Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 158 of 438
Found at i:48037893 original size:48 final size:49
Alignment explanation
Indices: 48037716--48038022 Score: 518
Period size: 49 Copynumber: 6.4 Consensus size: 49
48037706 TACATATATG
* * *
48037716 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
48037765 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
48037814 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
48037863 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
48037910 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
48037958 TGTGAT-AGGCCTAATGGCCGATGTG--GAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
48038004 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
48038023 TAATGTAATA
Statistics
Matches: 249, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
45 13 0.05
46 13 0.05
47 44 0.18
48 80 0.32
49 99 0.40
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:48037912 original size:26 final size:26
Alignment explanation
Indices: 48037883--48037963 Score: 71
Period size: 26 Copynumber: 3.3 Consensus size: 26
48037873 CTAATGGCCG
48037883 ATGTGATGAATGTGAAAGTGATGTAT
1 ATGTGATGAATGTGAAAGTGATGTAT
* *** ***
48037909 ATGTGATG-AGGCCTAA-TG--GCCG
1 ATGTGATGAATGTGAAAGTGATGTAT
48037931 ATGTGATGAATGTGAAAGTGATGTAT
1 ATGTGATGAATGTGAAAGTGATGTAT
48037957 ATGTGAT
1 ATGTGAT
48037964 AGGCCTAATG
Statistics
Matches: 37, Mismatches: 14, Indels: 8
0.63 0.24 0.14
Matches are distributed among these distances:
22 9 0.24
23 4 0.11
24 4 0.11
25 4 0.11
26 16 0.43
ACGTcount: A:0.31, C:0.05, G:0.32, T:0.32
Consensus pattern (26 bp):
ATGTGATGAATGTGAAAGTGATGTAT
Found at i:48038002 original size:145 final size:147
Alignment explanation
Indices: 48037716--48038027 Score: 537
Period size: 145 Copynumber: 2.2 Consensus size: 147
48037706 TACATATATG
*
48037716 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
48037781 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
48037846 GTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATA
* * *
48037863 TGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
48037926 GGCCGATGTGATGAATGTGAAAGTG-ATGTATATGTGAT-AGGCCTAATGGCCGATGT-G-GAAT
66 GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
48037987 GTGAAAGTGTATGTATA
131 GTGAAAGTGTATGTATA
*
48038004 TGTGATAAGGCCTAATGGCTAATG
1 TGTGATAAGGCCTAATGGCCAATG
48038028 TAATATATGT
Statistics
Matches: 158, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
141 27 0.17
142 16 0.10
143 18 0.11
144 13 0.08
145 47 0.30
146 31 0.20
147 6 0.04
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.29
Consensus pattern (147 bp):
TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
GTGAAAGTGTATGTATA
Found at i:48038179 original size:37 final size:37
Alignment explanation
Indices: 48038116--48038241 Score: 211
Period size: 36 Copynumber: 3.4 Consensus size: 37
48038106 AAACTTGGAA
*
48038116 TATGTTCCGGGTGAGA-CCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
48038153 TATGACCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
48038190 TAT-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
48038226 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
48038242 TTCTTTTATA
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
36 44 0.52
37 40 0.48
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:48040332 original size:29 final size:29
Alignment explanation
Indices: 48040290--48040510 Score: 417
Period size: 29 Copynumber: 7.7 Consensus size: 29
48040280 GCGAATGATT
48040290 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
48040319 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
48040348 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
48040377 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
48040406 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
48040435 GAGGCACTATGTGTGCGAGATCA-TAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
48040463 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
48040492 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
48040511 TTTTTCAACA
Statistics
Matches: 189, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
28 28 0.15
29 161 0.85
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:48043686 original size:28 final size:28
Alignment explanation
Indices: 48043617--48043717 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48043607 GACAAGATTG
* * * *
48043617 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48043647 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48043675 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48043704 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48043718 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48043711 original size:29 final size:28
Alignment explanation
Indices: 48043646--48043717 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
48043636 AAAATTGTAC
*
48043646 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
48043674 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
48043703 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48043718 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:48051494 original size:28 final size:28
Alignment explanation
Indices: 48051425--48051525 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48051415 GACAAGATTG
* * * *
48051425 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48051455 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48051483 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48051512 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48051526 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48051519 original size:29 final size:28
Alignment explanation
Indices: 48051454--48051525 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
48051444 AAAATTGTAC
*
48051454 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
48051482 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
48051511 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48051526 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:48056924 original size:29 final size:29
Alignment explanation
Indices: 48056863--48056925 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
48056853 AAAGTAAATG
* * * **
48056863 GTAGATGAAAAAGGTGAAAACTTGATGGG
1 GTAGACGAAAAAAGTGAAAACTTGACGAA
*
48056892 GTAGACGAAAAAATTGAAAACTTGACGAA
1 GTAGACGAAAAAAGTGAAAACTTGACGAA
48056921 GTAGA
1 GTAGA
48056926 AGAAGCACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (29 bp):
GTAGACGAAAAAAGTGAAAACTTGACGAA
Found at i:48063506 original size:43 final size:43
Alignment explanation
Indices: 48063402--48063549 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
48063392 TATCTCGGAT
* * * * *
48063402 ATGGTCTTACATGTTATCATATATCAATGCCACTGTCCTAGAC
1 ATGGTCTTACATGTAATCATATAACAATGTCAATGTCCCAGAC
* * * * *
48063445 AAGGTCTTATACGAAATCATATAACAATGTCAATGTCCCAGGC
1 ATGGTCTTACATGTAATCATATAACAATGTCAATGTCCCAGAC
* *
48063488 ATGGTCTTACATGTAATCACA-ATACAATGTCAATGTCTCAGAC
1 ATGGTCTTACATGTAATCATATA-ACAATGTCAATGTCCCAGAC
*
48063531 ATAGTCTTACATGTAATCA
1 ATGGTCTTACATGTAATCA
48063550 CATCTCGATA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCATATAACAATGTCAATGTCCCAGAC
Found at i:48066685 original size:63 final size:64
Alignment explanation
Indices: 48066606--48066788 Score: 194
Period size: 66 Copynumber: 2.8 Consensus size: 64
48066596 AGACATTATG
*
48066606 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48066669 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48066734 AA
63 AA
* * * *
48066736 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48066789 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.40
64 5 0.05
65 6 0.06
66 40 0.41
67 5 0.05
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48071083 original size:68 final size:67
Alignment explanation
Indices: 48071008--48071157 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
48070998 CATCATGTGT
* * * *
48071008 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
48071070 ATGTAG
62 ATGTAG
** * *
48071076 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
48071141 AG
66 AG
48071143 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
48071158 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:48071113 original size:64 final size:64
Alignment explanation
Indices: 48071032--48071215 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
48071022 AGACATTATG
* *
48071032 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
48071096 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
48071161 AA
63 AA
* * * *
48071163 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
48071216 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:48075286 original size:43 final size:43
Alignment explanation
Indices: 48075151--48075323 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
48075141 ATATCGTACA
* * * **
48075151 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGCCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCG
* *
48075194 ATGCC-ACTGACCCAGACAAGGTCTTACACG-AATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCACATA-T-CG
* *
48075237 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
48075280 ATGCCAACATCCTAGACGTGGTCTTACACGAGAA-CACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCACATATCG
48075323 A
1 A
48075324 AAATCCTATG
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
42 9 0.08
43 87 0.81
44 11 0.10
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:48077469 original size:42 final size:40
Alignment explanation
Indices: 48077376--48077520 Score: 114
Period size: 43 Copynumber: 3.4 Consensus size: 40
48077366 CCTAGACGTA
* * **
48077376 GTCTTACATGAAATCAAATATCAATGCCACTGTCCCAGACAAA
1 GTCTTACACGAAATCAAATA-CAATGCCA-TGT-CCAGAGATG
* *
48077419 GTCGTACACGAAATCAAATACGATGCCGATGTCCAAGAGATG
1 GTCTTACACGAAATCAAATACAATGCC-ATGTCC-AGAGATG
*
48077461 GTCTTACACGTAAATCTCAAAT-CAATGCCAACGTTCCAGATG-TG
1 GTCTTACACG-AAA--TCAAATACAATGCC-ATG-TCCAGA-GATG
48077505 GTCTTACACGAAATCA
1 GTCTTACACGAAATCA
48077521 CATATTGGAA
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
41 5 0.06
42 22 0.26
43 25 0.29
44 23 0.27
45 10 0.12
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (40 bp):
GTCTTACACGAAATCAAATACAATGCCATGTCCAGAGATG
Found at i:48088955 original size:29 final size:29
Alignment explanation
Indices: 48088893--48088995 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
48088883 GTGACGAGAT
* * *
48088893 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
48088922 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
48088951 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
48088980 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48088996 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:48091093 original size:28 final size:28
Alignment explanation
Indices: 48091024--48091124 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48091014 GACAAGATTG
* * * *
48091024 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48091054 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48091082 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48091111 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48091125 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48099016 original size:28 final size:28
Alignment explanation
Indices: 48098947--48099047 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
48098937 GACAAGATTG
* * * *
48098947 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
48098977 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48099005 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
48099034 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
48099048 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48110411 original size:46 final size:46
Alignment explanation
Indices: 48110358--48110533 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
48110348 TATTTGGGCA
48110358 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
48110404 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
48110451 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
48110497 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48110534 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:48110513 original size:93 final size:93
Alignment explanation
Indices: 48110354--48110525 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48110344 GGGATATTTG
* *
48110354 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48110419 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
48110447 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48110512 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48110526 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:48113502 original size:15 final size:15
Alignment explanation
Indices: 48113482--48113550 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
48113472 GTATCTTGGG
48113482 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
48113497 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
48113512 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
48113527 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
48113542 TTTCTTTAT
1 TTTCTTTAT
48113551 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:48113551 original size:30 final size:30
Alignment explanation
Indices: 48113473--48113560 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
48113463 CATAGTATCG
* * * *
48113473 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
48113503 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
48113533 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
48113561 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:48115997 original size:46 final size:46
Alignment explanation
Indices: 48115944--48116119 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
48115934 TATTTGGGCA
48115944 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
48115990 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
48116037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
48116083 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48116120 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:48116099 original size:93 final size:93
Alignment explanation
Indices: 48115940--48116111 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48115930 GGGATATTTG
* *
48115940 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48116005 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
48116033 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48116098 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48116112 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:48128752 original size:19 final size:20
Alignment explanation
Indices: 48128730--48128786 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
48128720 TTTTTAGGGT
*
48128730 TAGGGTTTTG-TTTTTTAAG
1 TAGGGTTTGGTTTTTTTAAG
*
48128749 TA-GGATTGGTTTTTTTAAG
1 TAGGGTTTGGTTTTTTTAAG
48128768 TAGGGTTTAGGGTTTTTTT
1 TAGGGTTT--GGTTTTTTT
48128787 TGTTGATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 5 0.16
19 13 0.42
20 4 0.13
22 9 0.29
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (20 bp):
TAGGGTTTGGTTTTTTTAAG
Found at i:48135882 original size:79 final size:80
Alignment explanation
Indices: 48135751--48135924 Score: 307
Period size: 79 Copynumber: 2.2 Consensus size: 80
48135741 TGATAACTGG
48135751 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGT-CG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
48135815 AGTTACTAGT-TCTGA
66 AGTTACTA-TATCTGA
48135830 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
*
48135895 AGTTACTATATCTGG
66 AGTTACTATATCTGA
*
48135910 GCTATGTCCCGAAGG
1 GCTAAGTCCCGAAGG
48135925 TATTCGAGCG
Statistics
Matches: 91, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
79 63 0.69
80 28 0.31
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
AGTTACTATATCTGA
Found at i:48135946 original size:40 final size:40
Alignment explanation
Indices: 48135747--48135924 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
48135737 TGGATGATAA
48135747 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
48135787 CCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTTACTAGTT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
48135826 CTGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
*
48135866 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
*
48135906 CTGGGCTATGTCCCGAAGG
1 CTGGGCTAAGTCCCGAAGG
48135925 TATTCGAGCG
Statistics
Matches: 129, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 38 0.29
40 91 0.71
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:48140698 original size:28 final size:28
Alignment explanation
Indices: 48140664--48140718 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
48140654 GAGGTATATC
48140664 GGTAATTTTGCTCTTTAGGGGTAATTTT
1 GGTAATTTTGCTCTTTAGGGGTAATTTT
48140692 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
48140719 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.49
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTT
Found at i:48143878 original size:40 final size:40
Alignment explanation
Indices: 48143687--48143865 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
48143677 TGGATGATAA
*
48143687 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
48143727 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
* *
48143767 CTGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
48143807 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
* *
48143847 CCAGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48143866 TATTCGAGCG
Statistics
Matches: 131, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 130 0.99
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:48143885 original size:40 final size:40
Alignment explanation
Indices: 48143690--48143888 Score: 246
Period size: 40 Copynumber: 5.0 Consensus size: 40
48143680 ATGATAACCG
* *
48143690 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCA
*
48143730 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T-CT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCA
*
48143769 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-TCCG
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCA
48143810 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
* * * *
48143850 GGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
48143889 GGTTAAATCT
Statistics
Matches: 147, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
39 5 0.03
40 140 0.95
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
Found at i:48171837 original size:93 final size:93
Alignment explanation
Indices: 48171709--48171879 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
48171699 GCCCCTAAGT
* * *
48171709 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48171774 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
48171802 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48171867 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48171880 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48171876 original size:46 final size:46
Alignment explanation
Indices: 48171704--48171876 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
48171694 AACCCGCCCC
* * * *
48171704 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
48171750 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
48171798 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
48171843 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48171877 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:48175039 original size:40 final size:40
Alignment explanation
Indices: 48174984--48175200 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
48174974 CGGATGATAA
* * *
48174984 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
48175024 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
48175064 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
48175104 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
48175144 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
48175184 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
48175201 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 16 0.09
40 152 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:48183129 original size:39 final size:40
Alignment explanation
Indices: 48183048--48183338 Score: 409
Period size: 40 Copynumber: 7.4 Consensus size: 40
48183038 GATGATAACG
* *
48183048 GGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
48183087 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
48183126 GGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT--
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
48183164 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
48183204 GGGCTAAGTCCCGAAGGCATTTGTGCGA-CTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
** *
48183243 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
48183283 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
48183323 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
48183339 TACTTGGTTT
Statistics
Matches: 234, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
38 37 0.16
39 98 0.42
40 99 0.42
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:48183279 original size:79 final size:79
Alignment explanation
Indices: 48183048--48183338 Score: 414
Period size: 79 Copynumber: 3.7 Consensus size: 79
48183038 GATGATAACG
*
48183048 GGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
*
48183111 GCGAGTTACTA-ATTC
64 GCGAGTTACTATATCC
*
48183126 GGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT--GGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
48183189 CGAGTTACTATATCC
65 CGAGTTACTATATCC
*
48183204 GGGCTAAGTCCCGAAGGCATTTGTGCGACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
** *
48183269 GAACTGCTATATCC
66 GAGTTACTATATCC
* * *
48183283 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCCCGAAGG
48183339 TACTTGGTTT
Statistics
Matches: 194, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
77 43 0.22
78 39 0.20
79 102 0.53
80 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
GAGTTACTATATCC
Found at i:48188016 original size:15 final size:17
Alignment explanation
Indices: 48187986--48188017 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48187976 TTGACACTTG
48187986 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
48188003 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
48188018 AAATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:48191203 original size:3 final size:3
Alignment explanation
Indices: 48191197--48191241 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
48191187 CTAAATAAGT
48191197 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48191242 GACTTAATGA
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):
TAA
Found at i:48192659 original size:2 final size:2
Alignment explanation
Indices: 48192652--48192694 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
48192642 ATCATAAGCC
48192652 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48192694 T
1 T
48192695 CATTACTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48196625 original size:21 final size:21
Alignment explanation
Indices: 48196601--48196642 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48196591 AAACCTTTAA
48196601 TTTTCCCTTTTT-TCTTCTTTC
1 TTTTCCCTTTTTCT-TTCTTTC
*
48196622 TTTTCTCTTTTTCTTTCTTTC
1 TTTTCCCTTTTTCTTTCTTTC
48196643 CTTCCCCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCCCTTTTTCTTTCTTTC
Found at i:48196879 original size:3 final size:3
Alignment explanation
Indices: 48196853--48196939 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
48196843 TTATCTAATT
* * *
48196853 TAA TAA T-A TAA T-A TCAA TTA -AA TAA TAA TAA CAA TAA CAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
48196896 TAA TTAA GT-A TAA -AA CT-A TAA TAA TAAA TAA TAA GAA TAA TAA T
1 TAA -TAA -TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA T
48196940 TTAATATATT
Statistics
Matches: 65, Mismatches: 9, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
2 9 0.14
3 47 0.72
4 9 0.14
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:48196926 original size:18 final size:19
Alignment explanation
Indices: 48196873--48196939 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
48196863 ATATCAATTA
*
48196873 AATAATAATAACA-ATAAC
1 AATAATAATAACATAAAAC
*
48196891 AATAATAATTAAGTATAAAAC
1 AATAATAA-TAA-CATAAAAC
* *
48196912 TATAATAATAA-ATAATAAG
1 AATAATAATAACATAA-AAC
48196931 AATAATAAT
1 AATAATAAT
48196940 TTAATATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 12 0.30
19 13 0.32
20 4 0.10
21 11 0.28
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAATAATAACATAAAAC
Found at i:48196929 original size:21 final size:22
Alignment explanation
Indices: 48196873--48196939 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
48196863 ATATCAATTA
*
48196873 AATAAT-AATAACAATAACAAT
1 AATAATAAATAATAATAACAAT
* *
48196894 AATAATTAAGT-ATAA-AACTAT
1 AATAA-TAAATAATAATAACAAT
* *
48196915 AATAATAAATAATAAGAATAAT
1 AATAATAAATAATAATAACAAT
48196937 AAT
1 AAT
48196940 TTAATATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 4 0.11
21 19 0.53
22 11 0.31
23 2 0.06
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (22 bp):
AATAATAAATAATAATAACAAT
Found at i:48196930 original size:27 final size:28
Alignment explanation
Indices: 48196876--48196938 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
48196866 TCAATTAAAT
48196876 AATAATAACAATAACAATAATAATTAAG
1 AATAATAACAATAACAATAATAATTAAG
* * *
48196904 TATAA-AACTATAATAATAAATAA-TAAG
1 AATAATAACAATAACAAT-AATAATTAAG
48196931 AATAATAA
1 AATAATAA
48196939 TTTAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (28 bp):
AATAATAACAATAACAATAATAATTAAG
Found at i:48200658 original size:50 final size:46
Alignment explanation
Indices: 48200543--48200771 Score: 173
Period size: 50 Copynumber: 4.8 Consensus size: 46
48200533 AGGTTATTTG
*
48200543 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGA
* * *
48200587 TGTGCTAGTGTAAGACTATGTCTGGGACATGGCATTGGC-ACAGATA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGA
* **
48200633 TGTGAGAGCTAGTGTAAGACCATGTCTCGGACATGGCATCGGCCT-CGATTT
1 TGT----GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGA-GA
* * * * *
48200684 TGATGGTCAATGTAAGACCATGTCTGAGACATGGCATCGACT-TGATGGA
1 TG-TGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGA--GA
* * *
48200733 TGAGCCAGTGTAAGACCCTGT-TAGGGACATGGCATCGGC
1 TGTGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGC
48200772 ATTATACCCT
Statistics
Matches: 147, Mismatches: 24, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
44 14 0.10
45 15 0.10
46 14 0.10
47 27 0.18
48 7 0.05
49 30 0.20
50 34 0.23
51 5 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGA
Found at i:48203967 original size:11 final size:12
Alignment explanation
Indices: 48203943--48203994 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
48203933 ATAATATAAC
48203943 ATATATTAACTTA
1 ATAT-TTAACTTA
48203956 ATATTTAA-TTA
1 ATATTTAACTTA
* *
48203967 ATATATAATTTA
1 ATATTTAACTTA
48203979 CATATTTAACCTTA
1 -ATATTTAA-CTTA
48203993 AT
1 AT
48203995 GAATTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
11 10 0.30
12 7 0.21
13 13 0.39
14 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTAACTTA
Found at i:48204735 original size:3 final size:3
Alignment explanation
Indices: 48204727--48204779 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
48204717 TCATTAAACC
48204727 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48204775 TAA TA
1 TAA TA
48204780 GTGAAACAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48210300 original size:47 final size:46
Alignment explanation
Indices: 48210221--48210381 Score: 155
Period size: 47 Copynumber: 3.5 Consensus size: 46
48210211 TGATGCTGTA
** * *
48210221 TCCCAGACACAGTCTTGCACTGGCTTATATCTCAAGTCGAAGCCATG
1 TCCCAGACATGGTCTTACACTGGCTTATATCTCAAGCCGAAG-CATG
* * *
48210268 TCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGACGCATG
1 TCCCAGACATGGTCTTACACTGGCTTAT-ATCTC-AAGCCGAAGCATG
* * * * *
48210315 TCCCAGACAT-GTCTTACATTGGCTTATGTCTCGAGGCTGATGCATG
1 TCCCAGACATGGTCTTACACTGGCTTATATCTC-AAGCCGAAGCATG
*
48210361 TCCCAGACATGGTTTTACACT
1 TCCCAGACATGGTCTTACACT
48210382 AGCTCTCACA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
46 38 0.40
47 50 0.53
48 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGGTCTTACACTGGCTTATATCTCAAGCCGAAGCATG
Found at i:48210347 original size:46 final size:46
Alignment explanation
Indices: 48210264--48210381 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 46
48210254 AAGTCGAAGC
48210264 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGACG
* * * * *
48210311 CATGTCCCAGACATGTCTTACATTGGCTTAT-GTCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGAC-TATCATCTCGAGGCCGACG
*
48210357 CATGTCCCAGACATGGTTTTACACT
1 CATGTCCCAGACAT-GTCTTACACT
48210382 AGCTCTCACA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 35 0.57
47 25 0.41
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:48210695 original size:13 final size:13
Alignment explanation
Indices: 48210677--48210709 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
48210667 ATAATAGCAA
48210677 AATACACTTATTT
1 AATACACTTATTT
48210690 AATACACTTATTT
1 AATACACTTATTT
48210703 AAT-CACT
1 AATACACT
48210710 AAATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (13 bp):
AATACACTTATTT
Found at i:48217847 original size:47 final size:46
Alignment explanation
Indices: 48217796--48217960 Score: 167
Period size: 46 Copynumber: 3.5 Consensus size: 46
48217786 AAGTTGAAGC
* * *
48217796 CATGTCCAAGACATGGTCTTACACTGACTATCATATCGTA-GTCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGACG
* * *
48217843 CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGACG
* *
48217889 CATGTCCCAGACATGTCTTACACT-AGC-ACTCATCTCAATGCCGACG
1 CATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAGGCCGACG
48217935 CCATGTCCCAGACATGGTCTTACACT
1 -CATGTCCCAGACAT-GTCTTACACT
48217961 AGCTCTCACA
Statistics
Matches: 100, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
45 2 0.02
46 60 0.60
47 28 0.28
48 10 0.10
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:48221894 original size:41 final size:40
Alignment explanation
Indices: 48221806--48221943 Score: 159
Period size: 41 Copynumber: 3.4 Consensus size: 40
48221796 GATATATATA
** * *
48221806 TATGGCACTTAGTGTGCGATTCAGAATAGCTTCGGCTATA
1 TATGGCACTTAGTGTGCGAGACTGAATAGCTTCGGCTATG
* *
48221846 TATGGCACTTAGTCTGCGAGACTGAGATAGCTTTGGCTATG
1 TATGGCACTTAGTGTGCGAGACTGA-ATAGCTTCGGCTATG
* * * *
48221887 TAAGGCACTTAGTGTGTGAGATTATAATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGAGACT-GAATAGCTTCGGCTATG
48221928 TATTGGCACTTAGTGT
1 TA-TGGCACTTAGTGT
48221944 AGGAGATATC
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 21 0.26
41 48 0.59
42 13 0.16
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (40 bp):
TATGGCACTTAGTGTGCGAGACTGAATAGCTTCGGCTATG
Found at i:48229484 original size:42 final size:42
Alignment explanation
Indices: 48229437--48229598 Score: 225
Period size: 42 Copynumber: 3.8 Consensus size: 42
48229427 AGGGTTATTA
* * *
48229437 AGACTACGTGTAAGATCATATCTGGGATATGGCATCAATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
*
48229479 AGACTACATGTAAGACCATATCTGGGATATGGAATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
* * * * *
48229521 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATATCTGGGATA-TGGCATCGATATG
*
48229564 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACATGTAAGACCATATCTGGGATATGGCAT
48229599 TGGTACAGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 69 0.66
43 35 0.34
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:48229579 original size:85 final size:84
Alignment explanation
Indices: 48229437--48229595 Score: 246
Period size: 85 Copynumber: 1.9 Consensus size: 84
48229427 AGGGTTATTA
* * *
48229437 AGACTACGTGTAAGATCATATCTGGGATATGGCATCAATATGAGACTACATGTAAGACCATATCT
1 AGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
48229502 GGGATATGGAATCGATATG
66 GGGATATGGAATCGATATG
* * * *
48229521 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACCATATC
1 AGACTACGTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACTACATGTAAGACCATATC
48229586 TGGGATATGG
65 TGGGATATGG
48229596 CATTGGTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
84 25 0.37
85 42 0.63
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (84 bp):
AGACTACGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTACATGTAAGACCATATCT
GGGATATGGAATCGATATG
Found at i:48230636 original size:13 final size:13
Alignment explanation
Indices: 48230618--48230662 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
48230608 AGCACACGGG
48230618 CGTGTGCATTGGC
1 CGTGTGCATTGGC
48230631 CGTGTGCATTGGC
1 CGTGTGCATTGGC
*
48230644 CGTGTGCATTAGC
1 CGTGTGCATTGGC
48230657 CGTGTG
1 CGTGTG
48230663 ACTTCAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.09, C:0.22, G:0.38, T:0.31
Consensus pattern (13 bp):
CGTGTGCATTGGC
Found at i:48233779 original size:40 final size:39
Alignment explanation
Indices: 48233734--48233941 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
48233724 CGGAATACAA
*
48233734 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
48233774 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
48233814 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
48233854 CCGGATGTAGTCACTAGAACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
48233894 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
48233934 CCGGATAT
1 CCGGATAT
48233942 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:48233881 original size:80 final size:80
Alignment explanation
Indices: 48233734--48233941 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
48233724 CGGAATACAA
* * * *
48233734 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGAACAAATG
*
48233799 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
48233814 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGAACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGAACAAAT
*
48233878 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
48233894 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
48233942 CATTCAATTG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGAACAAATG
CCTTCGGGTATTAAC
Found at i:48246276 original size:40 final size:40
Alignment explanation
Indices: 48246231--48246397 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
48246221 CGGAATATAA
48246231 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48246271 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
48246311 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48246351 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48246390 CCGGATAT
1 CCGGATAT
48246398 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48246381 original size:80 final size:79
Alignment explanation
Indices: 48246247--48246395 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
48246237 ATAATCACGT
*
48246247 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
48246312 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
48246327 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
48246390 CCGGAT
64 CCGGAT
48246396 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:48248277 original size:29 final size:29
Alignment explanation
Indices: 48248245--48248405 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
48248235 AATTTAAGCC
* *** *
48248245 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
48248274 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
48248303 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
48248333 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
48248361 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
48248390 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
48248406 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:48256082 original size:29 final size:29
Alignment explanation
Indices: 48256050--48256210 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
48256040 AATTTAAGCC
* *** *
48256050 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
** * *
48256079 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCT
* * * *
48256108 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACTTAGTGCCATATATTTCCAGC-T
*
48256138 -GCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
*
48256166 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCT
48256195 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
48256211 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 113 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCT
Found at i:48258632 original size:42 final size:40
Alignment explanation
Indices: 48258530--48258634 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 40
48258520 GGTGTAACAA
* * *
48258530 TATGGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTATG
1 TATGGCACTTAGTGTGCGAGA-TGAAATAACTTCAGCTATG
* *
48258571 TAAGGCACTTAGTGTGCGAGATTATAATAACTTCAGCTATG
1 TATGGCACTTAGTGTGCGAGATGA-AATAACTTCAGCTATG
48258612 TATTGGCACTTAGTGTGCGAGAT
1 TA-TGGCACTTAGTGTGCGAGAT
48258635 ATCGAGTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 2 0.04
41 35 0.62
42 19 0.34
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (40 bp):
TATGGCACTTAGTGTGCGAGATGAAATAACTTCAGCTATG
Found at i:48259667 original size:12 final size:12
Alignment explanation
Indices: 48259632--48259669 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
48259622 GGTTTGGCAT
*
48259632 GGCCTCGCACAT
1 GGCCTCGCACAC
48259644 GGCCTCGCACAC
1 GGCCTCGCACAC
*
48259656 GGCCTGGCACAC
1 GGCCTCGCACAC
48259668 GG
1 GG
48259670 GCGTGTGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.16, C:0.42, G:0.32, T:0.11
Consensus pattern (12 bp):
GGCCTCGCACAC
Found at i:48262063 original size:17 final size:17
Alignment explanation
Indices: 48262041--48262074 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48262031 TATATGAAAT
48262041 CACAATTCAAATTGTCA
1 CACAATTCAAATTGTCA
48262058 CACAATTCAAATTGTCA
1 CACAATTCAAATTGTCA
48262075 AGAGTCGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (17 bp):
CACAATTCAAATTGTCA
Found at i:48268221 original size:14 final size:13
Alignment explanation
Indices: 48268212--48268236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48268202 TTTTTTTCTT
48268212 TTGATTTTTTTGA
1 TTGATTTTTTTGA
48268225 TTGATTTTTTTG
1 TTGATTTTTTTG
48268237 TCTAAAACAA
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:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (13 bp):
TTGATTTTTTTGA
Found at i:48268632 original size:41 final size:40
Alignment explanation
Indices: 48268578--48268701 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
48268568 GTTAGAGCTA
*
48268578 TAGCAACATTTATGAGAAAAACACCGCAAAAGGTCCAGCAT
1 TAGCAGCATTTATGA-AAAAACACCGCAAAAGGTCCAGCAT
* *
48268619 TAGCAGCGTTTATGATAAAAACACCGCAAAAGGTCCAGAAT
1 TAGCAGCATTTATGA-AAAAACACCGCAAAAGGTCCAGCAT
* * * * *
48268660 TAGCGGCATTTATGTAACAAACGCCGCAAAAAGTCAAGCAT
1 TAGCAGCATTTATG-AAAAAACACCGCAAAAGGTCCAGCAT
48268701 T
1 T
48268702 TATTATTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 70 0.99
42 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (40 bp):
TAGCAGCATTTATGAAAAAACACCGCAAAAGGTCCAGCAT
Found at i:48269155 original size:7 final size:7
Alignment explanation
Indices: 48269140--48269191 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
48269130 CACTAAGTAA
*
48269140 TTTAGGG
1 TTTATGG
48269147 TTTATGG
1 TTTATGG
48269154 TTTA-GAG
1 TTTATG-G
*
48269161 TTTAGGG
1 TTTATGG
48269168 TTTATGG
1 TTTATGG
48269175 TTT-TGAG
1 TTTATG-G
48269182 TTTATGG
1 TTTATGG
48269189 TTT
1 TTT
48269192 CGAGGTTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 3 0.08
7 33 0.85
8 3 0.08
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (7 bp):
TTTATGG
Found at i:48269157 original size:14 final size:14
Alignment explanation
Indices: 48269140--48269212 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
48269130 CACTAAGTAA
48269140 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
48269154 TTTAGAGTTTAGGG
1 TTTAGGGTTTATGG
*
48269168 TTTATGGTTT-TGAG
1 TTTAGGGTTTATG-G
*
48269182 TTTATGGTTTCGA-GG
1 TTTAGGGTTT--ATGG
48269197 TTTACGGGTTTATGG
1 TTTA-GGGTTTATGG
48269212 T
1 T
48269213 CTCGAGATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
13 1 0.02
14 32 0.68
15 8 0.17
16 6 0.13
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:48269166 original size:21 final size:21
Alignment explanation
Indices: 48269140--48269292 Score: 90
Period size: 21 Copynumber: 7.5 Consensus size: 21
48269130 CACTAAGTAA
48269140 TTTAGGGTTTATGGTTTAGAG
1 TTTAGGGTTTATGGTTTAGAG
*
48269161 TTTAGGGTTTATGGTTTTGAG
1 TTTAGGGTTTATGGTTTAGAG
* *
48269182 TTTATGG-TT-TCG---AG-G
1 TTTAGGGTTTATGGTTTAGAG
* *
48269197 TTTACGGGTTTATGGTCTCGAG
1 TTTA-GGGTTTATGGTTTAGAG
*** * *
48269219 ATTT-GGGTTTATAAATTGGGG
1 -TTTAGGGTTTATGGTTTAGAG
*
48269240 TTTAGGGTCTTGA-GGTTT-GGG
1 TTTAGGGT-TT-ATGGTTTAGAG
* *
48269261 TTTAGGGTTTAAGGTTTAGGG
1 TTTAGGGTTTATGGTTTAGAG
48269282 TTTAGGGTTTA
1 TTTAGGGTTTA
48269293 GAGAAGATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
15 5 0.05
16 3 0.03
17 2 0.02
18 2 0.02
19 3 0.03
20 12 0.12
21 67 0.65
22 5 0.05
23 4 0.04
ACGTcount: A:0.16, C:0.03, G:0.35, T:0.46
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTAGAG
Found at i:48269208 original size:23 final size:21
Alignment explanation
Indices: 48269176--48269230 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
48269166 GGTTTATGGT
* * *
48269176 TTTGAGTTTATGGTTTCGAGG
1 TTTGGGTTTATGGTCTCGAGA
48269197 TTTACGGGTTTATGGTCTCGAGA
1 TTT--GGGTTTATGGTCTCGAGA
48269220 TTTGGGTTTAT
1 TTTGGGTTTAT
48269231 AAATTGGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
23 18 0.62
ACGTcount: A:0.15, C:0.07, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTGGGTTTATGGTCTCGAGA
Found at i:48269270 original size:7 final size:7
Alignment explanation
Indices: 48269237--48269293 Score: 73
Period size: 7 Copynumber: 8.1 Consensus size: 7
48269227 TTATAAATTG
48269237 GGGTTTA
1 GGGTTTA
48269244 GGGTCTT-
1 GGGT-TTA
48269251 GAGGTTT-
1 G-GGTTTA
48269258 GGGTTTA
1 GGGTTTA
48269265 GGGTTTA
1 GGGTTTA
*
48269272 AGGTTTA
1 GGGTTTA
48269279 GGGTTTA
1 GGGTTTA
48269286 GGGTTTA
1 GGGTTTA
48269293 G
1 G
48269294 AGAAGATCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
6 5 0.11
7 35 0.78
8 5 0.11
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:48273709 original size:29 final size:29
Alignment explanation
Indices: 48273676--48273749 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
48273666 GTGACGAGAT
48273676 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
48273705 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
48273734 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48273750 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:48273765 original size:29 final size:29
Alignment explanation
Indices: 48273733--48273808 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
48273723 CTGGAAATAT
* *
48273733 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
48273762 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
48273791 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
48273809 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:48273766 original size:58 final size:58
Alignment explanation
Indices: 48273676--48273808 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
48273666 GTGACGAGAT
* * * * *
48273676 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
48273734 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
48273792 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
48273809 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:48281841 original size:28 final size:29
Alignment explanation
Indices: 48281810--48281940 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
48281800 GTGACGAGAT
48281810 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
48281838 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
48281867 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
48281896 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
48281925 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48281941 AAATCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:48281877 original size:29 final size:28
Alignment explanation
Indices: 48281810--48281881 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
48281800 GTGACGAGAT
*
48281810 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAATA
48281838 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAA-ATA
48281867 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
48281882 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAAAATA
Found at i:48285898 original size:164 final size:163
Alignment explanation
Indices: 48285485--48286255 Score: 1049
Period size: 159 Copynumber: 4.7 Consensus size: 163
48285475 ACAAGGTTCA
* *
48285485 ATTTTTTTTT-CATGGAACAAAGTTG--ATTTCATCTTATACGGCTTTCAACTTTTTATACATAA
1 ATTTTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACAA
*
48285547 TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAATTTTTTTC
66 TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATAAAAATAAATTTTTTTC
* *
48285612 ATGTGATTTTTCGCATCATCAAATTTTA-TTTT
131 ATGTGATTTTCCGCATCGTCAAATTTTATTTTT
*
48285644 A---TTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACAGTTTTCAACTTTTTATACACAA
1 ATTTTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACAA
* * *
48285706 ATTTTTAAATTATATAATTTGAATTAATTTATTTAAATATTATTTAATAAAAAT-ATTTTTTTTC
66 TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATAAAAATAAATTTTTTT-
*
48285770 CATCTGATTTTCCGCATCGTCAAATTTTATTTTT
130 CATGTGATTTTCCGCATCGTCAAATTTTATTTTT
* * * * *
48285804 ATTCTTTTTTTCCATGGAACAAAGTTAAAATTTTAACTTATACGGTTTTCAACTTTTTATACATA
1 ATT-TTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACA
*
48285869 ATTTTTAAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTAAATA
65 ATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAA-T-AAA-AA--TAAAT-
* *
48285934 AAATAATATTTTCCATGTGATTTTCTGCATTGTCAAATTTTATTTTTT
124 ---T--T-TTTT-CATGTGATTTTCCGCATCGTCAAATTTTA-TTTTT
* * *
48285982 TTTATTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGATTTTCAAATTTTTATACACA
1 ATT-TTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACA
*
48286047 ATTTTTTAAATTATATAATTTAGATTAATTTATTTAAATATTATTTAATAAAAATAAATTTTTTT
65 ATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATAAAAATAAATTTTTTT
* *
48286112 CATGTGATATTCCGCATTGTCAAATTTTATTTTT
130 CATGTGATTTTCCGCATCGTCAAATTTTATTTTT
* * *
48286146 ATTTTTATTT-CATGGAACAAAGTTGACATTTCATCTTATATGGTTTTTAACTTTTTATACACAA
1 ATTTTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACAA
* *
48286210 TTTTTTAAACTATATAATTTAGG-TTAATTTATTTAAATAATATTTA
66 TTTTTTAAATTATATAATTT-GGATTAATTTATTTAAATATTATTTA
48286256 TTTTAATGTT
Statistics
Matches: 543, Mismatches: 45, Indels: 45
0.86 0.07 0.07
Matches are distributed among these distances:
156 6 0.01
157 15 0.03
158 8 0.01
159 112 0.21
160 5 0.01
162 91 0.17
163 7 0.01
164 106 0.20
165 28 0.05
166 7 0.01
167 3 0.01
169 2 0.00
170 2 0.00
173 5 0.01
174 1 0.00
175 2 0.00
176 4 0.01
177 32 0.06
178 107 0.20
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (163 bp):
ATTTTTTTTTCCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTATACACAA
TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATAAAAATAAATTTTTTTC
ATGTGATTTTCCGCATCGTCAAATTTTATTTTT
Found at i:48285930 original size:14 final size:14
Alignment explanation
Indices: 48285894--48285940 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
48285884 TAATTTGGAT
*
48285894 TAATTTATTTAAATA
1 TAATTTAATTAAA-A
*
48285909 TTATTTAATTAAAA
1 TAATTTAATTAAAA
*
48285923 TAATTTAAATAAAA
1 TAATTTAATTAAAA
48285937 TAAT
1 TAAT
48285941 ATTTTCCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTTAATTAAAA
Found at i:48286063 original size:178 final size:164
Alignment explanation
Indices: 48285942--48286255 Score: 481
Period size: 162 Copynumber: 1.9 Consensus size: 164
48285932 TAAAATAATA
* *
48285942 TTTTCCATGTGATTTTCTGCATTGTCAAATTTTATTTTTTTTTATTTTTTTCCATGGAACAAAGT
1 TTTTCCATGTGATTTTCCGCATTGTCAAATTTTA-TTTTTATT-TTTTTTTCCATGGAACAAAGT
* * *
48286007 TGACATTTCATCTTATACGATTTTCAAATTTTTATACACAATTTTTTAAATTATATAATTTAGAT
64 TGACATTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTTTAAATTATATAATTTGGAT
48286072 TAATTTATTTAAATATTATTTAATAAAAATAAATTT
129 TAATTTATTTAAATATTATTTAATAAAAATAAATTT
* *
48286108 TTTT-CATGTGATATTCCGCATTGTCAAATTTTATTTTTATTTTTATTT-CATGGAACAAAGTTG
1 TTTTCCATGTGATTTTCCGCATTGTCAAATTTTATTTTTATTTTTTTTTCCATGGAACAAAGTTG
* * *
48286171 ACATTTCATCTTATATGGTTTTTAACTTTTTATACACAATTTTTTAAACTATATAATTTAGG-TT
66 ACATTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTTTAAATTATATAATTT-GGATT
*
48286235 AATTTATTTAAATAATATTTA
130 AATTTATTTAAATATTATTTA
48286256 TTTTAATGTT
Statistics
Matches: 136, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
162 91 0.67
163 7 0.05
164 7 0.05
165 27 0.20
166 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (164 bp):
TTTTCCATGTGATTTTCCGCATTGTCAAATTTTATTTTTATTTTTTTTTCCATGGAACAAAGTTG
ACATTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTTTAAATTATATAATTTGGATTA
ATTTATTTAAATATTATTTAATAAAAATAAATTT
Found at i:48286295 original size:27 final size:27
Alignment explanation
Indices: 48286265--48286321 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
48286255 ATTTTAATGT
48286265 TAAATATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
*
48286292 TAAATATATATCATATCATAACTTACA
1 TAAATATATATCATATAATAACTTACA
48286319 TAA
1 TAA
48286322 CTTACATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAATATATATCATATAATAACTTACA
Found at i:48286320 original size:9 final size:9
Alignment explanation
Indices: 48286308--48286378 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
48286298 TATATCATAT
48286308 CATAACTTA
1 CATAACTTA
48286317 CATAACTTA
1 CATAACTTA
*
48286326 CATAAATGT-
1 CATAACT-TA
* *
48286335 -ATATCATA
1 CATAACTTA
48286343 TCATAACTTA
1 -CATAACTTA
48286353 CATAACTTA
1 CATAACTTA
*
48286362 CAAAACTTA
1 CATAACTTA
*
48286371 CTTAACTT
1 CATAACTT
48286379 GTGTAATACA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 1 0.02
8 3 0.06
9 38 0.78
10 7 0.14
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:48286325 original size:36 final size:36
Alignment explanation
Indices: 48286282--48286363 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
48286272 ATATCATATA
48286282 ATAACTTACATAAATATATATCATATCATAACTTAC
1 ATAACTTACATAAATATATATCATATCATAACTTAC
*
48286318 ATAACTTACATAAATGTATATCATATCATAACTTAC
1 ATAACTTACATAAATATATATCATATCATAACTTAC
48286354 ATAACTTACA
1 ATAACTTACA
48286364 AAACTTACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.35
Consensus pattern (36 bp):
ATAACTTACATAAATATATATCATATCATAACTTAC
Found at i:48290855 original size:21 final size:21
Alignment explanation
Indices: 48290831--48290876 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
48290821 TACAACATAG
* *
48290831 AGCAGAGGCAGCAGTGAGGGA
1 AGCAGAGGCAGCAGCGAGAGA
*
48290852 AGCAGAGGTAGCAGCGAGAGA
1 AGCAGAGGCAGCAGCGAGAGA
48290873 AGCA
1 AGCA
48290877 AAGTAGAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.43, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCAGCAGCGAGAGA
Found at i:48291344 original size:43 final size:43
Alignment explanation
Indices: 48291311--48291532 Score: 263
Period size: 43 Copynumber: 5.2 Consensus size: 43
48291301 TAAAGCTAAC
*
48291311 GTTCTATAGCGGCGTTCGTAGTAAAAGCGCCGCTAAAGGCCAT
1 GTTCTATAGCGGCGTTCGTTGTAAAAGCGCCGCTAAAGGCCAT
* * *
48291354 GTTCTATAGCGGCGTTTGTGGTAAAAGCGCTGCTAAAGGCCAT
1 GTTCTATAGCGGCGTTCGTTGTAAAAGCGCCGCTAAAGGCCAT
* *
48291397 GTTCTATAGCGGCGTTTC-TTGTAAAAGCGCCACTAAAGGTCAT
1 GTTCTATAGCGGCG-TTCGTTGTAAAAGCGCCGCTAAAGGCCAT
* * * *
48291440 GTTCTATAGCGCCGTTTGTTGTAAAAGCGCCGCTAAATGTCAT
1 GTTCTATAGCGGCGTTCGTTGTAAAAGCGCCGCTAAAGGCCAT
* * * *
48291483 GGTCTATAGCGG-ATT-TTTGTGAGAAA-CGCCGCTAAAGGTCAT
1 GTTCTATAGCGGCGTTCGTTGT-A-AAAGCGCCGCTAAAGGCCAT
48291525 GTTCTATA
1 GTTCTATA
48291533 ACAGAGTTTT
Statistics
Matches: 157, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.03
42 27 0.17
43 124 0.79
44 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
GTTCTATAGCGGCGTTCGTTGTAAAAGCGCCGCTAAAGGCCAT
Found at i:48291408 original size:86 final size:85
Alignment explanation
Indices: 48291311--48291532 Score: 295
Period size: 86 Copynumber: 2.6 Consensus size: 85
48291301 TAAAGCTAAC
* * *
48291311 GTTCTATAGCGGCGTTCGTAGTAAAAGCGCCGCTAAAGGCCATGTTCTATAGCGGCGTTTGTGGT
1 GTTCTATAGCGGCGTTC-TTGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGCCGTTTGTGGT
*
48291376 AAAAGCGCTGCTAAAGGCCAT
65 AAAAGCGCCGCTAAAGGCCAT
* *
48291397 GTTCTATAGCGGCGTTTCTTGTAAAAGCGCCACTAAAGGTCATGTTCTATAGCGCCGTTTGTTGT
1 GTTCTATAGCGGCG-TTCTTGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGCCGTTTGTGGT
* *
48291462 AAAAGCGCCGCTAAATGTCAT
65 AAAAGCGCCGCTAAAGGCCAT
* * *
48291483 GGTCTATAGCGG-ATTTTTGTGAGAAA-CGCCGCTAAAGGTCATGTTCTATA
1 GTTCTATAGCGGCGTTCTTGT-A-AAAGCGCCGCTAAAGGTCATGTTCTATA
48291533 ACAGAGTTTT
Statistics
Matches: 121, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
84 6 0.05
85 24 0.20
86 88 0.73
87 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (85 bp):
GTTCTATAGCGGCGTTCTTGTAAAAGCGCCGCTAAAGGTCATGTTCTATAGCGCCGTTTGTGGTA
AAAGCGCCGCTAAAGGCCAT
Found at i:48296249 original size:157 final size:157
Alignment explanation
Indices: 48295958--48296277 Score: 606
Period size: 157 Copynumber: 2.0 Consensus size: 157
48295948 GAATTTTGGA
48295958 TCTTT-ATTCGAAATAATCAAAACTGGTACCCCGTGCAATCTAATGATTTTAGAAATATACAACT
1 TCTTTCATTCGAAATAATCAAAACTGGTACCCCGTGCAATCTAATGATTTTAGAAATATACAACT
*
48296022 CAACCAATTTATCAAGTAAAAAGTTAGTATGTACCAGGATGAAATGTGTTGATTTCATTAATCAA
66 CAACCAATTTATCAAGTAAAAAGTTAGTATGTACCAGGATGAAATGTGTTGATTTCATCAATCAA
48296087 TCAATGACAACCCAAATAGCATCTTTC
131 TCAATGACAACCCAAATAGCATCTTTC
48296114 TCTTTCATTCGAAATAATCAAAACTGGTACCCCGTGCAATCTAATGATTTTAGAAATATACAACT
1 TCTTTCATTCGAAATAATCAAAACTGGTACCCCGTGCAATCTAATGATTTTAGAAATATACAACT
* *
48296179 CAACCAATTTATCAAGTAAAAAGTTAGTATGTACTAGGATGAAATGTGTTGATTTCGTCAATCAA
66 CAACCAATTTATCAAGTAAAAAGTTAGTATGTACCAGGATGAAATGTGTTGATTTCATCAATCAA
48296244 TCAATGACAACCCAAATAGCATCTTTC
131 TCAATGACAACCCAAATAGCATCTTTC
48296271 TCTTTCA
1 TCTTTCA
48296278 GAGACAAAGG
Statistics
Matches: 160, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
156 5 0.03
157 155 0.97
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (157 bp):
TCTTTCATTCGAAATAATCAAAACTGGTACCCCGTGCAATCTAATGATTTTAGAAATATACAACT
CAACCAATTTATCAAGTAAAAAGTTAGTATGTACCAGGATGAAATGTGTTGATTTCATCAATCAA
TCAATGACAACCCAAATAGCATCTTTC
Found at i:48312433 original size:34 final size:34
Alignment explanation
Indices: 48312395--48312464 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
48312385 ATTAATTGAC
48312395 AATGTGATAGCATTTGAGAATGGTTTAATAAATG
1 AATGTGATAGCATTTGAGAATGGTTTAATAAATG
48312429 AATGTGATAGCATTTGAGAATGGTTTAATAAATG
1 AATGTGATAGCATTTGAGAATGGTTTAATAAATG
48312463 AA
1 AA
48312465 CTCAGTTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (34 bp):
AATGTGATAGCATTTGAGAATGGTTTAATAAATG
Found at i:48317089 original size:27 final size:27
Alignment explanation
Indices: 48316985--48317087 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
48316975 ATACATATAT
48316985 CATATAAGGGCAAAACAGTCATCCTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
48317012 CATATAAGGGCAAAACAGTCATCCTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
* **
48317039 CATATAAGGGCAAAATAGTCATTTTAC
1 CATATAAGGGCAAAACAGTCATCCTAC
* * *
48317066 CACATAAGGGTAAAACATTCAT
1 CATATAAGGGCAAAACAGTCAT
48317088 TTCATAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (27 bp):
CATATAAGGGCAAAACAGTCATCCTAC
Found at i:48322317 original size:24 final size:24
Alignment explanation
Indices: 48322266--48322431 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
48322256 GCTTTATCAT
*
48322266 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
48322291 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
48322315 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
48322338 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48322362 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48322386 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
48322409 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48322432 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 76 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48322366 original size:71 final size:71
Alignment explanation
Indices: 48322266--48322432 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
48322256 GCTTTATCAT
* *
48322266 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
48322330 GCCCTTTA
64 GCCCTTTA
* *
48322338 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
48322403 CCTTTA
66 CCTTTA
48322409 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
48322433 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.87
72 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:48322432 original size:47 final size:48
Alignment explanation
Indices: 48322266--48322431 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
48322256 GCTTTATCAT
* *
48322266 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
48322315 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
48322362 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
48322409 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48322432 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
47 71 0.65
48 27 0.25
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:48322503 original size:9 final size:9
Alignment explanation
Indices: 48322489--48322545 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48322479 ATCTCATGTG
48322489 CATATCATA
1 CATATCATA
*
48322498 CATATCATGTG
1 CATATCA--TA
48322509 CATATCATA
1 CATATCATA
* *
48322518 CATGTCATGTG
1 CATATCA--TA
48322529 CATATCATA
1 CATATCATA
48322538 CATATCAT
1 CATATCAT
48322546 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:48322505 original size:20 final size:20
Alignment explanation
Indices: 48322477--48322547 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
48322467 GCATTTATGA
*
48322477 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
48322497 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
48322517 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
48322537 ACATATCATGT
1 ACATATCATGT
48322548 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:48322512 original size:11 final size:11
Alignment explanation
Indices: 48322482--48322536 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
48322472 TATGAACATC
48322482 TCATGTGCATA
1 TCATGTGCATA
*
48322493 TCA--TACATA
1 TCATGTGCATA
48322502 TCATGTGCATA
1 TCATGTGCATA
* *
48322513 TCA--TACATG
1 TCATGTGCATA
48322522 TCATGTGCATA
1 TCATGTGCATA
48322533 TCAT
1 TCAT
48322537 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:48326173 original size:43 final size:43
Alignment explanation
Indices: 48326017--48326155 Score: 190
Period size: 43 Copynumber: 3.2 Consensus size: 43
48326007 GTGATTATGT
* * * * * *
48326017 GTAAGACCATGGCTGGGACATTGGAATCATTATGTGATTAT-GT
1 GTAAGACCATGTCTAGGACATTGGCATCGTTATTTGATT-TCGA
* *
48326060 GTAAGACCATGTCTAGGACATTTGCATCGTTATTTGATTTCTA
1 GTAAGACCATGTCTAGGACATTGGCATCGTTATTTGATTTCGA
48326103 GTAAGACCATGTCTAGGACATTGGCATCGTTATTTGATTTCGA
1 GTAAGACCATGTCTAGGACATTGGCATCGTTATTTGATTTCGA
48326146 GTAAGACCAT
1 GTAAGACCAT
48326156 AGCTAGGCTT
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 84 0.99
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACATTGGCATCGTTATTTGATTTCGA
Found at i:48326522 original size:68 final size:68
Alignment explanation
Indices: 48326438--48326572 Score: 252
Period size: 68 Copynumber: 2.0 Consensus size: 68
48326428 CATTGTTTTC
*
48326438 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGTTTACTAAGCTTTTA
1 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
48326503 AAG
66 AAG
*
48326506 CTATTGATGGAAATGATGTTGATTCATTTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
1 CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
48326571 AA
66 AA
48326573 CTTACTTTGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (68 bp):
CTATTGATGGAAATGATGTTGATTCATGTGGTAATTTTATTTGTATATGGCTTACTAAGCTTTTA
AAG
Found at i:48333504 original size:28 final size:27
Alignment explanation
Indices: 48333443--48333539 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 27
48333433 TCACAAATTG
* * *
48333443 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGC-AGTTC-GATTATATA
*
48333472 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGC-AGTTCGATTATATA
*
48333500 GCACTAAGTGTGCAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAGTTCGATTATAT-A
48333527 GCACTAAGTGTGC
1 GCACTAAGTGTGC
48333540 TGGCTTATTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 23 0.38
28 20 0.33
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCAGTTCGATTATATA
Found at i:48337154 original size:42 final size:43
Alignment explanation
Indices: 48337051--48337188 Score: 124
Period size: 42 Copynumber: 3.2 Consensus size: 43
48337041 GTGTTTTCGA
* * * *
48337051 GTAAGACCATGTATGGGAC-GTTGGCATCGACT-TATGATTTATGT
1 GTAAGACCATGTCTGGGACAG-TGACATCGA-TAT-TTATTTACGT
*
48337095 GTAAGACCATGTTTGGGACA-TCGACATCG-TATTTGATTT-CGT
1 GTAAGACCATGTCTGGGACAGT-GACATCGATATTT-ATTTACGT
* * *
48337137 GTAAGACCTTGTCTGGGACAGTGGCATCGATATTTATTTACAT
1 GTAAGACCATGTCTGGGACAGTGACATCGATATTTATTTACGT
48337180 GTAAGACCA
1 GTAAGACCA
48337189 CATCTAGGAC
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
42 32 0.41
43 22 0.28
44 24 0.31
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACAGTGACATCGATATTTATTTACGT
Found at i:48345812 original size:20 final size:20
Alignment explanation
Indices: 48345787--48345837 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
48345777 ATTTTGATAA
48345787 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48345807 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48345827 ACATGAGATGT
1 ACATGATATGT
48345838 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48345939 original size:24 final size:24
Alignment explanation
Indices: 48345882--48346048 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
48345872 GGAGGAAGTG
48345882 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
48345906 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
48345929 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
48345953 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
48345977 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
48346000 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
48346024 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
48346049 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.33
24 77 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:48345951 original size:47 final size:47
Alignment explanation
Indices: 48345882--48346048 Score: 239
Period size: 47 Copynumber: 3.5 Consensus size: 47
48345872 GGAGGAAGTG
48345882 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
48345929 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
48345977 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
48346024 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
48346049 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 67 0.61
48 31 0.28
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:48345998 original size:71 final size:71
Alignment explanation
Indices: 48345882--48346048 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
48345872 GGAGGAAGTG
48345882 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
48345947 AGTTAT
66 AGTTAT
* *
48345953 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
48346018 AGTTAT
66 AGTTAT
* *
48346024 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
48346049 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 79 0.88
72 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:48353867 original size:20 final size:20
Alignment explanation
Indices: 48353842--48353892 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
48353832 ATTTTGATAA
48353842 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48353862 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48353882 ACATGAGATGT
1 ACATGATATGT
48353893 TCATAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48353962 original size:24 final size:24
Alignment explanation
Indices: 48353935--48354100 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
48353925 GGAGGAAGTG
48353935 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
48353959 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
48353983 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
48354007 -AAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
48354030 -TAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
48354052 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
48354076 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
48354101 ATGATAAAGC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
22 9 0.07
23 46 0.35
24 67 0.50
25 11 0.08
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:48354056 original size:46 final size:47
Alignment explanation
Indices: 48353937--48354079 Score: 236
Period size: 46 Copynumber: 3.1 Consensus size: 47
48353927 AGGAAGTGCA
* *
48353937 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT-T
48353985 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
48354031 AAAGGGCTTATG-CCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
48354077 AAA
1 AAA
48354080 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
45 8 0.09
46 39 0.43
47 23 0.25
48 21 0.23
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:48362762 original size:40 final size:40
Alignment explanation
Indices: 48362717--48362883 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
48362707 CGGAATATAA
48362717 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48362757 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
48362797 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48362837 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48362876 CCGGATAT
1 CCGGATAT
48362884 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48362867 original size:80 final size:79
Alignment explanation
Indices: 48362733--48362883 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
48362723 ATAATCACGT
*
48362733 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
48362798 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
48362813 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
48362876 CCGGATAT
64 CCGGATAT
48362884 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:48363732 original size:17 final size:19
Alignment explanation
Indices: 48363709--48363754 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
48363699 AAGAAGCATG
48363709 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
48363727 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
48363745 AATCATGCTC
1 AATCATGCTC
48363755 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:48370763 original size:40 final size:40
Alignment explanation
Indices: 48370718--48370884 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
48370708 CGGAATATAA
48370718 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
48370758 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
48370798 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
48370838 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
48370877 CCGGATAT
1 CCGGATAT
48370885 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:48370868 original size:80 final size:79
Alignment explanation
Indices: 48370718--48370884 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
48370708 CGGAATATAA
* *
48370718 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
48370783 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
48370798 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
48370860 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
48370877 CCGGATAT
1 CCGGATAT
48370885 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:48371733 original size:17 final size:19
Alignment explanation
Indices: 48371710--48371755 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
48371700 AAGAAGCATG
48371710 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
48371728 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
48371746 AATCATGCTC
1 AATCATGCTC
48371756 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:48378442 original size:27 final size:27
Alignment explanation
Indices: 48378375--48378475 Score: 105
Period size: 29 Copynumber: 3.6 Consensus size: 27
48378365 GACAAGATTG
* * *
48378375 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGC-GGTTT--GATTATATA
48378405 GCACTAAGTGTGCGGTTTGATTATATA
1 GCACTAAGTGTGCGGTTTGATTATATA
*
48378432 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCG-GTTTG-AT-TATATA
48378461 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
48378476 ATTCACTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
27 22 0.34
28 4 0.06
29 25 0.39
30 13 0.20
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGGTTTGATTATATA
Found at i:48384264 original size:30 final size:30
Alignment explanation
Indices: 48384230--48384287 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48384220 TTTTCAAGCA
* * *
48384230 TAGGGGTAGAATGGTTATTTTGCCAAAGTC
1 TAGGGGTAAAATGGTCATTTTACCAAAGTC
48384260 TAGGGGTAAAATGGTCATTTTACCAAAG
1 TAGGGGTAAAATGGTCATTTTACCAAAG
48384288 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (30 bp):
TAGGGGTAAAATGGTCATTTTACCAAAGTC
Found at i:48384775 original size:46 final size:47
Alignment explanation
Indices: 48384671--48384847 Score: 175
Period size: 47 Copynumber: 3.8 Consensus size: 47
48384661 CACTTTATGA
* * * * *
48384671 GAGCCAATATAAGACCATGTCTAGGACATGGCATCGGCATT-GAGACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG--TTCGAGATAT
* *
48384719 GATCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTTACGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTT-CGAGAT-AT
* * *
48384766 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGATTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTTCGAGATAT
* *
48384812 GAGCCAATGTAAGACCATGT-TTGGACATGGCATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
48384848 CACCGTACCC
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
44 2 0.02
46 37 0.35
47 50 0.47
48 18 0.17
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTTCGAGATAT
Found at i:48384792 original size:94 final size:94
Alignment explanation
Indices: 48384628--48384800 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
48384618 TGTTTGGGGG
***
48384628 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACTTTATGAGAGCCAATATAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAATATAAGACCATGTCT
48384693 AGGACATGGCATCGGCATTGAGACAAGAT
66 AGGACATGGCATCGGCATTGAGACAAGAT
* ** * * * *
48384722 CTAGTGTAAGACATGTCTGGGACATGCATCGGTTACGAGATGATAGTCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAATATAAGACCATGTCT
*
48384787 GGGACATGGCATCG
66 AGGACATGGCATCG
48384801 ATTTGAGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCCAATATAAGACCATGTCT
AGGACATGGCATCGGCATTGAGACAAGAT
Found at i:48391248 original size:14 final size:15
Alignment explanation
Indices: 48391229--48391258 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48391219 TCGACATAAC
48391229 CTTTTATG-ATTAAT
1 CTTTTATGCATTAAT
48391243 CTTTTATGCATTAAT
1 CTTTTATGCATTAAT
48391258 C
1 C
48391259 CTTAAGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
CTTTTATGCATTAAT
Found at i:48393985 original size:47 final size:47
Alignment explanation
Indices: 48393876--48394137 Score: 274
Period size: 46 Copynumber: 5.6 Consensus size: 47
48393866 TTTGTGGGCT
* *
48393876 AGTGTAA-AACATGTCTGGGACATGCATCGGACA-C-AGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CATCGAGACGAGAGCC
* * *
48393921 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCC
*
48393969 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACG-AGAGCC
* * * *
48394015 AGTGTAAGA-CATGTTTGGGACATGCATCGGC-TACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGAGAGCC
* *
48394061 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ATTTGAGA-TATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-TCGAGACGA-GAGCC
48394108 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC
48394138 CACACCTTAC
Statistics
Matches: 188, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
45 9 0.05
46 83 0.44
47 72 0.38
48 24 0.13
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGAGAGCC
Found at i:48394034 original size:93 final size:94
Alignment explanation
Indices: 48393873--48394137 Score: 319
Period size: 93 Copynumber: 2.8 Consensus size: 94
48393863 TTGTTTGTGG
* *
48393873 GCTAGTGTAAAACATGTCTGGGACATGCATCGGACAC-AGATG-AGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATGTA-AGCCAGTGTAAGACCATGT
*
48393936 CTGGGACATGGCATCAGC-ATTGAGACGAGA
65 CTGGGACATGGCATCAGCTA-CGAGACGAGA
* * *
48393966 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-CATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATGTAAGCCAGTGTAAGACCATGTC
* * *
48394030 TGGGACAT-GCATCGGCTACGAGATGATA
66 TGGGACATGGCATCAGCTACGAGACGAGA
* * * *
48394058 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC-GATTTGAGATATGAGCCAGTGTAAGACCAT
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGACTCGAGATGTAAGCCAGTGTAAGACCAT
48394121 GTCTGGGACATGGCATC
63 GTCTGGGACATGGCATC
48394138 CACACCTTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.16
93 82 0.55
94 35 0.24
95 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGATGTAAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCTACGAGACGAGA
Found at i:48401754 original size:42 final size:42
Alignment explanation
Indices: 48401630--48401756 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
48401620 CACGGTACTG
* *
48401630 TACCAATGCCATATCTCAGATATGGTCTTACATGTAATCTTGCA
1 TACCGATGCCATATCTCAGATATGGTCTTACATGTAGTC-T-CA
* * *
48401674 T--CGATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTCA
1 TACCGATGCC-ATATCTCAGATATGGTCTTACATGTAGTCTCA
* * *
48401715 TACCGATGCCATATCCCAGATATGGTTTTACACGTAGTCTCA
1 TACCGATGCCATATCTCAGATATGGTCTTACATGTAGTCTCA
48401757 GTAACCCTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 33 0.48
43 32 0.46
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
TACCGATGCCATATCTCAGATATGGTCTTACATGTAGTCTCA
Found at i:48402339 original size:290 final size:289
Alignment explanation
Indices: 48401806--48402340 Score: 874
Period size: 290 Copynumber: 1.8 Consensus size: 289
48401796 TAAGGTTCAA
* * *
48401806 CCGGGATTTCATGCTTGTTAAAAATTTACCGAATACGTCCAAGGGTCAATCACAATTCATACAAT
1 CCGGAATTTCACGCTTGTTAAAAATTTACCGAATACATCCAAGGGTCAATCACAATTCATACAAT
** * *
48401871 AATAAAGCATTTAAAACATAATTTTAAAATGTATTATTTACATATGAACTTACCTCGGTACAAAA
66 AATAAAGCATTTAAAACATAATTAAAAAATGCATTATTTACATACGAACTTACCTCGGTACAAAA
*
48401936 ATAGTAGAAATGAGAACTAATTGTCAAACATTTTGTTTTTCCCCTGATCTAGGTCCAAACATCAT
131 ATAGTAGAAATGAGAACTAATTGTCAAACACTTTGTTTTTCCCCTGATCTAGGTCCAAACATCAT
* *
48402001 TTTTCTTGATCTATAATAACAAATTTAACTCATTTAATATTTACATTTTTCAATTCAGCCTAAAA
196 TTCTCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTTCAATTCAGCCTAAAA
48402066 ATTACACTATGGCAAAAATTACGTTTTTC
261 ATTACACTATGGCAAAAATTACGTTTTTC
* * **
48402095 CCGGAATTTCACGCTTGTTGAAACTTTGTCGAATACATCCAAGGGTCAATCACAATTCATACAAT
1 CCGGAATTTCACGCTTGTTAAAAATTTACCGAATACATCCAAGGGTCAATCACAATTCATACAAT
*
48402160 AATAAAGCATTTAAAACATAATTAAAACAATGCATTATTTACATACGAACTTGCCTCGGTACAAA
66 AATAAAGCATTTAAAACATAATTAAAA-AATGCATTATTTACATACGAACTTACCTCGGTACAAA
* * *
48402225 AATAGTAGAAATGGGACCTAATTGTCAAACACTTTGTTTTTACCCC-GATCTAGGTCCAAACCTC
130 AATAGTAGAAATGAGAACTAATTGTCAAACACTTTGTTTTT-CCCCTGATCTAGGTCCAAACATC
*
48402289 GTTTCTCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTT
194 ATTTCTCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTT
48402341 ACACTTTGGT
Statistics
Matches: 225, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
289 83 0.37
290 138 0.61
291 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (289 bp):
CCGGAATTTCACGCTTGTTAAAAATTTACCGAATACATCCAAGGGTCAATCACAATTCATACAAT
AATAAAGCATTTAAAACATAATTAAAAAATGCATTATTTACATACGAACTTACCTCGGTACAAAA
ATAGTAGAAATGAGAACTAATTGTCAAACACTTTGTTTTTCCCCTGATCTAGGTCCAAACATCAT
TTCTCTTGATCTATAATAACAAATTTAACTCATTTAATATTCACATTTTTCAATTCAGCCTAAAA
ATTACACTATGGCAAAAATTACGTTTTTC
Done.