Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 81 of 171
Found at i:27191571 original size:24 final size:24
Alignment explanation
Indices: 27191511--27191574 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
27191501 TAGGGGTAAG
* * *
27191511 ATCTGATTCTATATATGATTATGC
1 ATCTGATTCTGTATTTGAGTATGC
* * *
27191535 ATTTGTTTTTGTATTTGAGTATGC
1 ATCTGATTCTGTATTTGAGTATGC
27191559 ATCTGATTCTGTATTT
1 ATCTGATTCTGTATTT
27191575 AAAATGAAAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (24 bp):
ATCTGATTCTGTATTTGAGTATGC
Found at i:27192576 original size:20 final size:21
Alignment explanation
Indices: 27192538--27192611 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
27192528 CTTGTGATAG
*
27192538 TTCTACTGATACAAGTGTAAC
1 TTCTACCGATACAAGTGTAAC
27192559 TTCTACCGATAC-AGTGTAAC
1 TTCTACCGATACAAGTGTAAC
* * *
27192579 TTCTACCGAAACAAGT-CATGC
1 TTCTACCGATACAAGTGTA-AC
27192600 TTCTACCGATAC
1 TTCTACCGATAC
27192612 TAAAAACTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 20 0.43
21 26 0.57
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTGTAAC
Found at i:27196625 original size:17 final size:18
Alignment explanation
Indices: 27196603--27196643 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27196593 TAAACTCATT
*
27196603 TTTAAATCTA-TTTTAAG
1 TTTAAATCTATTTTTAAA
*
27196620 TTTAAATTTATTTTTAAA
1 TTTAAATCTATTTTTAAA
27196638 TTTAAA
1 TTTAAA
27196644 AAAATCAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TTTAAATCTATTTTTAAA
Found at i:27197358 original size:13 final size:13
Alignment explanation
Indices: 27197340--27197366 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27197330 AAATGTTTTT
27197340 ATAATAAATAATA
1 ATAATAAATAATA
27197353 ATAATAAATAATA
1 ATAATAAATAATA
27197366 A
1 A
27197367 AAGAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAAATAATA
Found at i:27198416 original size:29 final size:30
Alignment explanation
Indices: 27198370--27198452 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 30
27198360 GTCCCTGAAC
* * * **
27198370 TTTCTAGAAATCATATTTTGACTCTCGAACT
1 TTTCTA-AAATTACATTTTAACTCTCGAAAA
* *
27198401 TTTC-AAAATTACATTTTAAC-CCCTAAAA
1 TTTCTAAAATTACATTTTAACTCTCGAAAA
*
27198429 TTTCTAAAATTACATTTTTACTCT
1 TTTCTAAAATTACATTTTAACTCT
27198453 TAAACTTCCA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 8 0.20
29 27 0.66
30 2 0.05
31 4 0.10
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (30 bp):
TTTCTAAAATTACATTTTAACTCTCGAAAA
Found at i:27198525 original size:87 final size:87
Alignment explanation
Indices: 27198377--27198825 Score: 382
Period size: 87 Copynumber: 5.2 Consensus size: 87
27198367 AACTTTCTAG
* * * * * * *
27198377 AAATCATATTTTGACTCTCGAACTTTTC-AAAATTACATTTTAACCCCTAAAATT-TCTAAAATT
1 AAATCATATTTTTACCCTCGAAC-TTCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAATT
27198440 ACATTTTTACTCTTAAACTTCCAA
65 ACATTTTTAC-CTTAAACTTCCAA
* * * *
27198464 AAATCATATTTTTACCCTCAAACTTCCAAAAATTACATTTTTATCCTTAAACTTCTC-AAAATTA
1 AAATCATATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAATTA
27198528 CATTTTTACCTCTAAAC-TCCAA
66 CATTTTTACCT-TAAACTTCCAA
** *
27198550 AAATTTTTATTTTTACCCTCGAACTTCCAAAAATCACA-TTTTACCCCTAAACTTATCAAAAATT
1 AAA-TCATATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAATT
* * * *
27198614 ACA-TTTTCCCCTAAATTTTC-A
65 ACATTTTTACCTTAAACTTCCAA
* * *
27198635 AAATTATATTTTTACCCTCGAACTCTCCCAAAATCACATTTTTACCCCTAAACTTC-CAAAAATC
1 AAATCATATTTTTACCCTCGAACT-TCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAATT
* * *
27198699 ATATTTTTACC-CACAATCTTTCAA
65 ACATTTTTACCTTA-AA-CTTCCAA
* * * * * * * * *
27198723 AAATTACATTTTT-TCCT-TACACTTTCAAAAATCACATTTTTGCCCCTGAACTTTTGAAAAATC
1 AAATCATATTTTTACCCTCGA-ACTTCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAAT-
*** *
27198786 T-CATTTTTACCCCGAACTCTCCCA
64 TACATTTTTACCTTAAACT-TCCAA
*
27198810 AAATGATATTTTTACC
1 AAATCATATTTTTACC
27198826 TCTAACTCTT
Statistics
Matches: 300, Mismatches: 44, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
84 20 0.07
85 30 0.10
86 90 0.30
87 143 0.48
88 17 0.06
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (87 bp):
AAATCATATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCCCTAAACTTCTCAAAAATTA
CATTTTTACCTTAAACTTCCAA
Found at i:27198775 original size:29 final size:29
Alignment explanation
Indices: 27198401--27198798 Score: 300
Period size: 29 Copynumber: 13.8 Consensus size: 29
27198391 CTCTCGAACT
* *
27198401 TTTC-AAAATTACATTTTAACCCCTAAAA
1 TTTCAAAAATTACATTTTTACCCCTAAAC
* * *
27198429 TTTCTAAAATTACATTTTTACTCTTAAAC
1 TTTCAAAAATTACATTTTTACCCCTAAAC
* * *
27198458 TTCCAAAAATCATATTTTTA-CCCTCAAAC
1 TTTCAAAAATTACATTTTTACCCCT-AAAC
* * *
27198487 TTCCAAAAATTACATTTTTATCCTTAAAC
1 TTTCAAAAATTACATTTTTACCCCTAAAC
*
27198516 TTCTC-AAAATTACATTTTTACCTCTAAAC
1 TT-TCAAAAATTACATTTTTACCCCTAAAC
* ** *
27198545 -TCCAAAAATTTTTATTTTTA-CCCTCGAAC
1 TTTCAAAAA-TTACATTTTTACCCCT-AAAC
* *
27198574 TTCCAAAAATCACA-TTTTACCCCTAAAC
1 TTTCAAAAATTACATTTTTACCCCTAAAC
*
27198602 TTATCAAAAATTACA-TTTT-CCCCTAAAT
1 TT-TCAAAAATTACATTTTTACCCCTAAAC
* *
27198630 TTTC-AAAATTATATTTTTA-CCCTCGAAC
1 TTTCAAAAATTACATTTTTACCCCT-AAAC
* * *
27198658 TCTCCCAAAATCACATTTTTACCCCTAAAC
1 T-TTCAAAAATTACATTTTTACCCCTAAAC
* * * *
27198688 TTCCAAAAATCATATTTTTACCCAC-AATC
1 TTTCAAAAATTACATTTTTACCC-CTAAAC
* * *
27198717 TTTCAAAAATTACATTTTT-TCCTTACAC
1 TTTCAAAAATTACATTTTTACCCCTAAAC
* * *
27198745 TTTCAAAAATCACATTTTTGCCCCTGAAC
1 TTTCAAAAATTACATTTTTACCCCTAAAC
*
27198774 TTTTGAAAAATCT-CATTTTTACCCC
1 -TTTCAAAAAT-TACATTTTTACCCC
27198799 GAACTCTCCC
Statistics
Matches: 295, Mismatches: 54, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.03
27 11 0.04
28 59 0.20
29 163 0.55
30 50 0.17
31 4 0.01
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (29 bp):
TTTCAAAAATTACATTTTTACCCCTAAAC
Found at i:27205669 original size:50 final size:49
Alignment explanation
Indices: 27205494--27206159 Score: 289
Period size: 50 Copynumber: 13.3 Consensus size: 49
27205484 GAAAAGATTA
* * **
27205494 AGGCCGCAATGGCGAATCTGGTACCTTAA-AATTTGTGAAGGGAAAGGATTG
1 AGGCCGTAACGGCGAA-CTGGTACC-TAAGAAGATGTGAAGGGAAAGG-TTG
* * * * * *
27205545 AGGCCGCAACGACAAACACGATACCTAAGAAGATGTGATGGGAAAGGTTG
1 AGGCCGTAACGGCGAAC-TGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
* * ** ** *
27205595 AGGTCGTAACAGTAAACCCAGTACC-ATGAAG-TGATGACAGGG-AAGGATTG
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGATG-TGA-AGGGAAAGG-TTG
* *
27205645 AGGCCGTAATGGCGAATCTGGTACCTTAAAAAGATGTGAAGGGAAAGGTTG
1 AGGCCGTAACGGCGAA-CTGGTACC-TAAGAAGATGTGAAGGGAAAGGTTG
** * *
27205696 AGGCCACAACGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTG
1 AGGCCGTAACGGCGAACT-GGTACCTAAGAAGATGTGAAGGGAAAGGTTG
** * *
27205746 AGGCCGTAACGGCGAACCCAGTACC-ATGAAGA-GATGAAGGG-AAGGAATG
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGATG-TGAAGGGAAAGG-TTG
** ** * * * * *
27205795 AGGCCGCGATAGTGAATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTA
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
* *
27205845 AGGCCATAACGGTGAACTTGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
1 AGGCCGTAACGGCGAAC-TGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
* * ** * *
27205895 AGGCCATAACGACGAACCCAGT-CCCATGAAGA-GATGAAGGG-AAGGATTG
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGATG-TGAAGGGAAAGG-TTG
** * * * ***
27205944 AGGCCGCGACGGTGAATCCGGTACCTAAGAAAATACAAAAGGGAAAGGTTG
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGAT-GTGAAGGGAAAGGTTG
* ** * *** * ** *
27205995 GGGCCGTAATAGTGAATCCAATA-CTATGAAGACATTAA-GGAAAGGATTG
1 AGGCCGTAACGGCGAA-CTGGTACCTAAGAAGATGTGAAGGGAAAGG-TTG
* ** * ** *
27206044 AGACC-TCGGCGGTGAATCCAGTACCTAAGAAGATGTGATGGGAAAGGTTG
1 AGGCCGT-AACGGCGAA-CTGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
* * * * * *
27206094 ATGCCGCAACGGTGAACTCGGTACC-ATGAATATATGAAGGGAAAGGTTG
1 AGGCCGTAACGGCGAACT-GGTACCTAAGAAGATGTGAAGGGAAAGGTTG
* * *
27206143 AGACTGTAACAGCGAAC
1 AGGCCGTAACGGCGAAC
27206160 CTAGCACCTT
Statistics
Matches: 461, Mismatches: 123, Indels: 64
0.71 0.19 0.10
Matches are distributed among these distances:
48 20 0.04
49 129 0.28
50 198 0.43
51 97 0.21
52 15 0.03
53 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.18
Consensus pattern (49 bp):
AGGCCGTAACGGCGAACTGGTACCTAAGAAGATGTGAAGGGAAAGGTTG
Found at i:27205888 original size:149 final size:149
Alignment explanation
Indices: 27205489--27205974 Score: 621
Period size: 149 Copynumber: 3.2 Consensus size: 149
27205479 GACAGGAAAA
* * * * * ** * *
27205489 GATTAAGGCCGCAATGGCGAATCTGGTACCTTAAAATTTGTGAAGGGAAAGGATTGAGGCCGCAA
1 GATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAAGATGTGAAGGGAAAGG-TTAAGGCCACAA
*** * * * * **
27205554 CGACAAACACGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAACAGTAAACCCAGTAC
65 CGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTAC
*
27205619 CATGAAGTGATGACAGGGAAG
130 CATGAAGAGATGA-AGGGAAG
** * * * *
27205640 GATTGAGGCCGTAATGGCGAATCTGGTACCTTAAAAAGATGTGAAGGGAAAGGTTGAGGCCACAA
1 GATTGAGGCCGCGATGGTGAATCCGGTACCTT-AGAAGATGTGAAGGGAAAGGTTAAGGCCACAA
27205705 CGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTAC
65 CGGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTAC
27205770 CATGAAGAGATGAAGGGAAG
130 CATGAAGAGATGAAGGGAAG
* * * *
27205790 GAATGAGGCCGCGATAGTGAATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCATAAC
1 GATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAAGATGTGAAGGGAAAGGTTAAGGCCACAAC
* * * * *
27205855 GGTGAACTTGGTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCATAACGACGAACCCAGTCCC
66 GGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTACC
27205920 ATGAAGAGATGAAGGGAAG
131 ATGAAGAGATGAAGGGAAG
* *
27205939 GATTGAGGCCGCGACGGTGAATCCGGTACCTAAGAA
1 GATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAA
27205975 AATACAAAAG
Statistics
Matches: 300, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
149 140 0.47
150 33 0.11
151 109 0.36
152 18 0.06
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (149 bp):
GATTGAGGCCGCGATGGTGAATCCGGTACCTTAGAAGATGTGAAGGGAAAGGTTAAGGCCACAAC
GGTGAACTCGGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTACC
ATGAAGAGATGAAGGGAAG
Found at i:27206045 original size:149 final size:149
Alignment explanation
Indices: 27205565--27206045 Score: 416
Period size: 149 Copynumber: 3.2 Consensus size: 149
27205555 GACAAACACG
** * * * *
27205565 ATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGTAAC-A-GTAAACCCAGTACCATGAAGTG
1 ATACCTAAGAAGACATGAAGGGAAAGGTTGAGGCCATAACGACG--AACCCAGTACCATGAAGAG
* ** ** * * ***
27205628 ATGACAGGGAAGGATTGAGGCCGTAATGGCGAATCTGGTACCTTAA-AAAGATGTGAAGGGAAAG
64 ATGA-AGGGAAGGAATGAGGCCGCGACAGTGAATCCGGTACC-TAAGAAA-ATCAAAAGGGAAAG
* * * *
27205692 GTTGAGGCCACAACGGTGAACTCG
126 GTTAAGGCCATAACAGTGAACTCA
* ** * * *
27205716 GTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGTAACGGCGAACCCAGTACCATGAAGAGAT
1 ATACCTAAGAAGACATGAAGGGAAAGGTTGAGGCCATAACGACGAACCCAGTACCATGAAGAGAT
* * * *** *
27205781 GAAGGGAAGGAATGAGGCCGCGATAGTGAATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTAA
66 GAAGGGAAGGAATGAGGCCGCGACAGTGAATCCGGTACCTAAGAAAATCAAAAGGGAAAGGTTAA
* **
27205846 GGCCATAACGGTGAACTTG
131 GGCCATAACAGTGAACTCA
* ** *
27205865 GTACCTAAGAAGATGTGAAGGGAAAGGTTGAGGCCATAACGACGAACCCAGTCCCATGAAGAGAT
1 ATACCTAAGAAGACATGAAGGGAAAGGTTGAGGCCATAACGACGAACCCAGTACCATGAAGAGAT
* * *
27205930 GAAGGGAAGGATTGAGGCCGCGACGGTGAATCCGGTACCTAAGAAAATACAAAAGGGAAAGGTTG
66 GAAGGGAAGGAATGAGGCCGCGACAGTGAATCCGGTACCTAAGAAAAT-CAAAAGGGAAAGGTTA
* * *
27205995 GGGCCGTAATAGTGAA-TCCA
130 AGGCCATAACAGTGAACT-CA
* *
27206015 ATA-CTATGAAGACATTAA-GGAAAGGATTGAG
1 ATACCTAAGAAGACATGAAGGGAAAGG-TTGAG
27206046 ACCTCGGCGG
Statistics
Matches: 283, Mismatches: 41, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
148 7 0.02
149 157 0.55
150 58 0.20
151 60 0.21
153 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (149 bp):
ATACCTAAGAAGACATGAAGGGAAAGGTTGAGGCCATAACGACGAACCCAGTACCATGAAGAGAT
GAAGGGAAGGAATGAGGCCGCGACAGTGAATCCGGTACCTAAGAAAATCAAAAGGGAAAGGTTAA
GGCCATAACAGTGAACTCA
Found at i:27206146 original size:99 final size:100
Alignment explanation
Indices: 27205529--27206144 Score: 436
Period size: 99 Copynumber: 6.2 Consensus size: 100
27205519 TTAAAATTTG
* ** * * *
27205529 TGAAGGGAAAGGATTGAGGCCGCAAC-GACAAACACGATACCTAAGAAGATGTGATGGGAAAGGT
1 TGAAGGGAAAGGATTGAGGCCGTAACGGTGAATC-CGGTACCTAAGAAGATGTGAAGGGAAAGGT
* * * *
27205593 TGAGGTCGTAACAGTAAACCCAGTACCATGAAG-TGA
65 TGAGGCCGCAACAGTGAACTCAGTACCATGAAGAT-A
* * * *
27205629 TGACAGGG-AAGGATTGAGGCCGTAATGGCGAATCTGGTACCTTAAAAAGATGTGAAGGGAAAGG
1 TGA-AGGGAAAGGATTGAGGCCGTAACGGTGAATCCGGTACC-TAAGAAGATGTGAAGGGAAAGG
* * * * *
27205693 TTGAGGCCACAACGGTGAACTCGGTACCTAAGAAGATG
64 TTGAGGCCGCAACAGTGAACTCAGTACC-ATGAAGATA
* * * * *
27205731 TGATGGGAAAGG-TTGAGGCCGTAACGGCGAACCCAGTACC-ATGAAGA-GATGAAGGG-AAGGA
1 TGAAGGGAAAGGATTGAGGCCGTAACGGTGAATCCGGTACCTAAGAAGATG-TGAAGGGAAAGG-
* * * * * *
27205792 ATGAGGCCGCGATAGTGAA-TCCGGTACCTTAGAAGATG
64 TTGAGGCCGCAACAGTGAACT-CAGTACCAT-GAAGATA
* * * *
27205830 TGATGGGAAAGG-TTAAGGCCATAACGGTGAA-CTTGGTACCTAAGAAGATGTGAAGGGAAAGGT
1 TGAAGGGAAAGGATTGAGGCCGTAACGGTGAATC-CGGTACCTAAGAAGATGTGAAGGGAAAGGT
** * * * *
27205893 TGAGGCCATAAC-GACGAACCCAGTCCCATGAAGAGA
65 TGAGGCCGCAACAG-TGAACTCAGTACCATGAAGATA
** * ***
27205929 TGAAGGG-AAGGATTGAGGCCGCGACGGTGAATCCGGTACCTAAGAAAATACAAAAGGGAAAGGT
1 TGAAGGGAAAGGATTGAGGCCGTAACGGTGAATCCGGTACCTAAGAAGAT-GTGAAGGGAAAGGT
* * * * * *
27205993 TGGGGCCGTAATAGTGAA-TCCAATACTATGAAGACA
65 TGAGGCCGCAACAGTGAACT-CAGTACCATGAAGATA
* * ** * *
27206029 TTAA-GGAAAGGATTGAGACC-TCGGCGGTGAATCCAGTACCTAAGAAGATGTGATGGGAAAGGT
1 TGAAGGGAAAGGATTGAGGCCGT-AACGGTGAATCCGGTACCTAAGAAGATGTGAAGGGAAAGGT
* * * *
27206092 TGATGCCGCAACGGTGAACTCGGTACCATGAATATA
65 TGAGGCCGCAACAGTGAACTCAGTACCATGAAGATA
27206128 TGAAGGGAAAGG-TTGAG
1 TGAAGGGAAAGGATTGAG
27206145 ACTGTAACAG
Statistics
Matches: 401, Mismatches: 90, Indels: 51
0.74 0.17 0.09
Matches are distributed among these distances:
98 11 0.03
99 158 0.39
100 137 0.34
101 82 0.20
102 12 0.03
103 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (100 bp):
TGAAGGGAAAGGATTGAGGCCGTAACGGTGAATCCGGTACCTAAGAAGATGTGAAGGGAAAGGTT
GAGGCCGCAACAGTGAACTCAGTACCATGAAGATA
Found at i:27208290 original size:28 final size:29
Alignment explanation
Indices: 27208179--27208493 Score: 248
Period size: 29 Copynumber: 10.9 Consensus size: 29
27208169 CTAAACTTTT
* * *
27208179 AAAAATTACATTTTTGCCCCTGAACTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* * *
27208208 AAATATCAAATTTTTACCCTTAAACTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* * *
27208237 AAAACTCACATTTTTGCCGTTGAACTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* **
27208266 AAAAATTACATTTTT-CCCCCGAACTT-C
1 AAAAATCACATTTTTACCCTTGAACTTCC
* * * * *
27208293 TAAAATCACATTTTTATCGTCGAATTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* * *
27208322 -AAAATGACATTTTTACCCCTAAACTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* * * * *
27208350 AAAAATTACAATTTTATCCTCGATCTTCC
1 AAAAATCACATTTTTACCCTTGAACTTCC
* *
27208379 AAAAATTACATTTTTACCCTTAAACTTCTC
1 AAAAATCACATTTTTACCCTTGAACTTC-C
*** *
27208409 AAAAATCACATTTTTACCCCCAAACTTCTAA
1 AAAAATCACATTTTTACCCTTGAACTTC--C
27208440 AAAAATCACATTTTTACCC-T-AACTCTGCC
1 AAAAATCACATTTTTACCCTTGAACT-T-CC
*
27208469 -AAAATGACATTTTTACCCTT-AACTT
1 AAAAATCACATTTTTACCCTTGAACTT
27208494 TTTGAAACTT
Statistics
Matches: 228, Mismatches: 50, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
27 14 0.06
28 54 0.24
29 113 0.50
30 27 0.12
31 20 0.09
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAAATCACATTTTTACCCTTGAACTTCC
Found at i:27208383 original size:113 final size:115
Alignment explanation
Indices: 27208217--27208424 Score: 289
Period size: 113 Copynumber: 1.8 Consensus size: 115
27208207 CAAATATCAA
* * *
27208217 ATTTTTACCCTTAAACTTCCAAAACTCACATTTTTGCCGTTGAACTTCCAAAAATTACATTTTT-
1 ATTTTTACCCCTAAACTTCCAAAAATCACATTTTTGCCGTCGAACTTCCAAAAATTACATTTTTA
*
27208281 CCCCCGAACTTCT-AAAATCACATTTTTATCGTCGAATTTCCAAAATGAC
66 CCCCCAAACTTCTAAAAATCACATTTTTATCGTCGAATTTCCAAAATGAC
* *
27208330 ATTTTTACCCCTAAACTTCCAAAAATTACAATTTTAT-CC-TCGATCTTCCAAAAATTACATTTT
1 ATTTTTACCCCTAAACTTCCAAAAATCAC-ATTTT-TGCCGTCGAACTTCCAAAAATTACATTTT
**
27208393 TACCCTTAAACTTCTCAAAAATCACATTTTTA
64 TACCCCCAAACTTCT-AAAAATCACATTTTTA
27208425 CCCCCAAACT
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
113 49 0.60
114 17 0.21
115 1 0.01
116 15 0.18
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (115 bp):
ATTTTTACCCCTAAACTTCCAAAAATCACATTTTTGCCGTCGAACTTCCAAAAATTACATTTTTA
CCCCCAAACTTCTAAAAATCACATTTTTATCGTCGAATTTCCAAAATGAC
Found at i:27214227 original size:17 final size:19
Alignment explanation
Indices: 27214200--27214238 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
27214190 GATATGAGAC
*
27214200 AAAAATGAGAA-TGATGTG
1 AAAAATGAGAATTGAAGTG
27214218 AAAAAT-AGAATTGAAGTG
1 AAAAATGAGAATTGAAGTG
27214236 AAA
1 AAA
27214239 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (19 bp):
AAAAATGAGAATTGAAGTG
Found at i:27215943 original size:13 final size:14
Alignment explanation
Indices: 27215923--27215990 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 14
27215913 TTTAACCGGG
27215923 CCCAAAAATTAAAA
1 CCCAAAAATTAAAA
*
27215937 -GCAAAAA-TAAAA
1 CCCAAAAATTAAAA
27215949 CCCAAAAAATTAAAA
1 CCC-AAAAATTAAAA
** * *
27215964 TGCAGAAA-TGAAA
1 CCCAAAAATTAAAA
27215977 CCCAAAATATTAAA
1 CCCAAAA-ATTAAA
27215991 TTTTAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 9
0.67 0.17 0.16
Matches are distributed among these distances:
12 5 0.13
13 15 0.38
14 10 0.26
15 9 0.23
ACGTcount: A:0.63, C:0.16, G:0.06, T:0.15
Consensus pattern (14 bp):
CCCAAAAATTAAAA
Found at i:27215960 original size:27 final size:28
Alignment explanation
Indices: 27215926--27215990 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
27215916 AACCGGGCCC
27215926 AAAAATTAAAA-GCAAAAATAAAACCCA
1 AAAAATTAAAATGCAAAAATAAAACCCA
* *
27215953 AAAAATTAAAATGCAGAAATGAAACCCA
1 AAAAATTAAAATGCAAAAATAAAACCCA
*
27215981 AAATATTAAA
1 AAAAATTAAA
27215991 TTTTAATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.66, C:0.12, G:0.06, T:0.15
Consensus pattern (28 bp):
AAAAATTAAAATGCAAAAATAAAACCCA
Found at i:27219404 original size:41 final size:40
Alignment explanation
Indices: 27219356--27219456 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
27219346 TCGACCTTGA
** *
27219356 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
27219396 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
27219434 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
27219457 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:27221530 original size:18 final size:18
Alignment explanation
Indices: 27221507--27221543 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27221497 TTTGTGATCA
27221507 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
27221525 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
27221543 A
1 A
27221544 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:27223611 original size:23 final size:21
Alignment explanation
Indices: 27223581--27223662 Score: 60
Period size: 23 Copynumber: 3.7 Consensus size: 21
27223571 CATATAACTT
27223581 CTAT-GTGTTCACATTACAATTC
1 CTATAGTGTTCACATT--AATTC
*
27223603 CTATAGTGTTCGCAAGTTAATTC
1 CTATAGTGTTCAC-A-TTAATTC
* *
27223626 CTATAATGTTCACATGTTATTTC
1 CTATAGTGTTCACA--TTAATTC
*
27223649 TTATAG-GTTCACAT
1 CTATAGTGTTCACAT
27223663 ATTATATAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
22 12 0.24
23 34 0.68
24 1 0.02
25 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (21 bp):
CTATAGTGTTCACATTAATTC
Found at i:27225139 original size:6 final size:6
Alignment explanation
Indices: 27225119--27225194 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
27225109 TTCAACTCAT
* * * *
27225119 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AG TCTAAAA TTTAAA TCT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
* *
27225165 TTTAAG TTTAAA TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
27225195 ATTATTGTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 10 0.19
6 42 0.78
7 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:27225160 original size:35 final size:35
Alignment explanation
Indices: 27225119--27225206 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
27225109 TTCAACTCAT
27225119 TTTAAATTTATTTTAAATTTAAATTTAGT-CTAAAA
1 TTTAAATTTATTTTAAATTTAAATTTA-TACTAAAA
* * * * *
27225154 TTTAAATCTAATTTAAGTTTAAATTTATATTTAAA
1 TTTAAATTTATTTTAAATTTAAATTTATACTAAAA
* *
27225189 TTTAAAATTATTGTAAAT
1 TTTAAATTTATTTTAAAT
27225207 AATAAAATGA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
34 1 0.02
35 41 0.98
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAAATTTATACTAAAA
Found at i:27225187 original size:18 final size:17
Alignment explanation
Indices: 27225119--27225206 Score: 95
Period size: 18 Copynumber: 5.1 Consensus size: 17
27225109 TTCAACTCAT
27225119 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
27225136 TTTAAATTTAGTCTAAAA
1 TTTAAATTTA-TTTTAAA
* * *
27225154 TTTAAATCTAATTTAAG
1 TTTAAATTTATTTTAAA
27225171 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
* *
27225189 TTTAAAATTATTGTAAA
1 TTTAAATTTATTTTAAA
27225206 T
1 T
27225207 AATAAAATGA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
17 28 0.49
18 29 0.51
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:27225857 original size:3 final size:3
Alignment explanation
Indices: 27225851--27225948 Score: 70
Period size: 3 Copynumber: 31.7 Consensus size: 3
27225841 ATCATCATTG
* * * * *
27225851 ATA ATA ATA ATA ATA ATA TTA CTA ATA ACA CTA ATA ATAA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
** * * *
27225897 ATA ATA ATTA GCA TTA ATGA GTA ATA ATA ATA ATA ATA TTA ATA ATA
1 ATA ATA A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
27225944 TTA AT
1 ATA AT
27225949 TTTAATAAAA
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
3 65 0.90
4 7 0.10
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:27227094 original size:31 final size:30
Alignment explanation
Indices: 27227027--27227124 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
27227017 CTCAATTGTC
* * *
27227027 CAAAAATTATATTCTGACCCCCAAACTCTT
1 CAAAAATTATATTTTAACCCACAAACTCTT
27227057 CAAAAATTATATTTTAACCACACAAACT-TAT
1 CAAAAATTATATTTTAACC-CACAAACTCT-T
* * * **
27227088 CCAAAATTACATTTTTACCCTTAAACT-TT
1 CAAAAATTATATTTTAACCCACAAACTCTT
*
27227117 CTAAAATT
1 CAAAAATT
27227125 CCATTTTTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 8 0.14
30 25 0.44
31 24 0.42
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (30 bp):
CAAAAATTATATTTTAACCCACAAACTCTT
Found at i:27227329 original size:176 final size:173
Alignment explanation
Indices: 27227089--27227599 Score: 565
Period size: 176 Copynumber: 2.9 Consensus size: 173
27227079 CAAACTTATC
* * * * *
27227089 CAAAATTA-CATTTTTACCCTTAAACTTTCTAAAATTCCATTTTTGACCTTGATTTTTTAAAAAT
1 CAAAATTACCA-TTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCAT-ATTTTTCAAAAAT
* *
27227153 TACTATTTTACCC-CTAAACTTCTACAAATTTCATTTTTAACCCCAATTTTTCCAAAAATTACTA
64 TACCATTTTACCCTCTAAA-TTCTA-AAATTCCATTTTTAACCCCAATTTTTCCAAAAATTAC-A
* * * *
27227217 TTTTACCCTC-AAACTTCCAAAAATT-CTATTTATGACCTCGATTTTTCT
126 TTTTACCCTCTAAACTTCC-AAAATTACCATTT-TAACCCCGATTCTTCT
** *
27227265 -AAATATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTATTTTTCCAAAAAT
1 CAAA-ATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCATATTTTT-CAAAAAT
* * * *
27227329 TACCATTTTACCCTCGT-ATTTCTAAAACTTCCATTTTTGA-CCCTATTTTTCTAAAAATTACCA
64 TACCATTTTACCCTC-TAAATTCTAAAA-TTCCATTTTTAACCCCAATTTTTCCAAAAATTA-CA
27227392 TTTTACCC-CTAAACTTCCAAAATTACCATTTTAACCCCGATTCTTCT
126 TTTTACCCTCTAAACTTCCAAAATTACCATTTTAACCCCGATTCTTCT
* * *
27227439 CAAAATTACCTTTTTACTCTTAAACTTCCAAAAATTTCATTTTTTAAACCATATTTTTTCAAAAA
1 CAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCA-TTTTT-AACCATA-TTTTTCAAAAA
* * *
27227504 TTACCATTTTACCCTCGAAAGTCTAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTAACAT
63 TTACCATTTTACCCTCTAAATTCTAAAATTCCATTTTTAACCCCAATTTTTCCAAAAATT-ACAT
* *
27227569 TTTACCCTC--GAGTGTCCAAAATTACCATTTT
127 TTTACCCTCTAAACT-TCCAAAATTACCATTTT
27227600 GCCCTCGGGT
Statistics
Matches: 285, Mismatches: 32, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
174 50 0.18
175 73 0.26
176 150 0.53
177 11 0.04
178 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.41
Consensus pattern (173 bp):
CAAAATTACCATTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACCATATTTTTCAAAAATTA
CCATTTTACCCTCTAAATTCTAAAATTCCATTTTTAACCCCAATTTTTCCAAAAATTACATTTTA
CCCTCTAAACTTCCAAAATTACCATTTTAACCCCGATTCTTCT
Found at i:27227560 original size:29 final size:30
Alignment explanation
Indices: 27227087--27227571 Score: 127
Period size: 29 Copynumber: 16.6 Consensus size: 30
27227077 CACAAACTTA
**
27227087 TCCAAAATTA-CATTTTT-ACCCTTAAACTT
1 TCCAAAATTACCATTTTTAACCC-TAATTTT
* * * *
27227116 TCTAAAATT-CCATTTTTGACCTTGATTTT
1 TCCAAAATTACCATTTTTAACCCTAATTTT
** * * **
27227145 TTAAAAATTACTA-TTTTACCCCTAA-ACT
1 TCCAAAATTACCATTTTTAACCCTAATTTT
* * *
27227173 TCTACAAATT-TCATTTTTAACCCCAATTTT
1 TCCA-AAATTACCATTTTTAACCCTAATTTT
* **
27227203 TCCAAAAATTACTA-TTTT-ACCCTCAA-ACT
1 TCC-AAAATTACCATTTTTAACCCT-AATTTT
* * * *
27227232 TCCAAAAATT-CTATTTATGA-CCTCGATTTT
1 TCC-AAAATTACCATTTTTAACCCT-AATTTT
* *
27227262 TCTAAATATTACCA-TTTT-ACCCTCGAA--CT
1 TCCAAA-ATTACCATTTTTAACCCT--AATTTT
27227291 TCCAAAAATT-CCATTTTTAACCCT-ATTTT
1 TCC-AAAATTACCATTTTTAACCCTAATTTT
** *
27227320 TCCAAAAATTACCA-TTTT-ACCCTCGTATT
1 TCC-AAAATTACCATTTTTAACCCTAATTTT
* *
27227349 TCTAAAACTT-CCATTTTTGACCCT-ATTTT
1 TCCAAAA-TTACCATTTTTAACCCTAATTTT
* * **
27227378 TCTAAAAATTACCA-TTTTACCCCTAA-ACT
1 TC-CAAAATTACCATTTTTAACCCTAATTTT
** *
27227407 TCCAAAATTACCA-TTTTAACCCCGATTCT
1 TCCAAAATTACCATTTTTAACCCTAATTTT
* **
27227436 TCTCAAAATTACC-TTTTT-ACTCTTAA-ACT
1 TC-CAAAATTACCATTTTTAAC-CCTAATTTT
* * *
27227465 TCCAAAAATT-TCATTTTTTAAACCATATTTTT
1 TCC-AAAATTACCA-TTTTT-AACCCTAATTTT
* **
27227497 TCAAAAATTACCA-TTTT-ACCCTCGAA--AG
1 TCCAAAATTACCATTTTTAACCCT--AATTTT
*
27227525 TCTAAAATT-CCATTTTTAACCCTAATTTT
1 TCCAAAATTACCATTTTTAACCCTAATTTT
*
27227554 TCCAAAAATTAACATTTT
1 TCC-AAAATTACCATTTT
27227572 ACCCTCGAGT
Statistics
Matches: 333, Mismatches: 75, Indels: 94
0.66 0.15 0.19
Matches are distributed among these distances:
27 6 0.02
28 59 0.18
29 153 0.46
30 88 0.26
31 20 0.06
32 7 0.02
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.42
Consensus pattern (30 bp):
TCCAAAATTACCATTTTTAACCCTAATTTT
Found at i:27227575 original size:29 final size:30
Alignment explanation
Indices: 27227187--27227576 Score: 164
Period size: 29 Copynumber: 13.3 Consensus size: 30
27227177 CAAATTTCAT
* *
27227187 TTTTAACCCCAATTTTTCCAAAAATTACTA
1 TTTTAACCCTAATTTTTCCAAAAATTACCA
** *
27227217 TTTT-ACCCTCAA-ACTTCCAAAAATT-CTA
1 TTTTAACCCT-AATTTTTCCAAAAATTACCA
* * * *
27227245 TTTATGA-CCTCGATTTTTCTAAATATTACCA
1 TTT-TAACCCT-AATTTTTCCAAAAATTACCA
*
27227276 TTTT-ACCCTCGAA--CTTCCAAAAATT-CCA
1 TTTTAACCCT--AATTTTTCCAAAAATTACCA
27227304 TTTTTAACCCT-ATTTTTCCAAAAATTACCA
1 -TTTTAACCCTAATTTTTCCAAAAATTACCA
** * * *
27227334 TTTT-ACCCTCGTATTTCTAAAACTT-CCA
1 TTTTAACCCTAATTTTTCCAAAAATTACCA
* *
27227362 TTTTTGACCCT-ATTTTTCTAAAAATTACCA
1 -TTTTAACCCTAATTTTTCCAAAAATTACCA
* **
27227392 TTTTACCCCTAA-ACTTCC-AAAATTACCA
1 TTTTAACCCTAATTTTTCCAAAAATTACCA
** *
27227420 TTTTAACCCCGATTCTTCTC-AAAATTACC-
1 TTTTAACCCTAATTTTTC-CAAAAATTACCA
* * ** *
27227449 TTTTTACTCTTAA-ACTTCCAAAAATT-TCA
1 TTTTAAC-CCTAATTTTTCCAAAAATTACCA
* *
27227478 TTTTTTAAACC-ATATTTTTTCAAAAATTACCA
1 --TTTTAACCCTA-ATTTTTCCAAAAATTACCA
** *
27227510 TTTT-ACCCTCGAA--AGT-CTAAAATT-CCA
1 TTTTAACCCT--AATTTTTCCAAAAATTACCA
*
27227537 TTTTTAACCCTAATTTTTCCAAAAATTAACA
1 -TTTTAACCCTAATTTTTCCAAAAATTACCA
27227568 TTTT-ACCCT
1 TTTTAACCCT
27227577 CGAGTGTCCA
Statistics
Matches: 272, Mismatches: 52, Indels: 73
0.69 0.13 0.18
Matches are distributed among these distances:
27 6 0.02
28 49 0.18
29 124 0.46
30 66 0.24
31 24 0.09
32 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (30 bp):
TTTTAACCCTAATTTTTCCAAAAATTACCA
Found at i:27227577 original size:58 final size:59
Alignment explanation
Indices: 27227090--27227579 Score: 436
Period size: 58 Copynumber: 8.4 Consensus size: 59
27227080 AAACTTATCC
* * * * *
27227090 AAAATTA-CATTTTTACCCT-TAAACTTTCTAAAATTCCATTTTTGACCTTGATTTTT-TA
1 AAAATTACCA-TTTTACCCTCGAAAC-TTCTAAAATTCCATTTTTAACCCTAATTTTTCCA
* * * *
27227148 AAAATTACTATTTTACCC-CTAAACTTCTACAAATTTCATTTTTAACCCCAATTTTTCCA
1 AAAATTACCATTTTACCCTCGAAACTTCTA-AAATTCCATTTTTAACCCTAATTTTTCCA
* * * * * * *
27227207 AAAATTACTATTTTACCCTC-AAACTTCCAAAAATTCTATTTATGA-CCTCGATTTTTCTA
1 AAAATTACCATTTTACCCTCGAAACTT-CTAAAATTCCATTTTTAACCCT-AATTTTTCCA
* *
27227266 AATATTACCATTTTACCCTCG-AACTTCCAAAAATTCCATTTTTAACCCT-ATTTTTCCA
1 AAAATTACCATTTTACCCTCGAAACTT-CTAAAATTCCATTTTTAACCCTAATTTTTCCA
* * * *
27227324 AAAATTACCATTTTACCCTCG-TATTTCTAAAACTTCCATTTTTGACCCT-ATTTTTCTA
1 AAAATTACCATTTTACCCTCGAAACTTCTAAAA-TTCCATTTTTAACCCTAATTTTTCCA
* * ** *
27227382 AAAATTACCATTTTACCC-CTAAACTTCCAAAATTACCA-TTTTAACCCCGATTCTTCTC-
1 AAAATTACCATTTTACCCTCGAAACTTCTAAAATT-CCATTTTTAACCCTAATTTTTC-CA
* * * * * * *
27227440 AAAATTACCTTTTTACTCT-TAAACTTCCAAAAATTTCATTTTTTAAACC-ATATTTTTTCA
1 AAAATTACCATTTTACCCTCGAAACTT-CTAAAATTCCA-TTTTTAACCCTA-ATTTTTCCA
*
27227500 AAAATTACCATTTTACCCTCGAAA-GTCTAAAATTCCATTTTTAACCCTAATTTTTCCA
1 AAAATTACCATTTTACCCTCGAAACTTCTAAAATTCCATTTTTAACCCTAATTTTTCCA
*
27227558 AAAATTAACATTTTACCCTCGA
1 AAAATTACCATTTTACCCTCGA
27227580 GTGTCCAAAA
Statistics
Matches: 358, Mismatches: 52, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
57 21 0.06
58 195 0.54
59 102 0.28
60 37 0.10
61 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAAACTTCTAAAATTCCATTTTTAACCCTAATTTTTCCA
Found at i:27227598 original size:28 final size:28
Alignment explanation
Indices: 27227500--27227617 Score: 96
Period size: 28 Copynumber: 4.1 Consensus size: 28
27227490 TATTTTTTCA
** *
27227500 AAAATTACCATTTTACCCTCGAAAGTCT
1 AAAATTACCATTTTACCCTCGAGTGTCC
* * *
27227528 AAAATT-CCATTTTTAACCCT-AATTTTTCC
1 AAAATTACCA-TTTT-ACCCTCGA-GTGTCC
*
27227557 AAAAATTAACATTTTACCCTCGAGTGTCC
1 -AAAATTACCATTTTACCCTCGAGTGTCC
* * *
27227586 AAAATTACCATTTTGCCCTCGGGTATCC
1 AAAATTACCATTTTACCCTCGAGTGTCC
27227614 AAAA
1 AAAA
27227618 ATCACTTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.04
28 39 0.55
29 16 0.23
30 11 0.15
31 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (28 bp):
AAAATTACCATTTTACCCTCGAGTGTCC
Found at i:27232189 original size:49 final size:48
Alignment explanation
Indices: 27232090--27232191 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
27232080 AGGTCTCAGC
* * * *
27232090 ACCATGAAACATGAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
1 ACCACGAAACACGAAGGGAAAGATCTAAGCCACAACGACAGATCCAGT
* * * *
27232138 ACCACGAAACACGACGGGAAAGATTTAAGACCACAACGGCAGATCCGGT
1 ACCACGAAACACGAAGGGAAAGATCTAAG-CCACAACGACAGATCCAGT
27232187 ACCAC
1 ACCAC
27232192 AAAGATTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
48 25 0.56
49 20 0.44
ACGTcount: A:0.39, C:0.26, G:0.24, T:0.11
Consensus pattern (48 bp):
ACCACGAAACACGAAGGGAAAGATCTAAGCCACAACGACAGATCCAGT
Found at i:27232283 original size:100 final size:99
Alignment explanation
Indices: 27232144--27232527 Score: 405
Period size: 99 Copynumber: 3.9 Consensus size: 99
27232134 CAGTACCACG
* * * * * *
27232144 AAACACGACGGGAAAGATTTAAGACCACAACGGCAGATCCGGTACCACAAAGATTTAAAGGGAAA
1 AAACATGAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATATAAAGGGAAA
* *
27232209 GATTTAAGTCGCAATGGCGAACCTAGTACTTCAAA
66 GATTTAAGTCGCAACGGCGAACCTTGTAC-TCAAA
* * * * *
27232244 AGACATGAAGGGAAATATCTAAGATCGCAACGGCGGATCCAGTACCACAAAGATACAAAGGGAAA
1 AAACATGAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATATAAAGGGAAA
* *
27232309 GGTTTAAGTCGCAACGACGAACCTTGTAC-CAAGA
66 GATTTAAGTCGCAACGGCGAACCTTGTACTCAA-A
* * * * * * * *
27232343 AAACACGAACGGAAAGATCTAAGACTGCAACGGTAGATCTAGTACCACAAAAATTTAAAAGGAAA
1 AAACATGAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATATAAAGGGAAA
* * *
27232408 GGTTTAAGTCACAATGGCGAAACCTTGTA-TCACAA
66 GATTTAAGTCGCAACGGCG-AACCTTGTACTCA-AA
* * * * * *
27232443 ATACATGAAGGGAAAGATCTAAG-CCGCAACAGCGGATCCAGTACCTCAAAGACATGAAGGGAAA
1 AAACATGAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATATAAAGGGAAA
* *
27232507 GATTTCAGCCGCAACGGCGAA
66 GATTTAAGTCGCAACGGCGAA
27232528 TCCAATACCG
Statistics
Matches: 230, Mismatches: 50, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
98 5 0.02
99 113 0.49
100 111 0.48
101 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (99 bp):
AAACATGAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGATATAAAGGGAAA
GATTTAAGTCGCAACGGCGAACCTTGTACTCAAA
Found at i:27232338 original size:49 final size:49
Alignment explanation
Indices: 27232153--27232579 Score: 240
Period size: 49 Copynumber: 8.6 Consensus size: 49
27232143 GAAACACGAC
* * * * *
27232153 GGGAAAGATTTAAGACCACAACGGCAGATCC-GGTACCACAAAGATTTAAA
1 GGGAAAGATTTAAG-TCGCAACGGC-GAACCTAGTACCACAAAGATATAAA
* * *
27232203 GGGAAAGATTTAAGTCGCAATGGCGAACCTAGTACTTCA-AAAGACATGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAACCTAGTAC--CACAAAGATATAAA
* * * *
27232253 GGGAAATATCTAAGATCGCAACGGCGGATCC-AGTACCACAAAGATACAAA
1 GGGAAAGATTTAAG-TCGCAACGGC-GAACCTAGTACCACAAAGATATAAA
* * * * * **
27232303 GGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCA-AGAAAACACGAA
1 GGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCACA-AAGATATAAA
* * * * * * *
27232352 CGGAAAGATCTAAGACTGCAACGG-TAGATCTAGTACCACAAAAATTTAAA
1 GGGAAAGATTTAAGTC-GCAACGGCGA-ACCTAGTACCACAAAGATATAAA
* * * * * * * * *
27232402 AGGAAAGGTTTAAGTCACAATGGCGAAACCTTGTATCACAAATACATGAA
1 GGGAAAGATTTAAGTCGCAACGGCG-AACCTAGTACCACAAAGATATAAA
* * * * * * *
27232452 GGGAAAGATCTAAGCCGCAACAGCGGATCC-AGTACCTCAAAGACATGAA
1 GGGAAAGATTTAAGTCGCAACGGC-GAACCTAGTACCACAAAGATATAAA
* * * * * *
27232501 GGGAAAGATTTCAGCCGCAACGGCGAATCC-AATACCGCAAAGACATAAG
1 GGGAAAGATTTAAGTCGCAACGGCGAA-CCTAGTACCACAAAGATATAAA
*
27232550 GGGAAA-AGTTTAAGTCGCAATGGCGAACCT
1 GGGAAAGA-TTTAAGTCGCAACGGCGAACCT
27232580 TATACTTCAT
Statistics
Matches: 287, Mismatches: 73, Indels: 35
0.73 0.18 0.09
Matches are distributed among these distances:
48 14 0.05
49 128 0.45
50 122 0.43
51 19 0.07
52 4 0.01
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (49 bp):
GGGAAAGATTTAAGTCGCAACGGCGAACCTAGTACCACAAAGATATAAA
Found at i:27233020 original size:17 final size:17
Alignment explanation
Indices: 27232999--27233097 Score: 89
Period size: 17 Copynumber: 5.7 Consensus size: 17
27232989 CTGAACTCAT
27232999 TTTAAATTTATTTGAAGA
1 TTTAAATTTATTT-AAGA
27233017 -TTAAATTTATTTTAA-A
1 TTTAAATTTA-TTTAAGA
* *
27233033 TTTAAATTTACTCTAAAA
1 TTTAAATTTA-TTTAAGA
27233051 TTTAAATTTAATTTAAG-
1 TTTAAATTT-ATTTAAGA
27233068 TTTAAATTTATATTTAA-A
1 TTTAAA-TT-TATTTAAGA
*
27233086 TTTAAAATTATT
1 TTTAAATTTATT
27233098 GTAAACAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
16 5 0.07
17 31 0.45
18 31 0.45
19 2 0.03
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTAAGA
Found at i:27233038 original size:6 final size:6
Alignment explanation
Indices: 27233017--27233091 Score: 75
Period size: 6 Copynumber: 12.8 Consensus size: 6
27233007 TATTTGAAGA
* * *
27233017 TTAAAT TT-ATT TTAAAT TTAAAT TT-ACT CTAAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT
* *
27233063 TTAAGT TTAAAT TTATAT TTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
27233092 ATTATTGTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 11 0.20
6 42 0.76
7 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:27233077 original size:12 final size:11
Alignment explanation
Indices: 27232999--27233090 Score: 64
Period size: 12 Copynumber: 8.0 Consensus size: 11
27232989 CTGAACTCAT
27232999 TTTAAATTT-A
1 TTTAAATTTAA
*
27233009 TTTGAAGATTAAA
1 TTT-AA-ATTTAA
*
27233022 TTT-ATTTTAAA
1 TTTAAATTT-AA
*
27233033 TTTAAATTTAC
1 TTTAAATTTAA
*
27233044 TCTAAAATTTAAA
1 T-TTAAATTT-AA
27233057 TTT-AATTTAA
1 TTTAAATTTAA
27233067 GTTTAAATTTATA
1 -TTTAAATTTA-A
27233080 TTTAAATTTAA
1 TTTAAATTTAA
27233091 AATTATTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
10 7 0.11
11 19 0.30
12 31 0.48
13 7 0.11
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.52
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:27233087 original size:35 final size:34
Alignment explanation
Indices: 27232999--27233091 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
27232989 CTGAACTCAT
* *
27232999 TTTAAATTTATTTGAAGA-TTAAATTTATTTTAAA
1 TTTAAATTTATTT-AAAATTTAAATTTAATTTAAA
* *
27233033 TTTAAATTTACTCTAAAATTTAAATTTAATTTAAG
1 TTTAAATTTA-TTTAAAATTTAAATTTAATTTAAA
*
27233068 TTTAAATTTATATTTAAATTTAAA
1 TTTAAATTTAT-TTAAAATTTAAA
27233092 ATTATTGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
34 14 0.28
35 36 0.72
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (34 bp):
TTTAAATTTATTTAAAATTTAAATTTAATTTAAA
Found at i:27234982 original size:29 final size:29
Alignment explanation
Indices: 27234936--27235085 Score: 94
Period size: 29 Copynumber: 5.1 Consensus size: 29
27234926 AAACTATCTA
*
27234936 AAAATTATATTCTAACCC-CAAACTCTTCC
1 AAAATTATATTTTAACCCTCAAACT-TTCC
* *
27234965 AAAATTATATTTTGACCCTTCAAATTTCTCC
1 AAAATTATATTTTAACCC-TCAAACTT-TCC
* * **
27234996 AAAATTACATTTTTACCCTTGAACTTTCC
1 AAAATTATATTTTAACCCTCAAACTTTCC
* ** **
27235025 AAAATTCCAT-TTTTGA-CCTCAATTTTTTA
1 AAAATT--ATATTTTAACCCTCAAACTTTCC
*
27235054 AAAATTACCATTTT-ACCCTCAAAC-TTCC
1 AAAATTA-TATTTTAACCCTCAAACTTTCC
27235082 AAAA
1 AAAA
27235086 ATTCCAATTT
Statistics
Matches: 92, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 7 0.08
29 48 0.52
30 11 0.12
31 25 0.27
ACGTcount: A:0.35, C:0.25, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTATATTTTAACCCTCAAACTTTCC
Found at i:27235037 original size:60 final size:58
Alignment explanation
Indices: 27234950--27235133 Score: 180
Period size: 58 Copynumber: 3.1 Consensus size: 58
27234940 TTATATTCTA
** *
27234950 ACCC-CAAACTCTTCCAAAATTATATTTTGACCCTTCAAATTTCTCCAAAATTA-CATTTTT
1 ACCCTCAAACT-TTCCAAAATTCCATTTTGA-CC-TCAAATTTTTCCAAAATTACCA-TTTT
** **
27235010 ACCCTTGAACTTTCCAAAATTCCATTTTTGACCTC-AATTTTTTAAAAATTACCATTTT
1 ACCCTCAAACTTTCCAAAATTCCA-TTTTGACCTCAAATTTTTCCAAAATTACCATTTT
*
27235068 ACCCTCAAAC-TTCCAAAAATTCCAATTTTAAACC-CAAATTTTTCCAAAAATTACCATTTT
1 ACCCTCAAACTTTCC-AAAATTCC-ATTTT-GACCTCAAATTTTTCC-AAAATTACCATTTT
27235128 ACCCTC
1 ACCCTC
27235134 GAGTGTCCAA
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
57 4 0.04
58 38 0.37
59 15 0.14
60 37 0.36
61 10 0.10
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (58 bp):
ACCCTCAAACTTTCCAAAATTCCATTTTGACCTCAAATTTTTCCAAAATTACCATTTT
Found at i:27235086 original size:29 final size:30
Alignment explanation
Indices: 27234960--27235133 Score: 98
Period size: 29 Copynumber: 5.9 Consensus size: 30
27234950 ACCCCAAACT
*
27234960 CTTCC-AAAATTA-TATTTTGACCCTTCAAA
1 CTTCCAAAAATTACCATTTTGACCC-TCAAA
* * * **
27234989 TTTCTCCAAAATTA-CATTTTTACCCTTGAA
1 CTTC-CAAAAATTACCATTTTGACCCTCAAA
*
27235019 CTTTCC-AAAATT-CCATTTTTGA-CCTCAAT
1 C-TTCCAAAAATTACCA-TTTTGACCCTCAAA
* **
27235048 TTTTTAAAAATTACCATTTT-ACCCTCAAA
1 CTTCCAAAAATTACCATTTTGACCCTCAAA
* *
27235077 CTTCCAAAAATT-CCAATTTTAAACC-CAAA
1 CTTCCAAAAATTACC-ATTTTGACCCTCAAA
*
27235106 TTTTTCCAAAAATTACCATTTT-ACCCTC
1 --CTTCCAAAAATTACCATTTTGACCCTC
27235134 GAGTGTCCAA
Statistics
Matches: 111, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
28 5 0.05
29 49 0.44
30 19 0.17
31 36 0.32
32 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (30 bp):
CTTCCAAAAATTACCATTTTGACCCTCAAA
Found at i:27235143 original size:29 final size:29
Alignment explanation
Indices: 27235110--27235175 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
27235100 CCCAAATTTT
*
27235110 TCCAAAAATTACCATTTTACCCTCGAGTG
1 TCCAAAAATTACCATTTTACCCTCGAGTA
* * * *
27235139 TCC-AAAATTATCATTTTGCCCTTGGGTA
1 TCCAAAAATTACCATTTTACCCTCGAGTA
27235167 TCCAAAAAT
1 TCCAAAAAT
27235176 CACTTTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAGTA
Found at i:27236609 original size:14 final size:15
Alignment explanation
Indices: 27236581--27236622 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
27236571 AAGATTAAAG
*
27236581 TATAATTTTACAATTA
1 TATAA-TTTAAAATTA
27236597 T-TAATTTAAAATTA
1 TATAATTTAAAATTA
*
27236611 TATAAATTAAAA
1 TATAATTTAAAA
27236623 AAACTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 10 0.43
15 12 0.52
16 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATTTAAAATTA
Found at i:27245875 original size:60 final size:59
Alignment explanation
Indices: 27245811--27246154 Score: 286
Period size: 60 Copynumber: 5.7 Consensus size: 59
27245801 AAAATGGGTA
* * *
27245811 TTGGCCATGCAATGGTCGACTCCCCTTTTTAATCTGATAAAAAAATCAAATTTTTGGGTG
1 TTGGCCATGCAATGGTCGACACCCCTTTTT-ATCAGATAAAAAAATCAAATTTTTTGGTG
* * * * *
27245871 TTGGCCATGCAATAGTCGACAACCCTTTTTTGTCAGAT-AAAAAATACAATTTTTTTTGTG
1 TTGGCCATGCAATGGTCGAC-ACCCCTTTTTATCAGATAAAAAAAT-CAAATTTTTTGGTG
* * * * * *
27245931 TTGGCCATACAATGGCCGATACTCCTATTTATCTGATAAAAAAAATCAAATTTTTTGGTG
1 TTGGCCATGCAATGGTCGACACCCCTTTTTATCAGAT-AAAAAAATCAAATTTTTTGGTG
** * *
27245991 TTGGTTATGCAATGG-CTGACACCCC-CTTTCTCAGATAAAAAAATTTCAAATTTTTTTGGTG
1 TTGGCCATGCAATGGTC-GACACCCCTTTTTATCAGATAAAAAAA--TCAAA-TTTTTTGGTG
** *** * * **
27246052 TTGGCCATGCAATGACCGACACCCCCTTTTT-TCAGATAAAATTTTTTATATTTTTTTAATG
1 TTGGCCATGCAATGGTCGACA-CCCCTTTTTATCAGATAAAA-AAATCA-AATTTTTTGGTG
*
27246113 TTGGCCATGCAATGATCGACA-CCCTCTTTT-TCAGATAAAAAA
1 TTGGCCATGCAATGGTCGACACCCCT-TTTTATCAGATAAAAAA
27246155 CTCTCGAAAC
Statistics
Matches: 229, Mismatches: 41, Indels: 29
0.77 0.14 0.10
Matches are distributed among these distances:
58 7 0.03
59 32 0.14
60 100 0.44
61 71 0.31
62 16 0.07
63 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (59 bp):
TTGGCCATGCAATGGTCGACACCCCTTTTTATCAGATAAAAAAATCAAATTTTTTGGTG
Found at i:27248184 original size:2 final size:2
Alignment explanation
Indices: 27248177--27248204 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27248167 TCAAACTTGG
27248177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27248205 CTATTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27256693 original size:23 final size:23
Alignment explanation
Indices: 27256667--27256710 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
27256657 CTCGCTTTCT
27256667 GTTTAACACTGTGTGTGCTCTCC
1 GTTTAACACTGTGTGTGCTCTCC
*
27256690 GTTTAACACTTTGTGTGCTCT
1 GTTTAACACTGTGTGTGCTCT
27256711 TCGATTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (23 bp):
GTTTAACACTGTGTGTGCTCTCC
Found at i:27256762 original size:23 final size:23
Alignment explanation
Indices: 27256679--27256771 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
27256669 TTAACACTGT
* * *
27256679 GTGTGCTCTCCGTTTAACACTTT
1 GTGTGCTCTTCGTTTAGCACTTC
* * * *
27256702 GTGTGCTCTTCGATTGGTACTTT
1 GTGTGCTCTTCGTTTAGCACTTC
* *
27256725 GGGTACTCTTCGTTTAGCACTTC
1 GTGTGCTCTTCGTTTAGCACTTC
* *
27256748 GTGTGCTCTTTGTTTAGTACTTC
1 GTGTGCTCTTCGTTTAGCACTTC
27256771 G
1 G
27256772 GTACACTCTG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (23 bp):
GTGTGCTCTTCGTTTAGCACTTC
Found at i:27277302 original size:32 final size:32
Alignment explanation
Indices: 27277256--27277321 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
27277246 GAAGAATTAT
* * * *
27277256 ATTTTTCATCCTTCTAGTTTT-TTATCCTTTCA
1 ATTTTCCATACTTCTAATTTTCTT-TCCATTCA
27277288 ATTTTCCATACTTCTAATTTTCTTTCCATTCA
1 ATTTTCCATACTTCTAATTTTCTTTCCATTCA
27277320 AT
1 AT
27277322 CAAGCAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.20, C:0.23, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTCCATACTTCTAATTTTCTTTCCATTCA
Found at i:27281819 original size:26 final size:25
Alignment explanation
Indices: 27281783--27281836 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
27281773 TAGTGGCTGG
* *
27281783 TTTGATCAATTGATTCTATTAACTGA
1 TTTGACCAATTGATTCTATCAACT-A
27281809 TTTGACCAATTGATTCTATCAACTA
1 TTTGACCAATTGATTCTATCAACTA
27281834 TTT
1 TTT
27281837 ATTTAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (25 bp):
TTTGACCAATTGATTCTATCAACTA
Found at i:27286660 original size:17 final size:17
Alignment explanation
Indices: 27286640--27286708 Score: 102
Period size: 17 Copynumber: 4.1 Consensus size: 17
27286630 ATCAAGCCTA
*
27286640 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
27286657 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
27286674 ATTATAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
27286691 ATTTTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
27286708 A
1 A
27286709 ATTAAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:27286668 original size:6 final size:6
Alignment explanation
Indices: 27286642--27286709 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
27286632 CAAGCCTAAT
* * *
27286642 TTTAAA TTTTAA TTT-AT TTTAAG TTTAAA TTT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
* *
27286688 TTT-AT TTTAAA TTTGAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAA
27286710 TTAAAAATGT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
4 3 0.06
5 9 0.18
6 34 0.69
7 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:27286682 original size:34 final size:35
Alignment explanation
Indices: 27286638--27286717 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
27286628 AAATCAAGCC
* * *
27286638 TAATTTTAAATTTTAATTTATTTTAAGTTTAAATT
1 TAATTATAAATTTAAATTTATTTTAAATTTAAATT
*
27286673 T-ATTATAAATTTAAATTTATTTTAAATTTGAATT
1 TAATTATAAATTTAAATTTATTTTAAATTTAAATT
*
27286707 TAATTAAAAAT
1 TAATTATAAAT
27286718 GTCTCAAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 30 0.77
35 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (35 bp):
TAATTATAAATTTAAATTTATTTTAAATTTAAATT
Found at i:27288436 original size:29 final size:28
Alignment explanation
Indices: 27288303--27288818 Score: 159
Period size: 29 Copynumber: 17.7 Consensus size: 28
27288293 TTGAACTTTT
* * *
27288303 CAAAAATTATA-TTGACCCTTAAACTTTC
1 CAAAAATTACATTTTACCCCTAAAC-TTC
* * * *
27288331 TAAAAATTATATTTTAACCCTCAAACTTTT
1 CAAAAATTACATTTTACCCCT-AAAC-TTC
* *
27288361 CTAAAATTACATTTTAACCCTCAAACTTC
1 CAAAAATTACATTTTACCCCT-AAACTTC
* * *
27288390 TTAAAAATCATATTTTTACCCCTAAACTATC
1 -CAAAAATTACA-TTTTACCCCTAAACT-TC
*
27288421 CAAAAATTACATTTTAACCCTCAAACTTC
1 CAAAAATTACATTTTACCCCT-AAACTTC
* ** *
27288450 TCTAAAATTATTTTTTGACCCTCGT--ACTTT
1 -CAAAAATTACATTTT-ACCC-C-TAAACTTC
** *
27288480 CAAAAACCACATTTGTACCCCGT--ACTTT
1 CAAAAATTACATTT-TACCCC-TAAACTTC
* * *
27288508 TAAAAATTACTATTTTA-CCCTCGAACATC
1 CAAAAATTAC-ATTTTACCCCT-AAACTTC
* *
27288537 CAACAATTACCATTTTA-CCCTCGAA-TGTC
1 CAAAAATTA-CATTTTACCCCT-AAACT-TC
*
27288566 CAAAAATTACATTTTTGACCTC-AAACTTTC
1 CAAAAATTACA-TTTT-ACCCCTAAAC-TTC
* ** *
27288596 C-AAAATTACCACTTTTGCCCCCGATCTTC
1 CAAAAATTA-CA-TTTTACCCCTAAACTTC
* * * * *
27288625 CAAAAATCATATTTTTA-CCCTCGAGCTTTT
1 CAAAAATTACA-TTTTACCCCT-AAAC-TTC
** *
27288655 CAAAAACCACATTTTTA-CCCTCATACTTC
1 CAAAAATTACA-TTTTACCCCT-AAACTTC
* *
27288684 CAAAAATTACCATTTTACCAC-AAACATC
1 CAAAAATTA-CATTTTACCCCTAAACTTC
* *
27288712 C-AAAATTACCATTTTACCCTTGAA-TGTC
1 CAAAAATTA-CATTTTACCCCTAAACT-TC
*
27288740 CAAAAATTACATTTTTGA-GCCTAAACTTTC
1 CAAAAATTACA-TTTT-ACCCCTAAAC-TTC
*
27288770 CAAAAATTACTATTTTACCCAC-GAA-TATC
1 CAAAAATTAC-ATTTTACCC-CTAAACT-TC
27288799 CAAAAATTACTATTTTACCC
1 CAAAAATTAC-ATTTTACCC
27288819 ACGAGTGTCC
Statistics
Matches: 377, Mismatches: 71, Indels: 79
0.72 0.13 0.15
Matches are distributed among these distances:
26 1 0.00
27 20 0.05
28 46 0.12
29 150 0.40
30 138 0.37
31 20 0.05
32 1 0.00
33 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (28 bp):
CAAAAATTACATTTTACCCCTAAACTTC
Found at i:27288600 original size:30 final size:30
Alignment explanation
Indices: 27288296--27288818 Score: 272
Period size: 30 Copynumber: 17.9 Consensus size: 30
27288286 AAGGTTCTTG
* * * *
27288296 AACTTTTCAAAAATT--ATATTGACCCTTA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
27288324 AACTTTCTAAAAATTATATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
27288354 AACTTTTCTAAAATTACATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
27288384 AAC-TTCTTAAAAATCATATTTTTACCC-CTA
1 AACTTTC-CAAAAATTACATTTTTACCCTC-A
* *
27288414 AACTATCCAAAAATTACATTTTAACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
27288444 AAC-TTCTCTAAAATTA-TTTTTTGACCCTCG
1 AACTTTC-CAAAAATTACATTTTT-ACCCTCA
* ** * *
27288474 TACTTT-CAAAAACCACATTTGTACCC-CG
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * *
27288502 TACTTT-TAAAAATTAC-TATTTTACCCTCG
1 AACTTTCCAAAAATTACAT-TTTTACCCTCA
* * *
27288531 AAC-ATCCAACAATTACCA-TTTTACCCTCG
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
*
27288560 AA-TGTCCAAAAATTACATTTTTGA-CCTCA
1 AACTTTCCAAAAATTACATTTTT-ACCCTCA
* * * *
27288589 AACTTTCC-AAAATTACCACTTTTGCCCCCG
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
* * * *
27288619 ATC-TTCCAAAAATCATATTTTTACCCTCG
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* * **
27288648 AGCTTTTCAAAAACCACATTTTTACCCTCA
1 AACTTTCCAAAAATTACATTTTTACCCTCA
* *
27288678 TAC-TTCCAAAAATTACCA-TTTTA-CCACA
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
* **
27288706 AAC-ATCC-AAAATTACCA-TTTTACCCTTG
1 AACTTTCCAAAAATTA-CATTTTTACCCTCA
* *
27288734 AA-TGTCCAAAAATTACATTTTTGAGCCT-A
1 AACTTTCCAAAAATTACATTTTT-ACCCTCA
* *
27288763 AACTTTCCAAAAATTAC-TATTTTACCCACG
1 AACTTTCCAAAAATTACAT-TTTTACCCTCA
*
27288793 AA-TATCCAAAAATTAC-TATTTTACCC
1 AACTTTCCAAAAATTACAT-TTTTACCC
27288819 ACGAGTGTCC
Statistics
Matches: 386, Mismatches: 77, Indels: 63
0.73 0.15 0.12
Matches are distributed among these distances:
27 16 0.04
28 56 0.15
29 140 0.36
30 169 0.44
31 5 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTTACCCTCA
Found at i:27288639 original size:59 final size:59
Alignment explanation
Indices: 27288332--27288818 Score: 247
Period size: 59 Copynumber: 8.3 Consensus size: 59
27288322 TAAACTTTCT
* * * * * *
27288332 AAAAATTATATTTTAACCCTCAAACTTTTCTAAAATTA-CA-TTTTAACCCTCAAACTTCTT
1 AAAAATTACATTTTTACCCTCAAAC-TTTCCAAAATTACCACTTTT-ACCCTCGATCTTC-C
* * * * *
27288392 AAAAATCATATTTTTACCC-CTAAACTATCCAAAAATTA-CA-TTTTAACCCTCAAACTTCTC
1 AAAAATTACATTTTTACCCTC-AAACTTTCC-AAAATTACCACTTTT-ACCCTCGATCTTC-C
* * ** **
27288452 TAAAATTA-TTTTTTGACCCTCGTACTTT-CAAAA--ACCACATTTGTACCC-CG-TACTTTT
1 AAAAATTACATTTTT-ACCCTCAAACTTTCCAAAATTACCAC-TTT-TACCCTCGAT-CTTCC
* * *
27288509 AAAAATTAC-TATTTTACCCTCGAAC-ATCCAACAATTACCA-TTTTACCCTCGAAT-GTCC
1 AAAAATTACAT-TTTTACCCTCAAACTTTCCAA-AATTACCACTTTTACCCTCG-ATCTTCC
* *
27288567 AAAAATTACATTTTTGA-CCTCAAACTTTCCAAAATTACCACTTTTGCCCCCGATCTTCC
1 AAAAATTACATTTTT-ACCCTCAAACTTTCCAAAATTACCACTTTTACCCTCGATCTTCC
* * * * *
27288626 AAAAATCATATTTTTACCCTCGAGCTTTTCAAAA--ACCACATTTTTACCCTC-ATACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTTCCAAAATTACCAC--TTTTACCCTCGAT-CTTCC
* * * *
27288685 AAAAATTACCA-TTTTA-CCACAAAC-ATCCAAAATTACCA-TTTTACCCTTGAAT-GTCC
1 AAAAATTA-CATTTTTACCCTCAAACTTTCCAAAATTACCACTTTTACCCTCG-ATCTTCC
* * * *
27288741 AAAAATTACATTTTTGAGCCT-AAACTTTCCAAAAATTACTA-TTTTACCCACGAAT-ATCC
1 AAAAATTACATTTTT-ACCCTCAAACTTTCC-AAAATTACCACTTTTACCCTCG-ATCTTCC
27288800 AAAAATTAC-TATTTTACCC
1 AAAAATTACAT-TTTTACCC
27288819 ACGAGTGTCC
Statistics
Matches: 340, Mismatches: 49, Indels: 78
0.73 0.10 0.17
Matches are distributed among these distances:
55 2 0.01
56 26 0.08
57 43 0.13
58 69 0.20
59 129 0.38
60 70 0.21
61 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACATTTTTACCCTCAAACTTTCCAAAATTACCACTTTTACCCTCGATCTTCC
Found at i:27288803 original size:174 final size:171
Alignment explanation
Indices: 27288410--27288823 Score: 498
Period size: 174 Copynumber: 2.4 Consensus size: 171
27288400 TATTTTTACC
* * * *
27288410 CCTAAACTATCCAAAAATTACATTTTAACCCTCAAACTTCTCTAAAATTAT-TTTTTGACCCTCG
1 CCTAAACTTTCCAAAAATTACATTTT-ACCCACGAA-TTC-CAAAAATTATATTTTT-ACCCTCG
* ** * * *
27288474 TA-CTTTCAAAAACCACATTTGTACCCCGTACTTTTAAAAATTACTATTTTACCCTCGAACATCC
62 -AGCTTTCAAAAACCACATTTGTACCCCATACTTCCAAAAATTACCATTTTACCCACAAACATCC
27288538 AACAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGA
126 AACAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGA
* * * *
27288584 CCTCAAACTTTCC-AAAATTACCACTTTTGCCCCCGATCTTCCAAAAATCATATTTTTACCCTCG
1 CCT-AAACTTTCCAAAAATTA-CA-TTTTACCCACGA-ATTCCAAAAATTATATTTTTACCCTCG
*
27288648 AGCTTTTCAAAAACCACATTTTTACCCTCATACTTCCAAAAATTACCATTTTA-CCACAAACATC
62 AGC-TTTCAAAAACCACATTTGTACCC-CATACTTCCAAAAATTACCATTTTACCCACAAACATC
*
27288712 CAA-AATTACCATTTTACCCTTGAATGTCCAAAAATTACATTTTTGA
125 CAACAATTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGA
*
27288758 GCCTAAACTTTCCAAAAATTACTATTTTACCCACGAATATCCAAAAATTACTA-TTTTACCCACG
1 -CCTAAACTTTCCAAAAATTAC-ATTTTACCCACGAAT-TCCAAAAATTA-TATTTTTACCCTCG
27288822 AG
62 AG
27288824 TGTCCAAAAG
Statistics
Matches: 207, Mismatches: 20, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
173 2 0.01
174 110 0.53
175 70 0.34
176 25 0.12
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (171 bp):
CCTAAACTTTCCAAAAATTACATTTTACCCACGAATTCCAAAAATTATATTTTTACCCTCGAGCT
TTCAAAAACCACATTTGTACCCCATACTTCCAAAAATTACCATTTTACCCACAAACATCCAACAA
TTACCATTTTACCCTCGAATGTCCAAAAATTACATTTTTGA
Found at i:27288819 original size:29 final size:29
Alignment explanation
Indices: 27288509--27288899 Score: 177
Period size: 29 Copynumber: 13.5 Consensus size: 29
27288499 CCGTACTTTT
* * *
27288509 AAAAATTACTATTTTACCCTCGAACATCC
1 AAAAATTACCATTTTACCCACGAATATCC
* * *
27288538 AACAATTACCATTTTACCCTCGAATGTCC
1 AAAAATTACCATTTTACCCACGAATATCC
*
27288567 AAAAATTA-CATTTTTGACCTCA--AACTTTCC
1 AAAAATTACCA-TTTT-ACC-CACGAA-TATCC
* * *
27288597 -AAAATTACCACTTTTGCCCCCG-ATCTTCC
1 AAAAATTACCA-TTTTACCCACGAAT-ATCC
* * * * * *
27288626 AAAAATCA-TATTTTTACCCTCGAGCTTTTC
1 AAAAATTACCA-TTTTACCCACGA-ATATCC
** *
27288656 AAAAACCA-CATTTTTACCCTC--ATACTTCC
1 AAAAATTACCA-TTTTACCCACGAATA--TCC
* *
27288685 AAAAATTACCATTTTA-CCACAAACATCC
1 AAAAATTACCATTTTACCCACGAATATCC
** *
27288713 -AAAATTACCATTTTACCCTTGAATGTCC
1 AAAAATTACCATTTTACCCACGAATATCC
* *
27288741 AAAAATTA-CATTTTTGAGCCTA--AACTTTCC
1 AAAAATTACCA-TTTT-A-CCCACGAA-TATCC
*
27288771 AAAAATTACTATTTTACCCACGAATATCC
1 AAAAATTACCATTTTACCCACGAATATCC
* * *
27288800 AAAAATTACTATTTTACCCACGAGTGTCC
1 AAAAATTACCATTTTACCCACGAATATCC
* * *
27288829 AAAAGTTACCATTTCACACC-CGAACATCC
1 AAAAATTACCATTTTAC-CCACGAATATCC
* * * *
27288858 AAAAATTACCGTTTTCCCCCCG-ACATCC
1 AAAAATTACCATTTTACCCACGAATATCC
*
27288886 AAAGATTA-CATTTT
1 AAAAATTACCATTTT
27288900 GACTTCATTT
Statistics
Matches: 284, Mismatches: 51, Indels: 56
0.73 0.13 0.14
Matches are distributed among these distances:
27 21 0.07
28 37 0.13
29 155 0.55
30 66 0.23
31 5 0.02
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCACGAATATCC
Found at i:27293630 original size:16 final size:15
Alignment explanation
Indices: 27293600--27293633 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
27293590 TAAATTTTTT
27293600 AATTATTTATATTAA
1 AATTATTTATATTAA
*
27293615 AATTACTTTATTTTAA
1 AATTA-TTTATATTAA
27293631 AAT
1 AAT
27293634 AAATGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATTTATATTAA
Found at i:27295014 original size:13 final size:13
Alignment explanation
Indices: 27294996--27295022 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27294986 TCACCTAATT
27294996 TTTTTATAATGAA
1 TTTTTATAATGAA
27295009 TTTTTATAATGAA
1 TTTTTATAATGAA
27295022 T
1 T
27295023 AATGAGCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTTTATAATGAA
Found at i:27296116 original size:12 final size:12
Alignment explanation
Indices: 27296099--27296128 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27296089 TTTATTCTAG
27296099 TTAATTAATTAT
1 TTAATTAATTAT
27296111 TTAATTAATTAT
1 TTAATTAATTAT
*
27296123 TCAATT
1 TTAATT
27296129 CAGTTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAATTAATTAT
Found at i:27301172 original size:4 final size:4
Alignment explanation
Indices: 27301156--27301403 Score: 153
Period size: 4 Copynumber: 63.0 Consensus size: 4
27301146 ACTGCAGTTT
* * * * * * *
27301156 CATA CACA CATA CATA CATA TATA TATA TATA CACA CATA CACA CTTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
27301204 CATA CATA TATA CACA CATA CACA CATA CATA CAT- -ATA TATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
27301250 CACA CATA CATA CATA TATA TATA TATA CACA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
27301298 TATA TATA CACA CATA CATA CATA TATA TATA TACA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
27301346 CAT- -ATA TATA TATA CACA CATA CATA CATA TATA TATA TATA TACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
27301392 TATA CATA CATA
1 CATA CATA CATA
27301404 TATATATATA
Statistics
Matches: 202, Mismatches: 38, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
2 4 0.02
4 198 0.98
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.30
Consensus pattern (4 bp):
CATA
Found at i:27301197 original size:28 final size:28
Alignment explanation
Indices: 27301157--27301415 Score: 387
Period size: 28 Copynumber: 9.1 Consensus size: 28
27301147 CTGCAGTTTC
27301157 ATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
* * * *
27301185 ATACACACATACACACTTACATACATAT
1 ATACACACATACATACATATATATATAT
27301213 ATACACACATACACACATACATACATATATATAT
1 ATACACACAT----ACATACAT--ATATATATAT
27301247 ATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
27301275 ATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
27301303 ATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
*
27301331 ACACACACATACATAC--ATATATATAT
1 ATACACACATACATACATATATATATAT
27301357 ATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
* *
27301385 ATATACATATACATACATATATATATAT
1 ATACACACATACATACATATATATATAT
27301413 ATA
1 ATA
27301416 TGTAAATGTG
Statistics
Matches: 211, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
26 25 0.12
28 154 0.73
30 8 0.04
32 6 0.03
34 18 0.09
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (28 bp):
ATACACACATACATACATATATATATAT
Found at i:27301252 original size:54 final size:54
Alignment explanation
Indices: 27301193--27301413 Score: 361
Period size: 54 Copynumber: 4.1 Consensus size: 54
27301183 ATATACACAC
* * * *
27301193 ATACACACTTACATACATATATACACACATACACACATACATACATATATATAT
1 ATACACACATACATACATATATATATATATACACACATACATACATATATATAT
27301247 ATACACACATACATACATATATATATATATACACACATACATACATATATATATAT
1 ATACACACATACATACATATATATATATATACACACATACATAC--ATATATATAT
*
27301303 ATACACACATACATACATATATATATATACACACACATACATACATATATATAT
1 ATACACACATACATACATATATATATATATACACACATACATACATATATATAT
* *
27301357 ATACACACATACATACATATATATATATATATACATATACATACATATATATAT
1 ATACACACATACATACATATATATATATATACACACATACATACATATATATAT
27301411 ATA
1 ATA
27301414 TATGTAAATG
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
54 104 0.66
56 53 0.34
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (54 bp):
ATACACACATACATACATATATATATATATACACACATACATACATATATATAT
Found at i:27321179 original size:23 final size:22
Alignment explanation
Indices: 27321153--27321204 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27321143 TTCTCTGTTA
* *
27321153 TTAGTACGTGTAGTATTCTTCGT
1 TTAGCACGT-TAGTACTCTTCGT
* *
27321176 TTAGCACGTTTGTGCTCTTCGT
1 TTAGCACGTTAGTACTCTTCGT
27321198 TTAGCAC
1 TTAGCAC
27321205 CTTGGTGCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.44
Consensus pattern (22 bp):
TTAGCACGTTAGTACTCTTCGT
Found at i:27321197 original size:22 final size:22
Alignment explanation
Indices: 27321169--27321220 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
27321159 CGTGTAGTAT
* *
27321169 TCTTCGTTTAGCACGTTTGTGC
1 TCTTCGTTTAGCACCTTGGTGC
27321191 TCTTCGTTTAGCACCTTGGTGC
1 TCTTCGTTTAGCACCTTGGTGC
*
27321213 TCTCCGTT
1 TCTTCGTT
27321221 CTTTTATGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.08, C:0.27, G:0.21, T:0.44
Consensus pattern (22 bp):
TCTTCGTTTAGCACCTTGGTGC
Found at i:27322069 original size:25 final size:25
Alignment explanation
Indices: 27322028--27322075 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
27322018 TGTTGTTTTA
27322028 ATATTTGTAAATGTATTTGATATATC
1 ATATTTGTAAATGTATTT-ATATATC
27322054 ATATTT-TAAAAT-TATTTATATA
1 ATATTTGT-AAATGTATTTATATA
27322076 ATAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 6 0.29
26 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (25 bp):
ATATTTGTAAATGTATTTATATATC
Found at i:27324915 original size:54 final size:54
Alignment explanation
Indices: 27324839--27324947 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 54
27324829 ACCATAATTT
* *
27324839 GCATCTCAAAACACCTCATTGTCATCAATGATGAACAAATGGGTGCAAGCTTTC
1 GCATCTCAAAACACCCCATTGTCATCAATGATAAACAAATGGGTGCAAGCTTTC
*
27324893 GCATCTC-AAACACCCCATTTGTCGTCAATGATAAACAAATGGGTGCAAGCTTTC
1 GCATCTCAAAACACCCCA-TTGTCATCAATGATAAACAAATGGGTGCAAGCTTTC
27324947 G
1 G
27324948 GAGGCCCACA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 9 0.18
54 42 0.82
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (54 bp):
GCATCTCAAAACACCCCATTGTCATCAATGATAAACAAATGGGTGCAAGCTTTC
Found at i:27326325 original size:2 final size:2
Alignment explanation
Indices: 27326320--27326351 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27326310 CACACACACA
27326320 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27326352 TATATTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27331830 original size:18 final size:18
Alignment explanation
Indices: 27331789--27331830 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27331779 ATATCAAGAT
*
27331789 ATAAAATAAAGAATAATT
1 ATAAAATAAAGAATAATA
*
27331807 ACAAAATAAA-AATAATA
1 ATAAAATAAAGAATAATA
27331824 ATTAAAA
1 A-TAAAA
27331831 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAATAAAGAATAATA
Found at i:27334578 original size:2 final size:2
Alignment explanation
Indices: 27334573--27334603 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27334563 CAAAAATCTA
*
27334573 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27334604 TTCACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:27335170 original size:31 final size:30
Alignment explanation
Indices: 27335135--27335193 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
27335125 GATCCAACAA
*
27335135 ACCCAAACCCATGACCCAAACCCTATACCTG
1 ACCCAAACCCATGACCC-AACCCGATACCTG
*
27335166 ACCCAAACCCGTGACCCAACCCGATACC
1 ACCCAAACCCATGACCCAACCCGATACC
27335194 CGTGAGCCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.34, C:0.47, G:0.08, T:0.10
Consensus pattern (30 bp):
ACCCAAACCCATGACCCAACCCGATACCTG
Found at i:27336340 original size:39 final size:38
Alignment explanation
Indices: 27336297--27336372 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 38
27336287 TTTTTAATCT
27336297 TTTTC-ATCTATTAT-TCATTAAGAATTATTTTTGGATTTA
1 TTTTCAAT-TATTATATCATT-A-AATTATTTTTGGATTTA
*
27336336 TTTTCAGATTATTATATTATTAAATTATTTTTGGATT
1 TTTTCA-ATTATTATATCATTAAATTATTTTTGGATT
27336373 GTAATGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 20 0.61
40 7 0.21
41 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (38 bp):
TTTTCAATTATTATATCATTAAATTATTTTTGGATTTA
Found at i:27336886 original size:20 final size:18
Alignment explanation
Indices: 27336847--27336886 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
27336837 ACTTCGTGTT
27336847 TTAATTAAAATATGTATA
1 TTAATTAAAATATGTATA
*
27336865 TTAATATAAAATTTGATATA
1 TTAAT-TAAAATATG-TATA
27336885 TT
1 TT
27336887 TATGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TTAATTAAAATATGTATA
Found at i:27339259 original size:16 final size:17
Alignment explanation
Indices: 27339240--27339275 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27339230 TCAATAAAGT
*
27339240 AAATTA-AAAATTATAA
1 AAATTACAAAATAATAA
27339256 AAATTACAAAATAATAA
1 AAATTACAAAATAATAA
27339273 AAA
1 AAA
27339276 GCATTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATTACAAAATAATAA
Found at i:27345405 original size:18 final size:18
Alignment explanation
Indices: 27345364--27345405 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27345354 ATATCAAGAT
*
27345364 ATAAAATAAAGAATAATT
1 ATAAAATAAAGAATAATA
*
27345382 ACAAAATAAA-AATAATA
1 ATAAAATAAAGAATAATA
27345399 ATTAAAA
1 A-TAAAA
27345406 ATTATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAATAAAGAATAATA
Found at i:27348153 original size:2 final size:2
Alignment explanation
Indices: 27348148--27348178 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27348138 CAAAAATCTA
*
27348148 TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27348179 TTCACTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:27348745 original size:31 final size:30
Alignment explanation
Indices: 27348710--27348768 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
27348700 GATCCAACAA
*
27348710 ACCCAAACCCATGACCCAAACCCTATACCTG
1 ACCCAAACCCATGACCC-AACCCGATACCTG
*
27348741 ACCCAAACCCGTGACCCAACCCGATACC
1 ACCCAAACCCATGACCCAACCCGATACC
27348769 CGTGAGCCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.34, C:0.47, G:0.08, T:0.10
Consensus pattern (30 bp):
ACCCAAACCCATGACCCAACCCGATACCTG
Found at i:27349915 original size:39 final size:38
Alignment explanation
Indices: 27349872--27349947 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 38
27349862 TTTTTAATCT
27349872 TTTTC-ATCTATTAT-TCATTAAGAATTATTTTTGGATTTA
1 TTTTCAAT-TATTATATCATT-A-AATTATTTTTGGATTTA
*
27349911 TTTTCAGATTATTATATTATTAAATTATTTTTGGATT
1 TTTTCA-ATTATTATATCATTAAATTATTTTTGGATT
27349948 GTAATGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 20 0.61
40 7 0.21
41 6 0.18
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (38 bp):
TTTTCAATTATTATATCATTAAATTATTTTTGGATTTA
Found at i:27350461 original size:20 final size:18
Alignment explanation
Indices: 27350422--27350461 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
27350412 ACTTCGTGTT
27350422 TTAATTAAAATATGTATA
1 TTAATTAAAATATGTATA
*
27350440 TTAATATAAAATTTGATATA
1 TTAAT-TAAAATATG-TATA
27350460 TT
1 TT
27350462 TATGTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
TTAATTAAAATATGTATA
Found at i:27352834 original size:16 final size:17
Alignment explanation
Indices: 27352815--27352850 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27352805 TCAATAAAGT
*
27352815 AAATTA-AAAATTATAA
1 AAATTACAAAATAATAA
27352831 AAATTACAAAATAATAA
1 AAATTACAAAATAATAA
27352848 AAA
1 AAA
27352851 GCATTTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATTACAAAATAATAA
Found at i:27353449 original size:2 final size:2
Alignment explanation
Indices: 27353444--27353476 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27353434 GCAAACACTG
27353444 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27353477 TTTATTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27359020 original size:22 final size:22
Alignment explanation
Indices: 27358995--27359038 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
27358985 AAATAAAAAA
27358995 TAAAATAAATTTAAATTTAAAT
1 TAAAATAAATTTAAATTTAAAT
* *
27359017 TAAAATATATTTTAATTTAAAT
1 TAAAATAAATTTAAATTTAAAT
27359039 ATCCATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATAAATTTAAATTTAAAT
Found at i:27363441 original size:18 final size:18
Alignment explanation
Indices: 27363399--27363433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27363389 TTAATTAGGT
*
27363399 TTTTTTTAACCTTTTTTA
1 TTTTTTTAAACTTTTTTA
*
27363417 TTCTTTTAAACTTTTTT
1 TTTTTTTAAACTTTTTT
27363434 TCTTTTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTAAACTTTTTTA
Found at i:27363442 original size:19 final size:19
Alignment explanation
Indices: 27363398--27363442 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
27363388 TTTAATTAGG
*
27363398 TTTTTTTTAACCTTTTTTA
1 TTTTTTTAAACCTTTTTTA
* * *
27363417 TTCTTTTAAACTTTTTTTC
1 TTTTTTTAAACCTTTTTTA
27363436 TTTTTTT
1 TTTTTTT
27363443 CTTTCTGCCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTAAACCTTTTTTA
Found at i:27369437 original size:50 final size:50
Alignment explanation
Indices: 27369290--27369829 Score: 399
Period size: 49 Copynumber: 10.9 Consensus size: 50
27369280 CATGAAGGTT
* * * *
27369290 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
* * * * * * *
27369340 TGATAAGAAAAGGTTGAGGTCGTAACGATGAAC-CCAGTACCAT-GAAGATT
1 TGA-AGGGAAAGGTTGAGGCCGCAACGACGAACTCGA-TACCATAGAAGATA
* * * *
27369390 TGAACGGAAAGGTTGAGGCCGCAATGACGAACTCGATACCCTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
* * * * * *
27369440 TGATGGGAAAGGTTGATGCCGTAATGACGAACCCGATACCAT-GAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
* * * * * *
27369489 TGAAGGGAAAGGTTAAGGTCGCAACGACGAACTTGGTACCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
* * * * * * *
27369539 TGATGGGAGAGATTGAGGCCGTAATGACGAA-TCTGGTACCAT-GAA-ACA
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTC-GATACCATAGAAGATA
* * * * *
27369587 TGATGGGAAAGGTTGAGGTCGTAAC-AGCGAACTCGGTACCATA-AAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACTCGATACCATAGAAGATA
* * * *
27369636 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAAC-CTGGTACCTTAGAAGACA
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTC-GATACCATAGAAGATA
* * *
27369686 TGATGGG-AAGGATTGAGGCTGTAACGACGAA-TCCGATACCAT-GAA-ATA
1 TGAAGGGAAAGG-TTGAGGCCGCAACGACGAACT-CGATACCATAGAAGATA
* * * * *
27369734 T-AATGGGAAAGGTTGAAGCCGCAACGGCAAACCCGGTACCAT-GAAGATA
1 TGAA-GGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
* * * * *
27369783 TGAAAGGAAAAGTTGAGGCCACAACGACGAACCCGATACCTTAGAAG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAG
27369830 CATGACTGGA
Statistics
Matches: 385, Mismatches: 83, Indels: 44
0.75 0.16 0.09
Matches are distributed among these distances:
47 2 0.01
48 68 0.18
49 153 0.40
50 133 0.35
51 29 0.08
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (50 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCATAGAAGATA
Found at i:27369500 original size:99 final size:99
Alignment explanation
Indices: 27369280--27369829 Score: 529
Period size: 99 Copynumber: 5.6 Consensus size: 99
27369270 ACTAAGGAAA
* * * *
27369280 CATGAAGGTTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATA
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCTTAGAAGATGTGAT-
* * * * *
27369345 AGAAAAGGTTGAGGTCGTAACGATGAACCCAGTAC
65 GGGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
* * * *
27369380 CATGAAGATTTGAACGGAAAGGTTGAGGCCGCAATGACGAACTCGATACCCTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
* * *
27369445 GGAAAGGTTGATGCCGTAATGACGAACCCGATAC
66 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
* * * * *
27369479 CATGAAGATTTGAAGGGAAAGGTTAAGGTCGCAACGACGAACTTGGTACCTTAGAAGATGTGATG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
* * * * *
27369544 GGAGAGATTGAGGCCGTAATGACGAATCTGGTAC
66 GGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
* * * * * * * *
27369578 CATGAA-ACATGATGGGAAAGGTTGAGGTCGTAAC-AGCGAACTCGGTACCATA-AAGATTTGAA
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACTCGATACCTTAGAAGATGTGAT
* * *
27369640 GGGAAAGGTTGAGGCCGCAACGGCGAACCTGGTAC
65 GGGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
* * * * * * * *
27369675 CTTAGAAGACATGATGGG-AAGGATTGAGGCTGTAACGACGAA-TCCGATACCAT-GAA-ATATA
1 CAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGACGAACT-CGATACCTTAGAAGATGTG
* * * *
27369736 ATGGGAAAGGTTGAAGCCGCAACGGCAAACCCGGTAC
63 ATGGGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
* * * *
27369773 CATGAAGATATGAAAGGAAAAGTTGAGGCCACAACGACGAACCCGATACCTTAGAAG
1 CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCTTAGAAG
27369830 CATGACTGGA
Statistics
Matches: 377, Mismatches: 62, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
97 75 0.20
98 89 0.24
99 154 0.41
100 59 0.16
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (99 bp):
CATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACTCGATACCTTAGAAGATGTGATG
GGAAAGGTTGAGGCCGTAACGACGAACCCGGTAC
Found at i:27369627 original size:147 final size:147
Alignment explanation
Indices: 27369294--27369857 Score: 512
Period size: 147 Copynumber: 3.8 Consensus size: 147
27369284 AAGGTTTGAA
* * * * * * * *
27369294 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATAAGAAAAGGTTGAGG
1 GGGAAAGGTTGAAGCCGTAACAGCGAACCCGGTACCAT-GAAGATTTGA-AGGGAAAGGTTGAGG
* * * ** * ** * * * *
27369359 TCGTAACGATGAACCCAGTACCAT-GAAGATTTGAACGGAAAGG-TTGAGGCCGCAATGACGAA-
64 CCGCAACGACGAACCTGGTACCTTAGAAGACATG-ATGGGAAGGATTGAGGCCGTAACGACGAAT
* **
27369421 CTCGATACCCTAGAAGATGTGAT
128 C-CGATACCAT-GAA-ACATGAT
* * * * *
27369444 GGGAAAGGTTGATGCCGTAA-TGACGAACCCGATACCATGAAGATTTGAAGGGAAAGGTTAAGGT
1 GGGAAAGGTTGAAGCCGTAACAG-CGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGC
* ** *
27369508 CGCAACGACGAACTTGGTACCTTAGAAGATGTGATGGG-AGAGATTGAGGCCGTAATGACGAATC
65 CGCAACGACGAACCTGGTACCTTAGAAGACATGATGGGAAG-GATTGAGGCCGTAACGACGAATC
* *
27369572 TGGTACCATGAAACATGAT
129 CGATACCATGAAACATGAT
* * * *
27369591 GGGAAAGGTTGAGGTCGTAACAGCGAACTCGGTACCATAAAGATTTGAAGGGAAAGGTTGAGGCC
1 GGGAAAGGTTGAAGCCGTAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCC
* *
27369656 GCAACGGCGAACCTGGTACCTTAGAAGACATGATGGGAAGGATTGAGGCTGTAACGACGAATCCG
66 GCAACGACGAACCTGGTACCTTAGAAGACATGATGGGAAGGATTGAGGCCGTAACGACGAATCCG
* *
27369721 ATACCATGAAATATAAT
131 ATACCATGAAACATGAT
* * * * * *
27369738 GGGAAAGGTTGAAGCCGCAACGGCAAACCCGGTACCATGAAGATATGAAAGGAAAAGTTGAGGCC
1 GGGAAAGGTTGAAGCCGTAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCC
* * * * * *
27369803 ACAACGACGAACCCGATACCTTAGAAG-CATGACT-GGAATGCTTGAAGCCGTAACG
66 GCAACGACGAACCTGGTACCTTAGAAGACATGA-TGGGAAGGATTGAGGCCGTAACG
27369858 GTGAATTTTC
Statistics
Matches: 347, Mismatches: 59, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
146 22 0.06
147 210 0.61
148 40 0.12
149 42 0.12
150 33 0.10
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (147 bp):
GGGAAAGGTTGAAGCCGTAACAGCGAACCCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCC
GCAACGACGAACCTGGTACCTTAGAAGACATGATGGGAAGGATTGAGGCCGTAACGACGAATCCG
ATACCATGAAACATGAT
Found at i:27370148 original size:84 final size:85
Alignment explanation
Indices: 27369983--27370149 Score: 194
Period size: 84 Copynumber: 2.0 Consensus size: 85
27369973 CAAACTCCCT
* * * * * * * * *
27369983 TCTTTCTGATTAGATATAGAGAAGTGGGTCGAAGCAATTAGGTGGTCATCTTCCTGACGAGATGC
1 TCTTTCTGATGAGATACAAAGAAGTGGATCGAAACAATGAAGTGGTCATCTTCCTGACAAGATAC
* *
27370048 AGAGAAGTGAACCAAATCTG
66 AAAGAACTGAACCAAATCTG
* *
27370068 TCTTTCTGATGAGATACAAAGAAGTGGATC-AAATAATGAAGTGGTCATCTTCCTGATAAGATAC
1 TCTTTCTGATGAGATACAAAGAAGTGGATCGAAACAATGAAGTGGTCATCTTCCTGACAAGATAC
27370132 AAAGAACT-AGACCAAATC
66 AAAGAACTGA-ACCAAATC
27370150 AATGAAGCAG
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
83 1 0.01
84 41 0.60
85 26 0.38
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTTCTGATGAGATACAAAGAAGTGGATCGAAACAATGAAGTGGTCATCTTCCTGACAAGATAC
AAAGAACTGAACCAAATCTG
Found at i:27370308 original size:122 final size:120
Alignment explanation
Indices: 27370068--27370467 Score: 478
Period size: 122 Copynumber: 3.3 Consensus size: 120
27370058 ACCAAATCTG
* * * * * *
27370068 TCTTTCTGATGAGATACAAAGAAGTGGATCAAATAATGAAGTGGTCATCTTCCTGATAAGATACA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGGTACA
* * * *
27370133 AAGAACTAGACCAAATCAATGAAGCAGAGCTTAATGTGAGTGAAACTTCAAACCCTA
66 AAGAAGTAGACCAAATCAATGAAGCTGAGC-TCATATGAGTGAAACTTCAAA-CCTA
* *
27370190 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGCGGTCATCTTCCTGGTGAGGTGCA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGGTACA
* * * *
27370255 GAGAAGTAAACCAAATCAATGAAGCTGAGCTCATTTGAGTAAAACTTCGAAACCTCA
66 AAGAAGTAGACCAAATCAATGAAGCTGAGCTCATATGAGTGAAACTTC-AAACCT-A
* *
27370312 TCTTTCTGATGAGATACAAAGAAGTGGGTCAGACAATGAAGTGGTCATCTTCCTGGTGAGGTACA
1 TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGGTACA
* * * * *
27370377 AAGAAGTGGACCAAAACAATG-AGGTGAAGCTCAATACGAGTGAAACTTCAAATCCAA
66 AAGAAGTAGACCAAATCAATGAAGCTG-AGCTC-ATATGAGTGAAACTTCAAA-CCTA
* * * *
27370434 TCTTCTTGGTGAGGTACAGAGAAGTGGGTGCAAA
1 TCTTCCTGATGAGATACAAAGAAGTGGGT-CAAA
27370468 ACAGTGTGTT
Statistics
Matches: 238, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
121 22 0.09
122 198 0.83
123 18 0.08
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (120 bp):
TCTTCCTGATGAGATACAAAGAAGTGGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGGTACA
AAGAAGTAGACCAAATCAATGAAGCTGAGCTCATATGAGTGAAACTTCAAACCTA
Found at i:27375419 original size:3 final size:3
Alignment explanation
Indices: 27375411--27375474 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
27375401 ATTAAATATA
27375411 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27375457 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
27375475 CCTAAAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:27375841 original size:23 final size:22
Alignment explanation
Indices: 27375815--27375858 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27375805 CATATATTAA
* *
27375815 TTAAAATATAATTTATTTTAAAT
1 TTAAAAT-TAAATGATTTTAAAT
*
27375838 TTAATATTAAATGATTTTAAA
1 TTAAAATTAAATGATTTTAAA
27375859 AAAATTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAAAATTAAATGATTTTAAAT
Found at i:27377813 original size:21 final size:22
Alignment explanation
Indices: 27377787--27377827 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27377777 TTACACGACT
*
27377787 GTGTGG-CTCTCCCACATGCTC
1 GTGTGGCCTCCCCCACATGCTC
27377808 GTGTGGCCTCCCCCACATGC
1 GTGTGGCCTCCCCCACATGC
27377828 CTATGTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.41, G:0.24, T:0.24
Consensus pattern (22 bp):
GTGTGGCCTCCCCCACATGCTC
Found at i:27377898 original size:54 final size:54
Alignment explanation
Indices: 27377840--27377955 Score: 155
Period size: 54 Copynumber: 2.1 Consensus size: 54
27377830 ATGTGATCAA
* *
27377840 CTGTGTGTCAAACTA-TGTAACATACTGACTTGGGCCACACCCCCGTGTCTCAGC
1 CTGTGTGCCAAAC-AGTGTAACATACTGACTTGGGCCACACACCCGTGTCTCAGC
* * *
27377894 CTGTGTGCCAGACAGTGTGACATATTGACTTGGGCCACACACCCGTGTCTCAG-
1 CTGTGTGCCAAACAGTGTAACATACTGACTTGGGCCACACACCCGTGTCTCAGC
27377947 CTCGTGTGC
1 CT-GTGTGC
27377956 TAGATAGTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (54 bp):
CTGTGTGCCAAACAGTGTAACATACTGACTTGGGCCACACACCCGTGTCTCAGC
Found at i:27377965 original size:54 final size:54
Alignment explanation
Indices: 27377859--27377965 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
27377849 AAACTATGTA
*
27377859 ACATACTGACTTGGGCCACACCCCCGTGTCTCAGCCTGTGTGCCAGACAGTGTG
1 ACATACTGACTTGGGCCACACACCCGTGTCTCAGCCTGTGTGCCAGACAGTGTG
* * *
27377913 ACATATTGACTTGGGCCACACACCCGTGTCTCAG-CTCGTGTGCTAGATAGTGT
1 ACATACTGACTTGGGCCACACACCCGTGTCTCAGCCT-GTGTGCCAGACAGTGT
27377966 AAACCTTGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.25
Consensus pattern (54 bp):
ACATACTGACTTGGGCCACACACCCGTGTCTCAGCCTGTGTGCCAGACAGTGTG
Found at i:27378758 original size:33 final size:32
Alignment explanation
Indices: 27378721--27378786 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
27378711 ACACTGTATG
27378721 CTCATAAGAGCTAACCAACCAACACACCATATA
1 CTCATAAGAGCTAACCAACCAACACACCA-ATA
27378754 CTCATAAGAGCTAACCAACCAACACACCAATA
1 CTCATAAGAGCTAACCAACCAACACACCAATA
27378786 C
1 C
27378787 ACAATATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.45, C:0.35, G:0.06, T:0.14
Consensus pattern (32 bp):
CTCATAAGAGCTAACCAACCAACACACCAATA
Found at i:27380506 original size:17 final size:19
Alignment explanation
Indices: 27380486--27380520 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
27380476 AGAAATAATT
27380486 TAAAAAA-AAAGA-AGAAA
1 TAAAAAATAAAGAGAGAAA
27380503 TAAAAAATAAAGAGAGAA
1 TAAAAAATAAAGAGAGAA
27380521 GCTCATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (19 bp):
TAAAAAATAAAGAGAGAAA
Found at i:27381696 original size:5 final size:5
Alignment explanation
Indices: 27381684--27381721 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
27381674 CCCATCTCCG
*
27381684 CCCGC CCCAC CCCGC CCCGC CCCGC CCCGC CCCGC CCC
1 CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCCGC CCC
27381722 ATCCCATCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.03, C:0.82, G:0.16, T:0.00
Consensus pattern (5 bp):
CCCGC
Found at i:27383367 original size:28 final size:27
Alignment explanation
Indices: 27383335--27383391 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
27383325 AACATTTGAT
*
27383335 AAGTTTAGGTACAAAATTAGATAAAAAA
1 AAGTTTAGGTACAAAATTAG-GAAAAAA
* *
27383363 AAGTTTGGGTATAAAATTAGGAAAAAA
1 AAGTTTAGGTACAAAATTAGGAAAAAA
27383390 AA
1 AA
27383392 TATCAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.56, C:0.02, G:0.18, T:0.25
Consensus pattern (27 bp):
AAGTTTAGGTACAAAATTAGGAAAAAA
Found at i:27385966 original size:18 final size:18
Alignment explanation
Indices: 27385929--27385970 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
27385919 ATAACTGATA
**
27385929 TGGAGGATACATTTGAGG
1 TGGAGGATACATCGGAGG
*
27385947 TGGAGGATACATCGGCGG
1 TGGAGGATACATCGGAGG
27385965 TGGAGG
1 TGGAGG
27385971 TGGGTGATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.45, T:0.21
Consensus pattern (18 bp):
TGGAGGATACATCGGAGG
Found at i:27385970 original size:24 final size:24
Alignment explanation
Indices: 27385943--27385993 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
27385933 GGATACATTT
27385943 GAGGTGGAG-GATACATCGGCGGTG
1 GAGGTGG-GTGATACATCGGCGGTG
* *
27385967 GAGGTGGGTGATACATTGGGGGTG
1 GAGGTGGGTGATACATCGGCGGTG
27385991 GAG
1 GAG
27385994 CATGCATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.20, C:0.08, G:0.53, T:0.20
Consensus pattern (24 bp):
GAGGTGGGTGATACATCGGCGGTG
Found at i:27386934 original size:19 final size:19
Alignment explanation
Indices: 27386910--27386948 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27386900 TACAATGTAA
27386910 TTAAA-TAATATAAATTAAT
1 TTAAATTAA-ATAAATTAAT
*
27386929 TTAAATTAAATAATTTAAT
1 TTAAATTAAATAAATTAAT
27386948 T
1 T
27386949 AACTATTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTAAATAAATTAAT
Found at i:27402750 original size:29 final size:29
Alignment explanation
Indices: 27402717--27402776 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
27402707 CGAACTTATG
27402717 CCATCCGAGCTAGAGAAAAAGCTACTGCT
1 CCATCCGAGCTAGAGAAAAAGCTACTGCT
*
27402746 CCATCCGAGCTAGAGAAAAAGTTACTGCT
1 CCATCCGAGCTAGAGAAAAAGCTACTGCT
27402775 CC
1 CC
27402777 TGATGTGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.18
Consensus pattern (29 bp):
CCATCCGAGCTAGAGAAAAAGCTACTGCT
Found at i:27407228 original size:88 final size:86
Alignment explanation
Indices: 27407027--27407256 Score: 255
Period size: 88 Copynumber: 2.7 Consensus size: 86
27407017 TTTATGAGGA
* * * ** * * *
27407027 AAACGCCGCTAAAGAACATGGTCTTTAACGGTGCTTTTACA-AAAAATGCTGCTAAAGAACACGA
1 AAACACCGCTAAAGAACAAGGTCTTTAGCGACGC-TTCACACACAAATGCCGCTAAAGAACACGA
27407091 TCTTTAGCGGCGCTTTACACAC
65 TCTTTAGCGGCGCTTTACACAC
* * *
27407113 AAACACCTCTAAAGAACAAGGTCTTTAGCGACGCTTGACACACAAATGCCGCTAAAGAACACGGT
1 AAACACCGCTAAAGAACAAGGTCTTTAGCGACGCTTCACACACAAATGCCGCTAAAGAACACGAT
27407178 CTTTAGAGCGGCGCTTTACACAC
66 CTTT--AGCGGCGCTTTACACAC
** * * * * * *
27407201 AAATGCCGCTAAAGAACACGGTTTTTAGCGGCGCTTCTCACACAAACGCCACTAAA
1 AAACACCGCTAAAGAACAAGGTCTTTAGCGACGCTTCACACACAAATGCCGCTAAA
27407257 ATTAACAGAT
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
85 5 0.04
86 53 0.44
88 63 0.52
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (86 bp):
AAACACCGCTAAAGAACAAGGTCTTTAGCGACGCTTCACACACAAATGCCGCTAAAGAACACGAT
CTTTAGCGGCGCTTTACACAC
Found at i:27407256 original size:43 final size:43
Alignment explanation
Indices: 27407027--27407256 Score: 266
Period size: 43 Copynumber: 5.3 Consensus size: 43
27407017 TTTATGAGGA
* * * *
27407027 AAACGCCGCTAAAGAACATGGTCTTTAACGGTGCTTTTACA-AA
1 AAACGCCGCTAAAGAACACGGTCTTTAGCGGCGC-TTTACACAC
* * *
27407070 AAATGCTGCTAAAGAACACGATCTTTAGCGGCGCTTTACACAC
1 AAACGCCGCTAAAGAACACGGTCTTTAGCGGCGCTTTACACAC
* * * * *
27407113 AAACACCTCTAAAGAACAAGGTCTTTAGCGACGCTTGACACAC
1 AAACGCCGCTAAAGAACACGGTCTTTAGCGGCGCTTTACACAC
*
27407156 AAATGCCGCTAAAGAACACGGTCTTTAGAGCGGCGCTTTACACAC
1 AAACGCCGCTAAAGAACACGGTCTTT--AGCGGCGCTTTACACAC
* *
27407201 AAATGCCGCTAAAGAACACGGTTTTTAGCGGCGCTTCT-CACAC
1 AAACGCCGCTAAAGAACACGGTCTTTAGCGGCGCTT-TACACAC
*
27407244 AAACGCCACTAAA
1 AAACGCCGCTAAA
27407257 ATTAACAGAT
Statistics
Matches: 159, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 6 0.04
43 112 0.70
44 1 0.01
45 40 0.25
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACACGGTCTTTAGCGGCGCTTTACACAC
Found at i:27413683 original size:119 final size:119
Alignment explanation
Indices: 27413407--27413981 Score: 462
Period size: 120 Copynumber: 4.8 Consensus size: 119
27413397 TTGTTTTTAA
* * * * **
27413407 TAATTATATATAATTAAGTAATTAAATATTTTGATTTAAGTATTTGGATTGTTGTTAATAAAAAA
1 TAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTAA
* *
27413472 CTAATT-ATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATT
66 CT-ATTAATT-AAGTAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATT
*
27413527 AAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTAA
1 TAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTAA
* * *
27413592 CTAGTTAAATAAGTAATTAATTAAATATTTGGATTG-TTTTAATACTTAAATATT
66 CTA-TTAATTAAGTAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATT
* * * * *
27413646 TAATTAAATGTAATTAAATAA-TAACATATTTTTAATTAAATATTTGGGTTATTTTTAATAATTA
1 TAATTAAATATAATTAAATAATTAA-ATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTA
* ** * * * *
27413710 AATA-TAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTGTTAATAAATAACTAAT
65 ACTATTAATTAAGTAATT--A-A--TT--A--AA-TATTTGAATTGTTTTTAATAATTAAATATT
* * * * * * ***
27413774 T-ATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATA-TT-AAAT-TAAAT-A
1 TAATTAAA-T--ATAATTAAATAATT-AAAT-ATTTT--GAATTAAATATTTGGATTGTTGTTAA
* * *
27413834 TAATTAA--A-TAATTAAATATTTTGAATTAAATATTTGGATTG-TTTTAATAATTAAATATT
59 TAATTAACTATTAATTAAGTA-ATT-AATTAAATATTTGAATTGTTTTTAATAATTAAATATT
* *
27413893 AAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTT-TTAATAATTAA
1 TAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTAA
* *
27413957 ATATTAAATTAAAT-A-TAATTAAATA
66 CTATT-AATTAAGTAATTAATTAAATA
27413982 ATTAAATATT
Statistics
Matches: 368, Mismatches: 55, Indels: 68
0.75 0.11 0.14
Matches are distributed among these distances:
113 8 0.02
114 2 0.01
115 7 0.02
116 21 0.06
117 26 0.07
118 4 0.01
119 92 0.25
120 110 0.30
121 4 0.01
122 2 0.01
123 1 0.00
124 1 0.00
125 2 0.01
126 2 0.01
127 17 0.05
128 26 0.07
129 2 0.01
130 18 0.05
131 4 0.01
132 7 0.02
133 2 0.01
134 10 0.03
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (119 bp):
TAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAATAATTAA
CTATTAATTAAGTAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATT
Found at i:27413711 original size:177 final size:182
Alignment explanation
Indices: 27413521--27413981 Score: 604
Period size: 177 Copynumber: 2.5 Consensus size: 182
27413511 TTAATAATTA
*
27413521 AATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTGTTAAT
1 AATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTTGTTAAT
* * *
27413586 AATTAACTAGTTAAATAAGTAATTAATTAAATATTTGGATTG-TTTTAATACTTAAATATTTAAT
66 AATTAACTA-TTAAATAA-TAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAAT
* *
27413650 TAAATGTAATTAAATAA-TAACATATTTTTAATTAAATATTTGG-GTTATT-T-TT
129 TAAATATAATTAAATAATTAA-ATATTTTGAATTAAATATTTGGTGTT-TTATATT
* *
27413702 -A-A-T-AATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTGTTAAT
1 AATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTTGTTAAT
* * *
27413763 AAATAACTAATTATTAA-ACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAA
66 AATTAACT-ATTA--AATAATAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAA
27413827 TTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTTTAATAATT
128 TTAAATATAATTAAATAATTAAATATTTTGAATTAAATATTTGG--TGTTTT-AT-ATT
27413886 AAATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTT-TTAA
1 -AATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTTGTTAA
* *
27413950 TAATTAAATATTAAATTA-AATATAATTAAATA
65 TAATTAACTATTAAATAATAAT-TAATTAAATA
27413982 ATTAAATATT
Statistics
Matches: 243, Mismatches: 18, Indels: 33
0.83 0.06 0.11
Matches are distributed among these distances:
177 86 0.35
178 60 0.25
179 6 0.02
180 3 0.01
181 3 0.01
182 1 0.00
184 2 0.01
185 4 0.02
186 11 0.05
187 5 0.02
188 12 0.05
189 50 0.21
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (182 bp):
AATATTAAATTAAATATAATTAAATAATTAAATATTTTGAATTAAGTATTTGGATTGTTGTTAAT
AATTAACTATTAAATAATAATTAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTA
AATATAATTAAATAATTAAATATTTTGAATTAAATATTTGGTGTTTTATATT
Found at i:27413836 original size:22 final size:22
Alignment explanation
Indices: 27413811--27414074 Score: 110
Period size: 22 Copynumber: 11.6 Consensus size: 22
27413801 ATTGTTTTTA
*
27413811 ATAATTAAATATTAAATTAAAT
1 ATAATTAAATATTAAATTAATT
27413833 ATAATTAAATAATTAAA-T-ATT
1 ATAATTAAAT-ATTAAATTAATT
* ** **
27413854 TTGAATTAAATATTTGGATTGTTTT
1 AT-AATTAAATA-TTAAATT-AATT
*
27413879 AATAATTAAATATTAAATTAAAT
1 -ATAATTAAATATTAAATTAATT
27413902 ATAATTAAATAATTAAA-T-ATT
1 ATAATTAAAT-ATTAAATTAATT
* * ** **
27413923 TTGAATTAAGTATTTGGATTGTTTT
1 AT-AATTAAATA-TTAAATT-AATT
*
27413948 AATAATTAAATATTAAATTAAAT
1 -ATAATTAAATATTAAATTAATT
27413971 ATAATTAAATAATTAAA-T-ATT
1 ATAATTAAAT-ATTAAATTAATT
* ** **
27413992 TTGAATTAAATATTTGGATTGTTTT
1 AT-AATTAAATA-TTAAATT-AATT
* *
27414017 AATAATTAAATATTTAATTAAAT
1 -ATAATTAAATATTAAATTAATT
* * *
27414040 GTAATTAAATAATAACA-TATTT
1 ATAATTAAATATTAA-ATTAATT
*
27414062 TTAATTAAATATT
1 ATAATTAAATATT
27414075 TGGGTTTTTT
Statistics
Matches: 178, Mismatches: 42, Indels: 44
0.67 0.16 0.17
Matches are distributed among these distances:
21 12 0.07
22 91 0.51
23 25 0.14
24 15 0.08
25 32 0.18
26 3 0.02
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
ATAATTAAATATTAAATTAATT
Found at i:27413889 original size:69 final size:69
Alignment explanation
Indices: 27413787--27414104 Score: 521
Period size: 69 Copynumber: 4.6 Consensus size: 69
27413777 TAAACTAAAT
*
27413787 AATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATA
1 AATTAAATATTTGGATTG-TTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATA
27413852 TTTTG
65 TTTTG
27413857 AATTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATAT
1 AATTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATAT
27413922 TTTG
66 TTTG
*
27413926 AATTAAGTATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATAT
1 AATTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATAT
27413991 TTTG
66 TTTG
* *
27413995 AATTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTAATTAAATAA-TAACATA
1 AATTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAA-ATA
*
27414059 TTTTT
65 TTTTG
* * * *
27414064 AATTAAATATTTGGGTTTTTTTAATAAATAATTAATTAAAT
1 AATTAAATATTTGGATTGTTTTAATAATTAAAT-ATTAAAT
27414105 ATTTAAATAT
Statistics
Matches: 235, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
68 3 0.01
69 209 0.89
70 23 0.10
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (69 bp):
AATTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATAT
TTTG
Found at i:27413890 original size:47 final size:46
Alignment explanation
Indices: 27413832--27414033 Score: 128
Period size: 47 Copynumber: 4.4 Consensus size: 46
27413822 TTAAATTAAA
*
27413832 TATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTT
1 TATAATTAAATAATTAAATATTTTGAATTAAATATTTGAATTGTTT
* * * * *
27413878 TAATAATTAAAT-ATTAAATTAAATAT-AATTAAATAATT-AAATATTT
1 T-ATAATTAAATAATTAAA-T-ATTTTGAATTAAATATTTGAATTGTTT
* * * * * * * * ***
27413924 T-GAATTAAGTATTTGGATTGTTTTAATAATTAAATA-TTAAATT-AAA
1 TATAATTAAATAATT-AAATATTTT--GAATTAAATATTTGAATTGTTT
*
27413970 TATAATTAAATAATTAAATATTTTGAATTAAATATTTGGATTGTTT
1 TATAATTAAATAATTAAATATTTTGAATTAAATATTTGAATTGTTT
*
27414016 TAATAATTAAATATTTAA
1 T-ATAATTAAATAATTAA
27414034 TTAAATGTAA
Statistics
Matches: 112, Mismatches: 31, Indels: 25
0.67 0.18 0.15
Matches are distributed among these distances:
44 18 0.16
45 8 0.07
46 24 0.21
47 59 0.53
48 3 0.03
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (46 bp):
TATAATTAAATAATTAAATATTTTGAATTAAATATTTGAATTGTTT
Found at i:27414150 original size:111 final size:111
Alignment explanation
Indices: 27413997--27414216 Score: 361
Period size: 111 Copynumber: 2.0 Consensus size: 111
27413987 ATATTTTGAA
* *
27413997 TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATGTAATTAAATAATAACATATTT
1 TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTT
27414062 TTAATTAAATATTTGGGTT-TTTTTAATAAATAATTAATTAAATAT
66 TTAATTAAATATTTGGGTTATTTTTAATAAATAATTAATTAAATAT
* *
27414107 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAACTAATAAAATATT
1 TTAAATATTTGGATTG-TTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATT
* * *
27414172 TTTATTTAAATATTTGGTTTATTTTTAATAATTAATTAATTAAAT
65 TTTAATTAAATATTTGGGTTATTTTTAATAAATAATTAATTAAAT
27414217 TTATTATATA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
110 16 0.16
111 62 0.61
112 23 0.23
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (111 bp):
TTAAATATTTGGATTGTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAAATATTT
TTAATTAAATATTTGGGTTATTTTTAATAAATAATTAATTAAATAT
Found at i:27414183 original size:180 final size:183
Alignment explanation
Indices: 27413928--27414286 Score: 505
Period size: 180 Copynumber: 2.0 Consensus size: 183
27413918 ATATTTTGAA
* *
27413928 TTAAGTATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTAAATATTT
1 TTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTT
* * *
27413993 TGAATTAAATATTTGGATT-GTTTTAATAATTAAAT-ATTTAA-TTA-AATGTAATTAAATAAT-
66 TGAATTAAATATTTGGATTAGTTTTAATAATTAAATAATTAAATTTATAATATAACTAAATAATG
*
27414053 AACATATTTTTAATTAAATATTTGGGTT-TTTTTAATAAATAATTAATTAAATAT
131 AA-ATA-TTTTAATTAAATATTTGGGTTATTTTTAATAAATAAATAATTAAATAT
* * *
27414107 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAACTAATAAAATATT
1 TTAAATATTTGGATTG-TTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATT
* * * * * *
27414172 TTTATTTAAATATTTGGTTTATTTTTAATAATTAATTAATTAAATTTATTATATAACTAAATAAT
65 TTGAATTAAATATTTGGATTAGTTTTAATAATTAAATAATTAAATTTATAATATAACTAAATAAT
*
27414237 GAAATATTTTAATTAAATATTTGGGTTATTTTTAATAATTAAATAATTAA
130 GAAATATTTTAATTAAATATTTGGGTTATTTTTAATAAATAAATAATTAA
27414287 TTAAATAATT
Statistics
Matches: 157, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
179 15 0.10
180 61 0.39
181 14 0.09
182 5 0.03
183 24 0.15
184 36 0.23
185 2 0.01
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (183 bp):
TTAAATATTTGGATTGTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTT
TGAATTAAATATTTGGATTAGTTTTAATAATTAAATAATTAAATTTATAATATAACTAAATAATG
AAATATTTTAATTAAATATTTGGGTTATTTTTAATAAATAAATAATTAAATAT
Found at i:27414236 original size:25 final size:23
Alignment explanation
Indices: 27414192--27414249 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
27414182 TATTTGGTTT
* * *
27414192 ATTTTTAATAATTAATTAATTAA
1 ATTTTTAATAACTAAATAATGAA
27414215 ATTTATTATATAACTAAATAATGAA
1 ATTT-TTA-ATAACTAAATAATGAA
27414240 ATATTTTAAT
1 AT-TTTTAAT
27414250 TAAATATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 5 0.17
25 18 0.62
26 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTTAATAACTAAATAATGAA
Found at i:27414266 original size:72 final size:73
Alignment explanation
Indices: 27414107--27414286 Score: 233
Period size: 72 Copynumber: 2.5 Consensus size: 73
27414097 AATTAAATAT
* * * * * * *
27414107 TTAAATATTTGGATTGTTTTTAATTATTAAAT-ATTTAA-TTA-AATATAATTAACTAATAAAAT
1 TTAAATATTTGGGTTATTTTTAATAATTAAATAATTAAATTTATTATATAACTAAATAATAAAAT
*
27414169 ATTTTTAT
66 ATTTTTAA
* * *
27414177 TTAAATATTTGGTTTATTTTTAATAATTAATTAATTAAATTTATTATATAACTAAATAATGAAAT
1 TTAAATATTTGGGTTATTTTTAATAATTAAATAATTAAATTTATTATATAACTAAATAATAAAAT
27414242 A-TTTTAA
66 ATTTTTAA
27414249 TTAAATATTTGGGTTATTTTTAATAATTAAATAATTAA
1 TTAAATATTTGGGTTATTTTTAATAATTAAATAATTAA
27414287 TTAAATAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
70 28 0.29
71 5 0.05
72 44 0.46
73 18 0.19
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (73 bp):
TTAAATATTTGGGTTATTTTTAATAATTAAATAATTAAATTTATTATATAACTAAATAATAAAAT
ATTTTTAA
Found at i:27414283 original size:8 final size:8
Alignment explanation
Indices: 27414284--27414402 Score: 82
Period size: 8 Copynumber: 15.1 Consensus size: 8
27414274 ATTAAATAAT
27414284 TAATTAAA
1 TAATTAAA
*
27414292 TAATTAAC
1 TAATTAAA
27414300 TAATTAAA
1 TAATTAAA
* *
27414308 TATTTGAAT
1 TAATT-AAA
** *
27414317 TGTTTTAA
1 TAATTAAA
27414325 TAATTAAA
1 TAATTAAA
*
27414333 TTATTAAA
1 TAATTAAA
*
27414341 TATTTAAA
1 TAATTAAA
* *
27414349 TATTTAAT
1 TAATTAAA
*
27414357 TAATT--G
1 TAATTAAA
* *
27414363 TTATT-AG
1 TAATTAAA
27414370 TAATTAAA
1 TAATTAAA
*
27414378 TATTTAAA
1 TAATTAAA
27414386 TAATTAAA
1 TAATTAAA
27414394 TAATTAAA
1 TAATTAAA
27414402 T
1 T
27414403 TTGTTAATTT
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
6 4 0.05
7 5 0.06
8 72 0.83
9 6 0.07
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (8 bp):
TAATTAAA
Found at i:27414289 original size:12 final size:12
Alignment explanation
Indices: 27414272--27414298 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27414262 TTATTTTTAA
27414272 TAATTAAATAAT
1 TAATTAAATAAT
27414284 TAATTAAATAAT
1 TAATTAAATAAT
27414296 TAA
1 TAA
27414299 CTAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATTAAATAAT
Found at i:27414374 original size:45 final size:43
Alignment explanation
Indices: 27414284--27414400 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 43
27414274 ATTAAATAAT
* *
27414284 TAATTAAATAATTAACTAATTAAATATT--TGAATTGTTTTAA
1 TAATTAAATTATTAAATAATTAAATATTAATGAATTGTTTTAA
* * *
27414325 TAATTAAATTATTAAATATTTAAATATTTAATTAATTGTTATTAG
1 TAATTAAATTATTAAATAATTAAATA-TTAATGAATTGTT-TTAA
27414370 TAATTAAA-TATTTAAATAATTAAATAATTAA
1 TAATTAAATTA-TTAAATAATTAAAT-ATTAA
27414401 ATTTGTTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 23 0.36
42 2 0.03
44 10 0.16
45 28 0.44
46 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (43 bp):
TAATTAAATTATTAAATAATTAAATATTAATGAATTGTTTTAA
Found at i:27414784 original size:33 final size:33
Alignment explanation
Indices: 27414747--27414815 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
27414737 ATCTTTAGCA
27414747 CTTCACTTTTTGAGTCCAAATGATATTTAGAGC
1 CTTCACTTTTTGAGTCCAAATGATATTTAGAGC
27414780 CTTCACTTTTTGAGTCCAAATGATATTTAGAGC
1 CTTCACTTTTTGAGTCCAAATGATATTTAGAGC
27414813 CTT
1 CTT
27414816 TCTTATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (33 bp):
CTTCACTTTTTGAGTCCAAATGATATTTAGAGC
Found at i:27417234 original size:19 final size:18
Alignment explanation
Indices: 27417193--27417241 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
27417183 GCTCTTTTCC
*
27417193 ATATTTTAAGTTTTTAAT
1 ATATTTTAAATTTTTAAT
* *
27417211 TTATTTTCAAATTTTTTAT
1 ATATTTT-AAATTTTTAAT
27417230 ATA-TTTAAATTT
1 ATATTTTAAATTT
27417242 AATCCTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 11 0.42
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATATTTTAAATTTTTAAT
Found at i:27417677 original size:21 final size:22
Alignment explanation
Indices: 27417628--27417677 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
27417618 GATCAGGGAG
* *
27417628 ATGACAAATATTTATAAGATATA
1 ATGA-AAATATTTATAACAGATA
27417651 AT-AAAATATTTATAACAGA-A
1 ATGAAAATATTTATAACAGATA
27417671 ATGAAAA
1 ATGAAAA
27417678 CTCATGACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 1 0.04
23 2 0.08
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (22 bp):
ATGAAAATATTTATAACAGATA
Found at i:27418158 original size:168 final size:168
Alignment explanation
Indices: 27417875--27418206 Score: 513
Period size: 168 Copynumber: 2.0 Consensus size: 168
27417865 AGCCTGACAA
* * *
27417875 ATAGACATCTACGGAAATTAGCTTATCTATCCCCCGAACAGTACTATAAGAATCAGTACCGAACA
1 ATAGACATCCACGGAAATTAGCTTATCGATCCCCCGAACAGTACTATAAGAATCAGTACCGAAAA
* * * *
27417940 TCCCTCCTGTAATTGTACACGCACCCATAGCAATAACATATTTGGGTTCGGGGATTTGTTCATAT
66 ACCCTCCTGCAATTGTACACGCACCCATAGCAATAACATATTTAGGTTCGGGCATTTGTTCATAT
*
27418005 AATCTCACTAAAGAGGGCATCATTTTCATTGTTATTGT
131 AATCTCACTAAAGAGGGCACCATTTTCATTGTTATTGT
* *
27418043 ATAGACATCCACGGGAATTAGCTTATCGA-CCTCCCGAACAGTACTATAAGAATCAGTACTGAAA
1 ATAGACATCCACGGAAATTAGCTTATCGATCC-CCCGAACAGTACTATAAGAATCAGTACCGAAA
* * * *
27418107 AACCTTTCTGCAATTGTACACGCGCTCATAGCAATAACATATTTAGGTTCGGGCATTTGTTCATA
65 AACCCTCCTGCAATTGTACACGCACCCATAGCAATAACATATTTAGGTTCGGGCATTTGTTCATA
*
27418172 TAATCTCACTAAAGAGGGCGCCATTTTCATTGTTA
130 TAATCTCACTAAAGAGGGCACCATTTTCATTGTTA
27418207 CTATTCCATC
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
167 2 0.01
168 146 0.99
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (168 bp):
ATAGACATCCACGGAAATTAGCTTATCGATCCCCCGAACAGTACTATAAGAATCAGTACCGAAAA
ACCCTCCTGCAATTGTACACGCACCCATAGCAATAACATATTTAGGTTCGGGCATTTGTTCATAT
AATCTCACTAAAGAGGGCACCATTTTCATTGTTATTGT
Found at i:27418882 original size:41 final size:41
Alignment explanation
Indices: 27418837--27419032 Score: 232
Period size: 41 Copynumber: 4.8 Consensus size: 41
27418827 GAAGAAGTCA
* *
27418837 CGCTAATGGCCAGACCTTTAGCGGCGCTTGTGGGAAAGCGC
1 CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGAAAGCGC
27418878 CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGAAAGCGC
1 CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGAAAGCGC
** ** * *
27418919 TACTAATGACCTGACCTTTAGCGGCATTTTTGGGAAAGCAC
1 CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGAAAGCGC
* * ***
27418960 CGTTAATGCCCTGACCTTTAGCGGCGCTT-TTTCATAAGCGC
1 CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGA-AAGCGC
* * *
27419001 TGCTAATGCCCTAACCTTTAGCGGCGCTTGTG
1 CGCTAATGACCTGACCTTTAGCGGCGCTTGTG
27419033 AAAAAACGCT
Statistics
Matches: 131, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 2 0.02
41 128 0.98
42 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (41 bp):
CGCTAATGACCTGACCTTTAGCGGCGCTTGTGGGAAAGCGC
Found at i:27419078 original size:40 final size:40
Alignment explanation
Indices: 27419017--27419145 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
27419007 TGCCCTAACC
* * *
27419017 TTTAGCGGCGCTTGTGAAAAAACGCTGCTATTGCTTTACCT
1 TTTA-CGGCGTTTGTCAAAAAACGCTGCTATTGATTTACCT
* ** * *
27419058 TTTGCGGCGTTTGTTTAAAAACACCGCTATTGATTTACCT
1 TTTACGGCGTTTGTCAAAAAACGCTGCTATTGATTTACCT
* * *
27419098 TTTATGGTGTTTATCAAAAAACG-TCGCTATTGATTTACCT
1 TTTACGGCGTTTGTCAAAAAACGCT-GCTATTGATTTACCT
27419138 TTTACGGC
1 TTTACGGC
27419146 ATTTTCTATC
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
40 67 0.96
41 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTACGGCGTTTGTCAAAAAACGCTGCTATTGATTTACCT
Done.