Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 103 of 427
Found at i:27265693 original size:55 final size:53
Alignment explanation
Indices: 27265565--27265694 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 53
27265555 TACCATTTCC
* *
27265565 TGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCACCAATACCA
* * * * *
27265618 TGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTTATCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G-AACTCACCAATACCA
27265673 TGTCTTGACATGGTCTTACATG
1 TGTCTTGACATGGTCTTACATG
27265695 ATTTCCTTGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.03
53 30 0.46
54 1 0.02
55 32 0.49
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCACCAATACCA
Found at i:27268540 original size:57 final size:57
Alignment explanation
Indices: 27268378--27268630 Score: 153
Period size: 57 Copynumber: 4.4 Consensus size: 57
27268368 ATCATACAAA
* * * * * * *
27268378 AAGATTACCAGTCCAGGCTAAATCTTA-TCTGTAACGTGTTCTC-TAAGAGCTT-CTT
1 AAGATTACCAGTCCAGGCTAAATC-CAGTCTATAACATATGCTCAAAAGAGCTTAATT
* * * ** * * ** *
27268433 CAGGATTACCAGTCCAGACTAAATTCTTTCTGTGACATATGCTCTTAAGAGTTTAATCT
1 -AAGATTACCAGTCCAGGCTAAATCCAGTCTATAACATATGCTCAAAAGAGCTTAAT-T
*
27268492 GA-ATTACCAGTCCAGGCTAAATCCAGTCTATAACATATGCTCAAAAGAGCTTAATT
1 AAGATTACCAGTCCAGGCTAAATCCAGTCTATAACATATGCTCAAAAGAGCTTAATT
* * * * * *
27268548 AAGATAACTAATCCAGGCTAAATCCTAAT-TGA-AACATATGCTCAAGAGGGCTTATATT
1 AAGATTACCAGTCCAGGCTAAATCC-AGTCT-ATAACATATGCTCAAAAGAGCTTA-ATT
*
27268606 AGGATTACTCA-TCC-GAGCTAAATCC
1 AAGATTAC-CAGTCCAG-GCTAAATCC
27268631 TTTCTGTAAT
Statistics
Matches: 155, Mismatches: 32, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
56 35 0.23
57 93 0.60
58 25 0.16
59 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.30
Consensus pattern (57 bp):
AAGATTACCAGTCCAGGCTAAATCCAGTCTATAACATATGCTCAAAAGAGCTTAATT
Found at i:27285508 original size:23 final size:23
Alignment explanation
Indices: 27285426--27285512 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
27285416 CCTGATCAGT
*
27285426 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
27285448 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
27285468 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
27285491 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
27285513 TTGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:27285908 original size:15 final size:15
Alignment explanation
Indices: 27285883--27285940 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
27285873 TCATATATAT
27285883 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
27285899 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
27285914 AATAATTTCAATCAA
1 TATAAATTCAATCAA
27285929 TATAAATTCAAT
1 TATAAATTCAAT
27285941 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:27287259 original size:8 final size:8
Alignment explanation
Indices: 27287246--27287274 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27287236 TATCTTTATT
27287246 ATATAATA
1 ATATAATA
27287254 ATATAATA
1 ATATAATA
27287262 ATATAATA
1 ATATAATA
27287270 ATATA
1 ATATA
27287275 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:27289844 original size:46 final size:45
Alignment explanation
Indices: 27289788--27289963 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
27289778 TGGTTGAGCA
27289788 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAA-G
* * *** * *
27289834 TCTGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-TCTTATG-GA-T-GCGAAG
* *
27289881 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAA-G
* * * *
27289927 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
27289964 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.60
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAAG
Found at i:27289944 original size:93 final size:93
Alignment explanation
Indices: 27289785--27289956 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
27289775 GGATGGTTGA
* * * * *
27289785 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
27289850 TGAGT-CTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCT-AGTTCGTGAAATGTAACTAG
*
27289878 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
27289943 TGAGTCCTAGTTCG
66 TGAGTCCTAGTTCG
27289957 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCTAGTTCGTGAAATGTAACTAG
Found at i:27293944 original size:23 final size:22
Alignment explanation
Indices: 27293912--27293954 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
27293902 GAACGGTGAT
*
27293912 TTATCGCATTTTTACTGGCAGC
1 TTATCGCATTATTACTGGCAGC
27293934 TTATCTGCATTATTACTGGCA
1 TTATC-GCATTATTACTGGCA
27293955 AAATTTTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (22 bp):
TTATCGCATTATTACTGGCAGC
Found at i:27307388 original size:40 final size:41
Alignment explanation
Indices: 27307326--27307461 Score: 161
Period size: 41 Copynumber: 3.3 Consensus size: 41
27307316 CTCGACATTA
** * *
27307326 GAGCCCTTGCAAAAGTCTAACAAAATCGA-CGAGTGACGCC
1 GAGCCCTTGTGAAACTCCAACAAAATCGACCGAGTGACGCC
*
27307366 GAGCCCTTGTGAAACTCCAACAAAATCGACCGAGTGACGCT
1 GAGCCCTTGTGAAACTCCAACAAAATCGACCGAGTGACGCC
* *
27307407 GAGCCCTTGCT-AATCTCCAACAAAATCGAGCGAGTGACGCTC
1 GAGCCCTTG-TGAAACTCCAACAAAATCGACCGAGTGACGC-C
*
27307449 CAGCCCTTG-GAAA
1 GAGCCCTTGTGAAA
27307462 AGTCCAAGCT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
40 25 0.30
41 48 0.59
42 9 0.11
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (41 bp):
GAGCCCTTGTGAAACTCCAACAAAATCGACCGAGTGACGCC
Found at i:27308483 original size:2 final size:2
Alignment explanation
Indices: 27308478--27308521 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
27308468 AAACAGAAGT
27308478 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27308520 AG
1 AG
27308522 GAAGAAGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27310541 original size:26 final size:26
Alignment explanation
Indices: 27310504--27310612 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
27310494 TGATACAAAT
27310504 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27310529 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
27310555 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
27310581 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27310607 TGATAA
1 TGATAA
27310613 GAATTTCATT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 6 0.07
26 75 0.93
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:27312268 original size:27 final size:27
Alignment explanation
Indices: 27312227--27312339 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
27312217 GAGGAAGCGT
*
27312227 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
27312254 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
27312281 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
27312309 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
27312335 TCTGG
1 TCTGG
27312340 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:27312332 original size:54 final size:54
Alignment explanation
Indices: 27312225--27312339 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
27312215 TGGAGGAAGC
*
27312225 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
27312279 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
27312333 GTTCTGG
1 GTTCTGG
27312340 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:27314197 original size:2 final size:2
Alignment explanation
Indices: 27314190--27314226 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
27314180 GTTGTTCTAA
27314190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
27314227 TAACATCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27322294 original size:41 final size:42
Alignment explanation
Indices: 27322227--27322329 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 42
27322217 ACTCCCGCTC
* * *
27322227 GACATTCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGT
1 GACACTCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGT
* **
27322269 GACA-TCGAGCCCTTGCGAAACTCCAACAAAATTGAGTGAGT
1 GACACTCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGT
*
27322310 GACACTCCAGCCCTTG-GAAA
1 GACACTCGAGCCCTTGCGAAA
27322330 AGTCCAAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
41 40 0.74
42 14 0.26
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.17
Consensus pattern (42 bp):
GACACTCGAGCCCTTGCGAAACTCCAACAAAATCGACCGAGT
Found at i:27325909 original size:26 final size:26
Alignment explanation
Indices: 27325878--27325985 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
27325868 TGAAATGCCC
*
27325878 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27325904 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27325930 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27325956 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27325982 ATCA
1 ATCA
27325986 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27333170 original size:93 final size:93
Alignment explanation
Indices: 27333058--27333228 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
27333048 GCCCATAAGT
* *
27333058 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27333123 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
27333151 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27333216 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27333229 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27333244 original size:46 final size:46
Alignment explanation
Indices: 27333050--27333230 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
27333040 TGTAACCCGC
* * *
27333050 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
27333096 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
27333146 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
27333189 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
27333231 AACCATCCTA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 71 0.62
47 31 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:27335669 original size:26 final size:26
Alignment explanation
Indices: 27335638--27335704 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
27335628 TGAAATGCCC
27335638 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
27335664 ATCATGGAACATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
27335690 ATCATGGAATATTTA
1 ATCATGGAACATTTA
27335705 TGTAACGCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:27336073 original size:26 final size:26
Alignment explanation
Indices: 27336037--27336120 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
27336027 TGATACAAAT
27336037 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
27336063 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
27336089 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
27336115 TGATAA
1 TGATAA
27336121 GAATTTTATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:27337854 original size:28 final size:27
Alignment explanation
Indices: 27337733--27337894 Score: 188
Period size: 27 Copynumber: 5.9 Consensus size: 27
27337723 GGAGGAAGCG
*
27337733 TCTGGTGGCTATGCCACAATTATCTG-A
1 TCTGGTGGCTCTGCCACAA-TATCTGTA
*
27337760 TCTGGTGGCTGTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
27337787 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACA-ATATCTGTA
27337814 TCTGGTGGCTCTGCCACGAATATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
27337842 TCTGGTGACTCTGCCATGAATATCTGTA
1 TCTGGTGGCTCTGCCA-CAATATCTGTA
* *
27337870 TCTGGTGACT-TCGTCACAATATCTG
1 TCTGGTGGCTCT-GCCACAATATCTG
27337895 GCAGCCTCGC
Statistics
Matches: 122, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
26 1 0.01
27 80 0.66
28 41 0.34
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:27345639 original size:26 final size:26
Alignment explanation
Indices: 27345610--27345719 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
27345600 TGATACAAAT
27345610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27345636 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27345662 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27345688 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27345714 TGATAA
1 TGATAA
27345720 GAATTTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27347782 original size:137 final size:137
Alignment explanation
Indices: 27347500--27347775 Score: 507
Period size: 137 Copynumber: 2.0 Consensus size: 137
27347490 GAGTAGTCTC
27347500 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * *
27347565 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTTGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27347630 ACTGTTA
131 ACTGTTA
*
27347637 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCTTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
27347702 TGTTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
27347767 ACTGTTA
131 ACTGTTA
27347774 CC
1 CC
27347776 TGAATGGCCT
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:27350365 original size:5 final size:5
Alignment explanation
Indices: 27350355--27350379 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27350345 TTATTTCTTC
27350355 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
27350380 GATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:27354982 original size:37 final size:37
Alignment explanation
Indices: 27354932--27355022 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
27354922 TTATTATGAA
27354932 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
27354969 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
27355006 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
27355023 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:27355120 original size:48 final size:48
Alignment explanation
Indices: 27355062--27355261 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
27355052 TGTTACAACA
*
27355062 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
27355110 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
27355158 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
27355206 TTCACATTAGCCATTCGGTTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
27355254 TTCACATT
1 TTCACATT
27355262 CATCACATCG
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:27355309 original size:49 final size:49
Alignment explanation
Indices: 27355253--27355490 Score: 399
Period size: 49 Copynumber: 4.9 Consensus size: 49
27355243 CACACATATG
*
27355253 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
27355302 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
27355349 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATACACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
27355398 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
27355447 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
27355491 CATCTCATAC
Statistics
Matches: 177, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 44 0.25
49 133 0.75
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:27355353 original size:96 final size:97
Alignment explanation
Indices: 27355253--27355492 Score: 401
Period size: 96 Copynumber: 2.5 Consensus size: 97
27355243 CACACATATG
* *
27355253 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACACCTTCACATTCATCACA
*
27355318 TCGGCCATTAGGCCTTATCAC-ATATATACTC
66 TCGGCCATTAGGCCTTATCACAATATATACAC
* *
27355349 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATACACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACACCTTCACATTCATCACA
*
27355414 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TCGGCCATTAGGCCTTATCACA-ATATATACAC
*
27355447 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
27355493 TCTCATACAT
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 81 0.60
98 53 0.40
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (97 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACAC
Found at i:27361269 original size:42 final size:41
Alignment explanation
Indices: 27361124--27361262 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
27361114 CGCTCGACAT
* * *
27361124 TCGATCCCTTGCAAAAGTCCAACAAAATCGACTGAGTGACGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGAC-GAGTGACGC
*
27361166 -CGAGCCCATGCGAAACTCCAACAAAATCGACCGAGTGACGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGA-CGAGTGACGC
*
27361207 T-GAGCCCTTGCGAATCTCCAACAAAATCGAGCGAGTGACGC
1 TCGAGCCCTTGCGAAACTCCAACAAAATCGA-CGAGTGACGC
*
27361248 TCTAGCCCTTG-GAAA
1 TCGAGCCCTTGCGAAA
27361263 AGTCCAAGCT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 76 0.89
42 9 0.11
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.17
Consensus pattern (41 bp):
TCGAGCCCTTGCGAAACTCCAACAAAATCGACGAGTGACGC
Found at i:27361517 original size:22 final size:22
Alignment explanation
Indices: 27361489--27361533 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
27361479 TTCACATATA
27361489 ATATTTACATATAATAAGACCT
1 ATATTTACATATAATAAGACCT
27361511 ATATTTACATATAATAAGACCT
1 ATATTTACATATAATAAGACCT
27361533 A
1 A
27361534 AACTTAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATTTACATATAATAAGACCT
Found at i:27361624 original size:3 final size:3
Alignment explanation
Indices: 27361616--27361642 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27361606 CTCCATTGTT
27361616 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
27361643 GTTAGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27364596 original size:16 final size:17
Alignment explanation
Indices: 27364565--27364608 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
27364555 AGAGTTTTTT
*
27364565 TTATTATAAAAGTTATA
1 TTATTATAAATGTTATA
*
27364582 -TATTATAAATTTTATA
1 TTATTATAAATGTTATA
*
27364598 TTATTTTAAAT
1 TTATTATAAAT
27364609 CTAATTTACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATTATAAATGTTATA
Found at i:27364599 original size:14 final size:16
Alignment explanation
Indices: 27364561--27364601 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
27364551 TTATAGAGTT
*
27364561 TTTTTTATTATAAAAG
1 TTTTATATTATAAAAG
*
27364577 TTATATATTAT-AAA-
1 TTTTATATTATAAAAG
27364591 TTTTATATTAT
1 TTTTATATTAT
27364602 TTTAAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTATATTATAAAAG
Found at i:27365751 original size:27 final size:26
Alignment explanation
Indices: 27365714--27365828 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
27365704 AGCATGGCTG
* *
27365714 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
27365740 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
27365768 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
27365795 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
27365822 CCAGAAC
1 CCAGAAC
27365829 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:27365773 original size:54 final size:54
Alignment explanation
Indices: 27365714--27365828 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
27365704 AGCATGGCTG
* *
27365714 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
27365768 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
27365822 CCAGAAC
1 CCAGAAC
27365829 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:27367482 original size:26 final size:26
Alignment explanation
Indices: 27367446--27367555 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
27367436 CATGAAATTC
27367446 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
27367472 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27367498 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
27367524 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
27367550 TTATCA
1 TTATCA
27367556 ATTTATACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27369481 original size:41 final size:40
Alignment explanation
Indices: 27369374--27369485 Score: 102
Period size: 41 Copynumber: 2.8 Consensus size: 40
27369364 GACTATGTTG
** * * *
27369374 GGCACTTAGTGTGCGA-ATCGGAATAGCTTCGGCTATATAT
1 GGCACTTAGTGTGCGAGAT-TAAATAGCTTCAGATATATAA
* * *
27369414 GGCACTTAGTGTACAAGGTTCAAATAGCTTCAGATATGA-AA
1 GGCACTTAGTGTGCGAGATT-AAATAGCTTCAGATAT-ATAA
27369455 GGCACTTAGTGTGCGAGATTATAATAGCTTC
1 GGCACTTAGTGTGCGAGATTA-AATAGCTTC
27369486 GGCTATGCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
40 15 0.26
41 41 0.72
42 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAGATTAAATAGCTTCAGATATATAA
Found at i:27370242 original size:13 final size:13
Alignment explanation
Indices: 27370224--27370249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27370214 TATGTGAGTT
27370224 TGATGATTTGGTA
1 TGATGATTTGGTA
27370237 TGATGATTTGGTA
1 TGATGATTTGGTA
27370250 AGTTTTTAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
TGATGATTTGGTA
Found at i:27375262 original size:33 final size:34
Alignment explanation
Indices: 27375205--27375286 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 34
27375195 TTCATGTTTT
* *
27375205 ACTGGGCCTAAGCCCTATTTAGAAAT-AGTA-TTA
1 ACTGGGCCTTAGCCCTATTCAGAAATCAG-AGTTA
*
27375238 ACTGAGCCTTAGCCCTATTCAGAAATCAGAGTTA
1 ACTGGGCCTTAGCCCTATTCAGAAATCAGAGTTA
*
27375272 ATTGGGCCTTAGCCC
1 ACTGGGCCTTAGCCC
27375287 ATATCAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 24 0.57
34 18 0.43
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (34 bp):
ACTGGGCCTTAGCCCTATTCAGAAATCAGAGTTA
Found at i:27375365 original size:27 final size:28
Alignment explanation
Indices: 27375274--27375401 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 28
27375264 CAGAGTTAAT
* * *
27375274 TGGGCCTTAGCCCATATCAATATTAATC
1 TGGGCCATAGCCCATATCAGTATCAATC
* *
27375302 TGGGCCATAGCCCCT-TACAGTTTCAGAGTATAC
1 TGGGCCATAGCCCATAT-CAGTATC--A--AT-C
27375335 TGGGCC-TAGCCCATATCAGTATCAATC
1 TGGGCCATAGCCCATATCAGTATCAATC
27375362 TGGGCC-TAGCCCATATCAGTATCAATC
1 TGGGCCATAGCCCATATCAGTATCAATC
27375389 TGGGCCATAGCCC
1 TGGGCCATAGCCC
27375402 TATTACAAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
27 35 0.41
28 25 0.29
30 2 0.02
32 15 0.18
33 8 0.09
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (28 bp):
TGGGCCATAGCCCATATCAGTATCAATC
Found at i:27375426 original size:87 final size:87
Alignment explanation
Indices: 27375274--27375439 Score: 230
Period size: 87 Copynumber: 1.9 Consensus size: 87
27375264 CAGAGTTAAT
* *
27375274 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATACTGGG
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-TTCAGAGTATACTGGG
27375339 CCTAGCCCATATCAGTATCAATC
65 CCTAGCCCATATCAGTATCAATC
* *
27375362 TGGGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAG-TC-GAGATATATTG
1 TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTTCAGAG-TATACTG
*
27375424 GGCCTTGCCCATATCA
63 GGCCTAGCCCATATCA
27375440 ACACAGTTGG
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
86 3 0.04
87 55 0.79
88 10 0.14
89 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
TGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTTCAGAGTATACTGGGC
CTAGCCCATATCAGTATCAATC
Found at i:27379781 original size:41 final size:42
Alignment explanation
Indices: 27379719--27379823 Score: 167
Period size: 41 Copynumber: 2.5 Consensus size: 42
27379709 CACTCAACAT
27379719 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACGC
1 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACGC
* *
27379761 -CGAGCCCTTGCAAAACTCCAACAAAATCGAGCGAGTGACGC
1 TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACGC
* *
27379802 TCCAGCCCTTGGAAAAGTCCAA
1 TCGAGCCCTTGCAAAAGTCCAA
27379824 GCTGGGACCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 39 0.68
42 18 0.32
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.14
Consensus pattern (42 bp):
TCGAGCCCTTGCAAAAGTCCAACAAAATCGACCGAGTGACGC
Found at i:27383671 original size:39 final size:39
Alignment explanation
Indices: 27383588--27383681 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
27383578 TGAAACCAAT
*
27383588 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
27383626 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
27383665 TTCCAGCACGTAGCCTG
1 TACCAGCACGAAGCCTG
27383682 TGGACCTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.30
39 32 0.70
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:27383708 original size:39 final size:39
Alignment explanation
Indices: 27383655--27383780 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
27383645 GGACTTTAGC
* * * *
27383655 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
* *
27383694 CTGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
*
27383733 CCGGATATAATTCCAGGACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
27383772 CCGGATATA
1 CCGGATATA
27383781 CATCACTAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
Found at i:27383710 original size:78 final size:78
Alignment explanation
Indices: 27383617--27383780 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
27383607 GAATTTAAAC
* * * * *
27383617 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
27383679 CTGTGGACCTTAAGT
64 CTGTGGACCCTAAGT
* * * * *
27383694 CTGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGGACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
27383759 GTGGACCCTAAGT
66 GTGGACCCTAAGT
27383772 CCGGATATA
1 CCGGATATA
27383781 CATCACTAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 7 0.10
78 65 0.90
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GTGGACCCTAAGT
Found at i:27391021 original size:29 final size:29
Alignment explanation
Indices: 27390988--27391146 Score: 250
Period size: 29 Copynumber: 5.6 Consensus size: 29
27390978 CCTCCGAACT
** * * *
27390988 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
27391017 TGCACACTTAGTGCC--ATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27391044 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27391073 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27391102 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
27391131 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27391147 ATCTCGTCAC
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 24 0.20
29 98 0.80
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:27399008 original size:29 final size:29
Alignment explanation
Indices: 27398921--27399060 Score: 241
Period size: 29 Copynumber: 4.9 Consensus size: 29
27398911 CCCAGTGCCG
**
27398921 TATTTCCAGCTTGCACACTTAGTGCC--A
1 TATTTCCAGCACGCACACTTAGTGCCATA
27398948 TATTTCCAGCACGCACAC-TAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
27398976 TATTTCCAGCACGCACACTTAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
27399005 TATTTCCAGCACGCACACTTAGTGCCATA
1 TATTTCCAGCACGCACACTTAGTGCCATA
27399034 TATTTCCAGCACGCACACTTAGTGCCA
1 TATTTCCAGCACGCACACTTAGTGCCA
27399061 ATCTCGTCAC
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
26 7 0.06
27 16 0.15
28 19 0.18
29 66 0.61
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
TATTTCCAGCACGCACACTTAGTGCCATA
Found at i:27403134 original size:39 final size:39
Alignment explanation
Indices: 27403081--27403206 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
27403071 GGACTTTAGC
* * * *
27403081 CCGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
* *
27403120 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
27403159 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
27403198 CCGGATATA
1 CCGGATATA
27403207 CATCACTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
Found at i:27403136 original size:78 final size:78
Alignment explanation
Indices: 27403043--27403206 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
27403033 GAATTTAAAC
* * * * *
27403043 CCGG-TATAATACCAGCTCGA-AGCCTGCAGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
27403105 CTGTGGACCTTAAGT
64 CTGTGGACCCTAAGT
* * * *
27403120 TCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
27403185 GTGGACCCTAAGT
66 GTGGACCCTAAGT
27403198 CCGGATATA
1 CCGGATATA
27403207 CATCACTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 7 0.10
78 66 0.90
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GTGGACCCTAAGT
Found at i:27404032 original size:39 final size:38
Alignment explanation
Indices: 27403989--27404116 Score: 130
Period size: 39 Copynumber: 3.3 Consensus size: 38
27403979 ACCAGCTCGA
* * * *
27403989 AGCCTGCAGGACTTTAGCCCGGACATATTTCCAGGACGT
1 AGCCTGC-GGACTTAAGCCCGGACATAATTCCAGCACAT
* * *
27404028 AGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGA-CTTAAGCCCGGACATAATTCCAGCACAT
* * *
27404067 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGA-CTTAAGCCCGGACATAATTCCAGCACAT
*
27404106 AGCCTGTGGAC
1 AGCCTGCGGAC
27404117 CCTAAGTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 4 0.05
39 74 0.95
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
AGCCTGCGGACTTAAGCCCGGACATAATTCCAGCACAT
Found at i:27404117 original size:39 final size:39
Alignment explanation
Indices: 27404007--27404132 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
27403997 GGACTTTAGC
* * * * *
27404007 CCGGACATATTTCCAGGACGTAGCCTGTGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
*
27404046 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
27404085 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
27404124 CCGGATATA
1 CCGGATATA
27404133 CATCACTAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
Found at i:27404418 original size:926 final size:918
Alignment explanation
Indices: 27402639--27405243 Score: 4776
Period size: 926 Copynumber: 2.8 Consensus size: 918
27402629 ACAAACAATT
*
27402639 AAAGACTTATTGAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
1 AAAGACTTATCGAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
27402704 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
66 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
*
27402769 ATATACCATGACTGATTAAATCATTCTCAATTCACAAATATAACCATCAATC----ATATTTATA
131 ATATACCATGACCGATTAAATCATTCTCAATTCACAAATATAACCATCAATCTAATATATTTATA
27402830 TATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGTAATACGTA
196 TATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGTAATACGTA
27402895 CCTGAACATTTTAAATGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTCAATATCGTAA
261 CCTGAACATTTTAAATGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTCAATATCGTAA
27402960 TCTTACTTAACTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTACCAGCACAA
326 TCTTACTTAACTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTACCAGCACAA
27403025 GCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCCCGGACATA
391 GCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCCCGGACATA
*
27403090 TTTCCAGCACGTAGCCTGTGGACCTTAAGTTCGGATATAATTCCAGCACATAGCCTGCGGACCCT
456 TTTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCT
27403155 AAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCACTAAATGT
521 AAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCACTAAATGT
27403220 CATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTCATTTATTC
586 CATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTCATTTATTC
27403285 CATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACATACATAAGA
651 CATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACATACATAAGA
27403350 ATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAGCCTTAAACATA
716 ATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAGCCTTAAACATA
*
27403415 AATTATTTGTCACTCAACTATATTCCAATAAAATCAATAGATCGCAGTACAGTTATCATACACAT
781 AATTATTTGTCACTCAACTATATTCAAATAAAATCAATAGATCGCAGTACAGTTATCATACACAT
*
27403480 ATCAAGACATTATCAATTACGTACTAAATGTGACTATTCAAAACTTACCTCGGATATACTTGAAC
846 ATCAAGACATTATCAATTACGTACTAAATATGACTATTCAAAACTTACCTCGGATATACTTGAAC
27403545 GGTTGCGG
911 GGTTGCGG
*
27403553 AAAGACTTATCGAAAATCGAAGCATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
1 AAAGACTTATCGAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
*
27403618 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATATTTCATATACAA
66 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
*
27403683 ATATACCATGACCGATTAAATCATTCTCAATTCATAAATATAACCATCAATCATATTTATATATA
131 ATATACCATGACCGATTAAATCATTCTCAATTCACAAATATAACCATCAATC-----TA-ATATA
27403748 TATATATATATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGT
190 T-T-TATATATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGT
* *
27403813 AATACGTACCTGAACATTTTAAACGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTTAA
253 AATACGTACCTGAACATTTTAAATGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTCAA
* *
27403878 TATCGTAATCTTACTTAACTTACCGGCATTAAGCCTGTTAGGTCTTAAGACTTGAAACCAATTAC
318 TATCGTAATCTTACTTAACTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTAC
*
27403943 CAGCACAAGCTTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCC
383 CAGCACAAGCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCC
*
27404008 CGGACATATTTCCAGGACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTG
448 CGGACATATTTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTG
27404073 CGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCA
513 CGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCA
27404138 CTAAATGTCATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTC
578 CTAAATGTCATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTC
27404203 ATTTATTCCATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACAT
643 ATTTATTCCATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACAT
27404268 ACATAAGAATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAGCCT
708 ACATAAGAATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAGCCT
27404333 TAAACATAAATTATTTGTCACTCAACTATATTCAAATAAAATCAATAGATCGCAGTACAGTTATC
773 TAAACATAAATTATTTGTCACTCAACTATATTCAAATAAAATCAATAGATCGCAGTACAGTTATC
27404398 ATACACATATCAAGACATTATCAATTACGTACTAAATATGACTATTCAAAACTTACCTCGGATAT
838 ATACACATATCAAGACATTATCAATTACGTACTAAATATGACTATTCAAAACTTACCTCGGATAT
27404463 ACTTGAACGGTTGCGG
903 ACTTGAACGGTTGCGG
*
27404479 AAAGACTTATCAAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
1 AAAGACTTATCGAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
27404544 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
66 ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
*
27404609 ATATACCATGACCGATTAAATCATTCTCAATTCACAAATATAACCATTAATC----ATATTTATA
131 ATATACCATGACCGATTAAATCATTCTCAATTCACAAATATAACCATCAATCTAATATATTTATA
* *
27404670 TATATTCTTCTTTGATTCTAATGATTCACTTCGAAATCAATTCACCGATGAGTATGTAATACGTA
196 TATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGTAATACGTA
*
27404735 CCTGAACATTTTAAATGTATAGTACTTACTCGATGATGGTTTACTGCGAACATTCAATATCGTAA
261 CCTGAACATTTTAAATGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTCAATATCGTAA
*
27404800 TCTTACTTAATTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTACCAGCACAA
326 TCTTACTTAACTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTACCAGCACAA
**
27404865 GCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGTGGGACTTTAGCCCGGACATA
391 GCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCCCGGACATA
* ** * *
27404930 TTTCCAACACGTAGCCTACGGACCTTAAGTCCGGATATAATTCTAGCACATAGCCTGTGGACCCT
456 TTTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCT
* * *
27404995 AAGTCCGGATATAATTCCATCACATAGCCTGCGGACCCTAAGTCCGGATATACATCACTGAATGT
521 AAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCACTAAATGT
*
27405060 CATGCATACTTACTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTCATTTATTC
586 CATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTCATTTATTC
*
27405125 CATTCGAATAATAGCATAACATGGGCACCATTCATATAACTTTTGGCTCAATAACATACATAAGA
651 CATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACATACATAAGA
* *
27405190 ATATATGTCCATTTATTTTCGAAGCTTAACTTCTAATGTCTATTCGGCTTTAAG
716 ATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAG
27405244 TGTAACACCC
Statistics
Matches: 1636, Mismatches: 43, Indels: 24
0.96 0.03 0.01
Matches are distributed among these distances:
914 731 0.45
915 1 0.00
916 4 0.00
924 4 0.00
925 1 0.00
926 895 0.55
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (918 bp):
AAAGACTTATCGAAAATCGAAACATTCATTCACACTTAAGTATCATTCTTTAATACTAATAATTC
ACAAAAATCATTGACTGAATGTACATGAGTACATAAAGCAATTTTAACATATAATTCATATACAA
ATATACCATGACCGATTAAATCATTCTCAATTCACAAATATAACCATCAATCTAATATATTTATA
TATATTCTTCTTTGATGCTAATGATTCACTTCGAAATCAATTCACCGATGAGTAAGTAATACGTA
CCTGAACATTTTAAATGTATAGTACTTACTCGACGATGGTTTACTGCGAACATTCAATATCGTAA
TCTTACTTAACTTACTGGCATTAAGCCTGTTAGGTCTTAGGACTTGAAACCAATTACCAGCACAA
GCCTGCGGGAATTTAAACCCGGTATAATACCAGCTCGAAGCCTGCAGGACTTTAGCCCGGACATA
TTTCCAGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACCCT
AAGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATACATCACTAAATGT
CATGCATACTTATTCGCAAGAAAATTCAATTCACATAACATCTCACAATCATAGTTCATTTATTC
CATTCGAATAATAGCATAACATGGGCACCATTCATATAAATTTTGGCTCAATAACATACATAAGA
ATATATGTCCATTTACTTTCCAAGCTTAACTTCTAATGTCTATTCGGCTTTAAGCCTTAAACATA
AATTATTTGTCACTCAACTATATTCAAATAAAATCAATAGATCGCAGTACAGTTATCATACACAT
ATCAAGACATTATCAATTACGTACTAAATATGACTATTCAAAACTTACCTCGGATATACTTGAAC
GGTTGCGG
Found at i:27404964 original size:39 final size:39
Alignment explanation
Indices: 27404921--27405046 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
27404911 GGACTTTAGC
* * * * *
27404921 CCGGACATATTTCCAACACGTAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
* * *
27404960 CCGGATATAATTCTAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
*
27404999 CCGGATATAATTCCATCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
27405038 CCGGATATA
1 CCGGATATA
27405047 CATCACTGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAACACATAGCCTGCGGACCCTAAGT
Found at i:27407781 original size:28 final size:27
Alignment explanation
Indices: 27407744--27407811 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
27407734 ATTTGTACAA
**
27407744 CACTAAGTGTGCGAATTTGATTATATAG
1 CACTAAGTGTGCG-AGCTGATTATATAG
* *
27407772 CACTATGTGTGCGAGCTGATTTTATAG
1 CACTAAGTGTGCGAGCTGATTATATAG
27407799 CACTAAGTGTGCG
1 CACTAAGTGTGCG
27407812 GATTCACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGAGCTGATTATATAG
Found at i:27409484 original size:25 final size:26
Alignment explanation
Indices: 27409447--27409498 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
27409437 TCAAACATGC
27409447 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
27409473 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
27409498 A
1 A
27409499 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:27411008 original size:26 final size:26
Alignment explanation
Indices: 27410977--27411084 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
27410967 TGAAATGCCC
*
27410977 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27411003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27411029 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27411055 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27411081 ATCA
1 ATCA
27411085 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27415181 original size:10 final size:10
Alignment explanation
Indices: 27415154--27415183 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
27415144 ACAGACAGAT
27415154 AATTCAGAAA
1 AATTCAGAAA
27415164 ATATTCAGAAA
1 A-ATTCAGAAA
27415175 AATTCAGAA
1 AATTCAGAA
27415184 TACTTACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (10 bp):
AATTCAGAAA
Found at i:27416462 original size:25 final size:26
Alignment explanation
Indices: 27416425--27416476 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
27416415 TCAAACATGC
27416425 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
27416451 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
27416476 A
1 A
27416477 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:27417988 original size:26 final size:26
Alignment explanation
Indices: 27417957--27418090 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
27417947 TGAAATGCCC
*
27417957 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
27417983 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27418009 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
27418035 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
27418061 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
27418087 ATCA
1 ATCA
27418091 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:27422179 original size:31 final size:31
Alignment explanation
Indices: 27422143--27422320 Score: 275
Period size: 31 Copynumber: 5.7 Consensus size: 31
27422133 TGTGTACAAT
*
27422143 GTGAAAAGTGGTAGCTTTGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
27422174 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
27422205 GTGAAAAATGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
27422236 GTGAAAAGTAGTAGCTTCGGCTACCTAATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
27422267 GTGAAAAGTGGTAGCTTCAGCTACTTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
27422298 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
27422321 TCGAATGTGA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 133 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:27427878 original size:20 final size:21
Alignment explanation
Indices: 27427850--27427905 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
27427840 TAACTATATT
*
27427850 AGTTAGTATTTTGTTATAGTC
1 AGTTAGTATTCTGTTATAGTC
*
27427871 AGTT-GTATTCTGTTATAGTT
1 AGTTAGTATTCTGTTATAGTC
* *
27427891 AGTTACTAATCTGTT
1 AGTTAGTATTCTGTT
27427906 GTAAAGCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (21 bp):
AGTTAGTATTCTGTTATAGTC
Found at i:27428252 original size:19 final size:21
Alignment explanation
Indices: 27428211--27428258 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
27428201 TTAAAATTTT
27428211 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
27428232 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
27428251 AACTAAAA
1 AACTAAAA
27428259 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:27428709 original size:17 final size:19
Alignment explanation
Indices: 27428667--27428710 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27428657 ATGAAATTTT
*
27428667 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
27428686 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
27428704 AA-TATTA
1 AATTATTA
27428711 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:27430882 original size:20 final size:20
Alignment explanation
Indices: 27430852--27430896 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
27430842 CTGTTCTGTT
27430852 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
27430871 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
27430891 ATGGGC
1 ATGGGC
27430897 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:27434341 original size:16 final size:15
Alignment explanation
Indices: 27434320--27434349 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27434310 TAAATGAGAT
27434320 TTTCTTTCTGTTTTCC
1 TTTCTTTCT-TTTTCC
27434336 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
27434350 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTCTTTCTTTTTCC
Found at i:27435910 original size:17 final size:16
Alignment explanation
Indices: 27435882--27435918 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
27435872 TATTATTCAA
27435882 TTTTAAATTTTTTTAT
1 TTTTAAATTTTTTTAT
27435898 TTTTAACATTTTTTTAT
1 TTTTAA-ATTTTTTTAT
27435915 TTTT
1 TTTT
27435919 TTCTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAAATTTTTTTAT
Found at i:27436033 original size:15 final size:14
Alignment explanation
Indices: 27436015--27436086 Score: 90
Period size: 14 Copynumber: 5.0 Consensus size: 14
27436005 TAAATATTAA
27436015 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
27436030 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
27436045 ATTTTTTATTTTTT
1 ATTTTTAATTTTTT
* *
27436059 ATTTTTTATTTTTA
1 ATTTTTAATTTTTT
*
27436073 AATTTTAATTTTTT
1 ATTTTTAATTTTTT
27436087 TGAATATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
14 30 0.58
15 22 0.42
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:27436049 original size:7 final size:7
Alignment explanation
Indices: 27436024--27436086 Score: 81
Period size: 7 Copynumber: 8.9 Consensus size: 7
27436014 AATTTTTAAG
27436024 TTTTTTA
1 TTTTTTA
*
27436031 TTTTTAA
1 TTTTTTA
27436038 GTTTTTTA
1 -TTTTTTA
27436046 TTTTTTA
1 TTTTTTA
27436053 TTTTTTA
1 TTTTTTA
27436060 TTTTTTA
1 TTTTTTA
*
27436067 TTTTTAA
1 TTTTTTA
* *
27436074 ATTTTAA
1 TTTTTTA
27436081 TTTTTT
1 TTTTTT
27436087 TGAATATTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
7 43 0.88
8 6 0.12
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:27436104 original size:9 final size:8
Alignment explanation
Indices: 27436011--27436111 Score: 52
Period size: 7 Copynumber: 12.9 Consensus size: 8
27436001 ATATTAAATA
27436011 TTAAATTT
1 TTAAATTT
*
27436019 TTAAGTTT
1 TTAAATTT
*
27436027 TT-TATTT
1 TTAAATTT
*
27436034 TTAAGTTT
1 TTAAATTT
*
27436042 TT-TATTT
1 TTAAATTT
*
27436049 TT-TATTT
1 TTAAATTT
*
27436056 TT-TATTT
1 TTAAATTT
*
27436063 TT-TATTT
1 TTAAATTT
27436070 TTAAA-TT
1 TTAAATTT
*
27436077 TTAATTTTT
1 TTAA-ATTT
27436086 TTGAATATTT
1 TT-AA-ATTT
27436096 TTATAATTT
1 TTA-AATTT
27436105 TTAAATT
1 TTAAATT
27436112 AACATATAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
7 37 0.48
8 19 0.25
9 12 0.16
10 9 0.12
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
TTAAATTT
Found at i:27436601 original size:14 final size:14
Alignment explanation
Indices: 27436584--27436666 Score: 78
Period size: 14 Copynumber: 5.8 Consensus size: 14
27436574 TTTTTTAGAT
27436584 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
*
27436598 TTTAAGAGTTTAT-G
1 TTT-AGGGTTTATAG
*
27436612 ATTTATGGTTTATAG
1 -TTTAGGGTTTATAG
*
27436627 TTTAGGGTTTATAA
1 TTTAGGGTTTATAG
* * *
27436641 TTTATGATCTATAG
1 TTTAGGGTTTATAG
27436655 TTTATGGGTTTA
1 TTTA-GGGTTTA
27436667 GAGGTTAGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
14 37 0.70
15 16 0.30
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:27436645 original size:28 final size:28
Alignment explanation
Indices: 27436584--27436666 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
27436574 TTTTTTAGAT
* * *
27436584 TTTAGGGTTTATAGTTTAAGAGTTTATGA
1 TTTATGGTTTATAGTTT-AGGGTTTATAA
27436613 TTTATGGTTTATAGTTTAGGGTTTATAA
1 TTTATGGTTTATAGTTTAGGGTTTATAA
* *
27436641 TTTATGATCTATAGTTTATGGGTTTA
1 TTTATGGTTTATAGTTTA-GGGTTTA
27436667 GAGGTTAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (28 bp):
TTTATGGTTTATAGTTTAGGGTTTATAA
Found at i:27436727 original size:15 final size:14
Alignment explanation
Indices: 27436676--27436728 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
27436666 AGAGGTTAGT
*
27436676 TTTAAGGCTTGGGG
1 TTTAAGGGTTGGGG
27436690 TTTAAGGGTTGGGG
1 TTTAAGGGTTGGGG
* *
27436704 TTTAGGGGTTGGAGT
1 TTTAAGGGTTGG-GG
27436719 TTTAAGGGTT
1 TTTAAGGGTT
27436729 TATGATTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.15, C:0.02, G:0.43, T:0.40
Consensus pattern (14 bp):
TTTAAGGGTTGGGG
Found at i:27437520 original size:41 final size:41
Alignment explanation
Indices: 27437457--27437599 Score: 243
Period size: 41 Copynumber: 3.5 Consensus size: 41
27437447 TTACATGACT
*
27437457 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
27437498 TTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
27437539 TTTAGCGGCTTTTTACCAAAAGCGCCGCTAATGCTCTGGT-
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
*
27437579 TTTAGCGGCGTTTTAACAAAA
1 TTTAGCGGCGTTTTACCAAAA
27437600 AATGCCGCTA
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 19 0.20
41 77 0.80
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:27437607 original size:41 final size:40
Alignment explanation
Indices: 27437456--27437664 Score: 240
Period size: 41 Copynumber: 5.1 Consensus size: 40
27437446 GTTACATGAC
*
27437456 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
27437496 TCTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 T-TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
27437537 TCTTTAGCGGCTTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 T-TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* ** * ***
27437578 TTTTAGCGGCGTTTTAACAAAAAATGCCGCTATTGCTCAAT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGG
* * * *
27437619 TTTTAGCGGCGTTTTTGCTAAAA-TGCCGCTATTGCTCTGTG
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCTG-G
27437660 TTTTA
1 TTTTA
27437665 TAATTTTTGA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 28 0.19
41 116 0.78
42 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:27440517 original size:15 final size:15
Alignment explanation
Indices: 27440497--27440528 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27440487 CTAGCTAGTA
27440497 ATACTAGTCCTGTGG
1 ATACTAGTCCTGTGG
*
27440512 ATACTAGTCTTGTGG
1 ATACTAGTCCTGTGG
27440527 AT
1 AT
27440529 CCTGCTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (15 bp):
ATACTAGTCCTGTGG
Found at i:27442275 original size:20 final size:20
Alignment explanation
Indices: 27442247--27442302 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
27442237 TAACTATATT
*
27442247 AGTTAGTATTTTGTTATAGTC
1 AGTT-GTATTCTGTTATAGTC
*
27442268 AGTTGTATTCTGTTATAGTT
1 AGTTGTATTCTGTTATAGTC
*
27442288 AGTTGCTAATCTGTT
1 AGTTG-TATTCTGTT
27442303 GTAAAGCATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.21, C:0.07, G:0.20, T:0.52
Consensus pattern (20 bp):
AGTTGTATTCTGTTATAGTC
Found at i:27447363 original size:39 final size:40
Alignment explanation
Indices: 27447262--27447464 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
27447252 TCGAATGATG
* *
27447262 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
27447302 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
27447341 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
27447381 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
27447421 ACCGGGCTATGTCCCGAA-GCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
27447460 TCCGG
1 TCCGG
27447465 TTAAATTCCG
Statistics
Matches: 142, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 55 0.39
40 77 0.54
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:27447398 original size:79 final size:81
Alignment explanation
Indices: 27447262--27447443 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
27447252 TCGAATGATG
* *
27447262 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
27447326 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
27447341 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
27447403 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
27447421 ACCGGGCTATGTCCCGAA-GCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
27447444 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 65 0.72
80 24 0.27
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:27447452 original size:79 final size:78
Alignment explanation
Indices: 27447315--27447478 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 78
27447305 GGACTAAGAT
* **
27447315 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
27447379 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* *
27447394 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA-GCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
27447457 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
27447472 CCGAAGG
1 CCGAAGG
27447479 TACGTGATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
78 18 0.24
79 50 0.68
80 6 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:27455530 original size:39 final size:40
Alignment explanation
Indices: 27455430--27455632 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
27455420 TCGAATGATG
* *
27455430 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
27455469 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
27455508 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
27455548 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
27455588 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
27455628 TCCGG
1 TCCGG
27455633 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
39 47 0.33
40 89 0.62
41 7 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:27455565 original size:79 final size:80
Alignment explanation
Indices: 27455430--27455611 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
27455420 TCGAATGATG
* * *
27455430 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
27455494 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
27455508 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
27455571 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
27455588 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
27455612 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 70 0.78
80 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:27455635 original size:79 final size:77
Alignment explanation
Indices: 27455463--27455646 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 77
27455453 GTGCTAAGTG
* *
27455463 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
27455528 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
27455542 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
27455606 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
27455621 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
27455647 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 58 0.64
80 29 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:27458533 original size:19 final size:19
Alignment explanation
Indices: 27458497--27458535 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27458487 TTTTCATCAT
* *
27458497 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
27458516 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
27458535 A
1 A
27458536 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:27459239 original size:28 final size:28
Alignment explanation
Indices: 27459192--27459256 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
27459182 AAATTAACCC
*
27459192 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
27459220 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
27459248 TAGGGGTAT
1 TAGGGGTAT
27459257 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:27462107 original size:15 final size:15
Alignment explanation
Indices: 27462089--27462123 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27462079 ACGTTTATTT
*
27462089 TATATAAATTATGTA
1 TATATAAATTATGCA
*
27462104 TATATATATTATGCA
1 TATATAAATTATGCA
27462119 TATAT
1 TATAT
27462124 TTTTAGTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (15 bp):
TATATAAATTATGCA
Found at i:27462159 original size:24 final size:23
Alignment explanation
Indices: 27462110--27462171 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
27462100 TGTATATATA
*
27462110 TATTATGCATATATTTTTAGTAC
1 TATTATGCATATATTTTCAGTAC
* * *
27462133 TATTATGTATATACTTTTCATTCC
1 TATTATGCATATA-TTTTCAGTAC
*
27462157 TATTATTGCGTATAT
1 TATTA-TGCATATAT
27462172 ATTTAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 12 0.39
24 13 0.42
25 6 0.19
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (23 bp):
TATTATGCATATATTTTCAGTAC
Found at i:27464587 original size:41 final size:40
Alignment explanation
Indices: 27464451--27464586 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 40
27464441 GCGTTTCTAG
* * **
27464451 ATAGCTTCGGCTATATAAAGCACTTAGTGTGTGA-ATCGGA
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGAT-TAA
* * *
27464491 ATAGCTTCGGCTATATATGGCACTTAGTGTGCGAGGTTGAG
1 ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGATT-AA
*
27464532 ATAGCTTTGGCTATGA-AAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTAT-ATAAGGCACTTAGTGTGCGAGATTA-A
27464573 ATAGCTTCGGCTAT
1 ATAGCTTCGGCTAT
27464587 GCTTTAGCAC
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 32 0.40
41 47 0.59
42 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (40 bp):
ATAGCTTCGGCTATATAAGGCACTTAGTGTGCGAGATTAA
Found at i:27465841 original size:65 final size:65
Alignment explanation
Indices: 27465696--27465831 Score: 166
Period size: 65 Copynumber: 2.1 Consensus size: 65
27465686 CACACACGGG
** * *
27465696 CGTGTGACATAAGTCAGTATACCCCCTAAATGGCACATAGCCTAGCACACAGGCGTGTGGTCGGC
1 CGTGTGACCCAAGTCAGTATACCCCCTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGGC
** * * * *
27465761 CGTGTGACCCAAGTCAGTA-ACCCCTCTAAATTTCACACGGCCTAGGACACGGGCGTGTTCTCGG
1 CGTGTGACCCAAGTCAGTATACCCC-CTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGG
27465825 C
65 C
27465826 CGTGTG
1 CGTGTG
27465832 GTGCAAGTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 5 0.08
65 55 0.92
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (65 bp):
CGTGTGACCCAAGTCAGTATACCCCCTAAATGGCACACAGCCTAGCACACAGGCGTGTGCTCGGC
Found at i:27467437 original size:31 final size:31
Alignment explanation
Indices: 27467399--27467467 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
27467389 CCTTTTCATA
27467399 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
27467430 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
27467461 TTTCATA
1 TTTCATA
27467468 CTTTACTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:27467714 original size:24 final size:24
Alignment explanation
Indices: 27467663--27467805 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
27467653 GCTTTATCAT
*
27467663 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27467688 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
27467712 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
27467735 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
27467759 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27467783 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27467806 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27467742 original size:47 final size:48
Alignment explanation
Indices: 27467663--27467804 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
27467653 GCTTTATCAT
* *
27467663 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
27467712 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
27467759 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
27467805 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:27467763 original size:71 final size:72
Alignment explanation
Indices: 27467662--27467805 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
27467652 TGCTTTATCA
*
27467662 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
27467727 GCCCTTT
66 GCCCTTT
* * **
27467734 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
27467797 AGCCCTTT
65 AGCCCTTT
27467805 T
1 T
27467806 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:27467878 original size:20 final size:20
Alignment explanation
Indices: 27467855--27467914 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
27467845 TTATGATTAC
27467855 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
27467875 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
27467895 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27467915 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27467989 original size:25 final size:25
Alignment explanation
Indices: 27467957--27468004 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27467947 ATACATAAAC
* * *
27467957 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27467982 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27468005 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27469388 original size:134 final size:133
Alignment explanation
Indices: 27469241--27469584 Score: 483
Period size: 134 Copynumber: 2.6 Consensus size: 133
27469231 GGGTATTTTA
* * * *
27469241 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGTAAAACAGTAATTTTGTAA
1 GTAATTCTGTAAATCGAGGGTAAAAC-GTAATTTTGTAAATCAGGGTAAAACGGTAATTATGTAA
*
27469306 ATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGGTA
65 ATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTA
27469370 AAACG
129 AAACG
* * *
27469375 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGTAAAATGGTAATTATGTAA
1 GTAATTCTGTAAATCGAGGGTAAAACG-TAATTTTGTAAATCAGGGTAAAACGGTAATTATGTAA
* * *
27469440 ATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAA
65 ATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAA
27469505 AACG
130 AACG
* ** * *
27469509 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAAC-GTAATTTTGTAAATC-AGGGTAAAACGGTAATTATGTA
*
27469574 AATCGAGGGTA
64 AATCAAGGGTA
27469585 CTTTGGTAAT
Statistics
Matches: 184, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
133 1 0.01
134 155 0.84
135 28 0.15
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (133 bp):
GTAATTCTGTAAATCGAGGGTAAAACGTAATTTTGTAAATCAGGGTAAAACGGTAATTATGTAAA
TCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAA
ACG
Found at i:27469595 original size:27 final size:27
Alignment explanation
Indices: 27469241--27469584 Score: 408
Period size: 27 Copynumber: 12.8 Consensus size: 27
27469231 GGGTATTTTA
* * *
27469241 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27469268 GTAATTTTGTAAATC-AAGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27469294 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27469321 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27469348 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27469375 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27469402 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
27469428 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
27469455 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27469482 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
27469509 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
27469536 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
27469563 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
27469585 CTTTGGTAAT
Statistics
Matches: 283, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
26 48 0.17
27 233 0.82
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:27469606 original size:27 final size:27
Alignment explanation
Indices: 27469535--27469759 Score: 174
Period size: 27 Copynumber: 8.3 Consensus size: 27
27469525 AGGGTAAAAC
****
27469535 GGTAATTTTACAAATCGA-GGGTAAAAC
1 GGTAATTTTAC-AATCGAGGGGTATTTT
*
27469562 GGTAATTCTATA-AATCGA-GGGTACTTT
1 GGTAATT-T-TACAATCGAGGGGTATTTT
*
27469589 GGTAATTTTACAAGTCGA-GGGTATTTC
1 GGTAATTTTACAA-TCGAGGGGTATTTT
** * *
27469616 AATAATTTTACAGGTCGA-GGGTATTTC
1 GGTAATTTTACA-ATCGAGGGGTATTTT
* * *
27469643 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTAC-AATCGAGGGGTATTTT
* *
27469670 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAATCGAGGGGTATTTT
* * *
27469697 GATAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAATCGAGGGGTATTTT
* *
27469724 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAATCGAGGGGTATTTT
27469751 GGTAATTTT
1 GGTAATTTT
27469760 GTAAACCAAA
Statistics
Matches: 171, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 159 0.93
28 2 0.01
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAATCGAGGGGTATTTT
Found at i:27469719 original size:81 final size:81
Alignment explanation
Indices: 27469580--27469759 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
27469570 TATAAATCGA
* * * ** *
27469580 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCAG
*
27469645 TAATTTCACAAATTAG
66 TAATTTCACAAACTAG
** *
27469661 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAATAATTTTAC-AACTAGAGGGTATTTC
* *
27469724 GGTAATTTTACAAACTAG
64 AGTAATTTCACAAACTAG
27469742 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
27469760 GTAAACCAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 78 0.92
82 7 0.08
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:27469765 original size:27 final size:27
Alignment explanation
Indices: 27469634--27469759 Score: 207
Period size: 27 Copynumber: 4.7 Consensus size: 27
27469624 TACAGGTCGA
** * *
27469634 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
27469661 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
27469688 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
27469715 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
27469742 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
27469760 GTAAACCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:27472603 original size:31 final size:31
Alignment explanation
Indices: 27472565--27472628 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
27472555 CCTTTTCATA
27472565 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
27472596 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
27472627 TT
1 TT
27472629 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:27472871 original size:24 final size:24
Alignment explanation
Indices: 27472820--27472962 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
27472810 GCTTTATCAT
*
27472820 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
27472845 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
27472869 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
27472892 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
27472916 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
27472940 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
27472963 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:27472899 original size:47 final size:48
Alignment explanation
Indices: 27472820--27472961 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
27472810 GCTTTATCAT
* *
27472820 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
27472869 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
27472916 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
27472962 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:27472920 original size:71 final size:72
Alignment explanation
Indices: 27472819--27472962 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
27472809 TGCTTTATCA
*
27472819 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
27472884 GCCCTTT
66 GCCCTTT
* * **
27472891 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
27472954 AGCCCTTT
65 AGCCCTTT
27472962 T
1 T
27472963 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:27473057 original size:19 final size:20
Alignment explanation
Indices: 27473013--27473071 Score: 102
Period size: 19 Copynumber: 3.0 Consensus size: 20
27473003 TATGATTACC
27473013 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
27473033 TCATGTGCATAGCATACAT-
1 TCATGTGCATATCATACATA
27473052 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27473072 CCATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27473146 original size:25 final size:25
Alignment explanation
Indices: 27473114--27473161 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27473104 ATACATAAAC
* * *
27473114 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
27473139 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
27473162 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:27474752 original size:27 final size:27
Alignment explanation
Indices: 27474396--27474741 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
27474386 GGGTATTTTA
* * *
27474396 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27474423 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27474450 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27474477 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27474504 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27474531 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
27474558 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
27474585 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
27474612 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
27474639 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
*
27474666 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
27474693 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
27474720 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
27474742 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:27474763 original size:27 final size:27
Alignment explanation
Indices: 27474691--27474916 Score: 176
Period size: 27 Copynumber: 8.4 Consensus size: 27
27474681 GAGGGTAAAA
***
27474691 TGGTAATTTTACAAATCGA-GGGTAAAA
1 TGGTAATTTTAC-AATCGAGGGGTATTT
* *
27474718 CGGTAATTCTATA-AATCGA-GGGTACTT
1 TGGTAATT-T-TACAATCGAGGGGTATTT
27474745 TGGTAATTTTACAAGTCGA-GGGTATTT
1 TGGTAATTTTACAA-TCGAGGGGTATTT
*** *
27474772 CAATAATTTTACAGGTCGA-GGGTATTT
1 TGGTAATTTTACA-ATCGAGGGGTATTT
** * *
27474799 CAGTAATTTCACAAAT-TAGGGGTATTT
1 TGGTAATTTTAC-AATCGAGGGGTATTT
* *
27474826 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* * *
27474853 TGATAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
* *
27474880 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAATCGAGGGGTATTT
27474907 TGGTAATTTT
1 TGGTAATTTT
27474917 TAAACCAAAG
Statistics
Matches: 171, Mismatches: 20, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
25 2 0.01
26 6 0.04
27 159 0.93
28 2 0.01
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
TGGTAATTTTACAATCGAGGGGTATTT
Found at i:27474876 original size:81 final size:81
Alignment explanation
Indices: 27474737--27474916 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
27474727 TATAAATCGA
* * * ** *
27474737 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCAG
*
27474802 TAATTTCACAAATTAG
66 TAATTTCACAAACTAG
** *
27474818 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCAATAATTTTAC-AACTAGAGGGTATTTC
* *
27474881 GGTAATTTTACAAACTAG
64 AGTAATTTCACAAACTAG
27474899 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
27474917 TAAACCAAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 78 0.92
82 7 0.08
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCAATAATTTTACAACTAGAGGGTATTTCAG
TAATTTCACAAACTAG
Found at i:27474916 original size:54 final size:54
Alignment explanation
Indices: 27474791--27474916 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
27474781 TACAGGTCGA
** * *
27474791 GGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
*
27474845 GGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
27474899 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
27474917 TAAACCAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
Found at i:27476436 original size:137 final size:137
Alignment explanation
Indices: 27476190--27476476 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
27476180 TATTGGGCCT
** *
27476190 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
27476255 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGACCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGACCATTTCAAAATACATGCAACATCAGTAAA
27476320 CATATGC
131 CATATGC
27476327 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
27476392 AGTCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGACCATTTCAAAATACATGCAACATCAGTAAA
27476457 CATATGC
131 CATATGC
27476464 AAGCCCATTTGGG
1 AAGCCCATTTGGG
27476477 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAATGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGACCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:27478293 original size:26 final size:26
Alignment explanation
Indices: 27478257--27478392 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
27478247 CATGATATTC
27478257 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
27478283 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27478309 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27478335 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
27478361 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
27478387 TTATCA
1 TTATCA
27478393 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:27483847 original size:13 final size:15
Alignment explanation
Indices: 27483813--27483861 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
27483803 CTAGATTTTT
27483813 TAAAATATATATATA
1 TAAAATATATATATA
*
27483828 TACAATATATAT-TA
1 TAAAATATATATATA
27483842 -AAAATAGTA-ATAATA
1 TAAAATA-TATAT-ATA
27483857 TAAAA
1 TAAAA
27483862 ATAACTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 7 0.25
14 4 0.14
15 13 0.46
16 4 0.14
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
TAAAATATATATATA
Found at i:27483870 original size:18 final size:17
Alignment explanation
Indices: 27483827--27483874 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
27483817 ATATATATAT
27483827 ATAC-AATATATATTAAAA
1 ATACTAATA-ATA-TAAAA
*
27483845 ATAGTAATAATATAAAA
1 ATACTAATAATATAAAA
27483862 ATAACTAATAATA
1 AT-ACTAATAATA
27483875 ACGATATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
ATACTAATAATATAAAA
Found at i:27483946 original size:21 final size:20
Alignment explanation
Indices: 27483922--27483965 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
27483912 ATACATAATA
27483922 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* *
27483943 ATAGTATTAAAAATATATAC
1 ATAGGAATAAAAATATATAC
27483963 ATA
1 ATA
27483966 CTATATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:27483957 original size:27 final size:26
Alignment explanation
Indices: 27483905--27483957 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
27483895 TATATGTATT
**
27483905 AAAATATATACATAATAATAGGAATA
1 AAAATATATACATAATAATAAAAATA
* *
27483931 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
27483958 TATACATACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:27484311 original size:25 final size:25
Alignment explanation
Indices: 27484267--27484347 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 25
27484257 ACATGGGATA
* *
27484267 ATATAAAAATGTATGAATAATGTGAT
1 ATATAAAAATATATGAATAATAT-AT
27484293 AT-TAAAAATATAT-ACATAATATAT
1 ATATAAAAATATATGA-ATAATATAT
* *
27484317 ATATATAAATATAATGTTAAAAATATAT
1 ATATAAAAATAT-ATG--AATAATATAT
27484345 ATA
1 ATA
27484348 CATAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 5 0.11
25 24 0.53
26 4 0.09
28 11 0.24
29 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATAAAAATATATGAATAATATAT
Found at i:27484384 original size:41 final size:40
Alignment explanation
Indices: 27484296--27484372 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
27484286 ATGTGATATT
*
27484296 AAAA-ATATATACATAATATATATATATAAATATAATGTTA
1 AAAATATATATACATAATATATATATAT-AATAAAATGTTA
*
27484336 AAAATATATATACATAATATATATATAT-GTAAAATGT
1 AAAATATATATACATAATATATATATATAATAAAATGT
27484373 ATACATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 7 0.21
40 4 0.12
41 23 0.68
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (40 bp):
AAAATATATATACATAATATATATATATAATAAAATGTTA
Found at i:27484400 original size:25 final size:26
Alignment explanation
Indices: 27484317--27484452 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 26
27484307 CATAATATAT
*
27484317 ATATATA-AATATA-ATGTTA-AAAA
1 ATATATACAATATATATGTTATTAAA
*
27484340 TATATATACATAATATATAT-ATATGTAAA
1 -ATATATAC--AATATATATGTTAT-TAAA
*
27484369 ATGTATAC-ATA-ATATAGTTATTAAA
1 ATATATACAATATATAT-GTTATTAAA
27484394 ATATATATGCAATATATA-G-TATTAAGA
1 ATATATA--CAATATATATGTTATTAA-A
* *
27484421 ATATACACAATATATATGGTATTAAA
1 ATATATACAATATATATGTTATTAAA
27484447 A-ATATA
1 ATATATA
27484453 GTATTAAAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
24 11 0.12
25 26 0.29
26 12 0.13
27 23 0.26
28 12 0.13
29 6 0.07
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.38
Consensus pattern (26 bp):
ATATATACAATATATATGTTATTAAA
Found at i:27484423 original size:27 final size:24
Alignment explanation
Indices: 27484343--27484452 Score: 78
Period size: 27 Copynumber: 4.2 Consensus size: 24
27484333 TTAAAAATAT
* *
27484343 ATATACATAATATATATATATGTAAA
1 ATATACACAATATATA-GTAT-TAAA
* *
27484369 ATGTATAC-ATAATATAGTTATTAAA
1 ATATACACAAT-ATATAG-TATTAAA
*
27484394 ATATATATGCAATATATAGTATTAAGA
1 ATATACA--CAATATATAGTATTAA-A
27484421 ATATACACAATATATATGGTATTAAAA
1 ATATACACAATATATA--GTATT-AAA
27484448 ATATA
1 ATATA
27484453 GTATTAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
25 21 0.30
26 19 0.28
27 25 0.36
28 4 0.06
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATACACAATATATAGTATTAAA
Found at i:27484479 original size:41 final size:42
Alignment explanation
Indices: 27484407--27484485 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
27484397 TATATGCAAT
* * *
27484407 ATATAGTATTAAGAATATACACAATATATATG-GTATTAAAA
1 ATATAGTATTAAAAACATACACAATACATATGAGTATTAAAA
*
27484448 ATATAGTATTAAAAACATA-ATATATACATATGAGTATT
1 ATATAGTATTAAAAACATACACA-ATACATATGAGTATT
27484486 GATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.06
41 25 0.78
42 5 0.16
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (42 bp):
ATATAGTATTAAAAACATACACAATACATATGAGTATTAAAA
Done.