Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 151 of 295
Found at i:47362031 original size:42 final size:43
Alignment explanation
Indices: 47361922--47362032 Score: 107
Period size: 48 Copynumber: 2.5 Consensus size: 43
47361912 CAAAAACTCG
* * *
47361922 CACACTTAGTGCCAAATAAATAGCCGAAGCTATATCAATCTCA
1 CACACTAAGTGCCAAATATATAGCCGAAGCTATATCAATCACA
* * * *
47361965 CATACTAAGTGCCAATATGTATATATAGCCGGAGCTATCTCAATCACT
1 CACACTAAGTGCC-A-A---ATATATAGCCGAAGCTATATCAATCACA
47362013 CACACTAAGTGCC-AATATAT
1 CACACTAAGTGCCAAATATAT
47362033 GTACATAGCC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.11
43 11 0.20
44 1 0.02
45 2 0.04
48 35 0.64
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
CACACTAAGTGCCAAATATATAGCCGAAGCTATATCAATCACA
Found at i:47362041 original size:48 final size:48
Alignment explanation
Indices: 47361941--47362046 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
47361931 TGCCAAATAA
* * * *
47361941 ATAGCCGAAGCTATATCAATCTCACATACTAAGTGCCAATATGTATAT
1 ATAGCCGAAGCTATATCAATCACACACACTAAGTGCCAATATATATAC
* * * *
47361989 ATAGCCGGAGCTATCTCAATCACTCACACTAAGTGCCAATATATGTAC
1 ATAGCCGAAGCTATATCAATCACACACACTAAGTGCCAATATATATAC
47362037 ATAGCCGAAG
1 ATAGCCGAAG
47362047 TTAACTGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (48 bp):
ATAGCCGAAGCTATATCAATCACACACACTAAGTGCCAATATATATAC
Found at i:47362106 original size:43 final size:43
Alignment explanation
Indices: 47362038--47362165 Score: 184
Period size: 43 Copynumber: 3.0 Consensus size: 43
47362028 TATATGTACA
* * *
47362038 TAGCCGAAGTTAACTGATCTTGCACACTTAGTGCCAATGTATT
1 TAGCCGAAGCTATCTGGTCTTGCACACTTAGTGCCAATGTATT
* *
47362081 TAGCCGAAGCTATCTGGTCTCGCACACTTAGTGCCAATATATT
1 TAGCCGAAGCTATCTGGTCTTGCACACTTAGTGCCAATGTATT
* *
47362124 TAGCCGAAGCTATCTCAGTCTTGCACACCTAGTGCCAATGTA
1 TAGCCGAAGCTATCT-GGTCTTGCACACTTAGTGCCAATGTA
47362166 CAATATATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 53 0.71
44 22 0.29
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
TAGCCGAAGCTATCTGGTCTTGCACACTTAGTGCCAATGTATT
Found at i:47368010 original size:43 final size:41
Alignment explanation
Indices: 47367941--47368060 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 41
47367931 CTCGGATAAT
* *
47367941 CACGCATATCATA-CAATGCCAATGTCCTAGACGTGGTCTTA
1 CACGCA-ATCATATCGATGCCAATGTCCCAGACGTGGTCTTA
* *
47367982 CATGCAATCACATATCGATGCCAATGTCCCAGACATGGTCTTA
1 CACGCAAT--CATATCGATGCCAATGTCCCAGACGTGGTCTTA
* * *
47368025 CACGTAATCATATCGATGCCAAAGTCCCAGATGTGG
1 CACGCAATCATATCGATGCCAATGTCCCAGACGTGG
47368061 CCTTGGATGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
40 2 0.03
41 30 0.45
42 4 0.06
43 31 0.46
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (41 bp):
CACGCAATCATATCGATGCCAATGTCCCAGACGTGGTCTTA
Found at i:47375773 original size:43 final size:43
Alignment explanation
Indices: 47375706--47375823 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
47375696 GCATATTGTA
* * * * *
47375706 CAATGCCAGCATCCTAGACGTGGTCTTACATGCAATCACATAT
1 CAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATAT
** *
47375749 TGATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATAT
1 CAATGCCAAC-GTCCCAGACATGGTCTTACACGCAATCACATAT
*
47375792 CAATGCCAACGTCCCAGACGTCGG-CTTACACG
1 CAATGCCAACGTCCCAGACAT-GGTCTTACACG
47375824 AGAACACATA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 4 0.07
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACATGGTCTTACACGCAATCACATAT
Found at i:47379155 original size:27 final size:26
Alignment explanation
Indices: 47379120--47379231 Score: 161
Period size: 27 Copynumber: 4.2 Consensus size: 26
47379110 AGCATGGCTG
*
47379120 CCAGAACAGATAATGTGGCAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47379146 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
47379174 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
47379201 CCAGATCAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
47379228 CCAG
1 CCAG
47379232 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.69
28 18 0.23
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47379184 original size:54 final size:54
Alignment explanation
Indices: 47379120--47379231 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
47379110 AGCATGGCTG
* *
47379120 CCAGAACAGATA-ATGTGGCAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATATGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
*
47379174 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
47379228 CCAG
1 CCAG
47379232 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (54 bp):
CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:47389665 original size:93 final size:93
Alignment explanation
Indices: 47389497--47389666 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
47389487 GATGGTTGAA
* * *
47389497 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGCCCGAACTCGTTGAGTT
47389562 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * * *
47389590 CATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGCCCGAACTCGTTGAGTT
*
47389655 GAGTCTGAGTTC
66 GAGTCCGAGTTC
47389667 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:47389669 original size:46 final size:46
Alignment explanation
Indices: 47389500--47389671 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
47389490 GGTTGAACAT
* * *
47389500 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGC
* * * * * *
47389546 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGAATGC
* *
47389591 ATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGC
* *
47389639 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47389672 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 61 0.61
47 33 0.33
48 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGC
Found at i:47400280 original size:16 final size:15
Alignment explanation
Indices: 47400254--47400297 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
47400244 AGTAGATCGG
47400254 CAAAAGCTGAAATGC
1 CAAAAGCTGAAATGC
47400269 CAAAATGCTGAAATGC
1 CAAAA-GCTGAAATGC
*
47400285 CGAAAAGCCGAAA
1 C-AAAAGCTGAAA
47400298 GTTTGGCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 17 0.65
17 4 0.15
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (15 bp):
CAAAAGCTGAAATGC
Found at i:47400575 original size:58 final size:57
Alignment explanation
Indices: 47400503--47400613 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
47400493 TGAATGTGAC
* *
47400503 TGGGCCTAACGGGCCATATAAATGTGATTTAGGCCTAATGGGCCATATACAGGTGGTT
1 TGGGCCTAACGGGCCATATAAATATGA-TTAGGCCTAATGGGCCAGATACAGGTGGTT
* * * * *
47400561 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGTCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGT
47400614 ATGTGGATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTAGGCCTAATGGGCCAGATACAGGTGGTT
Found at i:47400600 original size:28 final size:28
Alignment explanation
Indices: 47400490--47400601 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 28
47400480 GTGAGCATGA
* *
47400490 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
47400518 ATATAAATGTGATTTAGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
47400547 ATAT-ACAGGTGGTTTGGGCCTAATGGGCC
1 ATATGA-ATGT-GATTGGGCCTAATGGGCC
* *
47400576 ATATGAATATGATTGGGCTTAATGGG
1 ATATGAATGTGATTGGGCCTAATGGG
47400602 TCAGATACAG
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
28 26 0.38
29 41 0.59
30 2 0.03
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:47403162 original size:16 final size:15
Alignment explanation
Indices: 47403137--47403167 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
47403127 CTAGATCGGC
47403137 AAAAGCCGAAAAGCT
1 AAAAGCCGAAAAGCT
47403152 AAAATGCCGAAAAGCT
1 AAAA-GCCGAAAAGCT
47403168 GACATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.10
Consensus pattern (15 bp):
AAAAGCCGAAAAGCT
Found at i:47403471 original size:28 final size:27
Alignment explanation
Indices: 47403415--47403478 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
47403405 ATTTACTAAA
* * *
47403415 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCTTAAGTAAGAAAATTACCATT
47403442 ATACCCTTAAGTAAGCAAAATTACCATT
1 ATACCCTTAAGTAAG-AAAATTACCATT
47403470 ATACCCTTA
1 ATACCCTTA
47403479 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.30
Consensus pattern (27 bp):
ATACCCTTAAGTAAGAAAATTACCATT
Found at i:47403623 original size:28 final size:27
Alignment explanation
Indices: 47403583--47403693 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
47403573 GGTGGAAGCG
47403583 TTCTGGTGGCTATGCCACAATTATCTGT
1 TTCTGGTGGCTATGCCACAA-TATCTGT
47403611 TTCTGGTGGCTATGCCACAGATATCTG-
1 TTCTGGTGGCTATGCCACA-ATATCTGT
*
47403638 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
* * * **
47403665 ATCTGGTGACTCTATCACAATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
47403692 TT
1 TT
47403694 AGGCAGCCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 7 0.09
27 42 0.56
28 25 0.33
29 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTGT
Found at i:47411501 original size:49 final size:49
Alignment explanation
Indices: 47411441--47411665 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
47411431 CTAATACGCA
* * * *
47411441 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
47411490 TAGTAGACTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
47411539 TAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
47411589 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
47411640 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
47411666 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 74 0.48
50 43 0.28
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:47411610 original size:99 final size:100
Alignment explanation
Indices: 47411439--47411672 Score: 303
Period size: 101 Copynumber: 2.4 Consensus size: 100
47411429 ATCTAATACG
* * **
47411439 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGACTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCAGTACACGTAGTAGACTGCACT
*
47411504 TAGTACTACACACGTGA-C-CAATTATCTGGTACA
66 TAGTACTACACACGTGATCACAATTATCGGGTACA
* * * * *
47411537 CGTAGTAGCCTGTACTTAGTACTACACACGTGACCTAACCAT-CTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCAG-TACACGTAGTAGACTGCA
* * *
47411601 CTTAGTACTACACACGTGATCACAGTTTTCGGGTACG
64 CTTAGTACTACACACGTGATCACAATTATCGGGTACA
*
47411638 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACC
47411673 TCACAGTAGA
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
98 32 0.28
99 40 0.35
100 1 0.01
101 42 0.37
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCAGTACACGTAGTAGACTGCACT
TAGTACTACACACGTGATCACAATTATCGGGTACA
Found at i:47411736 original size:23 final size:23
Alignment explanation
Indices: 47411710--47411761 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
47411700 ATTCCGAAGG
*
47411710 TTCAATCGAGAAATTCCTCACTT
1 TTCAACCGAGAAATTCCTCACTT
*
47411733 TTCAACCGAGAAATTTCTCACTT
1 TTCAACCGAGAAATTCCTCACTT
47411756 TTCAAC
1 TTCAAC
47411762 ATTTTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (23 bp):
TTCAACCGAGAAATTCCTCACTT
Found at i:47414404 original size:27 final size:28
Alignment explanation
Indices: 47414382--47414447 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
47414372 ATTTACTAAA
*
47414382 ATACCCCTAGGTATG-ACAATTACCATT
1 ATACCCCTAGGTATGCAAAATTACCATT
*
47414409 ATACCCCTAAGTATGCAAAATTACCATT
1 ATACCCCTAGGTATGCAAAATTACCATT
47414437 ATACCCCTAGG
1 ATACCCCTAGG
47414448 GTTAATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
ATACCCCTAGGTATGCAAAATTACCATT
Found at i:47414597 original size:28 final size:27
Alignment explanation
Indices: 47414553--47414663 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
47414543 GGAAGCGTTG
* *
47414553 TGGTGGCTATGCTACAATTATCTGTTTC
1 TGGTGACTATGCCACAA-TATCTGTTTC
* *
47414581 TAGTGGCTATGCCACAAATATCTG-TTC
1 TGGTGACTATGCCAC-AATATCTGTTTC
* *
47414608 TGGTGACTCTGCCACAATATCTGTATC
1 TGGTGACTATGCCACAATATCTGTTTC
* *
47414635 TGGTGACTCTGTCACAATATCTG-TTC
1 TGGTGACTATGCCACAATATCTGTTTC
47414661 TGG
1 TGG
47414664 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 13 0.18
27 39 0.53
28 19 0.26
29 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (27 bp):
TGGTGACTATGCCACAATATCTGTTTC
Found at i:47414620 original size:27 final size:26
Alignment explanation
Indices: 47414566--47414663 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 26
47414556 TGGCTATGCT
* * *
47414566 ACAATTATCTGTTTCTAGTGGCTATGCC
1 ACAA-TATCTG-TTCTGGTGACTCTGCC
47414594 ACAAATATCTGTTCTGGTGACTCTGCC
1 AC-AATATCTGTTCTGGTGACTCTGCC
*
47414621 ACAATATCTGTATCTGGTGACTCTGTC
1 ACAATATCTGT-TCTGGTGACTCTGCC
47414648 ACAATATCTGTTCTGG
1 ACAATATCTGTTCTGG
47414664 CAGCCATGCT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
26 14 0.22
27 40 0.62
28 8 0.12
29 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
ACAATATCTGTTCTGGTGACTCTGCC
Found at i:47416707 original size:48 final size:48
Alignment explanation
Indices: 47416588--47416819 Score: 192
Period size: 46 Copynumber: 4.9 Consensus size: 48
47416578 CAGTGCAGGT
* * *
47416588 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-A
1 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCACCAG-C-C-TTGA
* * * * * *
47416638 CA-A-GAG--CTAGTGTAAGTCATGTCTAGGACATGCGCCGGCCTTGA
1 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCACCAGCCTTGA
* *
47416682 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCATCAGCTTTGA
1 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCACCAGCCTTGA
* * * *
47416730 G--ATGAG-AGCCATTGTAAGACATGTCTGGGACATGCACCAGCCTCGA
1 GATATGTGTA-CTAGTGTAAGACATGTCTGGGACATGCACCAGCCTTGA
* * * * *
47416776 GATATGTGTGCTACTATAAAACATGTCTGGGACATGCATCAGCC
1 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCACCAGCC
47416820 ACATCATGAA
Statistics
Matches: 146, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 3 0.02
46 68 0.47
48 68 0.47
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCACCAGCCTTGA
Found at i:47416753 original size:94 final size:91
Alignment explanation
Indices: 47416588--47416818 Score: 282
Period size: 94 Copynumber: 2.5 Consensus size: 91
47416578 CAGTGCAGGT
* *
47416588 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACAAGAGCTAGTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTACAAGAGCCAGTGTAA
* * * *
47416653 GTCATGTCTAGGACATGCGCCGGCCTTGA
63 GACATGTCTAGGACATGCACCAGCCTCGA
* * * *
47416682 GATATGTGTACTAGTGTAAGACATGTCTGGGACATGCATCAGCTTTGAGATGAGAGCCATTGTAA
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATT-ACA--AGAGCCAGTGTAA
*
47416747 GACATGTCTGGGACATGCACCAGCCTCGA
63 GACATGTCTAGGACATGCACCAGCCTCGA
* * *
47416776 GATATGTGTGCTACTATAAAACATGTCTGGGACATGCATCAGC
1 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
47416819 CACATCATGA
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
91 3 0.03
92 2 0.02
94 114 0.96
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (91 bp):
GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTACAAGAGCCAGTGTAAGAC
ATGTCTAGGACATGCACCAGCCTCGA
Found at i:47419628 original size:101 final size:99
Alignment explanation
Indices: 47419498--47419687 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 99
47419488 CGGGATATAT
* * *
47419498 ATAGCTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 ATAGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAA-T-TGATCACA
*
47419563 TGTGTAGTACTTAGTGCAGGCTACTACGTGTATCAG
64 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
* * * * * * *
47419599 ATAGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 ATAGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGATCACATG
47419664 TGTAGTACTAAGTGCAGGCTACTA
66 TGTAGTACTAAGTGCAGGCTACTA
47419688 TGCATACCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 30 0.38
100 1 0.01
101 47 0.60
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (99 bp):
ATAGCTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAATTGATCACATG
TGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
Found at i:47419629 original size:50 final size:49
Alignment explanation
Indices: 47419505--47419687 Score: 213
Period size: 50 Copynumber: 3.7 Consensus size: 49
47419495 TATATAGCTA
* * * * * *
47419505 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGT-T
* * * *
47419556 GATCACGTGTGTAGTACTTAGTGCAGGCTACTACGTGTATCAGATAGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
47419605 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
*
47419655 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
47419688 TGCATACCAA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 32 0.28
50 47 0.41
51 35 0.31
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:47430863 original size:6 final size:6
Alignment explanation
Indices: 47430852--47430877 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47430842 ACACCGTAGG
47430852 GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GT
47430878 CATAGTCAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:47431798 original size:16 final size:16
Alignment explanation
Indices: 47431777--47431809 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47431767 CGTTCCTTTC
*
47431777 TGTTTTTTTTCTTTTA
1 TGTTTTATTTCTTTTA
47431793 TGTTTTATTTCTTTTA
1 TGTTTTATTTCTTTTA
47431809 T
1 T
47431810 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TGTTTTATTTCTTTTA
Found at i:47431858 original size:18 final size:17
Alignment explanation
Indices: 47431831--47431867 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
47431821 ATTCTTTATT
*
47431831 TTATTAATATATTATAA
1 TTATTAATATAATATAA
47431848 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
47431866 TT
1 TT
47431868 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:47445069 original size:40 final size:40
Alignment explanation
Indices: 47444980--47445240 Score: 333
Period size: 40 Copynumber: 6.7 Consensus size: 40
47444970 TTGAATGCTG
* *
47444980 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
47445019 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47445059 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47445098 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47445138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47445177 TCC-GGTTAAGT-CCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47445216 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47445241 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 12, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
37 23 0.12
38 10 0.05
39 66 0.33
40 93 0.47
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47445115 original size:79 final size:79
Alignment explanation
Indices: 47444980--47445240 Score: 331
Period size: 79 Copynumber: 3.3 Consensus size: 79
47444970 TTGAATGCTG
* * **
47444980 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCGAAGGCAT
47445042 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAT
47445059 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
* *
47445123 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAT
*
47445138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATCC-GGTTAAGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
47445201 TGCGA-ATTACT-AT
66 TGCGAGA-TACTAAT
* *
47445214 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47445241 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
76 1 0.01
77 45 0.28
78 18 0.11
79 66 0.40
80 33 0.20
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:47445258 original size:117 final size:118
Alignment explanation
Indices: 47444980--47445273 Score: 327
Period size: 117 Copynumber: 2.5 Consensus size: 118
47444970 TTGAATGCTG
* *
47444980 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
47445040 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
47445098 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* * *
47445163 GTGCGAGTTACTAA-TCC-GGTTAAGTCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
47445216 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
47445274 TACGTGATTT
Statistics
Matches: 151, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
116 15 0.10
117 64 0.42
118 28 0.19
119 39 0.26
120 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:47456722 original size:20 final size:20
Alignment explanation
Indices: 47456654--47456723 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
47456644 ATAAGTGAAC
47456654 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* * **
47456674 TCGGATGCATTACATCTCATCGAAC
1 TCGGA--C--T-CAACTCAACGAGT
47456699 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
47456719 TCGGA
1 TCGGA
47456724 TGCCCAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
20 19 0.51
21 1 0.03
22 1 0.03
23 1 0.03
24 1 0.03
25 14 0.38
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:47462049 original size:38 final size:38
Alignment explanation
Indices: 47461988--47462177 Score: 173
Period size: 38 Copynumber: 5.1 Consensus size: 38
47461978 ATTTGATGTG
* *
47461988 TATCCGGGCTTAAAGACCCGCAGGGTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATGCTGGAATTA
*
47462028 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGG-AATTA
* * *
47462066 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* *
47462104 TATCCGAGTTAAAT-CC-CA--C--AATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
* * *
47462136 TATCCGGGTTAAATCCCGCAAGCCT-AGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGAATTA
47462174 TATC
1 TATC
47462178 TGAGTTTAAA
Statistics
Matches: 128, Mismatches: 12, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
32 23 0.18
33 2 0.02
34 3 0.02
36 3 0.02
37 5 0.04
38 77 0.60
39 7 0.05
40 8 0.06
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGAATTA
Found at i:47462147 original size:108 final size:110
Alignment explanation
Indices: 47462016--47462214 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
47462006 CGCAGGGTAT
* * *
47462016 ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATC-CAGGTTAAA-
1 ATGCTGGAATTATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATATATCTCAGGTTAAAG
*
47462079 TCCCGCAGGCTTCGTGCTGGTATTATATCCGAGTTAAATCCCACA
66 TCCCGCAGACTTCGTGCTGGTATTATATCCGAGTTAAATCCCACA
* * *
47462124 ATGCTGGAATTATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTATTATATCTGAGTTTAAAG
1 ATGCTGGAATTATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATATATCTCAGGTTAAAG
* * *
47462189 TCCTGTAGACTTCGTGCTGGTGTTAT
66 TCCCGCAGACTTCGTGCTGGTATTAT
47462215 GTTCGGGTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 50 0.63
109 7 0.09
110 22 0.28
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (110 bp):
ATGCTGGAATTATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAATATATCTCAGGTTAAAG
TCCCGCAGACTTCGTGCTGGTATTATATCCGAGTTAAATCCCACA
Found at i:47463344 original size:30 final size:30
Alignment explanation
Indices: 47463300--47463388 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
47463290 CAAAGATAAC
47463300 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
47463329 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
47463359 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47463389 CAATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47463348 original size:15 final size:15
Alignment explanation
Indices: 47463300--47463379 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
47463290 CAAAGATAAC
*
47463300 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47463314 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47463329 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
47463344 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
47463359 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47463374 AAGAAA
1 AAGAAA
47463380 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47463388 original size:15 final size:15
Alignment explanation
Indices: 47463311--47463388 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
47463301 AGAAAACCGA
47463311 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47463326 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
47463340 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
47463355 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
47463371 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47463386 ATA
1 ATA
47463389 CAATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47465030 original size:93 final size:93
Alignment explanation
Indices: 47464923--47465095 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
47464913 CACCCATAAG
* * * * * *
47464923 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCGATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
47464988 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
47465016 TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
47465081 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
47465096 AAATATCTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:47465082 original size:46 final size:46
Alignment explanation
Indices: 47464916--47465091 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
47464906 TGTAACCCAC
* * * *
47464916 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
47464962 CGATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
47465012 CTC-T---TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47465055 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47465092 TGCCAAATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 62 0.58
47 27 0.25
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47467512 original size:30 final size:30
Alignment explanation
Indices: 47467468--47467556 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
47467458 CAAAGATAAC
47467468 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
47467497 GAGAAACCCAGAATAAAGGAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
47467527 AAGAGATCTAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
47467557 CAATACTATG
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 9 0.19
30 36 0.77
31 2 0.04
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:47467524 original size:15 final size:15
Alignment explanation
Indices: 47467468--47467547 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
47467458 CAAAGATAAC
*
47467468 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47467482 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
47467497 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
47467512 AAGGAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
47467527 AAGAGATCTAGGATA
1 AAGAAATCCAGAATA
47467542 AAGAAA
1 AAGAAA
47467548 CCCAAGATAC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.12, G:0.19, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47467556 original size:15 final size:15
Alignment explanation
Indices: 47467479--47467556 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
47467469 AGAAAACCGA
47467479 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
47467494 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
47467508 AATAAAGGAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
47467523 AATAAAGAGATCTAGG
1 -ATAAAGAAATCCAAG
*
47467539 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
47467554 ATA
1 ATA
47467557 CAATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 4 0.08
15 41 0.85
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:47473130 original size:48 final size:48
Alignment explanation
Indices: 47473072--47473323 Score: 219
Period size: 48 Copynumber: 5.3 Consensus size: 48
47473062 TACGAGAGCT
* **
47473072 AGTGTAAGACATGTTTGGGAGTTGCATCGGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCAGCC
* * * * *
47473120 AGTGTAAGACATGTCTGTGACATGCATAGG-C-C-ACAT-TACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAC--CAGCC
* **
47473166 AGTGTAAGACATGTTTGGGAGTTGCATCGGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCAGCC
* * ** * *
47473214 AGTGTAAGACATGTCTGGGACATGCATCGGCTTTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCAGCC
* * * * * *
47473260 AGTGTATGACATGTCTGGAACATGCATCAGTCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCAGCC
* *
47473308 AGTTTAAGACCTGTCT
1 AGTGTAAGACATGTCT
47473324 AAGACATGGC
Statistics
Matches: 159, Mismatches: 37, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 64 0.40
47 4 0.03
48 79 0.50
49 3 0.02
50 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACCAGCC
Found at i:47473184 original size:94 final size:94
Alignment explanation
Indices: 47473023--47473323 Score: 424
Period size: 94 Copynumber: 3.2 Consensus size: 94
47473013 TGATACGTGT
*
47473023 GCCAGTGTAAAACATGTCTGTGACATGCATAGGCCACATTACGAGAGCTAGTGTAAGACATGTTT
1 GCCAGTGTAAGACATGTCTGTGACATGCATAGGCCACATTACGAGAGCTAGTGTAAGACATGTTT
47473088 GGGAGTTGCATCGGCCTCGAGATATACCA
66 GGGAGTTGCATCGGCCTCGAGATATACCA
47473117 GCCAGTGTAAGACATGTCTGTGACATGCATAGGCCACATTACGAGAGCTAGTGTAAGACATGTTT
1 GCCAGTGTAAGACATGTCTGTGACATGCATAGGCCACATTACGAGAGCTAGTGTAAGACATGTTT
47473182 GGGAGTTGCATCGGCCTCGAGATATACCA
66 GGGAGTTGCATCGGCCTCGAGATATACCA
* * *** * * *
47473211 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTTGA-GACGAGAGCTAGTGTATGACATGTC
1 GCCAGTGTAAGACATGTCTGTGACATGCATAGGC-CACATTACGAGAGCTAGTGTAAGACATGTT
* ** * * *
47473275 TGGAACATGCATCAGTCTCGAGATATACAA
65 TGGGAGTTGCATCGGCCTCGAGATATACCA
* * *
47473305 GCTAGTTTAAGACCTGTCT
1 GCCAGTGTAAGACATGTCT
47473324 AAGACATGGC
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
94 187 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGTGACATGCATAGGCCACATTACGAGAGCTAGTGTAAGACATGTTT
GGGAGTTGCATCGGCCTCGAGATATACCA
Found at i:47473275 original size:46 final size:46
Alignment explanation
Indices: 47473026--47473297 Score: 215
Period size: 46 Copynumber: 5.8 Consensus size: 46
47473016 TACGTGTGCC
* * * * *
47473026 AGTGTAAAACATGTCTGTGACATGCATAGGCCAC-ATTACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCT
* ** ** * *
47473072 AGTGTAAGACATGTTTGGGAGTTGCATCGGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-CGA-GAGCT
* * * *
47473120 AGTGTAAGACATGTCTGTGACATGCATAGGCCAC-ATTACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCT
* ** ** * *
47473166 AGTGTAAGACATGTTTGGGAGTTGCATCGGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-CGA-GAGCT
* *
47473214 AGTGTAAGACATGTCTGGGACATGCATCGGCTTTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCT
* * * *
47473260 AGTGTATGACATGTCTGGAACATGCATCAGTCTCGAGA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
47473298 TATACAAGCT
Statistics
Matches: 170, Mismatches: 49, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
46 95 0.56
47 7 0.04
48 68 0.40
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCT
Found at i:47473416 original size:49 final size:49
Alignment explanation
Indices: 47473354--47473523 Score: 175
Period size: 49 Copynumber: 3.5 Consensus size: 49
47473344 TGTGAGTCAA
*
47473354 TGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCCAG
* * * * * *
47473403 TGTAAGACATGTCTGGGACATGGCATCGGCCTTGATATATTAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAG
* * * ** *
47473452 TGTAAGACCTATCTGGGACATGGCATCGACTTTGAT-G-TGCTAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAG
*
47473499 TGTAAGACCATGTTTGGGACATGGC
1 TGTAAGACC-TGTCTGGGACATGGC
47473524 GTCGGCATCT
Statistics
Matches: 102, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 16 0.16
48 14 0.14
49 72 0.71
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCCAG
Found at i:47473471 original size:98 final size:97
Alignment explanation
Indices: 47473348--47473529 Score: 249
Period size: 98 Copynumber: 1.9 Consensus size: 97
47473338 GCTTGTTGTG
*
47473348 AGTCAATGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGA-CA
1 AGTCAATGTAAGACCTATCTGGGACATGGCATCGACACCGAT-G-TGAGAGCCAGTGTAAGACCA
47473412 TGTCTGGGACATGGCATCGGCCTTGATATATTAA
64 TGTCTGGGACATGGCATCGGCCTTGATATATTAA
* *** ** *
47473446 AGTCAGTGTAAGACCTATCTGGGACATGGCATCGACTTTGATGTGCTAGTCAGTGTAAGACCATG
1 AGTCAATGTAAGACCTATCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCATG
* *
47473511 TTTGGGACATGGCGTCGGC
66 TCTGGGACATGGCATCGGC
47473530 ATCTTATCCC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 14 0.19
97 22 0.30
98 37 0.51
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (97 bp):
AGTCAATGTAAGACCTATCTGGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCCTTGATATATTAA
Found at i:47476433 original size:46 final size:44
Alignment explanation
Indices: 47476267--47476483 Score: 127
Period size: 46 Copynumber: 4.7 Consensus size: 44
47476257 ATTGTGAGCT
* * *
47476267 AGTGTAAGACATGTGTGGGACATGCATTGGCCACATTACGAGTTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCA-TCG-C-C--TACGAGTTAAGCC
* * * ** *
47476316 AGTGTAAAACCATGT-TCGGGACATGGCATCGGC-AGTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGCCTA-CGAG-TTA-AGCC
* * * *
47476364 AGTGTAAAACACGTTTGGAACATGCATCAGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTACGAG-T-TAAGCC
* *
47476410 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGTTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGTTAAGCC
47476454 AGTGTAAGACCATGTCT-GGACATAGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
47476484 ACATCCTATC
Statistics
Matches: 136, Mismatches: 19, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
44 20 0.15
45 18 0.13
46 43 0.32
47 14 0.10
48 15 0.11
49 9 0.07
50 14 0.10
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTACGAGTTAAGCC
Found at i:47483614 original size:49 final size:49
Alignment explanation
Indices: 47483557--47483677 Score: 145
Period size: 49 Copynumber: 2.5 Consensus size: 49
47483547 AAGTCGATGT
* * *
47483557 CATGTCCCAGAGAGGTCTTACACTGACTTTCATATATCGAT-TCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGT-CAATGC
* * * *
47483606 CGTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCGGTGTCAATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGTCAATGC
* *
47483655 CATGTCCCAGATAGGTTTTACAC
1 CATGTCCCAGACAGGTCTTACAC
47483678 AACACACAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 60 0.98
50 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGATGTCAATGC
Found at i:47483806 original size:46 final size:46
Alignment explanation
Indices: 47483747--47483864 Score: 130
Period size: 46 Copynumber: 2.6 Consensus size: 46
47483737 AAGTTGATGC
* * *
47483747 ATGTCCTAGACATGTCTTACACTAGCTCTCAT-CTCAAAGCCGATAA
1 ATGTCCCAAACATGTCTTACACTAGCTCTCATAAT-AAAGCCGATAA
* *** * **
47483793 ATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTGGCTGATGC
1 ATGTCCCAAACATGTCTTACACTAGCTCTCATAATAAAGCCGATAA
47483839 ATGTCCCAAACATGTCTTACACTAGC
1 ATGTCCCAAACATGTCTTACACTAGC
47483865 ACACATATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 59 0.98
47 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (46 bp):
ATGTCCCAAACATGTCTTACACTAGCTCTCATAATAAAGCCGATAA
Found at i:47489007 original size:48 final size:47
Alignment explanation
Indices: 47488900--47489103 Score: 186
Period size: 46 Copynumber: 4.3 Consensus size: 47
47488890 TACGTGTGCC
* * *
47488900 AGTGTAAGACATGTCTAGGAGATGCATCAG-C-C-ACAT-TACGAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGATATAC-A-AGCT
* *
47488946 AGTGTAAGACATGTCTGGAACATGCATCGGCCTCGAGATATACCAGCC
1 AGTGTAAGACATGTCTGG-ACATGCATCGGCCTCGAGATATACAAGCT
* ** *
47488994 AGTGTAAGACATGTCTAGGACATGCATCGGCTTCGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGATATACAAGCT
* * **
47489040 AGTGTAAGACATGTCTGGGAGACGCATCAACCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGATATACAAGCT
*
47489088 AGTGTAAGACTTGTCT
1 AGTGTAAGACATGTCT
47489104 AGTACATGGC
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.02
46 60 0.46
47 3 0.02
48 57 0.44
49 5 0.04
50 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCTCGAGATATACAAGCT
Found at i:47489067 original size:94 final size:94
Alignment explanation
Indices: 47488897--47489111 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 94
47488887 TGATACGTGT
* *
47488897 GCCAGTGTAAGACATGTCTAGGAGATGCATCAGCCACATTACGAGAGCTAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGACGAGAGCTAGTGTAAGACATGTCT
* ** *
47488962 GGAACATGCATCGGCCTCGAGATATACCA
66 GGAACACGCATCAACCTCGAGATATACAA
* **
47488991 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCTTCGA-GACGAGAGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATGACGAGAGCTAGTGTAAGACATGTC
* *
47489055 TGGGAGACGCATCAACCTCGAGATATACAA
65 TGGAACACGCATCAACCTCGAGATATACAA
* * *
47489085 GCTAGTGTAAGACTTGTCTAGTACATG
1 GCCAGTGTAAGACATGTCTAGGACATG
47489112 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 105 0.99
95 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCAGCCACATGACGAGAGCTAGTGTAAGACATGTCT
GGAACACGCATCAACCTCGAGATATACAA
Found at i:47489187 original size:49 final size:49
Alignment explanation
Indices: 47489132--47489307 Score: 182
Period size: 49 Copynumber: 3.6 Consensus size: 49
47489122 GTTGTGTGTT
* *
47489132 AGTGTAAGACTTATCTGGGACATGGCATCGATTCCGATAGATGACAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGATTCCGATAGATGACAGCC
* ** * * * *
47489181 AGTGTAAGACCTGTCTGGGACACGGCATC-AACCTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGATTC-CGATAGATGACAGCC
* * *
47489230 AATGTAAGACCTGTCTAGGACATGGCATCGATT-TGAT-G-TG-CTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGATTCCGATAGATGAC-AGCC
47489276 AGTGTAAGACCATGTCTGGGACATGGCATCGA
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGA
47489308 CATCTTATCC
Statistics
Matches: 102, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
46 15 0.15
47 19 0.19
48 4 0.04
49 63 0.62
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGATTCCGATAGATGACAGCC
Found at i:47491683 original size:18 final size:18
Alignment explanation
Indices: 47491660--47491696 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47491650 ATATGGAGGG
*
47491660 AATAATTAATTGTTTGAT
1 AATAATTAATTATTTGAT
47491678 AATAATTAATTATTTGAT
1 AATAATTAATTATTTGAT
47491696 A
1 A
47491697 GAGGATCGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (18 bp):
AATAATTAATTATTTGAT
Found at i:47494106 original size:11 final size:11
Alignment explanation
Indices: 47494090--47494117 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
47494080 AATCCAAGAG
47494090 TTTATTTATTT
1 TTTATTTATTT
47494101 TTTATTTATTT
1 TTTATTTATTT
47494112 TTTATT
1 TTTATT
47494118 GAAGTATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:47494688 original size:13 final size:14
Alignment explanation
Indices: 47494658--47494694 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
47494648 AATTCATTTG
*
47494658 TTTATTT-TTCTTA
1 TTTATTTATTCTCA
47494671 TTTATTTATTCTCA
1 TTTATTTATTCTCA
47494685 -TTATTTATTC
1 TTTATTTATTC
47494695 GTATCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTATTCTCA
Found at i:47496016 original size:21 final size:21
Alignment explanation
Indices: 47495990--47496043 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
47495980 ACAGCGGTGA
*
47495990 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
47496011 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
47496032 CGGTGAGATTAG
1 CGGTGAGATTAG
47496044 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:47510805 original size:3 final size:3
Alignment explanation
Indices: 47510799--47510823 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47510789 AACCTTTTTT
47510799 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
47510824 CATTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47516290 original size:18 final size:17
Alignment explanation
Indices: 47516248--47516290 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
47516238 ATTTTAAGTT
*
47516248 TATAATATTTTATATTA
1 TATAATTTTTTATATTA
* *
47516265 TGTTATTTTTATATATTA
1 TATAATTTTT-TATATTA
47516283 TATAATTT
1 TATAATTT
47516291 ATAACACAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TATAATTTTTTATATTA
Found at i:47527956 original size:32 final size:29
Alignment explanation
Indices: 47527885--47527956 Score: 72
Period size: 32 Copynumber: 2.3 Consensus size: 29
47527875 AACTATAGCC
* *
47527885 TTATTTTGAACAAAGTTATTCTGAACATAA
1 TTATTTT-AACAAAGTTATTCTAAACACAA
*
47527915 CTATCTTTAACCAATAGTTATTCTAAACAACAA
1 TTAT-TTTAA-CAA-AGTTATTCTAAAC-ACAA
47527948 TTATTTTAA
1 TTATTTTAA
47527957 ATAATAGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 5 0.15
31 6 0.18
32 17 0.50
33 6 0.18
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (29 bp):
TTATTTTAACAAAGTTATTCTAAACACAA
Found at i:47530248 original size:30 final size:30
Alignment explanation
Indices: 47530184--47530280 Score: 158
Period size: 30 Copynumber: 3.2 Consensus size: 30
47530174 GTTTAAATAC
*
47530184 ATAAACCTATACCCTTCCCAGCATATGCTTAT
1 ATAAACCTATACCCTTCCCAGC--ATGCTCAT
*
47530216 ATAAACTTATACCCTTCCCAGCATGCTCAT
1 ATAAACCTATACCCTTCCCAGCATGCTCAT
47530246 ATAAACCTATACCCTTCCCAGCATGCTCAT
1 ATAAACCTATACCCTTCCCAGCATGCTCAT
47530276 ATAAA
1 ATAAA
47530281 ACTTCAAACC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
30 41 0.66
32 21 0.34
ACGTcount: A:0.33, C:0.32, G:0.06, T:0.29
Consensus pattern (30 bp):
ATAAACCTATACCCTTCCCAGCATGCTCAT
Found at i:47530736 original size:134 final size:127
Alignment explanation
Indices: 47530598--47530866 Score: 376
Period size: 134 Copynumber: 2.1 Consensus size: 127
47530588 TAAAAATAGT
*
47530598 AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAAGAAGTAAAAACAGACA
1 AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTAC---AAAAA-AAGTAAAAACAAACA
* *
47530663 AACCCATTTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTACAAAGAGCTAAGAA
62 AACCCATTTAAA-TTGAACTGAAAGAACACAAAAGCAAAGACCGTAATTT--AAAGAACTAAGAA
47530728 CAAC
124 CAAC
* * *
47530732 AAAATCAACAAAAGGGGCAATCAATAAGAATCAAATAGTACAGAAAAAGTAAAAACAAACAAACC
1 AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAAAAACAAACAAACC
* ** *
47530797 CATTTTAATTGAACTGAAAGAACACAAAAGTGAAGACCGTAGTTTAAAGAACTAAGAACAAC
66 CATTTAAATTGAACTGAAAGAACACAAAAGCAAAGACCGTAATTTAAAGAACTAAGAACAAC
*
47530859 TAAATCAA
1 AAAATCAA
47530867 TCAATAAGAA
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
127 23 0.19
129 33 0.27
130 25 0.20
131 4 0.03
134 39 0.31
ACGTcount: A:0.57, C:0.15, G:0.13, T:0.15
Consensus pattern (127 bp):
AAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAAGTAAAAACAAACAAACC
CATTTAAATTGAACTGAAAGAACACAAAAGCAAAGACCGTAATTTAAAGAACTAAGAACAAC
Found at i:47538884 original size:17 final size:18
Alignment explanation
Indices: 47538864--47538900 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47538854 AATCAAAATT
*
47538864 TATTTTATATGAA-TTAA
1 TATTTTATATAAACTTAA
47538881 TATTTTATATAAACTTAA
1 TATTTTATATAAACTTAA
47538899 TA
1 TA
47538901 ATAATAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TATTTTATATAAACTTAA
Found at i:47548805 original size:18 final size:18
Alignment explanation
Indices: 47548784--47548839 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
47548774 CTTTTTTTCT
47548784 CTCACAATGTTTTTGATC
1 CTCACAATGTTTTTGATC
* *
47548802 CTCACTAT-ATTTTG-T-
1 CTCACAATGTTTTTGATC
* *
47548817 TTCAAAATGTTTTTGATC
1 CTCACAATGTTTTTGATC
47548835 CTCAC
1 CTCAC
47548840 TATAGTTTCT
Statistics
Matches: 27, Mismatches: 8, Indels: 6
0.66 0.20 0.15
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 6 0.22
18 10 0.37
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.46
Consensus pattern (18 bp):
CTCACAATGTTTTTGATC
Found at i:47548826 original size:33 final size:33
Alignment explanation
Indices: 47548779--47548852 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
47548769 TTTTTCTTTT
* * *
47548779 TTTCTCTCACAATGTTTTTGATCCTCACTATAT
1 TTTCTTTCAAAATGTTTTTGATCCTCACTATAG
*
47548812 TTTGTTTCAAAATGTTTTTGATCCTCACTATAG
1 TTTCTTTCAAAATGTTTTTGATCCTCACTATAG
47548845 TTTCTTTC
1 TTTCTTTC
47548853 TTTCACATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (33 bp):
TTTCTTTCAAAATGTTTTTGATCCTCACTATAG
Found at i:47550028 original size:26 final size:27
Alignment explanation
Indices: 47549969--47550036 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
47549959 ATGAGAGTAA
*
47549969 TTTTATTTTAGATATTTATGTAATTTTGT
1 TTTTA-TTTATAT-TTTATGTAATTTTGT
47549998 TTTTATTT-TATTTTATGT-ATTTAT-T
1 TTTTATTTATATTTTATGTAATTT-TGT
47550023 TATTTATTTATATT
1 T-TTTATTTATATT
47550037 ATTTTAGTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 6 0.17
26 15 0.43
27 6 0.17
28 3 0.09
29 5 0.14
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (27 bp):
TTTTATTTATATTTTATGTAATTTTGT
Found at i:47554521 original size:43 final size:42
Alignment explanation
Indices: 47554364--47554522 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
47554354 TATGTGTTAT
*
47554364 CGTGTAAGACCACGTCTGGGACGTTGGCATCAACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTT-TGA-TTA
* * *
47554408 CGTGTAAGACCACGTCTAGGACATTGGCATCGTAC-TTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTTGATTA
**
47554450 CGTGTAAGACCTTGTCTGGGACAG-TGGCATCGACATTTGATTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAC-TTTGATTA
* * *
47554493 CATGTAAGACCACATCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
47554523 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 30 0.31
43 32 0.33
44 30 0.31
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTTGATTA
Found at i:47559308 original size:29 final size:29
Alignment explanation
Indices: 47559266--47559322 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
47559256 TTATGGGCTC
47559266 ATTTATTTTATCTACTGAAGTAAGTTGTT
1 ATTTATTTTATCTACTGAAGTAAGTTGTT
47559295 ATTTATTTTATCTACTGAAGTAAGTTGT
1 ATTTATTTTATCTACTGAAGTAAGTTGT
47559323 CTTTCCCGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (29 bp):
ATTTATTTTATCTACTGAAGTAAGTTGTT
Found at i:47561175 original size:34 final size:34
Alignment explanation
Indices: 47561137--47561203 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
47561127 CGTAAGTAAA
*
47561137 TGGATAATCATCCTCACAATTGGCTTTTGTATAG
1 TGGATAATCATCATCACAATTGGCTTTTGTATAG
47561171 TGGATAATCATCATCACAATTGGCTTTTGTATA
1 TGGATAATCATCATCACAATTGGCTTTTGTATA
47561204 TAAATACTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (34 bp):
TGGATAATCATCATCACAATTGGCTTTTGTATAG
Found at i:47566161 original size:17 final size:17
Alignment explanation
Indices: 47566135--47566175 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
47566125 ATTGGAGAAA
* *
47566135 TTGTGACACAAAAGGCC
1 TTGTGGCACAAAAAGCC
*
47566152 TTGTGGCACAAAAAGCT
1 TTGTGGCACAAAAAGCC
47566169 TTGTGGC
1 TTGTGGC
47566176 TTAGTGGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (17 bp):
TTGTGGCACAAAAAGCC
Found at i:47566774 original size:27 final size:27
Alignment explanation
Indices: 47566751--47567037 Score: 358
Period size: 27 Copynumber: 10.6 Consensus size: 27
47566741 TTAGTTTACC
**
47566751 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
47566778 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47566805 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
47566832 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47566859 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
47566886 AAATTACTAAAATACCCATTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
47566913 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
47566940 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
47566967 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
47566994 AAATTACCAAAATACCCATGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
47567021 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
47567038 TCGACCTATA
Statistics
Matches: 224, Mismatches: 36, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 224 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:47566816 original size:54 final size:54
Alignment explanation
Indices: 47566751--47567009 Score: 394
Period size: 54 Copynumber: 4.8 Consensus size: 54
47566741 TTAGTTTACC
** * *
47566751 AAATTACCAAAATACCTTTGGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
* * *
47566805 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
*
47566859 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCATT-GTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCATTGGTTTATA
** *
47566913 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
*
47566967 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACC
47567010 CATGATTTGT
Statistics
Matches: 189, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
53 3 0.02
54 181 0.96
55 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTGGTTTATA
Found at i:47567050 original size:81 final size:80
Alignment explanation
Indices: 47566751--47567098 Score: 301
Period size: 81 Copynumber: 4.3 Consensus size: 80
47566741 TTAGTTTACC
** * * ** * * *
47566751 AAATTACCAAAATACCTTTGGTTTGTAAAATTACTAAAATACCATTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCATGATTTGTAAAATTACCAAAATACC-CCGATTTATAAAATTATCAAA
*
47566816 ATACCCCTGGTTTGTA
65 ATACCCCTAGTTTGTA
* ** * *
47566832 AAATTACCAAAATA-CCATTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-CTA
1 AAATTACCAAAATACCCA-TGATTTGTAAAATTACCAAAATACCCCGA-TTTATAAAATTATC-A
* * *
47566895 AAATACCCATTGTTTATA
63 AAATACCCCTAGTTTGTA
* * *
47566913 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCCATGA-TTTGTAAAATTACCAAAATACCCC-GATTTATAAAATTATCAA
47566977 AATACCCCTAGTTTGTA
64 AATACCCCTAGTTTGTA
* ** ** **
47566994 AAATTACCAAAATACCCATGATTTGTGAAATTACTGAAATACCCTCGACCTATAAAATTATTGAA
1 AAATTACCAAAATACCCATGATTTGTAAAATTACCAAAATACCC-CGATTTATAAAATTATCAAA
**
47567059 ATA-CCCTCAACTTGTA
65 ATACCCCT-AGTTTGTA
*
47567075 AAATTACCAAAGTA-CCATTGATTT
1 AAATTACCAAAATACCCA-TGATTT
47567099 ACAGAATTAC
Statistics
Matches: 220, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
80 9 0.04
81 206 0.94
82 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCCATGATTTGTAAAATTACCAAAATACCCCGATTTATAAAATTATCAAAA
TACCCCTAGTTTGTA
Found at i:47567051 original size:27 final size:27
Alignment explanation
Indices: 47567021--47567081 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
47567011 ATGATTTGTG
*
47567021 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCAACCTATA
* * *
47567048 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCAACCTATA
47567075 AAATTAC
1 AAATTAC
47567082 CAAAGTACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAACCTATA
Found at i:47567144 original size:27 final size:26
Alignment explanation
Indices: 47567021--47567146 Score: 63
Period size: 27 Copynumber: 4.7 Consensus size: 26
47567011 ATGATTTGTG
* * *
47567021 AAATTACTGAAATACCCTCGACCTATA
1 AAATTAC-GAAATACCCTCAACTTACA
* **
47567048 AAATTATTGAAATACCCTCAACTTGTA
1 AAATTA-CGAAATACCCTCAACTTACA
* * ** *
47567075 AAATTACCAAAGTACCATTGATTTACA
1 AAATTACGAAA-TACCCTCAACTTACA
* *** *
47567102 GAATTACCGTTTTACCCTCAATTTACA
1 AAATTA-CGAAATACCCTCAACTTACA
47567129 AAATTATCGAAATACCCT
1 AAATTA-CGAAATACCCT
47567147 TGTAGGGTAG
Statistics
Matches: 71, Mismatches: 25, Indels: 6
0.70 0.25 0.06
Matches are distributed among these distances:
26 3 0.04
27 67 0.94
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATTACGAAATACCCTCAACTTACA
Found at i:47567168 original size:27 final size:27
Alignment explanation
Indices: 47567138--47567353 Score: 229
Period size: 27 Copynumber: 8.0 Consensus size: 27
47567128 AAAATTATCG
*
47567138 AAATACCCTTGTAGGGTAGAAATGCCA
1 AAATACCCTTGTAGGGTAGAAATACCA
47567165 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTTGTAGGGTAGAAATACCA
* * *
47567192 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAAATACCA
* * *
47567219 AAACACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCA
* *
47567246 AAATACCCTTGTAGAGTAGAAATACCT
1 AAATACCCTTGTAGGGTAGAAATACCA
* * * **
47567273 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAAATACCA
* * *
47567300 AAATACTCC-TGTAAGGTAGAATTACCG
1 AAATAC-CCTTGTAGGGTAGAAATACCA
* *
47567327 AGATACCCTTGTGGGGTA-AAATTACCA
1 AAATACCCTTGTAGGGTAGAAA-TACCA
47567354 TTTTACCCCT
Statistics
Matches: 160, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 154 0.96
28 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAAATACCA
Found at i:47567288 original size:81 final size:81
Alignment explanation
Indices: 47567142--47567338 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
47567132 TTATCGAAAT
* * * * *
47567142 ACCCTTGTAGGGTAGAAATGCCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGG
1 ACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGAGTAGAAATACCAAAATACCCCTATAGG
47567207 GTAGAATTACTAAAAC
66 GTAGAATTACTAAAAC
*
47567223 ACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGAGTAGAAATACCTAAATACCCCTATAGG
1 ACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGAGTAGAAATACCAAAATACCCCTATAGG
* *
47567288 GTAGAATTACTGAAAT
66 GTAGAATTACTAAAAC
* *
47567304 ACTCC-TGTAAGGTAGAATTACCGAGATACCCTTGT
1 AC-CCTTGTAGGGTAGAATTACCGAAATACCCTTGT
47567339 GGGGTAAAAT
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
81 103 0.98
82 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
ACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGAGTAGAAATACCAAAATACCCCTATAGG
GTAGAATTACTAAAAC
Found at i:47567361 original size:81 final size:81
Alignment explanation
Indices: 47567142--47567364 Score: 272
Period size: 81 Copynumber: 2.8 Consensus size: 81
47567132 TTATCGAAAT
* * * * * *
47567142 ACCCTTGTAGGGTAGAAATGCCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGG
1 ACCCTTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCATAATACCCCTATAGG
47567207 GTAGAATTACTAAAAC
66 GTAGAATTACTAAAAC
* *
47567223 ACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGAGTAGAAATACC-TAAATACCCCTATAG
1 ACCCTTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCAT-AATACCCCTATAG
* *
47567287 GGTAGAATTACTGAAAT
65 GGTAGAATTACTAAAAC
* * **
47567304 ACTCC-TGTAAGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAATTACCATTTTACCCCTA
1 AC-CCTTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA-TACCATAATACCCCTA
47567365 GGGTGTTAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.02
81 118 0.95
82 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
ACCCTTGTAAGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCATAATACCCCTATAGG
GTAGAATTACTAAAAC
Found at i:47567833 original size:31 final size:31
Alignment explanation
Indices: 47567798--47567876 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
47567788 TTGCATTCAC
* * *
47567798 ATTCTGATTTTGATTCTGTTACCTTATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
47567829 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
47567860 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
47567877 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:47567837 original size:6 final size:6
Alignment explanation
Indices: 47567798--47567885 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
47567788 TTGCATTCAC
* * * *
47567798 ATTCTG ATTTTG ATTCTG -TTACCTT ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
47567847 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
47567886 AATGTTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:47567846 original size:12 final size:12
Alignment explanation
Indices: 47567829--47567885 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
47567819 CCTTATACTG
47567829 ATTCTGATTCTA
1 ATTCTGATTCTA
*
47567841 ATTCTG-TCACCTA
1 ATTCTGAT--TCTA
*
47567854 ATTCTGATTCTG
1 ATTCTGATTCTA
47567866 ATTCTGATTCTA
1 ATTCTGATTCTA
*
47567878 GTTCTGAT
1 ATTCTGAT
47567886 AATGTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
11 1 0.03
12 26 0.70
13 9 0.24
14 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:47571818 original size:46 final size:44
Alignment explanation
Indices: 47571729--47571945 Score: 152
Period size: 46 Copynumber: 4.7 Consensus size: 44
47571719 GGGGTAAGGT
*
47571729 GCCAATGCCATGTCCCAGACATGGTCTTGCACTAACACATCTCGTA-
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCG-AG
* * *
47571775 GCCAATGCATGTCTCAGACATGTCTTACACTGACTTACGTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAAC--ACATCTCGAG
* * * * *
47571821 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTA--ACACATCTCGAG
** * * * * *
47571867 GCTGATGCCATGTCCCAGACATGGTGTTACACT-GCTCTTATAAT-GTG
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAACAC--AT-CTCGAG
*
47571914 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCAATGCATGTCCCAGACATGTCTTACACTA
47571946 GTTCACAATA
Statistics
Matches: 140, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 26 0.19
46 70 0.50
47 21 0.15
48 12 0.09
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAACACATCTCGAG
Found at i:47574718 original size:11 final size:11
Alignment explanation
Indices: 47574704--47574779 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
47574694 GATAATTACT
47574704 TTAATATTAAA
1 TTAATATTAAA
47574715 TTAATA--AAA
1 TTAATATTAAA
*
47574724 -TACTATTAAGA
1 TTAATATTAA-A
* *
47574735 TAAATATTAAC
1 TTAATATTAAA
*
47574746 TTAAAATTAATA
1 TTAATATTAA-A
47574758 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
47574771 ATAATATTA
1 TTAATATTA
47574780 TTTTTGAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 20 0.41
12 11 0.22
13 4 0.08
14 5 0.10
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:47574732 original size:25 final size:26
Alignment explanation
Indices: 47574678--47574732 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
47574668 ACAAACACTA
*
47574678 ATTAAATTAAAATTAAGATAATTACT
1 ATTAAATTAAAATTAAGATAAATACT
*
47574704 -TTAATATT-AAATTAATA-AAATACT
1 ATTAA-ATTAAAATTAAGATAAATACT
47574728 ATTAA
1 ATTAA
47574733 GATAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 6 0.24
25 16 0.64
26 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
ATTAAATTAAAATTAAGATAAATACT
Found at i:47574777 original size:19 final size:19
Alignment explanation
Indices: 47574725--47574779 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 19
47574715 TTAATAAAAT
*
47574725 ACTATTAAGATAAATATT-A
1 ACTATTAAAAT-AATATTAA
47574744 AC--TTAAAATTAATATTAA
1 ACTATTAAAA-TAATATTAA
47574762 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
47574780 TTTTTGAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
19 10 0.32
20 6 0.19
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (19 bp):
ACTATTAAAATAATATTAA
Found at i:47575197 original size:14 final size:13
Alignment explanation
Indices: 47575166--47575199 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
47575156 TGTGTGACTT
47575166 TAAAAATAATTTC
1 TAAAAATAATTTC
47575179 TAAAAATAATTTC
1 TAAAAATAATTTC
47575192 TAAAAATA
1 TAAAAATA
47575200 TCATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAAAATAATTTC
Found at i:47581834 original size:2 final size:2
Alignment explanation
Indices: 47581829--47581854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47581819 CCTATATATA
47581829 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
47581855 AGAGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:47583114 original size:25 final size:25
Alignment explanation
Indices: 47583069--47583116 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
47583059 TATTATTAGC
**
47583069 TATTAATAAAATTGTATAATAAATA
1 TATTAATAAAATAATATAATAAATA
47583094 TATTGAATAAAATAATA-AATAAA
1 TATT-AATAAAATAATATAATAAA
47583117 GTTTTGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TATTAATAAAATAATATAATAAATA
Found at i:47585218 original size:16 final size:16
Alignment explanation
Indices: 47585199--47585231 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47585189 AATGTTATCA
47585199 GCATTACTTGTTTTGG
1 GCATTACTTGTTTTGG
47585215 GCATTACTTGTTTTGG
1 GCATTACTTGTTTTGG
47585231 G
1 G
47585232 AATAAGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.27, T:0.48
Consensus pattern (16 bp):
GCATTACTTGTTTTGG
Found at i:47587832 original size:46 final size:46
Alignment explanation
Indices: 47587513--47587825 Score: 448
Period size: 46 Copynumber: 6.8 Consensus size: 46
47587503 TTCGACATGA
* * * * * *
47587513 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** *** *
47587559 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGT
*
47587606 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47587652 TGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47587698 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
47587744 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
47587790 TGCCATGGTATCTTTCAACCATAGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
47587826 TCTATCATAG
Statistics
Matches: 246, Mismatches: 19, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
45 3 0.01
46 204 0.83
47 39 0.16
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:47589885 original size:11 final size:11
Alignment explanation
Indices: 47589869--47589920 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
47589859 TATACTAAAT
47589869 AAATAATAATA
1 AAATAATAATA
*
47589880 AAATAAT-ATT
1 AAATAATAATA
* *
47589890 AAATATCTCATA
1 AAATA-ATAATA
*
47589902 AAATATTAATA
1 AAATAATAATA
47589913 AAATAATA
1 AAATAATA
47589921 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:47597553 original size:6 final size:6
Alignment explanation
Indices: 47597542--47597580 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
47597532 GGCCACACAG
47597542 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATA
1 ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATAGAT ATA
47597581 TATAAACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATAGAT
Found at i:47603237 original size:48 final size:48
Alignment explanation
Indices: 47603148--47603241 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
47603138 ACTCTAATGT
* * ** *
47603148 ATCTAATTTATATTACAAAGTTTCTTCCTCGTTTTAATGTTGCAATTC
1 ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAATTC
* *
47603196 ATCTAATTTAAATTATAAAGTTTATTCCAAGTTCTAGTGTTGCAAT
1 ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAAT
47603242 AAATTTCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (48 bp):
ATCTAATTTAAATTACAAAGTTTATTCCAAGTTCTAATGTTGCAATTC
Found at i:47603781 original size:24 final size:24
Alignment explanation
Indices: 47603736--47603781 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
47603726 CCGCTTGGGC
* *
47603736 TCAGACTCTGGCTCTAGTTCGGAT
1 TCAGACTCGGGCTCTAGCTCGGAT
* *
47603760 TCAGGCTCGGGCTCTGGCTCGG
1 TCAGACTCGGGCTCTAGCTCGG
47603782 CTGTCCCAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.11, C:0.28, G:0.33, T:0.28
Consensus pattern (24 bp):
TCAGACTCGGGCTCTAGCTCGGAT
Found at i:47608477 original size:21 final size:21
Alignment explanation
Indices: 47608447--47608496 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
47608437 CAACTCCAAG
*
47608447 TCATGCGTTGGATAATTTGCC
1 TCATGTGTTGGATAATTTGCC
*
47608468 TCATGTGTTGGATAATTTGTC
1 TCATGTGTTGGATAATTTGCC
47608489 TCATGTGT
1 TCATGTGT
47608497 CTTAAGCTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.44
Consensus pattern (21 bp):
TCATGTGTTGGATAATTTGCC
Found at i:47614969 original size:14 final size:13
Alignment explanation
Indices: 47614952--47614991 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
47614942 ACAATAAATT
47614952 TTACAATAAATACA
1 TTACAA-AAATACA
*
47614966 TTACAAAAATTTCA
1 TTACAAAAA-TACA
47614980 TTACAAAAATAC
1 TTACAAAAATAC
47614992 TATACAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TTACAAAAATACA
Found at i:47617263 original size:2 final size:2
Alignment explanation
Indices: 47617251--47617280 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
47617241 TTTATAAGTA
47617251 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47617281 AAGAAAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47618368 original size:19 final size:18
Alignment explanation
Indices: 47618344--47618402 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
47618334 TAAATTTTAA
47618344 AATTTTTATAAATATTTTT
1 AATTTTTA-AAATATTTTT
* *
47618363 AATTTTAAAAAAATATTTTA
1 AATTTT--TAAAATATTTTT
47618383 AATTTTTGAAAACTATTTTT
1 AATTTTT-AAAA-TATTTTT
47618403 TTTGTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 10 0.31
20 21 0.66
21 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTTTAAAATATTTTT
Found at i:47618376 original size:20 final size:20
Alignment explanation
Indices: 47618353--47618402 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
47618343 AAATTTTTAT
47618353 AAATATTTTTAATTTTAAAA
1 AAATATTTTTAATTTTAAAA
* **
47618373 AAATATTTTAAATTTTTGAA
1 AAATATTTTTAATTTTAAAA
*
47618393 AACTATTTTT
1 AAATATTTTT
47618403 TTTGTAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATATTTTTAATTTTAAAA
Found at i:47628576 original size:44 final size:44
Alignment explanation
Indices: 47628513--47628602 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
47628503 GATGAGACCG
47628513 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
1 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
47628557 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
1 AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
47628601 AG
1 AG
47628603 GCTTATTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (44 bp):
AGAGAATATTCTTAGCTAAGGGTGACAAACAATATAATTGGTAT
Found at i:47631461 original size:19 final size:21
Alignment explanation
Indices: 47631439--47631481 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
47631429 AATTTTAACA
47631439 TTAAAAG-TAATTTTAA-ATT
1 TTAAAAGATAATTTTAATATT
* *
47631458 TTAAATGATATTTTTAATATT
1 TTAAAAGATAATTTTAATATT
47631479 TTA
1 TTA
47631482 TTGAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTAAAAGATAATTTTAATATT
Found at i:47632323 original size:28 final size:29
Alignment explanation
Indices: 47632292--47632354 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
47632282 CTTTTTGGGC
*
47632292 TAAATTAGCCATATATGCCTTTATTTTT-
1 TAAATTAGCCATATAAGCCTTTATTTTTG
* * *
47632320 TAAATTAGCCTTATAAGTCTTTTTTTTTG
1 TAAATTAGCCATATAAGCCTTTATTTTTG
47632349 TAAATT
1 TAAATT
47632355 TAAAGAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (29 bp):
TAAATTAGCCATATAAGCCTTTATTTTTG
Found at i:47637581 original size:121 final size:121
Alignment explanation
Indices: 47637400--47637627 Score: 318
Period size: 121 Copynumber: 1.9 Consensus size: 121
47637390 ACTCAACCAC
* *
47637400 AATAACAATGAGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCAATTTAACAC
1 AATAACAATGAGAATGAAAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACAC
* * *
47637465 AGAATGTATGATAACTAACTTAGGAATGCAAATTAAATGATATACATTGGTATGGT
66 AAAATGTATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGT
* * ** *
47637521 AATAAC-ATGAGAAT-AAACATAGTAATGTCA-GGGTATGAGGTGTTCCTAATAACTTGATTTAT
1 AATAACAATGAGAATGAAA-ATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAA
47637583 CACAAAATGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
63 CACAAAATGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
47637628 GAAAAATGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
119 21 0.22
120 18 0.19
121 55 0.59
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.30
Consensus pattern (121 bp):
AATAACAATGAGAATGAAAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACAC
AAAATGTATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGT
Found at i:47657845 original size:26 final size:26
Alignment explanation
Indices: 47657808--47657857 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
47657798 AAAATTCAAA
47657808 ATTTTTATAAAAATT-TCAAAATTTAT
1 ATTTTTATAAAAATTAT-AAAATTTAT
47657834 ATTTTCTA-AAAAATTATAAAATTT
1 ATTTT-TATAAAAATTATAAAATTT
47657858 TCAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTTTATAAAAATTATAAAATTTAT
Found at i:47662559 original size:21 final size:21
Alignment explanation
Indices: 47662533--47662572 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47662523 ATCTGCTCAA
* *
47662533 ACTCCACCTGTTTTAGAGTAC
1 ACTCCACCTGCTGTAGAGTAC
47662554 ACTCCACCTGCTGTAGAGT
1 ACTCCACCTGCTGTAGAGT
47662573 GTCGCTTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
ACTCCACCTGCTGTAGAGTAC
Found at i:47671261 original size:41 final size:41
Alignment explanation
Indices: 47671216--47671384 Score: 130
Period size: 41 Copynumber: 4.1 Consensus size: 41
47671206 GCACAAACAT
*
47671216 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATTAGCACTGGCTCAAAAGC
* * * * *
47671257 CCTTC-GAGACCAAGCTCGGATTAGT-CCACTGGCTCAAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATTAGCACTGGCTCAAAAGC
* * * **
47671298 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTTTAAAGC
1 CCTTCGGAACTAAGCCCGATTATTAGCACTGGCTCAAAAGC
* **** *
47671338 CCTTCGAAACTAATTTTGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATTAGCACTGGCTCAAAAGC
47671379 CCTTCG
1 CCTTCG
47671385 AGACCAAGCT
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
40 39 0.39
41 53 0.53
42 8 0.08
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATTAGCACTGGCTCAAAAGC
Found at i:47671385 original size:41 final size:41
Alignment explanation
Indices: 47671238--47671385 Score: 158
Period size: 41 Copynumber: 3.6 Consensus size: 41
47671228 AGCCCGATTC
* * *
47671238 TTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * *
47671277 TTAGTCCACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTA
1 TTAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* ** * *
47671320 TGA-CACTGGCTTTAAAGCCCTTCGAAACTAATTTTGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
47671360 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
47671386 GACCAAGCTC
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.05
40 32 0.37
41 48 0.55
43 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:47673207 original size:24 final size:24
Alignment explanation
Indices: 47673176--47673221 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47673166 AACTTTACCA
47673176 AGAGATTTATGTACAAATCTAATG
1 AGAGATTTATGTACAAATCTAATG
47673200 AGAGATTTATGTACAAATCTAA
1 AGAGATTTATGTACAAATCTAA
47673222 ACCTCCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (24 bp):
AGAGATTTATGTACAAATCTAATG
Found at i:47675927 original size:19 final size:20
Alignment explanation
Indices: 47675894--47675931 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
47675884 CTTATTTACG
47675894 TTTGAAAATTTTGATATGGC
1 TTTGAAAATTTTGATATGGC
47675914 TTTGAAAA-TTTGATATGG
1 TTTGAAAATTTTGATATGG
47675932 TGGGTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (20 bp):
TTTGAAAATTTTGATATGGC
Found at i:47689951 original size:49 final size:49
Alignment explanation
Indices: 47689888--47690015 Score: 211
Period size: 49 Copynumber: 2.6 Consensus size: 49
47689878 GCACTTTAAA
** * *
47689888 GTCGATGCCGTGTCCCAGGCAGGCCTTACACTGGCTCTTATCTATCGGT
1 GTCGATGCTATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGT
*
47689937 GTCGATGCTATGTCCCAAACAGGTCTTACACTGGCTCTTATCTATCGGT
1 GTCGATGCTATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGT
47689986 GTCGATGCTATGTCCCAGACAGGTCTTACA
1 GTCGATGCTATGTCCCAGACAGGTCTTACA
47690016 TTGACACCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (49 bp):
GTCGATGCTATGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGGT
Found at i:47696927 original size:49 final size:48
Alignment explanation
Indices: 47696865--47697086 Score: 174
Period size: 49 Copynumber: 4.7 Consensus size: 48
47696855 GTTAAGTTGT
* *
47696865 CGATGCCAAGTCCCAGACATGGTCTTACACTGGCTATCTTCATCGAGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATCTTAATCGAGGC
* * * *
47696914 CGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTGT-AT-AAGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTATC-T-TAATCGAG-GC
* * * * *
47696964 TGATGCATGTCCCAGACAT-GTCTTATACTGGC-A-C-GAAGCTTA-GC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATC-GAGGC
* * *
47697008 CGATGCATGTCCCAGACATGGTTTTACACTGGCTATCGTAAT-GTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATCGAGGC
* * *
47697055 TGATGCATGTCCCAGACA-CGTCTTACATTGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGC
47697087 ACTCATCTCT
Statistics
Matches: 138, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
44 21 0.15
45 11 0.08
46 14 0.10
47 20 0.14
48 13 0.09
49 49 0.36
50 9 0.07
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATCGAGGC
Found at i:47697014 original size:44 final size:44
Alignment explanation
Indices: 47696965--47697117 Score: 139
Period size: 47 Copynumber: 3.3 Consensus size: 44
47696955 TATAAGTGCT
*
47696965 GATGCATGTCCCAGACATGTCTTATACTGGCACGAAGCT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACGAA-CTCTAGCC
* * * *
47697009 GATGCATGTCCCAGACATGGTTTTACACTGGCTATCGTAA-TGTGGCT
1 GATGCATGTCCCAGACAT-GTCTTACACTGGC-A-CG-AACTCTAGCC
* * * *
47697056 GATGCATGTCCCAGACACGTCTTACATTGGCACTCATCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-GAACTCTA-GCC
47697102 GATGCCATGTCCCAGA
1 GATG-CATGTCCCAGA
47697118 TACTCAGTTC
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
44 20 0.23
45 14 0.16
46 19 0.22
47 33 0.38
48 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACGAACTCTAGCC
Found at i:47697078 original size:91 final size:95
Alignment explanation
Indices: 47696912--47697117 Score: 260
Period size: 91 Copynumber: 2.2 Consensus size: 95
47696902 CTTCATCGAG
* *
47696912 GCCGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCGTGTATAAGTGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCG-GTATAAGTGCTGATGCATGTCCC
* *
47696977 AGACATGTCTTATACTGGCACGAAGCT-TA-
65 AGACACGTCTTACACTGGCACGAAGCTCTAC
* * *
47697006 GCCGATG-CATGTCCCAGACATGGTTTTACACTGGCTATC-GTA-ATGTGGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGGTATAAGT-GCTGATGCATGTCCC
* ** *
47697068 AGACACGTCTTACATTGGCACTCATCTCTAC
65 AGACACGTCTTACACTGGCACGAAGCTCTAC
47697099 GCCGATGCCATGTCCCAGA
1 GCCGATGCCATGTCCCAGA
47697118 TACTCAGTTC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 3 0.03
91 39 0.40
92 2 0.02
93 35 0.36
94 18 0.19
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGGTATAAGTGCTGATGCATGTCCCA
GACACGTCTTACACTGGCACGAAGCTCTAC
Found at i:47716339 original size:25 final size:25
Alignment explanation
Indices: 47716305--47716354 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
47716295 GTCGTCCGTC
47716305 TTTGTGATGGATAACTTGATCACTA
1 TTTGTGATGGATAACTTGATCACTA
47716330 TTTGTGATGGATAACTTGATCACTA
1 TTTGTGATGGATAACTTGATCACTA
47716355 ATTGATAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
TTTGTGATGGATAACTTGATCACTA
Found at i:47717030 original size:27 final size:26
Alignment explanation
Indices: 47716972--47717035 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
47716962 ATGAATTTTC
* *
47716972 TCAAAATTTTATTGGGGGTAAAATCG
1 TCAAAATTTTATTGAGCGTAAAATCG
* * *
47716998 TTAAAAATTTATTGAAGCGTAAAATTG
1 TCAAAATTTTATTG-AGCGTAAAATCG
47717025 TCAAAATTTTA
1 TCAAAATTTTA
47717036 CTGGAGTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (26 bp):
TCAAAATTTTATTGAGCGTAAAATCG
Found at i:47731969 original size:35 final size:35
Alignment explanation
Indices: 47731930--47732001 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
47731920 TTTTAACTTA
* *
47731930 TACAATTTCTAAGTATCTTTTAGTTTTTCAAATTT
1 TACAATTTCTAAGTATCTTTTACTTTTCCAAATTT
* *
47731965 TACAATTTCTAAGTATTTTTTCCTTTTCCAAATTT
1 TACAATTTCTAAGTATCTTTTACTTTTCCAAATTT
47732000 TA
1 TA
47732002 AATATTGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.14, G:0.04, T:0.54
Consensus pattern (35 bp):
TACAATTTCTAAGTATCTTTTACTTTTCCAAATTT
Found at i:47732114 original size:27 final size:27
Alignment explanation
Indices: 47732024--47732115 Score: 64
Period size: 27 Copynumber: 3.4 Consensus size: 27
47732014 ATTTTGATTA
* ** *
47732024 TATATTCAAATTTTAATGAA-AAATAA
1 TATATTTAAATTTTAACAAATAAATAT
*
47732050 TATATTTAAA-TTT-ACATATTCAAATAT
1 TATATTTAAATTTTAACA-AAT-AAATAT
* ***
47732077 TGTACCAAAATTTTAACAAATAAATAT
1 TATATTTAAATTTTAACAAATAAATAT
47732104 TATATTTAAATT
1 TATATTTAAATT
47732116 AAATAACAAT
Statistics
Matches: 47, Mismatches: 14, Indels: 9
0.67 0.20 0.13
Matches are distributed among these distances:
24 1 0.02
25 4 0.09
26 9 0.19
27 25 0.53
28 5 0.11
29 3 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (27 bp):
TATATTTAAATTTTAACAAATAAATAT
Found at i:47732242 original size:26 final size:26
Alignment explanation
Indices: 47732211--47732268 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
47732201 TCTCCTTCCC
47732211 CCCTCTTCCACCCT-CTCCCT-TACTCT
1 CCCTCTTCC-CCCTCCTCCCTCT-CTCT
47732237 CCCTC-TCCCCCTCCCTCCCTCTCTCT
1 CCCTCTTCCCCCT-CCTCCCTCTCTCT
47732263 CCCTCT
1 CCCTCT
47732269 CCCGCTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
24 4 0.14
25 3 0.11
26 20 0.71
27 1 0.04
ACGTcount: A:0.03, C:0.64, G:0.00, T:0.33
Consensus pattern (26 bp):
CCCTCTTCCCCCTCCTCCCTCTCTCT
Found at i:47732254 original size:10 final size:10
Alignment explanation
Indices: 47732207--47732364 Score: 61
Period size: 10 Copynumber: 15.2 Consensus size: 10
47732197 TCTCTCTCCT
47732207 TCCC-CCCTC
1 TCCCTCCCTC
* *
47732216 TTCCACCCTC
1 TCCCTCCCTC
**
47732226 TCCCTTACTC
1 TCCCTCCCTC
*
47732236 TCCCTCTCCCCC
1 T-CC-CTCCCTC
47732248 TCCCTCCCTC
1 TCCCTCCCTC
*
47732258 TCTCTCCCTC
1 TCCCTCCCTC
* *
47732268 TCCCGCTTTCCTAT
1 T-CC-C-TCCCT-C
** *
47732282 TCTATCCATC
1 TCCCTCCCTC
47732292 TCTCC-CCCTC
1 TC-CCTCCCTC
*
47732302 TCTCTCCCTC
1 TCCCTCCCTC
* *
47732312 CCTCCTTCCTC
1 TC-CCTCCCTC
*
47732323 TCTCTCCCTC
1 TCCCTCCCTC
47732333 TCCCTCCCTC
1 TCCCTCCCTC
*
47732343 ACCC-CCCTC
1 TCCCTCCCTC
*
47732352 TCTCCCCCCTC
1 TC-CCTCCCTC
47732363 TC
1 TC
47732365 TCTCAAGATT
Statistics
Matches: 106, Mismatches: 31, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
9 10 0.09
10 62 0.58
11 22 0.21
12 6 0.06
13 5 0.05
14 1 0.01
ACGTcount: A:0.04, C:0.63, G:0.01, T:0.33
Consensus pattern (10 bp):
TCCCTCCCTC
Found at i:47732352 original size:27 final size:27
Alignment explanation
Indices: 47732303--47732357 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47732293 CTCCCCCTCT
* *
47732303 CTCTCCCTCCCTCCTTCCTCTCTCTCC
1 CTCTCCCTCCCTCCTCCCCCTCTCTCC
47732330 CTCTCCCTCCCTCAC-CCCCCTCTCTCC
1 CTCTCCCTCCCTC-CTCCCCCTCTCTCC
47732357 C
1 C
47732358 CCCTCTCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.02, C:0.67, G:0.00, T:0.31
Consensus pattern (27 bp):
CTCTCCCTCCCTCCTCCCCCTCTCTCC
Done.