29
49 7 0.15
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (48 bp):
TAAAAAATATTTCAAATATACATATTCAAAATTTTAAAAAATATATAA
Found at i:64831935 original size:16 final size:16
Alignment explanation
Indices: 64831911--64831944 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
64831901 AAAAGGGACG
64831911 AAAGTAAAAAAGTAAAA
1 AAAGTAAAAAAG-AAAA
64831928 AAAG-AAAAAAGAAAA
1 AAAGTAAAAAAGAAAA
64831943 AA
1 AA
64831945 GAAGCAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAGTAAAAAAGAAAA
Found at i:64835231 original size:24 final size:24
Alignment explanation
Indices: 64835199--64835258 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
64835189 ATCTTCTTTG
*
64835199 TCTTCACCTCCACC-CTCGTACTCA
1 TCTTCACCTCAACCGC-CGTACTCA
*
64835223 TCTTCACCTCAACCGCCGTATTCA
1 TCTTCACCTCAACCGCCGTACTCA
*
64835247 TATTCACCTCAA
1 TCTTCACCTCAA
64835259 TCGTCATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.22, C:0.43, G:0.05, T:0.30
Consensus pattern (24 bp):
TCTTCACCTCAACCGCCGTACTCA
Found at i:64835270 original size:24 final size:24
Alignment explanation
Indices: 64835220--64835276 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
64835210 ACCCTCGTAC
*
64835220 TCATCTTCACCTCAACCGCCGTAT
1 TCATCTTCACCTCAACCGCCATAT
* * * *
64835244 TCATATTCACCTCAATCGTCATCT
1 TCATCTTCACCTCAACCGCCATAT
64835268 TCATCTTCA
1 TCATCTTCA
64835277 TATCCATCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (24 bp):
TCATCTTCACCTCAACCGCCATAT
Found at i:64837817 original size:94 final size:91
Alignment explanation
Indices: 64837660--64837828 Score: 234
Period size: 92 Copynumber: 1.8 Consensus size: 91
64837650 TATCTGCGCT
*
64837660 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGTCGATGCATGTCCCAGACATG
1 GATGCCATGTCCCAAACATGGTCTTACAATGA-ACATCTCATAGTCGATGCATGTCCCAGACATG
64837725 TCTTACACTAACAATCGTCTTAATGCC
65 TCTTACACTAACAATCGTCTTAATGCC
* * *
64837752 GATGCCATGTCCTAAACATGGTCTTACAATG-GC-TCTCATAATGTGGCCGATGCATGTCCTAGA
1 GATGCCATGTCCCAAACATGGTCTTACAATGAACATCTCAT-A-GT---CGATGCATGTCCCAGA
64837815 CATGTCTTACACTA
61 CATGTCTTACACTA
64837829 GCTCACAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
89 6 0.09
90 2 0.03
91 2 0.03
92 29 0.43
94 29 0.43
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (91 bp):
GATGCCATGTCCCAAACATGGTCTTACAATGAACATCTCATAGTCGATGCATGTCCCAGACATGT
CTTACACTAACAATCGTCTTAATGCC
Found at i:64846802 original size:46 final size:46
Alignment explanation
Indices: 64846677--64846839 Score: 145
Period size: 46 Copynumber: 3.5 Consensus size: 46
64846667 GTGCCGATGC
* * *
64846677 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCATAG-CCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCATACGTCTCA-AGACCAATG
* * * * * *
64846722 CATGTCCCAGATATATCTTACACTGGCTTACGTCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCATACGTCTCAAGACCAATG
* * *
64846768 CATATCCCAGACATGTCTTACACTAGCA-ATCGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCATA-CGTCTCAAGACCAATG
64846814 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACAT-GTCTTACACT
64846840 GGCTCTCATA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
44 9 0.09
45 17 0.18
46 46 0.48
47 13 0.14
48 10 0.11
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCATACGTCTCAAGACCAATG
Found at i:64855845 original size:26 final size:27
Alignment explanation
Indices: 64855805--64855869 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
64855795 ACAAGCAGAC
* *
64855805 TTTTTTTATATTAAAATATT-TTTTTTG
1 TTTTTTTA-AATAAAATATTATTTTTTA
64855832 TTTTTTTAAATAAAATATTATTTTTTA
1 TTTTTTTAAATAAAATATTATTTTTTA
64855859 TTTTTATTAAA
1 TTTTT-TTAAA
64855870 AATATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 10 0.29
27 19 0.56
28 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTTTTAAATAAAATATTATTTTTTA
Found at i:64855871 original size:25 final size:24
Alignment explanation
Indices: 64855807--64855876 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
64855797 AAGCAGACTT
* *
64855807 TTTTTATATTAAAATATTTTTTTTG
1 TTTTTAT-TAAAAATATTTTTTTTA
64855832 TTTTT-TTAAATAAAATATTATTTTTTA
1 TTTTTATT--A-AAAATATT-TTTTTTA
64855859 TTTTTATTAAAAATATTT
1 TTTTTATTAAAAATATTT
64855877 AAATTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
23 1 0.03
24 2 0.05
25 13 0.34
26 9 0.24
27 11 0.29
28 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (24 bp):
TTTTTATTAAAAATATTTTTTTTA
Found at i:64856097 original size:17 final size:17
Alignment explanation
Indices: 64856075--64856110 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
64856065 CCCCTACTGA
64856075 CTGCTGCTT-TCAGCTGG
1 CTGCTGCTTGT-AGCTGG
64856092 CTGCTGCTTGTAGCTGG
1 CTGCTGCTTGTAGCTGG
64856109 CT
1 CT
64856111 ACTGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.06, C:0.28, G:0.31, T:0.36
Consensus pattern (17 bp):
CTGCTGCTTGTAGCTGG
Found at i:64856238 original size:20 final size:19
Alignment explanation
Indices: 64856215--64856270 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 19
64856205 AGAGAGAAAG
*
64856215 AAAAGAGAGAAAGGAGAAGA
1 AAAAGA-AGAAAGAAGAAGA
64856235 AAAA-AAG-AAGAAGAAGA
1 AAAAGAAGAAAGAAGAAGA
*
64856252 AGAAAGAAAGAAAAAAGAA
1 A-AAAG-AAGAAAGAAGAA
64856271 AAGAAGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 10 0.33
18 5 0.17
19 1 0.03
20 7 0.23
21 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAAAGAAGAAGA
Found at i:64856241 original size:27 final size:27
Alignment explanation
Indices: 64856202--64856274 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
64856192 ACCACCCACT
* *
64856202 AGAAGAGAGAAAGAAAAGAG-AGAAAGG
1 AGAAGAAAAAAAGAAAAGAGAAGAAA-G
64856229 AGAAGAAAAAAAGAAGAAGAAGAAGAAAG
1 AGAAGAAAAAAAGAA-AAG-AGAAGAAAG
64856258 A-AAG-AAAAAAGAAAAGA
1 AGAAGAAAAAAAGAAAAGA
64856275 AGGTAATGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 1 0.02
26 3 0.07
27 22 0.54
28 6 0.15
29 4 0.10
30 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (27 bp):
AGAAGAAAAAAAGAAAAGAGAAGAAAG
Found at i:64856274 original size:20 final size:20
Alignment explanation
Indices: 64856202--64856275 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
64856192 ACCACCCACT
64856202 AGAAGAGAGAAAGAAAAGAGAGAA
1 AGAAGA-AGAAA-AAAAGA-A-AA
* *
64856226 AGGAGAAGAAAAAAAGAAGA
1 AGAAGAAGAAAAAAAGAAAA
*
64856246 AGAAGAAGAAAGAAAGAAAAA
1 AGAAGAAGAAAAAAAG-AAAA
64856267 AGAA-AAGAA
1 AGAAGAAGAA
64856276 GGTAATGTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 20 0.45
21 8 0.18
22 6 0.14
23 5 0.11
24 5 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAAAAAAAGAAAA
Found at i:64857353 original size:30 final size:33
Alignment explanation
Indices: 64857276--64857366 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 33
64857266 TTATTTTTTA
*
64857276 TAATAATTTTAAAATTAATTTGTTAGTAATTTG
1 TAATTATTTTAAAATTAATTTGTTAGTAATTTG
* * *
64857309 GAATTATGTT---ATTAATTT-TT-GT-GTTTG
1 TAATTATTTTAAAATTAATTTGTTAGTAATTTG
*
64857336 TAATTATTTTAAAATTAATTTATTAGTAATT
1 TAATTATTTTAAAATTAATTTGTTAGTAATT
64857367 AAGGATTAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
27 12 0.27
28 2 0.04
29 2 0.04
30 16 0.36
31 2 0.04
32 2 0.04
33 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (33 bp):
TAATTATTTTAAAATTAATTTGTTAGTAATTTG
Found at i:64857380 original size:60 final size:60
Alignment explanation
Indices: 64857276--64857394 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
64857266 TTATTTTTTA
* * * * * *
64857276 TAATAATTTTAAAATTAATTTGTTAGTAATTTGGAATTATGTTATTAATTTTTGTGTTTG
1 TAATAATTTTAAAATTAATTTATTAGTAATTAGGAATTAAGTTATAAATTATTGCGTTTG
*
64857336 TAATTATTTTAAAATTAATTTATTAGTAATTAAGG-ATTAAGTTATAAATTATTGCGTTT
1 TAATAATTTTAAAATTAATTTATTAGTAATT-AGGAATTAAGTTATAAATTATTGCGTTT
64857395 AGTTTAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.96
61 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (60 bp):
TAATAATTTTAAAATTAATTTATTAGTAATTAGGAATTAAGTTATAAATTATTGCGTTTG
Found at i:64862543 original size:24 final size:23
Alignment explanation
Indices: 64862516--64862560 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
64862506 TTCCGTTCAA
*
64862516 CTAAAATTTGTTTCTGTTGCTCTG
1 CTAAAATTTGTGTCTG-TGCTCTG
*
64862540 CTAAATTTTGTGTCTGTGCTC
1 CTAAAATTTGTGTCTGTGCTC
64862561 ATTTGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (23 bp):
CTAAAATTTGTGTCTGTGCTCTG
Found at i:64862756 original size:27 final size:27
Alignment explanation
Indices: 64862627--64862756 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 27
64862617 CCCGCCATTT
*
64862627 GCGCCTCTGAGATAGGCACAATTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * *
64862654 GTGCCTTTGAGATAGGCACAATTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * * *
64862681 GCGCCTCTGAAAAAGACTCAACTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * *
64862708 GCGCCTCTGAGAAAGACTCAACTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* *
64862735 GCGCCTCAGAGATAGGCGCAAC
1 GCGCCTCTGAGATAGGCACAAC
64862757 CTGTATTCTT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (27 bp):
GCGCCTCTGAGATAGGCACAACTAGTC
Found at i:64862849 original size:28 final size:28
Alignment explanation
Indices: 64862792--64862852 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
64862782 ATACTGATCC
*
64862792 AAAAATAAAAAATAATATCTTATTTAAA
1 AAAAATAAAAAATAATATCTTATATAAA
*
64862820 AAAAATAAAAAAATAA-ATTTTAATATAAA
1 AAAAAT-AAAAAATAATATCTT-ATATAAA
64862849 AAAA
1 AAAA
64862853 GTCGCGCTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATAAAAAATAATATCTTATATAAA
Found at i:64864386 original size:15 final size:15
Alignment explanation
Indices: 64864351--64864380 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64864341 TTTAATCATT
*
64864351 TATAAATTATAAATA
1 TATAAATTATAAAAA
64864366 TATAAATTATAAAAA
1 TATAAATTATAAAAA
64864381 ATTAAAATTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:64867409 original size:21 final size:20
Alignment explanation
Indices: 64867372--64867417 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
64867362 ATCTTTAAAA
*
64867372 ATAAAAAAACTACAAATAATT
1 ATAAAAAAACTAAAAAT-ATT
64867393 ATAAAAAAA-TATAAAATATT
1 ATAAAAAAACTA-AAAATATT
64867413 -TAAAA
1 ATAAAA
64867418 TTTACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 5 0.22
21 13 0.57
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAAAACTAAAAATATT
Found at i:64867901 original size:18 final size:18
Alignment explanation
Indices: 64867862--64867904 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
64867852 AATTAGTAAC
** *
64867862 TTTTTTATATTTTTGTAT
1 TTTTTTATATTTTTCCAA
64867880 TTTTTTATATTTTTCCAA
1 TTTTTTATATTTTTCCAA
64867898 TTTTTTA
1 TTTTTTA
64867905 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTATATTTTTCCAA
Found at i:64871460 original size:29 final size:28
Alignment explanation
Indices: 64871371--64871516 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 28
64871361 GACATGTTGC
* *
64871371 AAAAAAATGATAAAAA-A-TAAAAATCA
1 AAAAAAATTATAAAAATATTAAAAATTA
* * * **
64871397 ATAAAATTTATAAAATTATTAAATTTCTA
1 AAAAAAATTATAAAAATATTAAAAAT-TA
*
64871426 ATAAAAA-TATAAAAATATTAAAAATTA
1 AAAAAAATTATAAAAATATTAAAAATTA
** *
64871453 GAAAAAAATTATAAAAATCGTAAAAAGCTA
1 -AAAAAAATTATAAAAATATTAAAAA-TTA
* *
64871483 TAAAAAATTATAAAAATCATAAAAAATTA
1 AAAAAAATTATAAAAAT-ATTAAAAATTA
*
64871512 TAAAA
1 AAAAA
64871517 TGCATCAAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
26 12 0.13
27 3 0.03
28 26 0.28
29 45 0.48
30 7 0.08
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAAAATTATAAAAATATTAAAAATTA
Found at i:64871516 original size:9 final size:9
Alignment explanation
Indices: 64871373--64871516 Score: 73
Period size: 9 Copynumber: 15.4 Consensus size: 9
64871363 CATGTTGCAA
*
64871373 AAAAATGAT
1 AAAAATTAT
64871382 AAAAA--AT
1 AAAAATTAT
*
64871389 AAAAATCAAT
1 AAAAAT-TAT
*
64871399 AAAATTTAT
1 AAAAATTAT
64871408 -AAAATTATT
1 AAAAATTA-T
**
64871417 AAATTTCTAAT
1 AAAAAT-T-AT
64871428 AAAAA-TAT
1 AAAAATTAT
64871436 AAAAA-TATT
1 AAAAATTA-T
*
64871445 AAAAATTAGAA
1 AAAAATT--AT
64871456 AAAAATTAT
1 AAAAATTAT
**
64871465 AAAAATCGT
1 AAAAATTAT
*
64871474 AAAAAGCTAT
1 AAAAA-TTAT
64871484 AAAAAATTAT
1 -AAAAATTAT
*
64871494 AAAAATCAT
1 AAAAATTAT
64871503 AAAAAATTAT
1 -AAAAATTAT
64871513 AAAA
1 AAAA
64871517 TGCATCAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.07
8 15 0.14
9 40 0.38
10 23 0.22
11 17 0.16
12 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:64871528 original size:19 final size:19
Alignment explanation
Indices: 64871428--64871516 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
64871418 AATTTCTAAT
*
64871428 AAAAA-TATAAAAAT-ATT
1 AAAAATTATAAAAATCATA
* *
64871445 AAAAATTAGAAAAA-AATTA
1 AAAAATTATAAAAATCA-TA
** *
64871464 TAAAAATCGTAAAAAGCTATA
1 -AAAAATTATAAAAATC-ATA
64871485 AAAAATTATAAAAATCATA
1 AAAAATTATAAAAATCATA
64871504 AAAAATTATAAAA
1 AAAAATTATAAAA
64871517 TGCATCAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.09
18 8 0.14
19 17 0.30
20 24 0.42
21 2 0.04
22 1 0.02
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAAAATCATA
Found at i:64874574 original size:40 final size:40
Alignment explanation
Indices: 64874519--64874736 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
64874509 CGGATGATAA
* * *
64874519 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
64874559 CCGGGCTAAG-CCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
*
64874599 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64874639 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
64874679 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
64874719 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64874737 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 18 0.11
40 143 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64876778 original size:19 final size:19
Alignment explanation
Indices: 64876735--64876777 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
64876725 TGGTACGATA
*
64876735 ATTTTTATATTTTTTTACG
1 ATTTTTATATTTCTTTACG
*
64876754 AATTTTATATTTCTTTAC-
1 ATTTTTATATTTCTTTACG
64876772 ATTTTT
1 ATTTTT
64876778 TTATAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTATATTTCTTTACG
Found at i:64877943 original size:22 final size:24
Alignment explanation
Indices: 64877888--64877944 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 24
64877878 CGTATATTAC
64877888 ATATATA-T-TTTTATTAATTTTA
1 ATATATACTATTTTATTAATTTTA
64877910 A-ATAATAC-ATTTTATT-A-TTTA
1 ATAT-ATACTATTTTATTAATTTTA
64877931 ATATATACTATTTT
1 ATATATACTATTTT
64877945 TAAACACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
21 11 0.37
22 12 0.40
23 7 0.23
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
ATATATACTATTTTATTAATTTTA
Found at i:64877945 original size:23 final size:24
Alignment explanation
Indices: 64877888--64877946 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
64877878 CGTATATTAC
64877888 ATATA-TATTTTTATTAATTTTAA
1 ATATACTATTTTTATTAATTTTAA
64877911 ATAATAC-A-TTTTATT-A-TTTAA
1 AT-ATACTATTTTTATTAATTTTAA
64877932 TATATACTATTTTTA
1 -ATATACTATTTTTA
64877947 AACACATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
21 9 0.29
22 4 0.13
23 14 0.45
24 4 0.13
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
ATATACTATTTTTATTAATTTTAA
Found at i:64890373 original size:37 final size:37
Alignment explanation
Indices: 64890322--64890396 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
64890312 GGGTTAGGTA
*
64890322 AATGTTCCACGATAATGGGTTAGGTAAATGTTTCATG
1 AATGTTCCACGATAATGGGTTAGGTAAATGTTCCATG
*
64890359 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
1 AATGTTCCACGATAATGGGTTAGGTAAATGTTCCATG
64890396 A
1 A
64890397 TAGGAATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (37 bp):
AATGTTCCACGATAATGGGTTAGGTAAATGTTCCATG
Found at i:64897397 original size:26 final size:26
Alignment explanation
Indices: 64897368--64897422 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
64897358 TGATACAAAT
64897368 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64897394 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64897420 TGA
1 TGA
64897423 ATGTTCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64897426 original size:37 final size:37
Alignment explanation
Indices: 64897385--64897459 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
64897375 GGGTTAGGTA
*
64897385 AATGTTCCATGATAATGGGTTAGGTAAATGTTTCATG
1 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
64897422 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
1 AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
64897459 A
1 A
64897460 TGGGAATTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (37 bp):
AATGTTCCATGATAATGGGTTAGGTAAATGTTCCATG
Found at i:64906673 original size:44 final size:44
Alignment explanation
Indices: 64906598--64907044 Score: 628
Period size: 44 Copynumber: 10.2 Consensus size: 44
64906588 TGGTGAATCC
* * *
64906598 AGCAAATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* *
64906642 AGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
*
64906686 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
64906730 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * * *
64906774 AACAGATTTGGCATCTCTATGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
** *
64906818 AGCAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * *
64906862 AGCAGATTTGGCACCTCTTTAATGGCAGAGAGCAGATCAAAGGT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * * * *
64906906 AGCAGATTTGGCATATCTATGTTGACAGAGAGTAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
64906950 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
* * *
64906994 AGCAGATTTGACATCTCTG-A-TGAACGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTG-GCAGAGAGCAGATCAAAGAT
*
64907037 AACAGATT
1 AGCAGATT
64907045 GGTGTTCCCG
Statistics
Matches: 356, Mismatches: 46, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
42 2 0.01
43 26 0.07
44 328 0.92
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
Found at i:64906840 original size:132 final size:132
Alignment explanation
Indices: 64906598--64907044 Score: 691
Period size: 132 Copynumber: 3.4 Consensus size: 132
64906588 TGGTGAATCC
* * * * * *
64906598 AGCAAATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTA
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
64906663 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
64906728 AT
131 AT
64906730 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
**
64906795 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTGGCGGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
64906860 AT
131 AT
* * * * * *
64906862 AGCAGATTTGGCACCTCTTTAATGGCAGAGAGCAGATCAAAGGTAGCAGATTTGGCATATCTATG
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
* * *
64906927 TTGACAGAGAGTAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAG
66 TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
64906992 AT
131 AT
* * *
64906994 AGCAGATTTGACATCTCTG-A-TGAACGGAGAGCAGATCAAAGATAACAGATT
1 AGCAGATTTGGCATCTCTGTATTG-GCAGAGAGCAGATCAAAGATAACAGATT
64907045 GGTGTTCCCG
Statistics
Matches: 288, Mismatches: 26, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
130 2 0.01
131 25 0.09
132 261 0.91
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (132 bp):
AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGGCATCTCTATG
TTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAG
AT
Found at i:64910180 original size:131 final size:130
Alignment explanation
Indices: 64909923--64910248 Score: 302
Period size: 131 Copynumber: 2.5 Consensus size: 130
64909913 AGAAATCCTT
* * * * *
64909923 TAAAACGAAGGCGATG-CTCGATGTTTGACGATTCGGGAATCATGCCCTATCGTGCTGGGTTGTG
1 TAAAACGAAGGAGATGTC-CGATGTTTGGCGATTTGGGAATCGTGCCCTATCGTGCTGGGTTGCG
* * * * ** *
64909987 ATTTCTCGTTTAGTCAAAACAATCGAATATTCCTTTAGGTTTTCACTCATTTTTTTAGAAAACAT
65 ATTTCTCGATTAGTCAAAACAATCGAAGATCCCTTCAGGTTTTCACTCAACTTTCTAGAAAAC-T
64910052 TC
129 TC
* * *
64910054 TAAAACGAAGGTGATGTCCAATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGC
1 TAAAACGAAGGAGATGTCCGATGTTTGGCGATTTGGGAATCGTGCCCTATCGTGCTGGGTTGCG-
* * * *
64910119 ATTT-TC-ATTGGTTCAAACCAATTGAAGATCCCTTCAGAG-TTTCGCTCACACTTTCTA-AAAA
65 ATTTCTCGATTAG-TCAAAACAATCGAAGATCCCTTCAG-GTTTTCACTCA-ACTTTCTAGAAAA
*
64910180 CTTT
127 CTTC
* * * * * * *
64910184 TAAAAATGAAAGAAATGTCTGATGTTTGGCAATTTGGGGGATAGTGCCCTATCGTGCTGGGTTGC
1 T-AAAACGAAGGAGATGTCCGATGTTTGGCGATTT-GGGAATCGTGCCCTATCGTGCTGGGTTGC
64910249 AATCTGCCGT
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
130 6 0.04
131 116 0.73
132 37 0.23
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (130 bp):
TAAAACGAAGGAGATGTCCGATGTTTGGCGATTTGGGAATCGTGCCCTATCGTGCTGGGTTGCGA
TTTCTCGATTAGTCAAAACAATCGAAGATCCCTTCAGGTTTTCACTCAACTTTCTAGAAAACTTC
Found at i:64915505 original size:22 final size:22
Alignment explanation
Indices: 64915480--64915524 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
64915470 AAGGCAAGTA
*
64915480 GGAGAAATATTTGCTGCTGGTT
1 GGAGAAATATTTGCCGCTGGTT
64915502 GGAGAAATATTTGCCGCTGGTT
1 GGAGAAATATTTGCCGCTGGTT
64915524 G
1 G
64915525 AATCCGCATA
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:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (22 bp):
GGAGAAATATTTGCCGCTGGTT
Found at i:64920667 original size:30 final size:30
Alignment explanation
Indices: 64920631--64920690 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
64920621 GGCAGTGGAG
64920631 TCTCTCGGTGACCACTAGACTATGAACTGA
1 TCTCTCGGTGACCACTAGACTATGAACTGA
64920661 TCTCTCGGTGACCACTAGACTATGAACTGA
1 TCTCTCGGTGACCACTAGACTATGAACTGA
64920691 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (30 bp):
TCTCTCGGTGACCACTAGACTATGAACTGA
Found at i:64922729 original size:22 final size:21
Alignment explanation
Indices: 64922699--64922764 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
64922689 TACAAATTAA
64922699 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
64922721 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
64922742 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
64922761 ATCT
1 ATCT
64922765 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:64922751 original size:19 final size:19
Alignment explanation
Indices: 64922716--64922813 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
64922706 AGATTACAAG
64922716 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
64922737 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64922756 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
64922773 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
*
64922792 ATTATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64922811 ATC
1 ATC
64922814 CTTAAAGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 16 0.23
19 46 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:64922780 original size:36 final size:37
Alignment explanation
Indices: 64922716--64922813 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
64922706 AGATTACAAG
64922716 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
64922756 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
*
64922792 ATTATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
64922814 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:64923199 original size:45 final size:44
Alignment explanation
Indices: 64923144--64923235 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
64923134 GGAAGGCGAT
* *
64923144 ATCTGCTATCTTTGATCTGCTCTTC-GTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTG-TCTTCTGAC-AATACAGAGACGCCAA
* * *
64923189 ATCTGTTATCTTCGATCTGTTTTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGTCTTCTGACAATACAGAGACGCCAA
64923233 ATC
1 ATC
64923236 ATCTTAGATC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 22 0.54
45 19 0.46
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTCTTCTGACAATACAGAGACGCCAA
Found at i:64923714 original size:84 final size:84
Alignment explanation
Indices: 64923550--64924162 Score: 821
Period size: 84 Copynumber: 7.3 Consensus size: 84
64923540 ATCATCTTGG
* * * * * *
64923550 ACCCTACTGCTTAAGGGG-TTAAGGTGCATTGTCTTTGATCTGTTTCGCTACTGGTTA-GG-GAT
1 ACCCTACTGCTT-AGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
64923612 AAGATCTGCAAATTTAACCTGTT
62 AAGATCTGCAAATTTAACCTGTT
* * *
64923635 ACCCTACTGCTTAGGGGATTAAGGTGGGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
64923700 TCTACAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * * *
64923719 ACCCTACTACTTAGGGGATTAAGGTGAGTCGTCGTTGATCTGCTCCGCTACTGCTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATA
*
64923784 AGATCTGC-----GAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
* *
64923801 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGG
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
64923866 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
** *
64923885 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTATTCCACTACTGTTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
64923950 TTTGCAAATTTAACCTATT
66 TCTGCAAATTTAACCTGTT
*
64923969 ACCCTACTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
** *
64924034 AATGTC-AATTTAACCTATT
66 TCTG-CAAATTTAACCTGTT
* * *
64924053 ACCCTAGTGCTTAGGGGATTGAGGCGAGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
64924118 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
64924137 ACCCTACTGCTGAGGGGATTAAGGCG
1 ACCCTACTGCTTAGGGGATTAAGGCG
64924163 CTGGATTTTG
Statistics
Matches: 470, Mismatches: 45, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
79 35 0.07
81 1 0.00
82 57 0.12
83 3 0.01
84 317 0.67
85 22 0.05
87 35 0.07
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:64924109 original size:41 final size:41
Alignment explanation
Indices: 64923630--64924109 Score: 179
Period size: 41 Copynumber: 11.5 Consensus size: 41
64923620 CAAATTTAAC
* * *
64923630 CTGTTACC-CTACTGCTTAGGGGATTAAGGTGGGTCTTCGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
* * * * *** * *
64923671 CTGCTCCACTACTACTTAGGGAGA-TAAGATCTACAAATTTAAC
1 CTGTTCCACTACTGCTTAGGG-GATTAAG-GCGA-GTCTTTGAT
* *
64923714 CTGTTACC-CTACTACTTAGGGGATTAAGGTGAGTCGTCGTTGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTC-T--TTGAT
* * ** *
64923758 CTGCTCCGCTACTGCTTAGGGAGA-TAA---GA-TCTGCGAAC
1 CTGTTCCACTACTGCTTAGGG-GATTAAGGCGAGTCTTTG-AT
*
64923796 CTGTTACC-CTACTGCTTAGGGGATTAAGGCGAGTCTTCGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
* * ** * *
64923837 CTGCTCCACTACTGCTTAGGAAGA-TAAGGTCTGCA-AATTTAAC
1 CTGTTCCACTACTGCTTAGG-GGATTAAGG-C-G-AGTCTTTGAT
*
64923880 CTGTTACC-CTACTGCTTAGGGGATTAAGGCGAGTCTTCGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
* * ** * *
64923921 CTATTCCACTACTGTTTAGGGAGA-TAAGATTTGC-A-AATTTAAC
1 CTGTTCCACTACTGCTTAGGG-GATTAAG----GCGAGTCTTTGAT
* * *
64923964 CTATTACC-CTACTACTTAGGGGATTAAGGCGAGTCTTCGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
* ** * *
64924005 CTGCTCCACTACTGCTTAGGGAGA-TAA-GAAATGTCAATTTAAC
1 CTGTTCCACTACTGCTTAGGG-GATTAAGGCGA-GTC--TTTGAT
* * *
64924048 CTATTACC-CTAGTGCTTAGGGGATTGAGGCGAGTCTTTGAT
1 CTGTT-CCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
*
64924089 CTGCTCCACTACTGCTTAGGG
1 CTGTTCCACTACTGCTTAGGG
64924110 AGATAAGATC
Statistics
Matches: 318, Mismatches: 76, Indels: 90
0.66 0.16 0.19
Matches are distributed among these distances:
37 3 0.01
38 21 0.07
39 5 0.02
40 16 0.05
41 113 0.36
42 25 0.08
43 97 0.31
44 34 0.11
45 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
CTGTTCCACTACTGCTTAGGGGATTAAGGCGAGTCTTTGAT
Found at i:64925123 original size:7 final size:7
Alignment explanation
Indices: 64925111--64925174 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 7
64925101 TCTCTCCATT
64925111 TTTTTTC
1 TTTTTTC
64925118 TTTTTTC
1 TTTTTTC
64925125 TCTTTTT-
1 T-TTTTTC
*
64925132 TATTTTTAT
1 T-TTTTT-C
64925141 TTTTTTC
1 TTTTTTC
64925148 TCTTTTTC
1 T-TTTTTC
64925156 --TTTTC
1 TTTTTTC
64925161 TTTTTTCC
1 TTTTTT-C
64925169 TTTTTT
1 TTTTTT
64925175 TTGAAATAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.10
7 19 0.40
8 23 0.48
9 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:64925175 original size:21 final size:20
Alignment explanation
Indices: 64925109--64925176 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
64925099 GGTCTCTCCA
64925109 TTTTTTTTCTTTTTTCTCTTT
1 TTTTTTTTCTTTTTTC-CTTT
* *
64925130 TTTATTTTTATTTTTTTCTCTT
1 TTT-TTTTTCTTTTTTCCT-TT
*
64925152 TTTCTTTTCTTTTTTCCTTT
1 TTTTTTTTCTTTTTTCCTTT
64925172 TTTTT
1 TTTTT
64925177 GAAATAGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 6 0.15
21 17 0.44
22 16 0.41
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTCCTTT
Found at i:64931357 original size:39 final size:40
Alignment explanation
Indices: 64931257--64931441 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
64931247 TCGAATGATG
* * * * *
64931257 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAGTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
64931297 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64931337 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64931376 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
64931417 -CCGGGTTATGTCCCAAAGGCCTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64931442 AATGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64931463 original size:79 final size:79
Alignment explanation
Indices: 64931310--64931474 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
64931300 GAACTAAGAT
* * **
64931310 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
*
64931375 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * *
64931389 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTATGTCCCAAAGGCCTTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-C
* *
64931452 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
64931468 CCGAAGG
1 CCGAAGG
64931475 TACGTGATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.68
80 21 0.30
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:64935388 original size:22 final size:21
Alignment explanation
Indices: 64935358--64935423 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
64935348 TACAAATTAA
64935358 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
64935380 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
64935401 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
64935420 ATCT
1 ATCT
64935424 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:64935410 original size:19 final size:19
Alignment explanation
Indices: 64935375--64935436 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
64935365 AGATTACAAG
64935375 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
64935396 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64935415 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
64935434 ATC
1 ATC
64935437 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
20 1 0.02
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:64936945 original size:19 final size:19
Alignment explanation
Indices: 64936921--64937011 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
64936911 ATAATCTTCA
*
64936921 ATGATATGCAGTCTTAGAT
1 ATGATATGCAATCTTAGAT
*
64936940 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64936959 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
64936976 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
64936994 ATGATATGCAACCTTAGA
1 ATGATATGCAATCTTAGA
64937012 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 34 0.52
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:64936952 original size:36 final size:35
Alignment explanation
Indices: 64936912--64937034 Score: 106
Period size: 36 Copynumber: 3.3 Consensus size: 35
64936902 TATGGAAATA
*
64936912 TAATCTTCA-ATGATATGCAGTCTTAGATATGATATG
1 TAATCTT-AGATGATATGCAATCTTAGATATGAT-TG
*
64936948 TAATCTTAGAT-ATGATACAATCTTAGATATGATTG
1 TAATCTTAGATGAT-ATGCAATCTTAGATATGATTG
* *
64936983 CAATCTTAGATATGATATGCAACCTTAGAAGATATGATTTTG
1 TAATCTTAG--ATGATATGCAATCTT---AGATATGA--TTG
64937025 TAATCTTAGA
1 TAATCTTAGA
64937035 GATTTAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
35 13 0.18
36 26 0.37
37 10 0.14
38 2 0.03
40 9 0.13
42 11 0.15
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (35 bp):
TAATCTTAGATGATATGCAATCTTAGATATGATTG
Found at i:64936959 original size:14 final size:16
Alignment explanation
Indices: 64936932--64936999 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 16
64936922 TGATATGCAG
64936932 TCTTAGATATGATATGTAA
1 TCTTAGATATGATA---AA
64936951 TCTTAGATATGATACAA
1 TCTTAGATATGATA-AA
*
64936968 TCTTAGATATGATTGCAA
1 TCTTAGATATGA-T-AAA
64936986 TCTTAGATATGATA
1 TCTTAGATATGATA
64937000 TGCAACCTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.34
18 15 0.34
19 14 0.32
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (16 bp):
TCTTAGATATGATAAA
Found at i:64936971 original size:17 final size:17
Alignment explanation
Indices: 64936932--64936999 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 17
64936922 TGATATGCAG
*
64936932 TCTTAGATATGATATGTAA
1 TCTTAGATATGATA--CAA
64936951 TCTTAGATATGATACAA
1 TCTTAGATATGATACAA
*
64936968 TCTTAGATATGATTGCAA
1 TCTTAGATATGA-TACAA
64936986 TCTTAGATATGATA
1 TCTTAGATATGATA
64937000 TGCAACCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
17 15 0.33
18 16 0.36
19 14 0.31
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (17 bp):
TCTTAGATATGATACAA
Found at i:64936995 original size:35 final size:36
Alignment explanation
Indices: 64936932--64936999 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
64936922 TGATATGCAG
*
64936932 TCTTAGATATGATATGTAATCTTAGATATGATACAA
1 TCTTAGATATGATATGCAATCTTAGATATGATACAA
64936968 TCTTAGATATGAT-TGCAATCTTAGATATGATA
1 TCTTAGATATGATATGCAATCTTAGATATGATA
64937000 TGCAACCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (36 bp):
TCTTAGATATGATATGCAATCTTAGATATGATACAA
Found at i:64942923 original size:30 final size:30
Alignment explanation
Indices: 64942889--64942949 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
64942879 TCCTTAACTC
64942889 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
64942919 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
64942949 A
1 A
64942950 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:64949212 original size:208 final size:209
Alignment explanation
Indices: 64948847--64949281 Score: 624
Period size: 208 Copynumber: 2.1 Consensus size: 209
64948837 CAGGCTAAAG
* **
64948847 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAAGTGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
* * * *
64948912 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCGACGGAGAGGAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAG
*
64948977 ACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATC-CTTGCGTT-GACAA
131 ACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC-TGCATTAGAC-A
64949040 GG-AGCAGATCGAAGA
194 GGAAGCAGATCGAAGA
* * * **
64949055 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
*
64949120 CTGTCTGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAG
* * * * * * *
64949185 ACATAGCAGGTCTGACCTTCTTTGAAGCAGATCCAAGGTGATTTGGCATCTCTGTATTAGACGGG
131 ACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGCATTAGACAGG
64949250 AAGCAGATCGAAGA
196 AAGCAGATCGAAGA
* *
64949264 CACAGCAGATCTGACCTT
1 CATAGCAGATTTGACCTT
64949282 TATTGAAGCA
Statistics
Matches: 199, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
208 168 0.84
209 31 0.16
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (209 bp):
CATAGCAGATTTGACCTTCACGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACATCTCTGTA
CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAG
ACACAACAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGCATTAGACAGG
AAGCAGATCGAAGA
Found at i:64949440 original size:78 final size:78
Alignment explanation
Indices: 64949146--64949440 Score: 405
Period size: 78 Copynumber: 3.8 Consensus size: 78
64949136 CGAAGAAACA
** * * * * * *
64949146 GATTTGGCATCTCCATATTCGACGGAGAGCAAATCGAAGACATAGCAGGTCTGACCTTCTTTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
64949211 GCAGATCCAAGGT
66 GCAGATCCAAGAT
* *
64949224 GATTTGGCATCTCTGTATTAGAC-GGGAAGCAGATCGAAGACACAGCAGATCTGACCTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAA-CAGATCGAAGACATAGCAGATCTGACCTTCATTGA
64949288 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
64949302 GATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAAGACATAACAGAT-TGGACTTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
64949366 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
*
64949380 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCAAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCAT
64949441 GTGTTTACAT
Statistics
Matches: 190, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
77 4 0.02
78 181 0.95
79 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:64949640 original size:45 final size:45
Alignment explanation
Indices: 64949454--64949647 Score: 239
Period size: 45 Copynumber: 4.3 Consensus size: 45
64949444 TTTACATCGA
* * * *
64949454 AGCAGATCCAAGATGAA-AGATTTCGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGAT-AACAAATTTGGCATCTCTGTATTAGACAGGG
* * * *
64949499 AGCAAATTGACGATAACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACAGGG
* * *
64949544 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACAGGG
* *
64949588 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACAGGG
*
64949633 AGCAGATCAAAGATA
1 AGCAGATCGAAGATA
64949648 GAAGATGTCG
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
44 42 0.32
45 90 0.68
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAAATTTGGCATCTCTGTATTAGACAGGG
Found at i:64949993 original size:14 final size:15
Alignment explanation
Indices: 64949974--64950011 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
64949964 AATCTTCAAT
64949974 GATATG-CAATCTTA
1 GATATGACAATCTTA
64949988 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
64950005 GATATGA
1 GATATGA
64950012 TTGCGATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:64950000 original size:17 final size:17
Alignment explanation
Indices: 64949980--64950041 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
64949970 CAATGATATG
64949980 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
64949997 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
64950015 CGATCTTAGATATGATA
1 CAATCTTAGATATGATA
64950032 TGCAATCTTA
1 --CAATCTTA
64950042 AAGATTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 16 0.42
18 15 0.39
19 7 0.18
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:64950022 original size:35 final size:37
Alignment explanation
Indices: 64949972--64950041 Score: 108
Period size: 35 Copynumber: 1.9 Consensus size: 37
64949962 ATAATCTTCA
64949972 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
*
64950008 ATGAT-TGCGATCTTAGATATGATATGCAATCTTA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTA
64950042 AAGATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 18 0.58
36 5 0.16
37 8 0.26
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:64950334 original size:18 final size:19
Alignment explanation
Indices: 64950311--64950346 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
64950301 TTTCCCTGAT
*
64950311 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
64950329 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
64950347 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:64955712 original size:43 final size:43
Alignment explanation
Indices: 64955566--64955759 Score: 184
Period size: 43 Copynumber: 4.6 Consensus size: 43
64955556 TAAGCTCGTA
* * * * *
64955566 CAATGCC-ATATCCCTGATATGGTCTTACATGCT-ATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACG-TAATCTCATAT
** * *
64955608 TGATGCCACTGTCCCAGACAGGGTCTTACACG-AA--TCATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
* *
64955648 -ACATGCCAAAGTCCCAAACATGGTCTTACACGTAATCTCATAT
1 CA-ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
** * *
64955691 CAATGCCAATGTCTTAGACATGGTCTTACACATAATCTCATAG
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
*
64955734 CAATGCCAATGTCCCAAACATGGTCT
1 CAATGCCAATGTCCCAGACATGGTCT
64955760 CATAGGAAAT
Statistics
Matches: 122, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
40 31 0.25
41 2 0.02
42 6 0.05
43 82 0.67
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCATAT
Found at i:64963862 original size:28 final size:28
Alignment explanation
Indices: 64963796--64963865 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
64963786 ATATTTTCCT
*
64963796 TCGCACACTTAGTGCTCGATAATCAAAC
1 TCGCACACTTAGTGCTCGATAACCAAAC
*
64963824 TCGTACACTTAGTGCTC-ATTAACCAAAC
1 TCGCACACTTAGTGCTCGA-TAACCAAAC
**
64963852 TCGCATGCTTAGTG
1 TCGCACACTTAGTG
64963866 AAATTTTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCGATAACCAAAC
Found at i:64970677 original size:16 final size:16
Alignment explanation
Indices: 64970656--64970687 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
64970646 CTTATACATG
64970656 CCATAAGTTTAAACTT
1 CCATAAGTTTAAACTT
64970672 CCATAAGTTTAAACTT
1 CCATAAGTTTAAACTT
64970688 AAGCTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
CCATAAGTTTAAACTT
Found at i:64980768 original size:46 final size:46
Alignment explanation
Indices: 64980640--64980775 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
64980630 GGGTGCCGTG
* * *
64980640 GTGTCTTTCAACCATGGTCTTATTTATTCT-TAACTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTTATTCTCTATCATGTTGCCATA
* * *
64980685 GTGTCTTTCAACCATGGTCTTATTCATTTTCCATCATGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTATTTATTCTCTATCATGTTGCCATA
* * *
64980731 GTGTCTTTCAACTATGGTCTTATTTATTCTCTGTCATGTTTCCAT
1 GTGTCTTTCAACCATGGTCTTATTTATTCTCTATCATGTTGCCAT
64980776 CAACTATGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 28 0.36
46 50 0.64
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (46 bp):
GTGTCTTTCAACCATGGTCTTATTTATTCTCTATCATGTTGCCATA
Found at i:64988367 original size:43 final size:43
Alignment explanation
Indices: 64988232--64988390 Score: 139
Period size: 43 Copynumber: 3.7 Consensus size: 43
64988222 TATGTGTTAT
* *
64988232 CATGTAAGA-TCATGTCTGGGACATTGGTATCGACATATGATTTA
1 CATGTAAGACTCATGTCTGGGACA-TGGCATCGACATTTGA-TTA
* * * * *
64988276 CATGTAGGAC-CATGTCTGGGACATCGACATTG-TATTTGATTT
1 CATGTAAGACTCATGTCTGGGACAT-GGCATCGACATTTGATTA
**
64988318 TGTGTAAGACTC-TGTCTGGGACAGTGGCATCGACATTTGATTA
1 CATGTAAGACTCATGTCTGGGACA-TGGCATCGACATTTGATTA
**
64988361 CATGTAAGAC-CACATCTGGGACATTGGCAT
1 CATGTAAGACTCATGTCTGGGACA-TGGCAT
64988391 TGTACAAGAT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 25 0.28
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CATGTAAGACTCATGTCTGGGACATGGCATCGACATTTGATTA
Found at i:64988394 original size:85 final size:86
Alignment explanation
Indices: 64988234--64988394 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 86
64988224 TGTGTTATCA
* * * **
64988234 TGTAAGATCATGTCTGGGACATTGGTATCGACATATGATTTACATGTAGGACCATGTCTGGGACA
1 TGTAAGATCATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGACA
64988299 TCGACATTGTATTTGATTTTG
66 TCGACATTGTATTTGATTTTG
*
64988320 TGTAAGACTC-TGTCTGGGACAGTGGCATCGACATTTGA-TTACATGTAAGACCACATCTGGGAC
1 TGTAAGA-TCATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGAC
* *
64988383 ATTGGCATTGTA
65 ATCGACATTGTA
64988395 CAAGATTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 32 0.48
86 32 0.48
87 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (86 bp):
TGTAAGATCATGTCTGGGACAGTGGCATCGACATATGATTTACATGTAAGACCACATCTGGGACA
TCGACATTGTATTTGATTTTG
Found at i:64997154 original size:16 final size:16
Alignment explanation
Indices: 64997116--64997154 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
64997106 GGTAGGGAGT
64997116 AACAAATGAACAAAAA
1 AACAAATGAACAAAAA
*
64997132 GACAAATGAA-AAAAA
1 AACAAATGAACAAAAA
64997147 AACTAAAT
1 AAC-AAAT
64997155 TTAAATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.72, C:0.10, G:0.08, T:0.10
Consensus pattern (16 bp):
AACAAATGAACAAAAA
Found at i:65002027 original size:39 final size:40
Alignment explanation
Indices: 65001965--65002068 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 40
65001955 TATTCGGATG
*
65001965 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
*
65002005 ATATCCGGACT-AGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
* **
65002044 ATAACCGGGTTAAG-TCCCGAAGGCA
1 ATATCCGGACTAAGAT-CCGAAGGCA
65002069 TTCGTGCGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 35 0.61
40 22 0.39
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:65002082 original size:40 final size:40
Alignment explanation
Indices: 65001981--65002120 Score: 160
Period size: 40 Copynumber: 3.5 Consensus size: 40
65001971 GGACTAAGAT
* * * * **
65001981 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACT-AGAT-
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAG-TC
*
65002020 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
65002060 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
65002100 CCAAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
65002121 GTTACATCCG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 31 0.35
40 58 0.65
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:65005345 original size:32 final size:33
Alignment explanation
Indices: 65005302--65005365 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
65005292 ACGAAGTCAC
* *
65005302 CAGATACATATAT-TGTGGCTAGGCCACCAGAA
1 CAGATACATATATGTGTGGCGAAGCCACCAGAA
*
65005334 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATACATATATGTGTGGCGAAGCCACCAGA
65005366 TTGTAGCGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (33 bp):
CAGATACATATATGTGTGGCGAAGCCACCAGAA
Found at i:65012746 original size:27 final size:26
Alignment explanation
Indices: 65012698--65012757 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
65012688 GCGAAGCTGC
*
65012698 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
65012725 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
65012751 CAGATAT
1 CAGATAT
65012758 ATATAGTGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:65015764 original size:30 final size:30
Alignment explanation
Indices: 65015728--65015785 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65015718 ACATATTGAG
65015728 GACAATGTGTTACATAATGTGCTACATATT
1 GACAATGTGTTACATAATGTGCTACATATT
* * *
65015758 GACAATGTGTTACTTTATGTGTTACATA
1 GACAATGTGTTACATAATGTGCTACATA
65015786 AAGTAGGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (30 bp):
GACAATGTGTTACATAATGTGCTACATATT
Found at i:65017793 original size:59 final size:59
Alignment explanation
Indices: 65017721--65017838 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
65017711 AACACATGTT
65017721 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
1 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
65017780 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
1 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
65017839 TTCTCGCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (59 bp):
ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
Found at i:65021993 original size:44 final size:42
Alignment explanation
Indices: 65021940--65022039 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
65021930 CGATATGTGT
** *
65021940 TTTCGTGTAAGACCACATCTGGGACATTGGCATTG-ACTTTTGA
1 TTTCGTGTAAGACCACATCTGGGACATCAGCATTGTA--ATTGA
* **
65021983 TTTACGTGTAAAACCATGTCTGGGACATCAGCATTGTAATTGA
1 TTT-CGTGTAAGACCACATCTGGGACATCAGCATTGTAATTGA
65022026 TTTCGTGTAAGACC
1 TTTCGTGTAAGACC
65022040 CTGTTTGGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 10 0.21
43 10 0.21
44 27 0.56
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATCTGGGACATCAGCATTGTAATTGA
Found at i:65024910 original size:44 final size:44
Alignment explanation
Indices: 65024860--65025216 Score: 164
Period size: 45 Copynumber: 8.0 Consensus size: 44
65024850 GTCACATGTA
* * * *
65024860 TCGCATCCATTATGAACTCAGACCGACTCAACAAGCTTGAATGC
1 TCGCATCAATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
** **
65024904 TCGCATCAATAATGAACTTGGACCAACTCAATGAGCTCGAATGC
1 TCGCATCAATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
** * ** ** * * **
65024948 TTCAAAT-ATATCACAAACTTGGACCAACTCAACAAGTTCAAATTTA
1 -TCGCATCA-ATAATGAACTCAGACCAACTCAACAAGCTCGAA-TGC
** * * * * *
65024994 TTACAT-ATATCACGAACTCGGACCAACTCAACGAGCTCGAATTC
1 TCGCATCA-ATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
* * * ** *
65025038 TCGCATCCATAATGAACTCGGACTAACTCAATGAGCTCGGATGC
1 TCGCATCAATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
* * * ** * * *
65025082 TTCACAT-ATATCACGAACTTGGACCAACTCAACAAGTTCAGATTTC
1 -TCGCATCA-ATAATGAACTCAGACCAACTCAACAAGCTC-GAATGC
* * * * *
65025128 TCACAT-ATATCATGAACTCGGACCAACTCAATAAGCTCGGATGC
1 TCGCATCA-ATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
* * ** *
65025172 TCGCATCCATAATGAACTCGGACCAACTCAATGAGCTCGGATGC
1 TCGCATCAATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
65025216 T
1 T
65025217 TCACATATAT
Statistics
Matches: 246, Mismatches: 59, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
44 116 0.47
45 126 0.51
46 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (44 bp):
TCGCATCAATAATGAACTCAGACCAACTCAACAAGCTCGAATGC
Done.