Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 287 of 770
Found at i:87339944 original size:30 final size:30
Alignment explanation
Indices: 87339900--87339968 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
87339890 TAAAGATAAC
*
87339900 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
*
87339929 GAA-AAACCCAGAATAAAGAAATCCAGGATA
1 -AAGAAACCCAGAATAAAGAAATCCAAGATA
87339959 AAGAAACCCA
1 AAGAAACCCA
87339969 AGATACGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:87339973 original size:15 final size:15
Alignment explanation
Indices: 87339911--87339973 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
87339901 AGAAAACCGA
*
87339911 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
87339926 ATAGAA-AAACCC-AG
1 ATA-AAGAAACCCAAG
* *
87339940 AATAAAGAAATCCAGG
1 -ATAAAGAAACCCAAG
87339956 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
87339971 ATA
1 ATA
87339974 CGATACTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.10
15 32 0.82
16 3 0.08
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:87340560 original size:37 final size:37
Alignment explanation
Indices: 87340519--87340633 Score: 94
Period size: 37 Copynumber: 3.2 Consensus size: 37
87340509 ATAAATTTTG
87340519 ATTTACACTTTTCTCGACCTTGTATCTGAGTAATTCA
1 ATTTACACTTTTCTCGACCTTGTATCTGAGTAATTCA
****** * * **
87340556 ATTT--ACTAAAGAAGA-CTAGT-TCTGAATAAATTTTG
1 ATTTACACTTTTCTCGACCTTGTATCTGAGT-AA-TTCA
87340591 ATTTACACTTTTCTCGACCTTGTATCTGAGTAATTCA
1 ATTTACACTTTTCTCGACCTTGTATCTGAGTAATTCA
87340628 ATTTAC
1 ATTTAC
87340634 CAAAGTAAAT
Statistics
Matches: 52, Mismatches: 20, Indels: 12
0.62 0.24 0.14
Matches are distributed among these distances:
33 6 0.12
34 6 0.12
35 11 0.21
37 17 0.33
38 6 0.12
39 6 0.12
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (37 bp):
ATTTACACTTTTCTCGACCTTGTATCTGAGTAATTCA
Found at i:87340580 original size:72 final size:72
Alignment explanation
Indices: 87340489--87340638 Score: 291
Period size: 72 Copynumber: 2.1 Consensus size: 72
87340479 TTACTTTTCT
87340489 CTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAATT
1 CTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAATT
87340554 CAATTTA
66 CAATTTA
87340561 CTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAATT
1 CTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAATT
87340626 CAATTTA
66 CAATTTA
*
87340633 CCAAAG
1 CTAAAG
87340639 TAAATTCATT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (72 bp):
CTAAAGAAGACTAGTTCTGAATAAATTTTGATTTACACTTTTCTCGACCTTGTATCTGAGTAATT
CAATTTA
Found at i:87343085 original size:49 final size:49
Alignment explanation
Indices: 87343011--87343197 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
87343001 GTAGCCGAAG
*
87343011 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * *
87343060 TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAG
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* * * *
87343111 TTTTCAGGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * *
87343160 TTATCCGGTACACGTAGTAGCCTACACTTAGTACTACA
1 TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACA
87343198 AACGTGACCT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
49 75 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:87343133 original size:100 final size:100
Alignment explanation
Indices: 87343017--87343197 Score: 326
Period size: 100 Copynumber: 1.8 Consensus size: 100
87343007 GAAGTTATCT
* *
87343017 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
87343082 TGCACTTAGTACTACACATGTGATCACAGTTTTCA
66 TACACTTAGTACTACACATGTGATCACAGTTTTCA
*
87343117 GGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
87343182 TACACTTAGTACTACA
66 TACACTTAGTACTACA
87343198 AACGTGACCT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGAAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TACACTTAGTACTACACATGTGATCACAGTTTTCA
Found at i:87354745 original size:49 final size:49
Alignment explanation
Indices: 87354663--87354850 Score: 214
Period size: 49 Copynumber: 3.8 Consensus size: 49
87354653 TGAGGTCACG
* * *
87354663 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
* * * * * *
87354712 TGTGCAGTACTAAGTGCAGGCGACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GATCGCA
* * * * *
87354763 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
* *
87354812 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
87354851 GCCTTGTCTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 71 0.62
50 4 0.04
51 39 0.34
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
Found at i:87354838 original size:100 final size:100
Alignment explanation
Indices: 87354658--87354850 Score: 296
Period size: 100 Copynumber: 1.9 Consensus size: 100
87354648 TATTGTGAGG
*
87354658 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGATCGCATGTGCAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGATCGCATGTGCAGTACT
*
87354723 AAGTGCAGGCGACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCGACTATGCGTACCAGATAACTTCGA
* * * * * *
87354758 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTTGTATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGATCGCATGTGCAGTACT
* *
87354823 AAGTGTAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCGACTATGCGTACCAGATA
87354851 GCCTTGTCTA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATTGATCGCATGTGCAGTACT
AAGTGCAGGCGACTATGCGTACCAGATAACTTCGA
Found at i:87359822 original size:24 final size:24
Alignment explanation
Indices: 87359794--87359854 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
87359784 AACCAAATTT
* * *
87359794 GCACACATAGTGCTA-ATTATACTC
1 GCACACATAGTGCCATAGTAAAC-C
*
87359818 GCACACATAATGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
87359842 GCACACATAGTGC
1 GCACACATAGTGC
87359855 ATTGGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:87370531 original size:41 final size:40
Alignment explanation
Indices: 87370370--87370539 Score: 134
Period size: 41 Copynumber: 4.2 Consensus size: 40
87370360 GCTAATCGGG
* * *
87370370 GTCTACATCTGAGCTTGGTCTCGAAAGGCTTTTGAGCCAGT
1 GTCTA-ATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
87370411 G-CTAATAACCAAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
87370454 GTCATAA-CCG-GACTTAGT-TCTGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCTC-GAAGGGCTTTTGAGCCAGT
* *
87370494 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCTGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
87370535 G-CTAA
1 GTCTAA
87370540 GAGTCGGACT
Statistics
Matches: 103, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
39 6 0.06
40 15 0.15
41 47 0.46
42 22 0.21
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:87372655 original size:40 final size:40
Alignment explanation
Indices: 87372597--87372764 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
87372587 TCTTCAGGAT
*
87372597 TTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
87372636 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTT
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
* * * *
87372676 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTC
* * * * *
87372716 ATAGCTCGGATATAGCAACTCGCACGAATGCCTTTGGATC
1 TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
*
87372756 TTAGTCCGG
1 TTAGCCCGG
87372765 TTATCATCCG
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 99 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
Found at i:87372734 original size:80 final size:79
Alignment explanation
Indices: 87372596--87372749 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 79
87372586 ATCTTCAGGA
* * *
87372596 TTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
1 TTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCAC
87372661 AAATGCCTTCGGGT
66 AAATGCCTTCGGGT
* *
87372675 TTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCTCGGATATAGCAACTCGC
1 TTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGC
*
87372739 ACGAATGCCTT
64 ACAAATGCCTT
87372750 TGGATCTTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 5 0.07
80 61 0.91
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TTTAGCCGGATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGT
Found at i:87374749 original size:39 final size:39
Alignment explanation
Indices: 87374694--87374878 Score: 255
Period size: 39 Copynumber: 4.7 Consensus size: 39
87374684 TGTGTGAGAT
* * *
87374694 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
87374733 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
*
87374772 TTATATCCGGTCTAAGTCCCGAAGGCATTCGTGCTGATA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
* *
87374811 TTATATCTGGGCTAAGT-CCGAAAGGCATTCGTGCTGATG
1 TTATATCCGGGCTAAGTCCCG-AAGGCATTCGTGCTGATA
* * *
87374850 TTATATTCGGGCTAAGTTCTGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
87374879 TGGGTTGGAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 3 0.02
39 127 0.96
40 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA
Found at i:87382815 original size:46 final size:45
Alignment explanation
Indices: 87382765--87382941 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 45
87382755 ATGGTTGAGC
87382765 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAAT
* * *
87382811 ATCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACT
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T
*
87382854 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC
1 ----ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAAT
** * *
87382904 GCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87382942 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
46 63 0.57
47 29 0.26
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAT
Found at i:87382922 original size:93 final size:93
Alignment explanation
Indices: 87382763--87382934 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
87382753 GGATGGTTGA
* *
87382763 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
87382828 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* * *
87382856 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
87382921 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87382935 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:87394401 original size:25 final size:24
Alignment explanation
Indices: 87394345--87394452 Score: 121
Period size: 25 Copynumber: 4.4 Consensus size: 24
87394335 CTGGAGGCCT
* *
87394345 AGCCTCTTTGAAT-AACTGGGGTAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
87394369 AGCCCTTTTGATAAACTGGGGCGAA
1 AGCCCTTTTAATAAACTGGGGC-AA
87394394 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGC-AA
*
87394419 AGCCC-TTTACAGTAAACTGGGGCAT
1 AGCCCTTTTA-A-TAAACTGGGGCAA
87394444 AGCCCTTTT
1 AGCCCTTTT
87394453 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
23 6 0.08
24 16 0.22
25 37 0.51
26 14 0.19
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:87394448 original size:50 final size:47
Alignment explanation
Indices: 87394322--87394452 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 47
87394312 AGTATAGTTG
* * *
87394322 CTTTATCATATAACTGGAGGCCTAGCCTCTTTGAATAACTGGGGTAAAGCC
1 CTTTA-CATA-AACTGG-GGCATAGCC-CTTTTAATAACTGGGGAAAAGCC
** *
87394373 CTTTTGATAAACTGGGGCGAAAGCCCTTTTAATAAACTGGGGCAAAAGCC
1 CTTTACATAAACTGGGGC-ATAGCCCTTTTAAT-AACTGGGG-AAAAGCC
87394423 CTTTACAGTAAACTGGGGCATAGCCCTTTT
1 CTTTACA-TAAACTGGGGCATAGCCCTTTT
87394453 TGCACTTCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
48 10 0.15
49 18 0.27
50 24 0.36
51 15 0.22
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
CTTTACATAAACTGGGGCATAGCCCTTTTAATAACTGGGGAAAAGCC
Found at i:87394523 original size:20 final size:20
Alignment explanation
Indices: 87394500--87394546 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
87394490 TTATGAATAC
87394500 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
87394519 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
87394540 ATCATGT
1 ATCATGT
87394547 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:87408653 original size:34 final size:34
Alignment explanation
Indices: 87408610--87408680 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
87408600 CAGGATTGCA
87408610 AAGCCTCCATCAAGGTATGGTTAATGAGTTCACT
1 AAGCCTCCATCAAGGTATGGTTAATGAGTTCACT
87408644 AAGCCTCCATCAAGGTATGGTTAATGAGTTCACT
1 AAGCCTCCATCAAGGTATGGTTAATGAGTTCACT
87408678 AAG
1 AAG
87408681 TACTCTTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (34 bp):
AAGCCTCCATCAAGGTATGGTTAATGAGTTCACT
Found at i:87419142 original size:34 final size:34
Alignment explanation
Indices: 87419097--87419170 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
87419087 AGTTTGAGAG
* *
87419097 TAGTTCGTGGTACGAGAATAGCGGAGAATGGCAT
1 TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
*
87419131 TAGTTCATGGTATGAGAATAGCGAAGAATGGCAT
1 TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
87419165 TCAGTT
1 T-AGTT
87419171 GAAAGCTAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (34 bp):
TAGTTCATGGTACGAGAATAGCGAAGAATGGCAT
Found at i:87422506 original size:68 final size:68
Alignment explanation
Indices: 87422369--87422525 Score: 174
Period size: 68 Copynumber: 2.3 Consensus size: 68
87422359 TTAACTGTGA
* * * *
87422369 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
87422433 ATG
66 ATG
* * * * * * *
87422436 AATTTAACACATTTGGACAGCTACATTTACCGAATAAAATAGCATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAG-TGCATCGAAC
*
87422500 AGTG
65 AATG
*
87422504 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
87422526 TAATTTTAAG
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
67 4 0.05
68 69 0.95
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAGCATAAATGATAGTGCATCGAACA
ATG
Found at i:87427158 original size:9 final size:9
Alignment explanation
Indices: 87427142--87427176 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
87427132 TTAATTGAGA
87427142 AATTAATTT
1 AATTAATTT
*
87427151 AGTTAATTT
1 AATTAATTT
*
87427160 AATTAATTA
1 AATTAATTT
87427169 AATTAATT
1 AATTAATT
87427177 GATTAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:87427169 original size:13 final size:13
Alignment explanation
Indices: 87427141--87427184 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
87427131 CTTAATTGAG
*
87427141 AAATTAATTTAGTT
1 AAATTAA-TTAATT
*
87427155 AATTTAATTAATT
1 AAATTAATTAATT
*
87427168 AAATTAATTGATT
1 AAATTAATTAATT
87427181 AAAT
1 AAAT
87427185 CATATTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:87429772 original size:39 final size:39
Alignment explanation
Indices: 87429654--87429836 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
87429644 TCGTTCAAAC
* * ** * **
87429654 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
87429694 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
87429734 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
87429773 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
87429812 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
87429837 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:87439144 original size:22 final size:21
Alignment explanation
Indices: 87439105--87439146 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
87439095 CTCTTGAAAT
**
87439105 AGGGGCACATGCTTGTGTGGA
1 AGGGGCACATGCCCGTGTGGA
87439126 AGGGGCGACATGCCCGTGTGG
1 AGGGGC-ACATGCCCGTGTGG
87439147 CCTTCTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.19, G:0.45, T:0.19
Consensus pattern (21 bp):
AGGGGCACATGCCCGTGTGGA
Found at i:87440638 original size:24 final size:24
Alignment explanation
Indices: 87440606--87440656 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
87440596 ATGAATTGGC
87440606 AAAAGCTGAAATGTCGAAAAGCCG
1 AAAAGCTGAAATGTCGAAAAGCCG
*
87440630 AAAAGCTGAAATGTTGAAAAGCCG
1 AAAAGCTGAAATGTCGAAAAGCCG
87440654 AAA
1 AAA
87440657 GTTAGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.14
Consensus pattern (24 bp):
AAAAGCTGAAATGTCGAAAAGCCG
Found at i:87441771 original size:27 final size:27
Alignment explanation
Indices: 87441741--87441884 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
87441731 TACTGAAATG
* *
87441741 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
87441768 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
87441795 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
87441822 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
87441849 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
87441876 CCCTCGATT
1 CCCTCGATT
87441885 GTAAAATTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:87442019 original size:27 final size:27
Alignment explanation
Indices: 87441883--87442122 Score: 146
Period size: 27 Copynumber: 8.8 Consensus size: 27
87441873 TTACCCTCGA
**
87441883 TTGTAAAATTACTGAAATACCCCTG-T
1 TTGTAAAATTACCAAAATACCCCTGAT
** *
87441909 AGGATAGAATTACCAAAATACCCCT-AGT
1 TTG-TAAAATTACCAAAATACCCCTGA-T
* *
87441937 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
87441964 TTGTAAAATTACCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
87441991 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
** * *
87442018 TTACAAAATTA-TAGAAATACCCTTGACT
1 TTGTAAAATTACCA-AAATACCCCTGA-T
* ** *** *
87442046 TTCTAAAAATTATAAAAATACTATTGGT
1 TTGT-AAAATTACCAAAATACCCCTGAT
** * * *
87442074 TTACAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
87442101 TTGTAGATTTACCAAAACACCC
1 TTGTAAAATTACCAAAATACCC
87442123 TTGAGGAATG
Statistics
Matches: 166, Mismatches: 38, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
26 5 0.03
27 132 0.80
28 12 0.07
29 16 0.10
30 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:87442026 original size:54 final size:54
Alignment explanation
Indices: 87441795--87442040 Score: 167
Period size: 54 Copynumber: 4.6 Consensus size: 54
87441785 TACTGTTTCA
* *** * * * ***
87441795 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTA-
1 CCCT-GATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
* *** * **
87441849 CCCTCGATTTACAAAATTATCGTTTTACCCTCGA-TTGTAAAATTACTGAAATAC
1 CCCT-GATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
** * * * *
87441903 CCCTG-TAGGATAGAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CCCTGAT-TTACAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATAC
* * **
87441957 CACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
**
87442011 CCCTGATTTACAAAATTATAGAAATACCCT
1 CCCTGATTTACAAAATTACCGAAATACCCT
87442041 TGACTTTCTA
Statistics
Matches: 151, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
52 2 0.01
53 26 0.17
54 121 0.80
55 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.32
Consensus pattern (54 bp):
CCCTGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
Found at i:87443819 original size:28 final size:28
Alignment explanation
Indices: 87443787--87443885 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
87443777 GCAATAAGCC
*
87443787 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
87443815 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
87443843 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
87443872 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87443886 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:87451494 original size:28 final size:28
Alignment explanation
Indices: 87451462--87451560 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
87451452 GCAATAAGCC
*
87451462 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
87451490 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
87451518 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
87451547 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87451561 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:87453099 original size:27 final size:26
Alignment explanation
Indices: 87453065--87453134 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 26
87453055 GAGGAAGTGC
**
87453065 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
87453091 AAAAGGGGCTTATGCCCTAGTTTACCG
1 AAAA-GGGCTTATGCCCCAGTTTACCG
87453118 AAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCA
87453135 ATTATTAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 6 0.15
26 10 0.26
27 23 0.59
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:87453393 original size:31 final size:31
Alignment explanation
Indices: 87453355--87453526 Score: 299
Period size: 31 Copynumber: 5.5 Consensus size: 31
87453345 TGTTTACAGT
* *
87453355 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
87453386 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
87453417 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
87453448 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
87453479 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
87453510 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
87453527 AACCGTTAAA
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:87453583 original size:93 final size:93
Alignment explanation
Indices: 87453355--87453560 Score: 267
Period size: 93 Copynumber: 2.2 Consensus size: 93
87453345 TGTTTACAGT
* * ** *
87453355 AAAGGCTTCAGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATATGATAGATGAAAAGGCTTTGGCCCAGTGATATGATTTATGAAAA
* * * *
87453420 GGCTTCGGCCCAGTGAAATGATTTATGA
66 GGCTTCGACCCAGTGAAACGATTAACGA
**
87453448 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTTGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGGCCCAGTGATATGATAGATGAAAAGGCTTTGGCCCAGTGATATGATTTATGAAAA
*
87453513 GGCTTCGACCCAGT-AACCG-TTAAACGA
66 GGCTTCGACCCAGTGAAACGATT-AACGA
87453540 AAA-GCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
87453561 TCAAGACTAA
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
90 5 0.05
91 15 0.14
92 9 0.09
93 75 0.72
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (93 bp):
AAAGGCTTCGGCCCAGTGATATGATAGATGAAAAGGCTTTGGCCCAGTGATATGATTTATGAAAA
GGCTTCGACCCAGTGAAACGATTAACGA
Found at i:87454426 original size:29 final size:28
Alignment explanation
Indices: 87454393--87454476 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
87454383 GCATGAATAT
*
87454393 AATATGATTTGGGCCTAATAGGCCATAAG
1 AATATGA-TTGGGCCTAATGGGCCATAAG
* **
87454422 AATATGAACTGGGCC-AGATGGGCCATTTG
1 AATATG-ATTGGGCCTA-ATGGGCCATAAG
* *
87454451 AATAAGATTGGGCCTAGTGGGCCATA
1 AATATGATTGGGCCTAATGGGCCATA
87454477 TGCATGTATG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
28 16 0.36
29 27 0.61
30 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (28 bp):
AATATGATTGGGCCTAATGGGCCATAAG
Found at i:87454764 original size:25 final size:26
Alignment explanation
Indices: 87454736--87454790 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
87454726 AAAACCATAA
* *
87454736 TAAGGG-AAAATTACCGAAATGCCCC
1 TAAGGGCAAAATGACCAAAATGCCCC
*
87454761 TAAGGGCGAAATGACCAAAATGCCCC
1 TAAGGGCAAAATGACCAAAATGCCCC
87454787 TAAG
1 TAAG
87454791 TGTTGAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
TAAGGGCAAAATGACCAAAATGCCCC
Found at i:87456477 original size:20 final size:20
Alignment explanation
Indices: 87456449--87456488 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
87456439 TATATCATAA
87456449 CTCGCGCAAAGAGCAAATGT
1 CTCGCGCAAAGAGCAAATGT
*
87456469 CTCGGGCAAAGAGCAAATGT
1 CTCGCGCAAAGAGCAAATGT
87456489 TCATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.28, T:0.15
Consensus pattern (20 bp):
CTCGCGCAAAGAGCAAATGT
Found at i:87459592 original size:14 final size:15
Alignment explanation
Indices: 87459546--87459592 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
87459536 GATTCAAGGT
*
87459546 TTAAGGATTAT-GGA
1 TTAAAGATTATGGGA
**
87459560 TTAGGGATTATGGGA
1 TTAAAGATTATGGGA
87459575 TTAAAGATT-TGGGA
1 TTAAAGATTATGGGA
87459589 TTAA
1 TTAA
87459593 GGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.34, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
TTAAAGATTATGGGA
Found at i:87459848 original size:29 final size:28
Alignment explanation
Indices: 87459806--87459863 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
87459796 TTTGGTTTAA
87459806 GGGTTGGGCTTTAAGGTTTAGGTGTTAG
1 GGGTTGGGCTTTAAGGTTTAGGTGTTAG
* * *
87459834 GGGTTAGGGGTTTAAGGTTTATGTTTTAG
1 GGGTT-GGGCTTTAAGGTTTAGGTGTTAG
87459863 G
1 G
87459864 ATCTAGGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (28 bp):
GGGTTGGGCTTTAAGGTTTAGGTGTTAG
Found at i:87459870 original size:29 final size:28
Alignment explanation
Indices: 87459815--87459875 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
87459805 AGGGTTGGGC
*
87459815 TTTAAGGTTTAGGTGTTAGGGGTTAGGGG
1 TTTAAGGTTTAGGTGTTAGGGATTA-GGG
* *
87459844 TTTAAGGTTTATGTTTTA-GGATCTAGGG
1 TTTAAGGTTTAGGTGTTAGGGAT-TAGGG
87459872 TTTA
1 TTTA
87459876 GATTAATTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (28 bp):
TTTAAGGTTTAGGTGTTAGGGATTAGGG
Found at i:87460210 original size:19 final size:20
Alignment explanation
Indices: 87460181--87460221 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
87460171 AATTGATAAC
*
87460181 AAATAAAAAATGCAATACAA
1 AAATAAAAAATGAAATACAA
*
87460201 AAAT-AAAAATGAAATATAA
1 AAATAAAAAATGAAATACAA
87460220 AA
1 AA
87460222 TGAAGATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAAATGAAATACAA
Found at i:87461751 original size:12 final size:12
Alignment explanation
Indices: 87461734--87461758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87461724 TAATGTGTTC
87461734 ATTATGTCTTTG
1 ATTATGTCTTTG
87461746 ATTATGTCTTTG
1 ATTATGTCTTTG
87461758 A
1 A
87461759 AGCTTGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTATGTCTTTG
Found at i:87463069 original size:14 final size:14
Alignment explanation
Indices: 87463050--87463079 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87463040 TTAAATTGTA
*
87463050 TTTAATTTTTTATT
1 TTTAATATTTTATT
87463064 TTTAATATTTTATT
1 TTTAATATTTTATT
87463078 TT
1 TT
87463080 ATTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTAATATTTTATT
Found at i:87463164 original size:48 final size:48
Alignment explanation
Indices: 87463109--87463271 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 48
87463099 TTTTGTCTAC
*
87463109 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTACTTAAAG
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG
** ** * * * *** * *
87463157 TTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTATCTAC
1 TTTTATTTT--AT-TTTTAAATTA-CCTAATTAAATTA--AATTGTA-TTTA--AAG
87463214 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG
87463262 TTTTATTTTA
1 TTTTATTTTA
87463272 AATATTTTAT
Statistics
Matches: 81, Mismatches: 25, Indels: 18
0.65 0.20 0.15
Matches are distributed among these distances:
48 20 0.25
50 6 0.07
51 12 0.15
52 8 0.10
53 8 0.10
54 12 0.15
55 5 0.06
57 10 0.12
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (48 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG
Found at i:87463173 original size:57 final size:56
Alignment explanation
Indices: 87463112--87463284 Score: 145
Period size: 57 Copynumber: 3.2 Consensus size: 56
87463102 TGTCTACTTT
87463112 TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTACTTAAAGTTTTATTTTAAA
1 TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTA-TTAAAGTTTTATTTTAAA
** ** * * *
87463169 TATTTTA-TTTTATTTTATTTTAATCACGAA--AAATAT-T-TT--A--TCTACTTT---
1 TATTTTATTTTTAAATTA-CCTAATTA--AATTAAAT-TGTATTAAAGTTTTATTTTAAA
87463217 TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
1 TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTA-TTAAAGTTTTATTTTAAA
87463274 TATTTTATTTT
1 TATTTTATTTT
87463285 ATTTTATTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 34
0.64 0.11 0.26
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 17 0.20
49 8 0.09
50 2 0.02
51 6 0.07
52 1 0.01
53 1 0.01
54 6 0.07
55 2 0.02
56 8 0.09
57 28 0.33
58 1 0.01
59 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (56 bp):
TATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTAAAGTTTTATTTTAAA
Found at i:87463191 original size:105 final size:105
Alignment explanation
Indices: 87463069--87463758 Score: 957
Period size: 105 Copynumber: 6.8 Consensus size: 105
87463059 TTATTTTTAA
*
87463069 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
*
87463134 ATTAAATTAAATTGTACTTAAAGTTTTATTTTAAATATTT
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
87463174 TATTTTATTTTATTTTAATCACGAAAAATATTTTATCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
87463239 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
87463279 TATTTTATTTTATTTTAATCACGAAAAA-CTTTTGTCTACTTTTATTTTATTTTTAAATTACCCA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
* * *
87463343 ATTAAATTAGATTGCATTTAAATTTTTATTTTAAATATTT
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
87463383 TATTTTATTTTATTTTAATCACGAAGAAA-A-TTTGTCTACTTTTATTTTATTTTT-AA--A-C-
1 TATTTTATTTTATTTTAATCACGAA-AAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCT
* *
87463441 --------TAAATTGTTTTTAAAGTTCTATTTTAAATATTT
65 AATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * *
87463474 TATTTTATTTTATTTTATTTTTATCACAAAAAATATTTTTTCTATTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTA-----ATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
87463539 ACCTAATTAAATTAAATTGTATTTAAAGTTTTA-TTT---TA---
61 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * * *
87463577 CA---TATTTTATTGTAATCATGAAAAATATTTTGTGTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
*
87463639 ATTAAATTAACTTGTATTTAAAGTTTTATTTTAAATATTT
66 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* *
87463679 TATTTTATTTAATTTTAATCACGAAGAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
87463744 ATTAAA-TAAATTGTA
66 ATTAAATTAAATTGTA
87463759 ATTCTAAATA
Statistics
Matches: 519, Mismatches: 35, Indels: 63
0.84 0.06 0.10
Matches are distributed among these distances:
91 45 0.09
95 73 0.14
96 11 0.02
97 22 0.04
98 2 0.00
99 2 0.00
100 13 0.03
101 2 0.00
102 1 0.00
103 3 0.01
104 127 0.24
105 194 0.37
106 2 0.00
109 3 0.01
110 19 0.04
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (105 bp):
TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
Found at i:87463385 original size:14 final size:13
Alignment explanation
Indices: 87463359--87463400 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 13
87463349 TTAGATTGCA
87463359 TTTAAATTTTTAT
1 TTTAAATTTTTAT
87463372 TTTAAATATTTTAT
1 TTTAAAT-TTTTAT
87463386 TTT--A-TTTTAT
1 TTTAAATTTTTAT
87463396 TTTAA
1 TTTAA
87463401 TCACGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 9 0.35
12 1 0.04
13 7 0.27
14 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAAATTTTTAT
Found at i:87463439 original size:91 final size:91
Alignment explanation
Indices: 87463344--87463634 Score: 277
Period size: 91 Copynumber: 3.1 Consensus size: 91
87463334 AATTACCCAA
* * *
87463344 TTAAATTAGATTGCATTTAAATTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAG
1 TTAAATTAAATTGAATTTAAA-TTCTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAA-
87463409 AAA-A-TTTGTCTACTTTTATTTTATTT
64 AAATATTTTGTCTACTTTTATTTTATTT
* **
87463435 TTAAACTAAATTGTTTTTAAAGTTCTATTTTAAATATTTTATTTTATTTTATTTTATTTTTATCA
1 TTAAATTAAATTGAATTTAAA-TTCTATTTTAAATATTTTATTTTATTTTATTTTA-----ATCA
* * *
87463500 CAAAAAATATTTTTTCTATTTTTATTTTATTT
60 CGAAAAATATTTTGTCTACTTTTATTTTATTT
* * * *
87463532 TTAAATTACCTAATT-AAATTAAATTGTA-TTTAAA-GTTTTATTTTACATATTTTATTGTAATC
1 TTAAATTA---AATTGAATTTAAATTCTATTTTAAATATTTTA-TTT---TATTTTATTTTAATC
* *
87463594 ATGAAAAATATTTTGTGTACTTTTATTTTATTT
59 ACGAAAAATATTTTGTCTACTTTTATTTTATTT
87463627 TTAAATTA
1 TTAAATTA
87463635 CCTAATTAAA
Statistics
Matches: 165, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
91 50 0.30
95 42 0.25
96 13 0.08
97 36 0.22
98 4 0.02
99 5 0.03
100 15 0.09
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.57
Consensus pattern (91 bp):
TTAAATTAAATTGAATTTAAATTCTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAA
ATATTTTGTCTACTTTTATTTTATTT
Found at i:87463479 original size:5 final size:5
Alignment explanation
Indices: 87463469--87463494 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
87463459 CTATTTTAAA
87463469 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
87463495 TATCACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:87464084 original size:22 final size:22
Alignment explanation
Indices: 87464014--87464084 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
87464004 AATCCCATCA
87464014 ACATAAATATATATCATATCTT
1 ACATAAATATATATCATATCTT
*
87464036 ACAT-AAT-T-TA-CATAACTTAAT
1 ACATAAATATATATCATATC-T--T
87464057 ACATAAATATATATCATATCTT
1 ACATAAATATATATCATATCTT
87464079 ACATAA
1 ACATAA
87464085 TTTACATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
18 5 0.12
19 3 0.08
20 1 0.03
21 8 0.20
22 14 0.35
23 1 0.03
24 3 0.08
25 5 0.12
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
ACATAAATATATATCATATCTT
Found at i:87470079 original size:43 final size:43
Alignment explanation
Indices: 87470020--87470298 Score: 312
Period size: 43 Copynumber: 6.5 Consensus size: 43
87470010 AACAAAAGCA
* * *
87470020 CCGCTAAAAGCCATGACTTTTGGCTGCGTTTCACCCACAAACG
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAACG
* * * *
87470063 CCGCTAAAAGCAATGACTTTTAGAGGCACTTCACCCACAAACA
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAACG
* *
87470106 CCGCTAAAAGCAACGACTTTTAGCGGCGCTTCACCCACAAACG
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAACG
* * *
87470149 CCGCTATAAGCCATGACTTTTAGTGACGCTTC-CTCCACAAACG
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCAC-CCACAAACG
* * *
87470192 CCGCTATAAGCCATGACTTTTAGCGGCGCCTT-TCCCACAAATG
1 CCGCTAAAAGCCATGACTTTTAGCGGCG-CTTCACCCACAAACG
* * ** *
87470235 CCACTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCACAAACA
1 CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAACG
* *
87470278 CCG-TTAAAGTCATGATCTTTT
1 CCGCTAAAAGCCATGA-CTTTT
87470299 GTGGCCTTTT
Statistics
Matches: 205, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
42 15 0.07
43 186 0.91
44 4 0.02
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
CCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAACG
Found at i:87478225 original size:21 final size:22
Alignment explanation
Indices: 87478201--87478256 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
87478191 CATTGTTATT
*
87478201 AAGAAGGAAGTTGCTGCT-ACA
1 AAGAAGGAAGTTGCTGCTGAAA
*
87478222 AAG-AGGAAGTTGTTGCTGAAA
1 AAGAAGGAAGTTGCTGCTGAAA
87478243 AAGAA-GAAGTTGCT
1 AAGAAGGAAGTTGCT
87478257 AAAAACGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
21 16 0.53
22 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.21
Consensus pattern (22 bp):
AAGAAGGAAGTTGCTGCTGAAA
Found at i:87478693 original size:17 final size:17
Alignment explanation
Indices: 87478668--87478701 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87478658 TATAAATATA
* *
87478668 TATTGTCATTGCATTTT
1 TATTATCATTACATTTT
87478685 TATTATCATTACATTTT
1 TATTATCATTACATTTT
87478702 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATCATTACATTTT
Found at i:87482892 original size:46 final size:46
Alignment explanation
Indices: 87482825--87482996 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
87482815 AACCCGCCCC
*
87482825 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
87482871 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACATCCA
* * * *
87482919 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
*
87482964 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
87482997 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 59 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACATCCA
Found at i:87482937 original size:93 final size:93
Alignment explanation
Indices: 87482830--87483000 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87482820 GCCCCTAAGT
*
87482830 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
87482895 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
87482923 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
87482988 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87483001 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87483455 original size:30 final size:30
Alignment explanation
Indices: 87483421--87483480 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
87483411 ATTTAATACG
87483421 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
87483451 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
87483481 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:87485531 original size:16 final size:16
Alignment explanation
Indices: 87485512--87485543 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87485502 AATTGTTTTA
87485512 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
87485528 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
87485544 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:87485818 original size:50 final size:50
Alignment explanation
Indices: 87485743--87486136 Score: 310
Period size: 50 Copynumber: 7.8 Consensus size: 50
87485733 CCGAAGCTCC
* *
87485743 CTGGTA-AGCATAGTATCCTGCACTTAGTACTACACATGCGACCTATCAAT
1 CTGGTACA-CATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
** * * *
87485793 CTGGTACACATAGTAGCCTGCACTTAGTACTGTACACGTGACTTATCCAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
** * ** *
87485843 CTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAAT
* * * *
87485895 -GGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
** * ** * *
87485944 CCAGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAAT
* * * * * * *
87485995 -TGAGTACGCATAGTATCCTGTACTTAGCACTACAAATGCGACCTAACAAT
1 CTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
* * * ** * * *
87486045 CTAGTACACGTAGTAGACAACACTTAGTACTACACACGTGACCTAAAACTAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--ATCAAT
***
87486097 CTTAAACACATAGTAGCCTGCA-TATAGTACTACACATGTG
1 CTGGTACACATAGTAGCCTGCACT-TAGTACTACACATGTG
87486137 TTCTCACAAC
Statistics
Matches: 266, Mismatches: 68, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
49 4 0.02
50 150 0.56
51 74 0.28
52 38 0.14
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
Found at i:87485952 original size:101 final size:100
Alignment explanation
Indices: 87485751--87486085 Score: 357
Period size: 101 Copynumber: 3.3 Consensus size: 100
87485741 CCCTGGTAAG
* * * ** * * *
87485751 CATAGTATCCTGCACTTAGTACTACACATGCGA-CCTATCAATCTGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAATTAAT-GGGTACGCATAGTAGCCTGCA
** * * * * *
87485815 CTTAGTACTGTACACGTGACTTATCCATCTAATACA
65 CTTAGTACTACACATGCGACCTATCAATCTAGTACA
*
87485851 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAATGGGTACGCATAGTAGCCTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAA-TTAATGGGTACGCATAGTAGCCTGCA
*
87485916 CTTAGTACTACACATGCGACCTATCAATCCAGTACA
65 CTTAGTACTACACATGCGACCTATCAATCTAGTACA
* * * * * * *
87485952 CGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTATTGAGTACGCATAGTATCCTGTA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATCG-AATTAATGGGTACGCATAGTAGCCTGCA
* * *
87486017 CTTAGCACTACAAATGCGACCTAACAATCTAGTACA
65 CTTAGTACTACACATGCGACCTATCAATCTAGTACA
* * **
87486053 CGTAGTAGACAACACTTAGTACTACACACGTGA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA
87486086 CCTAAAACTA
Statistics
Matches: 199, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
100 30 0.15
101 163 0.82
102 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATCGAATTAATGGGTACGCATAGTAGCCTGCAC
TTAGTACTACACATGCGACCTATCAATCTAGTACA
Found at i:87486059 original size:151 final size:150
Alignment explanation
Indices: 87485751--87486132 Score: 349
Period size: 151 Copynumber: 2.5 Consensus size: 150
87485741 CCCTGGTAAG
* * **
87485751 CATAGTATCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTACACATAGTAGCCTGCAC
** ** * * *
87485816 TTAGTACTGTACACGTGACTTATCCATCTAATACACATAGTAGCCTGCACTTAGTACTACACACG
66 TTAGTACTACACACGTGACGAAACCATCTAATACACATAGTAGCCTGCACTTAGCACTACAAACG
* * * * *
87485881 TGATCGAAGTTAATGGGTACG
131 CGACCGAAG-CAATGAGTACA
*
87485902 CATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTACACATAGTAGCCTGCAC
* * * * * *
87485967 TTAGTACTACACATGTGATCGAAACTAT-TGAGTACGCATAGTATCCTGTACTTAGCACTACAAA
66 TTAGTACTACACACGTGA-CGAAACCATCT-AATACACATAGTAGCCTGCACTTAGCACTACAAA
* * *
87486031 TGCGACCTAA-CAATCTAGTACA
129 CGCGACCGAAGCAAT-GAGTACA
* * * * * * * * *
87486053 CGTAGTAGACAACACTTAGTACTACACACGTGACCTAAAACTATCTTA-AACACATAGTAGCCTG
1 CATAGTAGCCTACACTTAGTACTACACATGCGACCT--ATCAATC-CAGTACACATAGTAGCCTG
87486117 CA-TATAGTACTACACA
63 CACT-TAGTACTACACA
87486133 TGTGTTCTCA
Statistics
Matches: 188, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
150 3 0.02
151 111 0.59
152 40 0.21
153 33 0.18
154 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (150 bp):
CATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCAGTACACATAGTAGCCTGCAC
TTAGTACTACACACGTGACGAAACCATCTAATACACATAGTAGCCTGCACTTAGCACTACAAACG
CGACCGAAGCAATGAGTACA
Found at i:87486516 original size:19 final size:20
Alignment explanation
Indices: 87486488--87486534 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
87486478 AAGAACATGT
87486488 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
87486509 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
87486528 TATATAT
1 TATATAT
87486535 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:87486812 original size:30 final size:30
Alignment explanation
Indices: 87486755--87486813 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
87486745 CAAAAATCAT
* *
87486755 ACTTTTACAAATTTACATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
* * *
87486785 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
87486814 GGCTTGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:87488356 original size:131 final size:132
Alignment explanation
Indices: 87488088--87488352 Score: 374
Period size: 131 Copynumber: 2.0 Consensus size: 132
87488078 TATTTTAGAA
* * * * *
87488088 TTTAGAGAGCATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAACAGGAAATTGCAA
1 TTTAAAGAGCATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAAAAAACAGGAAATCGCAA
* * *
87488153 CCCAACACGATAGGGCACGATTTCCCGAATCGCCAAATATCGAGTATTACCTTCGTTTTGAAGAA
66 CCCAACACGATAGAGAACGATTTCCCGAATCGCCAAACATCGAGTATTACCTTCGTTTTGAAGAA
87488218 TT
131 TT
* *
87488220 TTTAAAGA-CATGAGTGAAATTCCAAAGGAACATTCGATTGTTTTGAAAAAACGGGAAATCGCAA
1 TTTAAAGAGCATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAAAAAACAGGAAATCGCAA
* * **
87488284 CCCAGCACGATAGAGAACGA-TTCCCGAATTGCCAAACATCGAGTATTGTCTTCGTTTT-AGAGA
66 CCCAACACGATAGAGAACGATTTCCCGAATCGCCAAACATCGAGTATTACCTTCGTTTTGA-AGA
87488347 ATT
130 ATT
87488350 TTT
1 TTT
87488353 TAAAAGAATA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
129 1 0.01
130 43 0.36
131 67 0.57
132 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (132 bp):
TTTAAAGAGCATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAAAAAACAGGAAATCGCAA
CCCAACACGATAGAGAACGATTTCCCGAATCGCCAAACATCGAGTATTACCTTCGTTTTGAAGAA
TT
Found at i:87491359 original size:29 final size:29
Alignment explanation
Indices: 87491298--87491396 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
87491288 ACAGTAAGTC
87491298 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
87491326 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
*
87491355 CGCACACTTAATGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
87491383 CGCACACTTAGTGC
1 CGCACACTTAGTGC
87491397 CAATCTCATT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 33 0.49
29 33 0.49
30 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:87492395 original size:46 final size:46
Alignment explanation
Indices: 87492343--87492613 Score: 266
Period size: 46 Copynumber: 5.8 Consensus size: 46
87492333 TGTAACCCGC
* * * *
87492343 CCATAAGGGAACTCAGACTCAACTCAACAAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* *
87492389 CCATAAGTGAACTCGGACTCAACTCAACGAGGTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TTGCAT
* * *
87492439 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* *
87492482 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TTGCAT
* * * * *
87492532 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
* *
87492575 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
87492614 CCCAAATATC
Statistics
Matches: 185, Mismatches: 26, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
43 8 0.04
44 2 0.01
45 6 0.03
46 93 0.50
47 59 0.32
48 6 0.03
49 2 0.01
50 9 0.05
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCAT
Found at i:87492459 original size:93 final size:93
Alignment explanation
Indices: 87492351--87492615 Score: 431
Period size: 93 Copynumber: 2.8 Consensus size: 93
87492341 GCCCATAAGG
* * * * *
87492351 GAACTCAGACTCAACTCAACAAGCTCGGGTGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
87492416 CGAGGTCGGATGCCTAGTTACATCTCAT
66 CGAGCTCGGATGCCTAGTTACATCTCAC
87492444 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87492509 CGAGCTTGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
87492537 GAACTCGGACTCAACTCAACGAGTTCGGAAGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87492602 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
87492616 CAAATATCCG
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:87494881 original size:40 final size:40
Alignment explanation
Indices: 87494836--87495020 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
87494826 TACACATTCA
* *
87494836 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
87494876 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
87494916 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * *** * *
87494956 TATGCCGTC-GGATCTTATTTCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
87494996 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
87495021 ATCATTCGAA
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 105 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:87497603 original size:2 final size:2
Alignment explanation
Indices: 87497596--87497624 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87497586 ATGCATTCAC
87497596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87497625 AATTTAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87499183 original size:44 final size:43
Alignment explanation
Indices: 87499052--87499183 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 43
87499042 ATTTTTTATC
* ** * *
87499052 CTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGA-CTTCGAT
1 CTGCTCCACTGCAACTTCAG-GAGATAA-GATTGCAATATTCGGT
* *
87499096 CTGCTCCACTGCATCTTCAGGGAGATAAGATCTACAATATTCGGT
1 CTGCTCCACTGCAACTTCA-GGAGATAAGAT-TGCAATATTCGGT
*
87499141 CTGCTCCACTGCAACTTCAGGAGATAAGACTTGCAATTTTCGG
1 CTGCTCCACTGCAACTTCAGGAGATAAGA-TTGCAATATTCGG
87499184 CCTATTCCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.04
44 46 0.62
45 25 0.34
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGAGATAAGATTGCAATATTCGGT
Found at i:87499193 original size:44 final size:45
Alignment explanation
Indices: 87499099--87499194 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 45
87499089 CTTCGATCTG
* * *
87499099 CTCCACTGCATCTTCAGGGAGATAAGATCTACAATATTCGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTACAATATTCGGCCTA
* *
87499144 CTCCACTGCAACTTCA-GGAGATAAGA-CTTGCAATTTTCGGCCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATC-TACAATATTCGGCCTA
*
87499188 TTCCACT
1 CTCCACT
87499195 ATAACTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 28 0.64
45 15 0.34
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTACAATATTCGGCCTA
Found at i:87499417 original size:45 final size:45
Alignment explanation
Indices: 87499225--87499436 Score: 150
Period size: 45 Copynumber: 4.8 Consensus size: 45
87499215 TGGTGGATTA
* * * * * *
87499225 AATCTGTTTCACTACAACTTAAGAAAGACAACATTCACCGTCTTC
1 AATCTGCTTCACTGCAACTTTAGGAAGACAAGATTCTCCGTCTTC
* * **
87499270 AATCTACTTCACTGCAACTTCAAGG-AGACAAGA-TCTACAATCTTC
1 AATCTGCTTCACTGCAACTT-TAGGAAGACAAGATTCT-CCGTCTTC
* * * * * * *
87499315 GATCTGCTTCACTACAACTTTA-GAGAGATAAAATTGT--GGCTTA
1 AATCTGCTTCACTGCAACTTTAGGA-AGACAAGATTCTCCGTCTTC
*
87499358 AATCTGCTTTACTGCAACTTTAGGAAGACAAGATTCTCCGTCTTC
1 AATCTGCTTCACTGCAACTTTAGGAAGACAAGATTCTCCGTCTTC
* *
87499403 GATCTGCTCCACTGCAA-TTTCAAGG-AGACAAGAT
1 AATCTGCTTCACTGCAACTTT--AGGAAGACAAGAT
87499437 CTACAATCTT
Statistics
Matches: 128, Mismatches: 29, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
43 32 0.25
44 8 0.06
45 80 0.62
46 8 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (45 bp):
AATCTGCTTCACTGCAACTTTAGGAAGACAAGATTCTCCGTCTTC
Found at i:87499494 original size:88 final size:84
Alignment explanation
Indices: 87499398--87499604 Score: 237
Period size: 78 Copynumber: 2.4 Consensus size: 84
87499388 AGATTCTCCG
*
87499398 TCTTCGATCTGCTCCACTGCAATTTCAAGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATCTGCTCCACT-C--TTT--AGGAGACAAGATCTACAATCTTCAACCTGTTACCCTAC
87499463 TACTTAGGAGGTTAAGGCTTG-CT
61 TACTTAGGAGGTTAAGGCTTGTCT
* *
87499486 TCTTCGATCTGCTCCA--C--T-GGAGACGAGATCTGCAATCTTCAACCTGTTACCCTACTACTT
1 TCTTCGATCTGCTCCACTCTTTAGGAGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTT
* * *
87499546 AGGTGGTTAAGGTTTGTTT
66 AGGAGGTTAAGGCTTGTCT
87499565 TCTTCGATCTGCTCCACTACTGTTTAGGGAGACAAGATCT
1 TCTTCGATCTGCTCCACT-C--TTTA-GGAGACAAGATCT
87499605 GTAAATTCAC
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
78 53 0.52
79 17 0.17
81 1 0.01
82 1 0.01
85 1 0.01
86 1 0.01
88 28 0.27
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (84 bp):
TCTTCGATCTGCTCCACTCTTTAGGAGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTT
AGGAGGTTAAGGCTTGTCT
Found at i:87499555 original size:78 final size:79
Alignment explanation
Indices: 87499426--87499582 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 79
87499416 GCAATTTCAA
*
87499426 GGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACTACTTAGGAGGTTAAGGCTTG-CTTCTT
1 GGAGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTTAGGAGGTTAAGGCTTGTCTTCTT
87499490 CGATCTGCTCCACT
66 CGATCTGCTCCACT
* * * * *
87499504 GGAGACGAGATCTGCAATCTTCAACCTGTTACCCTACTACTTAGGTGGTTAAGGTTTGTTTTCTT
1 GGAGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTTAGGAGGTTAAGGCTTGTCTTCTT
87499569 CGATCTGCTCCACT
66 CGATCTGCTCCACT
87499583 ACTGTTTAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 53 0.74
79 19 0.26
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (79 bp):
GGAGACAAGATCTACAATCTTCAACCTGTTACCCTACTACTTAGGAGGTTAAGGCTTGTCTTCTT
CGATCTGCTCCACT
Found at i:87511259 original size:131 final size:131
Alignment explanation
Indices: 87511070--87511330 Score: 373
Period size: 131 Copynumber: 2.0 Consensus size: 131
87511060 AATTTAGAGA
* * *
87511070 ACATGAGTGAAATTCTAAAGGAATATTCCATTATTTTGAACAAACAGGAAATCGCAACCCAGCAT
1 ACATGAGTGAAATTCCAAAGGAACATTCCATTATTTTGAAAAAACAGGAAATCGCAACCCAGCAT
* *
87511135 GATAGGGCACGATTCCCCGAATAGCCAAATATCGAGTATTACCTTCGTTTT-GA-AGATTTTTTA
66 GATAGAGCACGATT-CCCGAATAGCCAAACATCGAGTATTACCTTCGTTTTAGAGA-ATTTTTTA
87511198 AAG
129 AAG
* * * **
87511201 ACATGAGTGAAATTCCAATGGAACATTCGATTGTTTTGAAAAAATGGGAAATCGCAACCCAGCAT
1 ACATGAGTGAAATTCCAAAGGAACATTCCATTATTTTGAAAAAACAGGAAATCGCAACCCAGCAT
* * *
87511266 GATAGAGCACGATTCTCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAGAGAATTTTTTAAA
66 GATAGAGCACGATTCCCGAATAGCCAAACATCGAGTATTACCTTCGTTTTAGAGAATTTTTTAAA
87511331 AGAATAATTA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 32 0.28
131 82 0.71
132 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (131 bp):
ACATGAGTGAAATTCCAAAGGAACATTCCATTATTTTGAAAAAACAGGAAATCGCAACCCAGCAT
GATAGAGCACGATTCCCGAATAGCCAAACATCGAGTATTACCTTCGTTTTAGAGAATTTTTTAAA
G
Found at i:87511840 original size:165 final size:165
Alignment explanation
Indices: 87511568--87511899 Score: 646
Period size: 165 Copynumber: 2.0 Consensus size: 165
87511558 CTCAATGTTC
*
87511568 AAGCATGTATGGAGAATAATTGACATGATAATACAAAAAAATGAATAAATGATATGCTTCAACAA
1 AAGCATGTATGGAGAATAATTGACATGATAATACAAAAAAATGAATAAATGATATGCTACAACAA
87511633 TCTATGGAATAACATGTAAAAAAAATCAATCAAAACACAGAACAATATAGAGATTAAGAGCTACT
66 TCTATGGAATAACATGTAAAAAAAATCAATCAAAACACAGAACAATATAGAGATTAAGAGCTACT
87511698 ATGAGGCAAATCGATATAAAGACCATGTATATACA
131 ATGAGGCAAATCGATATAAAGACCATGTATATACA
87511733 AAGCATGTATGGAGAATAATTGACATGATAATACAAAAAAATGAATAAATGATATGCTACAACAA
1 AAGCATGTATGGAGAATAATTGACATGATAATACAAAAAAATGAATAAATGATATGCTACAACAA
87511798 TCTATGGAATAACATGTAAAAAAAATCAATCAAAACACAGAACAATATAGAGATTAAGAGCTACT
66 TCTATGGAATAACATGTAAAAAAAATCAATCAAAACACAGAACAATATAGAGATTAAGAGCTACT
*
87511863 ATGAGGCAAATTGATATAAAGACCATGTATATACA
131 ATGAGGCAAATCGATATAAAGACCATGTATATACA
87511898 AA
1 AA
87511900 AAAAAATATC
Statistics
Matches: 165, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 165 1.00
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (165 bp):
AAGCATGTATGGAGAATAATTGACATGATAATACAAAAAAATGAATAAATGATATGCTACAACAA
TCTATGGAATAACATGTAAAAAAAATCAATCAAAACACAGAACAATATAGAGATTAAGAGCTACT
ATGAGGCAAATCGATATAAAGACCATGTATATACA
Found at i:87512619 original size:14 final size:14
Alignment explanation
Indices: 87512600--87512627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87512590 AGTGTGCATT
87512600 CACACACACACATA
1 CACACACACACATA
87512614 CACACACACACATA
1 CACACACACACATA
87512628 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (14 bp):
CACACACACACATA
Found at i:87521751 original size:18 final size:18
Alignment explanation
Indices: 87521728--87521762 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87521718 ACGATGTGCC
87521728 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
*
87521746 AAACTATTTTGATGCTT
1 AAACTATTTTCATGCTT
87521763 ACCATTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:87522508 original size:33 final size:34
Alignment explanation
Indices: 87522471--87522543 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
87522461 AGAAACAGTC
* *
87522471 CAGTATCAG-TTAGGCCTTAGCCCATTACAGTAA
1 CAGTAGCAGTTTAGGCCTGAGCCCATTACAGTAA
*
87522504 CAGTAGCAGTTTGGGCCTGAGCCCATTACAGTAA
1 CAGTAGCAGTTTAGGCCTGAGCCCATTACAGTAA
87522538 CAGTAG
1 CAGTAG
87522544 TAGTAGGGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (34 bp):
CAGTAGCAGTTTAGGCCTGAGCCCATTACAGTAA
Found at i:87522527 original size:34 final size:33
Alignment explanation
Indices: 87522483--87522561 Score: 113
Period size: 34 Copynumber: 2.4 Consensus size: 33
87522473 GTATCAGTTA
* *
87522483 GGCCTTAGCCCATTACAGTAACAGTAGCAGTTTG
1 GGCCTAAGCCCATTACAGTAACAGTAGCAG-TAG
* *
87522517 GGCCTGAGCCCATTACAGTAACAGTAGTAGTAG
1 GGCCTAAGCCCATTACAGTAACAGTAGCAGTAG
87522550 GGCCTAAGCCCA
1 GGCCTAAGCCCA
87522562 AAACAGAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 13 0.32
34 28 0.68
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (33 bp):
GGCCTAAGCCCATTACAGTAACAGTAGCAGTAG
Found at i:87536476 original size:28 final size:28
Alignment explanation
Indices: 87536387--87536494 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
87536377 AACTGTAAAT
* *
87536387 GTGATTGGGCCTAAT-GGCCGTATGAAT
1 GTGATTGGGCCTAATGGGCCATATGAAA
* *
87536414 GTGATTTGGGCCTAATGAGCCACAT-AAA
1 GTGA-TTGGGCCTAATGGGCCATATGAAA
*
87536442 TGTGATTGGGCCTAATGGGTCATATGAAA
1 -GTGATTGGGCCTAATGGGCCATATGAAA
* *
87536471 GAGATTGGGCCTAGTGGGCCATAT
1 GTGATTGGGCCTAATGGGCCATAT
87536495 ACAGGTATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 4 0.06
28 51 0.76
29 12 0.18
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAA
Found at i:87544387 original size:43 final size:43
Alignment explanation
Indices: 87544336--87544424 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
87544326 CATAGGATTT
* *
87544336 TCGATATGTG-TTCTCGTGTAAGACCACATCTGGGACATTGGCA
1 TCGATATGTGATTAT-GTGTAAGACCACATCTGGGACATCGGCA
** *
87544379 TCGATATGTGATTATGTGTAAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGATTATGTGTAAGACCACATCTGGGACATCGGCA
87544422 TCG
1 TCG
87544425 TATTTCATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTATGTGTAAGACCACATCTGGGACATCGGCA
Found at i:87544454 original size:41 final size:42
Alignment explanation
Indices: 87544351--87544454 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
87544341 ATGTGTTCTC
** * *
87544351 GTGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTA
1 GTGTAAGACCATGTCTGGGACATCGGCATCGATATGTCATTA
* *
87544393 TGTGTAAGACCATGTTTGGGACATCGGCATCG-TATTTCATTCA
1 -GTGTAAGACCATGTCTGGGACATCGGCATCGATATGTCATT-A
*
87544436 -TGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
87544455 TAGTGGCAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
41 17 0.33
42 7 0.13
43 28 0.54
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGATATGTCATTA
Found at i:87549227 original size:40 final size:40
Alignment explanation
Indices: 87549172--87549341 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
87549162 AACATTGGAA
87549172 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87549212 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
87549252 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
87549291 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
87549332 CTATATCCGG
1 ATATATCCGG
87549342 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:87557320 original size:40 final size:40
Alignment explanation
Indices: 87557265--87557474 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
87557255 AACATTGGAA
87557265 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87557305 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
87557345 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
87557385 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
87557424 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
87557465 CTATATCCGG
1 ATATATCCGG
87557475 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:87563970 original size:40 final size:40
Alignment explanation
Indices: 87563925--87564092 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
87563915 CGGAATACAA
87563925 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
87563965 CCGGATATAACGACTCGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
87564005 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
87564045 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
87564085 CCGGATAT
1 CCGGATAT
87564093 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:87564065 original size:80 final size:80
Alignment explanation
Indices: 87563925--87564092 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
87563915 CGGAATACAA
* *
87563925 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
* *
87563990 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
** *
87564005 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
87564068 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTCTTAAC
87564085 CCGGATAT
1 CCGGATAT
87564093 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:87566131 original size:68 final size:68
Alignment explanation
Indices: 87565984--87566139 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
87565974 AGCCGATTTG
* * * * *
87565984 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
87566049 TATC
65 TATA
* *
87566053 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
87566115 ATATAGTA
62 ATATA-TA
87566123 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
87566140 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:87583419 original size:28 final size:29
Alignment explanation
Indices: 87583352--87583423 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
87583342 ATAGTGAATC
*
87583352 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
87583381 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
87583409 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87583424 GTACCATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:87588862 original size:23 final size:23
Alignment explanation
Indices: 87588836--87588894 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
87588826 ATCGCAGTGT
*
87588836 AGCTGCTAATAGTAAAATAGCAA
1 AGCTGCTAATAGTAAAACAGCAA
* * *
87588859 AGCTACTAATAGTAAAGCAGTAA
1 AGCTGCTAATAGTAAAACAGCAA
87588882 AGCTGCTAATAGT
1 AGCTGCTAATAGT
87588895 GGTAAACGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.24
Consensus pattern (23 bp):
AGCTGCTAATAGTAAAACAGCAA
Found at i:87591369 original size:39 final size:38
Alignment explanation
Indices: 87591248--87591416 Score: 203
Period size: 39 Copynumber: 4.3 Consensus size: 38
87591238 GCTACTCGTT
* * * *
87591248 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCGGGAT-TAGTAACTCGCA
* * * *
87591288 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGG-CTTAGCCGGGA-TTAGTAACTCGCA
87591328 CAAATGCCTTCGGGCTTAGCACGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGC-CGGGATTAGTAACTCGCA
*
87591367 CAAATGCCTTCGGGCTTAGCCCGAGATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAG-CCGGGATTAGTAACTCGCA
87591406 CAAATGCCTTC
1 CAAATGCCTTC
87591417 AGATCTTAGT
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
39 64 0.56
40 50 0.43
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCGGGATTAGTAACTCGCA
Found at i:87591425 original size:79 final size:79
Alignment explanation
Indices: 87591274--87591471 Score: 244
Period size: 79 Copynumber: 2.5 Consensus size: 79
87591264 ATAGCCCGGT
* *
87591274 TATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCACAAATGCCTTC
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCTTC
* *
87591339 GGGCTTAG-CACGGGA
66 GAGCTTAGTC-C-AGA
*
87591354 T-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAGA-TTAGTAACTCGCACAAATGCCTT
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG-GATTTAGTAACTAGCACAAATGCCTT
*
87591416 CAGATCTTAGTCCAGA
65 C-GAGCTTAGTCCAGA
* *
87591432 TATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
87591472 CATCATTCGA
Statistics
Matches: 104, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
78 34 0.33
79 51 0.49
80 19 0.18
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (79 bp):
TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCTTC
GAGCTTAGTCCAGA
Found at i:87591465 original size:40 final size:40
Alignment explanation
Indices: 87591248--87591469 Score: 233
Period size: 40 Copynumber: 5.6 Consensus size: 40
87591238 GCTACTCGTT
* * * *
87591248 CAAATGCCTTTGGGACATAGCCCG-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAGAT-TAGTAACTAGCA
* *
87591288 TAAATGCCTTCGGGACTTAACCCG-GATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGAGA-TTAGTAACTAGCA
* * *
87591328 CAAATGCCTTCGGG-CTTAGCACGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAGATTAGTAACTAGCA
*
87591367 CAAATGCCTTCGGG-CTTAGCCCGAGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAGATTAGTAACTAGCA
* * *
87591406 CAAATGCCTTC-AGATCTTAGTCC-AGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAGAT-TAGTAAC-TAGCA
87591447 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
87591470 GACATCATTC
Statistics
Matches: 156, Mismatches: 18, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 71 0.46
40 73 0.47
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAGATTAGTAACTAGCA
Found at i:87596196 original size:29 final size:29
Alignment explanation
Indices: 87596163--87596323 Score: 144
Period size: 29 Copynumber: 5.6 Consensus size: 29
87596153 GTGACGAGAT
87596163 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
87596192 TGGCACTGAGTGTGCATGCTGGAAACATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
87596221 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
87596250 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * * **
87596279 TGGCACCATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
87596308 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87596324 AAATCGAGTA
Statistics
Matches: 106, Mismatches: 25, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
28 2 0.02
29 104 0.98
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:87596293 original size:58 final size:58
Alignment explanation
Indices: 87596163--87596273 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
87596153 GTGACGAGAT
* * *
87596163 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGAGTGTGCATGCTGGAAACATA
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGAGTGTGCATGCTCGAAACATA
*
87596221 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGAGTGTGC-ATGCTCGAA
87596274 GGGTATGGCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 47 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGAGTGTGCATGCTCGAAACATA
Found at i:87605019 original size:40 final size:40
Alignment explanation
Indices: 87604934--87605084 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
87604924 AATTGAATGA
* * *
87604934 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
87604974 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
87605015 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
87605054 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
87605085 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:87605098 original size:40 final size:40
Alignment explanation
Indices: 87604970--87605100 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
87604960 TATGCTGGAA
* * *
87604970 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
87605010 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
87605050 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
87605090 ATTATATCCGG
1 ATTATATCCGG
87605101 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:87607956 original size:623 final size:625
Alignment explanation
Indices: 87606742--87607992 Score: 1857
Period size: 623 Copynumber: 2.0 Consensus size: 625
87606732 TGGGGAGAGT
* *
87606742 TGTGACAGCCCAAAATTGACCCTAGACGGGATGTGGTTTCAGGACCACAAAATCGAGGCATAAAA
1 TGTGACAGCCCAAAATTGACCCTAGACGGCATGTGGTTTCAGGACCACAAAACCGAGGCATAAAA
* *
87606807 ATAATTTAAAATTTATTTTGATGCCTATGATATGTGTTAATTCATGTGTGACATTTTTGATGTTT
66 ATAATTTAAAATTTATTTTGATGCCTATAATATGTGTTAATTCATGTGTGACATTTTTGATGGTT
*
87606872 CGATTTAGAGTTATAAATGTGAATTTCACTAGAAGGGACCTAGTAGTAAACTTTGAAAGTATGAT
131 CGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGTAAACTTTGAAAGTATGAT
*
87606937 GGGGAAATGTGTGATGACTAGTTGATAATGCATGCAAAAATAAAGGATTTGCATGTCAAATTTCC
196 GGGGAAATGTGTGATGACTAGTTGAAAATGCATGCAAAAATAAAGGATTTGCATGTCAAATTTCC
*
87607002 CCAAAGGAAGCTTAGTGGCCGGCCATGACATGGTTTATGGGCAAAGAAAACATGTTGAAACATGT
261 CCAAAGGAAGCATAGTGGCCGGCCATGACATGGTTTATGGGCAAAGAAAACATGTTGAAACATGT
*
87607067 TTTGTTAATGGATGATGAGGGAAATGATAAAAAATTAAGCATGTAGGAAGAGAAACAAAAAAAAA
326 TTTGTTAATGCATGATGAGGGAAATGATAAAAAATTAAGCATGTAGGAAGAGAAACAAAAAAAAA
* * **
87607132 ATCAAAAATTTGCTCATCCTTTCCCCCCTTTGTGCCGTGAGTGAAAGAAAAGAAAAGAAAAAAAT
391 ATCAAAAATTGGCTCATCC-TCCCCCCCCATGTGCCGTGAGTGAAAG-AAAGAAAAGAAAAAAAT
*
87607197 TTGTTCATCCTTGTTCTTTCCTTTTTGGCCGAAAATACTAAGGAAGAAGATAGGATTTTTGCTCC
454 TTGTTCATCCTTGTTCTTTCCTTTTTGGCCGAAAATACTAAGGAAGAAGATAGGAGTTTTGCTCC
** *
87607262 ATTTTTGGTTTAGAAGAGATCAAGAAGGAGATTTGGCTATACATGCATCAAGATTAAGGTATGTA
519 ATGCTTGGTTTAGAAGAGAACAAGAAGGAGATTTGGCTATACATGCATCAAGATTAAGGTATGTA
87607327 TGAGGTTGTGTCATG-AGATTCATG-TATGTTATAGTTGCTAAC
584 TGAGGTTGTGTCATGAAG-TTCATGCT-TGTTATAGTTGCTAAC
* * *
87607369 TGTGACAGCCCAAAATTGACCCTAGTCGGCATGTGGTTTCGGGACCACAAAACCGAGGCGTAAAA
1 TGTGACAGCCCAAAATTGACCCTAGACGGCATGTGGTTTCAGGACCACAAAACCGAGGCATAAAA
87607434 ATAATTTAAAATTT-TTTTGATGCCTATAATATGTGTGT-ATTCATGTGTGACATTTTTGATGGT
66 ATAATTTAAAATTTATTTTGATGCCTATAATATGTGT-TAATTCATGTGTGACATTTTTGATGGT
*
87607497 TCGATTTAGTGTTATAAA-GTGAATTTCACTAGAAAGGACCTAGTAGTAAACTTTGAAAGTATGA
130 TCGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGTAAACTTTGAAAGTATGA
* *
87607561 TGGGGAAATGTGTGATGACTAGTTGAAAATGCATGCAAAATTAAGGGATTTGCATGTCAAA-TTC
195 TGGGGAAATGTGTGATGACTAGTTGAAAATGCATGCAAAAATAAAGGATTTGCATGTCAAATTTC
*
87607625 CCCAAA-GATGGCATAGTGGCCGGCCATGACATGGTTTATGGGCAAAGAAAACATGTTGAAACAT
260 CCCAAAGGA-AGCATAGTGGCCGGCCATGACATGGTTTATGGGCAAAGAAAACATGTTGAAACAT
** * * *
87607689 GTTTTGTTAATGCATGATGTA-TTAAATGATAAAAAAATTAATG-ATGTTGGATGAGAAA-TAAA
324 GTTTTGTTAATGCATGATG-AGGGAAATGAT-AAAAAATTAA-GCATGTAGGAAGAGAAACAAAA
** **** * *
87607751 AAAATGTGTGTGAGTGTGGCAT-TTCC-CCCCCCCCAT-TGCCGTGCAAGTGAAAG-AAGAACAA
386 AAAAAAT-CAAAAAT-TGGC-TCATCCTCCCCCCCCATGTGCCGTG--AGTGAAAGAAAGAA-AA
* *
87607812 GAAAAAAA-TTGTTCATCCTTGTTCTTTCCTTTTTGGCCGAAAATACTAAGGGAGGAGATAGGAG
445 GAAAAAAATTTGTTCATCCTTGTTCTTTCCTTTTTGGCCGAAAATACTAAGGAAGAAGATAGGAG
* * * *
87607876 TTTTGCTTCATGCTTGGTTTGGAAGAGAACAAGAAGGAGATTTGGCTATACTTGTATCAAGATTA
510 TTTTGCTCCATGCTTGGTTTAGAAGAGAACAAGAAGGAGATTTGGCTATACATGCATCAAGATTA
* * *
87607941 AGGTATGTTTGAGGTTGTGTCATGAAGTTCATGCTTGTTTTGGTTGCTAAC
575 AGGTATGTATGAGGTTGTGTCATGAAGTTCATGCTTGTTATAGTTGCTAAC
87607992 T
1 T
87607993 TGATGTGCAT
Statistics
Matches: 566, Mismatches: 45, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
623 169 0.30
624 115 0.20
625 137 0.24
626 69 0.12
627 76 0.13
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (625 bp):
TGTGACAGCCCAAAATTGACCCTAGACGGCATGTGGTTTCAGGACCACAAAACCGAGGCATAAAA
ATAATTTAAAATTTATTTTGATGCCTATAATATGTGTTAATTCATGTGTGACATTTTTGATGGTT
CGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTAGTAGTAAACTTTGAAAGTATGAT
GGGGAAATGTGTGATGACTAGTTGAAAATGCATGCAAAAATAAAGGATTTGCATGTCAAATTTCC
CCAAAGGAAGCATAGTGGCCGGCCATGACATGGTTTATGGGCAAAGAAAACATGTTGAAACATGT
TTTGTTAATGCATGATGAGGGAAATGATAAAAAATTAAGCATGTAGGAAGAGAAACAAAAAAAAA
ATCAAAAATTGGCTCATCCTCCCCCCCCATGTGCCGTGAGTGAAAGAAAGAAAAGAAAAAAATTT
GTTCATCCTTGTTCTTTCCTTTTTGGCCGAAAATACTAAGGAAGAAGATAGGAGTTTTGCTCCAT
GCTTGGTTTAGAAGAGAACAAGAAGGAGATTTGGCTATACATGCATCAAGATTAAGGTATGTATG
AGGTTGTGTCATGAAGTTCATGCTTGTTATAGTTGCTAAC
Found at i:87609135 original size:39 final size:39
Alignment explanation
Indices: 87609081--87609233 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
87609071 GAATGTTCGA
*
87609081 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
87609120 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
87609159 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
87609198 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
87609234 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:87609249 original size:40 final size:39
Alignment explanation
Indices: 87609082--87609263 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
87609072 AATGTTCGAG
* *
87609082 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
87609121 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
87609160 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
87609199 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
87609239 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
87609264 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:87611732 original size:29 final size:29
Alignment explanation
Indices: 87611639--87611725 Score: 165
Period size: 29 Copynumber: 3.0 Consensus size: 29
87611629 GTGACGAGAT
87611639 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
87611668 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87611697 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87611726 CAACACTGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:87618202 original size:40 final size:40
Alignment explanation
Indices: 87618078--87618242 Score: 183
Period size: 40 Copynumber: 4.1 Consensus size: 40
87618068 CGGAATTTAA
** * *
87618078 CCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
87618118 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
87618158 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
87618198 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
87618238 CCGGA
1 CCGGA
87618243 CATCATTCGA
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
39 4 0.04
40 90 0.86
41 11 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:87623505 original size:13 final size:13
Alignment explanation
Indices: 87623489--87623521 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
87623479 TTTGATTAAA
*
87623489 TTAGTTAATTAGT
1 TTAGATAATTAGT
87623502 TTAGATAATTAGT
1 TTAGATAATTAGT
87623515 TTA-ATAA
1 TTAGATAA
87623522 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:87626272 original size:46 final size:46
Alignment explanation
Indices: 87626219--87626392 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
87626209 TATTTGGGCA
87626219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
87626265 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
87626312 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
87626358 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
87626393 TCACTTATGG
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:87626374 original size:93 final size:93
Alignment explanation
Indices: 87626215--87626386 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
87626205 GGGATATTTG
* *
87626215 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
87626280 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
87626308 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
87626373 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
87626387 ACTTATTCAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:87631107 original size:12 final size:12
Alignment explanation
Indices: 87631070--87631108 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
87631060 GAAATCTAGG
87631070 TGGATTCCTCCT
1 TGGATTCCTCCT
*
87631082 TGGGTTTCCT-CT
1 T-GGATTCCTCCT
87631094 TGGATTCCTCCT
1 TGGATTCCTCCT
87631106 TGG
1 TGG
87631109 GTGTCGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 7 0.30
12 9 0.39
13 7 0.30
ACGTcount: A:0.05, C:0.28, G:0.23, T:0.44
Consensus pattern (12 bp):
TGGATTCCTCCT
Found at i:87631118 original size:24 final size:24
Alignment explanation
Indices: 87631070--87631118 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
87631060 GAAATCTAGG
*
87631070 TGGATTCCTCCTTGGGTTTCCTCT
1 TGGATTCCTCCTTGGGTGTCCTCT
*
87631094 TGGATTCCTCCTTGGGTGTCGTCT
1 TGGATTCCTCCTTGGGTGTCCTCT
87631118 T
1 T
87631119 TATCAATTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.04, C:0.27, G:0.24, T:0.45
Consensus pattern (24 bp):
TGGATTCCTCCTTGGGTGTCCTCT
Found at i:87633436 original size:77 final size:78
Alignment explanation
Indices: 87633337--87633531 Score: 241
Period size: 77 Copynumber: 2.5 Consensus size: 78
87633327 GATGTGTATG
*
87633337 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATGATATCCGGGC
1 AATGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATGATATCCGGGC
87633401 TAAG-CCCGAAGGC
65 TAAGTCCCGAAGGC
* * * * *
87633414 AATGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTT
1 AATGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATGATATCCGGGCT
87633479 AAGTCCCGAAGGC
66 AAGTCCCGAAGGC
* * * * * *
87633492 ATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 A-ATGTGCGAGATATGATATCCGGGCTAAG-CCCGAAGGC
87633532 GTTTGAACGA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
77 60 0.59
78 11 0.11
79 22 0.22
80 9 0.09
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
AATGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCAAATGTGCGAATTATGATATCCGGGCT
AAGTCCCGAAGGC
Found at i:87633498 original size:40 final size:38
Alignment explanation
Indices: 87633339--87633531 Score: 233
Period size: 39 Copynumber: 4.9 Consensus size: 38
87633329 TGTGTATGAA
* * *
87633339 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-AT
* *
87633378 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAT
*
87633416 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-AT
* *
87633455 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCA-T
* * * *
87633495 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
87633532 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
38 36 0.26
39 61 0.44
40 41 0.30
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (38 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAT
Found at i:87633567 original size:79 final size:78
Alignment explanation
Indices: 87633356--87633569 Score: 186
Period size: 77 Copynumber: 2.7 Consensus size: 78
87633346 ATTGTGATAT
* * ** * * *
87633356 CCGGGCTAAGCCCGAAGGCAAATGTGCGAATTA-TGATATCCGGGCTAA-GCCCGAAGGCAATGT
1 CCGGGCTAAGCCCGAAGGCGATTGAACG-AGTAGTGATATCCGGGTTAACTCCCGAAGGCAATGT
* *
87633419 GCGAGATATGATAT
65 GCGAGATATCATAA
** * * *
87633433 CCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAACTCCCGAAGGCA-ATGT
* *
87633498 GCGGGTTATCATAA
65 GCGAGATATCATAA
* *
87633512 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCGATTGAACGAGTAG-TGATATCCGGGTT-AACTCCCGAAGG
87633570 TATGTGATTT
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
76 2 0.02
77 40 0.35
78 10 0.09
79 33 0.29
80 28 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAACTCCCGAAGGCAATGTG
CGAGATATCATAA
Found at i:87638862 original size:29 final size:29
Alignment explanation
Indices: 87638830--87638936 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
87638820 ATACCCTCCG
** *
87638830 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
87638859 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
87638888 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
87638917 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
87638937 ATCTCATCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:87640126 original size:19 final size:17
Alignment explanation
Indices: 87640090--87640146 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 17
87640080 AGAATGAACA
*
87640090 CTTTTTTTT-TTCTTTT
1 CTTTTTTTTCTTCATTT
87640106 CTTTGTTTTTCTTCATATT
1 CTTT-TTTTTCTTCAT-TT
*
87640125 CTCTTTTTTTTTTCATTT
1 CT-TTTTTTTCTTCATTT
87640143 CTTT
1 CTTT
87640147 ATTCTTCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 4 0.11
17 7 0.20
18 8 0.23
19 14 0.40
20 2 0.06
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (17 bp):
CTTTTTTTTCTTCATTT
Found at i:87640129 original size:21 final size:18
Alignment explanation
Indices: 87640090--87640144 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
87640080 AGAATGAACA
87640090 CTTTTTTTTTTC-TTT-T
1 CTTTTTTTTTTCATTTCT
87640106 CTTTGTTTTTCTTCATATTCT
1 CTTT-TTTTT-TTCAT-TTCT
87640127 CTTTTTTTTTTCATTTCT
1 CTTTTTTTTTTCATTTCT
87640145 TTATTCTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTTTTTTTTTCATTTCT
Found at i:87644686 original size:40 final size:38
Alignment explanation
Indices: 87644528--87644719 Score: 240
Period size: 38 Copynumber: 4.9 Consensus size: 38
87644518 TGTGTATGAA
* *
87644528 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAT
* *
87644566 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAA
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAT
* *
87644604 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGC-AT
*
87644643 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCA-T
* * * * *
87644683 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGC
87644720 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
38 71 0.51
39 26 0.19
40 41 0.30
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (38 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAT
Found at i:87644755 original size:79 final size:78
Alignment explanation
Indices: 87644545--87644757 Score: 195
Period size: 79 Copynumber: 2.7 Consensus size: 78
87644535 ATTGTGATAT
* * * * *
87644545 CCGGGCTAAGCCCGAAGGCAATGTG--CGAATTGTGATATCCGGGCTAA-GCCCGAAGGCAATGT
1 CCGGGCTAAGCCCGAAGGCGAT-TGAACGAGTAGTGATATCCGGGTTAACTCCCGAAGGCAATGT
* *
87644607 GCGAGATATGATAT
65 GCGAGATATCATAA
** * * *
87644621 CCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAACTCCCGAAGGCA-ATGT
* *
87644686 GCGGGTTATCATAA
65 GCGAGATATCATAA
* *
87644700 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCGATTGAACGAGTAG-TGATATCCGGGTT-AACTCCCGAAGG
87644758 TATGTGATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
75 2 0.02
76 21 0.18
77 20 0.17
78 10 0.09
79 33 0.29
80 28 0.24
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCGATTGAACGAGTAGTGATATCCGGGTTAACTCCCGAAGGCAATGTG
CGAGATATCATAA
Found at i:87674515 original size:39 final size:39
Alignment explanation
Indices: 87674431--87674583 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
87674421 TATGGTAACC
** * *
87674431 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
87674471 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
87674510 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
87674549 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
87674584 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:87674556 original size:78 final size:79
Alignment explanation
Indices: 87674400--87674582 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
87674390 TCGTTCAAAC
* * **
87674400 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
87674465 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
87674480 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
87674544 CAATTTGCACAATT
66 CAATTTGCACAATT
87674558 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
87674583 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:87684697 original size:24 final size:24
Alignment explanation
Indices: 87684457--87684695 Score: 405
Period size: 24 Copynumber: 10.1 Consensus size: 24
87684447 GCAAAGACCA
87684457 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
87684481 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
87684505 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
87684529 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
*
87684552 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
87684576 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
87684599 TATGGCAC--TGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
87684621 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
87684645 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
87684669 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
87684693 TAT
1 TAT
87684696 AGTCACATTC
Statistics
Matches: 205, Mismatches: 6, Indels: 8
0.94 0.03 0.04
Matches are distributed among these distances:
21 9 0.04
22 12 0.06
23 34 0.17
24 150 0.73
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:87692702 original size:24 final size:24
Alignment explanation
Indices: 87692458--87692700 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
87692448 TGCAAGACCA
87692458 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
87692482 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
87692506 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
87692530 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
87692554 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
87692578 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
87692602 TATGGCACTGTGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
87692626 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
87692650 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
87692674 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
87692698 TAT
1 TAT
87692701 AGTCACATTC
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 211 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:87694165 original size:24 final size:24
Alignment explanation
Indices: 87694136--87694268 Score: 135
Period size: 24 Copynumber: 5.5 Consensus size: 24
87694126 TATCTAAAAT
*
87694136 GCACTATGTGTACAATTTATTA-A
1 GCACTATGTGTGCAATTTATTATA
87694159 TGCACTATGTGTGCAATTTATTATA
1 -GCACTATGTGTGCAATTTATTATA
* * *
87694184 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCAATTTATTATA
* ** *
87694208 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCAATTTATTATA
** *
87694232 GCACTATGTGTGCAA-ACATAATAA
1 GCACTATGTGTGCAATTTATTAT-A
87694256 GCACTATGTGTGC
1 GCACTATGTGTGC
87694269 CACATTCGGT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 2 0.02
24 92 0.97
25 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCAATTTATTATA
Found at i:87700157 original size:49 final size:49
Alignment explanation
Indices: 87700096--87700300 Score: 374
Period size: 49 Copynumber: 4.2 Consensus size: 49
87700086 ATGTATGAGA
87700096 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
87700145 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
87700194 TGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
87700243 TGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
87700292 TATATATAT
1 TGTATATAT
87700301 ATGTGGCAAA
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Done.