Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 734 of 770
Found at i:232108157 original size:29 final size:27
Alignment explanation
Indices: 232108123--232108225 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
232108113 TACTCAATCA
*
232108123 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
232108152 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
232108181 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
232108210 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
232108226 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:232115951 original size:29 final size:27
Alignment explanation
Indices: 232115917--232116019 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
232115907 TACTCAATCA
*
232115917 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
232115946 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
232115975 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
232116004 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
232116020 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:232120643 original size:39 final size:40
Alignment explanation
Indices: 232120588--232120693 Score: 128
Period size: 39 Copynumber: 2.7 Consensus size: 40
232120578 CGATATATTA
*
232120588 TATATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATG
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTACTGGTAATG
* *
232120628 TATATCC-GGTTAAATCCCGCAGGCTTAGTGCTGGT-A-C
1 TATATCCGGGTTAAATCCCGCAGGCTTAGTACTGGTAATG
* *
232120665 TATATCTGGGCTTAAAGTTCCGCAGGCTT
1 TATATCCGGG-TTAAA-TCCCGCAGGCTT
232120694 TGAGCTAGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.10
38 3 0.05
39 31 0.53
40 18 0.31
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (40 bp):
TATATCCGGGTTAAATCCCGCAGGCTTAGTACTGGTAATG
Found at i:232128080 original size:24 final size:24
Alignment explanation
Indices: 232128052--232128100 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
232128042 TAAAAGGCTT
232128052 TGATGTTCGAAATGATTAAACAAA
1 TGATGTTCGAAATGATTAAACAAA
232128076 TGATGTTCGAAATGATTAAACAAA
1 TGATGTTCGAAATGATTAAACAAA
232128100 T
1 T
232128101 TCATTTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (24 bp):
TGATGTTCGAAATGATTAAACAAA
Found at i:232128261 original size:9 final size:9
Alignment explanation
Indices: 232128249--232128273 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
232128239 GATGTAATGA
232128249 GATAAGCAT
1 GATAAGCAT
232128258 GATAAGCAT
1 GATAAGCAT
232128267 GATAAGC
1 GATAAGC
232128274 TGAAGTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (9 bp):
GATAAGCAT
Found at i:232129747 original size:70 final size:71
Alignment explanation
Indices: 232129597--232129759 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
232129587 GAGATGTATC
232129597 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232129662 AGGACA
66 AGGACA
232129668 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232129732 AGGACA
66 AGGACA
232129738 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
232129760 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:232137216 original size:41 final size:41
Alignment explanation
Indices: 232137171--232137288 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
232137161 TGAAAGATAA
232137171 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
232137212 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232137242 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232137283 ATGTAG
1 ATGTAG
232137289 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:232137227 original size:71 final size:71
Alignment explanation
Indices: 232137139--232137302 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
232137129 GAGATGTATC
232137139 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232137204 AGGACA
66 AGGACA
232137210 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232137275 AGGACA
66 AGGACA
232137281 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
232137303 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:232146598 original size:43 final size:42
Alignment explanation
Indices: 232146543--232146657 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
232146533 CCAATACCAT
*
232146543 ATCCCAGATATGGTCTTACATGTAATCTCGTATCGATG-CAA
1 ATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAA
* * *
232146584 ATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCGATGCCAG
1 AT--CCCAGATATGGTCTTACATGTAA-TCTCATATCGATGCCAA
* *
232146628 ATCCTAGATATGGTCTTACATATAATCTCA
1 ATCCCAGATATGGTCTTACATGTAATCTCA
232146658 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.03
42 23 0.38
43 32 0.52
44 4 0.07
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCAA
Found at i:232149934 original size:27 final size:28
Alignment explanation
Indices: 232149878--232149947 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
232149868 AAATTTGTAC
232149878 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
232149906 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
232149933 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
232149948 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:232149958 original size:27 final size:27
Alignment explanation
Indices: 232149878--232149959 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
232149868 AAATTTGTAC
* *
232149878 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
232149906 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
232149933 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
232149960 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:232157772 original size:26 final size:27
Alignment explanation
Indices: 232157743--232157810 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 27
232157733 AAATTTGTAC
232157743 AGCACTAAGTGTGCGAGTTTGA-T-CAT
1 AGCACTAAGTGTGCGAG-TTGATTACAT
*
232157769 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTACAT
232157796 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
232157811 GACTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 4 0.10
26 18 0.46
27 17 0.44
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTACAT
Found at i:232157821 original size:27 final size:27
Alignment explanation
Indices: 232157743--232157822 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
232157733 AAATTTGTAC
*
232157743 AGCACTAAGTGTGCGAG-T--TTGATCAT
1 AGCACTAAGTGTGCGAGCTCACT-AT-AT
* * *
232157769 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
232157796 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
232157823 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
26 18 0.38
27 25 0.53
28 2 0.04
29 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:232162329 original size:40 final size:39
Alignment explanation
Indices: 232162285--232162501 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
232162275 GCTCGATTGT
* * *
232162285 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
232162325 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
232162365 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
232162405 CTTCGGGACTTAACTCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * * *
232162445 CTTC-GGA-ATTGACCCGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGTTTAGTAAC-TCGCACAAATGC
*
232162484 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
232162502 ATACCATTCG
Statistics
Matches: 150, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
38 8 0.05
39 21 0.14
40 117 0.78
41 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:232162383 original size:80 final size:79
Alignment explanation
Indices: 232162285--232162503 Score: 251
Period size: 80 Copynumber: 2.7 Consensus size: 79
232162275 GCTCGATTGT
* * * * *
232162285 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
232162350 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * * *
232162365 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
232162430 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * * *
232162445 CTTC-GGAATTGACCCGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGGTTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
232162504 ACCATTCGAA
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
78 5 0.04
79 38 0.33
80 70 0.61
81 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:232169888 original size:40 final size:39
Alignment explanation
Indices: 232169844--232170059 Score: 211
Period size: 40 Copynumber: 5.4 Consensus size: 39
232169834 GCTCGATTGT
* * *
232169844 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
232169884 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
232169924 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
232169964 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
232170004 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
232170045 CTTCGGGACTTAGCC
1 CTTCGGGACATAGCC
232170060 GGATACCATT
Statistics
Matches: 151, Mismatches: 19, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
39 2 0.01
40 125 0.83
41 22 0.15
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:232169942 original size:80 final size:79
Alignment explanation
Indices: 232169844--232170063 Score: 253
Period size: 80 Copynumber: 2.7 Consensus size: 79
232169834 GCTCGATTGT
* * * * *
232169844 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
232169909 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * * *
232169924 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
232169989 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
232170004 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAG-CCGGAT
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
232170064 ACCATTCGAA
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 92 0.79
81 24 0.21
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:232172100 original size:41 final size:41
Alignment explanation
Indices: 232172055--232172172 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
232172045 TGAAAGATAA
232172055 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
232172096 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232172126 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232172167 ATGTAG
1 ATGTAG
232172173 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:232172111 original size:71 final size:71
Alignment explanation
Indices: 232172023--232172186 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
232172013 GAGATGTATC
232172023 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232172088 AGGACA
66 AGGACA
232172094 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232172159 AGGACA
66 AGGACA
232172165 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
232172187 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:232179678 original size:41 final size:41
Alignment explanation
Indices: 232179633--232179750 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
232179623 TGAAAGATAA
232179633 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
232179674 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232179704 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
232179745 ATGTAG
1 ATGTAG
232179751 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:232179689 original size:71 final size:71
Alignment explanation
Indices: 232179601--232179764 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
232179591 GAGATGTATC
232179601 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232179666 AGGACA
66 AGGACA
232179672 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
232179737 AGGACA
66 AGGACA
232179743 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
232179765 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:232183433 original size:40 final size:40
Alignment explanation
Indices: 232183388--232183555 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
232183378 CGGAATATAA
232183388 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
232183428 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
232183468 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
232183508 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
232183548 CCGGATAT
1 CCGGATAT
232183556 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:232191454 original size:40 final size:40
Alignment explanation
Indices: 232191409--232191575 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
232191399 CGGAATATAA
232191409 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
232191449 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
232191489 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
232191529 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
232191568 CCGGATAT
1 CCGGATAT
232191576 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:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:232196101 original size:32 final size:32
Alignment explanation
Indices: 232196060--232196125 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
232196050 ATAAAACATG
232196060 AAATTAAAGGATTAGGAGCATCGAATTCACCA
1 AAATTAAAGGATTAGGAGCATCGAATTCACCA
232196092 AAATTAAAGGATTAGGAGCATCGAATTCACCA
1 AAATTAAAGGATTAGGAGCATCGAATTCACCA
232196124 AA
1 AA
232196126 TCTAAGGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (32 bp):
AAATTAAAGGATTAGGAGCATCGAATTCACCA
Found at i:232198094 original size:22 final size:22
Alignment explanation
Indices: 232198051--232198094 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
232198041 GCACCAATGC
** **
232198051 CGCTATCGTACATCGCTGTTGT
1 CGCTATCACACATCGCCATTGT
232198073 CGCTATCACACATCGCCATTGT
1 CGCTATCACACATCGCCATTGT
232198095 TGCCGCACGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (22 bp):
CGCTATCACACATCGCCATTGT
Found at i:232200050 original size:40 final size:40
Alignment explanation
Indices: 232200005--232200172 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
232199995 CGGAATATAA
232200005 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
232200045 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
232200085 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
232200125 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
232200165 CCGGATAT
1 CCGGATAT
232200173 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:232205812 original size:38 final size:39
Alignment explanation
Indices: 232205760--232205901 Score: 225
Period size: 38 Copynumber: 3.7 Consensus size: 39
232205750 GAATGTTCGA
232205760 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
232205799 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTG-GAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
232205836 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
232205875 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
232205902 CTTTGTGCGG
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
37 8 0.09
38 52 0.56
39 24 0.26
40 9 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:232212121 original size:38 final size:39
Alignment explanation
Indices: 232212069--232212211 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
232212059 GAATGTTCGA
232212069 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
232212108 GTGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
232212146 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
232212185 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
232212212 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:232212157 original size:77 final size:79
Alignment explanation
Indices: 232212070--232212251 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
232212060 AATGTTCGAG
232212070 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATA-CCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
232212133 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
232212147 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
232212212 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
232212226 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
232212252 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:232213666 original size:28 final size:29
Alignment explanation
Indices: 232213626--232213689 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 29
232213616 GGGGTGTTAC
*
232213626 AGTGTGCATGCTGGAAA-ATATGGCACTG
1 AGTGTGCATGCTGGAAATATATGGCACTA
232213654 AGTGTGCATGCTGGAAATATATGGCACTA
1 AGTGTGCATGCTGGAAATATATGGCACTA
232213683 AGTGTGC
1 AGTGTGC
232213690 GAGCTCGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
AGTGTGCATGCTGGAAATATATGGCACTA
Found at i:232213705 original size:29 final size:29
Alignment explanation
Indices: 232213673--232213749 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
232213663 GCTGGAAATA
* *
232213673 TATGGCACTAAGTGTGCGAGCTCGAAGGG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
** * * *
232213702 TATGGCACTGTGTGTGCGGGCTTAAATCG
1 TATGGCACTAAGTGTGCGAGCTCAAAGCG
*
232213731 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
232213750 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAGCTCAAAGCG
Found at i:232221478 original size:57 final size:58
Alignment explanation
Indices: 232221367--232221496 Score: 235
Period size: 57 Copynumber: 2.3 Consensus size: 58
232221357 GTGACGAGAT
*
232221367 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
*
232221425 TGGCACTAAGTGTGCATGCTGGAAAAAT-TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
232221482 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
232221497 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 43 0.61
58 27 0.39
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:232221517 original size:29 final size:29
Alignment explanation
Indices: 232221367--232221496 Score: 235
Period size: 29 Copynumber: 4.5 Consensus size: 29
232221357 GTGACGAGAT
232221367 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
232221396 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
232221425 TGGCACTAAGTGTGCATGCTGGAAAAAT-
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
232221453 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
232221482 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
232221497 GAGCTCGAAG
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 26 0.27
29 70 0.73
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:232225836 original size:80 final size:80
Alignment explanation
Indices: 232225752--232225900 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
232225742 TATGGTAACC
* * * *
232225752 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
232225816 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
232225832 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
232225897 CCGG
66 CCGG
232225901 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:232225842 original size:40 final size:38
Alignment explanation
Indices: 232225793--232225900 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
232225783 ATCACGATTT
*
232225793 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
232225833 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
232225873 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
232225901 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:232233937 original size:80 final size:80
Alignment explanation
Indices: 232233853--232234001 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
232233843 TATGGTAACC
* * * *
232233853 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
232233917 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
232233933 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
232233998 CCGG
66 CCGG
232234002 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:232233943 original size:40 final size:38
Alignment explanation
Indices: 232233894--232234001 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
232233884 ATCACGATTT
*
232233894 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
232233934 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
232233974 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
232234002 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:232240720 original size:22 final size:22
Alignment explanation
Indices: 232240690--232240740 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
232240680 GAACAAGTAG
232240690 GGGAGAATGTCATGGGTTGCAAA
1 GGGA-AATGTCATGGGTTGCAAA
*
232240713 GGGAAATGTCATGGGTTGCGAA
1 GGGAAATGTCATGGGTTGCAAA
232240735 GGGAAA
1 GGGAAA
232240741 CTTGCAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.41, T:0.20
Consensus pattern (22 bp):
GGGAAATGTCATGGGTTGCAAA
Found at i:232240884 original size:35 final size:35
Alignment explanation
Indices: 232240845--232240915 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
232240835 CATCTCCGGA
* *
232240845 GCTTGGAAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
* *
232240880 GCTTGGCAAATATGAAAAGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
232240915 G
1 G
232240916 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGAAAAGGAATCTTCAAAGATAT
Found at i:232243215 original size:27 final size:28
Alignment explanation
Indices: 232243185--232243254 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
232243175 ATAATAAGTC
*
232243185 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
232243212 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
232243240 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
232243255 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:232245746 original size:20 final size:21
Alignment explanation
Indices: 232245711--232245749 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
232245701 TCGTCTATTA
*
232245711 TGGAGTCGAAGTCAACTTGTT
1 TGGAGTCGAAGGCAACTTGTT
232245732 TGGAG-CGAAGGCAACTTG
1 TGGAGTCGAAGGCAACTTG
232245750 GTCATAGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (21 bp):
TGGAGTCGAAGGCAACTTGTT
Found at i:232255417 original size:39 final size:39
Alignment explanation
Indices: 232255363--232255525 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
232255353 TGTGAATGAA
232255363 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
232255402 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
232255441 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
232255480 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
232255520 TGTGCG
1 TGTGCG
232255526 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:232255541 original size:40 final size:39
Alignment explanation
Indices: 232255363--232255555 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
232255353 TGTGAATGAA
* *
232255363 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
232255402 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
232255441 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
232255480 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
232255520 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
232255556 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:232263354 original size:39 final size:39
Alignment explanation
Indices: 232263300--232263462 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
232263290 TGTGAATGAA
232263300 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
232263339 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
232263378 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
232263417 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
232263457 TGTGCG
1 TGTGCG
232263463 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:232263478 original size:40 final size:39
Alignment explanation
Indices: 232263300--232263492 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
232263290 TGTGAATGAA
* *
232263300 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
232263339 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
232263378 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
232263417 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
232263457 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
232263493 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:232265546 original size:55 final size:53
Alignment explanation
Indices: 232265480--232265614 Score: 182
Period size: 53 Copynumber: 2.5 Consensus size: 53
232265470 GTAAGGAAAT
*
232265480 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-C-ACAAGGC-AAGGATAC
* * * * *
232265535 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCACAAGGCAAGGATAC
232265588 CATGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
232265615 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.06
53 33 0.46
54 1 0.01
55 33 0.46
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCACAAGGCAAGGATAC
Found at i:232265612 original size:53 final size:55
Alignment explanation
Indices: 232265466--232265614 Score: 187
Period size: 55 Copynumber: 2.7 Consensus size: 55
232265456 ATAAGGTTTC
* * *
232265466 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
* * * * * *
232265521 CAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-A
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
232265574 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCA
232265615 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.05
53 33 0.42
54 1 0.01
55 37 0.47
56 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (55 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTA
Found at i:232268106 original size:28 final size:28
Alignment explanation
Indices: 232268074--232268172 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
232268064 GCAATAAGCC
*
232268074 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
232268102 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
232268130 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
232268159 CGCACACTTAGTGC
1 CGCACACTTAGTGC
232268173 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:232275784 original size:28 final size:28
Alignment explanation
Indices: 232275752--232275850 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
232275742 GCAATAAGCC
*
232275752 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
232275780 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
232275808 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
232275837 CGCACACTTAGTGC
1 CGCACACTTAGTGC
232275851 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:232281731 original size:80 final size:79
Alignment explanation
Indices: 232281591--232281796 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 79
232281581 CGGAATACAA
* * *
232281591 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
232281655 GCCTTCGGGTATTAGC
65 GCCTTC-GGTATTAAC
* * **
232281671 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
232281735 GCCTTCGGTCTTAAC
65 GCCTTCGGTATTAAC
** * ** * *
232281750 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
232281797 TCATTCAATT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
79 48 0.45
80 56 0.53
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGTATTAAC
Found at i:232281766 original size:39 final size:40
Alignment explanation
Indices: 232281591--232281797 Score: 197
Period size: 40 Copynumber: 5.2 Consensus size: 40
232281581 CGGAATACAA
*
232281591 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGC
* * * * *
232281631 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
232281671 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* ** *
232281711 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTC-GGTCTTAAC
1 CCGGATAT-AACAACTAGCACGAAT-GCCTTCGGGTCTTAGC
** ** * *
232281750 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
232281790 CCGGATAT
1 CCGGATAT
232281798 CATTCAATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
39 30 0.22
40 107 0.78
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:232291580 original size:28 final size:29
Alignment explanation
Indices: 232291548--232291646 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
232291538 ATAATAAGCC
*
232291548 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
232291576 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
232291604 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
232291633 CGCACACTTAGTGC
1 CGCACACTTAGTGC
232291647 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:232298823 original size:40 final size:40
Alignment explanation
Indices: 232298751--232298982 Score: 362
Period size: 40 Copynumber: 5.8 Consensus size: 40
232298741 TTCCAGCGCA
* * *
232298751 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
232298790 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
232298830 AGCCTGTGGGTCTTTAAGCCCGGATACAATTCCATCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
232298870 AGCCTGCGGGTCTTTAA-CCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* *
232298909 AGCCTGCGGGTCTTTAAGCCCGAAGACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
232298949 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
232298983 AATATCATAC
Statistics
Matches: 177, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 54 0.31
40 123 0.69
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:232298899 original size:79 final size:79
Alignment explanation
Indices: 232298751--232298982 Score: 351
Period size: 79 Copynumber: 2.9 Consensus size: 79
232298741 TTCCAGCGCA
* * * *
232298751 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGCACGA-AGCCTGCGGGTCTTTATGCCCGGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TATAGCCTGCGGGTCTTTA-ACCCGGA
232298814 TACAATTCCAGCATAT
64 TACAATTCCAGCATAT
* *
232298830 AGCCTGTGGGTCTTTAAGCCCGGATACAATTCCATCATATAGCCTGCGGGTCTTTAACCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAACCCGGATA
232298895 CAATTCCAGCATAT
66 CAATTCCAGCATAT
* *
232298909 AGCCTGCGGGTCTTTAAGCCCGAAGACAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAA-CCCGGAT
232298974 ACAATTCCA
65 ACAATTCCA
232298983 AATATCATAC
Statistics
Matches: 140, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
79 91 0.65
80 49 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAACCCGGATA
CAATTCCAGCATAT
Found at i:232298962 original size:119 final size:119
Alignment explanation
Indices: 232298751--232298982 Score: 385
Period size: 119 Copynumber: 1.9 Consensus size: 119
232298741 TTCCAGCGCA
* * * *
232298751 AGCCTACGGGTCTTTAACCCGGATACCATTCCAGCACGAAGCCTGCGGGTCTTTATGCCCGGATA
1 AGCCTACGGGTCTTTAACCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAAGA
*
232298816 CAATTCCAGCATATAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCATCATAT
66 CAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCATCATAT
* *
232298870 AGCCTGCGGGTCTTTAACCCGGATACAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGAAG
1 AGCCTACGGGTCTTTAACCCGGATACAATTCCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGAAG
232298934 ACAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
65 ACAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
232298983 AATATCATAC
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 1 0.01
119 104 0.99
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
AGCCTACGGGTCTTTAACCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAAGA
CAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCATCATAT
Found at i:232300256 original size:21 final size:21
Alignment explanation
Indices: 232300231--232300271 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
232300221 CGGCAATTTC
232300231 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
232300252 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
232300272 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:232300281 original size:21 final size:21
Alignment explanation
Indices: 232300242--232300281 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
232300232 ATTCATACCT
* *
232300242 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
232300263 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
232300282 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:232302914 original size:29 final size:29
Alignment explanation
Indices: 232302845--232302946 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
232302835 GTGACGAGAT
* * *
232302845 TGGCACTGAGTGTGCGAGCTTGTAT-GTA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
* * *
232302873 CGGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* *
232302902 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
232302931 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
232302947 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 20 0.33
29 39 0.65
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:232313887 original size:40 final size:39
Alignment explanation
Indices: 232313722--232313905 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
232313712 GAAATTGATG
* * *
232313722 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
232313762 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
232313802 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
232313842 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
232313881 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
232313906 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:232313930 original size:80 final size:81
Alignment explanation
Indices: 232313762--232313950 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
232313752 GCTGGAAATT
* * * *
232313762 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
232313827 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
232313843 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
232313906 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
232313922 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
232313951 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:232318759 original size:39 final size:40
Alignment explanation
Indices: 232318716--232318913 Score: 186
Period size: 39 Copynumber: 5.2 Consensus size: 40
232318706 CGGGATTTAA
* * *
232318716 CCGGATATAGCGACTCGCACGATTGCCTTC-GGTCATAAC
1 CCGGATATAGCGACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
232318755 CCGGATTTGGTGACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATAGCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
232318795 CCGGATATATC-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
232318834 CCGGATATATC-A---GCAC---TGCCTTCGGG-CTTAGC
1 CCGGATATAGCGACTCGCACGAATGCCTTCGGGTCTTAGC
* *
232318866 CCGGATATATCAACTCGCTA-GAATG-CTTCGGGTCTTAGC
1 CCGGATATAGCGACTCGC-ACGAATGCCTTCGGGTCTTAGC
232318905 CCGGATATA
1 CCGGATATA
232318914 TCAACTTCCA
Statistics
Matches: 133, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
32 17 0.13
33 11 0.08
36 6 0.05
37 1 0.01
38 7 0.05
39 77 0.58
40 14 0.11
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:232318896 original size:71 final size:72
Alignment explanation
Indices: 232318779--232318916 Score: 237
Period size: 71 Copynumber: 1.9 Consensus size: 72
232318769 TTGCACAAAG
232318779 GCCTTCGGGTCTTAGCCCGGATATATCACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATATCACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
232318844 CAGCACT
66 CAGCACT
232318851 GCCTTCGGG-CTTAGCCCGGATATATCAACTCGCTA-GAATG-CTTCGGGTCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATATC-ACTCGC-ACGAATGCCTTCGGGTCTTAGCCCGGATAT
232318913 ATCA
64 ATCA
232318917 ACTTCCAATG
Statistics
Matches: 64, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
71 43 0.67
72 20 0.31
73 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (72 bp):
GCCTTCGGGTCTTAGCCCGGATATATCACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
CAGCACT
Found at i:232318919 original size:39 final size:38
Alignment explanation
Indices: 232318779--232318916 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 38
232318769 TTGCACAAAG
232318779 GCCTTCGGGTCTTAGCCCGGATATATCACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCACTCGCA-GAAT
*
232318818 GCCTTCGGGTCTTAGCCCGGATATATCA---GC--ACT
1 GCCTTCGGGTCTTAGCCCGGATATATCACTCGCAGAAT
232318851 GCCTTCGGG-CTTAGCCCGGATATATCAACTCGCTAGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATC-ACTCGC-AGAAT
232318890 G-CTTCGGGTCTTAGCCCGGATATATCA
1 GCCTTCGGGTCTTAGCCCGGATATATCA
232318917 ACTTCCAATG
Statistics
Matches: 89, Mismatches: 2, Indels: 17
0.82 0.02 0.16
Matches are distributed among these distances:
32 17 0.19
33 12 0.13
36 4 0.04
38 8 0.09
39 48 0.54
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (38 bp):
GCCTTCGGGTCTTAGCCCGGATATATCACTCGCAGAAT
Found at i:232326946 original size:40 final size:40
Alignment explanation
Indices: 232326838--232327047 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
232326828 CGGGATTTAA
* * * * *
232326838 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
232326878 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
232326918 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
232326958 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
232326998 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
232327038 CCGGATATAT
1 CCGGATATAT
232327048 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:232336633 original size:30 final size:28
Alignment explanation
Indices: 232336540--232336640 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
232336530 TATAGTGAAT
* * *
232336540 CCGCACACTTAGTGCTATATATTTC-AGC
1 CCGCACACTTAGTGCTATACA-ATCAAAC
* *
232336568 TCGCACACTTAGTGCTATAGAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
232336596 GCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
232336626 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
232336641 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 2 0.03
28 40 0.66
30 19 0.31
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:232340852 original size:22 final size:21
Alignment explanation
Indices: 232340810--232340852 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
232340800 ATGCGTATTG
* *
232340810 AGTTATAATATGTAAGGCATT
1 AGTTATAAAATGTAAGCCATT
*
232340831 AGTTAGTAAAATGTATGCCATT
1 AGTTA-TAAAATGTAAGCCATT
232340853 TATATGTGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (21 bp):
AGTTATAAAATGTAAGCCATT
Found at i:232341768 original size:40 final size:40
Alignment explanation
Indices: 232341527--232341741 Score: 351
Period size: 40 Copynumber: 5.4 Consensus size: 40
232341517 GATGATAACT
* * *
232341527 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
232341567 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
232341607 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
232341647 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
232341687 GGGCTAAGTCCCGAAGGCATTTGGGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
232341727 GGGCTATGTCCCGAA
1 GGGCTAAGTCCCGAA
232341742 TGTATTCGAG
Statistics
Matches: 165, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 164 0.99
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:232349895 original size:40 final size:40
Alignment explanation
Indices: 232349840--232350016 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
232349830 TGGATGATAA
* * *
232349840 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
232349880 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
232349920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
232349959 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
232349998 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
232350017 TNNNNNNNNN
Statistics
Matches: 130, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 28 0.22
39 21 0.16
40 81 0.62
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:232349985 original size:78 final size:80
Alignment explanation
Indices: 232349840--232350016 Score: 297
Period size: 78 Copynumber: 2.2 Consensus size: 80
232349830 TGGATGATAA
*
232349840 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
232349905 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
*
232349920 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-TATCC-GGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
232349982 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
232349998 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
232350017 TNNNNNNNNN
Statistics
Matches: 93, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
78 56 0.60
79 7 0.08
80 30 0.32
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:232353265 original size:28 final size:27
Alignment explanation
Indices: 232353202--232353271 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
232353192 ATAGTGAGTC
232353202 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
232353229 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
232353257 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
232353272 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:232360910 original size:27 final size:28
Alignment explanation
Indices: 232360853--232360922 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
232360843 AAATTTGTAC
**
232360853 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
232360881 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
232360908 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
232360923 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:232360931 original size:27 final size:27
Alignment explanation
Indices: 232360853--232360934 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
232360843 AAATTTGTAC
* *
232360853 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
232360881 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
232360908 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
232360935 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:232368498 original size:27 final size:28
Alignment explanation
Indices: 232368441--232368510 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
232368431 AAATTTGTAC
**
232368441 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
232368469 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
232368496 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
232368511 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:232368519 original size:27 final size:27
Alignment explanation
Indices: 232368441--232368522 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
232368431 AAATTTGTAC
* *
232368441 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
232368469 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
232368496 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
232368523 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:232377618 original size:20 final size:20
Alignment explanation
Indices: 232377593--232377630 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
232377583 GTTTATTCGC
*
232377593 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
232377613 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
232377631 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:232379288 original size:28 final size:28
Alignment explanation
Indices: 232379256--232379324 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
232379246 GCGTAGATCA
232379256 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
232379284 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
232379312 CGATA-TACCCCTA
1 CGAAATTACCCCTA
232379325 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:232385622 original size:20 final size:20
Alignment explanation
Indices: 232385597--232385634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
232385587 GTTTATTCGC
*
232385597 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
232385617 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
232385635 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:232389477 original size:47 final size:47
Alignment explanation
Indices: 232389414--232389895 Score: 835
Period size: 47 Copynumber: 10.3 Consensus size: 47
232389404 GTATGAGATA
* *
232389414 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
232389461 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
232389508 TAT-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
232389554 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
232389601 TATATATGTGA-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
232389647 TATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
232389694 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
232389741 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
232389788 CATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
232389834 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
232389881 TATAAATGTGATAAG
1 TATATATGTGATAAG
232389896 TCCCGAAGGG
Statistics
Matches: 419, Mismatches: 13, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 134 0.32
47 285 0.68
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:232389577 original size:93 final size:94
Alignment explanation
Indices: 232389414--232389895 Score: 835
Period size: 93 Copynumber: 5.2 Consensus size: 94
232389404 GTATGAGATA
* * * *
232389414 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAAGTGACAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
232389479 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
232389508 TAT-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
232389572 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
232389601 TATATATGTGA-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAGAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
232389665 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
232389694 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
232389759 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* *
232389788 CATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
232389852 GAGTGGCCAATGTGATGGATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
232389881 TATAAATGTGATAAG
1 TATATATGTGATAAG
232389896 TCCCGAAGGG
Statistics
Matches: 372, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
93 257 0.69
94 115 0.31
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:232389585 original size:140 final size:140
Alignment explanation
Indices: 232389414--232389891 Score: 825
Period size: 140 Copynumber: 3.4 Consensus size: 140
232389404 GTATGAGATA
*
232389414 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAAGTGACAAGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA-AAGGCC
232389479 TAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATGTGATAAGGCCTAATGGCCGATGTGATGA
65 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
232389543 ATGTGAAAGTG
130 ATGTGAAAGTG
* *
232389554 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAAGGCCT
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAAAGGCCT
*
232389619 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAGAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
232389684 TGTGAAAGTG
131 TGTGAAAGTG
* *
232389694 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA-AAGGCC
* *
232389759 TAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
65 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
232389823 ATGTGAAAGTG
130 ATGTGAAAGTG
* * *
232389834 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGA
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
232389892 TAAGTCCCGA
Statistics
Matches: 324, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
139 38 0.12
140 228 0.70
141 58 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (140 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGAAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTG
Found at i:232390072 original size:37 final size:37
Alignment explanation
Indices: 232390013--232390095 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
232390003 CCGAGCTCTA
* *
232390013 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
232390050 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
232390087 AAGCCCCGA
1 AAGACCCGA
232390096 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:232391594 original size:27 final size:28
Alignment explanation
Indices: 232391556--232391613 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
232391546 GCGTAGATCA
232391556 CGAAATTACCCCTAAAGAGC-AAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
232391583 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
232391611 CGA
1 CGA
232391614 TATACCCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:232394498 original size:40 final size:40
Alignment explanation
Indices: 232394453--232394619 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
232394443 CGGAATATAA
232394453 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
232394493 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
232394533 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
232394573 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
232394612 CCGGATAT
1 CCGGATAT
232394620 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:232394603 original size:80 final size:79
Alignment explanation
Indices: 232394453--232394619 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
232394443 CGGAATATAA
* *
232394453 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
232394518 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
232394533 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
232394595 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
232394612 CCGGATAT
1 CCGGATAT
232394620 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:232395467 original size:17 final size:19
Alignment explanation
Indices: 232395444--232395489 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
232395434 AAGAAGCATG
232395444 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
232395462 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
232395480 AATCATGCTC
1 AATCATGCTC
232395490 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:232402498 original size:40 final size:40
Alignment explanation
Indices: 232402453--232402619 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
232402443 CGGAATATAA
232402453 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
232402493 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
232402533 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
232402573 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
232402612 CCGGATAT
1 CCGGATAT
232402620 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:232402603 original size:80 final size:79
Alignment explanation
Indices: 232402453--232402619 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
232402443 CGGAATATAA
* *
232402453 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
232402518 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
232402533 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
232402595 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
232402612 CCGGATAT
1 CCGGATAT
232402620 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:232403467 original size:17 final size:19
Alignment explanation
Indices: 232403444--232403489 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
232403434 AAGAAGCATG
232403444 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
232403462 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
232403480 AATCATGCTC
1 AATCATGCTC
232403490 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:232411408 original size:28 final size:28
Alignment explanation
Indices: 232411376--232411476 Score: 150
Period size: 28 Copynumber: 3.5 Consensus size: 28
232411366 ATAGTGAATC
232411376 CGCACACTTAGTGCTATATATTTCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCT
232411404 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-A-TTTCAGCT
* *
232411434 CGCACACTTAGTGCTATATA-ATCAAACT
1 CGCACACTTAGTGCTATATATTTC-AGCT
232411462 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
232411477 GTACAATTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.03
28 37 0.54
29 2 0.03
30 27 0.40
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTCAGCT
Found at i:232411432 original size:30 final size:29
Alignment explanation
Indices: 232411376--232411505 Score: 158
Period size: 30 Copynumber: 4.5 Consensus size: 29
232411366 ATAGTGAATC
*
232411376 CGCACACTTAGTGCTATAT-ATTTCAGCT
1 CGCACACTTAGTGCTATATAATTTCAACT
*
232411404 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAA-TTTCAACT
232411434 CGCACACTTAGTGCTATATAA--TCAAACT
1 CGCACACTTAGTGCTATATAATTTC-AACT
* * * *
232411462 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTTCAACT
232411492 CGCACACTTAGTGC
1 CGCACACTTAGTGC
232411506 CAATCTTGTC
Statistics
Matches: 91, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 41 0.45
29 1 0.01
30 46 0.51
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTTCAACT
Found at i:232411466 original size:58 final size:58
Alignment explanation
Indices: 232411375--232411505 Score: 183
Period size: 58 Copynumber: 2.3 Consensus size: 58
232411365 TATAGTGAAT
* * * * *
232411375 CCGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
232411433 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
232411491 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
232411506 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:232415813 original size:40 final size:40
Alignment explanation
Indices: 232415754--232415961 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
232415744 CAATTGAATG
* * * *
232415754 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
232415794 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
232415834 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
232415874 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
232415914 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
232415954 ATATCCGG
1 ATATCCGG
232415962 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:232415892 original size:80 final size:80
Alignment explanation
Indices: 232415756--232415961 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
232415746 ATTGAATGAT
* * ** * * *
232415756 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
232415820 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
232415836 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
232415901 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
232415916 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
232415962 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:232423811 original size:40 final size:40
Alignment explanation
Indices: 232423752--232423959 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
232423742 CAATTGAATG
* * * *
232423752 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
232423792 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
232423832 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
232423872 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
232423912 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
232423952 ATATCCGG
1 ATATCCGG
232423960 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:232423890 original size:80 final size:80
Alignment explanation
Indices: 232423754--232423959 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
232423744 ATTGAATGAT
* * ** * * *
232423754 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
232423818 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
232423834 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
232423899 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
232423914 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
232423960 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:232430333 original size:40 final size:40
Alignment explanation
Indices: 232430171--232430335 Score: 153
Period size: 39 Copynumber: 4.2 Consensus size: 40
232430161 AAATTGAATG
* * **
232430171 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
232430210 ATAT-CGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
232430249 ATAT-CGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
232430288 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
232430328 ATATCCGG
1 ATATCCGG
232430336 TTATATTCCG
Statistics
Matches: 101, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
38 11 0.11
39 54 0.53
40 34 0.34
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:232438715 original size:30 final size:30
Alignment explanation
Indices: 232438679--232438779 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
232438669 GACAAGATTG
* * *
232438679 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
232438709 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
232438737 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
232438766 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232438780 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:232438791 original size:29 final size:28
Alignment explanation
Indices: 232438708--232438783 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
232438698 AAAATTGTAC
* *
232438708 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
232438736 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
232438765 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
232438784 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:232446511 original size:30 final size:30
Alignment explanation
Indices: 232446475--232446575 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
232446465 GACAAGATTG
* * *
232446475 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
232446505 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
232446533 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
232446562 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232446576 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:232446587 original size:29 final size:28
Alignment explanation
Indices: 232446504--232446579 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
232446494 AAAATTGTAC
* *
232446504 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
232446532 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
232446561 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
232446580 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:232454378 original size:28 final size:28
Alignment explanation
Indices: 232454309--232454407 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
232454299 GACAAGATTG
* * * *
232454309 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
*
232454339 GCACTAAGTGTGCGAGTTTGATTCTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* **
232454367 GCACTAAGTGTGCGAG-CTGAAAATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
232454394 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232454408 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 21 0.34
28 22 0.36
30 18 0.30
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:232454401 original size:27 final size:28
Alignment explanation
Indices: 232454338--232454407 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
232454328 AAAATTGTAC
* ***
232454338 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAAAATAT
232454366 AGCACTAAGTGTGCGAG-CTGAAAATAT
1 AGCACTAAGTGTGCGAGTCTGAAAATAT
232454393 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
232454408 GATTCACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAAAATAT
Found at i:232465278 original size:40 final size:40
Alignment explanation
Indices: 232465223--232465349 Score: 220
Period size: 40 Copynumber: 3.2 Consensus size: 40
232465213 TATTCGAATG
232465223 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
232465263 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
232465303 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
232465343 ATATCCG
1 ATATCCG
232465350 CTAAATCCCA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 82 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:232470058 original size:13 final size:13
Alignment explanation
Indices: 232470040--232470071 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
232470030 TGGCTGTCAC
232470040 CCAAGGTGGCCAA
1 CCAAGGTGGCCAA
232470053 CCAAGGTGGCCAA
1 CCAAGGTGGCCAA
232470066 CCAAGG
1 CCAAGG
232470072 GCTCTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.06
Consensus pattern (13 bp):
CCAAGGTGGCCAA
Found at i:232474912 original size:23 final size:23
Alignment explanation
Indices: 232474885--232474929 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
232474875 AAGACTAACC
232474885 GATAAGAAGTCATTCCTAACGGG
1 GATAAGAAGTCATTCCTAACGGG
*
232474908 GATAAGGAGTCATTCCTAACGG
1 GATAAGAAGTCATTCCTAACGG
232474930 TGTCTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (23 bp):
GATAAGAAGTCATTCCTAACGGG
Found at i:232484436 original size:39 final size:39
Alignment explanation
Indices: 232484355--232484506 Score: 159
Period size: 39 Copynumber: 3.9 Consensus size: 39
232484345 AAATTGAATG
* * *
232484355 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGCAA-T-TG-TGCAAGTGCT
* *
232484394 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCT
*
232484433 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCT
* *
232484473 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAA
232484507 ATCGTGATAT
Statistics
Matches: 97, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
37 4 0.04
38 5 0.05
39 44 0.45
40 42 0.43
41 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCT
Found at i:232484519 original size:40 final size:38
Alignment explanation
Indices: 232484351--232484536 Score: 171
Period size: 40 Copynumber: 4.8 Consensus size: 38
232484341 TGAGAAATTG
* *
232484351 AATG-ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
232484390 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
232484427 AGTGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
232484466 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
232484506 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
232484537 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 51 0.42
40 64 0.53
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:232494169 original size:17 final size:18
Alignment explanation
Indices: 232494127--232494175 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
232494117 AGTTGAAAAG
232494127 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
232494146 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
232494163 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
232494176 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:232495056 original size:40 final size:40
Alignment explanation
Indices: 232494991--232495140 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
232494981 AAATTGAATG
* * *
232494991 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
232495029 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
232495069 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
232495109 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
232495141 ACTGATTATA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 13 0.14
39 3 0.03
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:232506647 original size:40 final size:40
Alignment explanation
Indices: 232506610--232506690 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
232506600 GCTACTCGTT
* *
232506610 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGGATT-TAGTAACTCGCA
*
232506650 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
232506690 C
1 C
232506691 CATGTAACAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCAGGACATAACCCGGATTTAGTAACTCGCA
Found at i:232508095 original size:40 final size:40
Alignment explanation
Indices: 232508050--232508217 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
232508040 CGGAATATAA
232508050 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
232508090 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
232508130 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
232508170 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
232508210 CCGGATAT
1 CCGGATAT
232508218 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:232508200 original size:80 final size:80
Alignment explanation
Indices: 232508066--232508215 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
232508056 ATAATCACGT
*
232508066 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
232508130 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
232508146 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
232508209 CCCGGAT
64 CCCGGAT
232508216 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:232514695 original size:40 final size:40
Alignment explanation
Indices: 232514650--232514816 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
232514640 CGGAATATAA
232514650 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
232514690 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
232514729 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
232514769 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
232514809 CCGGATAT
1 CCGGATAT
232514817 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:232514714 original size:39 final size:40
Alignment explanation
Indices: 232514666--232514775 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
232514656 ATAATCACGT
* *
232514666 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
232514705 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
232514745 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
232514776 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:232516585 original size:40 final size:39
Alignment explanation
Indices: 232516498--232516597 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
232516488 GTCACACACC
*
232516498 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTAGCACA
* *
232516537 AATACCTTCGGATCTTAGCCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGA-CTTAGCCCGGAAT-TAGTAAC-TAGCACA
232516578 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTC-GGACTTAGCCC
232516598 AGACATCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
39 13 0.25
40 29 0.55
41 11 0.21
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGAATTAGTAACTAGCACA
Found at i:232521767 original size:28 final size:28
Alignment explanation
Indices: 232521698--232521798 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
232521688 GACAAGATTG
* * * *
232521698 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
232521728 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
232521756 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
232521785 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232521799 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:232529682 original size:28 final size:28
Alignment explanation
Indices: 232529613--232529713 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
232529603 GACAAGATTG
* * * *
232529613 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
232529643 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
232529671 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
232529700 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232529714 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:232537598 original size:28 final size:28
Alignment explanation
Indices: 232537529--232537629 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
232537519 GACAAGATTG
* * * *
232537529 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
232537559 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
232537587 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
232537616 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
232537630 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:232539086 original size:49 final size:48
Alignment explanation
Indices: 232539014--232539221 Score: 223
Period size: 46 Copynumber: 4.4 Consensus size: 48
232539004 GCAAGTTGCC
*
232539014 GATGCCATGTCCCAGACATGGTCTTACACTGACTAACATCACCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATC-CCGAGGCT
* ** *
232539063 GATGCCATGTCCCAGACATGGTCTTACACCGAC--ACATTTCGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCCCG-AGGCT
* * * *
232539109 GATG-CATGTCCCAGACAT-GTCTTATACTGGCTTACGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCCCGAGGCT
* * * *
232539155 GATG-TATGTCCCAGACAT-GTCTTATACTGGCTTATATCCCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCCCGAGGCT
*
232539201 GATGCTATGTCCCAGACATGG
1 GATGCCATGTCCCAGACATGG
232539222 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 62 0.45
47 19 0.14
48 1 0.01
49 32 0.23
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTTACATCCCGAGGCT
Found at i:232542795 original size:40 final size:40
Alignment explanation
Indices: 232542750--232542917 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
232542740 CGGAATACAA
232542750 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
232542790 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
232542830 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
232542870 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
232542910 CCGGATAT
1 CCGGATAT
232542918 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Done.