Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 87 of 325
Found at i:27734392 original size:22 final size:22
Alignment explanation
Indices: 27734364--27734428 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27734354 GCAAATACGT
*
27734364 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
27734386 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
27734408 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
27734429 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:27734910 original size:27 final size:27
Alignment explanation
Indices: 27734871--27735366 Score: 653
Period size: 27 Copynumber: 18.6 Consensus size: 27
27734861 TACCACACAA
* * *
27734871 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
27734898 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27734925 AGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27734952 GGTATTTCGGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27734979 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
27735006 GGTATTGCGATAATTCTACCCTACTGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
27735033 GGTATTCCGGTAATTCTACCTTATTGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27735060 GGTATTTCGGTAATTCTACTCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27735087 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27735114 GGTATTTTGGCAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27735141 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
27735168 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27735195 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
27735222 GGTA-TTCTGGTAATTCTACCCTACAGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
27735249 GGTATTTCGGTAA-T-T---CTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27735271 GGTATTCCGGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
27735298 GGTATTCCGGTAATTCTGCCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
27735325 GGTATTCCAGTAGTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
27735352 GGTATTCCGGTAATT
1 GGTATTTCGGTAATT
27735367 TTATAAACAA
Statistics
Matches: 417, Mismatches: 45, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
22 19 0.05
23 1 0.00
24 1 0.00
25 1 0.00
26 4 0.01
27 388 0.93
28 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:27735409 original size:54 final size:54
Alignment explanation
Indices: 27735351--27735529 Score: 245
Period size: 54 Copynumber: 3.3 Consensus size: 54
27735341 TACCCTACAA
** * *
27735351 GGGTATTCCGGTAATTTTATAAACAATGGGTATTGTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACAATGGGTATTTTAGTAATTTTACAAACCAG
* *
27735405 GGGTATTTTGGTAATTTTGTAAACTAA-GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAAC-AATGGGTATTTTAGTAATTTTACAAACCAG
* * *
27735459 GGGTATTTTGGTGATTTTACAAACCAAT-GGTATTTTCGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAA-CAATGGGTATTTTAGTAATTTTACAAACCAG
27735513 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
27735530 GGTAAACTAA
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
54 108 0.97
55 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACAATGGGTATTTTAGTAATTTTACAAACCAG
Found at i:27735536 original size:27 final size:27
Alignment explanation
Indices: 27735351--27735529 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
27735341 TACCCTACAA
** * * *
27735351 GGGTATTCCGGTAATTTTATAAACAAT
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
27735378 GGGTATTGTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
27735405 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
27735432 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
27735459 GGGTATTTTGGTGATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
27735486 TGGTATTTTCGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
27735513 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
27735530 GGTAAACTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:27743006 original size:40 final size:40
Alignment explanation
Indices: 27742874--27743058 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
27742864 TTGAATGATG
* * * *
27742874 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27742914 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27742953 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27742993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27743034 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27743059 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 34 0.26
40 84 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27743010 original size:79 final size:81
Alignment explanation
Indices: 27742874--27743058 Score: 252
Period size: 79 Copynumber: 2.3 Consensus size: 81
27742864 TTGAATGATG
*
27742874 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27742938 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27742953 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
27743016 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
27743033 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27743059 AACGAGGAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 61 0.65
80 32 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27743080 original size:79 final size:79
Alignment explanation
Indices: 27742875--27743091 Score: 226
Period size: 79 Copynumber: 2.7 Consensus size: 79
27742865 TGAATGATGT
** * * * **
27742875 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
27742938 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
** * *
27742954 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTG
*
27743019 TGCGAGTTACTATAA
66 TGCGAGATACTA-AA
* * *
27743034 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
27743092 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 74 0.63
80 43 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:27750885 original size:79 final size:81
Alignment explanation
Indices: 27750749--27750933 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
27750739 TTGAATGATG
*
27750749 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27750813 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27750828 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27750890 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
27750908 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27750934 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27750947 original size:40 final size:40
Alignment explanation
Indices: 27750750--27750933 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
27750740 TGAATGATGT
* * * *
27750750 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
27750790 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
27750830 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27750868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27750909 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27750934 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:27750955 original size:79 final size:79
Alignment explanation
Indices: 27750750--27750966 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
27750740 TGAATGATGT
** * * * **
27750750 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
27750813 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
27750830 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
27750895 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
27750909 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
27750967 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:27753036 original size:16 final size:16
Alignment explanation
Indices: 27753015--27753045 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27753005 CACAAATGCT
27753015 GACTTTTCGGCTTTTC
1 GACTTTTCGGCTTTTC
27753031 GACTTTTCGGCTTTT
1 GACTTTTCGGCTTTT
27753046 GCCGATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.23, G:0.19, T:0.52
Consensus pattern (16 bp):
GACTTTTCGGCTTTTC
Found at i:27753847 original size:5 final size:5
Alignment explanation
Indices: 27753839--27753870 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
27753829 GTAGATGAAG
27753839 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
27753871 AATTGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:27753857 original size:15 final size:16
Alignment explanation
Indices: 27753815--27753870 Score: 71
Period size: 15 Copynumber: 3.6 Consensus size: 16
27753805 TATGGGGGAA
27753815 AAGAAGAAAAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
27753830 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
27753846 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
27753861 AAGAAGAAAA
1 AAGAAGAAAA
27753871 AATTGAATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:27753863 original size:25 final size:26
Alignment explanation
Indices: 27753818--27753870 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
27753808 GGGGGAAAAG
* *
27753818 AAGAAAAGAAAGTAGATGAAG-AGAA
1 AAGAAAAGAAAGTAAAAGAAGAAGAA
27753843 AAGAAAAGAAAAG-AAAAGAAGAAGAA
1 AAGAAAAG-AAAGTAAAAGAAGAAGAA
27753869 AA
1 AA
27753871 AATTGAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAGAAAAGAAAGTAAAAGAAGAAGAA
Found at i:27754647 original size:16 final size:16
Alignment explanation
Indices: 27754626--27754656 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27754616 CACAAATGCT
27754626 GACTTTTCGGCTTTTC
1 GACTTTTCGGCTTTTC
27754642 GACTTTTCGGCTTTT
1 GACTTTTCGGCTTTT
27754657 GCCGATCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.23, G:0.19, T:0.52
Consensus pattern (16 bp):
GACTTTTCGGCTTTTC
Found at i:27755458 original size:5 final size:5
Alignment explanation
Indices: 27755450--27755481 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
27755440 TTAGATGAAG
27755450 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
27755482 AATTGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:27755468 original size:15 final size:16
Alignment explanation
Indices: 27755426--27755481 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
27755416 TATGGGGGAA
*
27755426 AAGAAGAAAAG-AAAT
1 AAGAAGAAAAGAAAAG
* * *
27755441 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
27755457 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
27755472 AAGAAGAAAA
1 AAGAAGAAAA
27755482 AATTGAATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 21 0.66
16 11 0.34
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.05
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:27756481 original size:19 final size:18
Alignment explanation
Indices: 27756444--27756487 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
27756434 ATACTTACAG
27756444 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
27756461 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
27756480 TACTAATT
1 TAATAATT
27756488 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:27757232 original size:20 final size:20
Alignment explanation
Indices: 27757207--27757246 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27757197 CATGAGTTTT
27757207 GGCTTGTAGTTGTTGATATG
1 GGCTTGTAGTTGTTGATATG
27757227 GGCTTGTAGTTGTTGATATG
1 GGCTTGTAGTTGTTGATATG
27757247 TATGACCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.35, T:0.45
Consensus pattern (20 bp):
GGCTTGTAGTTGTTGATATG
Found at i:27758686 original size:24 final size:24
Alignment explanation
Indices: 27758659--27758704 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
27758649 CTTTAGAAGA
*
27758659 ATGTATCAAATGCATAGTATCTGG
1 ATGTATCAAATACATAGTATCTGG
*
27758683 ATGTATCAAATACGTAGTATCT
1 ATGTATCAAATACATAGTATCT
27758705 TTGCTTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (24 bp):
ATGTATCAAATACATAGTATCTGG
Found at i:27764165 original size:40 final size:41
Alignment explanation
Indices: 27764069--27764144 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
27764059 TGACTATGTT
27764069 TGGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACAAA
1 TGGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACAAA
*
27764109 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTA
1 TGGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTA
27764145 TATGAGGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACAAA
Found at i:27772510 original size:40 final size:41
Alignment explanation
Indices: 27772416--27772636 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
27772406 TATTCAAATG
* *
27772416 ATATCCCGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
27772457 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
27772497 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
27772537 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
27772577 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
27772616 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
27772637 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 16 0.10
40 95 0.61
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:27773832 original size:163 final size:163
Alignment explanation
Indices: 27773556--27773885 Score: 633
Period size: 163 Copynumber: 2.0 Consensus size: 163
27773546 TCTGACTTTG
27773556 GAAATCCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
1 GAAATCCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
27773621 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGAGAGATATCCAAGT
66 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGAGAGATATCCAAGT
*
27773686 CGTAATGCGCAAATGTCAGTATAGTCGAACCCT
131 CGTAATGCGCAAAGGTCAGTATAGTCGAACCCT
*
27773719 GAAATTCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
1 GAAATCCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
*
27773784 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGGGAGATATCCAAGT
66 GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGAGAGATATCCAAGT
27773849 CGTAATGCGCAAAGGTCAGTATAGTCGAACCCT
131 CGTAATGCGCAAAGGTCAGTATAGTCGAACCCT
27773882 GAAA
1 GAAA
27773886 CAGGGGAGAC
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (163 bp):
GAAATCCATTATAAATTAACCAGAGATAATTAGAAGTCATGTCATATATGTACAGGTTCCTTTTC
GAGTCTAGTTTCTATAGAAACAAACGGAATCAGTATTGAAGCCCTGTACAGAGAGATATCCAAGT
CGTAATGCGCAAAGGTCAGTATAGTCGAACCCT
Found at i:27780930 original size:39 final size:40
Alignment explanation
Indices: 27780830--27781012 Score: 237
Period size: 39 Copynumber: 4.6 Consensus size: 40
27780820 TATTCGAATG
* *
27780830 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
27780871 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
27780911 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
27780950 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
27780989 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
27781013 CTTGTGCAAG
Statistics
Matches: 121, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 68 0.56
40 23 0.19
41 29 0.24
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:27781003 original size:79 final size:81
Alignment explanation
Indices: 27780830--27781012 Score: 257
Period size: 79 Copynumber: 2.3 Consensus size: 81
27780820 TATTCGAATG
* * *
27780830 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
*
27780895 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* *
27780911 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* *
27780973 ATTTATGCTAG-TGACT
66 ATTCATGCGAGTTG-CT
27780989 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
27781013 CTTGTGCAAG
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
77 2 0.02
78 23 0.25
79 36 0.39
80 27 0.29
81 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:27781031 original size:39 final size:40
Alignment explanation
Indices: 27780830--27781048 Score: 218
Period size: 39 Copynumber: 5.5 Consensus size: 40
27780820 TATTCGAATG
* * *
27780830 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTGACT
* * * * *
27780871 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGACT
* *
27780911 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACT
* * *
27780950 ATATCCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACT
* *
27780989 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGA-CT
27781028 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
27781049 ATTACTTGAG
Statistics
Matches: 150, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
37 1 0.01
38 15 0.10
39 83 0.55
40 23 0.15
41 28 0.19
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACT
Found at i:27781031 original size:78 final size:79
Alignment explanation
Indices: 27780830--27781048 Score: 241
Period size: 78 Copynumber: 2.8 Consensus size: 79
27780820 TATTCGAATG
* * * * *
27780830 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTGACTATATCCGGGCTAAG-TCCGAAGGC
*
27780895 ATTCGTGCGAGTTGCT
64 ATTCATGCGAGTTGCT
* *
27780911 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCGAAGGCAT
* *
27780975 TTATGCTAG-TGACT
66 TCATGCGAGTTG-CT
* * *
27780989 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGT-AGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGA-CTATATCCGGGCTAAGT-CCGAAG
27781049 ATTACTTGAG
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 10 0.08
78 44 0.37
79 36 0.30
80 25 0.21
81 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCGAAGGCAT
TCATGCGAGTTGCT
Found at i:27782916 original size:24 final size:24
Alignment explanation
Indices: 27782878--27782973 Score: 120
Period size: 24 Copynumber: 3.8 Consensus size: 24
27782868 ACTGTGCTAT
*
27782878 GTGAAATAAGACCATGGCATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
* *
27782902 GTGAAACATGTCCATGGCAATGTGCTAA
1 GTGAAATAAGTCCATGGC-A--T-CTAA
*
27782930 GTGAAATAAGTCCATGGTATCTAA
1 GTGAAATAAGTCCATGGCATCTAA
27782954 GTGAAATAAGTCCATGGCAT
1 GTGAAATAAGTCCATGGCAT
27782974 TATGCTAAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
24 38 0.62
25 2 0.03
27 2 0.03
28 19 0.31
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (24 bp):
GTGAAATAAGTCCATGGCATCTAA
Found at i:27782934 original size:52 final size:52
Alignment explanation
Indices: 27782870--27782983 Score: 165
Period size: 52 Copynumber: 2.2 Consensus size: 52
27782860 GATATGATAC
* *
27782870 TGTGCTATGTGAAATAAGACCATGGCATCTAAGTGAAACATGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
* * * *
27782922 TGTGCTAAGTGAAATAAGTCCATGGTATCTAAGTGAAATAAGTCCATGGCAT
1 TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
*
27782974 TATGCTAAGT
1 TGTGCTAAGT
27782984 AAGAAATTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAACAAGTCCATGGCAA
Found at i:27783133 original size:50 final size:51
Alignment explanation
Indices: 27783009--27783155 Score: 253
Period size: 50 Copynumber: 2.9 Consensus size: 51
27782999 TGAACCTTAG
27783009 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
27783060 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC-TTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
27783110 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
27783156 CGTGTATCCA
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 1 0.01
50 46 0.50
51 45 0.49
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:27787264 original size:39 final size:40
Alignment explanation
Indices: 27787219--27787442 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
27787209 GCTCCTCGTT
* * * *
27787219 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
27787259 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
27787298 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
27787338 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
27787378 C-AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
27787418 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
27787443 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 4 0.03
39 52 0.34
40 91 0.59
41 8 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:27787308 original size:79 final size:77
Alignment explanation
Indices: 27787221--27787443 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 77
27787211 TCCTCGTTCA
* * * *
27787221 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGACT
27787286 TAATAACTCGCAC
66 T-ATAACTCGCAC
* * * *
27787299 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG-
* *
27787364 ACTTGTATCTCGCAC
63 ACTTATAACTCGCAC
* * * * * *
27787379 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGGA
27787443 C
64 C
27787444 AGCATTCAAT
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 5 0.04
79 78 0.65
80 34 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGACT
TATAACTCGCAC
Found at i:27793576 original size:27 final size:27
Alignment explanation
Indices: 27793546--27793857 Score: 376
Period size: 27 Copynumber: 11.6 Consensus size: 27
27793536 TTAGTTTACC
27793546 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
27793573 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27793600 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
27793627 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
27793654 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
27793681 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27793708 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
27793735 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
27793762 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* ***
27793789 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
27793816 AAATTATTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
27793843 AAATTACCAAAATAC
1 AAATTACCAAAATAC
27793858 TATTGATTTA
Statistics
Matches: 254, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
26 4 0.02
27 250 0.98
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:27793931 original size:27 final size:27
Alignment explanation
Indices: 27793898--27794128 Score: 282
Period size: 27 Copynumber: 8.6 Consensus size: 27
27793888 CGATTTACAA
* ** *
27793898 AATTACCGAAATACCTTTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* *
27793925 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * * *
27793952 AACTATCGTAATACCCCTATAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
27793979 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
27794006 AATTATCGAAATACCCCTATAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
* * *
27794033 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
27794060 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAG
** * *
27794087 AATTATTAAAATACCCCTGTATGGTGG
1 AATTATCGAAATACCCCTGTAGGGTAG
*
27794114 AATTATCGAGATACC
1 AATTATCGAAATACC
27794129 TTGTGGGGTA
Statistics
Matches: 175, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 175 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTATCGAAATACCCCTGTAGGGTAG
Found at i:27794625 original size:22 final size:22
Alignment explanation
Indices: 27794573--27794637 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
27794563 TTAAAGCCTT
* *
27794573 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
27794595 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
27794617 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
27794638 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:27794826 original size:27 final size:27
Alignment explanation
Indices: 27794796--27794890 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
27794786 ATTCTGTTAA
**
27794796 GTGGCTTTGCCACTTTATCTGTTTCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
*
27794823 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTTTGCCAC-AATATCTGTTTCTG
* *
27794850 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGTTTCTG
* *
27794877 GTGACTTTGTCACA
1 GTGGCTTTGCCACA
27794891 TTATATGATA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.14
27 44 0.76
28 6 0.10
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTTTGCCACAATATCTGTTTCTG
Found at i:27795065 original size:6 final size:6
Alignment explanation
Indices: 27795034--27795121 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
27795024 TTGCATTCAC
* *
27795034 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
27795083 -TCACTTG ATTCTG ATTCTG ATTATG ATTCT- AGTTCTG AT
1 AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
27795122 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:27795069 original size:31 final size:31
Alignment explanation
Indices: 27795034--27795112 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
27795024 TTGCATTCAC
* *
27795034 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTATGATTCTGTCACCTGATACTG
* * *
27795065 ATTCTGATTCTGATTCTGTCACTTGATTCTG
1 ATTCTGATTATGATTCTGTCACCTGATACTG
27795096 ATTCTGATTATGATTCT
1 ATTCTGATTATGATTCT
27795113 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTATGATTCTGTCACCTGATACTG
Found at i:27804704 original size:40 final size:40
Alignment explanation
Indices: 27804646--27804813 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
27804636 TCTTCAGGAT
* *
27804646 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
27804685 TTAGCCCGGATATAGCAACTCGGACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
27804725 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* ** *
27804765 ATAGCCCGGATATAGCAACTCGCATGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
27804805 TTAGTCCGG
1 TTAGCCCGG
27804814 TTATCATCCG
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.05
40 102 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:27811852 original size:40 final size:40
Alignment explanation
Indices: 27811794--27811955 Score: 220
Period size: 40 Copynumber: 4.1 Consensus size: 40
27811784 TCTTCAGGAT
*
27811794 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
27811833 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
27811873 TTAGCCCGAATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * *
27811913 ATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
27811953 TTA
1 TTA
27811956 TTCCGGTTAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:27819632 original size:25 final size:25
Alignment explanation
Indices: 27819604--27819681 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
27819594 CTCGGCCCTG
27819604 TCACATATATACACTTTGACATTCA
1 TCACATATATACACTTTGACATTCA
**** * * *
27819629 TCACAT-CGGCCA-TTAGGC-CTCA
1 TCACATATATACACTTTGACATTCA
*
27819651 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTGACATTCA
27819676 TCACAT
1 TCACAT
27819682 CGGCTATTAG
Statistics
Matches: 35, Mismatches: 15, Indels: 6
0.62 0.27 0.11
Matches are distributed among these distances:
22 9 0.26
23 6 0.17
24 5 0.14
25 15 0.43
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (25 bp):
TCACATATATACACTTTGACATTCA
Found at i:27819774 original size:49 final size:47
Alignment explanation
Indices: 27819553--27819815 Score: 382
Period size: 47 Copynumber: 5.6 Consensus size: 47
27819543 CCCTTCGGGA
* * * * * *
27819553 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27819600 CCTGTCACATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819647 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27819694 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27819741 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27819790 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
27819816 CACAATTATC
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 149 0.76
49 46 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27826642 original size:27 final size:27
Alignment explanation
Indices: 27826612--27826789 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27826602 ATATTGAGTC
* * * *
27826612 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27826639 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27826666 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27826694 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27826721 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27826748 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27826775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27826790 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27826751 original size:82 final size:81
Alignment explanation
Indices: 27826633--27826788 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27826623 TGCTATATAA
* *
27826633 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27826698 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27826715 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27826779 CACTTAGTGC
65 CACTTAGTGC
27826789 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27834741 original size:27 final size:27
Alignment explanation
Indices: 27834711--27834888 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27834701 ATATTGAGTC
* * * *
27834711 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27834738 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27834765 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27834793 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27834820 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27834847 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27834874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27834889 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27834850 original size:82 final size:81
Alignment explanation
Indices: 27834732--27834887 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27834722 TGCTATATAA
* *
27834732 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27834797 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27834814 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27834878 CACTTAGTGC
65 CACTTAGTGC
27834888 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27842950 original size:24 final size:24
Alignment explanation
Indices: 27842918--27843017 Score: 173
Period size: 24 Copynumber: 4.2 Consensus size: 24
27842908 AGTCTGTCAT
*
27842918 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
27842942 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
27842966 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
27842990 GAGAGTATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
27843014 GAGA
1 GAGA
27843018 ACAATGTTGG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.23
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:27844465 original size:27 final size:26
Alignment explanation
Indices: 27844425--27844535 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
27844415 AGGAAGCATC
* *
27844425 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
27844452 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
27844479 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * * *
27844506 CTAGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTGTT
27844532 CTGG
1 CTGG
27844536 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:27850788 original size:24 final size:24
Alignment explanation
Indices: 27850756--27850808 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
27850746 AAGTCTGTCA
* *
27850756 GGAGGGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
27850780 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
27850804 GGAGA
1 GGAGA
27850809 ACAGTGTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.45, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:27852324 original size:26 final size:26
Alignment explanation
Indices: 27852217--27852327 Score: 159
Period size: 27 Copynumber: 4.2 Consensus size: 26
27852207 AGGAAGCGTC
* *
27852217 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
27852244 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
27852271 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
27852298 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
27852324 CTGG
1 CTGG
27852328 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:27858646 original size:122 final size:120
Alignment explanation
Indices: 27858431--27858651 Score: 343
Period size: 122 Copynumber: 1.8 Consensus size: 120
27858421 AATAATAATA
* * *
27858431 AGAATGAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTTAATTTAACACGGAATGTATG
1 AGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACGAAATGTATG
*
27858496 ATAACTAACCTAGGAATGTAAATTAAATGATAGACATTAGCATGGTAATAGCATG
66 ATAACTAACCTAAGAATGTAAATTAAATGATAGACATTAGCATGGTAATAGCATG
* * * * *
27858551 AGAATAAGCATAGTAATGTCATGGTTATGAGGTGTTCCTAATAACTTGATTTAACACGAAATGTA
1 AGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTTAATTTAACACGAAATGTA
27858616 TGATAACTAACCTAAGAATGTAAATTAAATGATAGA
64 TGATAACTAACCTAAGAATGTAAATTAAATGATAGA
27858652 AAAATGAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 36 0.40
122 54 0.60
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (120 bp):
AGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTTAATTTAACACGAAATGTATG
ATAACTAACCTAAGAATGTAAATTAAATGATAGACATTAGCATGGTAATAGCATG
Found at i:27864961 original size:40 final size:40
Alignment explanation
Indices: 27864867--27865011 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
27864857 TACTCGAATG
*
27864867 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
27864908 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
27864948 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
27864988 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
27865012 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:27868904 original size:13 final size:13
Alignment explanation
Indices: 27868886--27868925 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
27868876 TAAGCAATCG
*
27868886 CACACGGGTGTGT
1 CACACGGGGGTGT
27868899 CACACGGGGGTGT
1 CACACGGGGGTGT
27868912 CACACGGGGGTGT
1 CACACGGGGGTGT
27868925 C
1 C
27868926 CCTGTCGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.17
Consensus pattern (13 bp):
CACACGGGGGTGT
Found at i:27871298 original size:8 final size:8
Alignment explanation
Indices: 27871287--27871314 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
27871277 AAAAAATGAA
27871287 AAATTCAC
1 AAATTCAC
27871295 AAATTCAC
1 AAATTCAC
27871303 AAATTCAC
1 AAATTCAC
27871311 AAAT
1 AAAT
27871315 AATGATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATTCAC
Found at i:27879868 original size:47 final size:46
Alignment explanation
Indices: 27879810--27879931 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 46
27879800 GCTTTGGCAC
27879810 TAAGACAAGGATACGATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATAC-ATGTAAGACCATGTTTGGAACATGGCATTTGG
*
27879857 TAAGACAAGGATACCCTGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATA-CATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
27879904 TAGGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATA-CATGTAAGACCATG
27879932 CCAAGGCATG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
47 68 0.99
48 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.25
Consensus pattern (46 bp):
TAAGACAAGGATACATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:27879985 original size:54 final size:54
Alignment explanation
Indices: 27879910--27880147 Score: 273
Period size: 54 Copynumber: 4.4 Consensus size: 54
27879900 TTGGTAGGAT
*
27879910 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTAAAAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
* * *
27879964 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTATATAAGGT
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
* * * * * **
27880018 AAAGAAAGCATGTAAGACCATGTCAAGACATGGCATTGATTAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTT-CTATAAGGC
** * *** *
27880073 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCCTTGGTGAGTTC-ATAAGGT
1 -AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
*
27880126 AAGGATATCACGTAAGACCATG
1 AAGGATATCATGTAAGACCATG
27880148 TCTAGACATG
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 4 0.03
53 20 0.13
54 90 0.58
55 39 0.25
56 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
Found at i:27886138 original size:47 final size:46
Alignment explanation
Indices: 27886080--27886201 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 46
27886070 GCTTTGGCAC
27886080 TAAGACAAGGATACGATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATAC-ATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
27886127 TAAGACAAGGATACCCTATAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATA-CATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
27886174 TAGGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATA-CATGTAAGACCATG
27886202 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 66 0.99
48 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (46 bp):
TAAGACAAGGATACATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:27886255 original size:54 final size:54
Alignment explanation
Indices: 27886180--27886417 Score: 259
Period size: 54 Copynumber: 4.4 Consensus size: 54
27886170 TTGGTAGGAT
*
27886180 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
*
27886234 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGT
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
* * * * * ** *
27886288 AAAGAAAGCATGTAAGACCATGTCAAGACATGTCATTGATTAGTTACTATAAGAC
1 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTT-CTATAAGGC
* *** *
27886343 AAAGG---TCCAATGTAAGACCATGCCAAGGCATGGCCTTGGTGAGTTC-ATAAGGT
1 -AAGGAAAT-C-ATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
* *
27886396 AAGGATATCACGTAAGACCATG
1 AAGGAAATCATGTAAGACCATG
27886418 TCTAGACATG
Statistics
Matches: 155, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.03
53 17 0.11
54 93 0.60
55 38 0.25
56 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGC
Found at i:27886414 original size:108 final size:106
Alignment explanation
Indices: 27886179--27886430 Score: 301
Period size: 108 Copynumber: 2.3 Consensus size: 106
27886169 TTTGGTAGGA
* * *
27886179 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGGCAAGGAAATCA
1 TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGAAAAGTTCTATAAGACAAGG--ATCA
27886244 TGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGG
64 TGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGG
* * * * **
27886287 TAAAGAAAGCATGTAAGACCATGTCAAGACATGTCATTGATTAGTTACTATAAGACAAAGG-TCC
1 TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGAAAAGTT-CTATAAGAC-AAGGAT-C
* ***
27886351 AATGTAAGACCATGCCAAGGCATGGCCTTGGTGAGTTC-ATAAGG
63 -ATGTAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGG
* *
27886395 TAAGGATATCACGTAAGACCATGTCTAGACATGGCA
1 TAAGGATATCATGTAAGACCATGTCAAGACATGGCA
27886431 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
107 1 0.01
108 75 0.62
109 41 0.34
110 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (106 bp):
TAAGGATATCATGTAAGACCATGTCAAGACATGGCATTGAAAAGTTCTATAAGACAAGGATCATG
TAAGACCATGCCAAGGCATGGCATTGAAAAGTTCTATAAGG
Found at i:27890748 original size:46 final size:46
Alignment explanation
Indices: 27890695--27890870 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
27890685 GTTTTGGGCA
27890695 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
27890741 TCTGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* * *
27890786 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
27890834 CCCGAGCTTGTTGAGTTGAGTCCGACTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27890871 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 62 0.57
47 25 0.23
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:27899037 original size:4 final size:4
Alignment explanation
Indices: 27899028--27899061 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
27899018 TGGAAAACCT
* *
27899028 AAGA AAGA AATA AAGA AAGA ATGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
27899062 ACGAAACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (4 bp):
AAGA
Found at i:27901275 original size:15 final size:14
Alignment explanation
Indices: 27901251--27901289 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
27901241 CATAATCATT
*
27901251 TCTCATATTTGTCA
1 TCTCATATTTCTCA
27901265 TCTCAATATTTTCTCA
1 TCTC-ATA-TTTCTCA
27901281 TCTCATATT
1 TCTCATATT
27901290 CATTTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.27
15 6 0.27
16 10 0.45
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (14 bp):
TCTCATATTTCTCA
Found at i:27901279 original size:43 final size:43
Alignment explanation
Indices: 27901231--27901316 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
27901221 TCATATTTCA
* * *
27901231 TTTCTCGTTTCATAATCATTTCTCAT-ATTTGTCATCT-CAATAT
1 TTTCTCATCTCATAATCATTTATCATCA-TTGTCAT-TACAATAT
*
27901274 TTTCTCATCTCATATTCATTTATCATCATTGTCATTACAATAT
1 TTTCTCATCTCATAATCATTTATCATCATTGTCATTACAATAT
27901317 CAATCACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATCATTGTCATTACAATAT
Found at i:27920061 original size:29 final size:29
Alignment explanation
Indices: 27920004--27920105 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
27919994 TACCTGTAAC
* * *
27920004 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
*
27920032 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
* * *
27920061 TGACTCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATGTATA
*
27920090 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
27920106 GTCACATTCA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 14 0.23
29 48 0.77
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATGTATA
Found at i:27920199 original size:17 final size:18
Alignment explanation
Indices: 27920177--27920210 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27920167 TGCCTATTAT
27920177 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
27920194 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
27920211 TCTGGCCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:27926716 original size:21 final size:21
Alignment explanation
Indices: 27926692--27926747 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
27926682 CAACTTCTCG
*
27926692 TAATTATAATGAAAATAATAA
1 TAATAATAATGAAAATAATAA
** *
27926713 TAATAATAATTCAAGTAATAA
1 TAATAATAATGAAAATAATAA
*
27926734 TAA-CATAATGAAAA
1 TAATAATAATGAAAA
27926748 CTTTATTACA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (21 bp):
TAATAATAATGAAAATAATAA
Found at i:27927662 original size:29 final size:29
Alignment explanation
Indices: 27927630--27927707 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
27927620 AATCATATTC
*
27927630 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* * *
27927659 ATATGACCCATTAGGCCCAGATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
27927688 ATATTGCCCGTTAGGCCCAA
1 ATATGGCCCATTAGGCCCAA
27927708 TCATATTCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:27928284 original size:25 final size:25
Alignment explanation
Indices: 27928246--27928295 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
27928236 CTGGATGTTA
27928246 GTACATCCGAAGGTGGTCATTGTGC
1 GTACATCCGAAGGTGGTCATTGTGC
*
27928271 GTACATCCGGAGGTGGTCATTGTGC
1 GTACATCCGAAGGTGGTCATTGTGC
27928296 TAAGTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (25 bp):
GTACATCCGAAGGTGGTCATTGTGC
Found at i:27930224 original size:43 final size:43
Alignment explanation
Indices: 27930176--27930260 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
27930166 ACTAGATATA
27930176 TGACATATTAGTATTTCAATTGATTTTCTCATTTCTGATTAGT
1 TGACATATTAGTATTTCAATTGATTTTCTCATTTCTGATTAGT
27930219 TGACATATTAGTATTTCAATTGATTTTCTCATTTCTGATTAG
1 TGACATATTAGTATTTCAATTGATTTTCTCATTTCTGATTAG
27930261 ACTAAGGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (43 bp):
TGACATATTAGTATTTCAATTGATTTTCTCATTTCTGATTAGT
Found at i:27932573 original size:29 final size:29
Alignment explanation
Indices: 27932510--27932577 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
27932500 TAATCAACCA
27932510 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
27932539 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
27932568 CGCACACTTA
1 CGCACACTTA
27932578 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:27932718 original size:29 final size:30
Alignment explanation
Indices: 27932679--27932757 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
27932669 CTTAATAATC
27932679 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
27932709 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
27932738 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27932758 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:27940460 original size:29 final size:29
Alignment explanation
Indices: 27940397--27940464 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
27940387 TAATCAACCA
27940397 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
27940426 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
27940455 CGCACACTTA
1 CGCACACTTA
27940465 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:27940605 original size:29 final size:30
Alignment explanation
Indices: 27940566--27940644 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
27940556 CTTCATAATC
27940566 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
27940596 AACTCGCACACTTAGTG--ATGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
27940625 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27940645 ATCTCATAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 6 0.14
29 33 0.77
30 3 0.07
31 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:27940635 original size:174 final size:172
Alignment explanation
Indices: 27940321--27940638 Score: 471
Period size: 174 Copynumber: 1.8 Consensus size: 172
27940311 CATCCATACC
* *
27940321 AAAGTCGCACCCTTCATGTAAATAATTTATAGAAAATATATACTGGGTTGCACACATAATGTTTA
1 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATACTGGGTTGCACACATAATGTTCA
27940386 GTAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCCATGCATTTCA
66 GTAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTG-CATGCATTTCA
***
27940451 AGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGGT
130 AACCCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGGT
* *
27940494 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCTT
1 AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATACTGGGTT-GCACACATAATG-TT
* * *
27940559 CA-TAATCAACCGCGCACACTTAGTGCCATGTACTTTAAACTCGCACACTTAGTG-ATGTACAAT
64 CAGTAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCATG--C-AT
27940622 TT-AAACCCGCACACTTA
126 TTCAAACCCGCACACTTA
27940639 GTGCCAATCT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
172 3 0.02
173 47 0.36
174 73 0.56
175 7 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (172 bp):
AAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATACTGGGTTGCACACATAATGTTCA
GTAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCACACACTTAGTGCATGCATTTCAA
ACCCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGGT
Found at i:27949496 original size:40 final size:40
Alignment explanation
Indices: 27949441--27949589 Score: 201
Period size: 40 Copynumber: 3.7 Consensus size: 40
27949431 ATGATAACCG
* *
27949441 GGCTAAGTCCCGAAGGCATCTGCGCGAGTTACTAAATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* *
27949481 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
* * *
27949521 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CCT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCA
* *
27949561 GGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
27949590 AGTTATATCC
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 95 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCA
Found at i:27957563 original size:40 final size:40
Alignment explanation
Indices: 27957508--27957658 Score: 223
Period size: 40 Copynumber: 3.8 Consensus size: 40
27957498 GGATGATAAA
* *
27957508 CGGGCTAAGTCCCGAAGGCATCTGCGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
27957548 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
27957588 CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATC
* * *
27957628 CGGGCTATGTCTCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27957659 AGTTATATCC
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:27976996 original size:28 final size:28
Alignment explanation
Indices: 27976956--27977108 Score: 189
Period size: 28 Copynumber: 5.5 Consensus size: 28
27976946 ACTCGATATT
* * *
27976956 TCGCACATTAAGTGCCGTACCCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* **
27976984 TCGCACACTAAGTGTCATGTTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* *
27977012 TCGCACACTAAGTGCCATGCTCGATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* * *
27977040 TCACACACTAAGTGCCACAATCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
* *
27977068 TCGCAAACTAAGTGCCATAATCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
27977096 TCGCACACTAAGT
1 TCGCACACTAAGT
27977109 ACCGTACTGT
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 107 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:27977634 original size:17 final size:18
Alignment explanation
Indices: 27977606--27977640 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27977596 TTTTGACTCG
*
27977606 ATTTTTGATGATTTTTAC
1 ATTTTTGATGATTGTTAC
27977624 ATTTTTG-TGATTGTTAC
1 ATTTTTGATGATTGTTAC
27977641 TTTGAGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.60
Consensus pattern (18 bp):
ATTTTTGATGATTGTTAC
Found at i:27979252 original size:37 final size:37
Alignment explanation
Indices: 27979174--27979276 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
27979164 TATGAGTACG
* * * **
27979174 TGTAAGACCATAGCTAGGCTATGGCATCGTAATAGTG
1 TGTAAGACCATAGTTGGGATATGGCATCGTAATAGCA
*
27979211 TGTAAGACCATAGTTGGGATATGGCATCGTGAT-GACA
1 TGTAAGACCATAGTTGGGATATGGCATCGTAATAG-CA
*
27979248 TGTAAGACCAT-GTCTGGGACATGGCATCG
1 TGTAAGACCATAGT-TGGGATATGGCATCG
27979277 ATATGAGATC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 3 0.05
37 54 0.95
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGTTGGGATATGGCATCGTAATAGCA
Found at i:27979326 original size:48 final size:48
Alignment explanation
Indices: 27979271--27979410 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
27979261 CTGGGACATG
* *
27979271 GCATCGATATGAGATCATGTGTAAGTCCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCACGTGTAAGACCATATCTGGGATATGGCATCA
* *
27979319 GCATCGATATGAGATCCCGTGTAAGACCATATTTGGGATATGGCATCA
1 GCATCGATATGAGATCACGTGTAAGACCATATCTGGGATATGGCATCA
* * *
27979367 GCATCGATATGAGATTACGTGTAAGACTATATCTAGGATATGGC
1 GCATCGATATGAGATCACGTGTAAGACCATATCTGGGATATGGC
27979411 TTCGGTATGA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (48 bp):
GCATCGATATGAGATCACGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:27979497 original size:42 final size:40
Alignment explanation
Indices: 27979406--27979498 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 40
27979396 TATCTAGGAT
* * * * *
27979406 ATGGCTTCGGTATGAGATTTCGTGTAAGATCGTGTCTGGG
1 ATGGCATCGGTATGAGATTTCGTATAAGACCATGCCTGGG
*
27979446 ATGCAGCATCGGTATGTGATTTCGTATAAGACCATGCCTGGG
1 ATG--GCATCGGTATGAGATTTCGTATAAGACCATGCCTGGG
27979488 ACATGGCATCG
1 --ATGGCATCG
27979499 ATGTGAGACA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
40 3 0.07
42 37 0.86
44 3 0.07
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (40 bp):
ATGGCATCGGTATGAGATTTCGTATAAGACCATGCCTGGG
Found at i:27988983 original size:46 final size:47
Alignment explanation
Indices: 27988877--27988998 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
27988867 TGTCTTCGAC
** * *
27988877 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
27988927 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
27988973 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
27988999 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:27994491 original size:13 final size:13
Alignment explanation
Indices: 27994473--27994497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27994463 CCTTAAGGGT
27994473 CACACGGCCAAGA
1 CACACGGCCAAGA
27994486 CACACGGCCAAG
1 CACACGGCCAAG
27994498 TGCTAGGCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.40, G:0.24, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGA
Found at i:28000468 original size:46 final size:46
Alignment explanation
Indices: 28000373--28000543 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
28000363 TCTCGTAGCT
** * * *
28000373 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGTC
1 GATGCATGTCCCAGGCATGTCTTACACTAGCTCT-CATCTCAAGGCC
* * *
28000419 GATGCAGGTCCCAGGCATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGGCATGTCTTACACTAGCTCTCATCTCAAGGCC
* **
28000465 GATGCCATGTCCCAGGCATGGTCATACACTAGCTCTCA--T-AATGTGATT
1 GATG-CATGTCCCAGGCAT-GTCTTACACTAGCTCTCATCTCAA-G-G-CC
*
28000513 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGGCATGTCTTACACTAGC
28000544 GCACAAATGA
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.02
46 53 0.51
47 28 0.27
48 20 0.19
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGGCATGTCTTACACTAGCTCTCATCTCAAGGCC
Found at i:28004261 original size:54 final size:54
Alignment explanation
Indices: 28004175--28004277 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
28004165 TGGATAAGTT
* * * *
28004175 GTAGAATTACCGAAATACCTCTTTAGGATAGAATTACGGAAATACCCTTATAAG
1 GTAGAAATACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTTATAAG
* * *
28004229 GTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTT
1 GTAGAAATACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTT
28004278 GTGGGGTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (54 bp):
GTAGAAATACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTTATAAG
Found at i:28004284 original size:27 final size:27
Alignment explanation
Indices: 28004175--28004293 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
28004165 TGGATAAGTT
28004175 GTAGAATTACCGAAATACCTCTT-TAGG
1 GTAGAATTACCGAAATACC-CTTGTAGG
* * * *
28004202 ATAGAATTACGGAAATACCCTTATAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
28004229 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
28004256 GTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
28004283 GTAAAATTACC
1 GTAGAATTACC
28004294 ATTTTGCCCC
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
26 3 0.04
27 70 0.96
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:28004294 original size:54 final size:55
Alignment explanation
Indices: 28004175--28004294 Score: 138
Period size: 54 Copynumber: 2.2 Consensus size: 55
28004165 TGGATAAGTT
* * *
28004175 GTAG-AATTACCGAAATACCTCTTTAGGATAGAATTACGGAAATACCCTTATAAG
1 GTAGAAATTACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTTATAAG
* * * * **
28004229 GTAGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAAATTACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTTATAAG
28004283 GTA-AAATTACCA
1 GTAGAAATTACCA
28004295 TTTTGCCCCT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 3 0.05
54 50 0.91
55 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (55 bp):
GTAGAAATTACCAAAATACCCCTGTAGGATAGAATTACGGAAATACCCTTATAAG
Found at i:28005064 original size:26 final size:27
Alignment explanation
Indices: 28005035--28005094 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
28005025 CCACATATAT
*
28005035 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
28005061 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
28005088 ATATCTG
1 ATATCTG
28005095 GCAGGCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:28008644 original size:31 final size:31
Alignment explanation
Indices: 28008609--28008672 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
28008599 CCTTTTCATA
28008609 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
28008640 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
28008671 TT
1 TT
28008673 ACTATAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:28008937 original size:25 final size:26
Alignment explanation
Indices: 28008893--28008963 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
28008883 CTCTTTTAAT
28008893 AACTGGGGC-AAAGCCCTTTT-GATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
28008917 AACTGGGGCAAAAGCCATTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
28008943 AACTGGGGCAAAAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
28008964 TGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
24 9 0.21
25 10 0.24
26 23 0.55
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:28008951 original size:26 final size:25
Alignment explanation
Indices: 28008880--28008963 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
28008870 CTGGAGGCCT
*
28008880 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
28008904 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
28008929 AGCCATTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
28008955 AGCCCTTTT
1 AGCCCTTTT
28008964 TGCACTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.13
24 13 0.25
25 10 0.19
26 23 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:28009046 original size:19 final size:20
Alignment explanation
Indices: 28009011--28009056 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
28009001 TTATGAATAC
28009011 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
28009031 ATCATGTGCA-ATCATACAT
1 ATCATGTGCATATCATACAT
28009050 ATCATGT
1 ATCATGT
28009057 ATATCAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:28011645 original size:39 final size:39
Alignment explanation
Indices: 28011590--28011735 Score: 229
Period size: 39 Copynumber: 3.7 Consensus size: 39
28011580 TTCCAACCCA
* *
28011590 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCATG
1 AATGCCTTCGGAACTTAGCCCGGATATAATATCAGCACG
*
28011629 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGAACTTAGCCCGGATATAATATCAGCACG
* *
28011668 AATGCCTTCGGAACTTAGCCCGGATATAATACCAACACG
1 AATGCCTTCGGAACTTAGCCCGGATATAATATCAGCACG
* *
28011707 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGAACTTAGCCCGGATATAA
28011736 ATCTCACACA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGAACTTAGCCCGGATATAATATCAGCACG
Found at i:28022135 original size:70 final size:70
Alignment explanation
Indices: 28022051--28022187 Score: 220
Period size: 70 Copynumber: 2.0 Consensus size: 70
28022041 ATTTTGAGGA
* ** *
28022051 CGAAATTTCTTTAAGGAGGGTAGAGTTGTAACACCCCAATTTTTGGGTTTTCTGTGTTTTTGTGA
1 CGAAATTTCTTTAAGAAGGGTAGAGTTGTAACACCCCAATTTTCAGGTTTTCTGTGTTTCTGTGA
28022116 TTCCT
66 TTCCT
* *
28022121 CGAAATTTCTTTAAGAAGTGTAGAGTTGTAACACCCTAATTTTCAGGTTTTCTGTGTTTCTGTGA
1 CGAAATTTCTTTAAGAAGGGTAGAGTTGTAACACCCCAATTTTCAGGTTTTCTGTGTTTCTGTGA
28022186 TT
66 TT
28022188 TTTAAAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (70 bp):
CGAAATTTCTTTAAGAAGGGTAGAGTTGTAACACCCCAATTTTCAGGTTTTCTGTGTTTCTGTGA
TTCCT
Found at i:28023109 original size:81 final size:81
Alignment explanation
Indices: 28022974--28023125 Score: 250
Period size: 81 Copynumber: 1.9 Consensus size: 81
28022964 GGATAAGTTG
* *
28022974 TAGAATTACCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
28023039 AAATACGCCTGTAGGA
66 AAATACGCCTGTAGGA
* * *
28023055 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
*
28023120 AGATAC
66 AAATAC
28023126 CTTTGTGAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
AAATACGCCTGTAGGA
Found at i:28023137 original size:27 final size:27
Alignment explanation
Indices: 28022973--28023126 Score: 218
Period size: 27 Copynumber: 5.7 Consensus size: 27
28022963 TGGATAAGTT
* *
28022973 GTAGAATTACCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
28023000 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
28023027 GTAGAATTACCGAAATACGCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
28023054 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
28023081 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
28023108 GTAGAATTACCGAGATACC
1 GTAGAATTACCGAAATACC
28023127 TTTGTGAGGT
Statistics
Matches: 110, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:28023143 original size:81 final size:81
Alignment explanation
Indices: 28022977--28023146 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
28022967 TAAGTTGTAG
* *
28022977 AATTACCAAAATACCCCTATAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
28023042 TACGCCTGTAGGATAG
66 TACGCCTGTAGGATAA
* * * *
28023058 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
28023123 TAC-CTTTGTGAGG-TAA
66 TACGC-CTGT-AGGATAA
28023139 AATTACCA
1 AATTACCA
28023147 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 74 0.95
82 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
AATTACCAAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
TACGCCTGTAGGATAA
Found at i:28029210 original size:27 final size:27
Alignment explanation
Indices: 28029173--28029377 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
28029163 TAAATTGTAC
28029173 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
28029200 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28029227 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28029253 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28029281 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28029309 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
28029336 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
28029363 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28029378 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28037317 original size:27 final size:27
Alignment explanation
Indices: 28037280--28037484 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
28037270 TAAATTGTAC
28037280 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
28037307 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
28037334 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
28037360 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
28037388 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
28037416 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
28037443 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
28037470 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
28037485 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:28039564 original size:17 final size:18
Alignment explanation
Indices: 28039544--28039588 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
28039534 TACCTAAATG
*
28039544 ATATATATA-CAATAAAA
1 ATATATAAATCAATAAAA
*
28039561 ATATATAAATGAATAAAA
1 ATATATAAATCAATAAAA
*
28039579 ATATAAAAAT
1 ATATATAAAT
28039589 AAAGTAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATATAAATCAATAAAA
Found at i:28039575 original size:18 final size:18
Alignment explanation
Indices: 28039554--28039588 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28039544 ATATATATAC
*
28039554 AATAAAAATATATAAATG
1 AATAAAAATATAAAAATG
28039572 AATAAAAATATAAAAAT
1 AATAAAAATATAAAAAT
28039589 AAAGTAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAAAATATAAAAATG
Found at i:28039689 original size:24 final size:25
Alignment explanation
Indices: 28039662--28039708 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28039652 AAAATAGTAT
28039662 TTAATA-TATATAAAAAATAAAAGA
1 TTAATATTATATAAAAAATAAAAGA
* *
28039686 TTAATATTATGTATAAAATAAAA
1 TTAATATTATATAAAAAATAAAA
28039709 TATATTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
TTAATATTATATAAAAAATAAAAGA
Found at i:28040035 original size:22 final size:21
Alignment explanation
Indices: 28040007--28040048 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
28039997 AATTTGTGAA
28040007 AAATAATATATAATAATAATAT
1 AAATAATATATAATAA-AATAT
28040029 AAATAATATATAATAAAATA
1 AAATAATATATAATAAAATA
28040049 ATTATATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATATATAATAAAATAT
Found at i:28051851 original size:37 final size:37
Alignment explanation
Indices: 28051801--28051879 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
28051791 TTATTACGAA
* * *
28051801 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
28051838 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
28051875 GTCTT
1 GTCTT
28051880 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:28052076 original size:47 final size:47
Alignment explanation
Indices: 28051998--28052581 Score: 871
Period size: 47 Copynumber: 12.1 Consensus size: 47
28051988 CCCTTCGGGA
* * * * * *
28051998 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28052045 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28052092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28052139 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28052190 CTTATCTCATAAATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28052237 CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28052284 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28052335 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28052384 CTTATCACATCTATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CA-C-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28052435 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28052482 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28052529 CTTATCACATATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28052578 CTTA
1 CTTA
28052582 CTATCATTTC
Statistics
Matches: 497, Mismatches: 27, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
47 270 0.54
48 1 0.00
49 88 0.18
51 137 0.28
52 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28052272 original size:145 final size:147
Alignment explanation
Indices: 28052009--28052581 Score: 910
Period size: 145 Copynumber: 3.9 Consensus size: 147
28051999 TTATCACATT
* * * * * * * *
28052009 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCA
28052074 TCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
*
28052137 GCCCTATCACATATATA
131 GCCTTATCACATATATA
* *
28052154 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATAAATACGCTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCA
*
28052219 TCACATCGGCCATTAGGCCTTATCACGTATATA-A-ACTTTCACATTCATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
28052282 GCCTTATCACATATATA
131 GCCTTATCACATATATA
28052299 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-A-ATACACTTTCACATT
28052364 CATCACATCGGCCATTAGGCCTTATCACATCTATATATACACTTTCACATTCATCACATCGGCCA
64 CATCACATCGGCCATTAGGCCTTATCACA--TATATATACACTTTCACATTCATCACATCGGCCA
*
28052429 TTAGGCCTTAT--C-T-CATA
127 TTAGGCCTTATCACATATATA
* *
28052446 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCA
*
28052511 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTTATCACATCGGCCATTAG
66 TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
28052576 GCCTTA
131 GCCTTA
28052582 CTATCATTTC
Statistics
Matches: 402, Mismatches: 18, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
143 43 0.11
145 216 0.54
146 2 0.00
147 96 0.24
148 1 0.00
149 7 0.02
150 1 0.00
151 36 0.09
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (147 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAAATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATA
Found at i:28052422 original size:245 final size:241
Alignment explanation
Indices: 28051998--28052581 Score: 974
Period size: 245 Copynumber: 2.4 Consensus size: 241
28051988 CCCTTCGGGA
* * * * * * * * * *
28051998 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
28052061 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
28052126 TCGGCCATTAGGCCCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
131 TCGGCCATTAGGCCCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
28052191 TTATCTCATAAATACGCTTTCACATTCATCACATCGGCCATTAGGC
196 TTATCTCATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
28052237 CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
28052302 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
* *
28052367 CACATCGGCCATTAGGCCTTATCACATCTATATATACACTTTCACATTCATCACATCGGCCATTA
127 CACATCGGCCATTAGGCCCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTA
*
28052432 GGCCTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
192 GGCCTTATCTCATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28052482 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
28052547 ACTTTCACATTTATCACATCGGCCATTAGGCCTTA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA
28052582 CTATCATTTC
Statistics
Matches: 323, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
239 45 0.14
243 91 0.28
245 187 0.58
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (241 bp):
CTTATCACGTATATAAACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCTCATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28058025 original size:29 final size:29
Alignment explanation
Indices: 28057947--28058092 Score: 170
Period size: 29 Copynumber: 5.1 Consensus size: 29
28057937 ACCCCCACAT
*
28057947 ACATGCATATGGCCCACTT-GGCCCAA-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
28057975 TCATTTATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
28058004 ACATTCATATGGCCTATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
28058033 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
28058062 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAATTC
28058091 AC
1 AC
28058093 CTTATATTCA
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
27 2 0.02
28 20 0.20
29 79 0.78
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:28060401 original size:21 final size:21
Alignment explanation
Indices: 28060375--28060423 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
28060365 CTCAACATAT
28060375 CTTCCGATACTTGGATCACCC
1 CTTCCGATACTTGGATCACCC
28060396 CTTCCGATACTTGGATCACCC
1 CTTCCGATACTTGGATCACCC
*
28060417 TTTCCGA
1 CTTCCGA
28060424 CTGTCCATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.37, G:0.14, T:0.31
Consensus pattern (21 bp):
CTTCCGATACTTGGATCACCC
Found at i:28064400 original size:43 final size:43
Alignment explanation
Indices: 28064337--28064438 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
28064327 GCTGGTGAAT
* * *
28064337 AATATTATCGGGCTTCGGGCCTAGCAGGTTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
* * * *
28064380 GATAATATCAGGCTTTGGGCCTAGTAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
*
28064423 AATGATATCGGGCTTC
1 AATAATATCGGGCTTC
28064439 AACACTAGCA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
Found at i:28064532 original size:40 final size:41
Alignment explanation
Indices: 28064456--28064533 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
28064446 GCAGGTGAAA
* ** *
28064456 TGCCGGTGAATGAGTTCAGACTTAAAGTCTAGCAGGCTTTG
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAACAGGCTTTG
**
28064497 TGCCGGTG-ATGAATTCAGGTTTAAAACCTAACAGGCT
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAACAGGCT
28064534 AAATGTCGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 23 0.74
41 8 0.26
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (41 bp):
TGCCGGTGAATGAATTCAGACTTAAAACCTAACAGGCTTTG
Found at i:28070271 original size:105 final size:105
Alignment explanation
Indices: 28070023--28070500 Score: 834
Period size: 105 Copynumber: 4.6 Consensus size: 105
28070013 TAACCGTTAT
* * ** *
28070023 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
28070088 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* *
28070127 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
28070191 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
28070232 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
28070297 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
28070337 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
28070402 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
28070442 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
28070501 TTATATACAA
Statistics
Matches: 361, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
104 80 0.22
105 280 0.78
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:28077506 original size:105 final size:105
Alignment explanation
Indices: 28077256--28077628 Score: 642
Period size: 105 Copynumber: 3.6 Consensus size: 105
28077246 TAACCGTTAT
* * **
28077256 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
28077321 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* *
28077360 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
28077424 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
28077465 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
28077530 AATCAGCACATAGCAACCCCCTTTTTACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
**
28077570 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
28077629 TTTATATACA
Statistics
Matches: 257, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
104 81 0.32
105 175 0.68
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:28080718 original size:29 final size:29
Alignment explanation
Indices: 28080652--28080787 Score: 152
Period size: 29 Copynumber: 4.7 Consensus size: 29
28080642 TACATACATG
*
28080652 CATATGGCCTACTTA-GCCCAATCTCAT-TT
1 CATATGGCCCA-TTAGGCCCAAT-TCATATT
*
28080681 -ATATAGCCCATTAGGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* *
28080709 CATATGGCCCATCAGACCCAATTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* **
28080738 CATATGGCCCATTAGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
* *
28080767 TATATGGCCCGTTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
28080788 ATCACCTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
27 7 0.08
28 17 0.18
29 68 0.74
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:28088779 original size:17 final size:17
Alignment explanation
Indices: 28088747--28088780 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28088737 TATAAGTATA
**
28088747 CATTGTCATTGGATTTT
1 CATTGTCATTACATTTT
28088764 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
28088781 AGTGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:28090727 original size:40 final size:39
Alignment explanation
Indices: 28090632--28090849 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 39
28090622 TGGATGATAA
* *
28090632 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TAT
*
28090673 CCGGGCTAATTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATAT
28090713 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
*
28090753 CCGGGCTAAGTCCCGAAGGAATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATAT
* * *
28090793 TCGGGCTATGTCCCGAAGGCATTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTA-CTATAT
* *
28090832 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28090850 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 100 0.63
41 24 0.15
42 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAT
Found at i:28093117 original size:21 final size:20
Alignment explanation
Indices: 28093093--28093131 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
28093083 CAAAGCGAGG
28093093 AGCTCAGTATGGAGAAAAGAA
1 AGCTCA-TATGGAGAAAAGAA
* *
28093114 AGCTGATATGGAGCAAAG
1 AGCTCATATGGAGAAAAG
28093132 GAGTTTCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.15
Consensus pattern (20 bp):
AGCTCATATGGAGAAAAGAA
Found at i:28098846 original size:40 final size:40
Alignment explanation
Indices: 28098754--28098971 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
28098744 TGGATGATAA
* * * *
28098754 CCGGGCTAAGTCCCGATGGTATT-TTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCG--AGTTACTA-TAT
* *
28098795 CTGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
28098835 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
28098875 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* *
28098915 CCGGGCTATGTCCCGAAGGCATT-GAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
28098954 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
28098972 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 106 0.67
41 19 0.12
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:28103063 original size:42 final size:42
Alignment explanation
Indices: 28103006--28103171 Score: 152
Period size: 42 Copynumber: 3.9 Consensus size: 42
28102996 TAGGGTTATG
28103006 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
** * * *
28103048 TGTGATTTTGTGTAAGACCATGTCTGGGACATGACATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * ** * * * * *
28103090 CGAGACATCGTGTAAGACCATAGCTGGGCTATCGGTATTGATATA
1 TGTGATTTCATGTAAGACCATATCTGGGATAT-GGCATCG--ATA
** *
28103135 TGTGATCCCATGTAAGTCCATATCTGGGATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
28103172 TGGCATCTTA
Statistics
Matches: 94, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
42 60 0.64
43 4 0.04
44 4 0.04
45 26 0.28
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:28105181 original size:50 final size:50
Alignment explanation
Indices: 28105118--28105214 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
28105108 AATAAATACG
* *
28105118 GGAAAGTATAGATACGTACGATACCTATATGGTAGTTGATACTATGTACA
1 GGAAAGTACAGATACGTACGATACATATATGGTAGTTGATACTATGTACA
* *
28105168 GGAAAGTACAGATATGTATGATACATATATGGTAGTTGATACTATGT
1 GGAAAGTACAGATACGTACGATACATATATGGTAGTTGATACTATGT
28105215 GTATGAAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAAGTACAGATACGTACGATACATATATGGTAGTTGATACTATGTACA
Done.