Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 63 of 322
Found at i:20020032 original size:12 final size:12
Alignment explanation
Indices: 20020015--20020041 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20020005 CTTGTTAAGC
20020015 CATACACCAAAG
1 CATACACCAAAG
20020027 CATACACCAAAG
1 CATACACCAAAG
20020039 CAT
1 CAT
20020042 TATCATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.33, G:0.07, T:0.11
Consensus pattern (12 bp):
CATACACCAAAG
Found at i:20027625 original size:66 final size:66
Alignment explanation
Indices: 20027496--20027627 Score: 156
Period size: 66 Copynumber: 2.0 Consensus size: 66
20027486 ATTTAGGAAC
* * * * * * ** * * *
20027496 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTGGGAATACTCGATATCTTATTTAGGATCTTAGG
1 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
20027561 A
66 A
*
20027562 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCGTTCAGAAGCTTAGG
1 TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
20027627 A
66 A
20027628 AAATCCAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (66 bp):
TTGAGAAAACATGATATCTCGTTCAAGAACTTGGGAAGACTCAATATCGCATTCAGAAGCTTAGG
A
Found at i:20031018 original size:40 final size:40
Alignment explanation
Indices: 20030947--20031094 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
20030937 GCTACTTGCT
20030947 CAAATGCCTTCGGGAC-TAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
20030986 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
20031026 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
20031066 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
20031095 CATCAAATAT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 15 0.15
40 88 0.85
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:20033411 original size:49 final size:49
Alignment explanation
Indices: 20033318--20033411 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
20033308 GTTTAGTGAT
*
20033318 TATGGTTTGTAAATAAGAACTGTGCTAATCAATTGTATGACATCGGAAG
1 TATGGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAG
*
20033367 TATGGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGGCATCG
1 TATGGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCG
20033412 AAAGGGATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (49 bp):
TATGGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAAG
Found at i:20037838 original size:10 final size:10
Alignment explanation
Indices: 20037814--20037860 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
20037804 CATGAGATTT
20037814 TGATAT-ACA
1 TGATATGACA
*
20037823 TCATATGACA
1 TGATATGACA
20037833 TGATATGACA
1 TGATATGACA
20037843 TGATATGCACA
1 TGATATG-ACA
20037854 TGATATG
1 TGATATG
20037861 TTATGAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 10 0.29
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:20037856 original size:21 final size:21
Alignment explanation
Indices: 20037814--20037880 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
20037804 CATGAGATTT
*
20037814 TGATAT-ACATCATATG-ACA
1 TGATATGACATGATATGCACA
20037833 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
20037854 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
20037875 AGATAT
1 TGATAT
20037881 ATTCATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 26 0.63
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:20037995 original size:25 final size:25
Alignment explanation
Indices: 20037929--20037998 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
20037919 AGAAGTGCAC
* *
20037929 AAAAGGCTTTGCCCCAATTTACCAA
1 AAAAGGCTTTGCCCCAGTTAACCAA
* *
20037954 AAAGGGCTTTGCCCCAGTTAATCAA
1 AAAAGGCTTTGCCCCAGTTAACCAA
20037979 AAAAGGCTTTGCCCCAGTTA
1 AAAAGGCTTTGCCCCAGTTA
20037999 TTAAAAGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAAGGCTTTGCCCCAGTTAACCAA
Found at i:20038009 original size:24 final size:25
Alignment explanation
Indices: 20037932--20038009 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
20037922 AGTGCACAAA
* * *
20037932 AGGCTTTGCCCCAATTTACCAAAA-
1 AGGCTTTGCCCCAGTTAATCAAAAG
*
20037956 AGGGCTTTGCCCCAGTTAATCAAAAA
1 A-GGCTTTGCCCCAGTTAATCAAAAG
*
20037982 AGGCTTTGCCCCAGTT-ATTAAAAG
1 AGGCTTTGCCCCAGTTAATCAAAAG
20038006 AGGC
1 AGGC
20038010 CAGGCCTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.23
25 35 0.74
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (25 bp):
AGGCTTTGCCCCAGTTAATCAAAAG
Found at i:20044644 original size:61 final size:61
Alignment explanation
Indices: 20044549--20044674 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
20044539 CTTTGTTTAA
* *
20044549 ACATCAGAGAGTGATTCTTTTTCTCCCCTTTTTCTTCTCTAGTCGGAATTACCACTCTTTC
1 ACATCAGAGAGTGATTCTTTTTCTCCCCTTTTTCTTCTCTAGCCGAAATTACCACTCTTTC
*
20044610 ACATCAGAGAGTGATTCTTTTTCTCCCCTTTTTCTTCTCTAGCCGAAATTACCGCTCTTTC
1 ACATCAGAGAGTGATTCTTTTTCTCCCCTTTTTCTTCTCTAGCCGAAATTACCACTCTTTC
20044671 -CATC
1 ACATC
20044675 CATCTTTCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 4 0.06
61 58 0.94
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.41
Consensus pattern (61 bp):
ACATCAGAGAGTGATTCTTTTTCTCCCCTTTTTCTTCTCTAGCCGAAATTACCACTCTTTC
Found at i:20045981 original size:10 final size:10
Alignment explanation
Indices: 20045960--20046006 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
20045950 CATGAGATTT
20045960 TGATAT-ACA
1 TGATATGACA
20045969 TGATATGACA
1 TGATATGACA
20045979 TGATATGACA
1 TGATATGACA
20045989 TGATATGCACA
1 TGATATG-ACA
20046000 TGATATG
1 TGATATG
20046007 TTATGAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
TGATATGACA
Found at i:20046002 original size:21 final size:21
Alignment explanation
Indices: 20045960--20046026 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
20045950 CATGAGATTT
20045960 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
20045979 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
20046000 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
*
20046021 AGATAT
1 TGATAT
20046027 ATTCATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 26 0.62
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:20046152 original size:25 final size:25
Alignment explanation
Indices: 20046072--20046156 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
20046062 AGAGGAAGTG
20046072 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
*
20046097 CGAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* * *
20046122 CCAAAAGGGCTTTGCCCCAGTTAAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
20046147 CAAAAAGGGC
1 CAAAAAGGGC
20046157 CCCAGTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:20047849 original size:125 final size:126
Alignment explanation
Indices: 20047596--20047976 Score: 568
Period size: 125 Copynumber: 3.0 Consensus size: 126
20047586 TTTCTGCAAG
* ** * * *
20047596 AATAATTCTGAGCAGACGTTTCTGGAA-AAATAGTGTTAGAAAATGCTCCAAGCAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAAAGCTTCAAGCAGGATGCACTA
* * * *
20047660 TCAGCAAAATTTCTAGAAAAACCTCCCATGTGGACGCTTTTTTGCTTCAGTAGTTCGTAGAAA
64 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
20047723 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAAAGCTTCAAGTAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
* * *
20047788 AGCAAAATTTCT-GGAAAAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGTTCATAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
20047848 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAAGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
*
20047913 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGACA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
20047974 AAT
1 AAT
20047977 GAGGCTATAA
Statistics
Matches: 229, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
125 114 0.50
126 85 0.37
127 30 0.13
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAAAGCTTCAAGCAGGATGCACTATC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:20050994 original size:19 final size:20
Alignment explanation
Indices: 20050958--20051003 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
20050948 GAAATAGTTG
20050958 ATAGTTGTCGTAAAAAAACT
1 ATAGTTGTCGTAAAAAAACT
20050978 ATAGTTGTCGT-AAAAAACT
1 ATAGTTGTCGTAAAAAAACT
20050997 AT-GTTGT
1 ATAGTTGT
20051004 ATTATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
ATAGTTGTCGTAAAAAAACT
Found at i:20051506 original size:18 final size:18
Alignment explanation
Indices: 20051480--20051522 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20051470 GACTAGGAAA
* *
20051480 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
20051498 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
20051516 AGGATAC
1 AGGATAC
20051523 GCACCTGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:20051708 original size:41 final size:41
Alignment explanation
Indices: 20051651--20051732 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
20051641 AGGGCCCCGT
* *
20051651 CGTTCCTTTTGGGCACGAATTTATCGTTGCCTCTCCTCTTC
1 CGTTCCCTTTGGGCACGAATTTATCGTCGCCTCTCCTCTTC
* *
20051692 CGTTCCCTTTGGGCACGAATTTGTCGTCGCTTCTCCTCTTC
1 CGTTCCCTTTGGGCACGAATTTATCGTCGCCTCTCCTCTTC
20051733 TGACAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.09, C:0.33, G:0.18, T:0.40
Consensus pattern (41 bp):
CGTTCCCTTTGGGCACGAATTTATCGTCGCCTCTCCTCTTC
Found at i:20053223 original size:48 final size:46
Alignment explanation
Indices: 20053160--20053282 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 46
20053150 ATGAAAAAAG
*
20053160 AAAA-ATCAAACAGTATTGAAATTGTAATTATAA-TTGCATAAATGAA
1 AAAATATCAAATAGTATTGAAATT-TAATTA-AATTTGCATAAATGAA
*
20053206 TAAAATATCAAATAGTATTGCAAATTTAATTAAATTTGCATAAATTAA
1 -AAAATATCAAATAGTATTG-AAATTTAATTAAATTTGCATAAATGAA
*
20053254 AATAATATCGAATAGTATTGAAAATTTAA
1 AA-AATATCAAATAGTATTG-AAATTTAA
20053283 AATTATTACT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
47 8 0.12
48 55 0.81
49 5 0.07
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (46 bp):
AAAATATCAAATAGTATTGAAATTTAATTAAATTTGCATAAATGAA
Found at i:20053432 original size:11 final size:11
Alignment explanation
Indices: 20053416--20053468 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
20053406 TTTTAAACAA
20053416 AGAATTTTGAT
1 AGAATTTTGAT
*
20053427 AGAATTTTGAG
1 AGAATTTTGAT
* *
20053438 AAAATTTTAAT
1 AGAATTTTGAT
*
20053449 -GAAATTTGAT
1 AGAATTTTGAT
*
20053459 AGATTTTTGA
1 AGAATTTTGA
20053469 AGGGAATATT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:20056926 original size:4 final size:4
Alignment explanation
Indices: 20056917--20056947 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
20056907 TGTTTCATGT
20056917 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
20056948 TGTTTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:20057161 original size:21 final size:24
Alignment explanation
Indices: 20057136--20057179 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
20057126 TTTGTTATAA
20057136 ATTTAGAT-TAT-TA-TTATTATT
1 ATTTAGATATATCTATTTATTATT
*
20057157 ATTTATATATATCTATTTATTAT
1 ATTTAGATATATCTATTTATTAT
20057180 CCTTTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 2 0.11
24 7 0.37
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTAGATATATCTATTTATTATT
Found at i:20058547 original size:33 final size:33
Alignment explanation
Indices: 20058498--20058613 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
20058488 ATGGACTTTT
* * *
20058498 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
20058531 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
20058564 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
20058597 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
20058614 ATATAGTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 63 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:20058652 original size:65 final size:62
Alignment explanation
Indices: 20058495--20058742 Score: 199
Period size: 65 Copynumber: 3.8 Consensus size: 62
20058485 CTGATGGACT
* * * * **
20058495 TTTCCTTTTCTAGTTGTACACTCGAGGTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCAAGT-GTACACA--AAGTGTAC
*
20058560 A
62 C
** * *
20058561 TACCCTTTTCAATTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACC
1 TTTCCTTTTCAA-GTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACA-A-AGTGTACC
* ** * ** * *
20058626 TTTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCACATGGTATACACAAAGTATAC
1 TTTCCTTTTCAAGT-GTACACACAAAGTGCACATAACCTTTTCA-A--GTGTACACAAAGTGTAC
20058691 C
62 C
* *
20058692 TTTCCTTTTCAAGTGTACACACAAAGTGTACATAACATTTTCAAGTTGTAC
1 TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAG-TGTAC
20058743 CATTTGGGTA
Statistics
Matches: 146, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 3 0.02
65 69 0.47
66 60 0.41
67 1 0.01
68 8 0.05
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (62 bp):
TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAAAGTGTACC
Found at i:20058664 original size:33 final size:32
Alignment explanation
Indices: 20058531--20058718 Score: 171
Period size: 33 Copynumber: 5.8 Consensus size: 32
20058521 GTGCACATTC
* * * **
20058531 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
* * ** * **
20058564 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACACAAAGTATACCTTT
* * *
20058597 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
*
20058629 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
*
20058662 CCTTTTCACA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTTT
20058695 CCTTTTCAAGTGTACACACAAAGT
1 CCTTTTCAAGTGTACACACAAAGT
20058719 GTACATAACA
Statistics
Matches: 133, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
32 39 0.29
33 92 0.69
34 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTTT
Found at i:20058666 original size:98 final size:98
Alignment explanation
Indices: 20058531--20058722 Score: 224
Period size: 98 Copynumber: 2.0 Consensus size: 98
20058521 GTGCACATTC
* * * * *
20058531 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCA-ATTTGTACACTCAAAGTGCACAT
1 CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACA-TGGTACACACAAAGTACACAT
* *
20058595 AACCTTTTCAAGTGTACACATATAGTGTACCTTT
65 AACCTTTTCAAGTGTACACACAAAGTGTACCTTT
* * ** * * * *
20058629 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCACATGGTATACACAAAGTATACCTT
1 CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACATGGTACACACAAAGTACACATA
*
20058694 TCCTTTTCAAGTGTACACACAAAGTGTAC
66 ACCTTTTCAAGTGTACACACAAAGTGTAC
20058723 ATAACATTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
98 76 0.99
99 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (98 bp):
CCTTTTCAAGTGGTACACACAAAGTATACATACCCTTTTCACATGGTACACACAAAGTACACATA
ACCTTTTCAAGTGTACACACAAAGTGTACCTTT
Found at i:20059454 original size:21 final size:21
Alignment explanation
Indices: 20059425--20059472 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
20059415 TGTAAAAGTG
*
20059425 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAAAAAT-TTTC
20059447 ATTT-TCTATCAAAAATTTTC
1 ATTTATCTATCAAAAATTTTC
20059467 AATTTA
1 -ATTTA
20059473 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTATCTATCAAAAATTTTC
Found at i:20063519 original size:19 final size:20
Alignment explanation
Indices: 20063495--20063533 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20063485 CAGCTACCAC
*
20063495 TAACATTTCT-GGGTGTCTA
1 TAACATTTCTAGAGTGTCTA
20063514 TAACATTTCTAGAGTGTCTA
1 TAACATTTCTAGAGTGTCTA
20063534 GGTGGTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (20 bp):
TAACATTTCTAGAGTGTCTA
Found at i:20064627 original size:3 final size:3
Alignment explanation
Indices: 20064619--20064646 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20064609 TTTGGACCTT
20064619 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA C
20064647 CATTTATAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CTA
Found at i:20066048 original size:33 final size:33
Alignment explanation
Indices: 20066019--20066124 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
20066009 CATTTTCTAG
* *
20066019 TTGTACACTCGAGGTGCACATTCCCTTTTCAAA
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
* * * *
20066052 TGGTACACACGAAGTGTACATACCCTTTTCAAT
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
* * *
20066085 TTGTACACTCAAAGTGCACATAACATTTTC-AA
1 TTGTACACTCGAAGTGCACATACCCTTTTCAAA
*
20066117 GTGTACAC
1 TTGTACAC
20066125 ATATAGTGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
32 8 0.14
33 51 0.86
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (33 bp):
TTGTACACTCGAAGTGCACATACCCTTTTCAAA
Found at i:20066211 original size:32 final size:32
Alignment explanation
Indices: 20066042--20066215 Score: 159
Period size: 33 Copynumber: 5.3 Consensus size: 32
20066032 GTGCACATTC
* * *
20066042 CCTTTTCAAATGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
* * *
20066075 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACACAAAGTGTACATAA
* * * * **
20066108 CATTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * * **
20066140 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
20066173 CCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
20066205 CGTTTTCAAGT
1 CCTTTTCAAGT
20066216 TGTTCCATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
32 51 0.45
33 62 0.54
34 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:20066211 original size:65 final size:65
Alignment explanation
Indices: 20066042--20066215 Score: 168
Period size: 65 Copynumber: 2.7 Consensus size: 65
20066032 GTGCACATTC
* * * * * * *
20066042 CCTTTTCAAATGGTACACACGAAGTGTACATACCCTTTTCAATTTGTACACTCAAAGTGCACATA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATA
20066107 A
65 A
* * * * ** * * * **
20066108 CATTTTCAAGTGTACACATATAGTGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATAA
*
20066173 CCTTTTCAAGTGTACACACAAAGTGTACATAACGTTTTCAAGT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGT
20066216 TGTTCCATTT
Statistics
Matches: 84, Mismatches: 24, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
65 75 0.89
66 9 0.11
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.34
Consensus pattern (65 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTACACATAA
Found at i:20066942 original size:21 final size:22
Alignment explanation
Indices: 20066901--20066942 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20066891 TGTAAAAGTG
* *
20066901 ATTTATCTATCAATAATCTTTT
1 ATTTATCTATCAAAAAACTTTT
20066923 ATTT-TCTATCAAAAAACTTT
1 ATTTATCTATCAAAAAACTTT
20066943 CAATTTACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTATCTATCAAAAAACTTTT
Found at i:20073301 original size:46 final size:46
Alignment explanation
Indices: 20073234--20073381 Score: 215
Period size: 46 Copynumber: 3.2 Consensus size: 46
20073224 CAAATCAATT
** *
20073234 GATTGAAGAAGCCACAAATCCTGTACCCTTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
*
20073280 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
* * * *
20073326 GATTGGAGATGATACAAATCCTATACCTTTGAGTTGCAGTAGGATG
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
*
20073372 GATAGAAGAA
1 GATTGAAGAA
20073382 ACCAAATTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATG
Found at i:20073885 original size:89 final size:89
Alignment explanation
Indices: 20073780--20074064 Score: 295
Period size: 89 Copynumber: 3.2 Consensus size: 89
20073770 AGTTGAAGAT
* * *
20073780 CTTATCTCCTTAAAGTTGTAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
20073845 GCGAAGCAGATTGAAGCTACCAGC
66 GCGAAGCAGATTGAAGCTACCAGC
* * * * * * * *
20073869 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGACAGCAAATCTCATCTCCCTGAAGTAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATC-AAATACGGCGAATCTTATCTTCCTGAAGTTGC
* * * * * *
20073933 AGTGGAGCAAATTGAAGTTA-AAGAT
65 AGCGAAGCAGATTGAAGCTACCAG-C
*** * * * *
20073958 CTTATCTTTTTGAAATTGCAGTGGAGTAGATCAAATAAGGTGAATCTTATCTTCCTGACGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
*
20074023 GCGAAGCAGATTGAAGCCACCAGC
66 GCGAAGCAGATTGAAGCTACCAGC
* *
20074047 TTTATCTACCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
20074065 TAGCGGAGCA
Statistics
Matches: 148, Mismatches: 44, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
88 3 0.02
89 142 0.96
90 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCA
GCGAAGCAGATTGAAGCTACCAGC
Found at i:20074030 original size:178 final size:178
Alignment explanation
Indices: 20073731--20074132 Score: 608
Period size: 178 Copynumber: 2.3 Consensus size: 178
20073721 GGTGAATCCA
* * *
20073731 CAAATCTCATCTCCCTAAAGCAGTAGTGGAGCAGATTGAAGTTGAAGATCTTATCTCCTTAAAGT
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCCTTAAAGT
* *
20073796 TGTAGTGGAGTAGATCAAATACGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
66 TGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
* * * *
20073861 CTACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAG
131 CCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
* * **
20073909 CAAATCTCATCTCCCTGAAGTAGCAGTGGAGCAAATTGAAGTTAAAGATCTTATCTTTTTGAAA-
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCCTT-AAAG
* *
20073973 TTGCAGTGGAGTAGATCAAATAAGGTGAATCTTATCTTCCTGACGTTGCAGCGAAGCAGATTGAA
65 TTGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAA
* *
20074038 GCCACCAGCTTTATCTACCTGAAGTTGTAGCGGAGCAAACTGAAGACAG
130 GCCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
* * *
20074087 TAAATTTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGCTAAA
1 CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAA
20074133 AGTTGCAAGT
Statistics
Matches: 201, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
178 198 0.99
179 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
CAAATCTCATCTCCCTGAAGTAGTAGTGGAGCAGATTGAAGTTAAAGATCTTATCTCCTTAAAGT
TGCAGTGGAGTAGATCAAATAAGGCGAATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
CCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGCAAACTGAAGACAG
Found at i:20074170 original size:96 final size:96
Alignment explanation
Indices: 20074048--20074254 Score: 245
Period size: 96 Copynumber: 2.2 Consensus size: 96
20074038 GCCACCAGCT
* * * * * *
20074048 TTATCTACCTGAAGTTGTAGCGGAGCAAACTGAAGACAGTAAATTTCATCTCCCTGAAGTAGTAG
1 TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
*
20074113 TGGAGCAGATTGAAGCTAAAAGTTGCA-AGTC
66 TGGAGCAGATTGAAGCTAAAAGTTACAGA-TC
* * * * * * * *
20074144 TTATCTCCCTAAAGTTGTAGCAGAGCAGACTGAAGATAGCAGATCTCATTTTCTTGAATTTGCAG
1 TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
*
20074209 TGGAGCAGATTGAAGCTACAAGTTACAGATC
66 TGGAGCAGATTGAAGCTAAAAGTTACAGATC
*
20074240 TTATCTCTCTAAAGT
1 TTATCTCCCTAAAGT
20074255 AGAGTAGGTC
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 92 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (96 bp):
TTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCAAATCTCATCTCCCTGAAGTAGCAG
TGGAGCAGATTGAAGCTAAAAGTTACAGATC
Found at i:20075902 original size:4 final size:4
Alignment explanation
Indices: 20075893--20075919 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20075883 TGTTTCATGT
20075893 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
20075920 TGTTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:20076037 original size:10 final size:10
Alignment explanation
Indices: 20076024--20076049 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20076014 TTACATACAT
20076024 TTTTATATTG
1 TTTTATATTG
20076034 TTTTATATTG
1 TTTTATATTG
20076044 TTTTAT
1 TTTTAT
20076050 CTTTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTTATATTG
Found at i:20077863 original size:3 final size:3
Alignment explanation
Indices: 20077855--20077887 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20077845 TATTTTTCAC
20077855 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20077888 TTAGAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:20079142 original size:14 final size:14
Alignment explanation
Indices: 20079121--20079161 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
20079111 CTGCAACTTG
20079121 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
20079135 TGCAACTTGCAAAT
1 CACAACTTGCACAT
20079149 CACAACTTGCACA
1 CACAACTTGCACA
20079162 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:20086072 original size:12 final size:12
Alignment explanation
Indices: 20086055--20086080 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20086045 TACATACTTA
20086055 TTGAAAGTTTTG
1 TTGAAAGTTTTG
20086067 TTGAAAGTTTTG
1 TTGAAAGTTTTG
20086079 TT
1 TT
20086081 CTTGTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (12 bp):
TTGAAAGTTTTG
Found at i:20089960 original size:42 final size:43
Alignment explanation
Indices: 20089893--20090046 Score: 206
Period size: 42 Copynumber: 3.6 Consensus size: 43
20089883 TTCATGTAAA
*
20089893 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACAAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
** *
20089936 AAACGTTGCTA-AGAACAT-AGCCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTATAGAACATGA-CCTTTAGCGGCGCTTTTACCAC
* * *
20089978 TAATGCCGCTATAGAACA-GACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
*
20090020 AAACGCCGCTAAAGAACATGACCTTTA
1 AAACGCCGCTATAGAACATGACCTTTA
20090047 AAAAATATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 70 0.74
43 24 0.25
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTACCAC
Found at i:20097080 original size:40 final size:40
Alignment explanation
Indices: 20097043--20097174 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
20097033 GCTACTCGTT
*
20097043 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
20097083 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
20097123 CCAATGCCTTAGAG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
20097162 CAAATGCCTTCGG
1 CAAATGCCTTCGG
20097175 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.40
40 46 0.57
41 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:20097168 original size:39 final size:40
Alignment explanation
Indices: 20097071--20097171 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 40
20097061 AGCCCGGTTA
* * * *
20097071 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
* *
20097111 TAGTAACTCGCACCAATGCCTTAGAG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
20097150 TAGTAACTCGCACAAATGCCTT
1 TAGTAACTCGCACAAATGCCTT
20097172 CGGATCTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTAGAGACTTAACCCAGAAT
Found at i:20099356 original size:37 final size:37
Alignment explanation
Indices: 20099306--20099384 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20099296 TTATTACGAA
* * *
20099306 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20099343 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20099380 GTCTT
1 GTCTT
20099385 TAGAACTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20099679 original size:49 final size:47
Alignment explanation
Indices: 20099503--20099946 Score: 606
Period size: 47 Copynumber: 9.4 Consensus size: 47
20099493 CCCTTCGGGA
* * * * * **
20099503 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
20099550 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
** *
20099597 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
20099644 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
** *
20099693 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
20099740 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
20099789 CTTATCACACATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
20099836 CTTATCACATATATACACACTTTCACATTCATCACATC-GCCAATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCC-ATTAAGC
*
20099885 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCGTTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
20099930 CTTATCACTTATATACA
1 CTTATCACATATATACA
20099947 TCAAGCTCAC
Statistics
Matches: 353, Mismatches: 34, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
45 35 0.10
46 3 0.01
47 191 0.54
48 3 0.01
49 121 0.34
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:20099691 original size:96 final size:96
Alignment explanation
Indices: 20099558--20099944 Score: 690
Period size: 96 Copynumber: 4.1 Consensus size: 96
20099548 GCCCTGTCAC
20099558 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
20099623 TCATCACATCGGCCGTTAAGCCTTATCACAT
66 TCATCACATCGGCCGTTAAGCCTTATCACAT
20099654 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
20099719 TCATCACATCGGCCGTTAAGCCTTATCACAT
66 TCATCACATCGGCCGTTAAGCCTTATCACAT
* * *
20099750 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
20099815 TCATCACATCGGCCGTTAAGCCTTATCACAT
66 TCATCACATCGGCCGTTAAGCCTTATCACAT
* *
20099846 ATATACACACTTTCACATTCATCACATC-GCCAATTAGGCCTTATCA--CATATACACTTTCACA
1 ATATATACACTTTCACATTCATCACATCGGCC-ATTAAGCCTTATCACGCATATACACTTTCACA
*
20099908 TTCATCACATCGGCCGTTAAGCCTTATCACTT
65 TTCATCACATCGGCCGTTAAGCCTTATCACAT
20099940 ATATA
1 ATATA
20099945 CATCAAGCTC
Statistics
Matches: 284, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
94 52 0.18
95 2 0.01
96 230 0.81
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACAT
TCATCACATCGGCCGTTAAGCCTTATCACAT
Found at i:20100078 original size:37 final size:37
Alignment explanation
Indices: 20100028--20100106 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20100018 TTATTACGAA
* * *
20100028 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20100065 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20100102 GTCTT
1 GTCTT
20100107 TAGAACTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20100303 original size:47 final size:47
Alignment explanation
Indices: 20100227--20100374 Score: 197
Period size: 47 Copynumber: 3.1 Consensus size: 47
20100217 CTTCGGGACT
* * * * *
20100227 TATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
20100274 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
** *
20100321 TATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
20100368 TATCACA
1 TATCACA
20100375 ATTTAGAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:20103749 original size:40 final size:40
Alignment explanation
Indices: 20103705--20103820 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 40
20103695 GAATACATGT
* * *
20103705 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
20103745 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * **
20103785 CACTAGCACGAATGCTCTTCGAAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
20103821 TTAGTAACTC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:20103853 original size:80 final size:80
Alignment explanation
Indices: 20103731--20103982 Score: 223
Period size: 80 Copynumber: 3.1 Consensus size: 80
20103721 CTTCGGGACC
* * ** * *
20103731 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTC-ACTAGCA
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATACATCAACTAGCA
20103793 CGAA-TGCTCTTCGAAAT-T
64 C-AATTGC-CTTCG-AATCT
* * * *
20103811 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCAC
**
20103875 AATTGCCTTCGGGTCT
65 AATTGCCTTCGAATCT
* * * *
20103891 TAGGCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCTC
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-CATCAACTAGCAC
*
20103955 AATTGCCTTCGGGA-CT
65 AATTGCCTTC-GAATCT
20103971 TAGCCCGGATAT
1 TAGCCCGGATAT
20103983 CATTCAAATG
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
79 2 0.01
80 114 0.80
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATACATCAACTAGCACA
ATTGCCTTCGAATCT
Found at i:20103854 original size:40 final size:41
Alignment explanation
Indices: 20103810--20103982 Score: 214
Period size: 40 Copynumber: 4.3 Consensus size: 41
20103800 TCTTCGAAAT
*
20103810 TTAGCCCGGATTTAGT-AACTCGCACCAA-TGCCTTCGGGTC
1 TTAGCCCGGATATA-TCAACTCGCACCAATTGCCTTCGGGTC
*
20103850 TTAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
* * *
20103890 TTAGGCCGGATATATCAATTCGCA-CAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
* * *
20103930 TTAGCCCGGATATAATC-ACTAGC-TCAATTGCCTTCGGGAC
1 TTAGCCCGGATAT-ATCAACTCGCACCAATTGCCTTCGGGTC
20103970 TTAGCCCGGATAT
1 TTAGCCCGGATAT
20103983 CATTCAAATG
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.03
40 111 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TTAGCCCGGATATATCAACTCGCACCAATTGCCTTCGGGTC
Found at i:20104310 original size:29 final size:29
Alignment explanation
Indices: 20104276--20104349 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20104266 TAATCAACAA
* *
20104276 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
*
20104305 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
20104334 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20104350 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:20104392 original size:43 final size:43
Alignment explanation
Indices: 20104331--20104476 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
20104321 TGCATTTCAA
*
20104331 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
20104374 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20104417 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20104460 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
20104477 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:20110805 original size:14 final size:13
Alignment explanation
Indices: 20110788--20110833 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 13
20110778 ATTTTTTTTT
20110788 CTTTTCTTTTCATC
1 CTTTTCTTTTC-TC
20110802 CTTTTC-TTTCT-
1 CTTTTCTTTTCTC
20110813 CTTTT-TTTTCTC
1 CTTTTCTTTTCTC
*
20110825 CATTTCTTT
1 CTTTTCTTT
20110834 ATTACTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 10 0.36
12 5 0.18
13 7 0.25
14 6 0.21
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTTCTTTTCTC
Found at i:20110811 original size:23 final size:23
Alignment explanation
Indices: 20110780--20110833 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
20110770 TCTAGCACAT
*
20110780 TTTTTTTTCT-TTTCTTTTCATCC
1 TTTTCTTTCTCTTTCTTTTC-TCC
*
20110803 TTTTCTTTCTCTTTTTTTTCTCC
1 TTTTCTTTCTCTTTCTTTTCTCC
*
20110826 ATTTCTTT
1 TTTTCTTT
20110834 ATTACTAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCTTTCTCTTTCTTTTCTCC
Found at i:20110966 original size:244 final size:243
Alignment explanation
Indices: 20110538--20111025 Score: 931
Period size: 244 Copynumber: 2.0 Consensus size: 243
20110528 GATGGACACA
*
20110538 TTTTTTTCGTTTGTTTTCATCCTTTTCTTTCTCTTTTTTTCTCCATTTCTTTATTACTAACTTTA
1 TTTTTTTCGTTTCTTTTCATCCTTTTCTTTCTCTTTTTTTCTCCATTTCTTTATTACTAACTTTA
20110603 TTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCACCCT
66 TTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCACCCT
20110668 TTGTCCACCCTAATGTCATGGCCGGCCACTACTAGATGGGGGGAAAAATTGACATGCAAGTCCCC
131 TTGTCCACCCTAATGTCATGGCCGGCCACTACTAGATGGGGGGAAAAATTGACATGCAAGTCCCC
20110733 CTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTAGCACATT
196 CTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTAGCACATT
*
20110781 TTTTTTTCTTTTCTTTTCATCCTTTTCTTTCTCTTTTTTTTCTCCATTTCTTTATTACTAACTTT
1 TTTTTTTCGTTTCTTTTCATCCTTTTCTTTCTC-TTTTTTTCTCCATTTCTTTATTACTAACTTT
*
20110846 ATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGTCCATCACCC
65 ATTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCACCC
20110911 TTTGTCCACCCTAATGTCATGGCCGGCCACTACTAGATGGGGGGAAAAATTGACATGCAAGTCCC
130 TTTGTCCACCCTAATGTCATGGCCGGCCACTACTAGATGGGGGGAAAAATTGACATGCAAGTCCC
*
20110976 CCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCACATT
195 CCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTAGCACATT
20111025 T
1 T
20111026 CAAAAGTGTC
Statistics
Matches: 240, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
243 31 0.13
244 209 0.87
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (243 bp):
TTTTTTTCGTTTCTTTTCATCCTTTTCTTTCTCTTTTTTTCTCCATTTCTTTATTACTAACTTTA
TTTTATTGTTTCCTCCCATGATGCACCAACACAACATGTCTATGACATGTTTTGCCCATCACCCT
TTGTCCACCCTAATGTCATGGCCGGCCACTACTAGATGGGGGGAAAAATTGACATGCAAGTCCCC
CTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTAGCACATT
Found at i:20125144 original size:34 final size:37
Alignment explanation
Indices: 20125061--20125153 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 37
20125051 TGAGCAAATA
* *
20125061 CAGTTTGGGCCTAAGCCCATTACAGTAATGGTTCAGTCT
1 CAGTTTGGGCCTAAGCCCATTACA--AATGATTCAGTAT
* *
20125100 CAGTTAGGGCCTTAGCCCATTAC-AAT-ATT-AGTAT
1 CAGTTTGGGCCTAAGCCCATTACAAATGATTCAGTAT
*
20125134 CAGTTTGGGCCTGAGCCCAT
1 CAGTTTGGGCCTAAGCCCAT
20125154 CTCAGTGACA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
34 22 0.46
35 2 0.04
36 3 0.06
39 21 0.44
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (37 bp):
CAGTTTGGGCCTAAGCCCATTACAAATGATTCAGTAT
Found at i:20129150 original size:19 final size:20
Alignment explanation
Indices: 20129126--20129163 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20129116 GGTACCACCA
20129126 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
20129145 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
20129164 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:20135136 original size:19 final size:20
Alignment explanation
Indices: 20135112--20135149 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20135102 GGTACCACCA
20135112 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
20135131 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
20135150 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:20135537 original size:93 final size:93
Alignment explanation
Indices: 20135378--20135549 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
20135368 CGCCCCTAAG
* * * *
20135378 TGAACTCGGACTTAACTCAATGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCAATTCA
1 TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
20135443 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * * *
20135471 TGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGTATCCATAAGTGTACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTC
20135535 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
20135550 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:20139205 original size:35 final size:35
Alignment explanation
Indices: 20139159--20139225 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
20139149 AATCATGGAG
20139159 TCAGTTCACAGGAAGTACCATGATTGAAAACTTGA
1 TCAGTTCACAGGAAGTACCATGATTGAAAACTTGA
20139194 TCAGTTCACAGGAAGTACCATGATTGAAAACT
1 TCAGTTCACAGGAAGTACCATGATTGAAAACT
20139226 CCTTACTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (35 bp):
TCAGTTCACAGGAAGTACCATGATTGAAAACTTGA
Found at i:20142876 original size:35 final size:35
Alignment explanation
Indices: 20142811--20142987 Score: 158
Period size: 35 Copynumber: 5.0 Consensus size: 35
20142801 TACTTACTTG
* *
20142811 TATGGCCGAATACT-CAAGATTCATTATATCATCACA
1 TATGGCCAAATA-TACAAG-TTCAATATATCATCACA
* * * **
20142847 TATGGCCCAATATATAAGTACAATATATCATCATT
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * *
20142882 TATGACCGAATATACAAGCTCAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * * *
20142917 TGTAGTCAAATATTCAAGTTTAATATAACATTACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
20142952 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
20142987 T
1 T
20142988 TTGTACATAC
Statistics
Matches: 111, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
35 97 0.87
36 14 0.13
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:20147139 original size:42 final size:42
Alignment explanation
Indices: 20147092--20147244 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
20147082 TGAGTTTACG
* * *
20147092 TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * *
20147134 GGTAAGAACA-AGTCTGGGACATGGCATCGATATGAGA-ATCA
1 TGTAAGACCATA-TCTGGGATATGGCATCGATATGAGATTTCA
* * **
20147175 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
20147218 TGTAAGACCATATCCGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
20147245 TAGTATGATT
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 17 0.19
42 53 0.59
43 20 0.22
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:20151411 original size:16 final size:18
Alignment explanation
Indices: 20151385--20151418 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
20151375 TTGCTGGAGA
20151385 CCTTGGCTTTGGT-TTTT
1 CCTTGGCTTTGGTATTTT
20151402 CCTT-GCTTTGGTATTTT
1 CCTTGGCTTTGGTATTTT
20151419 TTTCCTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.03, C:0.18, G:0.21, T:0.59
Consensus pattern (18 bp):
CCTTGGCTTTGGTATTTT
Found at i:20152818 original size:27 final size:27
Alignment explanation
Indices: 20152788--20152988 Score: 285
Period size: 27 Copynumber: 7.4 Consensus size: 27
20152778 CCCTAAAATA
* *
20152788 GGTAAAATGACCATAATACCCATGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
20152815 GGTAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
20152842 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
20152869 GGTAAAATGACTGTAATACCACATGTAG
1 GGTAAAATGACCGTAATACC-CCTGTAG
** *
20152897 GGTAAAATGACTATAATACCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
20152924 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
20152951 GGTAAAATGACCGTGATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
*
20152978 GGCAAAATGAC
1 GGTAAAATGAC
20152989 GAGTAGCCGT
Statistics
Matches: 157, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 132 0.84
28 25 0.16
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:20152985 original size:109 final size:109
Alignment explanation
Indices: 20152788--20152988 Score: 339
Period size: 109 Copynumber: 1.8 Consensus size: 109
20152778 CCCTAAAATA
*
20152788 GGTAAAATGACCATAATACCCATGTAGGGTAAAATGACTGTAATACCCCTGTAAGGTAAAATGAC
1 GGTAAAATGACCATAATACCCATGTAGGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGAC
*
20152853 CGTAATACCCCTGTAGGGTAAAATGACTGTAATACCACATGTAG
66 CGTAATACCCCTGTAGGGCAAAATGACTGTAATACCACATGTAG
* * *
20152897 GGTAAAATGACTATAATACCCTTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACCATAATACCCATGTAGGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGAC
* *
20152962 CGTGATACCCCTGTATGGCAAAATGAC
66 CGTAATACCCCTGTAGGGCAAAATGAC
20152989 GAGTAGCCGT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (109 bp):
GGTAAAATGACCATAATACCCATGTAGGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGAC
CGTAATACCCCTGTAGGGCAAAATGACTGTAATACCACATGTAG
Found at i:20153182 original size:27 final size:26
Alignment explanation
Indices: 20153125--20153208 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
20153115 TTGGAGGAAG
* * *
20153125 TACTGTACTGGTGACTATGTCA-GAT
1 TACTGTACTGGTGGCTATGCCACAAT
20153150 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCACAAT
* * *
20153178 TACTGATACTAGTGGCTTTGCCACATT
1 TACTG-TACTGGTGGCTATGCCACAAT
20153205 TACT
1 TACT
20153209 ATTTCTGGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 41 0.84
28 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGCCACAAT
Found at i:20156626 original size:47 final size:47
Alignment explanation
Indices: 20156563--20157056 Score: 700
Period size: 47 Copynumber: 10.4 Consensus size: 47
20156553 CCCTTCGGGA
* *
20156563 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20156610 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
20156657 TTTATCTCATATATACAATTTCACATTCATCACATTGGCAATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20156704 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20156751 TTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20156798 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20156845 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
20156894 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
20156941 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
20156988 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
20157037 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
20157057 GTACATCAAT
Statistics
Matches: 404, Mismatches: 39, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
47 316 0.78
49 88 0.22
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:20156923 original size:143 final size:143
Alignment explanation
Indices: 20156565--20157056 Score: 740
Period size: 143 Copynumber: 3.5 Consensus size: 143
20156555 CTTCGGGACT
*
20156565 TATCACAT-T-TATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* ** * * *
20156628 TTTCACATTCATCACATTGGCCATTAGGTTTTATCTCATATATACAATTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACGTT
* * *
20156693 GGCAATTCGGCCT
131 GGCCACTCGGCCC
* ** *
20156706 TATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGTTTTATCTCATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
20156769 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACGTT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACGTT
20156834 GGCCACTCGGCCC
131 GGCCACTCGGCCC
*
20156847 TATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * * *
20156912 TTTCACATTCATCACGTTGGTCACTCGACCCTATCACATATATACACTTTCACATTCATCACGTT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACGTT
20156977 GGCCACTCGGCCC
131 GGCCACTCGGCCC
* * * *
20156990 TATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGCCCTATCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
20157055 TT
66 TT
20157057 GTACATCAAT
Statistics
Matches: 320, Mismatches: 27, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
140 1 0.00
141 130 0.41
143 189 0.59
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.35
Consensus pattern (143 bp):
TATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACGTT
GGCCACTCGGCCC
Found at i:20162943 original size:74 final size:74
Alignment explanation
Indices: 20162822--20162965 Score: 270
Period size: 74 Copynumber: 1.9 Consensus size: 74
20162812 TGGTGTAGTT
*
20162822 GTTACGTGAATACTCTACTAGCTGGAAATTTCGAGGATGAAATTTCTGTAACAACCCGATTTTGG
1 GTTACGTGAATACTCTACTAGCTGGAAAATTCGAGGATGAAATTTCTGTAACAACCCGATTTTGG
20162887 GCCTTGCTA
66 GCCTTGCTA
*
20162896 GTTACGTGAATACTCTACTAGCTGGAAAATTCGAGGATGAAATTTCTGTAGCAACCCGATTTTGG
1 GTTACGTGAATACTCTACTAGCTGGAAAATTCGAGGATGAAATTTCTGTAACAACCCGATTTTGG
20162961 GCCTT
66 GCCTT
20162966 ACCGGAACAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (74 bp):
GTTACGTGAATACTCTACTAGCTGGAAAATTCGAGGATGAAATTTCTGTAACAACCCGATTTTGG
GCCTTGCTA
Found at i:20170800 original size:49 final size:50
Alignment explanation
Indices: 20170727--20170959 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
20170717 ATCTATTGTG
* *
20170727 AGGTCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
20170777 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * ** **
20170827 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCATATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
20170877 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTCTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
20170927 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
20170960 TACGTACCAA
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 72 0.47
50 45 0.29
51 37 0.24
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:20170924 original size:101 final size:97
Alignment explanation
Indices: 20170730--20170959 Score: 293
Period size: 101 Copynumber: 2.3 Consensus size: 97
20170720 TATTGTGAGG
*
20170730 TCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GATAATTGGTCACATGTGTAGTACT
*
20170795 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
65 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* ** *
20170830 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAT-ATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-C-TGATAATT-GGTCACATGTGTAGTA
* *
20170894 CTAAGTGCAGGCTACTACGTC-TACCGGATAATTGG
63 CTAAGTGCAGGCTACTACG-CGTACCCGATAATTGA
* *
20170929 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
20170960 TACGTACCAA
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
99 29 0.25
100 41 0.36
101 43 0.37
102 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (97 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGATAATTGGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:20183428 original size:40 final size:40
Alignment explanation
Indices: 20183373--20183517 Score: 236
Period size: 40 Copynumber: 3.6 Consensus size: 40
20183363 ATTGAGGATC
*
20183373 ATATCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
1 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
*
20183413 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTT
1 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
* *
20183453 ATTTCCGGGATAAGTCCCGAAGGCATTCGTGCTGGTTGTT
1 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
* *
20183493 ATATCCGGGCTAAATCCCGAAGGCA
1 ATATCCGGGTTAAGTCCCGAAGGCA
20183518 ATTAGGTTGG
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (40 bp):
ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
Found at i:20190146 original size:40 final size:40
Alignment explanation
Indices: 20190091--20190197 Score: 187
Period size: 40 Copynumber: 2.7 Consensus size: 40
20190081 CAATTGAGCA
20190091 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
20190131 TTATATTCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
20190171 TTATATCCGGGCTAAATCCCGAAGGCA
1 TTATATCCGGGTTAAGTCCCGAAGGCA
20190198 ATTGGGTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:20199437 original size:39 final size:39
Alignment explanation
Indices: 20199342--20200266 Score: 1655
Period size: 39 Copynumber: 23.6 Consensus size: 39
20199332 TTGAATGATG
*
20199342 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
20199380 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
20199421 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199460 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199499 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199538 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199577 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199616 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199655 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199694 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199733 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199772 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199811 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199850 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199889 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199928 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20199967 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20200006 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20200045 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20200084 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
20200123 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
20200162 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
20200201 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
20200240 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
20200267 AATGAGGAGC
Statistics
Matches: 865, Mismatches: 14, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
39 796 0.92
40 57 0.07
41 11 0.01
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:20201045 original size:32 final size:32
Alignment explanation
Indices: 20201009--20201070 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
20200999 AGTGAGGTAG
*
20201009 ATTTGGAAAATCACTAAAAATAGCAGGAATAA
1 ATTTGAAAAATCACTAAAAATAGCAGGAATAA
20201041 ATTTGAAAAATCACTAAAAATAGCAGGAAT
1 ATTTGAAAAATCACTAAAAATAGCAGGAAT
20201071 GGAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (32 bp):
ATTTGAAAAATCACTAAAAATAGCAGGAATAA
Found at i:20203297 original size:22 final size:22
Alignment explanation
Indices: 20203270--20203317 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
20203260 GATTCCATCC
20203270 TAACCAAACCAGAATTGAAGTT
1 TAACCAAACCAGAATTGAAGTT
20203292 TAACCAAACCAGAATTGAAGTT
1 TAACCAAACCAGAATTGAAGTT
20203314 TAAC
1 TAAC
20203318 TATTTACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (22 bp):
TAACCAAACCAGAATTGAAGTT
Found at i:20205338 original size:36 final size:36
Alignment explanation
Indices: 20205291--20205362 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
20205281 CTTTCTAAAC
20205291 AATCTAATCATCAAAAGCATAGTTAAGAAAAGAAAG
1 AATCTAATCATCAAAAGCATAGTTAAGAAAAGAAAG
20205327 AATCTAATCATCAAAAGCATAGTTAAGAAAAGAAAG
1 AATCTAATCATCAAAAGCATAGTTAAGAAAAGAAAG
20205363 TTGTAGATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (36 bp):
AATCTAATCATCAAAAGCATAGTTAAGAAAAGAAAG
Found at i:20206620 original size:20 final size:20
Alignment explanation
Indices: 20206592--20206631 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
20206582 TATATGAAAA
20206592 AAGAAATTAAGAAAGATTTT
1 AAGAAATTAAGAAAGATTTT
* *
20206612 AAGATATTAAGAAAGCTTTT
1 AAGAAATTAAGAAAGATTTT
20206632 TTTATATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGAAATTAAGAAAGATTTT
Found at i:20212510 original size:31 final size:29
Alignment explanation
Indices: 20212438--20212510 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 29
20212428 GTGGGGGTTT
*
20212438 ATTTTATATAAATATAAACATTTTTATTTA
1 ATTTT-TATAAATATAAACAATTTTATTTA
* *
20212468 ATATTAATATAAATATTAAGATAATTTTATTTA
1 AT-TT-TTATAAATA-TAA-ACAATTTTATTTA
20212501 ATTTTTATAA
1 ATTTTTATAA
20212511 GAATGATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
30 2 0.06
31 15 0.43
32 5 0.14
33 13 0.37
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
ATTTTTATAAATATAAACAATTTTATTTA
Found at i:20218969 original size:46 final size:46
Alignment explanation
Indices: 20218916--20219052 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
20218906 TATATATACA
* * * *
20218916 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
20218962 CATCTCATACACGTTTTGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
20219008 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
20219053 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:20219089 original size:47 final size:47
Alignment explanation
Indices: 20219026--20219220 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
20219016 ACACATTTCG
*
20219026 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* * * **
20219073 CATTGGTCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
* *
20219120 CATTGGCCATTCGGCCTTATCACGCGTATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTA-C-CAC--ATATATACATGTTCACATTCATCA
* * * **
20219171 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
20219218 CAT
1 CAT
20219221 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 84 0.67
49 4 0.03
51 38 0.30
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
Found at i:20219161 original size:98 final size:94
Alignment explanation
Indices: 20219026--20219220 Score: 255
Period size: 98 Copynumber: 2.0 Consensus size: 94
20219016 ACACATTTCG
* *
20219026 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGTCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
* **
20219091 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACACACATTCACATTCATCA
* * *
20219120 CATTGGCCATTCGGCCTTATCACGCGTATATATACAGGTTCACATTCATCACATTTGCCATTCGG
1 CATTAGCCATTCGGCCTTA-C-CAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
20219185 CCTTATCTCATATATACACATTCACATTCATCA
62 CCTTATCACACATACACACATTCACATTCATCA
20219218 CAT
1 CAT
20219221 AAAATCCTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 18 0.21
95 1 0.01
96 2 0.02
98 65 0.76
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (94 bp):
CATTAGCCATTCGGCCTTACCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACACACATTCACATTCATCA
Found at i:20225768 original size:27 final size:26
Alignment explanation
Indices: 20225720--20225779 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
20225710 GCGAGGCTGC
*
20225720 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
20225747 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
20225773 CAGATAT
1 CAGATAT
20225780 ATATATATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:20225792 original size:33 final size:32
Alignment explanation
Indices: 20225741--20225804 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
20225731 ACAAAGTCAC
* *
20225741 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
20225773 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
20225805 TTGCAGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:20225868 original size:27 final size:26
Alignment explanation
Indices: 20225820--20225871 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
20225810 GTGAGGCTGC
*
20225820 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
20225846 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
20225872 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:20231223 original size:259 final size:259
Alignment explanation
Indices: 20230764--20231281 Score: 1036
Period size: 259 Copynumber: 2.0 Consensus size: 259
20230754 TACCCGAGAC
20230764 CGTTGCCAGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAA
1 CGTTGCCAGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAA
20230829 ATTTCCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
66 ATTTCCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
20230894 TCGAAAACCAGTTCCGTAAATTTTTTCTGAAACGACACCCATAAGTCCATCTAAAAATTTTTTTC
131 TCGAAAACCAGTTCCGTAAATTTTTTCTGAAACGACACCCATAAGTCCATCTAAAAATTTTTTTC
20230959 TAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCTTGATTCAGGGTTT
196 TAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCTTGATTCAGGGTTT
20231023 CGTTGCCAGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAA
1 CGTTGCCAGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAA
20231088 ATTTCCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
66 ATTTCCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
20231153 TCGAAAACCAGTTCCGTAAATTTTTTCTGAAACGACACCCATAAGTCCATCTAAAAATTTTTTTC
131 TCGAAAACCAGTTCCGTAAATTTTTTCTGAAACGACACCCATAAGTCCATCTAAAAATTTTTTTC
20231218 TAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCTTGATTCAGGGTTT
196 TAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCTTGATTCAGGGTTT
20231282 GACTGCTCTG
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 259 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (259 bp):
CGTTGCCAGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAA
ATTTCCAGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAAC
TCGAAAACCAGTTCCGTAAATTTTTTCTGAAACGACACCCATAAGTCCATCTAAAAATTTTTTTC
TAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCTTGATTCAGGGTTT
Found at i:20232517 original size:80 final size:80
Alignment explanation
Indices: 20232360--20232607 Score: 252
Period size: 80 Copynumber: 3.1 Consensus size: 80
20232350 ACCCAAGTAT
* * * * * * * *
20232360 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCAG-ATATGG
1 CTTCGGGACTCAGACCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
*
20232422 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
* *
20232438 CTTCGGGTCTCAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTCAGACCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
20232503 AACTCGCACCAATGC
66 CACTAGCACAAATGC
** * * * * *
20232518 CTTCAAGACTTAGACCAGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAA
1 CTTCGGGACTCAGACCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
20232582 TCACTAGCACAAATGT
65 TCACTAGCACAAATGC
20232598 CTTCGGGACT
1 CTTCGGGACT
20232608 TAACCCCGTT
Statistics
Matches: 138, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
78 10 0.07
79 19 0.14
80 107 0.78
81 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTCAGACCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:20232579 original size:40 final size:40
Alignment explanation
Indices: 20232385--20232609 Score: 231
Period size: 40 Copynumber: 5.7 Consensus size: 40
20232375 GGATATAACC
* * * * *
20232385 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCAG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * * *
20232424 ACTAGCATAAATGCCTTCGGGTCTCAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
20232464 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* ** * *
20232504 ACTCGCACCAATGCCTTCAAGACTTAGACCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
20232544 ACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
20232584 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
20232610 ACCCCGTTAG
Statistics
Matches: 156, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 6 0.04
40 148 0.95
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:20232963 original size:37 final size:37
Alignment explanation
Indices: 20232848--20232963 Score: 114
Period size: 37 Copynumber: 3.1 Consensus size: 37
20232838 GAATCATTAT
20232848 ATCACCGTATATTGTTATGATTATACGTAATGACTTA
1 ATCACCGTATATTGTTATGATTATACGTAATGACTTA
* * * * *
20232885 ATCAAATCGTAAACTAAGTT-TCATTACT-CG-AA-AACTTA
1 ATC--ACCGTATA-T-TGTTATGATTA-TACGTAATGACTTA
20232923 ATCACCGTATATTGTTATGATTATACGTAATGACTTA
1 ATCACCGTATATTGTTATGATTATACGTAATGACTTA
20232960 ATCA
1 ATCA
20232964 AATCGTAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
34 4 0.07
35 8 0.13
36 8 0.13
37 12 0.20
38 8 0.13
39 8 0.13
40 8 0.13
41 4 0.07
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (37 bp):
ATCACCGTATATTGTTATGATTATACGTAATGACTTA
Found at i:20232971 original size:75 final size:75
Alignment explanation
Indices: 20232848--20232997 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
20232838 GAATCATTAT
20232848 ATCACCGTATATTGTTATGATTATACGTAATGACTTAATCAAATCGTAAACTAAGTTTCATTACT
1 ATCACCGTATATTGTTATGATTATACGTAATGACTTAATCAAATCGTAAACTAAGTTTCATTACT
20232913 CGAAAACTTA
66 CGAAAACTTA
*
20232923 ATCACCGTATATTGTTATGATTATACGTAATGACTTAATCAAATCGTAAATTAAGTTTCATTACT
1 ATCACCGTATATTGTTATGATTATACGTAATGACTTAATCAAATCGTAAACTAAGTTTCATTACT
20232988 CGAAAACTTA
66 CGAAAACTTA
20232998 CCTCGGATGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (75 bp):
ATCACCGTATATTGTTATGATTATACGTAATGACTTAATCAAATCGTAAACTAAGTTTCATTACT
CGAAAACTTA
Found at i:20240694 original size:40 final size:41
Alignment explanation
Indices: 20240611--20240860 Score: 228
Period size: 40 Copynumber: 6.3 Consensus size: 41
20240601 ACCCAAGTAT
* *** *
20240611 CTTCGGGATTTAG-CCAGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * * *
20240649 CTTCGGGTCTTAGCCCAGATA-TGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * *
20240689 CTTCGGGTCTTAGCTCGGATA-TAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* *
20240729 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
*
20240769 CTTCGGGACTTAGCCCA-AAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * * * *
20240809 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAAGGT
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
*
20240849 CTTCAGGACTTA
1 CTTCGGGACTTA
20240861 ACCCCGTTAG
Statistics
Matches: 179, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 11 0.06
39 17 0.09
40 150 0.84
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
Found at i:20240843 original size:120 final size:119
Alignment explanation
Indices: 20240636--20240860 Score: 267
Period size: 120 Copynumber: 1.9 Consensus size: 119
20240626 AGATATAACC
* * * * * *
20240636 ACTCGCACAAGGCCTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
* * * *
20240701 GCTCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCACAAAGGCCTTCAGGACTTAGCCCGGAATTAGTA
* *
20240755 ACTCGCACCAATGCCTTCGGGACTTAGCCCAAA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCAAATA-TAGTAACTAGCACAAATGCCTTCGGGACT
* *
20240819 TAGCCCGGA-ATTAATC-ACTAGCACAAAGGTCTTCAGGACTTA
64 TAGCCCGGATA-T-AGCAACTAGCACAAAGGCCTTCAGGACTTA
20240861 ACCCCGTTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
119 9 0.10
120 77 0.88
121 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCACAAAGGCCTTCAGGACTTAGCCCGGAATTAGTA
Found at i:20251514 original size:44 final size:44
Alignment explanation
Indices: 20251435--20251521 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
20251425 CCGACATGTG
* * *
20251435 ATTTAGTGTAAGACCACATCTGGGACTTTGGCATCG-ATTTGAA
1 ATTTAGTGTAAGACCACATCTGGGACATCGACATCGTATTTGAA
**
20251478 ATTTATGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
1 ATTTA-GTGTAAGACCACATCTGGGACATCGACATCGTATTTGA
20251522 TTTCATGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 5 0.14
44 26 0.70
45 6 0.16
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (44 bp):
ATTTAGTGTAAGACCACATCTGGGACATCGACATCGTATTTGAA
Found at i:20264772 original size:48 final size:48
Alignment explanation
Indices: 20264701--20265021 Score: 265
Period size: 48 Copynumber: 6.6 Consensus size: 48
20264691 TATGTGTGCT
*
20264701 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * * *
20264749 AGTGTAAGACCATGTCTGGGACATAGCATCGGCGTTGA-TGTGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
* * *
20264797 AGTGTAAGACCATGTTTGGGACATGGCATTGGCCCCATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * * *
20264845 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATGTGCGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * *
20264893 AATGTAAGACCATGTTTGGAACATGGCATC-G--ACATTGTTCTATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GAGCC
* *
20264941 AGTGTAAGACCATGTCTAGGACTTGGCATCGG-CACCGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGCC
* *
20264991 AGTGTAAGACCATGTCCGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
20265022 TCATTTTACC
Statistics
Matches: 209, Mismatches: 54, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 2 0.01
48 164 0.78
49 2 0.01
50 31 0.15
51 2 0.01
52 3 0.01
53 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:20264886 original size:96 final size:96
Alignment explanation
Indices: 20264693--20264923 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 96
20264683 TTGGTTGATA
* *
20264693 TGTGTGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAGTGTAAGA
1 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
* * * * **
20264758 CCATGTCTGGGACATAGCATCGGCGTTGATG
66 CCAAGCCTAGGACATAGCATCGGCCTCAATG
* *
20264789 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCCCATTATGAGAGCCAGTGTAAGA
1 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
*
20264854 CCAAGCCTAGGACATGGCATCGGCCTCAATG
66 CCAAGCCTAGGACATAGCATCGGCCTCAATG
* * * *
20264885 TGCGAG-TCAATGTAAGACCATGTTTGGAACATGGCATCG
1 TGTGTGCT-AGTGTAAGACCATGTTTGGGACATGGCATCG
20264924 ACATTGTTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 1 0.01
96 117 0.99
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (96 bp):
TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
CCAAGCCTAGGACATAGCATCGGCCTCAATG
Found at i:20264968 original size:144 final size:146
Alignment explanation
Indices: 20264701--20265021 Score: 380
Period size: 144 Copynumber: 2.2 Consensus size: 146
20264691 TATGTGTGCT
* * * * *
20264701 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * * * * * * *
20264766 GGGACATAGCATCGGCGTTGATGTGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGC-
66 GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
20264830 CCCAT-TATGAGAGCC
131 CCCATATATGAGAGCC
* * * * * *
20264845 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATGTGCGAGTCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * *
20264910 GGAACATGGCATCGACATTGTTCTATGTG-TCAGTGTAAGACCATGTCTAGGACTTGGCATCGGC
66 GGAACATAGCATCGACATTGATCTATGTGCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGC
*
20264974 ACCGATATATGAGAGCC
130 ACCCATATATGAGAGCC
*
20264991 AGTGTAAGACCATGTCCGA-GACATGGCATCG
1 AGTGTAAGACCATG-CCTAGGACATGGCATCG
20265022 TCATTTTACC
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 105 0.71
145 4 0.03
146 35 0.24
147 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (146 bp):
AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
CCCATATATGAGAGCC
Found at i:20276217 original size:46 final size:45
Alignment explanation
Indices: 20276167--20276342 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
20276157 TGATTGAGCA
*
20276167 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
20276213 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
20276258 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
20276305 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20276343 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.56
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:20276323 original size:93 final size:93
Alignment explanation
Indices: 20276164--20276335 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
20276154 GGATGATTGA
* **
20276164 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
*
20276229 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
20276257 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
20276321 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
20276336 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20278324 original size:42 final size:42
Alignment explanation
Indices: 20278194--20278352 Score: 130
Period size: 42 Copynumber: 3.8 Consensus size: 42
20278184 TACCAATGTT
* * * * *
20278194 ATATCCCAGATATGATCTTACATGTAA-TCTCGTATTGATGCC
1 ATATCTCAGATATGGTCTTACACG-AAGTCTCATATAGATGCC
* * * *
20278236 AATAGCCCA-ACTATGGTCTTACACGAAGTCTCATATTGATGTC
1 -ATATCTCAGA-TATGGTCTTACACGAAGTCTCATATAGATGCC
20278279 ATATC-CATGATATGGTCTTACACGAAGTCTCATATCAG-TGCC
1 ATATCTCA-GATATGGTCTTACACGAAGTCTCATAT-AGATGCC
* *
20278321 ATATCTCAGATTTGGTCTTCCACGTAA-TCTCA
1 ATATCTCAGATATGGTCTTACACG-AAGTCTCA
20278353 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.02
42 59 0.60
43 38 0.38
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (42 bp):
ATATCTCAGATATGGTCTTACACGAAGTCTCATATAGATGCC
Found at i:20302065 original size:16 final size:19
Alignment explanation
Indices: 20302044--20302081 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
20302034 CAAAAAATGT
20302044 TTCCTAAA-AA-TAAA-AA
1 TTCCTAAATAATTAAACAA
20302060 TTCCTAAATAATTAAACAA
1 TTCCTAAATAATTAAACAA
20302079 TTC
1 TTC
20302082 TGACTATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 4 0.21
19 5 0.26
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
TTCCTAAATAATTAAACAA
Found at i:20303485 original size:12 final size:12
Alignment explanation
Indices: 20303468--20303497 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20303458 CGTATTAAAA
*
20303468 TTTTTATATTAT
1 TTTTTATATAAT
20303480 TTTTTATATAAT
1 TTTTTATATAAT
20303492 TTTTTA
1 TTTTTA
20303498 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:20322739 original size:22 final size:22
Alignment explanation
Indices: 20322708--20322790 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 22
20322698 TGCTGAGAAT
*
20322708 GTCTCAAGACATAGATTGTTTG
1 GTCTCGAGACATAGATTGTTTG
20322730 GTCTCGAGACAAGACATAGATTGTTTG
1 GTCTC--G---AGACATAGATTGTTTG
* **
20322757 GTCTCGAGACATGAGGTTCATT-
1 GTCTCGAGACAT-AGATTGTTTG
20322779 GTCTCGAGACAT
1 GTCTCGAGACAT
20322791 GAGGTTCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
22 23 0.45
23 6 0.12
25 1 0.02
27 21 0.41
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACATAGATTGTTTG
Found at i:20322742 original size:27 final size:27
Alignment explanation
Indices: 20322712--20322767 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
20322702 GAGAATGTCT
20322712 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
20322739 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
20322766 CA
1 CA
20322768 TGAGGTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (27 bp):
CAAGACATAGATTGTTTGGTCTCGAGA
Found at i:20322779 original size:27 final size:27
Alignment explanation
Indices: 20322722--20322800 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
20322712 CAAGACATAG
* ** **
20322722 ATTGTTTGGTCTCGAGACAAGACATAG
1 ATTGTTTGGTCTCGAGACATGAGGTTC
20322749 ATTGTTTGGTCTCGAGACATGAGGTTC
1 ATTGTTTGGTCTCGAGACATGAGGTTC
20322776 A----TT-GTCTCGAGACATGAGGTTC
1 ATTGTTTGGTCTCGAGACATGAGGTTC
20322798 ATT
1 ATT
20322801 TTCTCAAGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 20 0.44
23 2 0.04
27 23 0.51
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (27 bp):
ATTGTTTGGTCTCGAGACATGAGGTTC
Found at i:20322791 original size:22 final size:22
Alignment explanation
Indices: 20322757--20322811 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
20322747 AGATTGTTTG
20322757 GTCTCGAGACATGAGGTTCATT
1 GTCTCGAGACATGAGGTTCATT
20322779 GTCTCGAGACATGAGGTTCATT
1 GTCTCGAGACATGAGGTTCATT
* *
20322801 TTCTCAAGACA
1 GTCTCGAGACA
20322812 GGAAATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACATGAGGTTCATT
Found at i:20323576 original size:127 final size:127
Alignment explanation
Indices: 20323430--20324444 Score: 2021
Period size: 127 Copynumber: 8.0 Consensus size: 127
20323420 TTCAATTTTT
*
20323430 AAAATTTAAAATTTAAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20323495 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20323557 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20323622 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20323684 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20323749 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20323811 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20323876 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20323938 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20324003 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20324065 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20324130 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20324192 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20324257 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
20324319 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
20324384 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTT
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTT
20324445 CCTGTTTTCA
Statistics
Matches: 887, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 887 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (127 bp):
AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
Found at i:20329086 original size:56 final size:56
Alignment explanation
Indices: 20329010--20329122 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
20329000 TAAAAAAAAA
20329010 ATGAAAGGCACGGAGCGTTCTTGTCCCAATCACAGACAACTGAGTATAAAACAATC
1 ATGAAAGGCACGGAGCGTTCTTGTCCCAATCACAGACAACTGAGTATAAAACAATC
20329066 ATGAAAGGCACGGAGCGTTCTTGTCCCAATCACAGACAACTGAGTATAAAACAATC
1 ATGAAAGGCACGGAGCGTTCTTGTCCCAATCACAGACAACTGAGTATAAAACAATC
20329122 A
1 A
20329123 ACATTTCCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (56 bp):
ATGAAAGGCACGGAGCGTTCTTGTCCCAATCACAGACAACTGAGTATAAAACAATC
Found at i:20329882 original size:16 final size:17
Alignment explanation
Indices: 20329858--20329893 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
20329848 GGAGTCTGGG
*
20329858 AAAGTAAAAAAA-AAAA
1 AAAGGAAAAAAAGAAAA
20329874 AAAGGAAAAAAAGAAAA
1 AAAGGAAAAAAAGAAAA
20329891 AAA
1 AAA
20329894 ACGAAGGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAAAAGAAAA
Found at i:20344794 original size:39 final size:39
Alignment explanation
Indices: 20344700--20344794 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 39
20344690 CATGGCACAG
* * *
20344700 AAGTCCGATCAGGGGTATCGAAGTACAACAGGGGCTCGT
1 AAGTCCGATCAGGGGTACCAAAGTACAACAGGGGCACGT
* * * * *
20344739 AAGTGCGATGAAGGGTACCAAAGTACAATTA-GGTCACGT
1 AAGTCCGATCAGGGGTACCAAAGTACAA-CAGGGGCACGT
*
20344778 AAGTTCGATCAGGGGTA
1 AAGTCCGATCAGGGGTA
20344795 TAATTATATA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
39 43 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (39 bp):
AAGTCCGATCAGGGGTACCAAAGTACAACAGGGGCACGT
Found at i:20351805 original size:10 final size:10
Alignment explanation
Indices: 20351786--20351832 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
20351776 AAATTTGTTG
20351786 AAAA-TAATA
1 AAAATTAATA
20351795 AAAATTAATA
1 AAAATTAATA
*
20351805 AAAATTTGATA
1 AAAA-TTAATA
*
20351816 TAAAATTAATT
1 -AAAATTAATA
20351827 AAAATT
1 AAAATT
20351833 CAAAATGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 9 0.28
12 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTAATA
Found at i:20356901 original size:25 final size:25
Alignment explanation
Indices: 20356840--20356911 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
20356830 TATTTAAAAA
* *
20356840 AAAAAATTAATTAGTATAAAATATT
1 AAAAAATTAAATAATATAAAATATT
* *
20356865 -AAAAATTCAATAATTTGAAAA-ATT
1 AAAAAATTAAATAATAT-AAAATATT
*
20356889 AAAAAATTAAATAAAACTAAAAT
1 AAAAAATTAAATAATA-TAAAAT
20356912 TTAGGAGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
24 15 0.42
25 20 0.56
26 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (25 bp):
AAAAAATTAAATAATATAAAATATT
Found at i:20358676 original size:19 final size:20
Alignment explanation
Indices: 20358652--20358693 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
20358642 GCTTTGTCGG
20358652 ATATGTTTCCAATGT-ATAT
1 ATATGTTTCCAATGTCATAT
20358671 ATATGTTTCCAATGTCATAT
1 ATATGTTTCCAATGTCATAT
20358691 ATA
1 ATA
20358694 CATATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATGTTTCCAATGTCATAT
Found at i:20359476 original size:16 final size:17
Alignment explanation
Indices: 20359445--20359478 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20359435 CATTCTTTGC
*
20359445 TCATACATTCCATCATT
1 TCATACAATCCATCATT
20359462 TCATACAAT-CATCATT
1 TCATACAATCCATCATT
20359478 T
1 T
20359479 AAATTCAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATACAATCCATCATT
Found at i:20360555 original size:10 final size:10
Alignment explanation
Indices: 20360536--20360565 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20360526 TATGAAATAA
20360536 TCAC-AACAT
1 TCACTAACAT
20360545 TCACTAACAT
1 TCACTAACAT
20360555 TCACTAACAT
1 TCACTAACAT
20360565 T
1 T
20360566 TCAAAATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (10 bp):
TCACTAACAT
Found at i:20381380 original size:34 final size:33
Alignment explanation
Indices: 20381314--20381385 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
20381304 TGTTATCGAC
* * *
20381314 ACTGAAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
20381347 TACTGTAATGGGCTAAGGCCCTA-ACTAAAACTGA
1 -ACTGTAATGGGCTAAGGCCC-ACACTAAAACTGA
20381381 ACTGT
1 ACTGT
20381386 TACTGATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 28 0.82
35 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
Found at i:20386659 original size:30 final size:30
Alignment explanation
Indices: 20386623--20386680 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
20386613 CACAGACAGA
20386623 GACACAGGCGTGTGTCTCAGCCGTGTGAGG
1 GACACAGGCGTGTGTCTCAGCCGTGTGAGG
* *
20386653 GACACAGGCGTGTGTCTCGGGCGTGTGA
1 GACACAGGCGTGTGTCTCAGCCGTGTGA
20386681 AGTCTGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.41, T:0.21
Consensus pattern (30 bp):
GACACAGGCGTGTGTCTCAGCCGTGTGAGG
Found at i:20394040 original size:49 final size:49
Alignment explanation
Indices: 20393901--20394045 Score: 123
Period size: 49 Copynumber: 3.0 Consensus size: 49
20393891 ATCACATTGC
* * * * *
20393901 AACTCAAACTCCCAGTTCACAGTTGTTATAC-GATCACGGGTTGAAGTAT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACTG-TCACGGGTTGAAGTAT
*** * * * *
20393950 AACTTGGGCTCCTAGTTGACAATGGCTAT-GTAGTCACGGGTTGAAGTAT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACT-GTCACGGGTTGAAGTAT
* * *
20393999 AACTCAAGCCCCCAGTTGGCAATGGTTATACTGTCATGGGTTCAAGT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACTGTCACGGGTTGAAGT
20394046 TTCATGATAC
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
49 71 0.97
50 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (49 bp):
AACTCAAGCCCCCAGTTGACAATGGTTATACTGTCACGGGTTGAAGTAT
Found at i:20399379 original size:43 final size:42
Alignment explanation
Indices: 20399281--20399380 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
20399271 GATTTGAGAT
* **
20399281 TTACATGTAAGACCATGTCTGGGACATCGACATCATATCTGA
1 TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
* * * *
20399323 TTTCGTGTAAGACCCTATCTGGGACAGAGGCATCGATA-CTGAA
1 TTACATGTAAGACCATATCTGGGACAGAGACATC-ATATCTG-A
20399366 TTACATGTAAGACCA
1 TTACATGTAAGACCA
20399381 CGTTTTGGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
Found at i:20404399 original size:46 final size:46
Alignment explanation
Indices: 20404305--20404483 Score: 132
Period size: 46 Copynumber: 3.9 Consensus size: 46
20404295 GTAACCCGCC
* * * *
20404305 CATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--GCGTTCACATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CT-AGATA
*
20404351 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGATA
* * * * * * * * *
20404397 CATTTCA-CGAACTTGAACTCAACTCAACGAGTTAGGACG-TTCGCATC
1 CA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-ATA
* * *
20404444 CACAAGTGAACTCAGACTCAACTCAACGGGTTCGGATGCC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
20404484 CAAATATCTG
Statistics
Matches: 101, Mismatches: 25, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
45 1 0.01
46 65 0.64
47 31 0.31
48 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGATA
Done.