Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 185 of 255
Found at i:61269962 original size:12 final size:13
Alignment explanation
Indices: 61269945--61270004 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 13
61269935 ATCTTTTATA
61269945 TATTATTAC-ATT
1 TATTATTACTATT
*
61269957 TATTATTGCTATTAT
1 TATTATTACTA-T-T
61269972 TATTATTACTATT
1 TATTATTACTATT
61269985 T-TATATTA-TATT
1 TAT-TATTACTATT
*
61269997 TAGTATTA
1 TATTATTA
61270005 TTTTAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 19 0.47
13 8 0.20
14 2 0.05
15 11 0.28
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (13 bp):
TATTATTACTATT
Found at i:61270311 original size:16 final size:17
Alignment explanation
Indices: 61270292--61270324 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
61270282 ATATTTTTTA
61270292 CATATAGTATTA-ATTT
1 CATATAGTATTATATTT
*
61270308 CATATATTATTATATTT
1 CATATAGTATTATATTT
61270325 ATTATTATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (17 bp):
CATATAGTATTATATTT
Found at i:61270620 original size:26 final size:27
Alignment explanation
Indices: 61270566--61270625 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
61270556 CTACGTATTG
* *
61270566 TGTATATTCTTAATACTATATATTGTA
1 TGTATATTCTTAATAATATATATTATA
*
61270593 TGTATTTTCTTAATAAT-TATATTATA
1 TGTATATTCTTAATAATATATATTATA
61270619 TGTATAT
1 TGTATAT
61270626 ATATACTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (27 bp):
TGTATATTCTTAATAATATATATTATA
Found at i:61278793 original size:54 final size:55
Alignment explanation
Indices: 61278711--61278818 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 55
61278701 TGATTATGTA
*
61278711 ATGCTACATTCACTTCAGGGAATGAAGCATATCTAATGATAAA-CTTTTTTTTTC
1 ATGCTACATTCACTTCAAGGAATGAAGCATATCTAATGATAAACCTTTTTTTTTC
61278765 ATGCTACATTCACTTCAAGGAATGAAGCATATCTAATGATAAACCTTTTTTTTT
1 ATGCTACATTCACTTCAAGGAATGAAGCATATCTAATGATAAACCTTTTTTTTT
61278819 ATTTATCGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 42 0.81
55 10 0.19
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (55 bp):
ATGCTACATTCACTTCAAGGAATGAAGCATATCTAATGATAAACCTTTTTTTTTC
Found at i:61279983 original size:4 final size:4
Alignment explanation
Indices: 61279967--61279998 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
61279957 AAGGTAAAAA
61279967 TAAT TAAT ATAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT -TAAT TAAT TAAT TAAT TAAT TAA
61279999 ATTTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
TAAT
Found at i:61282340 original size:26 final size:27
Alignment explanation
Indices: 61282268--61282340 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
61282258 TTAAAACGAT
* *
61282268 TAATATACAAAAAAATCTAAAATAAAA
1 TAATATAAAAAAAAATTTAAAATAAAA
* * *
61282295 TAATATATAAAACAACTTAAAAT-AAA
1 TAATATAAAAAAAAATTTAAAATAAAA
61282321 TAATA-AGAAAAAAAATTTAA
1 TAATATA-AAAAAAAATTTAA
61282341 GATGACATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.03
26 18 0.47
27 19 0.50
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (27 bp):
TAATATAAAAAAAAATTTAAAATAAAA
Found at i:61282455 original size:34 final size:36
Alignment explanation
Indices: 61282389--61282516 Score: 86
Period size: 36 Copynumber: 3.6 Consensus size: 36
61282379 AAAAAAGAAA
* *
61282389 TTTAAAATAAATAATATATATAAAAGTATAAAACAG
1 TTTAAAATAAATAATATATAGAAAACTATAAAACAG
* * * *
61282425 TTTAATATAAATAATATAT-GAAATCT-TAAAATAAA
1 TTTAAAATAAATAATATATAGAAAACTATAAAA-CAG
* * * *
61282460 TAATAAAA-AAACAGTATATACTAAATACATATAAAAC--
1 T-TTAAAATAAATAATATATA-GAAA-AC-TATAAAACAG
61282497 TTTAAAATAAATAATATATA
1 TTTAAAATAAATAATATATA
61282517 AAACAATTTA
Statistics
Matches: 68, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
34 5 0.07
35 15 0.22
36 27 0.40
37 14 0.21
38 1 0.01
39 1 0.01
40 5 0.07
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (36 bp):
TTTAAAATAAATAATATATAGAAAACTATAAAACAG
Found at i:61282485 original size:49 final size:49
Alignment explanation
Indices: 61282418--61282535 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 49
61282408 ATAAAAGTAT
*
61282418 AAAACAGTTTAATATAAATA-ATATATGAAA-TCTTAAAATAAATAATA-AA
1 AAAACAGTATAATATAAATACATATA--AAACT-TTAAAATAAATAATATAA
*
61282467 AAAACAGTAT-ATACTAAATACATATAAAACTTTAAAATAAATAATATAT
1 AAAACAGTATAATA-TAAATACATATAAAACTTTAAAATAAATAATATAA
* * *
61282516 AAAACAATTTAAAATAAATA
1 AAAACAGTATAATATAAATA
61282536 ATGTATAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
48 21 0.36
49 31 0.53
50 7 0.12
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (49 bp):
AAAACAGTATAATATAAATACATATAAAACTTTAAAATAAATAATATAA
Found at i:61282512 original size:26 final size:25
Alignment explanation
Indices: 61282415--61282545 Score: 119
Period size: 24 Copynumber: 5.3 Consensus size: 25
61282405 TATATAAAAG
*
61282415 TATAAAACAGTTTAATATAAATAATA
1 TATAAAACA-TTTAAAATAAATAATA
*
61282441 TAT-GAA-ATCTTAAAATAAATAATA
1 TATAAAACAT-TTAAAATAAATAATA
* * * * *
61282465 -AAAAAACAGTATATACTAAAT-ACA
1 TATAAAACA-TTTAAAATAAATAATA
61282489 TATAAAAC-TTTAAAATAAATAATA
1 TATAAAACATTTAAAATAAATAATA
*
61282513 TATAAAACAATTTAAAATAAATAATG
1 TATAAAAC-ATTTAAAATAAATAATA
61282539 TATAAAA
1 TATAAAA
61282546 TAATTTGAAG
Statistics
Matches: 83, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
23 11 0.13
24 29 0.35
25 17 0.20
26 26 0.31
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (25 bp):
TATAAAACATTTAAAATAAATAATA
Found at i:61282550 original size:26 final size:26
Alignment explanation
Indices: 61282415--61282551 Score: 117
Period size: 26 Copynumber: 5.5 Consensus size: 26
61282405 TATATAAAAG
* *
61282415 TATAAAACAGTTTAATATAAATAATA
1 TATAAAACAATTTAAAATAAATAATA
*
61282441 TAT--GA-AATCTTAAAATAAATAATA
1 TATAAAACAAT-TTAAAATAAATAATA
* * * * * *
61282465 -AAAAAACAGTATATACTAAAT-ACA
1 TATAAAACAATTTAAAATAAATAATA
61282489 TATAAAAC--TTTAAAATAAATAATA
1 TATAAAACAATTTAAAATAAATAATA
*
61282513 TATAAAACAATTTAAAATAAATAATG
1 TATAAAACAATTTAAAATAAATAATA
*
61282539 TATAAAATAATTT
1 TATAAAACAATTT
61282552 GAAGCTAAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 16
0.72 0.14 0.13
Matches are distributed among these distances:
23 12 0.14
24 27 0.31
25 15 0.17
26 32 0.37
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (26 bp):
TATAAAACAATTTAAAATAAATAATA
Found at i:61283923 original size:20 final size:20
Alignment explanation
Indices: 61283898--61283935 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61283888 TTAATCTTAT
61283898 TTATTATTTTTGGTTTATTA
1 TTATTATTTTTGGTTTATTA
61283918 TTATTATTTTTGGTTTAT
1 TTATTATTTTTGGTTTAT
61283936 AACGGGCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (20 bp):
TTATTATTTTTGGTTTATTA
Found at i:61284390 original size:179 final size:179
Alignment explanation
Indices: 61284090--61284422 Score: 497
Period size: 179 Copynumber: 1.9 Consensus size: 179
61284080 AGTCCCACTG
* * * *
61284090 CAACTTCAGAAAGATGAGACTTGTAGCTTCGATTTGCTCCAGTATAGTTTCAAGGAGAAAAGATT
1 CAACTTCAGAAAGATAAGACTTGTAGCTTCGATCTGCTCCAATATAATTTCAAGGAGAAAAGATT
* * * *
61284155 TGTAGCTTCGATCTACTCCGCTGGAACTTAAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCA
66 TGTAGCTTCGATCTACTCCCCTGGAACTTAAAAGAGATAAGAATTAGTAATTTCAACATGCTCCA
*
61284220 CTACAACTTCAGGGAGATATGGTTTGTGTAGTTTTATCCTACTCTACTA
131 CTACAACTTCAGGGAGATAAGGTTTGTGTAGTTTTATCCTACTCTACTA
* * * * *
61284269 CAACTTCAGAGAGATAAGGA-TTGTGGCTTCGATCTGCTCCAATATAATTTTAGGGAGAAGAGAT
1 CAACTTCAGAAAGATAA-GACTTGTAGCTTCGATCTGCTCCAATATAATTTCAAGGAGAAAAGAT
*
61284333 TTGTATCTTCGATCTACTCCCCTGGAACTTAAAAGAGATAAGAATTAGTAATTTCAACATGCTCC
65 TTGTAGCTTCGATCTACTCCCCTGGAACTTAAAAGAGATAAGAATTAGTAATTTCAACATGCTCC
**
61284398 ACTTTAACTTCAGGGAGATAAGGTT
130 ACTACAACTTCAGGGAGATAAGGTT
61284423 GGTGGCTTCA
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
179 134 0.99
180 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (179 bp):
CAACTTCAGAAAGATAAGACTTGTAGCTTCGATCTGCTCCAATATAATTTCAAGGAGAAAAGATT
TGTAGCTTCGATCTACTCCCCTGGAACTTAAAAGAGATAAGAATTAGTAATTTCAACATGCTCCA
CTACAACTTCAGGGAGATAAGGTTTGTGTAGTTTTATCCTACTCTACTA
Found at i:61284591 original size:143 final size:143
Alignment explanation
Indices: 61284403--61284848 Score: 678
Period size: 143 Copynumber: 3.1 Consensus size: 143
61284393 GCTCCACTTT
*
61284403 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTG-TTTCACTGCAACTTCAGGAAGATAAGATC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCT-ACTGCAACTTCAGGAAGATAAGATC
* * * * *
61284467 CGCCATAATTTGTAGCTTCAATCTTTTCCACTCCAACTTCAAGGAAATGAGATTTGCTATCTCCA
65 CGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCA
* *
61284532 GTCAACTCCGTTGC
130 GTCTACTCCGCTGC
* *
61284546 AACTTCAGGGAGATAAGGTTAGTGGCTTCAATCTGCTCTAATGCAACTTCAGGAAGATAAGATCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCC
*
61284611 GCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGGAATGAGATTCGCTATCTTCAG
66 GCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAG
* * * *
61284676 TCTGCACAGCTGT
131 TCTACTCCGCTGC
* * * *
61284689 AACTTCAGAGAGATAAGGCTGGTGGCTTCAATTTGCTCTACTGCAACTTCAGGAAGATAAAATCC
1 AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCC
* * *
61284754 GCCAGAATTTGTAGCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCGCTATCTTCAG
66 GCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAG
61284819 TCTACTCCGCTGC
131 TCTACTCCGCTGC
61284832 AACTTCAGGGAGATAAG
1 AACTTCAGGGAGATAAG
61284849 ATTCACCATC
Statistics
Matches: 272, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
143 270 0.99
144 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (143 bp):
AACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCC
GCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAG
TCTACTCCGCTGC
Found at i:61284926 original size:44 final size:45
Alignment explanation
Indices: 61284768--61284927 Score: 137
Period size: 45 Copynumber: 3.6 Consensus size: 45
61284758 GAATTTGTAG
** * * * * * *
61284768 CTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTACTCCACTGCTACTTCAAGGAGATAAGATTCACCAT
* * * *
61284813 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGATTCACCAT
1 CTTCAATCTACTCCACTGCTACTTCAAGGAGATAAGATTCACCAT
* *
61284858 CTTCAATCTACTTCACTG-TAACTTCAAGGAGATAAGA-TCTACGA-
1 CTTCAATCTACTCCACTGCT-ACTTCAAGGAGATAAGATTC-ACCAT
**
61284902 CTTCAATCTGGTCCACTGCTACTTCA
1 CTTCAATCTACTCCACTGCTACTTCA
61284928 GGGAAATGAG
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
44 23 0.24
45 72 0.76
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCTACTTCAAGGAGATAAGATTCACCAT
Found at i:61285344 original size:46 final size:46
Alignment explanation
Indices: 61285291--61285532 Score: 279
Period size: 46 Copynumber: 5.3 Consensus size: 46
61285281 ATTTGTGGTT
* *
61285291 TCTTCCATCCATCCCACTGCCACTCAAGGGTATAGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
* * * *
61285337 TCCTCCATCCATCCCACCGCAACTCAAGGGTATGGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
* * *
61285383 TCTTCAATCCATCCCACTGTAACT-AAGGGGTATGGGATTTTTATCA
1 TCTTCAATCCATCCCACTGCAACTCAA-GGGTATAGGATTTGTATCA
* * * * *
61285429 ACTTCAATCCATCCCACTACAATTCAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
* * * * * *
61285475 TCTTCAATCCATCCCATTGAAACTCAGGGGTACAAGATTTGTATCC
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
*
61285521 TTTTCAATCCAT
1 TCTTCAATCCAT
61285533 TGATCTGGGT
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 2 0.01
46 165 0.98
47 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
Found at i:61286255 original size:3 final size:3
Alignment explanation
Indices: 61286247--61286338 Score: 157
Period size: 3 Copynumber: 30.7 Consensus size: 3
61286237 ACTCTCTATT
* *
61286247 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
61286295 TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
61286339 TTTAGGAGGT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:61286273 original size:18 final size:18
Alignment explanation
Indices: 61286250--61286341 Score: 175
Period size: 18 Copynumber: 5.1 Consensus size: 18
61286240 CTCTATTTTC
61286250 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
61286268 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
61286286 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
*
61286304 TTCTTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTCTTT
61286322 TTCTTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTCTTT
61286340 TT
1 TT
61286342 AGGAGGTCTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTTCTTCTTCTTCTTT
Found at i:61293457 original size:19 final size:19
Alignment explanation
Indices: 61293433--61293470 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61293423 TAAATTACAT
*
61293433 AGTCAAAGAAGGAGTTATG
1 AGTCAAAGAAAGAGTTATG
61293452 AGTCAAAGAAAGAGTTATG
1 AGTCAAAGAAAGAGTTATG
61293471 TTGTACGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTCAAAGAAAGAGTTATG
Found at i:61299474 original size:19 final size:19
Alignment explanation
Indices: 61299442--61299478 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61299432 ATAATCAAAG
*
61299442 AAAATGAAACAAATAATAT
1 AAAATAAAACAAATAATAT
*
61299461 AAAATAAAATAAATAATA
1 AAAATAAAACAAATAATA
61299479 GGACAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (19 bp):
AAAATAAAACAAATAATAT
Found at i:61299517 original size:28 final size:29
Alignment explanation
Indices: 61299481--61299536 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
61299471 AAATAATAGG
*
61299481 ACAA-TTTTAAATAAATGA-TATAAAAAAA
1 ACAAGTTTAAAATAAAT-ACTATAAAAAAA
*
61299509 ACAAGTTTAAAATAGATACTATAAAAAA
1 ACAAGTTTAAAATAAATACTATAAAAAA
61299537 CAATTTGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (29 bp):
ACAAGTTTAAAATAAATACTATAAAAAAA
Found at i:61299605 original size:27 final size:26
Alignment explanation
Indices: 61299575--61299723 Score: 76
Period size: 27 Copynumber: 5.7 Consensus size: 26
61299565 TTAAAACGAT
61299575 TAATATACAAAA-CAATCTAAAATAAAA
1 TAATATACAAAATCAAT-TAAAAT-AAA
* *
61299602 TAATATATAAAATCACTTAAAATAAA
1 TAATATACAAAATCAATTAAAATAAA
* * * *
61299628 TAATA-AGAAAAACAATTTAAGATGACA
1 TAATATACAAAATCAA-TTAAAAT-AAA
* *
61299655 T-ATATA-AAAAT-ATTTAGAATAAA
1 TAATATACAAAATCAATTAAAATAAA
* * **
61299678 TAATGCGTAAAAAAGAAATTTAAAATAAA
1 TAAT--ATACAAAATCAA-TTAAAATAAA
*
61299707 TAATATATAAAAT-AATT
1 TAATATACAAAATCAATT
61299724 TGAAGCTAAA
Statistics
Matches: 93, Mismatches: 19, Indels: 22
0.69 0.14 0.16
Matches are distributed among these distances:
23 3 0.03
24 7 0.08
25 10 0.11
26 25 0.27
27 31 0.33
28 4 0.04
29 13 0.14
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (26 bp):
TAATATACAAAATCAATTAAAATAAA
Found at i:61299632 original size:53 final size:51
Alignment explanation
Indices: 61299575--61299720 Score: 136
Period size: 53 Copynumber: 2.8 Consensus size: 51
61299565 TTAAAACGAT
* *
61299575 TAATATACAAAACAATCTAAAATAAAATAATATATAAAATCACTTAAAATAAA
1 TAATATAAAAAACAATTTAAAAT-AAATAATATATAAAAT-ACTTAAAATAAA
* * * *
61299628 TAATA-AGAAAAACAATTTAAGATGACAT-ATATA-AAAATATTTAGAATAAA
1 TAATATA-AAAAACAATTTAAAAT-AAATAATATATAAAATACTTAAAATAAA
* *
61299678 TAATGCGTAAAAAAGAAATTTAAAATAAATAATATATAAAATA
1 TAAT--ATAAAAAA-CAATTTAAAATAAATAATATATAAAATA
61299721 ATTTGAAGCT
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
50 14 0.19
51 5 0.07
52 14 0.19
53 36 0.48
54 6 0.08
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (51 bp):
TAATATAAAAAACAATTTAAAATAAATAATATATAAAATACTTAAAATAAA
Found at i:61299647 original size:26 final size:26
Alignment explanation
Indices: 61299481--61299724 Score: 124
Period size: 26 Copynumber: 9.3 Consensus size: 26
61299471 AAATAATAGG
* *
61299481 ACAATTTTAAATAAATGATATAAAAAAA
1 ACAATTTAAAATAAAT-A-ATATAAAAA
* *
61299509 ACAAGTTTAAAATAGATACTATAAAAA
1 ACAA-TTTAAAATAAATAATATAAAAA
* * * * * *
61299536 ACAATTTGAAGTGAATAATGT--GAG
1 ACAATTTAAAATAAATAATATAAAAA
** * *
61299560 ACAATTTAAAACGATTAATATACAAA
1 ACAATTTAAAATAAATAATATAAAAA
*
61299586 ACAATCTAAAATAAAATAATATATAAAA
1 ACAATTTAAAAT-AAATAATATA-AAAA
* *
61299614 TC-ACTTAAAATAAATAATA-AGAAAA
1 ACAATTTAAAATAAATAATATA-AAAA
* *
61299639 ACAATTTAAGATGACAT-ATAT-AAAA
1 ACAATTTAAAAT-AAATAATATAAAAA
* * *
61299664 A-TATTTAGAATAAATAATGCGTAAAAA
1 ACAATTTAAAATAAATAAT--ATAAAAA
* *
61299691 AGAAATTTAAAATAAATAATATATAAA
1 A-CAATTTAAAATAAATAATATAAAAA
*
61299718 ATAATTT
1 ACAATTT
61299725 GAAGCTAAAA
Statistics
Matches: 160, Mismatches: 42, Indels: 30
0.69 0.18 0.13
Matches are distributed among these distances:
23 3 0.02
24 26 0.16
25 11 0.07
26 46 0.29
27 40 0.25
28 9 0.06
29 25 0.16
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.28
Consensus pattern (26 bp):
ACAATTTAAAATAAATAATATAAAAA
Found at i:61301102 original size:20 final size:20
Alignment explanation
Indices: 61301073--61301110 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
61301063 TTAATCTTAT
61301073 TTATTATTTTTGGTTTATTA
1 TTATTATTTTTGGTTTATTA
*
61301093 TTATTGTTTTTGGTTTAT
1 TTATTATTTTTGGTTTAT
61301111 AACGGGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (20 bp):
TTATTATTTTTGGTTTATTA
Found at i:61301788 original size:143 final size:143
Alignment explanation
Indices: 61301604--61302173 Score: 756
Period size: 143 Copynumber: 4.0 Consensus size: 143
61301594 TTTAGGGAGT
*
61301604 TGGTGGCTTCAATCTGCTTC-ACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTC
1 TGGTGGCTTCAATCTG-TTCTACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTC
* * *
61301668 AATCTTTTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCATTATGCTCCGCTGTAACTT
65 AATCTTTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCATTATGCTCCGCTGCAACTT
*
61301733 CAGGGAGATAAGGC
130 CAAGGAGATAAGGC
*
61301747 TGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTCA
1 TGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
* ** * * * * *
61301812 ATCTATTCCACTATAACTTTAGGGAAATGAGATTCGCTATCTTC-TGTCTACTCCACTGCAACTT
66 ATCTTTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAT-TATGCTCCGCTGCAACTT
*
61301876 CAAGGAGATAATGC
130 CAAGGAGATAAGGC
* * * * *
61301890 TGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCA
1 TGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
* * *
61301955 ATCTTTTCCACTGTAACTTCAGGGAAAATATA-CTT-GCTATCCTCA-TATTGCTCCGCTGCAAC
66 ATCTTTTCCACTGCAACTTCAGGG-AAATA-AGATTCGCTATCTTCATTA-TGCTCCGCTGCAAC
61302017 TTCAAGGAGATAAGGC
128 TTCAAGGAGATAAGGC
* * * *
61302033 TGGTGGCTTCAATCTGTTCTACTGA-AACTTCAGGAAGATAAGATTCACCATAATTTGTAGATAC
1 TGGTGGCTTCAATCTGTTCTACT-ACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTC
* * * *
61302097 AATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAATCTGCTCCGCTGCAACTT
65 AATCTTTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCATTATGCTCCGCTGCAACTT
*
61302162 CAGGGAGATAAG
130 CAAGGAGATAAG
61302174 ATTCGCCATC
Statistics
Matches: 370, Mismatches: 47, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
141 1 0.00
142 11 0.03
143 350 0.95
144 7 0.02
145 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (143 bp):
TGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
ATCTTTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCATTATGCTCCGCTGCAACTTC
AAGGAGATAAGGC
Found at i:61302124 original size:286 final size:286
Alignment explanation
Indices: 61301604--61302172 Score: 892
Period size: 286 Copynumber: 2.0 Consensus size: 286
61301594 TTTAGGGAGT
* *
61301604 TGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
1 TGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
* * *
61301669 ATCTTTTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCATTATGCTCCGCTGTAACTTC
66 ATCTTTTCCACTGCAACTTCAGGGAAATAAGACTTGCCATCCTCATTATGCTCCGCTGCAACTTC
* *
61301734 AGGGAGATAAGGCTGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATTCGCCATA
131 AAGGAGATAAGGCTGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATTCACCATA
* * * * **
61301799 ATTTGTAGCTTCAATCTATTCCACTATAACTTTAGGGAAATGAGATTCGCTATCTTCTGTCTACT
196 ATTTGTAGATACAATCTATTCCACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAATCTACT
61301864 CCACTGCAACTTCAAGGAGATAATGC
261 CCACTGCAACTTCAAGGAGATAATGC
*
61301890 TGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCA
1 TGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
* * *
61301955 ATCTTTTCCACTGTAACTTCAGGGAAA-ATATACTTGCTATCCTCA-TATTGCTCCGCTGCAACT
66 ATCTTTTCCACTGCAACTTCAGGGAAATA-AGACTTGCCATCCTCATTA-TGCTCCGCTGCAACT
61302018 TCAAGGAGATAAGGCTGGTGGCTTCAATCTGTTCTACTGA-AACTTCAGGAAGATAAGATTCACC
129 TCAAGGAGATAAGGCTGGTGGCTTCAATCTGTTCTACT-ACAACTTCAGGAAGATAAGATTCACC
* *
61302082 ATAATTTGTAGATACAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAATCT
193 ATAATTTGTAGATACAATCTATTCCACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAATCT
* * *
61302147 GCTCCGCTGCAACTTCAGGGAGATAA
258 ACTCCACTGCAACTTCAAGGAGATAA
61302173 GATTCGCCAT
Statistics
Matches: 258, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
285 3 0.01
286 254 0.98
287 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (286 bp):
TGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCA
ATCTTTTCCACTGCAACTTCAGGGAAATAAGACTTGCCATCCTCATTATGCTCCGCTGCAACTTC
AAGGAGATAAGGCTGGTGGCTTCAATCTGTTCTACTACAACTTCAGGAAGATAAGATTCACCATA
ATTTGTAGATACAATCTATTCCACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAATCTACT
CCACTGCAACTTCAAGGAGATAATGC
Found at i:61302160 original size:45 final size:45
Alignment explanation
Indices: 61302096--61302265 Score: 148
Period size: 45 Copynumber: 3.8 Consensus size: 45
61302086 TTTGTAGATA
* * *
61302096 CAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATCTT
* *
61302141 CAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTCGCCATCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATCTT
** * * * * *
61302186 TGATCTACTCTACAGCAACTTCAAGGAGATAAGATCTACG--A-CTT
1 CAATCTGCTCCACTGCAACTTCAGGGAAATAAGAT-T-CGCCATCTT
* * * * *
61302230 CAATCTGCTCCATTGCTACTTTAGAGAGATAAGATT
1 CAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT
61302266 TGTGGGTTCA
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 1 0.01
44 28 0.28
45 69 0.68
46 1 0.01
47 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATCTT
Found at i:61302685 original size:46 final size:46
Alignment explanation
Indices: 61302616--61302857 Score: 290
Period size: 46 Copynumber: 5.3 Consensus size: 46
61302606 ATTTATGGTT
* * * *
61302616 TCTTCCATCCACCCCGCTACAACTCAAGGGTATAGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
*
61302662 TCTTCCATCCATCCCACTGCAACTCAAGGGTAT-GAGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAG-GATTTGTATCA
* ** *
61302708 TCTTCACTCCATCCCACTGCAACT-AAGGGGTACGGGATTTTTATCA
1 TCTTCAATCCATCCCACTGCAACTCAA-GGGTATAGGATTTGTATCA
* * * *
61302754 TCTTCAATCCATTCCACTGCAACTTAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
* * * * *
61302800 TCTTCAATCCATCCCACTACAACTTAGGGGTACAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
61302846 TCTTCAATCCAT
1 TCTTCAATCCAT
61302858 TGATCTGGGT
Statistics
Matches: 175, Mismatches: 17, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
45 3 0.02
46 170 0.97
47 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTCAAGGGTATAGGATTTGTATCA
Found at i:61302858 original size:92 final size:92
Alignment explanation
Indices: 61302615--61302858 Score: 321
Period size: 92 Copynumber: 2.7 Consensus size: 92
61302605 AATTTATGGT
* * * * * *
61302615 TTCTTCCATCCACCCCGCTACAACTCAA-GGGTATAGGATTTGTATCATCTTCCATCCATCCCAC
1 TTCTTCAATCCATCCCACTACAACT-AAGGGGTACAGGATTTGTATCATCTTCAATCCATTCCAC
61302679 TGCAACTCAAGGGTATGAGATTTGTATC
65 TGCAACTCAAGGGTATGAGATTTGTATC
* * * * *
61302707 ATCTTCACTCCATCCCACTGCAACTAAGGGGTACGGGATTTTTATCATCTTCAATCCATTCCACT
1 TTCTTCAATCCATCCCACTACAACTAAGGGGTACAGGATTTGTATCATCTTCAATCCATTCCACT
* *
61302772 GCAACTTAGGGGTAT-AGGATTTGTATC
66 GCAACTCAAGGGTATGA-GATTTGTATC
* *
61302799 TTCTTCAATCCATCCCACTACAACTTAGGGGTACAGGATTTGTATCTTCTTCAATCCATT
1 TTCTTCAATCCATCCCACTACAACTAAGGGGTACAGGATTTGTATCATCTTCAATCCATT
61302859 GATCTGGGTA
Statistics
Matches: 130, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
91 3 0.02
92 127 0.98
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (92 bp):
TTCTTCAATCCATCCCACTACAACTAAGGGGTACAGGATTTGTATCATCTTCAATCCATTCCACT
GCAACTCAAGGGTATGAGATTTGTATC
Found at i:61303404 original size:3 final size:3
Alignment explanation
Indices: 61303396--61303433 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
61303386 CCTCTCCATT
*
61303396 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
61303434 TAGGAGGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:61308250 original size:19 final size:19
Alignment explanation
Indices: 61308228--61308264 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61308218 TAATCAAAGA
*
61308228 AAAATGAAATAAATAATAT
1 AAAATAAAATAAATAATAT
61308247 AAAATAAAATAAATAATA
1 AAAATAAAATAAATAATA
61308265 GGACAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAAATAATAT
Found at i:61308303 original size:25 final size:25
Alignment explanation
Indices: 61308269--61308636 Score: 151
Period size: 26 Copynumber: 14.2 Consensus size: 25
61308259 ATAATAGGAC
* *
61308269 AATTTTAAATAAATGATATAAAAAA
1 AATTTAAAATAAATAATATAAAAAA
* *
61308294 AATTTAAAATAGATACTATAAAAAA
1 AATTTAAAATAAATAATATAAAAAA
* * * * * * *
61308319 CAATTTGAAGTGAATAATGT-GAGAC
1 -AATTTAAAATAAATAATATAAAAAA
** *
61308344 AATTTAAAACGATTAATATACAAAAA
1 AATTTAAAATAAATAATATA-AAAAA
* *
61308370 AATCTAAAATAAAATAATATATAAAAC
1 AATTTAAAAT-AAATAATATA-AAAAA
*
61308397 AACTTAAAATAAATAATA-AGAAAAA
1 AATTTAAAATAAATAATATA-AAAAA
* * *
61308422 CAGTTTAAGATGACAT-ATATAAAAAA
1 -AATTTAAAAT-AAATAATATAAAAAA
* *
61308448 AA-TTAGAATAAATAATATGTAAAAA
1 AATTTAAAATAAATAATAT-AAAAAA
*
61308473 AA-TTAAAATAAATAATATATATAAA
1 AATTTAAAATAAATAATATA-AAAAA
* * * *
61308498 AGTATAAAACAATTTAATATAAATAATATATGA
1 AATTTAAAATAA-ATAATAT--A-AA-A-A--A
*
61308531 AATCTTAAAATAAATAATA-ATAAAAC
1 AAT-TTAAAATAAATAATATA-AAAAA
* * * *
61308557 AGTATATACTAAATACATAT---AAA
1 AATTTAAAATAAATA-ATATAAAAAA
* *
61308580 ACTTTAAAATAAATAGTATATAAAAA
1 AATTTAAAATAAATAATATA-AAAAA
* *
61308606 AATTTAAAATAAATAATGTATAAAAT
1 AATTTAAAATAAATAATATA-AAAAA
61308632 AATTT
1 AATTT
61308637 GAAGCTAAAA
Statistics
Matches: 251, Mismatches: 67, Indels: 49
0.68 0.18 0.13
Matches are distributed among these distances:
22 3 0.01
23 16 0.06
24 23 0.09
25 65 0.26
26 88 0.35
27 30 0.12
28 1 0.00
29 4 0.02
30 5 0.02
31 1 0.00
33 8 0.03
34 7 0.03
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.29
Consensus pattern (25 bp):
AATTTAAAATAAATAATATAAAAAA
Found at i:61308395 original size:26 final size:24
Alignment explanation
Indices: 61308357--61308498 Score: 108
Period size: 25 Copynumber: 5.6 Consensus size: 24
61308347 TTAAAACGAT
*
61308357 TAATATACAAAAAAATCTAAAATAAAA
1 TAATATA-TAAAAAAT-TAAAAT-AAA
61308384 TAATATATAAAACAACTTAAAATAAA
1 TAATATATAAAA-AA-TTAAAATAAA
* * *
61308410 TAATA-AGAAAAACAGTTTAAGATGACA
1 TAATATATAAAAA-A--TTAAAAT-AAA
* *
61308437 T-ATATAAAAAAAATTAGAATAAA
1 TAATATATAAAAAATTAAAATAAA
*
61308460 TAATATGTAAAAAAATTAAAATAAA
1 TAATATAT-AAAAAATTAAAATAAA
*
61308485 TAATATATATAAAA
1 TAATATATAAAAAA
61308499 GTATAAAACA
Statistics
Matches: 93, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
23 3 0.03
24 15 0.16
25 28 0.30
26 22 0.24
27 24 0.26
28 1 0.01
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (24 bp):
TAATATATAAAAAATTAAAATAAA
Found at i:61308540 original size:34 final size:35
Alignment explanation
Indices: 61308467--61308606 Score: 83
Period size: 36 Copynumber: 3.9 Consensus size: 35
61308457 AAATAATATG
* *
61308467 TAAAAAAATTAAAATAAATAATATATATAAAAGTA
1 TAAAAAAATTAAAATAAATAATATATAGAAAACTA
* * *
61308502 TAAAACAATTTAATATAAATAATATAT-GAAATCT-
1 TAAAA-AAATTAAAATAAATAATATATAGAAAACTA
*
61308536 TAAAATAAA-TAATAATAAA-ACAGTATATACTAAATAC-A
1 TAAAA-AAATTAA-AATAAATA-A-TATATA-GAAA-ACTA
** * *
61308574 TATAAAACTTTAAAATAAATAGTATATAAAAAA
1 TA-AAAAAATTAAAATAAATAATATATAGAAAA
61308607 ATTTAAAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
33 4 0.05
34 13 0.16
35 15 0.19
36 22 0.28
37 9 0.11
38 10 0.12
39 7 0.09
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (35 bp):
TAAAAAAATTAAAATAAATAATATATAGAAAACTA
Found at i:61310002 original size:14 final size:14
Alignment explanation
Indices: 61309983--61310013 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61309973 CTTAATCCTA
*
61309983 TTTATTATTTTTGG
1 TTTATTATTATTGG
61309997 TTTATTATTATTGG
1 TTTATTATTATTGG
61310011 TTT
1 TTT
61310014 TGGTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (14 bp):
TTTATTATTATTGG
Found at i:61310980 original size:41 final size:41
Alignment explanation
Indices: 61310934--61311016 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
61310924 CAAGGACCCC
61310934 AATCAATCCCACACGCTTAGGCGTTGATAGTCACAAAACTA
1 AATCAATCCCACACGCTTAGGCGTTGATAGTCACAAAACTA
61310975 AATCAATCCCACACGCTTAGGCGTTGATAGTCACAAAACTA
1 AATCAATCCCACACGCTTAGGCGTTGATAGTCACAAAACTA
61311016 A
1 A
61311017 CTATAAATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (41 bp):
AATCAATCCCACACGCTTAGGCGTTGATAGTCACAAAACTA
Found at i:61312947 original size:27 final size:26
Alignment explanation
Indices: 61312891--61312958 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
61312881 AGAATCAGCC
* * *
61312891 ATAAAAATAAAAATATAGTTTAAAAG
1 ATAAAAAAAAAAATATAGTCTAAAAA
61312917 ATAAAAAAACAAAATA-AGTCTAAGAAA
1 ATAAAAAAA-AAAATATAGTCTAA-AAA
61312944 ATAACAATAAAAAAA
1 ATAA-AA-AAAAAAA
61312959 CTAAAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 14 0.40
27 12 0.34
28 6 0.17
29 3 0.09
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (26 bp):
ATAAAAAAAAAAATATAGTCTAAAAA
Found at i:61315277 original size:92 final size:92
Alignment explanation
Indices: 61315118--61315509 Score: 486
Period size: 92 Copynumber: 4.3 Consensus size: 92
61315108 ACATGTTAGA
* * * *
61315118 TTGCTTATAAGTGCTATTCCAACCGATAACACGCCAGATGCACATAGTGAAAAGCCTATAGGTTA
1 TTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGCAAAGCCTATAGGCTA
61315183 AATATTC-CCCACCAATAACACACCAGT
66 AATATTCTCCC-CCAATAACACACCAGT
* * *
61315210 TTGCTCATAAGAGCTATTCCAACCGATATCACGCCAGATGCACATAGTGCAGAG-CTCGTAGGCT
1 TTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGCAAAGCCT-ATAGGCT
** *
61315274 AAATATTCTCCCCCAATAACATGCCAGA
65 AAATATTCTCCCCCAATAACACACCAGT
* *
61315302 TTGCTCATAAGAGCTATTCCAACTC-ATAACTCGCCAGATGCACATAGTGCAAAGCCTATAGACT
1 TTGCTCATAAGAGCTATTCCAAC-CGATAACACGCCAGATGCACATAGTGCAAAGCCTATAGGCT
*
61315366 AAATATTCTCCCTCAATAACACACCAGT
65 AAATATTCTCCCCCAATAACACACCAGT
* * * * *
61315394 TTGCTCGTAAGAGCTATTCCAATCGATAACACGCCAAATGCACATAGTACAAAG-CTCGTAGGCT
1 TTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGCAAAGCCT-ATAGGCT
* * *** *
61315458 AAATATTTTCCCTCAATAACATGTCAAT
65 AAATATTCTCCCCCAATAACACACCAGT
* *
61315486 TTTCTCATAAGAGCTATTTCAACC
1 TTGCTCATAAGAGCTATTCCAACC
61315510 AATGTGACGC
Statistics
Matches: 259, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
91 5 0.02
92 248 0.96
93 6 0.02
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (92 bp):
TTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGCAAAGCCTATAGGCTA
AATATTCTCCCCCAATAACACACCAGT
Found at i:61315414 original size:184 final size:184
Alignment explanation
Indices: 61315105--61315509 Score: 591
Period size: 184 Copynumber: 2.2 Consensus size: 184
61315095 TAATCATCTG
* * *
61315105 ATAACATGTTAGATTGCTTATAAGTGCTATTCCAACCGATAACACGCCAGATGCACATAGTGAAA
1 ATAACATGTCAGATTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGAAA
**
61315170 AGCCTATAGGTTAAATATTCCCCACCAATAACACACCAGTTTGCTCATAAGAGCTATTCCAACCG
66 AGCCTATAGACTAAATATTCCCCACCAATAACACACCAGTTTGCTCATAAGAGCTATTCCAACCG
* * * *
61315235 ATATCACGCCAGATGCACATAGTGCAGAGCTCGTAGGCTAAATATTCTCCCCCA
131 ATAACACGCCAAATGCACATAGTACAAAGCTCGTAGGCTAAATATTCTCCCCCA
* * *
61315289 ATAACATGCCAGATTGCTCATAAGAGCTATTCCAACTC-ATAACTCGCCAGATGCACATAGTGCA
1 ATAACATGTCAGATTGCTCATAAGAGCTATTCCAAC-CGATAACACGCCAGATGCACATAGTGAA
* * *
61315353 AAGCCTATAGACTAAATATTCTCCC-TCAATAACACACCAGTTTGCTCGTAAGAGCTATTCCAAT
65 AAGCCTATAGACTAAATATTC-CCCACCAATAACACACCAGTTTGCTCATAAGAGCTATTCCAAC
* *
61315417 CGATAACACGCCAAATGCACATAGTACAAAGCTCGTAGGCTAAATATTTTCCCTCA
129 CGATAACACGCCAAATGCACATAGTACAAAGCTCGTAGGCTAAATATTCTCCCCCA
* *
61315473 ATAACATGTCA-ATTTTCTCATAAGAGCTATTTCAACC
1 ATAACATGTCAGA-TTGCTCATAAGAGCTATTCCAACC
61315510 AATGTGACGC
Statistics
Matches: 198, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
183 2 0.01
184 192 0.97
185 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (184 bp):
ATAACATGTCAGATTGCTCATAAGAGCTATTCCAACCGATAACACGCCAGATGCACATAGTGAAA
AGCCTATAGACTAAATATTCCCCACCAATAACACACCAGTTTGCTCATAAGAGCTATTCCAACCG
ATAACACGCCAAATGCACATAGTACAAAGCTCGTAGGCTAAATATTCTCCCCCA
Found at i:61317699 original size:24 final size:23
Alignment explanation
Indices: 61317671--61317723 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
61317661 TACTAATATA
*
61317671 TCAGCTCATAAGAGATTATTGTT
1 TCAGCTCATAAGAGATTACTGTT
* * *
61317694 CTCAGCTCGTATGAGCTTACTGTT
1 -TCAGCTCATAAGAGATTACTGTT
61317718 TCAGCT
1 TCAGCT
61317724 TAATTGAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (23 bp):
TCAGCTCATAAGAGATTACTGTT
Found at i:61326476 original size:22 final size:22
Alignment explanation
Indices: 61326450--61326493 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
61326440 GAAAATAATC
*
61326450 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
61326472 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
61326494 GCTAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:61342458 original size:27 final size:27
Alignment explanation
Indices: 61342428--61342606 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
61342418 ATATTGAGCC
* * *
61342428 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
61342455 CGCACACTTAGTGCTACGTAATCATA-T
1 CGCACACTTAGTGCTACATAGTCA-ACT
61342482 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
61342510 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
61342537 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
61342564 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
61342591 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
61342607 TACAATTTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61342567 original size:82 final size:81
Alignment explanation
Indices: 61342449--61342604 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
61342439 TGCTATATAA
* *
61342449 TCAACTCGCACACTTAGTGCTACGTAATCATATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCATATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61342514 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * *
61342531 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCA
61342595 CACTTAGTGC
65 CACTTAGTGC
61342605 TATACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCATATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61350567 original size:27 final size:27
Alignment explanation
Indices: 61350537--61350714 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61350527 ATATTGAGTC
* * * *
61350537 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61350564 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61350591 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
61350619 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61350646 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61350673 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61350700 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61350715 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61350676 original size:82 final size:81
Alignment explanation
Indices: 61350558--61350713 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61350548 TGCTATATAA
* *
61350558 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61350623 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61350640 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61350704 CACTTAGTGC
65 CACTTAGTGC
61350714 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61358689 original size:27 final size:27
Alignment explanation
Indices: 61358659--61358836 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61358649 ATATTGAGTC
* * * *
61358659 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
61358686 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61358713 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
61358741 CGTACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
61358768 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
61358795 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
61358822 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61358837 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:61358799 original size:82 final size:81
Alignment explanation
Indices: 61358680--61358835 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61358670 TGCTATATAA
* * *
61358680 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGTA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61358745 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
61358762 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61358826 CACTTAGTGC
65 CACTTAGTGC
61358836 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61364086 original size:40 final size:40
Alignment explanation
Indices: 61363934--61364079 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
61363924 TTGAATGATG
* * * *
61363934 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
61363974 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61364014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61364055 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61364080 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61364086 original size:80 final size:80
Alignment explanation
Indices: 61363934--61364112 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
61363924 TTGAATGATG
* * * *
61363934 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATTCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
61363999 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
61364014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
61364077 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
61364094 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
61364113 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 58 0.70
81 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:61378421 original size:92 final size:90
Alignment explanation
Indices: 61378257--61378526 Score: 290
Period size: 92 Copynumber: 2.9 Consensus size: 90
61378247 AACACGTTAG
* * * *
61378257 ATGCACATAGTGCAAAGCCCGTAGGCTAAATATTCTCCCTAATAACACGCCAATTTTCCCATAAG
1 ATGCACATAATGCAAAGCCCGTAGGCTAAATATTCTCCCTAGTAACACG-CAATTTGCTCATAAG
* *
61378322 AGCTATTCCAGCCGATATCACACCAA
65 AGCTATTCCAACCAATATCACACCAA
* * * * * *
61378348 ATGCACATAATACAAATCCCATAGGATAAATATTCTCCTCTTGTAACACGTCAGTTTGCTCATAA
1 ATGCACATAATGCAAAGCCCGTAGGCTAAATATTCTCC-CTAGTAACACG-CAATTTGCTCATAA
* *** *
61378413 GAGCTATTCCAACCAATAACACGTTAG
64 GAGCTATTCCAACCAATATCACACCAA
* * * *
61378440 ATGCACATAATGCAAAGCCCGTAGGCTAAATATTCTTCCC-CGATAACAAGCTATTTTGTTCATA
1 ATGCACATAATGCAAAGCCCGTAGGCTAAATATTC-TCCCTAG-TAACACGC-AATTTGCTCATA
61378504 AGAGCTATTCCAACCAATATCAC
63 AGAGCTATTCCAACCAATATCAC
61378527 GCCAGAACCT
Statistics
Matches: 148, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
91 35 0.24
92 110 0.74
93 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (90 bp):
ATGCACATAATGCAAAGCCCGTAGGCTAAATATTCTCCCTAGTAACACGCAATTTGCTCATAAGA
GCTATTCCAACCAATATCACACCAA
Found at i:61379826 original size:18 final size:18
Alignment explanation
Indices: 61379792--61379825 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61379782 ACCAGTTTAT
61379792 TCTTCTCTTTTTCTTTTC
1 TCTTCTCTTTTTCTTTTC
61379810 TCTTCTCTTTTT-TTTT
1 TCTTCTCTTTTTCTTTT
61379826 TTGGTGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTCTCTTTTTCTTTTC
Found at i:61389269 original size:17 final size:18
Alignment explanation
Indices: 61389249--61389282 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61389239 AATTATGCAA
*
61389249 AAATTTTAAAA-TTTTAT
1 AAATTCTAAAAGTTTTAT
61389266 AAATTCTAAAAGTTTTA
1 AAATTCTAAAAGTTTTA
61389283 ATCAAACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATTCTAAAAGTTTTAT
Found at i:61392273 original size:12 final size:12
Alignment explanation
Indices: 61392256--61392280 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61392246 TTTAGTTGAA
61392256 TCAAATTCATTT
1 TCAAATTCATTT
61392268 TCAAATTCATTT
1 TCAAATTCATTT
61392280 T
1 T
61392281 TAAAAAATAT
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCAAATTCATTT
Found at i:61396803 original size:26 final size:26
Alignment explanation
Indices: 61396767--61396834 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
61396757 TTACATCATT
*
61396767 GCTCACACGAGCTGTGAAATGGGCCA
1 GCTCACACGAGCTGCGAAATGGGCCA
61396793 GCTCACACGAGCTGCGAAATGGGCCA
1 GCTCACACGAGCTGCGAAATGGGCCA
*
61396819 GCTTACACGAGCTGCG
1 GCTCACACGAGCTGCG
61396835 GGTCGAAACG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.31, T:0.15
Consensus pattern (26 bp):
GCTCACACGAGCTGCGAAATGGGCCA
Found at i:61397435 original size:13 final size:13
Alignment explanation
Indices: 61397417--61397441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61397407 ATCATTTGAT
61397417 AAATTTTACTATG
1 AAATTTTACTATG
61397430 AAATTTTACTAT
1 AAATTTTACTAT
61397442 TTTACAAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
AAATTTTACTATG
Found at i:61398352 original size:7 final size:7
Alignment explanation
Indices: 61398340--61398375 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
61398330 AAATTTAACT
61398340 AAAATAA
1 AAAATAA
61398347 AAAATAA
1 AAAATAA
61398354 AAAATAA
1 AAAATAA
61398361 AAAATAA
1 AAAATAA
*
61398368 AAACTAA
1 AAAATAA
61398375 A
1 A
61398376 TTAATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:61405242 original size:121 final size:119
Alignment explanation
Indices: 61405103--61405337 Score: 398
Period size: 121 Copynumber: 2.0 Consensus size: 119
61405093 ACCAAAATTT
* * *
61405103 TTTACTTATTATCATTTTAAAGTAATAATAAAAATATTCATATTTTTTAAGTATCGTTTATGTTA
1 TTTACATATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTAAGTATCGTTTATGTTA
*
61405168 TATTTTTATTATATTTTTGTTATTGGCATGTTATTTTTAGTATTTTAATATAAAAA
66 TATTTTT-TTATATTTTT-TTATTGGCATATTATTTTTAGTATTTTAATATAAAAA
* *
61405224 TTTACATATTATCATTTTAAAATAATAATAAAAATATTCGTATTTATTATGTATCGTTTATGTTA
1 TTTACATATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTAAGTATCGTTTATGTTA
61405289 TATTTTTTTATATTTTTTTATTGGCATATTATTTTTAGTATTTTAATAT
66 TATTTTTTTATATTTTTTTATTGGCATATTATTTTTAGTATTTTAATAT
61405338 TTTGATGTGG
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
119 31 0.29
120 10 0.09
121 67 0.62
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (119 bp):
TTTACATATTATCATTTTAAAATAATAATAAAAATATTCATATTTATTAAGTATCGTTTATGTTA
TATTTTTTTATATTTTTTTATTGGCATATTATTTTTAGTATTTTAATATAAAAA
Found at i:61407847 original size:64 final size:64
Alignment explanation
Indices: 61407779--61407943 Score: 258
Period size: 64 Copynumber: 2.6 Consensus size: 64
61407769 TAAAACTTGT
*
61407779 AACAATCTTTGTAATATAAATTATGTTATATAAATTAAATACAGTACAACCATAATCTAATTGG
1 AACAAACTTTGTAATATAAATTATGTTATATAAATTAAATACAGTACAACCATAATCTAATTGG
* * * * *
61407843 AACAAACTTTGTAATAGAAATTACGCTATATAAATTAAATACATTACCACCATAATCTAATTGG
1 AACAAACTTTGTAATATAAATTATGTTATATAAATTAAATACAGTACAACCATAATCTAATTGG
* *
61407907 AACAAACTTTGTAATATAAATTTTTTTATATAAATTA
1 AACAAACTTTGTAATATAAATTATGTTATATAAATTA
61407944 TATAAGCTCA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 90 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (64 bp):
AACAAACTTTGTAATATAAATTATGTTATATAAATTAAATACAGTACAACCATAATCTAATTGG
Found at i:61411170 original size:47 final size:47
Alignment explanation
Indices: 61411089--61411205 Score: 114
Period size: 47 Copynumber: 2.5 Consensus size: 47
61411079 GCCAATACTG
* *** *
61411089 TGTCCCAGACACGGTCTTACACTGGTTAATATCTC-AAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTAACTAATATCTCGAAGCCGAAG-CA
* *
61411136 TGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCCGACGCA
1 TGTCCCAGACATGGTCTTACACTAACTAAT-ATCTCGAAGCCGAAGCA
**
61411183 TGTCCTGGACAT-GTCTTACACTA
1 TGTCCCAGACATGGTCTTACACTA
61411206 GCCCTCATCT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 13 0.22
47 40 0.68
48 6 0.10
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTAACTAATATCTCGAAGCCGAAGCA
Found at i:61431501 original size:24 final size:24
Alignment explanation
Indices: 61431469--61431516 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61431459 CTTCTCATAC
61431469 CACTATTAGAATGAATTTTGATTA
1 CACTATTAGAATGAATTTTGATTA
*
61431493 CACTATTAGAATTAATTTTGATTA
1 CACTATTAGAATGAATTTTGATTA
61431517 AGTTATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
CACTATTAGAATGAATTTTGATTA
Found at i:61440016 original size:21 final size:20
Alignment explanation
Indices: 61439977--61440031 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
61439967 AAATTTAATC
*
61439977 AAATTTTATATATTGTTTTA
1 AAATTTTATATATTCTTTTA
*
61439997 AAATTTTATTTTATTCTTTTTA
1 AAATTTTA-TATATTC-TTTTA
*
61440019 GAA-TTTATATATT
1 AAATTTTATATATT
61440032 TTTACAATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.45
21 9 0.31
22 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
AAATTTTATATATTCTTTTA
Found at i:61440033 original size:17 final size:18
Alignment explanation
Indices: 61440013--61440046 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61440003 TATTTTATTC
*
61440013 TTTTTAGAATT-TATATA
1 TTTTTACAATTCTATATA
61440030 TTTTTACAATTCTATAT
1 TTTTTACAATTCTATAT
61440047 TTTAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTTACAATTCTATATA
Found at i:61443571 original size:22 final size:21
Alignment explanation
Indices: 61443535--61443578 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
61443525 GGAATAAAAG
*
61443535 TAAATAACAAAAATAAATAAA
1 TAAATAACAAAAATAAACAAA
*
61443556 TAAATAAAGAAAAATAAACAAA
1 TAAAT-AACAAAAATAAACAAA
61443578 T
1 T
61443579 GAATTCAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (21 bp):
TAAATAACAAAAATAAACAAA
Found at i:61450617 original size:27 final size:27
Alignment explanation
Indices: 61450586--61450650 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
61450576 AATATACGAG
* *
61450586 AGGAATGCCTTCATGACAAATTCTGAA
1 AGGAATGCCTTCATGAAAAACTCTGAA
* *
61450613 GGGAATACCTTCATGAAAAACTCTGAA
1 AGGAATGCCTTCATGAAAAACTCTGAA
61450640 AGGAATGCCTT
1 AGGAATGCCTT
61450651 GATAGCATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AGGAATGCCTTCATGAAAAACTCTGAA
Found at i:61462408 original size:42 final size:42
Alignment explanation
Indices: 61462299--61462418 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
61462289 CACATCGATG
* * * * ** *
61462299 CCATATCCCAGATATGGTCTTATA-CAAATTATCATTTTGACG
1 CCATATCCCAGATATGGTCTTACATGAAA-TCTCATATCAACA
* * *
61462341 CCATGTCCCAGATGTGGTATTACATGAAATCTCATATCAACA
1 CCATATCCCAGATATGGTCTTACATGAAATCTCATATCAACA
61462383 CCATATCCCAGATATGGTCTTACATGATAA-CTCATA
1 CCATATCCCAGATATGGTCTTACATGA-AATCTCATA
61462419 CTGATGCTGA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 58 0.92
43 5 0.08
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACATGAAATCTCATATCAACA
Found at i:61466312 original size:31 final size:31
Alignment explanation
Indices: 61466268--61466351 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
61466258 TTAGTCTTGA
* *
61466268 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
61466298 CATATCACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
61466329 CTTATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61466352 ACTGTAAATG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:61466425 original size:42 final size:42
Alignment explanation
Indices: 61466373--61466550 Score: 293
Period size: 42 Copynumber: 4.2 Consensus size: 42
61466363 TATGGCCCTT
* * *
61466373 AAGCCTATTTCAATATCACATGTAATGTCAACGGATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
* *
61466415 AAGCCCATTTCAATATCACATCTAATGTCAATGAATGTATCC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
61466457 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
*
61466499 AAGCCCATTTCAATATTACATGTAATGTCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
*
61466541 AAGTCCATTT
1 AAGCCCATTT
61466551 GGGGAGACTA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
Found at i:61468306 original size:29 final size:28
Alignment explanation
Indices: 61468270--61468347 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61468260 TCATGAGATT
61468270 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61468300 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61468327 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
61468348 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61468614 original size:173 final size:174
Alignment explanation
Indices: 61468300--61468626 Score: 575
Period size: 173 Copynumber: 1.9 Consensus size: 174
61468290 AAATTGTACA
* *
61468300 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
61468365 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
61468430 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
61468474 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
61468539 TGTGC-AACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
61468603 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
61468627 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
173 81 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:61471974 original size:27 final size:27
Alignment explanation
Indices: 61471943--61472120 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
61471933 TAAATTGTAC
*
61471943 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61471970 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
61471996 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
61472024 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
61472052 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61472079 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
61472106 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61472121 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:61472059 original size:82 final size:81
Alignment explanation
Indices: 61471944--61472099 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61471934 AAATTGTACA
* * * *
61471944 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61472008 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61472025 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61472090 TGCGAGTTGA
65 TGCGAATTGA
61472100 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61472111 original size:82 final size:81
Alignment explanation
Indices: 61471940--61472120 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
61471930 GATTAAATTG
* * * *
61471940 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61472005 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61472021 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61472085 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61472103 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61472121 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61490632 original size:27 final size:27
Alignment explanation
Indices: 61490601--61490778 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
61490591 TAAATTGTAC
*
61490601 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61490628 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
61490654 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
61490682 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
61490710 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61490737 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
61490764 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61490779 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:61490717 original size:82 final size:81
Alignment explanation
Indices: 61490602--61490757 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61490592 AAATTGTACA
* * * *
61490602 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61490666 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61490683 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61490748 TGCGAGTTGA
65 TGCGAATTGA
61490758 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61490769 original size:82 final size:81
Alignment explanation
Indices: 61490598--61490778 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
61490588 GATTAAATTG
* * * *
61490598 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61490663 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61490679 TGCGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61490743 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61490761 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61490779 GGCTCAATAA
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATGGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61493034 original size:27 final size:27
Alignment explanation
Indices: 61493004--61493068 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
61492994 GGGCATATTC
61493004 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
61493031 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
61493058 GTCTTTTTACC
1 GTCATTTTACC
61493069 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:61493070 original size:26 final size:28
Alignment explanation
Indices: 61493026--61493077 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
61493016 TACAAGGGTA
61493026 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
61493053 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
61493078 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:61493152 original size:27 final size:28
Alignment explanation
Indices: 61493122--61493228 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 28
61493112 GTAAATCTAC
61493122 AAACCAAGGGTATTT-TAGTAATTTTGT
1 AAACCAAGGGTATTTCTAGTAATTTTGT
**
61493149 AAACCAATAGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTCTAGTAATTTTGT
* *
61493175 GAAAGTCGAGGGTATTTCT-GTAATTTTGT
1 -AAA-CCAAGGGTATTTCTAGTAATTTTGT
* *
61493204 AAA-AAAGGGGTATTT-TGGTAATTTT
1 AAACCAA-GGGTATTTCTAGTAATTTT
61493229 ACAAATTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.05
27 39 0.60
28 22 0.34
29 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (28 bp):
AAACCAAGGGTATTTCTAGTAATTTTGT
Found at i:61493217 original size:55 final size:54
Alignment explanation
Indices: 61493119--61493254 Score: 125
Period size: 55 Copynumber: 2.5 Consensus size: 54
61493109 TTGGTAAATC
* * * *
61493119 TACAAACCAAGGGTATTT-TAGTAATTTTGTAAACCAATAGTATTTCT-ATAATTT
1 TACAAATCGAGGGTATTTCT-GTAATTTTGTAAACAAAGAGTATTT-TGATAATTT
** * *
61493173 TTGAAAGTCGAGGGTATTTCTGTAATTTTGTAAA-AAAGGGGTATTTTGGTAATTT
1 TACAAA-TCGAGGGTATTTCTGTAATTTTGTAAACAAA-GAGTATTTTGATAATTT
* *
61493228 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCGAGGGTATTTCTGTAATTT
61493255 CACAAACCAG
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
54 26 0.39
55 39 0.59
56 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.41
Consensus pattern (54 bp):
TACAAATCGAGGGTATTTCTGTAATTTTGTAAACAAAGAGTATTTTGATAATTT
Found at i:61493241 original size:27 final size:25
Alignment explanation
Indices: 61493183--61493340 Score: 102
Period size: 27 Copynumber: 5.9 Consensus size: 25
61493173 TTGAAAGTCG
* *
61493183 AGGGTATTTCTGTAATTTTGTA-AAAA
1 AGGGTATTTCGGTAA-TTT-TACAAAT
*
61493209 AGGGGTATTTTGGTAATTTTACAAATT
1 A-GGGTATTTCGGTAATTTTACAAA-T
* *
61493236 GAGGGTATTTCGGTAATTTCACAAACC
1 -AGGGTATTTCGGTAATTTTACAAA-T
*
61493263 AGTGGTATTTCGGTAATTTTATAAACT
1 AG-GGTATTTCGGTAATTTTACAAA-T
* * **
61493290 AGGGGTATTTTGGTAATTCTATCCTAT
1 A-GGGTATTTCGGTAATTTTA-CAAAT
* *
61493317 AGGGGTATTTCAGTAATTTCACAA
1 A-GGGTATTTCGGTAATTTTACAA
61493341 TCGAGGGTAA
Statistics
Matches: 104, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
25 2 0.02
26 10 0.10
27 89 0.86
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (25 bp):
AGGGTATTTCGGTAATTTTACAAAT
Found at i:61493301 original size:81 final size:81
Alignment explanation
Indices: 61493185--61493340 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
61493175 GAAAGTCGAG
* * * * *
61493185 GGTATTTCTGTAATTTTGTAAAAAAGGGGTATTTTGGTAATTTTA-CAAATTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTATAAAAAAGGGGTATTTTGGTAATTCTATCAAATAG-GGGTATTTCAG
61493249 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
** **
61493266 GGTATTTCGGTAATTTTATAAACTAGGGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCAGT
1 GGTATTTCGGTAATTTTATAAAAAAGGGGTATTTTGGTAATTCTATCAAATAGGGGTATTTCAGT
61493331 AATTTCACAA
66 AATTTCACAA
61493341 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 61 0.94
82 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTATAAAAAAGGGGTATTTTGGTAATTCTATCAAATAGGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:61493373 original size:27 final size:27
Alignment explanation
Indices: 61493339--61493484 Score: 168
Period size: 27 Copynumber: 5.4 Consensus size: 27
61493329 GTAATTTCAC
* * *
61493339 AATCGAGGGTAAAATAATAATTTTGTA
1 AATCGAGGGTAAAATGATAATTCTATA
* *
61493366 AA-CTGAGGGTAAGATGGTAATTCTATA
1 AATC-GAGGGTAAAATGATAATTCTATA
* *
61493393 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATGATAATTCTATA
* *
61493420 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGATAATTCTATA
* **
61493447 AATCGAGGGTAAAATGGTAATTCTGCA
1 AATCGAGGGTAAAATGATAATTCTATA
61493474 AATCGAGGGTA
1 AATCGAGGGTA
61493485 TTTCAGTAAT
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 99 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGATAATTCTATA
Found at i:61493414 original size:54 final size:54
Alignment explanation
Indices: 61493339--61493483 Score: 186
Period size: 54 Copynumber: 2.7 Consensus size: 54
61493329 GTAATTTCAC
** * * *
61493339 AATCGAGGGTAAAATAATAATTTTGTAAA-CTGAGGGT-AAGATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATAAATC-GAGGGTGAA-ACGATAATTCTATA
61493393 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTGAAACGATAATTCTATA
* **
61493447 AATCGAGGGTAAAATGGTAATTCTGCAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGT
61493484 ATTTCAGTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
54 78 0.96
55 3 0.04
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTGAAACGATAATTCTATA
Found at i:61493494 original size:81 final size:80
Alignment explanation
Indices: 61493319--61493496 Score: 198
Period size: 81 Copynumber: 2.2 Consensus size: 80
61493309 TATCCTATAG
* * * * *
61493319 GGGTATTTCAGTAATTTCACAATCGAGGGTAAAATAATAATTTTGTAAACTGAGGGTAAGATGGT
1 GGGTATTTCAGTAATTTCAAAATCGAGGGTAAAACAATAATTCTATAAACTGAGGGTAAAATGGT
*
61493384 AATTCTATAAATCGA
66 AATTCTACAAATCGA
** * * * *
61493399 GGGTAAAAT-GGTAATTTTATAAATCGAGGGTGAAACGATAATTCTATAAA-TCGAGGGTAAAAT
1 GGGT-ATTTCAGTAATTTCA-AAATCGAGGGTAAAACAATAATTCTATAAACT-GAGGGTAAAAT
*
61493462 GGTAATTCTGCAAATCGA
63 GGTAATTCTACAAATCGA
61493480 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
61493497 GGTAAATTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
80 15 0.19
81 63 0.81
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTCAAAATCGAGGGTAAAACAATAATTCTATAAACTGAGGGTAAAATGGT
AATTCTACAAATCGA
Found at i:61495777 original size:31 final size:31
Alignment explanation
Indices: 61495734--61495817 Score: 161
Period size: 31 Copynumber: 2.7 Consensus size: 31
61495724 TTAGTCTTGA
61495734 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
61495764 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
61495795 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
61495818 ACTGTAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:61495892 original size:42 final size:42
Alignment explanation
Indices: 61495841--61496016 Score: 316
Period size: 42 Copynumber: 4.2 Consensus size: 42
61495831 TGGCCCTTAG
*
61495841 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
** *
61495883 GCATATTTCAATATCAAATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
61495925 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
61495967 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
61496009 GCCCATTT
1 GCCCATTT
61496017 GGGGAGACTA
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 127 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:61496789 original size:27 final size:26
Alignment explanation
Indices: 61496759--61496836 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
61496749 GGGCATATTC
*
61496759 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* *
61496786 GTCACTTTACCGTACAGGGGCT-TTACG
1 GTCATTTTACC-TATAGGGG-TATTACG
*
61496813 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
61496837 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:61496897 original size:27 final size:27
Alignment explanation
Indices: 61496867--61496919 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
61496857 GGGTGTTTTG
61496867 GTAAATATACAAACCAAGGGTATTTCA
1 GTAAATATACAAACCAAGGGTATTTCA
* ** *
61496894 GTAAATTTGTAAACCAATGGTATTTC
1 GTAAATATACAAACCAAGGGTATTTC
61496920 TATAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (27 bp):
GTAAATATACAAACCAAGGGTATTTCA
Found at i:61497001 original size:27 final size:26
Alignment explanation
Indices: 61496939--61497088 Score: 151
Period size: 27 Copynumber: 5.7 Consensus size: 26
61496929 TAGAAAGTCG
* **
61496939 AGGGTATTTT-ATAATTTTGTAAATC
1 AGGGTATTTTGGTAATTTTACAAATC
*
61496964 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAA-TC
* *
61496991 AGGGTATTTTGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAATC
* *
61497017 AGTGGTATTTCGGTAATTTTACAAACTA
1 AG-GGTATTTTGGTAATTTTACAAA-TC
* *
61497045 AGGGTATTTTGGCAATTTTATAAA-C
1 AGGGTATTTTGGTAATTTTACAAATC
61497070 TAGGGGTATTTTGGTAATT
1 -A-GGGTATTTTGGTAATT
61497089 CTATCCTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
25 10 0.10
26 13 0.13
27 78 0.76
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAATC
Found at i:61497024 original size:54 final size:54
Alignment explanation
Indices: 61496965--61497088 Score: 176
Period size: 54 Copynumber: 2.3 Consensus size: 54
61496955 TTGTAAATCA
* * *
61496965 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGCAATTTCACAAACCAG
* * * * *
61497019 TGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGCAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGCAATTTCACAAACCAG
61497073 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
61497089 CTATCCTACA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGCAATTTCACAAACCAG
Found at i:61497105 original size:81 final size:81
Alignment explanation
Indices: 61496964--61497121 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
61496954 TTTGTAAATC
* * * *
61496964 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTCG
1 AGGGTATTTTGGCAATTTTACAAATAGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTCA
*
61497029 GTAATTTTACAAACTA
66 GTAATTTCACAAACTA
* **
61497045 AGGGTATTTTGGCAATTTTATAAACTAG-GGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATT
1 AGGGTATTTTGGCAATTTTACAAA-TAGAGGGTATTTTGGTAATTTC-A-CAAACCAGGGGTATT
61497107 TCAGTAATTTCACAA
63 TCAGTAATTTCACAA
61497122 TCGAAGGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 3 0.05
81 59 0.89
82 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTGGCAATTTTACAAATAGAGGGTATTTTGGTAATTTCACAAACCAGGGGTATTTCA
GTAATTTCACAAACTA
Found at i:61497160 original size:27 final size:27
Alignment explanation
Indices: 61497120--61497278 Score: 210
Period size: 27 Copynumber: 5.9 Consensus size: 27
61497110 GTAATTTCAC
* *
61497120 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
61497147 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
61497174 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
61497201 AATCGAGGGTAAAACTGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
61497228 AATCGTGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
61497255 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
61497279 ACAAATGAGG
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:61497228 original size:81 final size:81
Alignment explanation
Indices: 61497120--61497289 Score: 261
Period size: 81 Copynumber: 2.1 Consensus size: 81
61497110 GTAATTTCAC
* * * *
61497120 AATCGAAGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
*
61497185 AAATGGTAATTCTATA
66 AAATGGTAATTCTACA
* * *
61497201 AATCGAGGGTAAAACTGTAATTTTGTAAATCGTGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
61497266 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
61497282 AAT-GAGGG
1 AATCGAGGG
61497290 CATTTCAGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 5 0.06
81 76 0.94
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:61502313 original size:42 final size:42
Alignment explanation
Indices: 61502204--61502360 Score: 98
Period size: 42 Copynumber: 3.7 Consensus size: 42
61502194 AATAAGATGC
* * * * ** **
61502204 CAACGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACAT
1 CAACGCCATATCCCAGACATGGTCTTATACGAAATCTCATGT
* * * * * * * *
61502246 TAATGCCATGTCCCATATATAGTCTTATACGAATTCTCATTT
1 CAACGCCATATCCCAGACATGGTCTTATACGAAATCTCATGT
* * * * * **
61502288 CGACGCCATGTCTCAGACGTGGTCTTACATAAAATCTCATGT
1 CAACGCCATATCCCAGACATGGTCTTATACGAAATCTCATGT
*
61502330 CAACGCCATATCCCAGATATGGTCTTATACG
1 CAACGCCATATCCCAGACATGGTCTTATACG
61502361 GGATCTTATC
Statistics
Matches: 81, Mismatches: 34, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (42 bp):
CAACGCCATATCCCAGACATGGTCTTATACGAAATCTCATGT
Found at i:61502355 original size:84 final size:84
Alignment explanation
Indices: 61502206--61502360 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 84
61502196 TAAGATGCCA
*** * * * *
61502206 ACGCCATGTCCCAGACGTGGTCTTACATGGGATCTCACATTAATGCCATGTCCCATATATAGTCT
1 ACGCCATGTCCCAGACGTGGTCTTACATAAAATCTCACATCAACGCCATATCCCAGATATAGTCT
61502271 TATACGAATTCTCATTTCG
66 TATACGAATTCTCATTTCG
* ** *
61502290 ACGCCATGTCTCAGACGTGGTCTTACATAAAATCTCATGTCAACGCCATATCCCAGATATGGTCT
1 ACGCCATGTCCCAGACGTGGTCTTACATAAAATCTCACATCAACGCCATATCCCAGATATAGTCT
61502355 TATACG
66 TATACG
61502361 GGATCTTATC
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (84 bp):
ACGCCATGTCCCAGACGTGGTCTTACATAAAATCTCACATCAACGCCATATCCCAGATATAGTCT
TATACGAATTCTCATTTCG
Found at i:61504547 original size:44 final size:44
Alignment explanation
Indices: 61504499--61504589 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
61504489 TGGCATTCAC
*
61504499 TTCCAAAGATAACATTTCTGATGTATCTAGTAAGGAGTCTAAAG
1 TTCCAAAGATAACATTTCTAATGTATCTAGTAAGGAGTCTAAAG
61504543 TTCCAAAGATAACATTTCTAATGTATCTAGTAAGGAGTCTAAAG
1 TTCCAAAGATAACATTTCTAATGTATCTAGTAAGGAGTCTAAAG
61504587 TTC
1 TTC
61504590 AATTGGGGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (44 bp):
TTCCAAAGATAACATTTCTAATGTATCTAGTAAGGAGTCTAAAG
Found at i:61510002 original size:21 final size:22
Alignment explanation
Indices: 61509978--61510023 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
61509968 TTATTCAATA
* *
61509978 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACGAAAATT
*
61509999 AAAATAATAATAAAGGAAAATT
1 AAAATAATAATAAACGAAAATT
61510021 AAA
1 AAA
61510024 TAAAAAGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATAATAATAAACGAAAATT
Found at i:61520892 original size:18 final size:18
Alignment explanation
Indices: 61520869--61520909 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
61520859 GTAGGGTGGT
61520869 TGTTGGTAGCCCGGAGGA
1 TGTTGGTAGCCCGGAGGA
*
61520887 TGTTGGTAGCTCGGAGGA
1 TGTTGGTAGCCCGGAGGA
61520905 TGTTG
1 TGTTG
61520910 TGGTCTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.29
Consensus pattern (18 bp):
TGTTGGTAGCCCGGAGGA
Found at i:61526712 original size:14 final size:15
Alignment explanation
Indices: 61526689--61526721 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61526679 TTTTATTAGG
*
61526689 TTTTATAATTTTT-A
1 TTTTACAATTTTTAA
61526703 TTTTACAATTTTTAA
1 TTTTACAATTTTTAA
61526718 TTTT
1 TTTT
61526722 GGCTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTACAATTTTTAA
Found at i:61532419 original size:27 final size:27
Alignment explanation
Indices: 61532389--61532536 Score: 140
Period size: 27 Copynumber: 5.5 Consensus size: 27
61532379 ATATTGAGCC
* *
61532389 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
61532416 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61532443 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** *
61532471 CGCACTCTTAGTGC--CATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61532496 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
61532523 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61532537 CGTACAATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
25 15 0.15
26 7 0.07
27 65 0.64
28 15 0.15
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61548339 original size:27 final size:27
Alignment explanation
Indices: 61548309--61548459 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
61548299 ATATCGAGTC
* * *
61548309 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61548336 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
61548364 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
61548391 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
61548418 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
61548445 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61548460 GTACAATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 81 0.76
28 25 0.24
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61548421 original size:82 final size:81
Alignment explanation
Indices: 61548309--61548458 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
61548299 ATATCGAGTC
*
61548309 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
61548374 GTGCCGCATGGTCAATT
65 GTGCCGCATGGTCAATT
* * **
61548391 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
61548455 GTGC
65 GTGC
61548459 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:61556376 original size:27 final size:27
Alignment explanation
Indices: 61556326--61556475 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
61556316 ATATCGAGTC
* *
61556326 CGCACAC-TAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
61556352 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
61556380 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
61556407 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* * *
61556434 CGCACACTTACTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
61556461 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61556476 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
26 7 0.07
27 72 0.69
28 25 0.24
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:61556437 original size:82 final size:80
Alignment explanation
Indices: 61556326--61556474 Score: 219
Period size: 82 Copynumber: 1.8 Consensus size: 80
61556316 ATATCGAGTC
* *
61556326 CGCACACTAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAG
1 CGCACACTAGTGCTATATAATCAACTCGCACACTTACTGCAACATAGTCAAA-TCGCACACTTAG
61556391 TGCCGCATGGTCAATT
65 TGCCGCATGGTCAATT
* **
61556407 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTACTGCAACATAGTCAAATCGCACACTTA
1 CGCACAC-TAGTGCTAT-ATAATCAACTCGCACACTTACTGCAACATAGTCAAATCGCACACTTA
61556471 GTGC
64 GTGC
61556475 TGTACAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
81 24 0.39
82 37 0.61
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (80 bp):
CGCACACTAGTGCTATATAATCAACTCGCACACTTACTGCAACATAGTCAAATCGCACACTTAGT
GCCGCATGGTCAATT
Found at i:61570663 original size:40 final size:40
Alignment explanation
Indices: 61570580--61570922 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
61570570 TTGAATGCTG
* * * * * *
61570580 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
61570620 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
61570660 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
61570700 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
61570740 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
61570780 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
61570820 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61570860 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61570899 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61570923 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:61578568 original size:79 final size:80
Alignment explanation
Indices: 61578432--61578586 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
61578422 GAATGATGTC
* * *
61578432 CGGGCTAAGTCCCGAAGGCTTTGTGCTAATTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCTTGGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
61578497 GCGAGATACTAATTT
66 GCGAGATACTAATTT
* * **
61578512 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTT-ACTAAATCCGGGTTAAG-TCCTGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGC-TTGGTGCGAATTGACCAAATCCGGACTAAGATCC-GAAGGCATTT
*
61578574 GTGCGAGTTACTA
64 GTGCGAGATACTA
61578587 TAACCGGGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 44 0.68
80 18 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCTTGGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGATACTAATTT
Found at i:61578595 original size:79 final size:80
Alignment explanation
Indices: 61578431--61578612 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
61578421 CGAATGATGT
* * *
61578431 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
61578495 GTGCGAGATACTAATT
65 GTGCGAGATACTAATA
* * * **
61578511 TCGGGCTAAGCCCGAAGGCATTGGTGCGAGTT-ACTAAATCCGGGTTAAG-TCCTGAAGGCATTT
1 CCGGGCTAAGCCCGAAGGCATTGGTGCGAATTGACCAAATCCGGACTAAGATCC-GAAGGCATTT
*
61578574 GTGCGAGTTACT-ATAA
65 GTGCGAGATACTAAT-A
**
61578590 CCGGGCTATTTCCCGAAGGCATT
1 CCGGGCTA-AGCCCGAAGGCATT
61578613 TGAACGAGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 5 0.06
79 50 0.59
80 30 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGCCCGAAGGCATTGGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATA
Found at i:61578621 original size:40 final size:40
Alignment explanation
Indices: 61578430--61578614 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
61578420 TCGAATGATG
* * * *
61578430 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAA
* * *
61578470 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61578510 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61578549 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
61578590 -CCGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61578615 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61578636 original size:79 final size:78
Alignment explanation
Indices: 61578467--61578647 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 78
61578457 CTAATTGACC
* **
61578467 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCAT
**
61578532 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * **
61578546 AAATCCGGGTTAAG-TCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATTTCCCGAAGG
1 ATATCC-GGTTAAGATCC-GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTA-AGCCCGAAGG
*
61578609 CATTTGAACGAG-TAGCT
62 CATTGGAACGAGTTA-CT
61578626 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
61578648 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
78 5 0.06
79 50 0.60
80 29 0.35
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:61582910 original size:55 final size:55
Alignment explanation
Indices: 61582797--61582912 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 55
61582787 ATGATATGGT
* * * * *
61582797 CGTGGTTGAGCCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAAC
1 CGTGGTCGAGCATGCCAAAACAACACGGGCATGCGACACGCCCGTGTCGAACAAC
* * *
61582852 CGTGGTCGAGCATGCCAAAACAGCACGGGCATGCGACACGCCCGTGTCTAACACC
1 CGTGGTCGAGCATGCCAAAACAACACGGGCATGCGACACGCCCGTGTCGAACAAC
61582907 CGTGGT
1 CGTGGT
61582913 TGAATCTGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.24, C:0.31, G:0.31, T:0.14
Consensus pattern (55 bp):
CGTGGTCGAGCATGCCAAAACAACACGGGCATGCGACACGCCCGTGTCGAACAAC
Found at i:61591039 original size:44 final size:42
Alignment explanation
Indices: 61590989--61591081 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 42
61590979 TGTGTTATCA
* * *
61590989 TGTAAGACCATATCTGGGACGTTGGCATCG-ACTTATGATTTATG
1 TGTAAGACAACATCTGGGACATTGGCATCGTA-TT-TGATTT-TG
* *
61591033 TGTAAGACAACGTCTGGGACATTGGCATTGTATTTGATTTTG
1 TGTAAGACAACATCTGGGACATTGGCATCGTATTTGATTTTG
61591075 TGTAAGA
1 TGTAAGA
61591082 TCCTGCCTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
42 9 0.21
43 6 0.14
44 27 0.63
45 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (42 bp):
TGTAAGACAACATCTGGGACATTGGCATCGTATTTGATTTTG
Found at i:61591138 original size:43 final size:42
Alignment explanation
Indices: 61591033--61591150 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
61591023 ATGATTTATG
***
61591033 TGTAAG-ACAACGTCTGGGACATTGGCATTGTATTTGATTTTG
1 TGTAAGAAC-ACGTCTGGGACATTGGCATTGTATTTGATTACA
* * *
61591075 TGTAAGATC-CTGCCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGAACAC-GTCTGGGACATTGGCATTG-TATTTGATTACA
*
61591118 TGTAAGAACACGTCTAGGACATTGGCATTGTAT
1 TGTAAGAACACGTCTGGGACATTGGCATTGTAT
61591151 GAGCTTTTCG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 26 0.42
43 34 0.55
44 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACATTGGCATTGTATTTGATTACA
Found at i:61593237 original size:23 final size:23
Alignment explanation
Indices: 61593207--61593265 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
61593197 TTTAAGGCTC
61593207 CACACGCCCGTGTGGATATAGAG
1 CACACGCCCGTGTGGATATAGAG
*
61593230 CACACGCCCATGTGGATATAGAG
1 CACACGCCCGTGTGGATATAGAG
61593253 CACACGCCCGTGT
1 CACACGCCCGTGT
61593266 CCCGTACCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (23 bp):
CACACGCCCGTGTGGATATAGAG
Found at i:61603396 original size:14 final size:13
Alignment explanation
Indices: 61603373--61603404 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
61603363 GGGATATCAA
61603373 AACAATAATTAAG
1 AACAATAATTAAG
61603386 AACACATAATTAAG
1 AACA-ATAATTAAG
61603400 AACAA
1 AACAA
61603405 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:61604887 original size:13 final size:13
Alignment explanation
Indices: 61604871--61604903 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
61604861 TTTAATTAAA
*
61604871 TTAGTTAATTAGT
1 TTAGATAATTAGT
61604884 TTAGATAATTAGT
1 TTAGATAATTAGT
61604897 TTA-ATAA
1 TTAGATAA
61604904 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:61610298 original size:5 final size:5
Alignment explanation
Indices: 61610288--61610401 Score: 95
Period size: 6 Copynumber: 21.0 Consensus size: 5
61610278 TGAATCCTCC
*
61610288 TATTT TATTT TATTTT TATTTT TATTTT TATTT TTTTT TATTTT TATTTT
1 TATTT TATTT TA-TTT TA-TTT TA-TTT TATTT TATTT TA-TTT TA-TTT
* *
61610338 TATTTT TATTTT TATTT TATTT TATTT TATTT T-TTAT TCTTT TCTTT
1 TA-TTT TA-TTT TATTT TATTT TATTT TATTT TATT-T TATTT TATTT
*
61610385 GAATTT TATTT TCATTT
1 -TATTT TATTT T-ATTT
61610402 CAATTTTCTT
Statistics
Matches: 98, Mismatches: 5, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
4 2 0.02
5 47 0.48
6 49 0.50
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:61610306 original size:6 final size:6
Alignment explanation
Indices: 61610290--61610371 Score: 122
Period size: 6 Copynumber: 14.7 Consensus size: 6
61610280 AATCCTCCTA
61610290 TTTTA- TTTTAT TTTTAT TTTTAT TTTTA- TTTT-T TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
61610335 TTTTAT TTTTAT TTTTA- TTTTA- TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
61610372 TATTCTTTTC
Statistics
Matches: 73, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
5 28 0.38
6 45 0.62
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:61610328 original size:28 final size:28
Alignment explanation
Indices: 61610288--61610401 Score: 142
Period size: 28 Copynumber: 4.0 Consensus size: 28
61610278 TGAATCCTCC
*
61610288 TATTTTATTTTATTTTTATTTTTATTTT
1 TATTTTTTTTTATTTTTATTTTTATTTT
61610316 TATTTTTTTTTATTTTTATTTTTATTTT
1 TATTTTTTTTTATTTTTATTTTTATTTT
61610344 TATTTTTATTTTA-TTTTA-TTTTATTTTT
1 TATTTTT-TTTTATTTTTATTTTTA-TTTT
* *
61610372 TATTCTTTTCTTTGAATTTTATTTTCATTT
1 TATT-TTTT-TTT-ATTTTTATTTTTATTT
61610402 CAATTTTCTT
Statistics
Matches: 77, Mismatches: 2, Indels: 11
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.06
28 48 0.62
29 11 0.14
30 1 0.01
31 8 0.10
32 4 0.05
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.80
Consensus pattern (28 bp):
TATTTTTTTTTATTTTTATTTTTATTTT
Found at i:61610337 original size:34 final size:33
Alignment explanation
Indices: 61610288--61610371 Score: 150
Period size: 34 Copynumber: 2.5 Consensus size: 33
61610278 TGAATCCTCC
61610288 TATTTTATTTTATTTTTATTTTTATTTTTATTT
1 TATTTTATTTTATTTTTATTTTTATTTTTATTT
*
61610321 TTTTTTATTTTTATTTTTATTTTTATTTTTATTT
1 TATTTTA-TTTTATTTTTATTTTTATTTTTATTT
61610355 TATTTTATTTTATTTTT
1 TATTTTATTTTATTTTT
61610372 TATTCTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 16 0.33
34 32 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (33 bp):
TATTTTATTTTATTTTTATTTTTATTTTTATTT
Found at i:61625216 original size:46 final size:45
Alignment explanation
Indices: 61625116--61625235 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 45
61625106 GTGGTATGTA
*
61625116 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATCACGAG
* *
61625162 TGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACATTGAGACGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACA-T--CACGAG
* * *
61625208 AGCTAGTGTAAGACCTGTTTGGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
61625236 GCGTCAGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 3 0.05
44 1 0.02
45 1 0.02
46 59 0.92
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATCACGAG
Done.