Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 202 of 292
Found at i:60226896 original size:19 final size:19
Alignment explanation
Indices: 60226872--60226909 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60226862 ACCTCAGCGT
60226872 GTCCCGAGGCTCAACTCAC
1 GTCCCGAGGCTCAACTCAC
60226891 GTCCCGAGGCTCAACTCAC
1 GTCCCGAGGCTCAACTCAC
60226910 CTCTCGCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.42, G:0.21, T:0.16
Consensus pattern (19 bp):
GTCCCGAGGCTCAACTCAC
Found at i:60226909 original size:96 final size:97
Alignment explanation
Indices: 60226797--60226987 Score: 375
Period size: 97 Copynumber: 2.0 Consensus size: 97
60226787 CGACGTGTGG
60226797 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAT-AAAAATAGAATTTGAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAATTTGAAAA
60226861 TACCTCAGCGTGTCCCGAGGCTCAACTCACGT
66 TACCTCAGCGTGTCCCGAGGCTCAACTCACGT
60226893 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAATTTGAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAATTTGAAAA
60226958 TACCTCAGCGTGTCCCGAGGCTCAACTCAC
66 TACCTCAGCGTGTCCCGAGGCTCAACTCAC
60226988 CTCTCGCAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 46 0.49
97 48 0.51
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (97 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAATTTGAAAA
TACCTCAGCGTGTCCCGAGGCTCAACTCACGT
Found at i:60226985 original size:78 final size:73
Alignment explanation
Indices: 60226886--60227084 Score: 260
Period size: 78 Copynumber: 2.7 Consensus size: 73
60226876 CGAGGCTCAA
*
60226886 CTCA-CGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAA
1 CTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAAAA-A-AA
60226950 TTTGAAAATAC
64 -TTGAAAATAC
*
60226961 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAAAA
1 CTCAGC--GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAAAAAAA
*
60227024 TTGAAATTAC
64 TTGAAAATAC
** * * *
60227034 CTCAGCGTCTTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTTTT
1 CTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
60227085 TTAAACATAA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
71 33 0.30
73 20 0.18
74 2 0.02
75 5 0.05
76 13 0.12
78 38 0.34
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (73 bp):
CTCAGCGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAAAAAAAATT
GAAAATAC
Found at i:60227070 original size:71 final size:75
Alignment explanation
Indices: 60226891--60227082 Score: 257
Period size: 71 Copynumber: 2.6 Consensus size: 75
60226881 CTCAACTCAC
*
60226891 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAAAATAGAATTTGAA
1 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAAAAATAGAATTTGAA
60226956 AATACCTCAGCG
64 AATACCTCAGCG
*
60226968 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAA-A-AA-TTGAAA
1 -GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAAAATAGAATTTGAAA
*
60227030 TTACCTCAGC-
65 ATACCTCAGCG
** * * *
60227040 GTCTTGAGGCTCAACTCACTTATCGTAATATGAGTTGATTTTT
1 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
60227083 TTTTAAACAT
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
71 38 0.36
73 15 0.14
74 2 0.02
75 1 0.01
76 12 0.11
78 38 0.36
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (75 bp):
GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAAAATAGAATTTGAAAA
TACCTCAGCG
Found at i:60227489 original size:26 final size:26
Alignment explanation
Indices: 60227453--60227588 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
60227443 TGATACAAAT
60227453 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
60227479 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
60227505 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
60227531 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
60227557 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
60227583 TGATAA
1 TGATAA
60227589 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:60229246 original size:27 final size:27
Alignment explanation
Indices: 60229205--60229344 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
60229195 GAGGAAACAT
*
60229205 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
60229232 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
60229259 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
60229286 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
60229314 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
60229340 TCTGG
1 TCTGG
60229345 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:60229290 original size:54 final size:55
Alignment explanation
Indices: 60229205--60229344 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
60229195 GAGGAAACAT
* * *
60229205 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
60229259 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
60229314 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
60229345 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:60230451 original size:99 final size:101
Alignment explanation
Indices: 60230257--60230530 Score: 421
Period size: 99 Copynumber: 2.8 Consensus size: 101
60230247 GGGGTGCTAC
*
60230257 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTGAAAAGC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
* * * *
60230320 AGAATTTGTAAGGCAAAAATTGAAAAACAGAAATTG
66 AGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTA
*
60230356 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
* *
60230421 AGAAATT-AAAAGCAGAAATTG-AAAATAGAAATTA
66 AGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTA
* *
60230455 AAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
*
60230520 ATAAATTGAAA
66 AGAAATTGAAA
60230531 TTACCTTAGC
Statistics
Matches: 160, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
99 131 0.82
100 14 0.09
101 15 0.09
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGC
AGAAATTGAAAAGCAAAAATTGAAAAACAGAAATTA
Found at i:60230460 original size:13 final size:13
Alignment explanation
Indices: 60230415--60230458 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
60230405 TTGATTTTTG
60230415 AAAAACAGAAATT
1 AAAAACAGAAATT
*
60230428 AAAAGCAGAAATT
1 AAAAACAGAAATT
* *
60230441 GAAAATAGAAATT
1 AAAAACAGAAATT
60230454 AAAAA
1 AAAAA
60230459 TACCTCGGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:60230568 original size:73 final size:74
Alignment explanation
Indices: 60230466--60230604 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 74
60230456 AAATACCTCG
*
60230466 GCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAA
1 GCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAGCATAAATTGAA
60230530 ATTACCTTA
66 ATTACCTTA
* *
60230539 GCGTGTCCTGAGGCTCTA-CTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAGTATAAATTGA
1 GCGTGCCCTGAGGCTC-AGCTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAGCATAAATTGA
60230603 AA
65 AA
60230605 AAACGGAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
73 38 0.62
74 23 0.38
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (74 bp):
GCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTAATTTTTTGAAAAGCATAAATTGAA
ATTACCTTA
Found at i:60242586 original size:16 final size:15
Alignment explanation
Indices: 60242560--60242594 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
60242550 TGATGTGAAT
60242560 AATATAAAATATTAA
1 AATATAAAATATTAA
*
60242575 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
60242591 AATA
1 AATA
60242595 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:60242731 original size:23 final size:23
Alignment explanation
Indices: 60242705--60242789 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
60242695 ATAATACTAC
*
60242705 ATAAATATGTACAT-ATATAAAAA
1 ATAAATACGTA-ATAATATAAAAA
*
60242728 ATAAATACGTAATAATATTAAAA
1 ATAAATACGTAATAATATAAAAA
** * *
60242751 ATATGTACATAATATAGTGTAAAAA
1 ATAAATACGTAATA-A-TATAAAAA
* *
60242776 ATACATACATAATA
1 ATAAATACGTAATA
60242790 TAATTAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
22 2 0.04
23 29 0.58
24 1 0.02
25 18 0.36
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATAAATACGTAATAATATAAAAA
Found at i:60242865 original size:27 final size:25
Alignment explanation
Indices: 60242792--60242882 Score: 64
Period size: 27 Copynumber: 3.6 Consensus size: 25
60242782 ACATAATATA
60242792 ATTAAAATATATACATAAGATAACATGT
1 ATTAAAATATATACAT-A-A-AACATGT
* *
60242820 A--AAATATATATATAAAAAACATAGT
1 ATTAAA-ATATATACATAAAACAT-GT
*
60242845 ATTAAAGATATATACATAAAATA-GT
1 ATTAAA-ATATATACATAAAACATGT
*
60242870 A-TAATATATATAC
1 ATTAAAATATATAC
60242883 GTAATATAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
23 8 0.15
24 8 0.15
25 7 0.13
26 4 0.08
27 24 0.46
28 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (25 bp):
ATTAAAATATATACATAAAACATGT
Found at i:60242878 original size:23 final size:25
Alignment explanation
Indices: 60242738--60242891 Score: 84
Period size: 25 Copynumber: 6.2 Consensus size: 25
60242728 ATAAATACGT
* * *
60242738 AATAATATTAAAAATATGTACATAA
1 AATAGTATTAAATATATATACATAA
* * * * *
60242763 TATAGTGTAAAAAATACATACATAA
1 AATAGTATTAAATATATATACATAA
*
60242788 TATA--ATTAAA-ATATATACATAA
1 AATAGTATTAAATATATATACATAA
* ** * *
60242810 GATAACATGTAAAATATATATATAAAAA
1 AATAGTAT-T-AAATATATATA-CATAA
*
60242838 ACATAGTATTAAAGATATATACATAA
1 A-ATAGTATTAAATATATATACATAA
*
60242864 AATAGTA-T-AATATATATACGTAA
1 AATAGTATTAAATATATATACATAA
*
60242887 TATAG
1 AATAG
60242892 AATTTAGAAT
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
22 14 0.14
23 21 0.21
24 3 0.03
25 30 0.30
26 7 0.07
27 17 0.17
28 4 0.04
29 5 0.05
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (25 bp):
AATAGTATTAAATATATATACATAA
Found at i:60242954 original size:23 final size:25
Alignment explanation
Indices: 60242911--60242956 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60242901 TATACCTAAT
60242911 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
60242936 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
60242957 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:60243476 original size:30 final size:30
Alignment explanation
Indices: 60243435--60243533 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
60243425 TAGGTACAAG
*
60243435 TGGTGGTGGAGCAAGTGTGACTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
60243465 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
60243495 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
60243525 TGGTGGTGG
1 TGGTGGTGG
60243534 CAAAGACTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:60243491 original size:18 final size:18
Alignment explanation
Indices: 60243468--60243523 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
60243458 GTGGAGTAGG
60243468 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
60243486 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
60243498 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
60243516 TAGTGGAG
1 TAGTGGAG
60243524 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:60249905 original size:29 final size:28
Alignment explanation
Indices: 60249837--60249905 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
60249827 AATCTATATA
* *
60249837 TTTATAATTTTTAAGGGATAAATTAAATT
1 TTTAT-ATTTTTAAGGGATAAAATAAAAT
60249866 TTTATCATTTTTAAGGGACTAAAAATAAAAT
1 TTTAT-ATTTTTAAGGGA-T-AAAATAAAAT
60249897 TTTAT-TTTT
1 TTTATATTTT
60249906 ACTAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 21 0.60
30 1 0.03
31 13 0.37
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (28 bp):
TTTATATTTTTAAGGGATAAAATAAAAT
Found at i:60258539 original size:26 final size:26
Alignment explanation
Indices: 60258485--60258541 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
60258475 TTTTTATTTT
*
60258485 TATTTTTTAAAATATTTAAAATATTA
1 TATTTTTTAAAATATTTAAAATATCA
*
60258511 TATTTTTTAATAT-TATTAAACATA-CA
1 TATTTTTTAAAATAT-TTAAA-ATATCA
60258537 TATTT
1 TATTT
60258542 AATTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTTTTAAAATATTTAAAATATCA
Found at i:60258590 original size:22 final size:22
Alignment explanation
Indices: 60258565--60258606 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60258555 TGGTCATATC
60258565 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
60258587 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
60258607 TTTATTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:60258643 original size:13 final size:14
Alignment explanation
Indices: 60258626--60258669 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
60258616 TATTTCAATT
60258626 TAATTTTAATAATA
1 TAATTTTAATAATA
*
60258640 -AATTTTAAAAATAA
1 TAATTTTAATAAT-A
60258654 TAATTTTAAATAATA
1 TAATTTT-AATAATA
60258669 T
1 T
60258670 TATTCACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 11 0.44
14 1 0.04
15 8 0.32
16 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTTTAATAATA
Found at i:60258654 original size:16 final size:16
Alignment explanation
Indices: 60258632--60258668 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60258622 AATTTAATTT
60258632 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
60258649 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
60258664 TAATA
1 TAATA
60258669 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:60258721 original size:15 final size:15
Alignment explanation
Indices: 60258701--60258757 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
60258691 ATTCAATATT
60258701 AATATTTTAATAATA
1 AATATTTTAATAATA
*
60258716 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
60258735 AATATATTAATAATA
1 AATATTTTAATAATA
*
60258750 AATGTTTT
1 AATATTTT
60258758 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:60259234 original size:14 final size:14
Alignment explanation
Indices: 60259215--60259252 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
60259205 CCAGAAAAGT
60259215 AAATCATTTTCCAA
1 AAATCATTTTCCAA
**
60259229 AAATCATTTTCCGG
1 AAATCATTTTCCAA
60259243 AAATCATTTT
1 AAATCATTTT
60259253 TAGTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:60261841 original size:15 final size:15
Alignment explanation
Indices: 60261816--60261852 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
60261806 TGGTTTTTTC
60261816 ATTTTTA-TTGAAAT
1 ATTTTTATTTGAAAT
*
60261830 ATTTTTATTTGATAT
1 ATTTTTATTTGAAAT
60261845 ATTTTTAT
1 ATTTTTAT
60261853 ACATGAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
ATTTTTATTTGAAAT
Found at i:60263429 original size:19 final size:20
Alignment explanation
Indices: 60263389--60263436 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
60263379 TTCTTGTCTA
*
60263389 AATTTTT-T-TTAAAGACTT
1 AATTTTTATGTTAAAGACTC
60263407 AATTTTTATGTTAAA-ACTC
1 AATTTTTATGTTAAAGACTC
*
60263426 AATTTTGATGT
1 AATTTTTATGT
60263437 CTAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 14 0.54
20 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (20 bp):
AATTTTTATGTTAAAGACTC
Found at i:60264020 original size:37 final size:37
Alignment explanation
Indices: 60263979--60264050 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
60263969 ATCGGGTATG
*
60263979 AATTTTGATCTTTCAAATATGTGAATAAATCTAGAGA
1 AATTTTGATCTTTCAAATATATGAATAAATCTAGAGA
60264016 AATTTTGATCTTTCAAATATATGAATAAATCTAGA
1 AATTTTGATCTTTCAAATATATGAATAAATCTAGA
60264051 AAAAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (37 bp):
AATTTTGATCTTTCAAATATATGAATAAATCTAGAGA
Found at i:60268806 original size:14 final size:16
Alignment explanation
Indices: 60268789--60268820 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60268779 CCCAAAAAAA
60268789 TTATAA-TTA-AAATC
1 TTATAATTTACAAATC
60268803 TTATAATTTACAAATC
1 TTATAATTTACAAATC
60268819 TT
1 TT
60268821 TTCTTTAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATAATTTACAAATC
Found at i:60271230 original size:17 final size:17
Alignment explanation
Indices: 60271208--60271243 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60271198 TTGAAAACCG
*
60271208 TGCTAGGTAAATACACA
1 TGCTAGATAAATACACA
*
60271225 TGCTAGATAAATACCCA
1 TGCTAGATAAATACACA
60271242 TG
1 TG
60271244 TTCAAGACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (17 bp):
TGCTAGATAAATACACA
Found at i:60271625 original size:12 final size:12
Alignment explanation
Indices: 60271608--60271632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60271598 AATTTCAATG
60271608 CAATAAAAAGGA
1 CAATAAAAAGGA
60271620 CAATAAAAAGGA
1 CAATAAAAAGGA
60271632 C
1 C
60271633 TATTACACTT
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:0.64, C:0.12, G:0.16, T:0.08
Consensus pattern (12 bp):
CAATAAAAAGGA
Found at i:60273159 original size:21 final size:20
Alignment explanation
Indices: 60273135--60273173 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
60273125 AAAATATATA
*
60273135 TATTAAAATATATGTAAAAAT
1 TATTAAAAT-TATATAAAAAT
60273156 TATTAAAATTATATAAAA
1 TATTAAAATTATATAAAA
60273174 TACTCTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TATTAAAATTATATAAAAAT
Found at i:60273889 original size:22 final size:20
Alignment explanation
Indices: 60273861--60273928 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
60273851 ACATTTGATG
* *
60273861 TTTTTATATATATTTTAGAA
1 TTTTTTTATAAATTTTAGAA
* *
60273881 TTTTTTTATAAATTTAATAA
1 TTTTTTTATAAATTTTAGAA
*
60273901 TTTTTTT-TAGAATTTTTGAA
1 TTTTTTTATA-AATTTTAGAA
60273921 GTTTTTTT
1 -TTTTTTT
60273929 TAGTTTTGCA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.05
20 30 0.77
21 7 0.18
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTTTTTATAAATTTTAGAA
Found at i:60284792 original size:36 final size:36
Alignment explanation
Indices: 60284745--60284814 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
60284735 ATTCATATTT
* *
60284745 AAGCTCTTTCTATATAGTAAGGATAAAAATATAGTG
1 AAGCTCTTTCTATATAATAAGGACAAAAATATAGTG
*
60284781 AAGCTCTTTCTATATAATGAGGACAAAAATATAG
1 AAGCTCTTTCTATATAATAAGGACAAAAATATAG
60284815 CGAAACGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (36 bp):
AAGCTCTTTCTATATAATAAGGACAAAAATATAGTG
Found at i:60287323 original size:217 final size:217
Alignment explanation
Indices: 60286943--60287382 Score: 862
Period size: 217 Copynumber: 2.0 Consensus size: 217
60286933 TGACTTTGAA
*
60286943 AATTCACCAAAAATTGTGTAGGTTGAATTAAATTTCAAATAAATTATGGAATTAAAGCTTAATGA
1 AATTTACCAAAAATTGTGTAGGTTGAATTAAATTTCAAATAAATTATGGAATTAAAGCTTAATGA
60287008 GGATATTTTATATAAAAGAAACAGGGGGAGCAAAAGAGTTATATATTATGTGATATTCTAATTTC
66 GGATATTTTATATAAAAGAAACAGGGGGAGCAAAAGAGTTATATATTATGTGATATTCTAATTTC
*
60287073 TGTGAGATAGTGTCAGAATGAATTCAAGATCCCCTGTTTTGACTTGGAAAAATTGTTAAAAATTG
131 TGTGAGATAGTGTCAGAATGAATTCAAGATCCCCTATTTTGACTTGGAAAAATTGTTAAAAATTG
60287138 TAGAAAAATAATTATGGGTTAT
196 TAGAAAAATAATTATGGGTTAT
60287160 AATTTACCAAAAATTGTGTAGGTTGAATTAAATTTCAAATAAATTATGGAATTAAAGCTTAATGA
1 AATTTACCAAAAATTGTGTAGGTTGAATTAAATTTCAAATAAATTATGGAATTAAAGCTTAATGA
60287225 GGATATTTTATATAAAAGAAACAGGGGGAGCAAAAGAGTTATATATTATGTGATATTCTAATTTC
66 GGATATTTTATATAAAAGAAACAGGGGGAGCAAAAGAGTTATATATTATGTGATATTCTAATTTC
60287290 TGTGAGATAGTGTCAGAATGAATTCAAGATCCCCTATTTTGACTTGGAAAAATTGTTAAAAATTG
131 TGTGAGATAGTGTCAGAATGAATTCAAGATCCCCTATTTTGACTTGGAAAAATTGTTAAAAATTG
60287355 TAGAAAAATAATTATGGGTTAT
196 TAGAAAAATAATTATGGGTTAT
60287377 AATTTA
1 AATTTA
60287383 TATGTTTAGA
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
217 221 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (217 bp):
AATTTACCAAAAATTGTGTAGGTTGAATTAAATTTCAAATAAATTATGGAATTAAAGCTTAATGA
GGATATTTTATATAAAAGAAACAGGGGGAGCAAAAGAGTTATATATTATGTGATATTCTAATTTC
TGTGAGATAGTGTCAGAATGAATTCAAGATCCCCTATTTTGACTTGGAAAAATTGTTAAAAATTG
TAGAAAAATAATTATGGGTTAT
Found at i:60288234 original size:28 final size:27
Alignment explanation
Indices: 60288202--60288267 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
60288192 TGATAACGAG
*
60288202 GTTCACTTTGATACTTATATCCTTTTTT
1 GTTCACTTTGATAATTATAT-CTTTTTT
* * * *
60288230 GTTCATTTTGGTAATTGTATTTTTTTT
1 GTTCACTTTGATAATTATATCTTTTTT
60288257 GTCTCACTTTG
1 GT-TCACTTTG
60288268 GTACCTAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (27 bp):
GTTCACTTTGATAATTATATCTTTTTT
Found at i:60288925 original size:78 final size:80
Alignment explanation
Indices: 60288759--60288918 Score: 270
Period size: 78 Copynumber: 2.0 Consensus size: 80
60288749 ACCCGACACT
*
60288759 CAAACCCATGGAATTAAGAATTTCTTCTTCTTTTTTAATCTCTATTCGAGGAGTAGGGGCAGATT
1 CAAACCCATGGAATTAAGAA-TTCTTCTTCTTTTTTAATCTCTATTCGAGGAGTAGGGGCAGATC
60288824 TAAGGGGTGGCAGGGG
65 TAAGGGGTGGCAGGGG
*
60288840 CAAACCCATGGAATTAAGAA-T-TTCTTCTTTTTTAATCTCTATTCGAGGAGTAGGGGTAGATCT
1 CAAACCCATGGAATTAAGAATTCTTCTTCTTTTTTAATCTCTATTCGAGGAGTAGGGGCAGATCT
*
60288903 AAGGGGTGGTAGGGG
66 AAGGGGTGGCAGGGG
60288918 C
1 C
60288919 CGACCCAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
78 55 0.72
79 1 0.01
81 20 0.26
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (80 bp):
CAAACCCATGGAATTAAGAATTCTTCTTCTTTTTTAATCTCTATTCGAGGAGTAGGGGCAGATCT
AAGGGGTGGCAGGGG
Found at i:60299923 original size:19 final size:19
Alignment explanation
Indices: 60299882--60299929 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 19
60299872 CATTAGAAAA
60299882 TTATTTTTTTATAAATAAG
1 TTATTTTTTTATAAATAAG
60299901 -TATTTTTTTATAAAT-AG
1 TTATTTTTTTATAAATAAG
60299918 TTTATTATTTTT
1 -TTATT-TTTTT
60299930 TTTTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 4 0.15
20 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTATTTTTTTATAAATAAG
Found at i:60300491 original size:12 final size:12
Alignment explanation
Indices: 60300476--60300522 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
60300466 TAAAATATTT
60300476 TATAAAATTAAA
1 TATAAAATTAAA
60300488 TATAATAATT-AA
1 TATAA-AATTAAA
60300500 TAATAAAATTAAA
1 T-ATAAAATTAAA
*
60300513 TATAATATTA
1 TATAAAATTA
60300523 TTATTAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TATAAAATTAAA
Found at i:60300533 original size:25 final size:23
Alignment explanation
Indices: 60300464--60300526 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 23
60300454 TATAAAACAT
*
60300464 AATAAAATATT-TTATAAAATTA
1 AATATAATATTATTATAAAATTA
*
60300486 AATATAATAATTAATAATAAAATTA
1 AATATAAT-ATT-ATTATAAAATTA
60300511 AATATAATATTATTAT
1 AATATAATATTATTAT
60300527 TAGAAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 3 0.09
25 18 0.51
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATATAATATTATTATAAAATTA
Found at i:60301012 original size:21 final size:21
Alignment explanation
Indices: 60300988--60301029 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60300978 TTATAATGTA
60300988 CATTTTTATATTAATAATATG
1 CATTTTTATATTAATAATATG
60301009 CATTTTTATATTAATAATATG
1 CATTTTTATATTAATAATATG
60301030 TAAACTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
CATTTTTATATTAATAATATG
Found at i:60302223 original size:21 final size:21
Alignment explanation
Indices: 60302199--60302249 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
60302189 AGCAAAGAAA
60302199 GATAAAATAAATAATGAC-AAT
1 GATAAAATAAATAAT-ACTAAT
60302220 GATAACAAT-AATAATACTAAT
1 GATAA-AATAAATAATACTAAT
*
60302241 GGTAAAATA
1 GATAAAATA
60302250 TGCACATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 5 0.19
21 18 0.69
22 3 0.12
ACGTcount: A:0.59, C:0.06, G:0.10, T:0.25
Consensus pattern (21 bp):
GATAAAATAAATAATACTAAT
Found at i:60302413 original size:3 final size:3
Alignment explanation
Indices: 60302405--60302449 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
60302395 AATAAAACAT
60302405 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
60302450 TATGTTCAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:60303567 original size:39 final size:39
Alignment explanation
Indices: 60303481--60303567 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
60303471 TTTAAAATAT
* * *
60303481 ATATATATATATATAATAGTATTTAAGAATATATACATA
1 ATATATATATATATAATAGCATTAAAAAATATATACATA
* * *
60303520 AGAAATATATA-ACTAATGGCATTAAAAAATATATACATA
1 ATATATATATATA-TAATAGCATTAAAAAATATATACATA
60303559 ATATATATA
1 ATATATATA
60303568 AAATACCTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATATATATATATATAATAGCATTAAAAAATATATACATA
Found at i:60304080 original size:27 final size:27
Alignment explanation
Indices: 60304050--60304103 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
60304040 GGTTTCTTGG
60304050 TTTTTTTTGGGGGGTTAGGTTTTTTTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTTT
***
60304077 TTTTTTTTTTTGGGTTAGGTTTTTTTT
1 TTTTTTTTGGGGGGTTAGGTTTTTTTT
60304104 GGGGGGCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.04, C:0.00, G:0.24, T:0.72
Consensus pattern (27 bp):
TTTTTTTTGGGGGGTTAGGTTTTTTTT
Found at i:60304861 original size:88 final size:85
Alignment explanation
Indices: 60304755--60305179 Score: 284
Period size: 88 Copynumber: 5.0 Consensus size: 85
60304745 AAAAACAGAC
* * *
60304755 ATTAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 ATTAAAAGCAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
*
60304820 GAGTTGATTTTTTGAAACTTA
65 GAGTTGATTTTTTGAAACTGA
* * ** * *
60304841 ACTTGAAAAGCAGATTTTGAAAATACCTCGATATATGA-CTGAAGGTTCAACTCACCTCTCGCAA
1 A-TT-AAAAGCAGATATTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAA
*
60304905 TATGAGTTGA-TTTTTGAAAAATAGAA
62 TATGAGTTGATTTTTTG-AAACT-G-A
** * * * ** *** *
60304931 ATTAAAAGACTCA-ACT-CAACT--CTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAATA
1 ATTAAAAG-CAGATATTGAAAATACCTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAATA
60304991 TGAGTTGAATTTTTTTGAAA---A
64 TGAGTTG-A-TTTTTTGAAACTGA
* * *
60305012 A--AAAA-CAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATAT
1 ATTAAAAGCAGATATTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAT
*
60305074 GAGTTGA-TTTTTGAAAACAGA
65 GAGTTGATTTTTTG-AAACTGA
* * * * * * *
60305095 ATCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATGTCGCAAT
1 AT-T-AAAAGCAGATATTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
*
60305160 GTGAGTTGATTTTTTTGAAA
63 ATGAGTTGA-TTTTTTGAAA
60305180 AATATAAATT
Statistics
Matches: 262, Mismatches: 46, Indels: 59
0.71 0.13 0.16
Matches are distributed among these distances:
77 2 0.01
78 2 0.01
79 13 0.05
80 3 0.01
81 6 0.02
82 33 0.13
83 5 0.02
84 31 0.12
85 5 0.02
86 4 0.02
87 24 0.09
88 119 0.45
89 7 0.03
90 8 0.03
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (85 bp):
ATTAAAAGCAGATATTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAACTGA
Found at i:60304963 original size:30 final size:30
Alignment explanation
Indices: 60304927--60304987 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
60304917 TTTGAAAAAT
60304927 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
60304957 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
60304987 A
1 A
60304988 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:60305315 original size:77 final size:78
Alignment explanation
Indices: 60305137--60305330 Score: 221
Period size: 78 Copynumber: 2.5 Consensus size: 78
60305127 ATGTGACCCG
* * * * *
60305137 AGGCTCAACTCACATGTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACCT
* ** ***
60305202 CAGTGTGTGATTGA
65 CAGCGCATGAGCCA
* * * *
60305216 A-GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGACGGAAATTG-AAAATAGCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
60305279 AGCGCATGAGCCA
66 AGCGCATGAGCCA
*
60305292 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
60305331 TTTGAAAGGC
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
76 17 0.18
77 35 0.36
78 44 0.45
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCTC
AGCGCATGAGCCA
Found at i:60305416 original size:94 final size:94
Alignment explanation
Indices: 60305252--60305424 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 94
60305242 GTTGATTTTT
* * * * *
60305252 TTGAAAGACGGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACGGAAATTGAAAATACCTCAGCGCATGAGCCAAGGCTCAACCCACCTCTCACAATAC
60305317 AAGTTGATTTTTTTTTTGAAAGGCAAAAA
66 AAGTTGATTTTTTTTTTGAAAGGCAAAAA
* ** * *
60305346 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGA-CCTGAGGCTCAACCCGCCTCTCACAATA
1 TTGAAAAACGGAAATTGAAAATACCTCAGCGCATGAGCC-AAGGCTCAACCCACCTCTCACAATA
*
60305410 CGAGTTGATTTTTTT
65 CAAGTTGATTTTTTT
60305425 GACAACAGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 2 0.03
94 65 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (94 bp):
TTGAAAAACGGAAATTGAAAATACCTCAGCGCATGAGCCAAGGCTCAACCCACCTCTCACAATAC
AAGTTGATTTTTTTTTTGAAAGGCAAAAA
Found at i:60305496 original size:168 final size:169
Alignment explanation
Indices: 60305193--60305498 Score: 420
Period size: 168 Copynumber: 1.8 Consensus size: 169
60305183 ATAAATTGAA
* * * *
60305193 AAAATACCTCAGTGTGTGATTGAAGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAA
1 AAAATACCTCAGCGTGTGACTGAAGCTCAACCCACCTCTCACAATACGAGTTGATTTTTTTGAAA
* * *
60305258 GACGGAAATTGAAAATAGCTCAGCGCATGAGCCAAGGCTCAACTCACCTCTCGCAATATAAGTTG
66 GACAGAAATTGAAAATACCTCA-CGCATGAGCCAAGGCTCAACTCACATCTCGCAATATAAGTTG
60305323 ATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
130 ATTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
* * * *
60305363 AAAATACCTCGGCGTGTGACCTGAGGCTCAACCCGCCTCTCACAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGA-CTGAAGCTCAACCCACCTCTCACAATACGAGTTGATTTTTTTGAA
* * * * *
60305428 A-ACAGAAATTGAAATTACCTCA-GCTTG-TCCTGAGGCTCAACTCACATCTCGCAATATGAGTT
65 AGACAGAAATTGAAAATACCTCACGCATGAGCC-AAGGCTCAACTCACATCTCGCAATATAAGTT
60305490 GATTTTTTT
129 GATTTTTTT
60305499 GAAAAACAGA
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
167 2 0.02
168 41 0.35
170 35 0.30
171 40 0.34
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (169 bp):
AAAATACCTCAGCGTGTGACTGAAGCTCAACCCACCTCTCACAATACGAGTTGATTTTTTTGAAA
GACAGAAATTGAAAATACCTCACGCATGAGCCAAGGCTCAACTCACATCTCGCAATATAAGTTGA
TTTTTTTTTTGAAAGGCAAAAATTGAAAAACGGAAATTG
Found at i:60305602 original size:77 final size:75
Alignment explanation
Indices: 60305346--60305698 Score: 444
Period size: 77 Copynumber: 4.7 Consensus size: 75
60305336 AAGGCAAAAA
* * * * * *** *
60305346 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACCCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGT--CTTGAGGCTCAACTCATTTCTCACAATAT
60305411 GAGTTGATTTTT
64 GAGTTGATTTTT
* * * * ** *
60305423 TTG-ACAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACATCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
60305487 GTTGATTTTT
66 GTTGATTTTT
*
60305497 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
60305562 GTTGATTTTTTT
66 GTTGA--TTTTT
* *
60305574 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
*
60305639 GTTGA--ATT
66 GTTGATTTTT
* *
60305647 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
60305699 TGAACAGAAA
Statistics
Matches: 248, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
72 46 0.19
73 5 0.02
74 39 0.16
75 58 0.23
76 25 0.10
77 75 0.30
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGA
GTTGATTTTT
Found at i:60305681 original size:149 final size:148
Alignment explanation
Indices: 60305346--60305698 Score: 467
Period size: 149 Copynumber: 2.4 Consensus size: 148
60305336 AAGGCAAAAA
* * * * ***
60305346 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACCCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCACAATAC
* * * *
60305411 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCACATC
64 GAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACATC
*
60305476 TCGCAATATGAGTTGATTTTT
129 TCGCAATATGAGTTGA-TATT
* * *
60305497 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
* **
60305562 GTTGATTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTT
66 GTTGA--TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACAT
60305627 CTCGCAATATGAGTTGA-ATT
128 CTCGCAATATGAGTTGATATT
*
60305647 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
60305699 TGAACAGAAA
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
149 76 0.42
150 5 0.03
151 39 0.22
152 59 0.33
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (148 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCACAATACGA
GTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACATCTC
GCAATATGAGTTGATATT
Found at i:60305718 original size:49 final size:49
Alignment explanation
Indices: 60305652--60305747 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
60305642 GAATTTTGAA
*
60305652 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
60305701 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60305748 CTTGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:60305733 original size:121 final size:121
Alignment explanation
Indices: 60305580--60305819 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
60305570 TTTTTTGAAA
*
60305580 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
*
60305645 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * * *
60305701 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
60305766 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
60305820 CTCGCAATAT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:60305780 original size:72 final size:72
Alignment explanation
Indices: 60305701--60305841 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
60305691 ACTCATTTTG
*
60305701 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
60305766 TTTTGAA
66 TTTTGAA
60305773 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
60305838 TTTT
66 TTTT
60305842 TTTTTTTGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:60306041 original size:140 final size:140
Alignment explanation
Indices: 60305847--60306473 Score: 1123
Period size: 140 Copynumber: 4.5 Consensus size: 140
60305837 ATTTTTTTTT
*
60305847 TTGAAAGACAGAAATTGAAAATACTTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
* *
60305911 TGAGCTGATTTTGAAAAAGTAAAAATTAAAAGGTTCAACCCACCTCTCGCAATACGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
*
60305976 TTGAACAACATAAA
127 TTGAACAACGTAAA
*
60305990 CTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
60306055 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
60306120 ACAACGTAAA
131 ACAACGTAAA
*
60306130 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
60306195 CTGATTTTGAAAAAGTAGAAATTAAAAGCTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
60306260 ACAACGTAAA
131 ACAACGTAAA
60306270 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60306335 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTT-A
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
60306399 ACAACGTAAA
131 ACAACGTAAA
*
60306409 TTAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
60306474 TTGAAATTAA
Statistics
Matches: 470, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
139 78 0.17
140 365 0.78
142 22 0.05
143 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:60306131 original size:54 final size:54
Alignment explanation
Indices: 60306031--60306136 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
60306021 GACCTGAGGC
*
60306031 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
60306085 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
60306137 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 32 0.71
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:60306271 original size:54 final size:54
Alignment explanation
Indices: 60306171--60306276 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
60306161 GACCTGAGGC
*
60306171 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGCT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGCT
* *
60306225 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
60306277 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGCT
Found at i:60306522 original size:72 final size:71
Alignment explanation
Indices: 60306406--60306571 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
60306396 TTAACAACGT
* * *
60306406 AAATTAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
60306471 GAGTTG
66 GAGTTG
* *
60306477 AAATTAAAACACAAAAATTGAAAATACCTTAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
60306542 TGAGTTG
65 TGAGTTG
**
60306549 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
60306572 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 13 0.15
72 69 0.80
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.23
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:60306666 original size:122 final size:123
Alignment explanation
Indices: 60306446--60306691 Score: 372
Period size: 122 Copynumber: 2.0 Consensus size: 123
60306436 GCGTGACCTG
* * *
60306446 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
60306511 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA-AAAAATTAAA
* * * *
60306571 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
60306633 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
60306691 A
1 A
60306692 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
120 11 0.10
121 4 0.04
122 62 0.55
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
Found at i:60306717 original size:70 final size:70
Alignment explanation
Indices: 60306571--60306744 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 70
60306561 AAAAATTAAA
* * * * * *
60306571 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
60306635 CCCCG
66 CCCCG
*
60306640 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
60306704 GTCTTG
65 GCCCCG
60306710 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
60306745 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:60314721 original size:12 final size:12
Alignment explanation
Indices: 60314699--60314734 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
60314689 TGGGATATGC
*
60314699 AATGAATGAATG
1 AATGCATGAATG
*
60314711 GATGCATGAATG
1 AATGCATGAATG
60314723 AATGCATGAATG
1 AATGCATGAATG
60314735 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:60314721 original size:16 final size:17
Alignment explanation
Indices: 60314695--60314726 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
60314685 AGTATGGGAT
60314695 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
60314712 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
60314727 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:60316740 original size:2 final size:2
Alignment explanation
Indices: 60316697--60316721 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60316687 GGTATTTAAA
60316697 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60316722 ATAGTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60316754 original size:39 final size:38
Alignment explanation
Indices: 60316671--60316785 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 38
60316661 TTGTAATAAT
* *
60316671 AATATATACAC-AATATGGTATTTAAAATATATATAT-ATA
1 AATATATA-ACTAATA--GTATTTAAAATATATACATAAGA
*
60316710 TATATATATA-TAATAGTATTTAAGAATATATACATAAGA
1 AATATATA-ACTAATAGTATTTAA-AATATATACATAAGA
* * *
60316749 AATATATAACTAATGGCATTAAAAAATATATACATAA
1 AATATATAACTAATAGTATT-TAAAATATATACATAA
60316786 TATATATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
37 8 0.13
38 11 0.17
39 42 0.67
40 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (38 bp):
AATATATAACTAATAGTATTTAAAATATATACATAAGA
Found at i:60316793 original size:39 final size:39
Alignment explanation
Indices: 60316694--60316793 Score: 114
Period size: 39 Copynumber: 2.6 Consensus size: 39
60316684 TATGGTATTT
* * *
60316694 AAAATATATATAT-ATATATATATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATATAATAGCATTAA
* * * *
60316732 AGAATATATACATAAGAAATATATA-ACTAATGGCATTAA
1 AAAATATATACATAATATATATATATA-TAATAGCATTAA
60316771 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
60316794 AAATACCTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 12 0.24
39 38 0.76
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (39 bp):
AAAATATATACATAATATATATATATATAATAGCATTAA
Found at i:60317302 original size:21 final size:21
Alignment explanation
Indices: 60317276--60317323 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
60317266 GGTTTCTTGG
*
60317276 TTTTTTTTTGGGGGTTAGGTT
1 TTTTTTTTTGGAGGTTAGGTT
**
60317297 TTTTTTTTTTTAGGTTAGGTT
1 TTTTTTTTTGGAGGTTAGGTT
60317318 TTTTTT
1 TTTTTT
60317324 GGGAGACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.00, G:0.23, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTGGAGGTTAGGTT
Found at i:60317503 original size:21 final size:18
Alignment explanation
Indices: 60317477--60317523 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
60317467 GGGCTTCTAC
60317477 ATAGATAATAATAATACAATA
1 ATAGATAATAA-AAT--AATA
60317498 ATAGATAATAAAATAATA
1 ATAGATAATAAAATAATA
60317516 ATAG-TAAT
1 ATAGATAAT
60317524 GAAGGCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.15
18 8 0.31
20 3 0.12
21 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (18 bp):
ATAGATAATAAAATAATA
Found at i:60317507 original size:15 final size:14
Alignment explanation
Indices: 60317481--60317518 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
60317471 TTCTACATAG
*
60317481 ATAATAATAATACA
1 ATAATAATAATAAA
60317495 ATAATAGATAATAAA
1 ATAATA-ATAATAAA
60317510 ATAATAATA
1 ATAATAATA
60317519 GTAATGAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:60317507 original size:18 final size:18
Alignment explanation
Indices: 60317484--60317523 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
60317474 TACATAGATA
*
60317484 ATAATAATACAATAATAG
1 ATAATAAAACAATAATAG
*
60317502 ATAATAAAATAATAATAG
1 ATAATAAAACAATAATAG
60317520 -TAAT
1 ATAAT
60317524 GAAGGCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
ATAATAAAACAATAATAG
Found at i:60318529 original size:3 final size:3
Alignment explanation
Indices: 60318521--60318570 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
60318511 TTGATATCTG
60318521 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60318569 TT
1 TT
60318571 CTCCCTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:60319968 original size:69 final size:69
Alignment explanation
Indices: 60319850--60319989 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
60319840 CTAAAATTGA
60319850 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
1 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
60319915 TTGT
66 TTGT
* * *
60319919 ATGATATTACATGTTTTTAGGGGTTAATGTGTAAATTTGTCATTGTATTTCACTTTGCTTGATTT
1 ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
60319984 TTGT
66 TTGT
60319988 AT
1 AT
60319990 TCGTAGTTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.51
Consensus pattern (69 bp):
ATGATATTACATGCTTTTAGGGGTTAATGTGTAAATTTGTCACTATATTTCACTTTGCTTGATTT
TTGT
Found at i:60320734 original size:30 final size:29
Alignment explanation
Indices: 60320662--60320734 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
60320652 ATGTTTTTGA
* *
60320662 CAAATTTTAATTAAAAATCAAAGTTGGTGT
1 CAAAATTTAA-TAAAAATCAAAGTTAGTGT
* *
60320692 CAAAATTCAATAAAATTCAAAGTTTAGTGGT
1 CAAAATTTAATAAAAATCAAAG-TTAGT-GT
60320723 -AAAATTTAATAA
1 CAAAATTTAATAA
60320735 CACAAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 11 0.31
30 23 0.64
31 2 0.06
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (29 bp):
CAAAATTTAATAAAAATCAAAGTTAGTGT
Found at i:60321121 original size:23 final size:23
Alignment explanation
Indices: 60321095--60321142 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
60321085 ATTTAGTACC
60321095 TAAGTTTTTACACTTTTTTTTAA
1 TAAGTTTTTACACTTTTTTTTAA
60321118 TAAGTTTTTACACTTTTTTTTAA
1 TAAGTTTTTACACTTTTTTTTAA
60321141 TA
1 TA
60321143 TGATATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (23 bp):
TAAGTTTTTACACTTTTTTTTAA
Found at i:60324096 original size:71 final size:71
Alignment explanation
Indices: 60323991--60324123 Score: 212
Period size: 71 Copynumber: 1.9 Consensus size: 71
60323981 CATATTTGTT
* * *
60323991 GGTTTTACCGACCAGCGTAGGGCGCATTTATTGTCGGTTATACCAACCAGTGCTGGGCACACATA
1 GGTTCTACCGACCAGCGTAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCTAGGCACACATA
60324056 TTTTCC
66 TTTTCC
* **
60324062 GGTTCTACCGACCAGCTTAGGGCGCATTTATTGTCAGTTATACTGACCAGTGCTAGGCACAC
1 GGTTCTACCGACCAGCGTAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCTAGGCACAC
60324124 TAATTGTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (71 bp):
GGTTCTACCGACCAGCGTAGGGCGCATTTATTGTCAGTTATACCAACCAGTGCTAGGCACACATA
TTTTCC
Found at i:60324110 original size:35 final size:35
Alignment explanation
Indices: 60323986--60324111 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 35
60323976 TCATACATAT
* * *
60323986 TTGTTGGTTTTACCGACCAGCGTAGGGCGCATTTA
1 TTGTCGGTTATACCGACCAGCTTAGGGCGCATTTA
* * **
60324021 TTGTCGGTTATACCAACCAG-TGCT-GGGCACACATA
1 TTGTCGGTTATACCGACCAGCT--TAGGGCGCATTTA
* *
60324056 TTTTCCGGTTCTACCGACCAGCTTAGGGCGCATTTA
1 TTGT-CGGTTATACCGACCAGCTTAGGGCGCATTTA
* *
60324092 TTGTCAGTTATACTGACCAG
1 TTGTCGGTTATACCGACCAG
60324112 TGCTAGGCAC
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
35 42 0.61
36 26 0.38
37 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (35 bp):
TTGTCGGTTATACCGACCAGCTTAGGGCGCATTTA
Found at i:60325537 original size:132 final size:126
Alignment explanation
Indices: 60325301--60325557 Score: 329
Period size: 132 Copynumber: 2.0 Consensus size: 126
60325291 TAACATATTA
**
60325301 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTTTTACTCATA
1 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACTCATA
* *
60325366 TTTTTTTTTCATGTTGCTTCAAGCTTTTTAACATTTTAATTAATGATTTTTAACATATTAGTTTT
66 TTTTTTTTTCACGTTGCTTCAAG--TTTT---ATTTTAATCAAT-ATTTTTAACATATTAGTTTT
60325431 TT
125 TT
* *
60325433 GTTAGATGGTTAGATAGTTGTAATTACATCATTGAGTCTCGAGTTTGATTCCTCTACTACTCGCA
1 GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACT--CA
60325498 TTTGTATTTTTTATTTCACGTTGCTTCAAG-TTT-TTTTAATCAATATTTTTAACATATTAG
64 ----TATTTTTT-TTTCACGTTGCTTCAAGTTTTATTTTAATCAATATTTTTAACATATTAG
60325558 CTCTGTCGAA
Statistics
Matches: 112, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
131 16 0.14
132 67 0.60
134 2 0.02
136 3 0.03
138 8 0.07
139 16 0.14
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (126 bp):
GTTAGATGGTTAGATAGTTGCAATTACATCATTGAGTCTCAAGTTTGATTCCTCTACTACTCATA
TTTTTTTTTCACGTTGCTTCAAGTTTTATTTTAATCAATATTTTTAACATATTAGTTTTTT
Found at i:60326708 original size:25 final size:27
Alignment explanation
Indices: 60326674--60326732 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
60326664 GTAGAAAGGG
60326674 TTTAAAATAAGCT-ATATA-AAAT-AAT
1 TTTAAAATAAG-TAATATATAAATCAAT
*
60326699 TTTAAAATAAGTAATATATAAGTCAAT
1 TTTAAAATAAGTAATATATAAATCAAT
60326726 TTTAAAA
1 TTTAAAA
60326733 ACAATAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 1 0.03
25 16 0.53
26 3 0.10
27 10 0.33
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (27 bp):
TTTAAAATAAGTAATATATAAATCAAT
Found at i:60327045 original size:4 final size:4
Alignment explanation
Indices: 60327036--60327067 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
60327026 AAACATTTTA
60327036 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
60327068 AGGATTCAGG
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:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:60331022 original size:26 final size:26
Alignment explanation
Indices: 60330992--60331073 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
60330982 TGAAATTCCC
*
60330992 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60331018 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60331044 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60331070 ATCA
1 ATCA
60331074 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60331599 original size:16 final size:16
Alignment explanation
Indices: 60331578--60331632 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 16
60331568 TTGATGATAT
60331578 TTTTTAATTATTTTTA
1 TTTTTAATTATTTTTA
60331594 TTTTTAATTAATTAATTTTTTA
1 --TTT--TTAATT-A-TTTTTA
60331616 TTTTTAATTATTTTTA
1 TTTTTAATTATTTTTA
60331632 T
1 T
60331633 AATCATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 9 0.27
20 9 0.27
21 1 0.03
22 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTAATTATTTTTA
Found at i:60331616 original size:22 final size:20
Alignment explanation
Indices: 60331547--60331625 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 20
60331537 TTTCAATCTT
60331547 TTTTTATTTTTAATTAATGT-
1 TTTTTATTTTTAATTAAT-TA
*
60331567 TTTGATGATATTTT--TTAATTA
1 TTT--TTAT-TTTTAATTAATTA
60331588 TTTTTATTTTTAATTAATTAA
1 TTTTTATTTTTAATTAATT-A
60331609 TTTTTTATTTTTAATTA
1 -TTTTTATTTTTAATTA
60331626 TTTTTATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 4 0.08
19 3 0.06
20 10 0.20
21 9 0.18
22 19 0.39
23 4 0.08
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTTATTTTTAATTAATTA
Found at i:60333089 original size:32 final size:32
Alignment explanation
Indices: 60333053--60333131 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
60333043 TTATAGAATT
* *
60333053 ATTGAGATTTTTTAAAAATACCGGAAGGTTTG
1 ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
* ***
60333085 ATTGA-AATTTTTAAAACTTTTGGAAGGCTTG
1 ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
60333116 ATT-AGAATTTTTAAAA
1 ATTGAGAATTTTTAAAA
60333132 GTTTTAAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.03
31 34 0.85
32 5 0.12
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.41
Consensus pattern (32 bp):
ATTGAGAATTTTTAAAAATACCGGAAGGCTTG
Found at i:60334394 original size:4 final size:4
Alignment explanation
Indices: 60334385--60334410 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60334375 TTTTTGTGTA
60334385 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
60334411 TTGCTGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:60335873 original size:2 final size:2
Alignment explanation
Indices: 60335868--60335892 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60335858 CTGTAAAATC
60335868 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
60335893 ATTCAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60338692 original size:14 final size:14
Alignment explanation
Indices: 60338620--60338695 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
60338610 GTCAGGTATT
*
60338620 ATAAAAGAAGAAAGA
1 ATAAAAAAAGAAA-A
60338635 A-AAAAATAAGAAAA
1 ATAAAAA-AAGAAAA
* * *
60338649 ATAAAGAGAGATAA
1 ATAAAAAAAGAAAA
*
60338663 ATAATCTAAAAG--AA
1 ATAA--AAAAAGAAAA
60338677 ATAAAAAAAGAAAA
1 ATAAAAAAAGAAAA
60338691 ATAAA
1 ATAAA
60338696 TGAATTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
12 5 0.11
14 28 0.60
15 11 0.23
16 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.12, T:0.12
Consensus pattern (14 bp):
ATAAAAAAAGAAAA
Found at i:60339583 original size:24 final size:24
Alignment explanation
Indices: 60339555--60339638 Score: 80
Period size: 24 Copynumber: 3.3 Consensus size: 24
60339545 ATAAATTCAA
60339555 TTATTAATACTATTAAAATTTCTT
1 TTATTAATACTATTAAAATTTCTT
* * *
60339579 TTATTAAATTCAAATTAATTACAATTT-TA
1 TTATT-AA-T---ACT-ATTAAAATTTCTT
60339608 TTATTAATACTATTAAAATTTCTT
1 TTATTAATACTATTAAAATTTCTT
60339632 TTATTAA
1 TTATTAA
60339639 ATTAAAATTA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
23 9 0.19
24 15 0.32
25 2 0.04
26 1 0.02
27 1 0.02
28 2 0.04
29 8 0.17
30 9 0.19
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATTAATACTATTAAAATTTCTT
Found at i:60339642 original size:29 final size:29
Alignment explanation
Indices: 60339557--60339643 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
60339547 AAATTCAATT
60339557 ATTAATACTATTAAAATTTCTTTTATTAA
1 ATTAATACTATTAAAATTTCTTTTATTAA
* *
60339586 ATTCA-A--ATT--AATTACAATTTTATT--
1 ATTAATACTATTAAAATTTC--TTTTATTAA
60339610 ATTAATACTATTAAAATTTCTTTTATTAA
1 ATTAATACTATTAAAATTTCTTTTATTAA
60339639 ATTAA
1 ATTAA
60339644 AATTAATTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
24 9 0.20
25 1 0.02
26 10 0.22
27 10 0.22
28 1 0.02
29 14 0.31
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTAATACTATTAAAATTTCTTTTATTAA
Found at i:60341536 original size:22 final size:21
Alignment explanation
Indices: 60341473--60341538 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
60341463 CCACGTCAAT
*
60341473 AAATAATTAAAAAAT-TATAA
1 AAATATTTAAAAAATATATAA
* *
60341493 AAATATTCAAAAAATA-AAATA
1 AAATATTTAAAAAATATATA-A
60341514 AAATGATTTTAAAAAATATATAA
1 AAAT-A-TTTAAAAAATATATAA
60341537 AA
1 AA
60341539 GTTTATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 15 0.42
21 5 0.14
22 1 0.03
23 13 0.36
24 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAATATTTAAAAAATATATAA
Found at i:60341786 original size:42 final size:42
Alignment explanation
Indices: 60341738--60341820 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
60341728 TTAAAAAAAC
*
60341738 ATAAAATAATTTTTTAAGACTATTTGT-GTAATAAAAAAGTAT
1 ATAAAATAATTTTTTAAAACTATTTGTAG-AATAAAAAAGTAT
60341780 ATAAAATAATTTTTTAAAACTATTTGTAGAATAAAAAAGTA
1 ATAAAATAATTTTTTAAAACTATTTGTAGAATAAAAAAGTA
60341821 CACTACTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (42 bp):
ATAAAATAATTTTTTAAAACTATTTGTAGAATAAAAAAGTAT
Found at i:60342680 original size:19 final size:20
Alignment explanation
Indices: 60342642--60342682 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60342632 ATTTAGTTGA
*
60342642 AAAAATTTAAAAATTATTAT
1 AAAAATTCAAAAATTATTAT
*
60342662 AAAAATTCAATAATT-TTAT
1 AAAAATTCAAAAATTATTAT
60342681 AA
1 AA
60342683 TTTTTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAAAATTATTAT
Found at i:60344694 original size:16 final size:16
Alignment explanation
Indices: 60344669--60344699 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60344659 ATAGATTATT
*
60344669 AAAATTTTAAAAATTA
1 AAAATATTAAAAATTA
60344685 AAAATATTAAAAATT
1 AAAATATTAAAAATT
60344700 TAGTTCAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATTAAAAATTA
Found at i:60352484 original size:17 final size:16
Alignment explanation
Indices: 60352445--60352493 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
60352435 TTAATAATTA
*
60352445 AATTTAATTAAAAAAG
1 AATTAAATTAAAAAAG
60352461 AATTAAATTAATAAAAG
1 AATTAAATTAA-AAAAG
*
60352478 ATATAAATATTAAAAA
1 A-ATTAA-ATTAAAAA
60352494 TTAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.36
17 6 0.21
18 7 0.25
19 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
AATTAAATTAAAAAAG
Found at i:60352585 original size:2 final size:2
Alignment explanation
Indices: 60352580--60352610 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60352570 AAAACATGAG
60352580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60352611 CACATTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60353117 original size:18 final size:18
Alignment explanation
Indices: 60353086--60353120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60353076 TCATTATAGC
* *
60353086 TATGTTTATGAATTTTGA
1 TATGTATATAAATTTTGA
60353104 TATGTATATAAATTTTG
1 TATGTATATAAATTTTG
60353121 TTGTTTTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
TATGTATATAAATTTTGA
Found at i:60360233 original size:70 final size:67
Alignment explanation
Indices: 60360151--60360307 Score: 179
Period size: 70 Copynumber: 2.3 Consensus size: 67
60360141 ACTCTTTGTT
* *
60360151 TTGGTGTGTTTCGGTTGGAGTAGCTCTTATGAGCATTAGTGTACTTCAGAGGGATTATCTCTTAC
1 TTGGTGTGTTTCGGTTGGAGTAGCTCTTATGAGCAGT-GTGT--TTCAGAGGGATTAGCTCTTAC
60360216 AAGCA
63 AAGCA
** * * * * **
60360221 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCAGTGTGTTTCGGATGGATTGGCTCTTATGAG
1 TTGGTGTGTTTCGGTTGGAGTAGCTCTTATGAGCAGTGTGTTTCAGAGGGATTAGCTCTTACAAG
60360286 CA
66 CA
*
60360288 TCTGGTGTGCTTCGGTTGGA
1 T-TGGTGTGTTTCGGTTGGA
60360308 TTGTTGATGT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
67 21 0.29
68 15 0.21
69 4 0.05
70 33 0.45
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (67 bp):
TTGGTGTGTTTCGGTTGGAGTAGCTCTTATGAGCAGTGTGTTTCAGAGGGATTAGCTCTTACAAG
CA
Found at i:60360265 original size:32 final size:32
Alignment explanation
Indices: 60360154--60360287 Score: 124
Period size: 35 Copynumber: 4.0 Consensus size: 32
60360144 CTTTGTTTTG
** *
60360154 GTGTGTTTCGGTTGGAGTAGCTCTTATGAGCA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* * * **
60360186 TTAGTGTACTTCAGAGGGATTATCTCTTACAAGCA
1 GT-GTGT--TTCGGAGGGATTAGCTCTTATGAGCA
60360221 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
1 ---GTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* *
60360256 GTGTGTTTCGGATGGATTGGCTCTTATGAGCA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
60360288 TCTGGTGTGC
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
32 31 0.38
33 4 0.05
35 41 0.51
37 4 0.05
38 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (32 bp):
GTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:60360753 original size:22 final size:23
Alignment explanation
Indices: 60360699--60360779 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
60360689 TTGAGCTGAT
* * *
60360699 AAACAATAAGCTTTATTGAGCTC
1 AAACAGTAAGCTCTATCGAGCTC
60360722 AAAC-GATAAGCTCTATCGAGCT-
1 AAACAG-TAAGCTCTATCGAGCTC
* *
60360744 AAACAGTAAGCTC-ATACAAGCTG
1 AAACAGTAAGCTCTAT-CGAGCTC
60360767 AAACAGTAAGCTC
1 AAACAGTAAGCTC
60360780 CAGCTGTGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.04
22 16 0.32
23 32 0.64
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (23 bp):
AAACAGTAAGCTCTATCGAGCTC
Found at i:60365307 original size:24 final size:23
Alignment explanation
Indices: 60365280--60365347 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
60365270 ATATTTTAAT
60365280 ATAATTATTATTAAATATAATTTA
1 ATAA-TATTATTAAATATAATTTA
* * *
60365304 ATAACAATAATAATATATAATTTA
1 ATAATATTATTAA-ATATAATTTA
*
60365328 ATAATATT-TTTAATATAATT
1 ATAATATTATTAAATATAATT
60365348 ATTTTTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 20 0.56
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
ATAATATTATTAAATATAATTTA
Found at i:60365325 original size:40 final size:37
Alignment explanation
Indices: 60365246--60365320 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
60365236 ATTTAATAAG
**
60365246 ATTATTATTAAAAATAATTTAATCATATTTTAATATA
1 ATTATTATTAAAAATAATTTAATCATATAATAATATA
*
60365283 ATTATTATTAAATATAATTTAATAACA-ATAATAATATA
1 ATTATTATTAAAAATAATTTAAT--CATATAATAATATA
60365321 TAATTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 22 0.67
38 9 0.27
39 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTATTATTAAAAATAATTTAATCATATAATAATATA
Found at i:60370349 original size:40 final size:40
Alignment explanation
Indices: 60370288--60370363 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
60370278 CGGTACCTTA
*
60370288 TGGTGTGTAGGGTTTGATGGGTTGATTAAATCCCCATACT
1 TGGTGTGTAGGGTTTGATGGGTCGATTAAATCCCCATACT
**
60370328 TGGTGTGTAGGG-TTGAGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGTTTGA-TGGGTCGATTAAATCCCCA
60370364 CATGGTGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.17, C:0.14, G:0.33, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTTGATGGGTCGATTAAATCCCCATACT
Found at i:60370887 original size:13 final size:13
Alignment explanation
Indices: 60370869--60370894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60370859 CACTTGATAA
60370869 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
60370882 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
60370895 TATTCTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:60371404 original size:5 final size:5
Alignment explanation
Indices: 60371394--60371421 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
60371384 GGAAATTGAG
60371394 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
60371422 GAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:60375911 original size:5 final size:5
Alignment explanation
Indices: 60375901--60375934 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
60375891 CCAATTTGAG
60375901 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
60375935 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:60383012 original size:264 final size:264
Alignment explanation
Indices: 60382541--60383074 Score: 951
Period size: 264 Copynumber: 2.0 Consensus size: 264
60382531 GAGTCATGAG
60382541 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
1 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
* *
60382606 TTTTCTTTTTTTGATCCTACTGCTCGTTACTCTCTCTTATCTCAGACTCTTCTGTCTGATTACTG
66 TTTTCTTTTTTCGATCCTACTGCTCGTTACTCTCTCTCATCTCAGACTCTTCTGTCTGATTACTG
* *
60382671 TTTTTAGAAGAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGTTATT
131 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
*
60382736 ATCCACTACATTGTCATTTGTGGTCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
196 ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
60382801 ATTA
261 ATTA
60382805 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
1 ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
* * * *
60382870 TTTTCTTTTTTCGATCCTGCTGCTTGTTACTCTCTCTCATCTCAGAGTCTTCTGTCTGATTATTG
66 TTTTCTTTTTTCGATCCTACTGCTCGTTACTCTCTCTCATCTCAGACTCTTCTGTCTGATTACTG
*
60382935 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACTGTTACCTCTGCTATT
131 TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
**
60383000 ATCCTTTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
196 ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
60383065 ATTA
261 ATTA
*
60383069 AATTTG
1 ATTTTG
60383075 GTGGCAGACA
Statistics
Matches: 257, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 257 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.44
Consensus pattern (264 bp):
ATTTTGAGTTATGGCTCAGTTTGTGTTATCTGTTGTCTGCCTTTGAATAATTCTGGTATATTTGA
TTTTCTTTTTTCGATCCTACTGCTCGTTACTCTCTCTCATCTCAGACTCTTCTGTCTGATTACTG
TTTTTAGAACAATTATTTAAAAGGTTTTGGTTTAGAGGAAATAGTGGACCGTTACCTCTGCTATT
ATCCACTACATTGTCATTTGTGGCCACGATCCACCGCTATTGATGTGAAATTTGTTCACACCACT
ATTA
Found at i:60389394 original size:35 final size:35
Alignment explanation
Indices: 60389348--60389458 Score: 159
Period size: 35 Copynumber: 3.0 Consensus size: 35
60389338 CACTTGCCTC
60389348 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60389383 TTCCCACTCTCCCATGCTGGTGAGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGC---T--GTCTGCCACCAGCACCA
* *
60389423 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60389458 T
1 T
60389459 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
35 33 0.49
37 1 0.01
38 1 0.01
40 33 0.49
ACGTcount: A:0.16, C:0.47, G:0.14, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:60389900 original size:31 final size:30
Alignment explanation
Indices: 60389859--60389931 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
60389849 AAAGAGGGGA
*
60389859 AGCAAAAAAAAAAATCCAGCAAAAAATTCC
1 AGCAAAAAAAAAAATCCAGAAAAAAATTCC
* *
60389889 AGCACAAAAAAAAATTCCAGAAAAAAATTTC
1 AGCA-AAAAAAAAAATCCAGAAAAAAATTCC
60389920 AGCAAAAAAAAA
1 AGCAAAAAAAAA
60389932 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 12 0.31
31 27 0.69
ACGTcount: A:0.66, C:0.16, G:0.07, T:0.11
Consensus pattern (30 bp):
AGCAAAAAAAAAAATCCAGAAAAAAATTCC
Found at i:60389912 original size:13 final size:14
Alignment explanation
Indices: 60389865--60389929 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 14
60389855 GGGAAGCAAA
*
60389865 AAAAAAAATCCAGC
1 AAAAAAATTCCAGC
60389879 -AAAAAATTCCAGCAC
1 AAAAAAATTCCAG--C
60389894 AAAAAAAAATTCCAG-
1 --AAAAAAATTCCAGC
*
60389909 AAAAAAATTTCAGC
1 AAAAAAATTCCAGC
60389923 AAAAAAA
1 AAAAAAA
60389930 AACCAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
13 23 0.53
14 7 0.16
15 1 0.02
18 12 0.28
ACGTcount: A:0.65, C:0.17, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAAATTCCAGC
Found at i:60389915 original size:18 final size:18
Alignment explanation
Indices: 60389879--60389915 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60389869 AAAATCCAGC
* *
60389879 AAAAAATTCCAGCACAAA
1 AAAAAATTCCAGAAAAAA
60389897 AAAAAATTCCAGAAAAAA
1 AAAAAATTCCAGAAAAAA
60389915 A
1 A
60389916 TTTCAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.16, G:0.05, T:0.11
Consensus pattern (18 bp):
AAAAAATTCCAGAAAAAA
Found at i:60390218 original size:10 final size:11
Alignment explanation
Indices: 60390203--60390238 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
60390193 CTTCCCCCTC
60390203 CCTTCTCTC-T
1 CCTTCTCTCTT
60390213 CCTTCTCTCTT
1 CCTTCTCTCTT
*
60390224 CCCTCTCTCTT
1 CCTTCTCTCTT
60390235 CCTT
1 CCTT
60390239 TTTTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CCTTCTCTCTT
Found at i:60390796 original size:24 final size:25
Alignment explanation
Indices: 60390754--60390888 Score: 120
Period size: 24 Copynumber: 5.4 Consensus size: 25
60390744 TCATTTCTAA
60390754 TATGTATATATATATATATATATAT
1 TATGTATATATATATATATATATAT
60390779 TATGTATAT-TATATATATATATAT
1 TATGTATATATATATATATATATAT
* *
60390803 TATGTATATATGCCATTAGTTATATATTTCT
1 TATGTATATAT---A-TA--TATATATATAT
* *
60390834 TATGTATATAT-TCT-TA-A-ATAC
1 TATGTATATATATATATATATATAT
*
60390855 TAT-TATATACATATATATATATAT
1 TATGTATATATATATATATATATAT
60390879 ATATGTATAT
1 -TATGTATAT
60390889 TTTAAATTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 25
0.72 0.07 0.20
Matches are distributed among these distances:
20 6 0.07
21 6 0.07
22 3 0.03
23 3 0.03
24 28 0.32
25 13 0.15
26 6 0.07
28 1 0.01
29 2 0.02
31 20 0.23
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (25 bp):
TATGTATATATATATATATATATAT
Found at i:60390829 original size:2 final size:2
Alignment explanation
Indices: 60390753--60390813 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
60390743 ATCATTTCTA
* *
60390753 AT AT GT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
60390793 AT AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
60390814 GCCATTAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:60391058 original size:13 final size:13
Alignment explanation
Indices: 60391037--60391066 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60391027 ATATTATTGT
60391037 TGTAAATTTTTTA
1 TGTAAATTTTTTA
*
60391050 TGTATATTTTTTA
1 TGTAAATTTTTTA
60391063 TGTA
1 TGTA
60391067 CGTTTCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (13 bp):
TGTAAATTTTTTA
Found at i:60406432 original size:70 final size:70
Alignment explanation
Indices: 60406345--60406931 Score: 987
Period size: 70 Copynumber: 8.2 Consensus size: 70
60406335 CAAGTGACAG
*
60406345 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406410 GTTTC
66 GTTTC
60406415 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406480 GTTTC
66 GTTTC
*
60406485 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406550 GTTTC
66 GTTTC
*
60406555 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
60406620 AATTTATGTTTC
59 AATTTATGTTTC
*
60406632 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406697 GTTTC
66 GTTTC
*
60406702 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406767 GTTTC
66 GTTTC
60406772 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-ACACGTTGAGGTAATTTCAATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
60406836 ATTTATGTTTC
60 ATTTATGTTTC
*
60406847 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
60406912 GTTTC
66 GTTTC
60406917 AAAAATCAACTCATA
1 -AAAATCAACTCATA
60406932 GGTGAGTTGA
Statistics
Matches: 492, Mismatches: 10, Indels: 29
0.93 0.02 0.05
Matches are distributed among these distances:
69 11 0.02
70 327 0.66
71 17 0.03
72 1 0.00
74 1 0.00
75 57 0.12
76 13 0.03
77 65 0.13
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:60406713 original size:217 final size:216
Alignment explanation
Indices: 60406345--60406931 Score: 1080
Period size: 217 Copynumber: 2.7 Consensus size: 216
60406335 CAAGTGACAG
* *
60406345 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTCA
*
60406404 ATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
66 ATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
60406469 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
131 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
60406534 GGTAATTTCAATTTATGTTTC
196 GGTAATTTCAATTTATGTTTC
60406555 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA-TTTC
60406620 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
65 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
60406685 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
130 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
60406750 AGGTAATTTCAATTTATGTTTC
195 AGGTAATTTCAATTTATGTTTC
60406772 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAACACGTTGAGGTAATTTCAATTTCA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTCA
60406836 ATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
66 ATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
60406901 TTTCAATTTATGTTTCAAAAATCAACTCATA
131 TTTCAATTTATGTTTC-AAAATCAACTCATA
60406932 GGTGAGTTGA
Statistics
Matches: 366, Mismatches: 3, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
210 49 0.13
215 87 0.24
216 38 0.10
217 192 0.52
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (216 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTCA
ATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
GGTAATTTCAATTTATGTTTC
Found at i:60407903 original size:35 final size:35
Alignment explanation
Indices: 60407857--60407962 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
60407847 CACTTGCCTC
60407857 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60407892 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
60407927 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
60407962 T
1 T
60407963 CACACCCCCA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:60408385 original size:14 final size:14
Alignment explanation
Indices: 60408368--60408450 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 14
60408358 GGGAAGCAAA
60408368 AAAAAAAATCCAGC
1 AAAAAAAATCCAGC
*
60408382 -AAAAAATTCCAGCACC
1 AAAAAAAATCCAG---C
60408398 AAAAAAAATTTCCAG-
1 AAAAAAAA--TCCAGC
*
60408413 AAAAAAATTTCCAGC
1 AAAAAAA-ATCCAGC
* **
60408428 AAAAAAAAACCAAA
1 AAAAAAAATCCAGC
60408442 AAAAAAAAT
1 AAAAAAAAT
60408451 AGAACGACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
13 11 0.21
14 16 0.30
15 14 0.26
16 1 0.02
17 6 0.11
19 5 0.09
ACGTcount: A:0.65, C:0.18, G:0.05, T:0.12
Consensus pattern (14 bp):
AAAAAAAATCCAGC
Found at i:60408412 original size:32 final size:31
Alignment explanation
Indices: 60408362--60408436 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
60408352 AAAAAGGGGA
*
60408362 AGCAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAATCCAGAAAAAAATTTCC
**
60408392 AGCACCAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAAATCCAGAAAAAAATTTCC
60408425 AGCAAAAAAAAA
1 AGCAAAAAAAAA
60408437 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.10
31 8 0.21
32 19 0.49
33 8 0.21
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (31 bp):
AGCAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:60408721 original size:11 final size:11
Alignment explanation
Indices: 60408696--60408739 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
60408686 CGACCGGATT
*
60408696 TCCCTTC-CCC
1 TCCCTTCTCTC
60408706 TCCCTTCTCTC
1 TCCCTTCTCTC
60408717 TCCCTTCTCTC
1 TCCCTTCTCTC
60408728 TTCCC-TCTCTC
1 -TCCCTTCTCTC
60408739 T
1 T
60408740 TCTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 8 0.26
11 19 0.61
12 4 0.13
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:60409294 original size:22 final size:23
Alignment explanation
Indices: 60409262--60409313 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
60409252 ATTTCTAATA
60409262 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
60409285 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
60409307 TATATAT
1 TGTATAT
60409314 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:60409329 original size:2 final size:2
Alignment explanation
Indices: 60409259--60409313 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
60409249 ATCATTTCTA
* * *
60409259 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
60409299 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
60409314 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Done.