Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 243 of 297
Found at i:82775844 original size:81 final size:81
Alignment explanation
Indices: 82775709--82775866 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 81
82775699 GTTTTGATTT
82775709 GTTTGGGAAAAACTAATAACAGTCTCATTAAACTTCTTTAGAGTAATAAGATCAAAAATCAAATA
1 GTTTGGGAAAAACTAATAACAGTCTCATTAAACTTCTTTAGAGTAATAAGATCAAAAATCAAATA
82775774 CCTTTAAAAAGAGTAA
66 CCTTTAAAAAGAGTAA
* * *
82775790 GTTTGGGACAAACTAATAACAGTCTCGTTAAACTTCTTTGGAGTAATAAGATCAAAAATCAAATA
1 GTTTGGGAAAAACTAATAACAGTCTCATTAAACTTCTTTAGAGTAATAAGATCAAAAATCAAATA
*
82775855 CCTTTGAAAAGA
66 CCTTTAAAAAGA
82775867 CTAGGTTCGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.28
Consensus pattern (81 bp):
GTTTGGGAAAAACTAATAACAGTCTCATTAAACTTCTTTAGAGTAATAAGATCAAAAATCAAATA
CCTTTAAAAAGAGTAA
Found at i:82779542 original size:20 final size:21
Alignment explanation
Indices: 82779500--82779544 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
82779490 CATGCTTCCA
**
82779500 ATTAAAATATGTATTTCATGC
1 ATTAAAATATGTATTGAATGC
82779521 ATTAAAATATGT-TTGAATGC
1 ATTAAAATATGTATTGAATGC
82779541 ATTA
1 ATTA
82779545 GAATTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (21 bp):
ATTAAAATATGTATTGAATGC
Found at i:82780020 original size:15 final size:16
Alignment explanation
Indices: 82779988--82780021 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
82779978 AGTTCATCTC
*
82779988 ATTTGCATTTAGGTTA
1 ATTTGCATCTAGGTTA
82780004 ATTTGCATCTA-GTTA
1 ATTTGCATCTAGGTTA
82780019 ATT
1 ATT
82780022 ATTTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (16 bp):
ATTTGCATCTAGGTTA
Found at i:82784651 original size:27 final size:27
Alignment explanation
Indices: 82784621--82784798 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82784611 ATATTGAGCC
* * * *
82784621 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
82784648 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82784675 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
82784703 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
82784730 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
82784757 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82784784 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82784799 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:82784760 original size:82 final size:81
Alignment explanation
Indices: 82784642--82784797 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82784632 TGCTATATAA
* *
82784642 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
82784707 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
82784724 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
82784788 CACTTAGTGC
65 CACTTAGTGC
82784798 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:82792735 original size:27 final size:27
Alignment explanation
Indices: 82792705--82792882 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
82792695 ATATTGAGTC
* * * *
82792705 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
82792732 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82792759 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
82792787 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
82792814 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
82792841 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
82792868 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
82792883 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:82792844 original size:82 final size:81
Alignment explanation
Indices: 82792726--82792881 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
82792716 TGCTATATAA
* *
82792726 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
82792791 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
82792808 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
82792872 CACTTAGTGC
65 CACTTAGTGC
82792882 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:82800517 original size:47 final size:47
Alignment explanation
Indices: 82800466--82800692 Score: 285
Period size: 49 Copynumber: 4.7 Consensus size: 47
82800456 TTAGGATTCT
* * * *
82800466 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAAAGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
82800513 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
*
82800562 ATGTGATGAATGTGAAAGTGTATACATGTGATAAGGGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAA--GGCCTAATGGCCG
* * * *
82800611 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
82800658 ACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
82800693 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
46 1 0.01
47 70 0.44
49 89 0.56
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:82800595 original size:96 final size:94
Alignment explanation
Indices: 82800466--82800692 Score: 294
Period size: 96 Copynumber: 2.4 Consensus size: 94
82800456 TTAGGATTCT
* * *
82800466 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAA
1 ATGTGATGGATGTGAA-AGTGTATAAATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAA
* *
82800530 GTGTATATACATGTGATAAGGCCTAATGGCCG
65 GTGTATAT--ATGTGATAAGGCCGAATGGCCA
* * *
82800562 ATGTGATGAATGTGAAAGTGTATACATGTGATAAGGGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGGATGTGAAAGTGTATAAATGTGATAA--GGCCTAAAGGCCGATGTGATGAATGTGAA
* *
82800627 AGTGTATATATGTGATAGGGCCGAGTGGCCA
64 AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
82800658 ACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
82800693 TCCCGAAGGG
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
94 1 0.01
95 1 0.01
96 76 0.66
98 37 0.32
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (94 bp):
ATGTGATGGATGTGAAAGTGTATAAATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCGAATGGCCA
Found at i:82800861 original size:37 final size:37
Alignment explanation
Indices: 82800811--82800926 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
82800801 CCGAGCTCTA
82800811 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
82800848 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
82800885 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
82800922 AAGAC
1 AAGAC
82800927 TTCGTAATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:82802656 original size:51 final size:51
Alignment explanation
Indices: 82802595--82802752 Score: 253
Period size: 51 Copynumber: 3.1 Consensus size: 51
82802585 ACTTCTGATC
* * *
82802595 AGTGACAAGTGATAAGTGGTAGCCTCACCTACACTTATTTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
*
82802646 AGTGACAAGTGATAAGTGGTAGTCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* * *
82802697 AGTCACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
82802748 AGTGA
1 AGTGA
82802753 TAAATGTGAT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 98 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:82818205 original size:39 final size:39
Alignment explanation
Indices: 82818145--82818424 Score: 309
Period size: 39 Copynumber: 7.2 Consensus size: 39
82818135 TAATTATACT
* * *** *
82818145 TGATTGCACATACGTGTCCCTGTTGTACTACAGTATCCC
1 TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
82818184 TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
1 TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
* ** * *
82818223 TGATCGCACATACATATCCCTAGTT-TACTTCGGTACCCT
1 TGATCGCACATACGTGCCCCT-GTTGTACTTTGGTACCCC
* *
82818262 TGATTGCACATACTTG-CCCTGGTTGTACTTTGGTACCCC
1 TGATCGCACATACGTGCCCCT-GTTGTACTTTGGTACCCC
*
82818301 TGATCGCACATACGTGCCCCTGTTGCACTTAT--TACCCC
1 TGATCGCACATACGTGCCCCTGTTGTACTT-TGGTACCCC
** *
82818339 TGATCATACATACGTG-CCCTATTGTACTTTGGTACCCC
1 TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
* * *
82818377 TGATCGAACATACGTGCCCCTGTTGTACTTCGGTACCCT
1 TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
*
82818416 TGATTGCAC
1 TGATCGCAC
82818425 TTATGTGCTT
Statistics
Matches: 203, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
36 1 0.00
37 11 0.05
38 47 0.23
39 136 0.67
40 8 0.04
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.33
Consensus pattern (39 bp):
TGATCGCACATACGTGCCCCTGTTGTACTTTGGTACCCC
Found at i:82818280 original size:78 final size:77
Alignment explanation
Indices: 82818145--82818424 Score: 341
Period size: 78 Copynumber: 3.6 Consensus size: 77
82818135 TAATTATACT
* * *
82818145 TGATTGCACATACGTGTCCCTGTTGTACTACAGTATCCC-TGATCGCACATACGTGCCCCTGTTG
1 TGATCGCACATACGTGCCCCTGTTGTACTTCAGTA-CCCTTGATCGCACATACGTG-CCCTGTTG
82818209 TACTTTGGTACCCC
64 TACTTTGGTACCCC
* ** * * *
82818223 TGATCGCACATACATATCCCTAGTT-TACTTCGGTACCCTTGATTGCACATACTTGCCCTGGTTG
1 TGATCGCACATACGTGCCCCT-GTTGTACTTCAGTACCCTTGATCGCACATACGTGCCCT-GTTG
82818287 TACTTTGGTACCCC
64 TACTTTGGTACCCC
* * * ** *
82818301 TGATCGCACATACGTGCCCCTGTTGCACTT-ATTACCCCTGATCATACATACGTGCCCTATTGTA
1 TGATCGCACATACGTGCCCCTGTTGTACTTCAGTACCCTTGATCGCACATACGTGCCCTGTTGTA
82818365 CTTTGGTACCCC
66 CTTTGGTACCCC
* * *
82818377 TGATCGAACATACGTGCCCCTGTTGTACTTCGGTACCCTTGATTGCAC
1 TGATCGCACATACGTGCCCCTGTTGTACTTCAGTACCCTTGATCGCAC
82818425 TTATGTGCTT
Statistics
Matches: 170, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
76 45 0.26
77 42 0.25
78 80 0.47
79 3 0.02
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.33
Consensus pattern (77 bp):
TGATCGCACATACGTGCCCCTGTTGTACTTCAGTACCCTTGATCGCACATACGTGCCCTGTTGTA
CTTTGGTACCCC
Found at i:82820680 original size:22 final size:22
Alignment explanation
Indices: 82820655--82820702 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
82820645 GACCCATGTG
*
82820655 GGCCCACTAA-CCCTAAAATAAT
1 GGCCCAATAAGCCC-AAAATAAT
*
82820677 GGCCCAATAAGCCCAAAATGAT
1 GGCCCAATAAGCCCAAAATAAT
82820699 GGCC
1 GGCC
82820703 TTGGCCGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.15
Consensus pattern (22 bp):
GGCCCAATAAGCCCAAAATAAT
Found at i:82830970 original size:13 final size:13
Alignment explanation
Indices: 82830952--82830977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82830942 TAAGGGGAGT
82830952 TGAAAATCAAGTA
1 TGAAAATCAAGTA
82830965 TGAAAATCAAGTA
1 TGAAAATCAAGTA
82830978 GCTGATAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TGAAAATCAAGTA
Found at i:82839628 original size:31 final size:31
Alignment explanation
Indices: 82839583--82839651 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
82839573 TTTGTGCCCA
82839583 GTTT-GACTAAGAACATTATTTCAATTTCTT
1 GTTTAGACTAAGAACATTATTTCAATTTCTT
*
82839613 GTTTAGACTATGAACATTATTTCAATTTCTT
1 GTTTAGACTAAGAACATTATTTCAATTTCTT
82839644 GTTTAGAC
1 GTTTAGAC
82839652 AAAATTTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (31 bp):
GTTTAGACTAAGAACATTATTTCAATTTCTT
Found at i:82840739 original size:80 final size:80
Alignment explanation
Indices: 82840607--82840891 Score: 285
Period size: 80 Copynumber: 3.5 Consensus size: 80
82840597 TTAGTTTACC
* *
82840607 AAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACACCCGGTTTATAAAATTACCGAA
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
* *
82840671 ATGTCGTCGA-TTGTA
65 ATATCCTCGATTTGTA
* *
82840686 AAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGA-TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAA
82840751 ATATCCTCGATTTGTA
65 ATATCCTCGATTTGTA
* * * * **
82840767 AAATTAAC-GAAATACCGTTGATTGTAAAATTACTGAAA-TACCCTCAATTTATAAAATTACCGA
1 AAATT-ACTGAAATACCCTCGATTGTAAAATTAC-CAAAGTACCCCCGGTTTATAAAATTACCGA
* * **
82840830 AATACCCTTG-TAGGGTA
64 AATATCCTCGAT-TTGTA
* * **
82840847 GAATTACTGAAATACCCTTGTAGAGTAAAATTACCGAAA-TACCCC
1 AAATTACTGAAATACCCTCG-ATTGTAAAATTACC-AAAGTACCCC
82840892 TGTAGGGTAG
Statistics
Matches: 173, Mismatches: 25, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
79 19 0.11
80 110 0.64
81 42 0.24
82 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAA
TATCCTCGATTTGTA
Found at i:82840768 original size:27 final size:27
Alignment explanation
Indices: 82840607--82840890 Score: 197
Period size: 27 Copynumber: 10.6 Consensus size: 27
82840597 TTAGTTTACC
* * *
82840607 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
82840633 AAATTACC-AAAGTACACC-CGGTTTATA
1 AAATTACCGAAA-TAC-CCTCGATTTGTA
** *
82840660 AAATTACCGAAATGTCGTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
82840686 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
82840713 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *
82840740 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
82840767 AAATTAACGAAATACCGTTGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
82840793 AAATTACTGAAATACCCTCAATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
82840820 AAATTACCGAAATACCCTTG-TAGGGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* * * **
82840847 GAATTACTGAAATACCCTTG-TAGAGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
82840874 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
82840891 CTGTAGGGTA
Statistics
Matches: 203, Mismatches: 46, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
25 3 0.01
26 56 0.28
27 138 0.68
28 6 0.03
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:82840895 original size:27 final size:27
Alignment explanation
Indices: 82840818--82841231 Score: 460
Period size: 27 Copynumber: 15.4 Consensus size: 27
82840808 CCTCAATTTA
*
82840818 TAAAATTACCGAAATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* * * *
82840845 TAGAATTACTGAAATACCCTTGTAGAG
1 TAAAATTACCGAAATACCCCTGTAGGG
82840872 TAAAATTACCGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* **
82840899 TAGAATTACCGAAATACCCCTGTAATG
1 TAAAATTACCGAAATACCCCTGTAGGG
* ** *
82840926 TAGAATTATTGAAATATCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
*
82840953 TAAAATTACTGAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
* *
82840980 TAGAATTACCAAAATACCCCTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
82841007 TAGAAA-TACCGAAATACCCCTGTAGGG
1 TA-AAATTACCGAAATACCCCTGTAGGG
* ** *
82841034 TAGAATTATTGAAATACCCCTGTAGGA
1 TAAAATTACCGAAATACCCCTGTAGGG
*
82841061 TAGAAA-TACCGAAATACCCTTGTAGGG
1 TA-AAATTACCGAAATACCCCTGTAGGG
* *
82841088 TAGAAA-TATCGAAATACCCCTATA-GG
1 TA-AAATTACCGAAATACCCCTGTAGGG
* * *
82841114 TAGAATTACTGAAATACCCCTGTAGGA
1 TAAAATTACCGAAATACCCCTGTAGGG
* *
82841141 TAGAATTACCGAAATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
82841168 TAGAAA-TACCGAAATACCCCTGTAGGG
1 TA-AAATTACCGAAATACCCCTGTAGGG
* * * * * *
82841195 TAGAATTACTGAGATACCCTTATGGGG
1 TAAAATTACCGAAATACCCCTGTAGGG
82841222 TAAAATTACC
1 TAAAATTACC
82841232 CTTTTTGCCC
Statistics
Matches: 327, Mismatches: 53, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 23 0.07
27 296 0.91
28 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCTGTAGGG
Found at i:82840907 original size:81 final size:81
Alignment explanation
Indices: 82840821--82841231 Score: 565
Period size: 81 Copynumber: 5.1 Consensus size: 81
82840811 CAATTTATAA
* * * * *
82840821 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGAGTAAAATTACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
82840886 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* ** * * * *
82840902 AATTACCGAAATACCCCTGTAATGTAGAATTATTGAAATATCCCTGTAGGGTAAAATTACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
82840967 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
82840983 AATTACCAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
*
82841048 TACCCCTGTAGGATAG
66 TACCCCTGTAGGGTAG
* *
82841064 AAATACCGAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTATA-GGTAGAATTACTGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACT-GAAATACCCCTGTAGGGTAGAATTACTGAA
*
82841127 ATACCCCTGTAGGATAG
65 ATACCCCTGTAGGGTAG
* *
82841144 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAGA
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
* * * *
82841209 TACCCTTATGGGGTAA
66 TACCCCTGTAGGGTAG
82841225 AATTACC
1 AATTACC
82841232 CTTTTTGCCC
Statistics
Matches: 294, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
80 75 0.26
81 219 0.74
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCCTGTAGGGTAG
Found at i:82841223 original size:54 final size:54
Alignment explanation
Indices: 82840821--82841213 Score: 520
Period size: 54 Copynumber: 7.3 Consensus size: 54
82840811 CAATTTATAA
* * * * * *
82840821 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGAGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* **
82840875 AATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
** * *
82840929 AATTATTGAAATATCCCTGTAGGGTA-AAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
*
82840983 AATTACCAAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
** * *
82841037 AATTATTGAAATACCCCTGTAGGATAGAAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * * * *
82841091 AAATATCGAAATACCCCTATA-GGTAGAATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
82841144 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
82841198 AATTACTGAGATACCC
1 AATTACCGAAATACCC
82841214 TTATGGGGTA
Statistics
Matches: 296, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
53 46 0.16
54 247 0.83
55 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:82841563 original size:20 final size:20
Alignment explanation
Indices: 82841516--82841563 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
82841506 CGAAGGCTGT
*
82841516 GTGCCGTTATTATGGGCTTC
1 GTGCCGATATTATGGGCTTC
**
82841536 GTATCGATATTATGGGCTTC
1 GTGCCGATATTATGGGCTTC
82841556 GTGCCGAT
1 GTGCCGAT
82841564 TATAGACCCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTATGGGCTTC
Found at i:82841626 original size:22 final size:22
Alignment explanation
Indices: 82841578--82841638 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
82841568 GACCCGTTAT
*
82841578 CTATGGCTCTGTGCCAACCTAA
1 CTATGGCTTTGTGCCAACCTAA
* * * *
82841600 ATATGGCTTTGTGCCATCTTGA
1 CTATGGCTTTGTGCCAACCTAA
*
82841622 CTATGGCTTCGTGCCAA
1 CTATGGCTTTGTGCCAA
82841639 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (22 bp):
CTATGGCTTTGTGCCAACCTAA
Found at i:82841873 original size:26 final size:26
Alignment explanation
Indices: 82841796--82841876 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
82841786 ATTCTGTTAA
* * *
82841796 GTGGCTTTGCTACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
82841823 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
*
82841850 GTGGCTCTGCCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
82841876 G
1 G
82841877 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.28
27 28 0.60
28 6 0.13
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:82842031 original size:31 final size:31
Alignment explanation
Indices: 82841996--82842136 Score: 183
Period size: 31 Copynumber: 4.5 Consensus size: 31
82841986 TTGTATTCAC
82841996 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
82842027 ATTCTAATTTTGATTCTGTTACCTGACACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
82842058 ATTCTGATTTTGATTCGGTTACCTGATATTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
82842089 ATTCTGATTCTGATTCTGTCACTTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
82842120 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
82842137 AATTCTGATA
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:82842160 original size:6 final size:6
Alignment explanation
Indices: 82841996--82842145 Score: 76
Period size: 6 Copynumber: 24.3 Consensus size: 6
82841986 TTGTATTCAC
* * * *
82841996 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
** * * *
82842045 -TTACCTG ACACTG ATTCTG ATTTTG ATTC-G GTTACCTG ATAT-TA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG
* * *
82842095 ATTCTG ATTCTG -TCACTTA ATTCTG ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
82842144 AT
1 AT
82842146 AATATTTCTT
Statistics
Matches: 106, Mismatches: 24, Indels: 28
0.67 0.15 0.18
Matches are distributed among these distances:
5 9 0.08
6 83 0.78
7 9 0.08
8 4 0.04
9 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:82844447 original size:39 final size:40
Alignment explanation
Indices: 82844352--82844535 Score: 177
Period size: 40 Copynumber: 4.7 Consensus size: 40
82844342 TTGGATGATG
*
82844352 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
82844390 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
82844431 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
82844470 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
82844509 AACCGGTCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
82844536 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
39 53 0.43
40 58 0.48
41 10 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:82844487 original size:79 final size:81
Alignment explanation
Indices: 82844352--82844535 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 81
82844342 TTGGATGATG
82844352 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
82844415 CGTGCGAGA-TACTA-A
66 CGTGCGA-ATTACTATA
* * **
82844430 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
*
82844491 ATTTGTGCGAATTACTATA
63 ATTCGTGCGAATTACTATA
* * *
82844510 ACCGGTCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
82844536 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 11 0.12
79 56 0.62
80 23 0.26
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAATTACTATA
Found at i:82844557 original size:79 final size:79
Alignment explanation
Indices: 82844404--82844558 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 79
82844394 GGACTAAGAT
* ** *
82844404 CCGAAGGCATTCGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
82844469 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
82844483 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGTCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTCGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
82844545 CTATATCC-GGTTAA
62 CTAAATCCGGGTTAA
82844559 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.05
79 36 0.56
80 25 0.39
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:82846004 original size:47 final size:47
Alignment explanation
Indices: 82845926--82846123 Score: 324
Period size: 47 Copynumber: 4.2 Consensus size: 47
82845916 CACTTCGGGA
* * * * * *
82845926 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
82845973 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82846020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82846067 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
82846114 CTTATCACAT
1 CTTATCACAT
82846124 NNNNNNNNNN
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 141 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:82859536 original size:16 final size:16
Alignment explanation
Indices: 82859515--82859567 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
82859505 ATTTTTAAAT
82859515 ATAATCATATGGATTG
1 ATAATCATATGGATTG
82859531 ATAATCATATGGATTG
1 ATAATCATATGGATTG
*
82859547 ATAATCATGTGGATTG
1 ATAATCATATGGATTG
82859563 ATAAT
1 ATAAT
82859568 AGCGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
ATAATCATATGGATTG
Found at i:82861315 original size:121 final size:121
Alignment explanation
Indices: 82861101--82861343 Score: 486
Period size: 121 Copynumber: 2.0 Consensus size: 121
82861091 ATGTTTCTTG
82861101 GATTATTATGTAATAGTCACAACATTACTCATAGTGATTACTATGCATAAGATCCTCAAACTTGA
1 GATTATTATGTAATAGTCACAACATTACTCATAGTGATTACTATGCATAAGATCCTCAAACTTGA
82861166 GATCATCATTATCCCAACATCGTGAGTCATATATTTTGATATAGTCAAAAATCCAT
66 GATCATCATTATCCCAACATCGTGAGTCATATATTTTGATATAGTCAAAAATCCAT
82861222 GATTATTATGTAATAGTCACAACATTACTCATAGTGATTACTATGCATAAGATCCTCAAACTTGA
1 GATTATTATGTAATAGTCACAACATTACTCATAGTGATTACTATGCATAAGATCCTCAAACTTGA
82861287 GATCATCATTATCCCAACATCGTGAGTCATATATTTTGATATAGTCAAAAATCCAT
66 GATCATCATTATCCCAACATCGTGAGTCATATATTTTGATATAGTCAAAAATCCAT
82861343 G
1 G
82861344 TAAAGGCTGA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (121 bp):
GATTATTATGTAATAGTCACAACATTACTCATAGTGATTACTATGCATAAGATCCTCAAACTTGA
GATCATCATTATCCCAACATCGTGAGTCATATATTTTGATATAGTCAAAAATCCAT
Found at i:82862962 original size:27 final size:27
Alignment explanation
Indices: 82862932--82863011 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
82862922 AATCTCATAT
* *
82862932 CTATAGGCTAGGATTACTGAAATACCC
1 CTATAGGGTAGAATTACTGAAATACCC
* *
82862959 CTATAGGGTAGAATTATTGAAATGCCC
1 CTATAGGGTAGAATTACTGAAATACCC
*
82862986 CTGTAGGGTAGAATTACTGAAATACC
1 CTATAGGGTAGAATTACTGAAATACC
82863012 TTTGGTTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
CTATAGGGTAGAATTACTGAAATACCC
Found at i:82863315 original size:27 final size:27
Alignment explanation
Indices: 82862997--82863337 Score: 258
Period size: 27 Copynumber: 12.7 Consensus size: 27
82862987 TGTAGGGTAG
* * **
82862997 AATTACTGAAATACCTTTGGTTTACAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* * **
82863024 AATTACT-GAATACCCTTAGTTTACAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* * * * *
82863050 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACTAAAATACCCTTGGTTTGTAA
82863077 AATTACTAAAATACCC-TGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTGTAA
*
82863103 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* * ** *
82863130 AATTACCAAAATACCCCTAATTTATAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* ***
82863157 AATTACTGAAATACCCTTGACCTGTAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* * *
82863184 AATTA-TCGAAATA-CCATCGTTTCGTAA
1 AATTACT-AAAATACCCTTGGTTT-GTAA
* * * * *
82863211 AATTACCAAAATACTCATGATTTGGAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* * * *
82863238 AATTATTAAAATATCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* *
82863265 AATTACAAAAATACCCTTGGTTTGCAA
1 AATTACTAAAATACCCTTGGTTTGTAA
* *
82863292 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACTAAAATACCCTTGGTTTGTAA
* * *
82863319 ATTTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
82863338 TAGGGTGAAA
Statistics
Matches: 252, Mismatches: 56, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
26 48 0.19
27 198 0.79
28 6 0.02
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGGTTTGTAA
Found at i:82863632 original size:41 final size:41
Alignment explanation
Indices: 82863575--82863695 Score: 197
Period size: 41 Copynumber: 3.0 Consensus size: 41
82863565 AGAGGAAGAA
82863575 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACAG
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACAG
* * *
82863616 ATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACAG
* *
82863657 ATTAAGGATCGCATGGTTGCTTAATGACCGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCAC
82863696 CGGTGGCTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACAG
Found at i:82871662 original size:13 final size:12
Alignment explanation
Indices: 82871629--82871670 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
82871619 GAAAAAAAGG
82871629 GAAAATTGAGGT
1 GAAAATTGAGGT
82871641 GAAAA-TGAGAG-
1 GAAAATTGAG-GT
82871652 GAAAAATTGAGGT
1 G-AAAATTGAGGT
82871665 GAAAAT
1 GAAAAT
82871671 GAACGAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (12 bp):
GAAAATTGAGGT
Found at i:82874773 original size:47 final size:47
Alignment explanation
Indices: 82874706--82874796 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
82874696 TTGATTTAGT
*
82874706 TTTATTAATTGTGTCTTATTTAATACAGAATTTTAATGTGTCTTAAG
1 TTTATTAATTGTGTCTTATTTAATACAGAATTTTAATATGTCTTAAG
* * *
82874753 TTTATTAATTGTGTCTTATTTAGTGCAGCATTTTAATATGTCTT
1 TTTATTAATTGTGTCTTATTTAATACAGAATTTTAATATGTCTT
82874797 CAAATATCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (47 bp):
TTTATTAATTGTGTCTTATTTAATACAGAATTTTAATATGTCTTAAG
Found at i:82876620 original size:10 final size:10
Alignment explanation
Indices: 82876589--82876628 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
82876579 AGTGAGGAAG
82876589 AAATGAGAGAA
1 AAATGAGAG-A
82876600 AAATTGA-AGA
1 AAA-TGAGAGA
82876610 AAATGAGAGA
1 AAATGAGAGA
82876620 AAATGAGAG
1 AAATGAGAG
82876629 GGTGGGACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.11
10 16 0.59
11 5 0.19
12 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (10 bp):
AAATGAGAGA
Found at i:82881180 original size:43 final size:43
Alignment explanation
Indices: 82881132--82881286 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
82881122 GATTACATGC
82881132 AAGACCATGTCTGGGATAGTGGCATTGGATTGTGATTATGTGT
1 AAGACCATGTCTGGGATAGTGGCATTGGATTGTGATTATGTGT
* * * * *
82881175 AAGACCATGTCTGGGACATTGGCATCGTTATT-CGATT-TAGTGT
1 AAGACCATGTCTGGGATAGTGGCATTG-GATTGTGATTAT-GTGT
* * ** *
82881218 AAGACTC-TGTCTGGGATAGTGGCA-TCGATATGTGATAACATGA
1 AAGAC-CATGTCTGGGATAGTGGCATTGGAT-TGTGATTATGTGT
* *
82881261 AAGACCATATTTGGGATA-TGGCATTG
1 AAGACCATGTCTGGGATAGTGGCATTG
82881287 TATGAGCTTT
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.02
42 8 0.09
43 72 0.84
44 4 0.05
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (43 bp):
AAGACCATGTCTGGGATAGTGGCATTGGATTGTGATTATGTGT
Found at i:82882285 original size:18 final size:19
Alignment explanation
Indices: 82882248--82882285 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
82882238 AGACACGGGT
* *
82882248 GTGTCTCTCATCCGTGTGC
1 GTGTCTCTCACCCATGTGC
82882267 GTGTCTCT-ACCCATGTGC
1 GTGTCTCTCACCCATGTGC
82882285 G
1 G
82882286 ACACATGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.32, G:0.26, T:0.34
Consensus pattern (19 bp):
GTGTCTCTCACCCATGTGC
Found at i:82882737 original size:18 final size:17
Alignment explanation
Indices: 82882705--82882746 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
82882695 GATAATGAGA
*
82882705 TTATGT-TTGATGGATGT
1 TTATGTGTTAATGGAT-T
82882722 TTATGTGTTAATGGATT
1 TTATGTGTTAATGGATT
82882739 TTCATGTG
1 TT-ATGTG
82882747 AGAAATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.52
Consensus pattern (17 bp):
TTATGTGTTAATGGATT
Found at i:82888894 original size:43 final size:44
Alignment explanation
Indices: 82888797--82888964 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 44
82888787 ACCGAGATGT
* ** *
82888797 GATTACACGTAAGACCATGTCCAGGACATTGGCAT-TGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTGC
82888840 GATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TATT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTATTGC
* * * *
82888883 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC-GATATAT--
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTG-TAT-TGC
* ** *
82888926 GATAACATGTAAGACCATACCTGGGATA-TGGCAT-TGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAT
82888965 GAGCTTTATG
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.03
42 7 0.07
43 88 0.85
44 5 0.05
45 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTGC
Found at i:82896120 original size:213 final size:213
Alignment explanation
Indices: 82895753--82896178 Score: 852
Period size: 213 Copynumber: 2.0 Consensus size: 213
82895743 TGATATGAGT
82895753 TAGAATATGAATCGGCTAGGCTTGGGTAACCAAGAAATTGCATGCATTTCATTTATGGGCCTAAG
1 TAGAATATGAATCGGCTAGGCTTGGGTAACCAAGAAATTGCATGCATTTCATTTATGGGCCTAAG
82895818 GACTAAAATGTAAATAAGTGAAAAGTTAGGGGTAAAAAGGTAATTTTACCAAAGTATATGTTATG
66 GACTAAAATGTAAATAAGTGAAAAGTTAGGGGTAAAAAGGTAATTTTACCAAAGTATATGTTATG
82895883 GGTCGATATGAACAATGTGAGTATTAAAAAAGTTGAATTTGACATTATAGATCAAGGAAAACGTG
131 GGTCGATATGAACAATGTGAGTATTAAAAAAGTTGAATTTGACATTATAGATCAAGGAAAACGTG
82895948 ATTCGAGTCTTGATCGAG
196 ATTCGAGTCTTGATCGAG
82895966 TAGAATATGAATCGGCTAGGCTTGGGTAACCAAGAAATTGCATGCATTTCATTTATGGGCCTAAG
1 TAGAATATGAATCGGCTAGGCTTGGGTAACCAAGAAATTGCATGCATTTCATTTATGGGCCTAAG
82896031 GACTAAAATGTAAATAAGTGAAAAGTTAGGGGTAAAAAGGTAATTTTACCAAAGTATATGTTATG
66 GACTAAAATGTAAATAAGTGAAAAGTTAGGGGTAAAAAGGTAATTTTACCAAAGTATATGTTATG
82896096 GGTCGATATGAACAATGTGAGTATTAAAAAAGTTGAATTTGACATTATAGATCAAGGAAAACGTG
131 GGTCGATATGAACAATGTGAGTATTAAAAAAGTTGAATTTGACATTATAGATCAAGGAAAACGTG
82896161 ATTCGAGTCTTGATCGAG
196 ATTCGAGTCTTGATCGAG
82896179 GGAAAAACAA
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 213 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (213 bp):
TAGAATATGAATCGGCTAGGCTTGGGTAACCAAGAAATTGCATGCATTTCATTTATGGGCCTAAG
GACTAAAATGTAAATAAGTGAAAAGTTAGGGGTAAAAAGGTAATTTTACCAAAGTATATGTTATG
GGTCGATATGAACAATGTGAGTATTAAAAAAGTTGAATTTGACATTATAGATCAAGGAAAACGTG
ATTCGAGTCTTGATCGAG
Found at i:82896538 original size:21 final size:21
Alignment explanation
Indices: 82896514--82896590 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
82896504 AACTTTGTAA
*
82896514 TCTGAACTCATTGAGTTGTGG
1 TCTGAGCTCATTGAGTTGTGG
* * *
82896535 TCTGAGTTCA-TGATATATGTGACA
1 TCTGAGCTCATTGA-GT-TGTG--G
82896559 TCTGAGCTCATTGAGTTGTGG
1 TCTGAGCTCATTGAGTTGTGG
*
82896580 TCTGAGTTCAT
1 TCTGAGCTCAT
82896591 GATGTATAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
20 3 0.07
21 19 0.44
22 4 0.09
23 4 0.09
24 10 0.23
25 3 0.07
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (21 bp):
TCTGAGCTCATTGAGTTGTGG
Found at i:82899708 original size:40 final size:40
Alignment explanation
Indices: 82899633--82899708 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
82899623 TATTCGGATA
**
82899633 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
*
82899673 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGT
82899709 AGTTATATCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTTACT
Found at i:82913960 original size:56 final size:56
Alignment explanation
Indices: 82913894--82914086 Score: 280
Period size: 56 Copynumber: 3.4 Consensus size: 56
82913884 GACCATGGCA
82913894 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
** * *
82913950 TCGATATATGTGTGTAAGTAAAACCACGTTTAATACGTTGGCATCGATACGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * * * *
82914006 TTGATTTATGTGTGTGAGTAAGACCACATTTAATACGTTGGTATCGATATGTGA-T
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
*
82914061 TCTGATTTATGTGTGCGAGTAAGACC
1 TC-GATATATGTGTGCGAGTAAGACC
82914087 CTGTCTGGGA
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
55 2 0.02
56 121 0.98
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:82914104 original size:112 final size:112
Alignment explanation
Indices: 82913900--82914117 Score: 280
Period size: 112 Copynumber: 1.9 Consensus size: 112
82913890 GGCATCGATA
* *
82913900 TATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCGATATATGTGTGT
1 TATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTCGATATATGTGTGC
* *
82913965 AAGTAAAACCACGTTTAATACGTTGGCATCGATACGTGATTTTGATT
66 AAGTAAAACCACGTCTAAGACGTTGGCATCGATACGTGATTTTGATT
* * *
82914012 TATGTGTGTGAGTAAGACCACATTTAATACGTTGGTATCGATATGTGA-TTCTGATTTATGTGTG
1 TATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTC-GATATATGTGTG
* * ** *
82914076 CGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATT
65 CAAGTAAAACCAC-GTCTAAGAC-GTTGGCATCGATACGTGATT
82914118 ACATGTAAGA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
111 4 0.04
112 86 0.95
113 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.35
Consensus pattern (112 bp):
TATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTTCGATATATGTGTGC
AAGTAAAACCACGTCTAAGACGTTGGCATCGATACGTGATTTTGATT
Found at i:82923195 original size:40 final size:40
Alignment explanation
Indices: 82923144--82923326 Score: 151
Period size: 40 Copynumber: 4.5 Consensus size: 40
82923134 GATTCAGATA
*
82923144 TATATATGGCACTTAGTGTGCAATTTGAGATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCAATTTGAGATAGCTTCGGC
* *
82923184 TATATATGGCACTTAGTGTGCGATTAG-GAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTTGAG-ATAGCTTCGGC
*** *
82923224 TATATATGGCA-TGTAGTGTGCGAGA-CCAAGATAGCTTCGGT
1 TATATATGGCACT-TAGTGTGC-A-ATTTGAGATAGCTTCGGC
* * *
82923265 TATGTAAGGCACTTAGTGTGCAAGGTTAT-A-ATAGCTTTGGC
1 TATATATGGCACTTAGTGTGCAA--TT-TGAGATAGCTTCGGC
* *
82923306 TTTGTATTGGCACTTAGTGTG
1 TATATA-TGGCACTTAGTGTG
82923327 TGAGATATCG
Statistics
Matches: 116, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
39 3 0.03
40 55 0.47
41 41 0.35
42 17 0.15
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTTGAGATAGCTTCGGC
Found at i:82926283 original size:765 final size:767
Alignment explanation
Indices: 82924770--82926292 Score: 2570
Period size: 765 Copynumber: 2.0 Consensus size: 767
82924760 GTCGGAACAC
* * * *
82924770 TGGTTTCAGGACCATAAATCCGAAGTTGAAATATTTGTTTTATGATTATTATGATGCCTAGAATA
1 TGGTTTCAGGACCAAAAATCCGAAGTTAAAATATTTGTTTTATGATTATTATGAGGACTAGAATA
* *
82924835 TGAAAATATGCATGTGCTAAAGTTTCATGAAGAAATTCTATGAGTAAGGCGTCCAATTGGAAAAT
66 TGAAAATATGCATGTGCTAAAGTTTCATGAAGAAATTATATGAGTAAGGCGTCCAATTGAAAAAT
* *
82924900 AAGGACCAAATTGAATAAATTGCGAAACTTGGATTCTAGAAGAAATTTGCATGAAATTGCTTTCG
131 AAGGACCAAATTGAATAAATTGCAAAACTTGGATTCTAGAAGAAATTTACATGAAATTGCTTTCG
82924965 ATTATTAATTAGAAGGTCTTAAAGAGAAATTTGCACAATTTCTAAGTTTTTGGACAAAAATGAGC
196 ATTATTAATTAGAAGGTCTTAAAGAGAAATTTGCACAATTTCTAAGTTTTTGGACAAAAATGAGC
* *
82925030 ATGCATGGAAAATTTTGGAAGTTTAGTAAGGAGGGGCACTTTGGTCATTTGGTAATAAAATCAAT
261 ATACATGGAAAATTTTGGAAGTTTAGTAAGGAAGGGCACTTTGGTCATTTGGTAATAAAATCAAT
* *
82925095 AAAAAGGGAAAATGAAGGAAAAAATCAGCCATCTTATCCCTTGTACCAGCCGAAATTTTCAAGCC
326 AAAAAAGGAAAATGAAGGAAAAAATCAGCCATCTTATCCCTTGTACCAGCCGAAATTCTCAAGCC
*
82925160 CTCCATAGCTAGGGTTTTTAACATTTTCAAGCTCAATAGTAAGTAACTCCTAGCCCCGTTTTTAA
391 CTCCATAGCTAGGGTTTTCAACATTTTCAAGCTCAATAGTAAGTAACTCCTAGCCCCGTTTTTAA
* * *
82925225 TGTTCTTTGTATTTTTTAGATCCTTGTGACATGTTCTCTCCATTTCTACCTATATTTTAAGCTAG
456 TGTTCTCTGTATTTTTGAGATCCTTGTAACATGTTCTCTCCATTTCTACCTATATTTTAAGCTAG
* *
82925290 GGTTCATGTATGCAAAGTGACCCATGTGTGACATGTTTGTTCTTTGATGTTTTATGGGGGAATTT
521 GGTTCATGTATGCAAAGTGACCCATGTGTGACATGTTTGTCCTTTGATGTTTTATGGGGGAATAT
* *
82925355 GAAAGTTAGATGTGTATTAAACATCTTTTCTTAAGTGATTTTCATGAAAAGCCCCTAAAAAGGAC
586 GAAAGTTAGATGTGTATTAAACATCTTTTCCTAAGTGATTTTCATGAAAAGCACCTAAAAAGGAC
* * *
82925420 CTTTTTGCAAAAGGTACAAAATATGTGGTAGATATGGGAAGTAGAGGAAAATATGGGCTAGTATG
651 CTTTTTGCAAAAGGCACAAAATATGTAGTAGAAATGGGAAGTAGAGGAAAATATGGGCTAGTATG
* *
82925485 AGTTTATAATGCATTCGGCTAAGCTTAGGTAACCAAGGAATTGTGGGAATAG
716 AGTTTATAATGCATTCGGCTAAGCTCAGGTAACCAAAGAATTGTGGGAATAG
* *
82925537 TGGTTTCGGGACCAAAAATCCGACGTTAAAATA-TT-TTTTATGATTATTATGAGGACTAGAATA
1 TGGTTTCAGGACCAAAAATCCGAAGTTAAAATATTTGTTTTATGATTATTATGAGGACTAGAATA
*
82925600 TGAAAATATGCATGTGTTAAAGTTTCATGAAGAAATTATATGAGTAAGGCGTCCAATTGAAAAAT
66 TGAAAATATGCATGTGCTAAAGTTTCATGAAGAAATTATATGAGTAAGGCGTCCAATTGAAAAAT
* * *
82925665 AAGGACCAAATTGAATAAATTGTAAAACTTGGATTCTAGAAGCAATTTACATGAAATTGCTTTAG
131 AAGGACCAAATTGAATAAATTGCAAAACTTGGATTCTAGAAGAAATTTACATGAAATTGCTTT-C
* * * *
82925730 GA-TATTAATTAGAAGGTCTTAAAGAGCAATTTTCCCAATTTCTAAGTTTTTGGACAAAAATGGG
195 GATTATTAATTAGAAGGTCTTAAAGAGAAATTTGCACAATTTCTAAGTTTTTGGACAAAAATGAG
82925794 CATACATGGAAAATTTTGGAAGTTTAGTAAGGAAGGGCA-TTGTGGTCATTTGGTAATAAAATCA
260 CATACATGGAAAATTTTGGAAGTTTAGTAAGGAAGGGCACTT-TGGTCATTTGGTAATAAAATCA
* * *
82925858 ATAAAAAAGGAAAATGAAGGAAAAACTCAGCCATCTTCTCCCTTGTACTAGCCGAAATTCTCAAG
324 ATAAAAAAGGAAAATGAAGGAAAAAATCAGCCATCTTATCCCTTGTACCAGCCGAAATTCTCAAG
* *
82925923 CCCTCTATAGCTAGGGTTTTCAACATTTTCAAGCTCAATAGTAAGTAACTTCTAGCCCCGTTTTT
389 CCCTCCATAGCTAGGGTTTTCAACATTTTCAAGCTCAATAGTAAGTAACTCCTAGCCCCGTTTTT
82925988 AATGTTCTCTGTATTTTTGAGATCCTTGTAACATGTTCTCTCCATTTCTACCTATATTTTAAGCT
454 AATGTTCTCTGTATTTTTGAGATCCTTGTAACATGTTCTCTCCATTTCTACCTATATTTTAAGCT
82926053 AGGGTTCATGTATGCAAAGTGACCCATGTGTGACATGTTTGTCCTTTGATGTTTTATGGGGGAAT
519 AGGGTTCATGTATGCAAAGTGACCCATGTGTGACATGTTTGTCCTTTGATGTTTTATGGGGGAAT
*
82926118 ATGAAAGTTAGATGTGTGTTAAACATCTTTTCCTAAGTGATTTTCATGAAAAGCACCTAAAAAGG
584 ATGAAAGTTAGATGTGTATTAAACATCTTTTCCTAAGTGATTTTCATGAAAAGCACCTAAAAAGG
* * *
82926183 ACTTTTTTGCAAAAGGCACAAAATATGTAGTAGAAATGTGAAGTAGAGGAAAATGTGGGCTAGTA
649 ACCTTTTTGCAAAAGGCACAAAATATGTAGTAGAAATGGGAAGTAGAGGAAAATATGGGCTAGTA
* *
82926248 TGAGTTTATAATGCATTTGGCT-AGACTCGGGTAACCAAAGAATTG
714 TGAGTTTATAATGCATTCGGCTAAG-CTCAGGTAACCAAAGAATTG
82926293 CATGTATATC
Statistics
Matches: 707, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
764 4 0.01
765 670 0.95
766 4 0.01
767 29 0.04
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (767 bp):
TGGTTTCAGGACCAAAAATCCGAAGTTAAAATATTTGTTTTATGATTATTATGAGGACTAGAATA
TGAAAATATGCATGTGCTAAAGTTTCATGAAGAAATTATATGAGTAAGGCGTCCAATTGAAAAAT
AAGGACCAAATTGAATAAATTGCAAAACTTGGATTCTAGAAGAAATTTACATGAAATTGCTTTCG
ATTATTAATTAGAAGGTCTTAAAGAGAAATTTGCACAATTTCTAAGTTTTTGGACAAAAATGAGC
ATACATGGAAAATTTTGGAAGTTTAGTAAGGAAGGGCACTTTGGTCATTTGGTAATAAAATCAAT
AAAAAAGGAAAATGAAGGAAAAAATCAGCCATCTTATCCCTTGTACCAGCCGAAATTCTCAAGCC
CTCCATAGCTAGGGTTTTCAACATTTTCAAGCTCAATAGTAAGTAACTCCTAGCCCCGTTTTTAA
TGTTCTCTGTATTTTTGAGATCCTTGTAACATGTTCTCTCCATTTCTACCTATATTTTAAGCTAG
GGTTCATGTATGCAAAGTGACCCATGTGTGACATGTTTGTCCTTTGATGTTTTATGGGGGAATAT
GAAAGTTAGATGTGTATTAAACATCTTTTCCTAAGTGATTTTCATGAAAAGCACCTAAAAAGGAC
CTTTTTGCAAAAGGCACAAAATATGTAGTAGAAATGGGAAGTAGAGGAAAATATGGGCTAGTATG
AGTTTATAATGCATTCGGCTAAGCTCAGGTAACCAAAGAATTGTGGGAATAG
Found at i:82936549 original size:28 final size:28
Alignment explanation
Indices: 82936484--82936723 Score: 349
Period size: 28 Copynumber: 8.5 Consensus size: 28
82936474 ATATTAAGTC
* *
82936484 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
82936511 CGCACAATTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82936539 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82936567 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TACATAATCAAACT
*
82936596 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
82936624 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TACATAATCAAACT
*
82936653 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
82936681 CGCACACTTAGTGCTGAACA-ATTTAAACC
1 CGCACACTTAGTGCT--ACATAATCAAACT
82936710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
82936724 CAATCTCATG
Statistics
Matches: 197, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
27 21 0.11
28 99 0.50
29 74 0.38
30 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:82936603 original size:57 final size:57
Alignment explanation
Indices: 82936485--82936695 Score: 363
Period size: 57 Copynumber: 3.7 Consensus size: 57
82936475 TATTAAGTCC
* * * * *
82936485 GCACACTCAGTGCTATATAATC-AACTCGCACAATTAGTGC-TATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
82936540 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
82936597 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
82936654 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCT
1 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCT
82936696 GAACAATTTA
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 20 0.13
56 17 0.11
57 112 0.75
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (57 bp):
GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACTT
Found at i:82936715 original size:57 final size:57
Alignment explanation
Indices: 82936484--82936723 Score: 351
Period size: 57 Copynumber: 4.2 Consensus size: 57
82936474 ATATTAAGTC
* * * *
82936484 CGCACACTCAGTGCTATATAATC-AACTCGCACAATTAGTGCT-ATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTAACATAATCAAACT
*
82936539 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTAACATAATCAAACT
* *
82936596 TGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTAACATAATCAAACT
* * * *
82936653 TGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGAACA-ATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCT-AACATAATCAAACT
82936710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
82936724 CAATCTCATG
Statistics
Matches: 172, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
55 21 0.12
56 18 0.10
57 130 0.76
58 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (57 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTAACATAATCAAACT
Found at i:82948732 original size:21 final size:22
Alignment explanation
Indices: 82948681--82948732 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
82948671 TAAAAAAATG
*
82948681 AAATTAAAATAAAAACAATTTT
1 AAATTAAAATAAAAACAATTTC
** *
82948703 ACCTT-AAATAAAATCAA-TTC
1 AAATTAAAATAAAAACAATTTC
82948723 AAATTAAAAT
1 AAATTAAAAT
82948733 TCATCTGGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 5 0.22
21 15 0.65
22 3 0.13
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTAAAATAAAAACAATTTC
Found at i:82949717 original size:16 final size:16
Alignment explanation
Indices: 82949706--82949736 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82949696 ATTATAATTT
82949706 AATAGAGCTATAATAG
1 AATAGAGCTATAATAG
*
82949722 AATAGAGCTGTAATA
1 AATAGAGCTATAATA
82949737 AGTAATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
AATAGAGCTATAATAG
Found at i:82949936 original size:26 final size:24
Alignment explanation
Indices: 82949905--82949993 Score: 61
Period size: 26 Copynumber: 3.5 Consensus size: 24
82949895 TTGCTATTAA
82949905 ATTTTAATAAATTTATTGTTAAATAT
1 ATTTTAATAAA-TTATT-TTAAATAT
* * * **
82949931 ATTTTATTAAAAAATAATTTAACCAT
1 ATTTTA--ATAAATTATTTTAAATAT
*
82949957 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATA-AATTATT-TTAAATAT
*
82949983 AATTTAATAAA
1 ATTTTAATAAA
82949994 ATAATATATA
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
24 2 0.04
25 7 0.15
26 31 0.66
27 3 0.06
28 4 0.09
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (24 bp):
ATTTTAATAAATTATTTTAAATAT
Found at i:82950809 original size:16 final size:16
Alignment explanation
Indices: 82950772--82950803 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
82950762 ATCCATGAAA
82950772 ACATTGACTCTATGAT
1 ACATTGACTCTATGAT
82950788 ACATTGACTCTATGAT
1 ACATTGACTCTATGAT
82950804 TAATTGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (16 bp):
ACATTGACTCTATGAT
Found at i:82952512 original size:11 final size:12
Alignment explanation
Indices: 82952490--82952519 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
82952480 CTCTTGGATA
82952490 AAAAATATATATT
1 AAAAATATATA-T
82952503 AAAAATATATAT
1 AAAAATATATAT
82952515 AAAAA
1 AAAAA
82952520 GAAAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:82954475 original size:30 final size:30
Alignment explanation
Indices: 82954441--82954497 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
82954431 TTTACGAGCT
* * *
82954441 TAGGGGCAAAAGTGTAATTTTGACAAAGTA
1 TAGGGGAAAAAATATAATTTTGACAAAGTA
*
82954471 TAGGGGAAAAAATATAATTTTGCCAAA
1 TAGGGGAAAAAATATAATTTTGACAAA
82954498 ATATGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGAAAAAATATAATTTTGACAAAGTA
Found at i:82958490 original size:40 final size:40
Alignment explanation
Indices: 82958409--82958589 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
82958399 AAACCAAGTA
** * *
82958409 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
82958448 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
82958488 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
82958528 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
82958568 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
82958590 CAATCCGAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 26 0.20
40 106 0.80
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:82962429 original size:15 final size:15
Alignment explanation
Indices: 82962406--82962447 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
82962396 TGATGTTTTC
*
82962406 TTCTGGATTTCTTTA
1 TTCTGGATTTCTATA
82962421 TGT-TGGATTTCTATA
1 T-TCTGGATTTCTATA
82962436 TTCTGGATTTCT
1 TTCTGGATTTCT
82962448 CCGTTATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.57
Consensus pattern (15 bp):
TTCTGGATTTCTATA
Found at i:82968446 original size:26 final size:26
Alignment explanation
Indices: 82968403--82968494 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
82968393 GAATCCGTAC
* *
82968403 AAAGGCTTTCTTTTATATTACGCTAT
1 AAAGGCTTTCTTTCATATTACGCCAT
* *
82968429 AAAGGCTTTATTTCATATTACACCA-
1 AAAGGCTTTCTTTCATATTACGCCAT
*
82968454 CAAGGACTTTCTTTCATATTACGCCAT
1 AAAGG-CTTTCTTTCATATTACGCCAT
*
82968481 AAATGCTTTCTTTC
1 AAAGGCTTTCTTTC
82968495 CTAACGTGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.07
26 48 0.87
27 3 0.05
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (26 bp):
AAAGGCTTTCTTTCATATTACGCCAT
Found at i:82971225 original size:30 final size:30
Alignment explanation
Indices: 82971189--82971248 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
82971179 TTCCCGAGCC
82971189 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
*
82971219 TAGGGGCAAAATGGTAATTTTGCAAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
82971249 CGTATTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:82972018 original size:51 final size:49
Alignment explanation
Indices: 82971897--82972191 Score: 347
Period size: 49 Copynumber: 5.9 Consensus size: 49
82971887 CTATTGTGAA
* * *
82971897 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
* * * *
82971946 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TG
* * * * * *
82971997 ATAACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTGCCTGATAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-G
* * * **
82972048 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-G
* *
82972098 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
* *
82972147 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
82972192 GCTTCGGCTA
Statistics
Matches: 210, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
49 81 0.39
50 48 0.23
51 81 0.39
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
Found at i:82974646 original size:22 final size:22
Alignment explanation
Indices: 82974620--82974672 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
82974610 TGGACAAGCC
82974620 ACCACTGATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
* *
82974642 GCCACTAATTTGCAGATAAACT
1 ACCACTGATTTGCAGATAAACT
*
82974664 ACCATTGAT
1 ACCACTGAT
82974673 AACACTGATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (22 bp):
ACCACTGATTTGCAGATAAACT
Found at i:82975445 original size:93 final size:93
Alignment explanation
Indices: 82975331--82975500 Score: 322
Period size: 93 Copynumber: 1.8 Consensus size: 93
82975321 CAAGATGGTA
82975331 AGTAGTATGAGTAGGATAATAAATAAATGATAATAAAATGTAACATTGTCCCTATGGCCACTATA
1 AGTAGTATGAGTAGGATAATAAATAAATGATAATAAAATGTAACATTGTCCCTATGGCCACTATA
82975396 CCATTAGGCCATATGAAGGATGGTAAGG
66 CCATTAGGCCATATGAAGGATGGTAAGG
* *
82975424 AGTAGTATTAGTAGGATAATAAATCAATGATAATAAAATGTAACATTGTCCCTATGGCCACTATA
1 AGTAGTATGAGTAGGATAATAAATAAATGATAATAAAATGTAACATTGTCCCTATGGCCACTATA
82975489 CCATTAGGCCAT
66 CCATTAGGCCAT
82975501 GATATGAAAC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (93 bp):
AGTAGTATGAGTAGGATAATAAATAAATGATAATAAAATGTAACATTGTCCCTATGGCCACTATA
CCATTAGGCCATATGAAGGATGGTAAGG
Found at i:82981963 original size:80 final size:80
Alignment explanation
Indices: 82981878--82982039 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 80
82981868 ATCACAAATA
* *
82981878 ATGGTGAGTACTCACAAATCCCATGGCATGCTAACTATATCCAATTGATCCACCATGCAATGTTT
1 ATGGTGAGTACTCACAAATCCCATGGCATGCCAACTATATCCAATGGATCCACCATGCAATGTTT
82981943 CCAATATAATCATAC
66 CCAATATAATCATAC
* * *
82981958 ATGGTGGGTACTCACAAATCCCATGGCATGCCCACTGTATCCAATGGATCCACCATGCAATGTTT
1 ATGGTGAGTACTCACAAATCCCATGGCATGCCAACTATATCCAATGGATCCACCATGCAATGTTT
82982023 CCAATATAATCATAC
66 CCAATATAATCATAC
82982038 AT
1 AT
82982040 ACAAGGCGTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (80 bp):
ATGGTGAGTACTCACAAATCCCATGGCATGCCAACTATATCCAATGGATCCACCATGCAATGTTT
CCAATATAATCATAC
Found at i:82983206 original size:2 final size:2
Alignment explanation
Indices: 82983199--82983230 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82983189 ATAAGCAAAA
82983199 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
82983231 CAAAAAGCTC
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:82983604 original size:20 final size:21
Alignment explanation
Indices: 82983572--82983610 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
82983562 CATAAAATTA
82983572 ATTTTTCTAAATA-TATTTTT
1 ATTTTTCTAAATATTATTTTT
82983592 ATTTTTC-AGAATATTATTT
1 ATTTTTCTA-AATATTATTT
82983611 ACTGAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTCTAAATATTATTTTT
Found at i:82986696 original size:30 final size:30
Alignment explanation
Indices: 82986662--82986722 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82986652 TCCTTAACTC
82986662 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82986692 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82986722 A
1 A
82986723 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82987703 original size:25 final size:26
Alignment explanation
Indices: 82987640--82987762 Score: 149
Period size: 26 Copynumber: 4.7 Consensus size: 26
82987630 TACAGAGTTT
* *
82987640 GCCACAAAGGAATTTCTTTCATATTTC
1 GCCACAAAGG-CTTTCTTTCATATTAC
* *
82987667 GCCACAAAGGCTTTCTTCCATATTAA
1 GCCACAAAGGCTTTCTTTCATATTAC
*
82987693 G-CACAAAGGCTTTCTTTCATATTAT
1 GCCACAAAGGCTTTCTTTCATATTAC
* *
82987718 GCCAAAAAAGCTTTCTTTCATATTAC
1 GCCACAAAGGCTTTCTTTCATATTAC
* *
82987744 GCCATAAAGGCTTTTTTTC
1 GCCACAAAGGCTTTCTTTC
82987763 CTAACGTGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 23 0.28
26 50 0.60
27 10 0.12
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (26 bp):
GCCACAAAGGCTTTCTTTCATATTAC
Found at i:82987712 original size:51 final size:52
Alignment explanation
Indices: 82987640--82987762 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 52
82987630 TACAGAGTTT
* * *
82987640 GCCACAAAGGAATTTCTTTCATATT-TCGCCACAAAGGCTTTCTTCCATATTAA
1 GCCACAAAGG-CTTTCTTTCATATTAT-GCCAAAAAAGCTTTCTTCCATATTAA
* *
82987693 G-CACAAAGGCTTTCTTTCATATTATGCCAAAAAAGCTTTCTTTCATATTAC
1 GCCACAAAGGCTTTCTTTCATATTATGCCAAAAAAGCTTTCTTCCATATTAA
* *
82987744 GCCATAAAGGCTTTTTTTC
1 GCCACAAAGGCTTTCTTTC
82987763 CTAACGTGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
51 36 0.59
52 24 0.39
53 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (52 bp):
GCCACAAAGGCTTTCTTTCATATTATGCCAAAAAAGCTTTCTTCCATATTAA
Found at i:82994751 original size:34 final size:34
Alignment explanation
Indices: 82994699--82994792 Score: 127
Period size: 34 Copynumber: 2.8 Consensus size: 34
82994689 TTTCAATTAG
* *
82994699 GGCCTTAGACCATTTCAGTAACAGTAGCAGTCTA
1 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
* * *
82994733 GGTCTGAGCCCATTTCAGTAGCAGTAGCAGTCTG
1 GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
82994767 GGCCTGAGCCCATTTCAG-AATCAGTA
1 GGCCTGAGCCCATTTCAGTAA-CAGTA
82994793 TAGTATGCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 1 0.02
34 51 0.98
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (34 bp):
GGCCTGAGCCCATTTCAGTAACAGTAGCAGTCTA
Found at i:82995174 original size:27 final size:27
Alignment explanation
Indices: 82995139--82995209 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
82995129 ATCGTAGGGC
*
82995139 AAATCAGTCATTTTACCTTACAGGGGTA
1 AAAT-AGTCATTTTACCTTACAGAGGTA
82995167 AAATAGTCATTTTACCTTACAGAGGTA
1 AAATAGTCATTTTACCTTACAGAGGTA
* * *
82995194 ATACAATCATTTTACC
1 AAATAGTCATTTTACC
82995210 CTAAGGGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (27 bp):
AAATAGTCATTTTACCTTACAGAGGTA
Found at i:82995252 original size:27 final size:27
Alignment explanation
Indices: 82995200--82995304 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
82995190 GGTAATACAA
* *
82995200 TCATTTTACCCTA--AGGGTATCTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
82995225 TTATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
82995252 TCATTTTATCTTATGGGGGTATTTAGG
1 TCATTTTACCCTATGGGGGTATTTCGG
82995279 TCATTTTACCCTATGGGGGTATTTCG
1 TCATTTTACCCTATGGGGGTATTTCG
82995305 TCACAGTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 12 0.18
27 56 0.82
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:82997522 original size:6 final size:6
Alignment explanation
Indices: 82997511--82997557 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
82997501 AGGTTTCCAA
*
82997511 AAATGG AAATGG AAATGA AAAT-G AAGATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AA-ATGG AAATGG AAATGG AAATG
82997558 ATCTATCTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 2 0.05
6 32 0.86
7 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:82997540 original size:24 final size:24
Alignment explanation
Indices: 82997513--82997558 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
82997503 GTTTCCAAAA
82997513 ATGGAAATGGAAATGAAAATGAAG
1 ATGGAAATGGAAATGAAAATGAAG
*
82997537 ATGGAAATGGAAATGGAAATGA
1 ATGGAAATGGAAATGAAAATGA
82997559 TCTATCTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.17
Consensus pattern (24 bp):
ATGGAAATGGAAATGAAAATGAAG
Found at i:83003944 original size:15 final size:16
Alignment explanation
Indices: 83003898--83003945 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
83003888 TCTTCATAAA
*
83003898 CATATATCATTCATTT
1 CATATATCAGTCATTT
83003914 CATTATATCAGT-ATTT
1 CA-TATATCAGTCATTT
*
83003930 CATATACCA-TCATTT
1 CATATATCAGTCATTT
83003945 C
1 C
83003946 CATGTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 1 0.04
15 11 0.39
16 8 0.29
17 8 0.29
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (16 bp):
CATATATCAGTCATTT
Found at i:83004475 original size:27 final size:27
Alignment explanation
Indices: 83004428--83004505 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 27
83004418 CAAGGGAGCC
* *
83004428 AATATCTGGAAGCTC-TGAAGAGCCATT
1 AATAT-TGGAAGCTCACGAAGAGCCAAT
* *
83004455 AATATTGGAAGCTCACAAAGAGACAAT
1 AATATTGGAAGCTCACGAAGAGCCAAT
* *
83004482 CA-ATGGGAAGCTCACGAAGAGCCA
1 AATATTGGAAGCTCACGAAGAGCCA
83004506 CATATCGGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 28 0.67
27 14 0.33
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18
Consensus pattern (27 bp):
AATATTGGAAGCTCACGAAGAGCCAAT
Found at i:83004515 original size:26 final size:25
Alignment explanation
Indices: 83004386--83004521 Score: 75
Period size: 26 Copynumber: 5.4 Consensus size: 25
83004376 GCCATTAACA
* *
83004386 GGAAGCTC-CGGATAGCCATATATCG
1 GGAAGCTCACGAAGAGCCA-ATATCG
* * * *
83004411 GGAAGTTCAAG-GGAGCCAATATCT
1 GGAAGCTCACGAAGAGCCAATATCG
* *
83004435 GGAAGCTC-TGAAGAGCCATTAATAT-T
1 GGAAGCTCACGAAGAGCC---AATATCG
* *
83004461 GGAAGCTCACAAAGAGACAATCAAT-G
1 GGAAGCTCACGAAGAGCCAAT--ATCG
83004487 GGAAGCTCACGAAGAGCCACATATCG
1 GGAAGCTCACGAAGAGCCA-ATATCG
*
83004513 GGATGCTCA
1 GGAAGCTCA
83004522 TAAAAGCTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.01
24 20 0.23
25 14 0.16
26 38 0.44
27 13 0.15
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
GGAAGCTCACGAAGAGCCAATATCG
Found at i:83005688 original size:95 final size:95
Alignment explanation
Indices: 83005516--83005794 Score: 398
Period size: 95 Copynumber: 2.9 Consensus size: 95
83005506 ATGAGCTGTG
* * * * *
83005516 AATTG-GACATTAACCATTACACAATGCTCCTCACACGAGCTATGAAGAATTTGCAACACATGCA
1 AATTGAGACATTAACCATTACACGATGCTGCTCACACGAGCTATGAAGAATCTGCAATATATGCA
* *
83005580 GAATCTTAACCATCAGTAAGGTATCTAGAA
66 GGATCTTAGCCATCAGTAAGGTATCTAGAA
* * *
83005610 AATTGAGACATTAACCATTACACGATGCTGCTCACACGAGCTGTGAAGAATCCGTAATATATGCA
1 AATTGAGACATTAACCATTACACGATGCTGCTCACACGAGCTATGAAGAATCTGCAATATATGCA
*
83005675 GGATCTTAGCCATCAGTAAGGTATCTAGTA
66 GGATCTTAGCCATCAGTAAGGTATCTAGAA
* * *
83005705 AATAGAGACATTAACTATTACACGATGTTGCTCACACGAGCTATGAAGAATCTGCAATATATGCA
1 AATTGAGACATTAACCATTACACGATGCTGCTCACACGAGCTATGAAGAATCTGCAATATATGCA
* * *
83005770 TGATCTTAGCCATCGGTGAGGTATC
66 GGATCTTAGCCATCAGTAAGGTATC
83005795 CACCACCAGT
Statistics
Matches: 164, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
94 5 0.03
95 159 0.97
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (95 bp):
AATTGAGACATTAACCATTACACGATGCTGCTCACACGAGCTATGAAGAATCTGCAATATATGCA
GGATCTTAGCCATCAGTAAGGTATCTAGAA
Found at i:83007328 original size:47 final size:46
Alignment explanation
Indices: 83007170--83007430 Score: 216
Period size: 47 Copynumber: 5.6 Consensus size: 46
83007160 TTGTCGTTGC
* **
83007170 CATGTCCCAGACATGGTCTTACACTGGC-TCTCATATACGCGTGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCATCTCAT-T-CGAG-GCCGATG
* *
83007219 CATGTCCCAGACATGTCTTACACTAGTACAACTC-TT--A-GCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCATCTCATTCGAGGCCGATG
* * *
83007263 CGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCCGGTG
1 CATGTCCCAGACATGTCTTACACTGGC-ATCTCAT-TCGAGGCCGATG
* * *
83007310 CATGTCCCAAACATGTCTTACACTGGCA-CTCGTCTCTG-TGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATCTCAT-TC-GAGGCCGATG
* * *
83007356 CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATACTATGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCATCTCATTCGA-GGCCGATG
83007404 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
83007431 GCACAAATCA
Statistics
Matches: 175, Mismatches: 22, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.03
44 28 0.16
45 3 0.02
46 24 0.14
47 59 0.34
48 33 0.19
49 16 0.09
50 2 0.01
51 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCATCTCATTCGAGGCCGATG
Found at i:83007409 original size:94 final size:92
Alignment explanation
Indices: 83007167--83007430 Score: 279
Period size: 94 Copynumber: 2.8 Consensus size: 92
83007157 ATATTGTCGT
* * *
83007167 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTAATGCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTATG-G-CCGAA-GCATGTCCCAGAC
* *
83007231 ATGTCTTACACTAGTACAACTCTTAGCCGA
63 ATGTCTTACACTGGCACAACTCTTAGCCGA
* * * * ** *
83007261 TG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-T-CTGTCGAGGCCGGTGCATGTCCCAAAC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTAT---GGCCGAAGCATGTCCCAGAC
* *
83007322 ATGTCTTACACTGGCAC-TCGTCTCTGTGCCGA
63 ATGTCTTACACTGGCACAAC-TCT-T-AGCCGA
83007354 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTATGGCCGAAGCATGTCCCAGACATG
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTATGGCCGAAGCATGTCCCAGACATG
83007419 TCTTACACTGGC
66 TCTTACACTGGC
83007431 GCACAAATCA
Statistics
Matches: 138, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
90 1 0.01
91 32 0.23
92 18 0.13
93 20 0.14
94 47 0.34
95 16 0.12
96 1 0.01
97 3 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (92 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACTATGGCCGAAGCATGTCCCAGACATG
TCTTACACTGGCACAACTCTTAGCCGA
Found at i:83014888 original size:40 final size:40
Alignment explanation
Indices: 83014794--83014938 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
83014784 TACTCGAATG
*
83014794 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
83014835 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
83014875 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
83014915 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
83014939 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:83024203 original size:47 final size:47
Alignment explanation
Indices: 83024107--83024284 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 47
83024097 GGAAATTGAG
* * * * ** *
83024107 ATCCGAACTCGTTGAGTTGTGGTCCGAGTTCGTGA-GAATTATGAGGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGA-TGCGAAGC
* *
83024154 ATCCGAACTCATTGAGTTGTGTTTCGAGTTCACTTATGGATGC-AAGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGCGAAGC
* *
83024201 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTTAATATGGATGCGAA-C
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAAGC
* * *
83024247 ACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
83024285 GTGAGATTAT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
46 43 0.39
47 62 0.56
48 3 0.03
49 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAAGC
Found at i:83024284 original size:46 final size:46
Alignment explanation
Indices: 83024156--83024284 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 46
83024146 TATGAGGCAT
* * *
83024156 CCGAACTCATTGAGTTGTGTTTCGAGTTCACTTATGGATGCAAGCAT
1 CCGAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGCAAGCAC
* *
83024203 CCGAACTCGTTGAGTTGTGTTCCGAGTTTAATATGGATGCGAA-CAC
1 CCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGC-AAGCAC
* *
83024249 CCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 CCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
83024285 GTGAGATTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 43 0.60
47 29 0.40
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCAAGCAC
Found at i:83035755 original size:122 final size:119
Alignment explanation
Indices: 83035528--83035744 Score: 264
Period size: 122 Copynumber: 1.8 Consensus size: 119
83035518 ACGATTCTTT
*
83035528 TTAACTCTTTTCCCCATTATTAGTTCCTAAAAACAACAAATCCAAAAACCCATTAATACCTTAAA
1 TTAACTCTTTTCCCCATCATTAGTTCCTAAAAACAAC--ATCCAAAAACCCATTAATACCTTAAA
* * *
83035593 CCCAGAATCATAGAAGCAATAAAATAATAAAAAATGGAAAAAAAAATTCCAAACGTC
64 CCCA-AATCACAAAAGCAATAAAATAAGAAAAAATGGAAAAAAAAATTCCAAACGTC
* * *
83035650 TTAACTCTTTTCTCCATCATTAGTTCCTAAAAATAAC-TCTAAATAA-CCATT-A-ACCTCCTAA
1 TTAACTCTTTTCCCCATCATTAGTTCCTAAAAACAACATCCAAA-AACCCATTAATACCT--TAA
*
83035711 ACCC-AATCACAAAAGCAATCAAATAAGGAAAAAA
63 ACCCAAATCACAAAAGCAATAAAATAA-GAAAAAA
83035745 CTGAAGGAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
117 23 0.28
118 7 0.08
119 17 0.20
120 2 0.02
122 34 0.41
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (119 bp):
TTAACTCTTTTCCCCATCATTAGTTCCTAAAAACAACATCCAAAAACCCATTAATACCTTAAACC
CAAATCACAAAAGCAATAAAATAAGAAAAAATGGAAAAAAAAATTCCAAACGTC
Found at i:83047399 original size:28 final size:29
Alignment explanation
Indices: 83047367--83047450 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
83047357 ATTAGTTACC
*
83047367 TTAGACTAATTAATTTCATTAGGTT-ATT
1 TTAGATTAATTAATTTCATTAGGTTAATT
83047395 TTAGATTAATTAA-TTCAATTAGGTTAATT
1 TTAGATTAATTAATTTC-ATTAGGTTAATT
* * * *
83047424 TTAGTTTAAGTAATTTAATTAGTTTAA
1 TTAGATTAATTAATTTCATTAGGTTAA
83047451 CTACTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 3 0.06
28 20 0.42
29 23 0.48
30 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.50
Consensus pattern (29 bp):
TTAGATTAATTAATTTCATTAGGTTAATT
Found at i:83056115 original size:34 final size:34
Alignment explanation
Indices: 83056077--83056152 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
83056067 GCTTATATGG
*
83056077 TGAAAAATAAATTACATGATAATAGGGACTAAAT
1 TGAAAAATAAACTACATGATAATAGGGACTAAAT
**
83056111 TGAAAAATGTACTACATGATAATAGGGACTAAAT
1 TGAAAAATAAACTACATGATAATAGGGACTAAAT
83056145 TGAAAAAT
1 TGAAAAAT
83056153 GTACAAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (34 bp):
TGAAAAATAAACTACATGATAATAGGGACTAAAT
Found at i:83056141 original size:17 final size:17
Alignment explanation
Indices: 83056089--83056141 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
83056079 AAAAATAAAT
83056089 TACATGATAATAGGGAC
1 TACATGATAATAGGGAC
* * * *
83056106 TAAATTGA-AAAATGTAC
1 TACA-TGATAATAGGGAC
83056123 TACATGATAATAGGGAC
1 TACATGATAATAGGGAC
83056140 TA
1 TA
83056142 AATTGAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (17 bp):
TACATGATAATAGGGAC
Found at i:83056153 original size:34 final size:34
Alignment explanation
Indices: 83056089--83056156 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
83056079 AAAAATAAAT
83056089 TACATGATAATAGGGACTAAATTGAAAAATGTAC
1 TACATGATAATAGGGACTAAATTGAAAAATGTAC
83056123 TACATGATAATAGGGACTAAATTGAAAAATGTAC
1 TACATGATAATAGGGACTAAATTGAAAAATGTAC
83056157 AAAAGTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.26
Consensus pattern (34 bp):
TACATGATAATAGGGACTAAATTGAAAAATGTAC
Found at i:83057162 original size:30 final size:30
Alignment explanation
Indices: 83057118--83057182 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
83057108 ACTTAATAAG
83057118 CAAATACCTCTAAAATAATAAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
* * *
83057148 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
83057178 -AAATA
1 CAAATA
83057183 AAATAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:83059910 original size:42 final size:41
Alignment explanation
Indices: 83059797--83059965 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 41
83059787 GAATTTTCGA
*
83059797 TATTTGATTTCGTGTAAGATCACAT-T-TGGGACGTTGGCATCG
1 TATTTGATTTCGTGTAAGA-C-CATGTCTGGGAC-ATGGCATCG
*
83059839 -ATTTGAGATTTACGTGTAAGACCACGTCTGGGACATCGGCATCG
1 TATTT--GATTT-CGTGTAAGACCATGTCTGGGACAT-GGCATCG
* *
83059883 TATTTGATTTCGTGTAAGACCTTGTCTGGGATAGTGGCATCG
1 TATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCATCG
* * * * *
83059925 ATATTTGATTACATATAAAACCACGTCTGGGACATTGGCAT
1 -TATTTGATTTCGTGTAAGACCATGTCTGGGACA-TGGCAT
83059966 TGTACGAACT
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
41 4 0.04
42 29 0.28
43 46 0.44
44 22 0.21
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
TATTTGATTTCGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:83077432 original size:42 final size:42
Alignment explanation
Indices: 83077326--83077463 Score: 143
Period size: 42 Copynumber: 3.2 Consensus size: 42
83077316 GGATTTTCGA
* * * * *
83077326 TATTTGATTTTGTGTAAGATCACGTCTAGGACGTTGGCATCG
1 TATTTGATTTTGTTTAAGACCATGTCTGGGACATTGGCATCG
**
83077368 -ATTTGAGAGTTACGTTTAAGACCATGTCTGGGACATTGGCATCG
1 TATTT--GA-TTTTGTTTAAGACCATGTCTGGGACATTGGCATCG
* * *
83077412 TATTTGATTTTGTTTAAGACCTTGTCTGGGACAATGGCATTG
1 TATTTGATTTTGTTTAAGACCATGTCTGGGACATTGGCATCG
83077454 ATATTTGATT
1 -TATTTGATT
83077464 ACATGTAAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.05
42 30 0.38
43 13 0.16
44 28 0.35
45 4 0.05
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (42 bp):
TATTTGATTTTGTTTAAGACCATGTCTGGGACATTGGCATCG
Found at i:83077473 original size:43 final size:42
Alignment explanation
Indices: 83077384--83077486 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
83077374 GAGTTACGTT
* *** *
83077384 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTGTT
1 TAAGACCATGTCTGGGACAATGGCATCGTATTTGATTACATG
* *
83077426 TAAGACCTTGTCTGGGACAATGGCATTGATATTTGATTACATG
1 TAAGACCATGTCTGGGACAATGGCATCG-TATTTGATTACATG
* *
83077469 TAAGACCACGTCTAGGAC
1 TAAGACCATGTCTGGGAC
83077487 GTTGGCATTG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAATGGCATCGTATTTGATTACATG
Found at i:83077496 original size:43 final size:43
Alignment explanation
Indices: 83077322--83077494 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
83077312 AATAGGATTT
** * *
83077322 TCGATATTTGATTTTGTGTAAGATCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
* * * *
83077365 TCGAT-TTGAGAGTTACGTTTAAGACCATGTCTGGGACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCACGTCTAGGACATTGGCA
** * ** * *
83077409 TCG-TATTTGATTTTGTTTAAGACCTTGTCTGGGACAATGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
* * *
83077451 TTGATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
83077494 T
1 T
83077495 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 32 0.31
43 41 0.40
44 30 0.29
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTAGGACATTGGCA
Found at i:83089099 original size:22 final size:22
Alignment explanation
Indices: 83089059--83089100 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
83089049 GAATGTGCAT
*
83089059 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
83089081 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
83089101 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:83093240 original size:54 final size:54
Alignment explanation
Indices: 83093144--83093591 Score: 286
Period size: 54 Copynumber: 8.3 Consensus size: 54
83093134 CGGCTCACTA
* * * * *
83093144 ATTTAAGATCCCAACCTTATACTTATAGGATTTTTCCT--ATCTTACGATTTGCCG
1 ATTTAAGATCGCAACCTTATACTTACAAGA-TTTT-CTGAATCTTGCGACTTGCCG
* * * *
83093198 ATTTAAGATCGCAACCTTACT-CTTACAAAATTTTTTGAATCTTGC-AGCTAGTCG
1 ATTTAAGATCGCAACCTTA-TACTTACAAGATTTTCTGAATCTTGCGA-CTTGCCG
*** * * **
83093252 ATTTAAGATCGTTGCCTTATACTTACAGGATTTTCTGAATCTTGCGATTTTTCG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGACTTGCCG
* * * ** *
83093306 ATTTAAGATCGCAACCTTATACTTACAAGGTTTATC-GAATCTTGTGGCTCACTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTT-TCTGAATCTTGCGACTTGCCG
* * * * *
83093360 ACTTAAGATCGAAACCTTATACTTACAAGATTTTCTGAATCTTACTG-GTTGCTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGC-GACTTGCCG
* * ** * * ****
83093414 ATTTAAGATCTCAACCATATACTTACAAGATTTTCCAAACCTTGTTG-CTCATTG
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTG-CGACTTGCCG
* ** * * *
83093468 ATTTAAGATCCCAAATTACCTTATACTTACAAGATTTTAAGAATCTTGTGGCTCGCC-
1 ATTTAAGATCGC--A--ACCTTATACTTACAAGATTTTCTGAATCTTGCGACTTGCCG
* * * * *
83093525 ATTTAAGATCCCAGCCTTATACTTACAAGA-TTTCTAAATCTTGC-AGTTGCCA
1 ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGACTTGCCG
*
83093577 ATTTAAGACCGCAAC
1 ATTTAAGATCGCAAC
83093592 TTTCTCATAC
Statistics
Matches: 307, Mismatches: 71, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
51 4 0.01
52 23 0.07
53 24 0.08
54 206 0.67
55 6 0.02
56 1 0.00
57 14 0.05
58 29 0.09
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (54 bp):
ATTTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTGCGACTTGCCG
Found at i:83093300 original size:108 final size:108
Alignment explanation
Indices: 83093111--83093570 Score: 367
Period size: 108 Copynumber: 4.2 Consensus size: 108
83093101 CAATTCATTG
* * * * * ** *
83093111 CTTACAAGATTTTTCGAGTCTTACGGCTCACTAATTTAAGATCCCAACCTTATACTTATAGGATT
1 CTTACAAGATTTTTCGAATCTTGCAGCTCACTGACTTAAGATCGAAACCTTATACTTACAGGA-T
83093176 TTTCCT--ATCTTACGATTTGCCGATTTAAGATCGCAACCTTACT-
65 TTT-CTGAATCTTACGATTTGCCGATTTAAGATCGCAACCTTA-TA
* * * * ***
83093219 CTTACAAAATTTTTTGAATCTTGCAGCT-AGTCGATTTAAGATCGTTGCCTTATACTTACAGGAT
1 CTTACAAGATTTTTCGAATCTTGCAGCTCACT-GACTTAAGATCGAAACCTTATACTTACAGGAT
* **
83093283 TTTCTGAATCTTGCGATTTTTCGATTTAAGATCGCAACCTTATA
65 TTTCTGAATCTTACGATTTGCCGATTTAAGATCGCAACCTTATA
* * ** *
83093327 CTTACAAGGTTTATCGAATCTTGTGGCTCACTGACTTAAGATCGAAACCTTATACTTACAAGATT
1 CTTACAAGATTTTTCGAATCTTGCAGCTCACTGACTTAAGATCGAAACCTTATACTTACAGGATT
* * * *
83093392 TTCTGAATCTTACTG-GTTGCTGATTTAAGATCTCAACCATATA
66 TTCTGAATCTTAC-GATTTGCCGATTTAAGATCGCAACCTTATA
* * * ** * * * *
83093435 CTTACAAGATTTTCCAAACCTTGTTGCTCATTGATTTAAGATCCCAAATTACCTTATACTTACAA
1 CTTACAAGATTTTTCGAATCTTGCAGCTCACTGACTTAAGAT--CGAA--ACCTTATACTTACAG
** ** ** * * *
83093500 GATTTTAAGAATCTTGTGGCTCGCC-ATTTAAGATCCCAGCCTTATA
62 GATTTTCTGAATCTTACGATTTGCCGATTTAAGATCGCAACCTTATA
* *
83093546 CTTACAAGATTTCT-AAATCTTGCAG
1 CTTACAAGATTTTTCGAATCTTGCAG
83093571 TTGCCAATTT
Statistics
Matches: 283, Mismatches: 58, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
106 2 0.01
107 7 0.02
108 198 0.70
109 3 0.01
110 11 0.04
111 31 0.11
112 31 0.11
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (108 bp):
CTTACAAGATTTTTCGAATCTTGCAGCTCACTGACTTAAGATCGAAACCTTATACTTACAGGATT
TTCTGAATCTTACGATTTGCCGATTTAAGATCGCAACCTTATA
Found at i:83093437 original size:162 final size:163
Alignment explanation
Indices: 83093200--83093566 Score: 363
Period size: 162 Copynumber: 2.3 Consensus size: 163
83093190 ATTTGCCGAT
* * *
83093200 TTAAGATCGCAACCTTACT-CTTACAAAATTTTTTGAATCTTGCAGCTAGTCGATTTAAGATCGT
1 TTAAGATCGCAACCTTA-TACTTACAAGATTTTCTGAATCTTACAGCTAGTCGATTTAAGATCGT
** * * ** * ** *
83093264 TGCCTTATACTTACAGGATTTTCTGAATCTTG-CGATTTTTCGATTTAAGATCGC-A-ACCTTAT
65 AACCATATACTTACAAGATTTTCCAAACCTTGTCGATCATT-GATTTAAGATCCCAATACCTTAT
* * *
83093326 ACTTACAAG-GTTTATCGAATCTTGTGGCTCACTGAC
129 ACTTACAAGATTTTA-AGAATCTTGTGGCTCAC-CAC
* * * *
83093362 TTAAGATCGAAACCTTATACTTACAAGATTTTCTGAATCTTACTGGTTG-CTGATTTAAGATC-T
1 TTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACAGCTAGTC-GATTTAAGATCGT
* *
83093425 CAACCATATACTTACAAGATTTTCCAAACCTTGTTGCTCATTGATTTAAGATCCCAAATTACCTT
65 -AACCATATACTTACAAGATTTTCCAAACCTTGTCGATCATTGATTTAAGATCCC-AA-TACCTT
* *
83093490 ATACTTACAAGATTTTAAGAATCTTGTGGCTCGCCAT
127 ATACTTACAAGATTTTAAGAATCTTGTGGCTCACCAC
* * *
83093527 TTAAGATCCCAGCCTTATACTTACAAGA-TTTCTAAATCTT
1 TTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTT
83093567 GCAGTTGCCA
Statistics
Matches: 168, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
161 3 0.02
162 88 0.52
163 4 0.02
164 12 0.07
165 26 0.15
166 31 0.18
167 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (163 bp):
TTAAGATCGCAACCTTATACTTACAAGATTTTCTGAATCTTACAGCTAGTCGATTTAAGATCGTA
ACCATATACTTACAAGATTTTCCAAACCTTGTCGATCATTGATTTAAGATCCCAATACCTTATAC
TTACAAGATTTTAAGAATCTTGTGGCTCACCAC
Found at i:83094734 original size:27 final size:27
Alignment explanation
Indices: 83094704--83094774 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
83094694 ATTAATTTAG
83094704 ATTTCTAATTATCTTAACTA-AATTAAA
1 ATTTCTAATTATCTTAA-TATAATTAAA
* * *
83094731 ATTT-TAATTTTCATAATATAATTTAA
1 ATTTCTAATTATCTTAATATAATTAAA
83094757 ATTTCTAATTATCTTAAT
1 ATTTCTAATTATCTTAAT
83094775 TTACACAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 2 0.05
26 20 0.54
27 15 0.41
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTCTAATTATCTTAATATAATTAAA
Found at i:83108264 original size:21 final size:20
Alignment explanation
Indices: 83108236--83108274 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
83108226 ATACAAACAG
83108236 GGGCACACACCCGTGTGGAA
1 GGGCACACACCCGTGTGGAA
*
83108256 GGGCGACACGCCCGTGTGG
1 GGGC-ACACACCCGTGTGG
83108275 CTCACACGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.18, C:0.31, G:0.41, T:0.10
Consensus pattern (20 bp):
GGGCACACACCCGTGTGGAA
Found at i:83109581 original size:48 final size:48
Alignment explanation
Indices: 83109518--83109755 Score: 253
Period size: 48 Copynumber: 4.9 Consensus size: 48
83109508 CATATATCGG
*
83109518 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAA
* ** * * * * * *
83109566 GGCCGAAACCATGTTCTAGACATGGTCTTACTCTATCTCTCATATATAAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTA--GCTCACATATCAA
* * *
83109616 TGCCGATGCCATGTTCCAAACATGGTCTTATACTGGCTCATATATCGAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC-AA
** * * * * *
83109665 -GTTGATGCCATGTCCCAGACAAGATCTTACACTAGCTCTCATATCAA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAA
*
83109712 TGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCACATA
1 TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
83109756 ACCCTAGCAT
Statistics
Matches: 148, Mismatches: 38, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
47 2 0.01
48 108 0.73
49 2 0.01
50 36 0.24
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAA
Found at i:83109645 original size:98 final size:97
Alignment explanation
Indices: 83109476--83109755 Score: 332
Period size: 98 Copynumber: 2.9 Consensus size: 97
83109466 AATGCCTATG
* * **
83109476 CCATGTCCTAGACATGGTTTTGCACTGACTCTCATATATCGGTGCCGATGCCATGTTCCAAACAT
1 CCATGTCCTAGACATGGTCTTACACT-ACTCTCATATATCAATGCCGATGCCATGTTCCAAACAT
*
83109541 GGTCTTACACTAGCTCACATGTC-AAGGCCGAAA
65 GGTCTTACACTAGCTCACATATCGAA-GCCGAAA
* * *
83109574 CCATGTTCTAGACATGGTCTTACTCTATCTCTCATATATAAATGCCGATGCCATGTTCCAAACAT
1 CCATGTCCTAGACATGGTCTTACACTA-CTCTCATATATCAATGCCGATGCCATGTTCCAAACAT
* * * ** **
83109639 GGTCTTATACTGGCTCATATATCGAAGTTGATG
65 GGTCTTACACTAGCTCACATATCGAAGCCGAAA
* * * *
83109672 CCATGTCCCAGACAAGATCTTACACTAGCTCTC--ATATCAATGCCGATGCCATATTCCAAACAT
1 CCATGTCCTAGACATGGTCTTACACTA-CTCTCATATATCAATGCCGATGCCATGTTCCAAACAT
83109735 GGTCTTACACTAGCTCACATA
65 GGTCTTACACTAGCTCACATA
83109756 ACCCTAGCAT
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
96 46 0.30
97 1 0.01
98 105 0.68
99 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (97 bp):
CCATGTCCTAGACATGGTCTTACACTACTCTCATATATCAATGCCGATGCCATGTTCCAAACATG
GTCTTACACTAGCTCACATATCGAAGCCGAAA
Found at i:83119471 original size:28 final size:28
Alignment explanation
Indices: 83119440--83119502 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
83119430 TCCCATATTA
83119440 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
83119468 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
83119496 ATGGGGT
1 ATGGGGT
83119503 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:83130354 original size:31 final size:29
Alignment explanation
Indices: 83130285--83130370 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 29
83130275 AATCTAAAAA
* * *
83130285 TATATATATAAATTTTGATTTAATGTATAAT
1 TATATATATAAATTTTAATTT--GGTACAAT
83130316 TATATATATAAATTTTAATTTGGTACAAT
1 TATATATATAAATTTTAATTTGGTACAAT
* *
83130345 TATACATATAAAACTTTAATTGTGGT
1 TATATATAT-AAATTTTAATT-TGGT
83130371 TTAAATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 14 0.29
30 10 0.21
31 24 0.50
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (29 bp):
TATATATATAAATTTTAATTTGGTACAAT
Found at i:83132252 original size:29 final size:29
Alignment explanation
Indices: 83132210--83132268 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
83132200 GGCCAAAGGA
83132210 ATTAAATGGGCTCCTTAAACTGAATTCTT
1 ATTAAATGGGCTCCTTAAACTGAATTCTT
83132239 ATTAAATGGGCTCCTTAAACTGAATTCTT
1 ATTAAATGGGCTCCTTAAACTGAATTCTT
83132268 A
1 A
83132269 CATGATGATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (29 bp):
ATTAAATGGGCTCCTTAAACTGAATTCTT
Found at i:83140552 original size:40 final size:40
Alignment explanation
Indices: 83140497--83140753 Score: 396
Period size: 40 Copynumber: 6.5 Consensus size: 40
83140487 TGGATGATAA
* * *
83140497 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
83140537 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
83140577 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
83140617 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
83140657 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
83140697 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
83140736 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
83140754 TACTTGGCTT
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
38 15 0.07
39 16 0.08
40 174 0.85
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:83142644 original size:17 final size:18
Alignment explanation
Indices: 83142622--83142657 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
83142612 TTACACGGCC
83142622 TGAAG-ACACGAGCGTGT
1 TGAAGAACACGAGCGTGT
83142639 TGAAGACACACGAGCGTGT
1 TGAAGA-ACACGAGCGTGT
83142658 CCCAGTGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.31, C:0.19, G:0.33, T:0.17
Consensus pattern (18 bp):
TGAAGAACACGAGCGTGT
Found at i:83151470 original size:27 final size:27
Alignment explanation
Indices: 83151422--83151526 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
83151412 GCGAGGCTGC
* * *
83151422 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
83151449 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
83151475 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
83151502 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
83151527 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
26 8 0.11
27 61 0.86
28 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:83152912 original size:26 final size:26
Alignment explanation
Indices: 83152871--83152954 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
83152861 CATGAAATTC
*
83152871 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
83152897 TTATCATGGAATATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
83152923 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
83152949 TTATCA
1 TTATCA
83152955 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:83153861 original size:22 final size:22
Alignment explanation
Indices: 83153821--83153864 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
83153811 AATTTACTAA
*
83153821 TTAATTTTTTATTTGTTATTCT
1 TTAATTTTTTATATGTTATTCT
83153843 TTAATTTTTTATGAT-TTATTCT
1 TTAATTTTTTAT-ATGTTATTCT
83153865 CAGGTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTAATTTTTTATATGTTATTCT
Found at i:83155400 original size:39 final size:39
Alignment explanation
Indices: 83155346--83155420 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
83155336 AAGGATATTT
83155346 AGGACATAACCAAATAGTTGCAGCCCCAAAAGACCATTC
1 AGGACATAACCAAATAGTTGCAGCCCCAAAAGACCATTC
*
83155385 AGGACATAACCAAATAGTTGTAGCCCCAAAAGACCA
1 AGGACATAACCAAATAGTTGCAGCCCCAAAAGACCA
83155421 ACGCAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.15
Consensus pattern (39 bp):
AGGACATAACCAAATAGTTGCAGCCCCAAAAGACCATTC
Found at i:83158508 original size:3 final size:3
Alignment explanation
Indices: 83158500--83158524 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
83158490 CATGCATCTT
83158500 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
83158525 ATTTATTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:83168523 original size:41 final size:42
Alignment explanation
Indices: 83168478--83168558 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
83168468 CCGGCACGAA
* * *
83168478 GCCTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATTTC
1 GCCTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTTC
*
83168519 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATT
1 GCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATT
83168559 ATAGCCTNNN
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.30
Consensus pattern (42 bp):
GCCTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTTC
Found at i:83177514 original size:40 final size:41
Alignment explanation
Indices: 83177470--83177547 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
83177460 ACTGGCATTT
** *
83177470 AGCCTGCTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
**
83177510 AGCCTGCTAGACTTTAAGTCTGAACTCATTCACCGGCA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCA
83177548 TTTCACCTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 23 0.72
41 9 0.28
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
Found at i:83177605 original size:43 final size:43
Alignment explanation
Indices: 83177535--83177661 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 43
83177525 AAGTCTGAAC
** *
83177535 TCAT-TCACCGGCATTTCA-CCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTAGAGCCTGCTAGGCTCGAAGCCCGATA
* * * * *
83177576 TCATTTCACCGGTATTAGAGCTTGCTAGGCTCGAAGCCTGACA
1 TCATCTCACCGGCATTAGAGCCTGCTAGGCTCGAAGCCCGATA
* * * *
83177619 TTATCTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTAGAGCCTGCTAGGCTCGAAGCCCGATA
83177662 ATATTATTCA
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 4 0.06
42 11 0.16
43 53 0.78
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (43 bp):
TCATCTCACCGGCATTAGAGCCTGCTAGGCTCGAAGCCCGATA
Found at i:83177691 original size:44 final size:46
Alignment explanation
Indices: 83177589--83177702 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 46
83177579 TTTCACCGGT
* * * *
83177589 ATTAGAGCTTGCTAGGCTCGAAG-CC--TGACATTATCTCACTGGC
1 ATTAAAGCTTGCTAGGCCCGAAGCCCGATAACATTATCTCACTAGC
* * *
83177632 ATTATAGCCTGCTAGGCCCGAAGCCCGATAATATTAT-TCACTAGC
1 ATTAAAGCTTGCTAGGCCCGAAGCCCGATAACATTATCTCACTAGC
*
83177677 -TTAAAGCTTGCTAGG-CCGAGGCCCGA
1 ATTAAAGCTTGCTAGGCCCGAAGCCCGA
83177703 ATATCACATT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 30 0.51
44 15 0.25
45 7 0.12
46 7 0.12
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (46 bp):
ATTAAAGCTTGCTAGGCCCGAAGCCCGATAACATTATCTCACTAGC
Found at i:83210317 original size:40 final size:40
Alignment explanation
Indices: 83210238--83210414 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
83210228 CGGATGATAA
* * *
83210238 CCGGACTAAGATCCC-AAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
83210278 CCGGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
83210318 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
83210358 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
83210398 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
83210415 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 17 0.14
40 98 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:83210376 original size:80 final size:81
Alignment explanation
Indices: 83210238--83210414 Score: 247
Period size: 80 Copynumber: 2.2 Consensus size: 81
83210228 CGGATGATAA
* * * *
83210238 CCGGACTAAGATCCC-AAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCTGAAGGCATTT
1 CCGGGCTAAGATCCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT
*
83210302 ATGCTAG-TGATTATAT
66 ATGCGAGTTG-TTATAT
*
83210318 CCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGATCCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT
*
83210382 GTGCGAGTTGTTATAT
66 ATGCGAGTTGTTATAT
83210398 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGATCCCGAAG
83210415 ATACTTGGGT
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 16 0.18
80 68 0.78
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (81 bp):
CCGGGCTAAGATCCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT
ATGCGAGTTGTTATAT
Found at i:83210681 original size:22 final size:22
Alignment explanation
Indices: 83210641--83210682 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
83210631 GAATGTGCAT
*
83210641 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
83210663 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
83210683 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Done.