Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 61 of 425
Found at i:16751666 original size:6 final size:6
Alignment explanation
Indices: 16751649--16751689 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
16751639 TACACTGTGT
* *
16751649 CAGTAA CGGTAA CAGTAA CAGTAA CAGTAA TAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
16751690 GCGGCACACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:16752697 original size:19 final size:19
Alignment explanation
Indices: 16752673--16752709 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
16752663 CTAATTTTTC
*
16752673 CTTTTTCTTTCTTTCCTTT
1 CTTTTTCCTTCTTTCCTTT
16752692 CTTTTTCCTTCTTTCCTT
1 CTTTTTCCTTCTTTCCTT
16752710 ACCTTGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
CTTTTTCCTTCTTTCCTTT
Found at i:16752809 original size:2 final size:2
Alignment explanation
Indices: 16752793--16752849 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
16752783 TCATTTACTT
* * *
16752793 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16752835 TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA
16752850 ATAACAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:16753007 original size:21 final size:22
Alignment explanation
Indices: 16752983--16753030 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
16752973 AAAATCTTAT
16752983 AATATAATTATT-TAATT-AATA
1 AATATAATT-TTATAATTAAATA
16753004 AATAT-ATTTTATAATTAAATA
1 AATATAATTTTATAATTAAATA
*
16753025 CATATA
1 AATATA
16753031 TTACAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 2 0.09
20 8 0.35
21 13 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AATATAATTTTATAATTAAATA
Found at i:16753666 original size:52 final size:52
Alignment explanation
Indices: 16753583--16753706 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
16753573 TTTTCACGCG
* *
16753583 GCCTGGCACACGAGTGTGTGGCTTGGCTATATGACCTCTGCACCTACACACA
1 GCCTAGCACACGAGTGTGTGGCTTAGCTATATGACCTCTGCACCTACACACA
* *
16753635 GCCTAGCACACGGGTGTGTGGCTTAGCTATATGACCTCTGCACCTACACACG
1 GCCTAGCACACGAGTGTGTGGCTTAGCTATATGACCTCTGCACCTACACACA
* * *
16753687 GTCTAGCACACAAGCGTGTG
1 GCCTAGCACACGAGTGTGTG
16753707 TCTTGGCAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.23
Consensus pattern (52 bp):
GCCTAGCACACGAGTGTGTGGCTTAGCTATATGACCTCTGCACCTACACACA
Found at i:16757054 original size:19 final size:19
Alignment explanation
Indices: 16757030--16757067 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16757020 TACAAAGCTA
16757030 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
16757049 ACAAACAAGCTTAACTAAC
1 ACAAACAAGCTTAACTAAC
16757068 TCTACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (19 bp):
ACAAACAAGCTTAACTAAC
Found at i:16759975 original size:17 final size:17
Alignment explanation
Indices: 16759953--16759989 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
16759943 TAATCAAATG
16759953 AGTGCTCTAGTTGACAT
1 AGTGCTCTAGTTGACAT
*
16759970 AGTGCTTTAGTTGACAT
1 AGTGCTCTAGTTGACAT
16759987 AGT
1 AGT
16759990 TCATTATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (17 bp):
AGTGCTCTAGTTGACAT
Found at i:16767120 original size:33 final size:33
Alignment explanation
Indices: 16767060--16767138 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
16767050 AACTTGAGCT
* *
16767060 GGAAGGAGTGGAGTACTGCGATTGATACGGGCC
1 GGAAGGAGTGGAGTACGGCGATGGATACGGGCC
* *
16767093 AGG-AGGAGTGGAGTACGGTGGTGGATACGGGCC
1 -GGAAGGAGTGGAGTACGGCGATGGATACGGGCC
*
16767126 GGAAGGAGCGGAG
1 GGAAGGAGTGGAG
16767139 CACTAAGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 2 0.05
33 35 0.90
34 2 0.05
ACGTcount: A:0.24, C:0.13, G:0.49, T:0.14
Consensus pattern (33 bp):
GGAAGGAGTGGAGTACGGCGATGGATACGGGCC
Found at i:16773459 original size:24 final size:26
Alignment explanation
Indices: 16773424--16773488 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
16773414 ATATATTACA
16773424 TTTTTTCTTTCTTTC-TTCT-TCTTCT
1 TTTTTTC-TTCTTTCTTTCTCTCTTCT
* *
16773449 TTTTTTCTTC-TCCTTTCTCTCTTTT
1 TTTTTTCTTCTTTCTTTCTCTCTTCT
16773474 TTTTTTCTCTCTTTC
1 TTTTTTCT-TCTTTC
16773489 GGTGTGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.06
24 7 0.21
25 20 0.61
26 2 0.06
27 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTTTCTTCTTTCTTTCTCTCTTCT
Found at i:16773471 original size:22 final size:22
Alignment explanation
Indices: 16773424--16773488 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
16773414 ATATATTACA
*
16773424 TTTTTTCTTTCTTTCTTCTTCTTCT
1 TTTTTTC-TTCTCTC-T-TTCTTCT
16773449 TTTTTTCTTCTC-CTTTCTCTCT
1 TTTTTTCTTCTCTCTTTCT-TCT
*
16773471 TTTTTTTTTCTCTCTTTC
1 TTTTTTCTTCTCTCTTTC
16773489 GGTGTGGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.11
22 15 0.42
23 6 0.17
24 4 0.11
25 7 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTTCTTCTCTCTTTCTTCT
Found at i:16773843 original size:26 final size:26
Alignment explanation
Indices: 16773787--16773843 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
16773777 ATATATATTT
16773787 AAATATTTTAATAAAAATAAAAATAA
1 AAATATTTTAATAAAAATAAAAATAA
* *
16773813 TAATATTTTATTTAAAAA-AACAAA-AA
1 AAATATTTTA-ATAAAAATAA-AAATAA
16773839 AAATA
1 AAATA
16773844 ATATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATATTTTAATAAAAATAAAAATAA
Found at i:16782455 original size:36 final size:31
Alignment explanation
Indices: 16782413--16782483 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 31
16782403 ATATTTTTAA
16782413 AATTTTTAAAATCTTTTATATTATATATATATATAT
1 AATTTTTAAAA--TTTTA-ATTA-ATATA-ATATAT
16782449 AATTTTTTAAAATTTTAATTAATATAATATAT
1 AA-TTTTTAAAATTTTAATTAATATAATATAT
16782481 AAT
1 AAT
16782484 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
31 1 0.03
32 8 0.24
33 5 0.15
34 4 0.12
35 5 0.15
36 2 0.06
37 9 0.26
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
AATTTTTAAAATTTTAATTAATATAATATAT
Found at i:16782458 original size:37 final size:32
Alignment explanation
Indices: 16782415--16782483 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 32
16782405 ATTTTTAAAA
16782415 TTTTTAAAATCTTTTATATTATATATATATATATAAT
1 TTTTTAAAA--TTTTA-ATTA-ATATA-ATATATAAT
16782452 TTTTTAAAATTTTAATTAATATAATATATAAT
1 TTTTTAAAATTTTAATTAATATAATATATAAT
16782484 ATTAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 9 0.28
33 5 0.16
34 4 0.12
35 5 0.16
37 9 0.28
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (32 bp):
TTTTTAAAATTTTAATTAATATAATATATAAT
Found at i:16782734 original size:22 final size:22
Alignment explanation
Indices: 16782708--16782750 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
16782698 GCGTGTAGAT
16782708 ACCAAAATGAAAAATTAGGTAG
1 ACCAAAATGAAAAATTAGGTAG
16782730 ACCAAAATGAAAAATTAGGTA
1 ACCAAAATGAAAAATTAGGTA
16782751 TACTTTAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (22 bp):
ACCAAAATGAAAAATTAGGTAG
Found at i:16798094 original size:25 final size:24
Alignment explanation
Indices: 16798066--16798145 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
16798056 CCAATAAATG
*
16798066 GCTCGCAAGAGTTTCCCGTTATACA
1 GCTCG-AAGAGCTTCCCGTTATACA
* **
16798091 GCTCAAATGAGCTTCCCGTTATATG
1 GCTCGAA-GAGCTTCCCGTTATACA
16798116 GCTCAGAAGAGCTTCCCGTT-TACA
1 GCTC-GAAGAGCTTCCCGTTATACA
16798140 TGCTCG
1 -GCTCG
16798146 TATGAGCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 5 0.11
25 38 0.84
26 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (24 bp):
GCTCGAAGAGCTTCCCGTTATACA
Found at i:16798152 original size:25 final size:24
Alignment explanation
Indices: 16798078--16798157 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
16798068 TCGCAAGAGT
*
16798078 TTCCCGTTATACA-GCTCAAATGAGC
1 TTCCCGTT-TACATGCTC-GATGAGC
* *
16798103 TTCCCG-TTATATGGCTCAGAAGAGC
1 TTCCCGTTTACAT-GCTC-GATGAGC
16798128 TTCCCGTTTACATGCTCGTATGAGC
1 TTCCCGTTTACATGCTCG-ATGAGC
16798153 ATTCC
1 -TTCC
16798158 TGAATATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
23 3 0.07
24 2 0.04
25 31 0.69
26 9 0.20
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
TTCCCGTTTACATGCTCGATGAGC
Found at i:16798165 original size:50 final size:50
Alignment explanation
Indices: 16798050--16798144 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
16798040 AACTCTCTTT
* *
16798050 AGCTTCCCAATAA-ATGGCTCGCAAGAGTTTCCCGTTATACAGCTCAAATG
1 AGCTTCCC-GTAATATGGCTCGCAAGAGCTTCCCGTTATACAGCTCAAATG
*
16798100 AGCTTCCCGTTATATGGCTCAG-AAGAGCTTCCCGTT-TACATGCTC
1 AGCTTCCCGTAATATGGCTC-GCAAGAGCTTCCCGTTATACA-GCTC
16798145 GTATGAGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
49 6 0.15
50 32 0.82
51 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (50 bp):
AGCTTCCCGTAATATGGCTCGCAAGAGCTTCCCGTTATACAGCTCAAATG
Found at i:16813453 original size:47 final size:47
Alignment explanation
Indices: 16813399--16813489 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
16813389 TTGTAGCCTA
16813399 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
16813446 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
1 TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATA
16813490 AATTATTGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (47 bp):
TCTCAAACCCTCAACTCTTAATTTTTGTATTTCATACCCATATATGT
Found at i:16821734 original size:22 final size:24
Alignment explanation
Indices: 16821706--16821749 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16821696 CATGGCAAGA
16821706 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
16821728 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
16821750 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:16838349 original size:135 final size:135
Alignment explanation
Indices: 16837767--16838338 Score: 756
Period size: 135 Copynumber: 4.3 Consensus size: 135
16837757 ATTATAAGCC
* *
16837767 TTATCTTTACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCACTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * **
16837830 TGAAGCAGATCGAATTTTAGAGAATCTTATCTCCATATACCGGCGATGGAGCAGATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
16837895 CAGCT
131 CAGCT
* *
16837900 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTTATTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * *
16837965 TGAAGCAGATCAGATTTTGGAGAATCTTATCTCTACGTACCGGCGATGGAGAAGATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
16838030 CAGCT
131 CAGCT
* * * *
16838035 TTATCTTCACTGAGCAGGAATGGAGCAGGCTAAATATACCAGGTCTTGTCTTCGCTGAGCAGGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
* * * * ** * * **
16838100 CGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATTGGCAATGGAGCAGATTTCAGCCAC
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCA-
* *
16838165 TAATC-
130 TCAGCT
* *
16838170 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCATTGAGCATGAG
1 TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
** * * *
16838235 TGAAGTGGATCAAATTTTGGAGAATCTTATTTTCACGTACAGGCGATGGAGCAGATTCCAATCAT
66 TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
16838300 CAGCT
131 CAGCT
* * * *
16838305 TTATCTTTACTAAGCAGTAG-GGTAACAGGCTAAA
1 TTATCTTCACTGAGCAGGAGTGG-AGCAGGCTAAA
16838339 ATTTATAGAT
Statistics
Matches: 376, Mismatches: 58, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
133 30 0.08
134 7 0.02
135 336 0.89
136 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (135 bp):
TTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCACTGAGCAGGAG
TGAAGCAGATCAAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGATTCCAATCAT
CAGCT
Found at i:16847564 original size:25 final size:26
Alignment explanation
Indices: 16847535--16847587 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
16847525 TTATAGCCAT
* *
16847535 ACGAACCGTATAACTAAAGA-CCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
*
16847560 ACGAACCATTTAACTAAAAAGCCAAA
1 ACGAACCATATAACTAAAAAGCCAAA
16847586 AC
1 AC
16847588 ACACCGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.13
Consensus pattern (26 bp):
ACGAACCATATAACTAAAAAGCCAAA
Found at i:16851523 original size:32 final size:29
Alignment explanation
Indices: 16851495--16851552 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
16851485 TTTTATATTT
16851495 AAAATCATTAA-AATTATTAAAAAATTATAC
1 AAAA-CATTAATAA-TATTAAAAAATTATAC
*
16851525 AAAAGATTAATAATATTAAAAAATTATA
1 AAAACATTAATAATATTAAAAAATTATA
16851553 AATATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAACATTAATAATATTAAAAAATTATAC
Found at i:16852427 original size:2 final size:2
Alignment explanation
Indices: 16852420--16852450 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16852410 TGTTTTAAGT
16852420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16852451 TGTTTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16859294 original size:30 final size:30
Alignment explanation
Indices: 16859260--16859358 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
16859250 AAATTTTCAC
* *
16859260 TTTAAGTGAGTAATTATTGTTTAAATAAAT
1 TTTAAGTGAATAATTATTATTTAAATAAAT
** **
16859290 TTTAA-AAAATAAGTTAAAATTTAAAACTAAAAAT
1 TTTAAGTGAATAA-TTATTATTT-AAA-T--AAAT
*
16859324 TTTAAGTGAATAATTATTTTTTAAATAAAT
1 TTTAAGTGAATAATTATTATTTAAATAAAT
16859354 TTTAA
1 TTTAA
16859359 ATGATTAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
29 4 0.08
30 20 0.38
31 3 0.06
32 2 0.04
33 3 0.06
34 15 0.29
35 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTAAGTGAATAATTATTATTTAAATAAAT
Found at i:16863038 original size:27 final size:28
Alignment explanation
Indices: 16862989--16863058 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
16862979 ATTTTCTATA
*
16862989 TAAAATTTTTAAAAAATATATAATACAT
1 TAAAATTATTAAAAAATATATAATACAT
*
16863017 TAAAATTACTAAAAAA-ATATAATACAT
1 TAAAATTATTAAAAAATATATAATACAT
*
16863044 CAAAATTATTAAAAA
1 TAAAATTATTAAAAA
16863059 TATTAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAATTATTAAAAAATATATAATACAT
Found at i:16863227 original size:14 final size:14
Alignment explanation
Indices: 16863208--16863239 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16863198 ACAATATTCA
16863208 AATAATAACAACAT
1 AATAATAACAACAT
16863222 AATAATAACAACAT
1 AATAATAACAACAT
16863236 AATA
1 AATA
16863240 GTGAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAATAACAACAT
Found at i:16863289 original size:22 final size:22
Alignment explanation
Indices: 16863264--16863306 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16863254 AAATAGTGGA
16863264 AAAAAAG-AAAGAAAATAGCAAC
1 AAAAAAGCAAA-AAAATAGCAAC
*
16863286 AAAACAGCAAAAAAATAGCAA
1 AAAAAAGCAAAAAAATAGCAA
16863307 TTTTTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAAAGCAAAAAAATAGCAAC
Found at i:16864346 original size:21 final size:23
Alignment explanation
Indices: 16864316--16864357 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16864306 GTCAAATTTT
16864316 AATTAA-TTTTTA-ATTTTTAAA
1 AATTAATTTTTTATATTTTTAAA
*
16864337 AATTACTTTTTTATATTTTTA
1 AATTAATTTTTTATATTTTTA
16864358 TACTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
AATTAATTTTTTATATTTTTAAA
Found at i:16864363 original size:18 final size:19
Alignment explanation
Indices: 16864340--16864384 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
16864330 TTTTAAAAAT
16864340 TACTTTTTTAT-ATTTTTA
1 TACTTTTTTATGATTTTTA
*
16864358 TACTTTTTAATGATTTTTA
1 TACTTTTTTATGATTTTTA
16864377 -A-TTTTTTA
1 TACTTTTTTA
16864385 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 11 0.46
19 7 0.29
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
TACTTTTTTATGATTTTTA
Found at i:16867915 original size:46 final size:44
Alignment explanation
Indices: 16867811--16867918 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
16867801 TGTCTTTGAC
** * * *
16867811 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
16867855 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
16867901 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
16867919 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:16870759 original size:15 final size:16
Alignment explanation
Indices: 16870733--16870774 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
16870723 TTTTTAGTTT
16870733 TTTTATAATTTTTCT-A
1 TTTTA-AATTTTTCTAA
*
16870749 TTTTAAATTTTTTTAA
1 TTTTAAATTTTTCTAA
16870765 TTTTAAATTT
1 TTTTAAATTT
16870775 ATTTTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTAAATTTTTCTAA
Found at i:16870846 original size:26 final size:25
Alignment explanation
Indices: 16870809--16870857 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
16870799 GTAAATATAA
*
16870809 TTTTATA-TTTTTTCTATTTTAAAAG
1 TTTTATAGTTTTTT-AATTTTAAAAG
16870834 TTTTATTAGTTTTTTAATTTTAAA
1 TTTTA-TAGTTTTTTAATTTTAAA
16870858 TAATTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 10 0.48
27 6 0.29
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTATAGTTTTTTAATTTTAAAAG
Found at i:16870885 original size:21 final size:22
Alignment explanation
Indices: 16870855--16870895 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16870845 TTTTAATTTT
*
16870855 AAATAATTTTGTATATTTTTGC
1 AAATAATTTTGTAAATTTTTGC
*
16870877 AAAT-ATTTTTTAAATTTTT
1 AAATAATTTTGTAAATTTTT
16870896 TAAGTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
AAATAATTTTGTAAATTTTTGC
Found at i:16872728 original size:27 final size:27
Alignment explanation
Indices: 16872660--16872730 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
16872650 CGACTTGTAA
* *
16872660 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
16872687 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
16872714 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
16872731 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:16872737 original size:27 final size:27
Alignment explanation
Indices: 16872714--16872837 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
16872704 CAATTTACAG
16872714 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
16872741 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
16872768 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
16872795 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
16872822 AATTACTAAAATACCC
1 AATTACCAAAATACCC
16872838 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:16872756 original size:54 final size:53
Alignment explanation
Indices: 16872698--16872809 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
16872688 ATTACCGTTT
16872698 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
16872752 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
16872806 TACC
1 TACC
16872810 AATGGTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 39 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:16872816 original size:54 final size:54
Alignment explanation
Indices: 16872714--16872837 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
16872704 CAATTTACAG
* ** *
16872714 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
16872768 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
16872822 AATTACTAAAATACCC
1 AATTACTAAAATACCC
16872838 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:16872850 original size:27 final size:27
Alignment explanation
Indices: 16872820--16872881 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
16872810 AATGGTTTGA
16872820 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
16872847 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
16872874 AAAATTAC
1 AAAATTAC
16872882 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:16872850 original size:54 final size:54
Alignment explanation
Indices: 16872714--16872863 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
16872704 CAATTTACAG
* ** * ** *
16872714 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
16872768 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
16872822 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
16872864 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:16872866 original size:81 final size:81
Alignment explanation
Indices: 16872714--16872866 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
16872704 CAATTTACAG
** **
16872714 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
16872779 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
16872795 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
16872858 AATACCCTT
64 AATACCCTT
16872867 GTGGGGTAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:16873535 original size:28 final size:28
Alignment explanation
Indices: 16873502--16873598 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
16873492 GCGTAGATCA
16873502 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
16873530 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
16873558 CAAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
16873586 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
16873599 GGGTTTAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 53 0.83
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:16874968 original size:15 final size:16
Alignment explanation
Indices: 16874948--16874989 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
16874938 ATTAATCTAA
16874948 TAGCTGTTAGTCT-AT
1 TAGCTGTTAGTCTGAT
* *
16874963 TTGCTGGTAGTCTGAT
1 TAGCTGTTAGTCTGAT
*
16874979 TAGTTGTTAGT
1 TAGCTGTTAGT
16874990 TTGTTAGTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (16 bp):
TAGCTGTTAGTCTGAT
Found at i:16875006 original size:39 final size:39
Alignment explanation
Indices: 16874952--16875034 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
16874942 ATCTAATAGC
16874952 TGTTAGTCTATTTGCTGGTAGTCTGATTAGTTGTTAGTT
1 TGTTAGTCTATTTGCTGGTAGTCTGATTAGTTGTTAGTT
16874991 TGTTAGTCTATTTGCTGGTAGTCTGATTAGTTGTTAGTT
1 TGTTAGTCTATTTGCTGGTAGTCTGATTAGTTGTTAGTT
16875030 TGTTA
1 TGTTA
16875035 TTCAAGCTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.16, C:0.07, G:0.25, T:0.52
Consensus pattern (39 bp):
TGTTAGTCTATTTGCTGGTAGTCTGATTAGTTGTTAGTT
Found at i:16877073 original size:46 final size:45
Alignment explanation
Indices: 16877020--16877195 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
16877010 TATTCGGGCA
16877020 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
*** * *
16877066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAG
* * *
16877113 TCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *
16877159 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16877196 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.63
47 31 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAG
Found at i:16877175 original size:93 final size:93
Alignment explanation
Indices: 16877016--16877187 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
16877006 AGGATATTCG
* * *
16877016 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
16877081 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
16877109 GGCATCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
16877174 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16877188 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:16887196 original size:19 final size:19
Alignment explanation
Indices: 16887172--16887210 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16887162 AAGGTAGAAG
16887172 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
16887191 ACTAGTTTGATCATAATTA
1 ACTAGTTTGATCATAATTA
16887210 A
1 A
16887211 AACCATAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ACTAGTTTGATCATAATTA
Found at i:16898687 original size:19 final size:19
Alignment explanation
Indices: 16898659--16898723 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
16898649 ATTATCCAAA
*
16898659 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
* *
16898678 TCAATCCAATTCCA----AA
1 TCAATCCAATT-GATTTTAT
*
16898694 TCAATTCAATTGATTTTAT
1 TCAATCCAATTGATTTTAT
16898713 TCAATCCAATT
1 TCAATCCAATT
16898724 TAAATAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.32
19 21 0.62
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.43
Consensus pattern (19 bp):
TCAATCCAATTGATTTTAT
Found at i:16898692 original size:35 final size:35
Alignment explanation
Indices: 16898653--16898723 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16898643 ATATGTATTA
16898653 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
16898688 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
1 TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
16898723 T
1 T
16898724 TAAATAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.41
Consensus pattern (35 bp):
TCCAAATCAATTCAATTGATTTTATTCAATCCAAT
Found at i:16899095 original size:21 final size:19
Alignment explanation
Indices: 16899071--16899113 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
16899061 GTTGTATTCA
16899071 ATTAAACTCATATACTATTTC
1 ATTAAACTCA-ATAC-ATTTC
* *
16899092 ATTAAATTCAATTCATTTC
1 ATTAAACTCAATACATTTC
16899111 ATT
1 ATT
16899114 CTAACTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 9 0.45
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAACTCAATACATTTC
Found at i:16900583 original size:5 final size:5
Alignment explanation
Indices: 16900575--16900621 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
16900565 TTTATTAAGT
16900575 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
16900622 TATTTTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:16902973 original size:16 final size:16
Alignment explanation
Indices: 16902952--16902982 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16902942 ATTCATTGAT
*
16902952 AAACATAGAAAAAAAC
1 AAACATACAAAAAAAC
16902968 AAACATACAAAAAAA
1 AAACATACAAAAAAA
16902983 ACCTTATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.13, G:0.03, T:0.06
Consensus pattern (16 bp):
AAACATACAAAAAAAC
Found at i:16904003 original size:27 final size:27
Alignment explanation
Indices: 16903965--16904018 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16903955 AGATGGAGCA
16903965 GATGTTAATCCCTCCGCAACATCTTTT
1 GATGTTAATCCCTCCGCAACATCTTTT
16903992 GATGTTAATCCCTCCGCAACATCTTTT
1 GATGTTAATCCCTCCGCAACATCTTTT
16904019 CCTGTCCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (27 bp):
GATGTTAATCCCTCCGCAACATCTTTT
Found at i:16905541 original size:7 final size:7
Alignment explanation
Indices: 16905529--16905562 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
16905519 AATTGTCGAG
16905529 AGAATTA
1 AGAATTA
16905536 AGAATTA
1 AGAATTA
*
16905543 ATAATTA
1 AGAATTA
16905550 AGAATTA
1 AGAATTA
16905557 AGAATT
1 AGAATT
16905563 GAGTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
AGAATTA
Found at i:16912244 original size:30 final size:30
Alignment explanation
Indices: 16912210--16912269 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16912200 TACTATTGAA
*
16912210 CTATGATACAATTTTCAGATATAAAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
* *
16912240 CTATGGTACAAGTTTCAGATATAGAGATAG
1 CTATGATACAAGTTTCAGATATAAAGATAG
16912270 TTGAAGGTGG
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:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (30 bp):
CTATGATACAAGTTTCAGATATAAAGATAG
Found at i:16912323 original size:5 final size:5
Alignment explanation
Indices: 16912313--16912337 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16912303 TTGATGTTGT
16912313 TCATC TCATC TCATC TCATC TCATC
1 TCATC TCATC TCATC TCATC TCATC
16912338 GTTTCGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
TCATC
Found at i:16917486 original size:39 final size:39
Alignment explanation
Indices: 16917442--16917519 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
16917432 TTTAAGTCTC
*
16917442 TTTGTGTGGATTTCCTTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
16917481 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
1 TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
16917520 ACACTGAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (39 bp):
TTTGTGTGGATTTCCGTAAATTGAATTGTATATGAGTGA
Found at i:16919901 original size:2 final size:2
Alignment explanation
Indices: 16919896--16919924 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16919886 GAAAAAAATG
16919896 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
16919925 GCAATTGCTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:16920180 original size:28 final size:27
Alignment explanation
Indices: 16920142--16920195 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
16920132 ATTTTGAAAT
16920142 GGACTTATTCTAT-CGAAATAATTATTTA
1 GGACTTATTCTATAC--AATAATTATTTA
*
16920170 GGACTTTTTCTATACAATAATTATTT
1 GGACTTATTCTATACAATAATTATTT
16920196 TAATTGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
28 12 0.50
29 1 0.04
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.46
Consensus pattern (27 bp):
GGACTTATTCTATACAATAATTATTTA
Found at i:16920350 original size:28 final size:28
Alignment explanation
Indices: 16920318--16920399 Score: 100
Period size: 27 Copynumber: 3.0 Consensus size: 28
16920308 ATCGTTTAAC
*
16920318 ATAAAAAATATTAAGTTAAATT-TATTTT
1 ATAAAAAATATTAA-ATAAATTATATTTT
16920346 ATAAAAAA-ATCTAAATAAATTATATTTT
1 ATAAAAAATAT-TAAATAAATTATATTTT
16920374 -TAAAAAATATTCAAAT-AATTATATTT
1 ATAAAAAATATT-AAATAAATTATATTT
16920400 ATCATTTATC
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
27 26 0.53
28 23 0.47
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAAAAAATATTAAATAAATTATATTTT
Found at i:16925498 original size:71 final size:71
Alignment explanation
Indices: 16925385--16925529 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 71
16925375 ATTTCAAATA
*
16925385 TTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTTTAGTGCTTATGATAAAATCTTTTTACCAT
1 TTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACCAT
16925450 TCTTAT
66 TCTTAT
16925456 TTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACCAT
1 TTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACCAT
16925521 TCTTAT
66 TCTTAT
16925527 TTT
1 TTT
16925530 ATCCTTTTGA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.50
Consensus pattern (71 bp):
TTTTTTTGCCTCATAGTCTCTTGTACATAGGCTCTCTAGTGCTTATGATAAAATCTTTTTACCAT
TCTTAT
Found at i:16934325 original size:46 final size:47
Alignment explanation
Indices: 16934195--16934329 Score: 166
Period size: 46 Copynumber: 2.9 Consensus size: 47
16934185 TGCCTAATAA
* * *
16934195 ATAGCCAAAGCTATATCAATCTCGCACACTAAGTGCCAATATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTG-CAATATATATAT
**
16934243 ATAGCCGAAGCTATCTCGATCTCGCGTACTAAGTGCAA-ATATATAT
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAATATATATAT
* * * *
16934289 ATAGCTGAAGCTATCTTGATTTCGTACACTAAGTGC-ATATA
1 ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAATATA
16934330 ATTAGCTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 41 0.55
47 3 0.04
48 30 0.40
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (47 bp):
ATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAATATATATAT
Found at i:16934850 original size:21 final size:20
Alignment explanation
Indices: 16934826--16934865 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
16934816 CTTGTATAAC
16934826 TATCATCAAACATTCAAAATA
1 TATCATCAAACA-TCAAAATA
*
16934847 TATCATTAAACATCAAAAT
1 TATCATCAAACATCAAAAT
16934866 TCTCATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (20 bp):
TATCATCAAACATCAAAATA
Found at i:16945923 original size:40 final size:41
Alignment explanation
Indices: 16945879--16945966 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 41
16945869 TTGCACACGT
* * *
16945879 AGTGCCACATATAGCCGAAGCTAT-TCCAATTCGCACAATA
1 AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
*** * *
16945919 AGTGCTTTATATAGTCGAAGCTATCTCAAAATAGCACACTA
1 AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
16945960 AGTGCCA
1 AGTGCCA
16945967 AACATAGTCG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
40 20 0.54
41 17 0.46
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (41 bp):
AGTGCCACATATAGCCGAAGCTATCTCAAAATAGCACAATA
Found at i:16947755 original size:21 final size:20
Alignment explanation
Indices: 16947724--16947779 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
16947714 TGGCCTGCAG
*
16947724 CACGGGCGTGTCCCAGGGTCA
1 CACGGGTGTGTCCC-GGGTCA
*
16947745 CATGGGTGTGTCCTCGGGTCA
1 CACGGGTGTGTCC-CGGGTCA
16947766 CACGGGTGTGTCCC
1 CACGGGTGTGTCCC
16947780 TTGGACCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.11, C:0.30, G:0.38, T:0.21
Consensus pattern (20 bp):
CACGGGTGTGTCCCGGGTCA
Found at i:16951725 original size:50 final size:50
Alignment explanation
Indices: 16951647--16951743 Score: 151
Period size: 50 Copynumber: 1.9 Consensus size: 50
16951637 ATAAATAGCT
*
16951647 GAAGCTATATCAATCTCGCACACCAAGTGTC-AATATATATATGTATAGTC
1 GAAGCTATATCAATCTCGCACACCAAGTG-CAAATATATATATATATAGTC
* *
16951697 GAAGCTATCTCAATCTCGCACACTAAGTGCAAATATATATATATATA
1 GAAGCTATATCAATCTCGCACACCAAGTGCAAATATATATATATATA
16951744 TATATAGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (50 bp):
GAAGCTATATCAATCTCGCACACCAAGTGCAAATATATATATATATAGTC
Found at i:16952323 original size:20 final size:21
Alignment explanation
Indices: 16952284--16952324 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16952274 ACTTGTATAA
*
16952284 CTATCATCAAACATTCAAAAT
1 CTATCATCAAACAATCAAAAT
*
16952305 CTATCATTAAA-AATCAAAAT
1 CTATCATCAAACAATCAAAAT
16952325 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (21 bp):
CTATCATCAAACAATCAAAAT
Found at i:16959372 original size:20 final size:19
Alignment explanation
Indices: 16959351--16959391 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 19
16959341 AGAACAGAGA
16959351 AAGGAATGAAACAAGGGAG
1 AAGGAATGAAACAAGGGAG
16959370 -A--AATGAAACAAGGGAG
1 AAGGAATGAAACAAGGGAG
16959386 AAGGAA
1 AAGGAA
16959392 AAAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
16 15 0.79
17 1 0.05
18 1 0.05
19 2 0.11
ACGTcount: A:0.56, C:0.05, G:0.34, T:0.05
Consensus pattern (19 bp):
AAGGAATGAAACAAGGGAG
Found at i:16959376 original size:16 final size:16
Alignment explanation
Indices: 16959355--16959387 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
16959345 CAGAGAAAGG
16959355 AATGAAACAAGGGAGA
1 AATGAAACAAGGGAGA
16959371 AATGAAACAAGGGAGA
1 AATGAAACAAGGGAGA
16959387 A
1 A
16959388 GGAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.30, T:0.06
Consensus pattern (16 bp):
AATGAAACAAGGGAGA
Found at i:16962045 original size:48 final size:48
Alignment explanation
Indices: 16961984--16962397 Score: 341
Period size: 48 Copynumber: 8.6 Consensus size: 48
16961974 TATGTGTGCC
** *
16961984 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCT
* * * ** * * *
16962032 AGTGTAAGGCCATGTTTGGAACATGGCAACATCAATGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCT
* ** * * *
16962080 AGTGTAAGACCATGTATGGGACATAACATTGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-TGATATGAGAGCT
* *** * * *
16962128 AGTGTAAGACCATATCCAGGACATGGCATCGACCACGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCT
* * * *
16962176 AGTGTAAGACCATATTTGGAACATGGCATCGGCAATG-TAATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGAT-ATGAGAGCT
* * * ** * *
16962224 ATTATAAGACCATGTTTGGGACATGACATC-AACATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-TGATATGAGAGCT
* * * *
16962272 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCT
* * ** * * *
16962320 AGTGTAAGACCATGTCTGGGACATAGCATTAGCC-TCAACATGTGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCAT-GATATGAGAGCT
*
16962368 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGGACATGGCATC
16962398 AACAATTCAC
Statistics
Matches: 281, Mismatches: 78, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
47 4 0.01
48 273 0.97
49 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCATGATATGAGAGCT
Found at i:16962376 original size:144 final size:142
Alignment explanation
Indices: 16961971--16962401 Score: 470
Period size: 144 Copynumber: 3.0 Consensus size: 142
16961961 GACATTTGAG
* * * *
16961971 TGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * *
16962036 TAAGGCCATGTTTGGAACATGGCA-A-CATCAATGAGACGAGAGCTAGTGTAAGACCATGTATGG
66 TAAGACCATGTTTGGAACATGGCATAGCATC-A--A-ATGAGAGCTAGTGTAAGACCATGTTTGG
* ***
16962099 GACATAACATTGGCAT
127 GACATGACATCAACAT
* ** *
16962115 TGATATGTGCGCTAGTGTAAGACCATATCCAGGACATGGCATCGACCACGATATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * ** * * *
16962180 TAAGACCATATTTGGAACATGGCATCGGCAATGTAATGAGAGCCATTATAAGACCATGTTTGGGA
66 TAAGACCATGTTTGGAACATGGCAT-AGC-ATCAAATGAGAGCTAGTGTAAGACCATGTTTGGGA
16962245 CATGACATCAACAT
129 CATGACATCAACAT
* * * * *
16962259 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAGACGAGAGCTAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
* * * * * *
16962324 TAAGACCATGTCTGGGACATAGCATTAGCCTCAACATGTGAGCTAGTGTAAGACCATGTTTGGAA
66 TAAGACCATGTTTGGAACATGGCA-TAGCATCAA-ATGAGAGCTAGTGTAAGACCATGTTTGGGA
*
16962389 CATGGCATCAACA
129 CATGACATCAACA
16962402 ATTCACCCTC
Statistics
Matches: 236, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
143 2 0.01
144 229 0.97
145 2 0.01
147 1 0.00
148 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (142 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGTG
TAAGACCATGTTTGGAACATGGCATAGCATCAAATGAGAGCTAGTGTAAGACCATGTTTGGGACA
TGACATCAACAT
Found at i:16970248 original size:14 final size:14
Alignment explanation
Indices: 16970229--16970258 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16970219 ACCCCTTCAT
*
16970229 TCCCTCATTCATCA
1 TCCCTCATCCATCA
16970243 TCCCTCATCCATCA
1 TCCCTCATCCATCA
16970257 TC
1 TC
16970259 ATTCTCTCTT
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:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:16977485 original size:7 final size:7
Alignment explanation
Indices: 16977469--16977515 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
16977459 ATTTTAGTTC
16977469 ATTA-TT
1 ATTATTT
16977475 ATTATTT
1 ATTATTT
16977482 ATTATTT
1 ATTATTT
16977489 ATTATTT
1 ATTATTT
16977496 ATTA-TT
1 ATTATTT
*
16977502 AGTAGTTT
1 ATTA-TTT
16977510 ATTATT
1 ATTATT
16977516 ATTTTGACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
6 9 0.25
7 22 0.61
8 5 0.14
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (7 bp):
ATTATTT
Found at i:16977492 original size:14 final size:13
Alignment explanation
Indices: 16977469--16977536 Score: 75
Period size: 14 Copynumber: 5.1 Consensus size: 13
16977459 ATTTTAGTTC
16977469 ATTATTATTATTT
1 ATTATTATTATTT
16977482 ATTATTTATTATTT
1 ATTA-TTATTATTT
*
16977496 ATTATTAGTAGTTT
1 ATTATTATTA-TTT
*
16977510 ATTATTATT-TTG
1 ATTATTATTATTT
*
16977522 ACTATTATGTATTT
1 ATTATTAT-TATTT
16977536 A
1 A
16977537 ATTTCTTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
12 9 0.20
13 10 0.22
14 27 0.59
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63
Consensus pattern (13 bp):
ATTATTATTATTT
Found at i:16978107 original size:24 final size:24
Alignment explanation
Indices: 16978104--16978149 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16978094 TATTTGTGAG
16978104 ACTTTTATTTTATTTTTATTATGA
1 ACTTTTATTTTATTTTTATTATGA
16978128 ACTTTTATTTTATTTTTATTAT
1 ACTTTTATTTTATTTTTATTAT
16978150 TTTGATCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (24 bp):
ACTTTTATTTTATTTTTATTATGA
Found at i:16978118 original size:29 final size:27
Alignment explanation
Indices: 16978082--16978151 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 27
16978072 TCGGTTCTAC
*
16978082 TTTTATTTATTTTATTTGTGAGACTTTTA
1 TTTTATTT-TTTTATTTATGA-ACTTTTA
16978111 TTTTA--TTTTTA-TTATGAACTTTTA
1 TTTTATTTTTTTATTTATGAACTTTTA
16978135 TTTTATTTTTATTATTT
1 TTTTATTTTT-TTATTT
16978152 TGATCGTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 12 0.33
25 5 0.14
26 8 0.22
27 4 0.11
28 2 0.06
29 5 0.14
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (27 bp):
TTTTATTTTTTTATTTATGAACTTTTA
Found at i:16979436 original size:61 final size:61
Alignment explanation
Indices: 16979341--16979455 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
16979331 ATAGTGGTGG
*
16979341 AAGCAAGCTTATGGTAATAGCATTTATTGTTCGACTATTGAGTGCCTAATATTTGATTTTC
1 AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTTGATTTTC
* *
16979402 AAGCAAGCTTATGGTAATGGCATTTCTCGTTCGACTATTGAGTGCCTAATATTT
1 AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTT
16979456 TAACCTTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (61 bp):
AAGCAAGCTTATGGTAATAGCATTTATCGTTCGACTATTGAGTGCCTAATATTTGATTTTC
Found at i:16981286 original size:13 final size:14
Alignment explanation
Indices: 16981268--16981304 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
16981258 TTTAACTTAT
16981268 TATAA-TAATTTTA
1 TATAATTAATTTTA
16981281 TATAATTAATTTT-
1 TATAATTAATTTTA
*
16981294 TAAAATTAATT
1 TATAATTAATT
16981305 GAATTAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATAATTAATTTTA
Found at i:16993199 original size:37 final size:38
Alignment explanation
Indices: 16993158--16993241 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 38
16993148 AGTCGTTAAG
** *
16993158 ATTGAAACATTATGCCTCTTAGAAAAGTTAGGCGAAC-
1 ATTGAAACATTATGCCTCCCAAAAAAGTTAGGCGAACA
16993195 ATTGAAACATTATGCCTCCCAAAAAAGTTAGGCGAACA
1 ATTGAAACATTATGCCTCCCAAAAAAGTTAGGCGAACA
*
16993233 ATGGAAACA
1 ATTGAAACA
16993242 GAGCCATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.81
38 8 0.19
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (38 bp):
ATTGAAACATTATGCCTCCCAAAAAAGTTAGGCGAACA
Found at i:17003580 original size:20 final size:20
Alignment explanation
Indices: 17003543--17003580 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17003533 AAATGAGAGT
*
17003543 TATAATTATAATATTTTTTA
1 TATAATTATAATAATTTTTA
17003563 TATAATTA-ACATAATTTT
1 TATAATTATA-ATAATTTT
17003581 AACATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAATTATAATAATTTTTA
Found at i:17011158 original size:35 final size:35
Alignment explanation
Indices: 17011114--17011279 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
17011104 TCCTCATTGA
** *
17011114 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17011149 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17011188 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17011223 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17011258 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17011280 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17011199 original size:74 final size:73
Alignment explanation
Indices: 17011109--17011279 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
17011099 GGTTTTCCTC
** * * **
17011109 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17011172 TCAGTATGG
65 TCAGTATGG
*
17011181 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17011246 CTCAGTATGG
64 CTCAGTATGG
17011256 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17011280 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17018651 original size:35 final size:35
Alignment explanation
Indices: 17018607--17018773 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
17018597 TCCTCATTGA
** *
17018607 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17018642 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17018682 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17018717 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17018752 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17018774 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17018690 original size:75 final size:73
Alignment explanation
Indices: 17018602--17018773 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
17018592 GGTTTTCCTC
** * * **
17018602 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17018666 TCAGTATGG
65 TCAGTATGG
*
17018675 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17018740 CTCAGTATGG
64 CTCAGTATGG
17018750 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17018774 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17022865 original size:35 final size:35
Alignment explanation
Indices: 17022821--17022986 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
17022811 TCCTCATTGA
** *
17022821 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17022856 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17022895 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17022930 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17022965 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17022987 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17022906 original size:74 final size:73
Alignment explanation
Indices: 17022816--17022986 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
17022806 GGTTTTCCTC
** * * **
17022816 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17022879 TCAGTATGG
65 TCAGTATGG
*
17022888 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17022953 CTCAGTATGG
64 CTCAGTATGG
17022963 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17022987 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17030356 original size:35 final size:35
Alignment explanation
Indices: 17030312--17030477 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
17030302 TCCTCATTGA
** *
17030312 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
17030347 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
17030386 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
17030421 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
17030456 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
17030478 CTTTGCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:17030397 original size:74 final size:73
Alignment explanation
Indices: 17030307--17030477 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
17030297 GGTTTTCCTC
** * * **
17030307 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
17030370 TCAGTATGG
65 TCAGTATGG
*
17030379 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
17030444 CTCAGTATGG
64 CTCAGTATGG
17030454 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
17030478 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:17037071 original size:374 final size:374
Alignment explanation
Indices: 17036382--17037506 Score: 2045
Period size: 374 Copynumber: 3.0 Consensus size: 374
17036372 CGACAGGCCG
* * *
17036382 TGTAACTCTTTGAGACCATGTGGTTCAATCTGTACTTAAAAATTAAAAAACACACGGCCATGTGA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCATGTGA
*
17036447 GGAGACCGTGTGTGAAACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCA
66 GGAGA-CGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCA
*
17036512 AGTTTACCAAATTGAACTTACTTGAGCCACAAACATACCTTTTCACAACCATTTAAACTATTCAA
130 AGTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAA
* * *
17036577 AACACACCTAAACAAGCCTAAATCATGTCAAAAC-AATGCATCTCATTCAAATATAAACACTAAA
195 AACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAA
* * *
17036641 CCAATGTATCCTCATTGGTACCAAAATTCAAATACTAAAACATATCAAACTCAATACCACAAGTT
260 CCAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTT
*
17036706 CAAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCCAT
325 CAAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
* * *
17036756 TGTAACTCTCTGAGATCATGTGGTTCAATTTGTACTTAAAAATTAAAAGATACACGGCCGTGTGA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCATGTGA
*
17036821 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCCTAAAATTCAA
66 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
17036886 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
131 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
*
17036951 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACATTAAAC
196 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
*
17037016 CAATATATTCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
261 CAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
17037081 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
326 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
17037130 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCATGTGA
1 TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCATGTGA
*
17037195 GGAGACGTGTGTGACACACGACTGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
66 GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
*
17037260 GTTTACCAAATTGAACTTACTTGAGCCGCAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
131 GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
17037325 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
196 ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
17037390 CAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
261 CAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
*
17037455 AAACATTAAACATTCATCAATCTCTACACTAATTAGCCACTTCACCTAT
326 AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
17037504 TGT
1 TGT
17037507 TAATGAATCA
Statistics
Matches: 723, Mismatches: 27, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
373 154 0.21
374 569 0.79
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (374 bp):
TGTAACTCTCTGAGATCATGTGGTTCAATCTGTACTTAAAAATTAAAAGACACACGGCCATGTGA
GGAGACGTGTGTGACACACGACCGTGTGACAGCCTGTATGTCCTAAAATGTGCCTTAAAATTCAA
GTTTACCAAATTGAACTTACTTGAGCCACAAGCATACCTTTTCACAACCATTTAAACTATTCAAA
ACACACCTAAACAGGCCTAAATCATGTCAAAACAAATACATCTCATTCAAATCTAAACACTAAAC
CAATATATCCTCATTGGTACCACAATTCAAATACTAAAACATTTCAAACTCAATACCACAAGTTC
AAACATTAAACATTCATCAATCTCCACACTAATTAGCCACTTCACCTAT
Found at i:17038129 original size:40 final size:40
Alignment explanation
Indices: 17038036--17038237 Score: 280
Period size: 40 Copynumber: 5.0 Consensus size: 40
17038026 TCAAATACAT
*
17038036 CCTTTTCATTTGTTAT-CTTTTATGGATAACATCCTTTTTCAA
1 CCTTTTCATTTGATATCCTTTT-TGGAT-ACATCC-TTTTCAA
* * * *
17038078 TCTTTTAATTTGATATCCTTTTCGGATAAATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
17038118 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
* * *
17038158 ACGTTTCATTTGATATCCTTTTCGGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
* *
17038198 CCTTTTCGTTTGATATCCTTTTTAGATACATCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
17038238 GTATATTACT
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
40 115 0.81
41 5 0.04
42 17 0.12
43 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.08, T:0.50
Consensus pattern (40 bp):
CCTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAA
Found at i:17041291 original size:18 final size:18
Alignment explanation
Indices: 17041268--17041310 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17041258 CAAGGTCACG
*
17041268 ATCAATAGTGTCACTATC
1 ATCAATAGCGTCACTATC
*
17041286 ATCAATAGCGTCATTATC
1 ATCAATAGCGTCACTATC
*
17041304 ATTAATA
1 ATCAATA
17041311 TTGATATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (18 bp):
ATCAATAGCGTCACTATC
Found at i:17043274 original size:29 final size:29
Alignment explanation
Indices: 17043224--17043287 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
17043214 AAATTTTAAC
*
17043224 ATTAAATTTAAATAATTTTATGTTAAAAA
1 ATTAAATTTAAATAATTATATGTTAAAAA
* * *
17043253 ATTAAATTT-AATTATTAATATGTTAGAAG
1 ATTAAATTTAAATAATT-ATATGTTAAAAA
17043282 ATTAAA
1 ATTAAA
17043288 AAATTAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (29 bp):
ATTAAATTTAAATAATTATATGTTAAAAA
Found at i:17043752 original size:60 final size:60
Alignment explanation
Indices: 17043659--17043786 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
17043649 ATCTGGTATC
* * * *
17043659 TGAACTTGACATTTTTTTCTAATTTGATACCTAAACTTTTTTTT-GACCCAATTTCGTACA
1 TGAACTTGACACTTTCTCCTAATTTGATACCTAAA-TTTTTTTTGGACCCAATTTAGTACA
* * * *
17043719 TGAACTTGACACTTTCTCCTAATTTGGTGCCTAAATTTTTTTTGGGCCCAATTTAGTACT
1 TGAACTTGACACTTTCTCCTAATTTGATACCTAAATTTTTTTTGGACCCAATTTAGTACA
17043779 TGAACTTG
1 TGAACTTG
17043787 GCATTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
59 8 0.14
60 51 0.86
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (60 bp):
TGAACTTGACACTTTCTCCTAATTTGATACCTAAATTTTTTTTGGACCCAATTTAGTACA
Found at i:17044350 original size:31 final size:32
Alignment explanation
Indices: 17044305--17044372 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
17044295 AAGATTAAGA
*
17044305 ACCAACTTAAG-AAAAAGTGTCAAGTTTAGGT
1 ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
* * * *
17044336 ACCAAGTTAGGAAAAAAGTATTAAGTTTGGGT
1 ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
17044368 ACCAA
1 ACCAA
17044373 ATTGGACAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.25
Consensus pattern (32 bp):
ACCAACTTAAGAAAAAAGTATCAAGTTTAGGT
Found at i:17044384 original size:32 final size:32
Alignment explanation
Indices: 17044316--17044422 Score: 89
Period size: 32 Copynumber: 3.5 Consensus size: 32
17044306 CCAACTTAAG
* *
17044316 AAAAAGTGTCAAGTTTAGGTACCAAGTTAGGA
1 AAAAAGTATCAAGTTTAGGTACCAAATTAGGA
* *
17044348 AAAAAGTATTAAGTTTGGGTACCAAATT-GGA
1 AAAAAGTATCAAGTTTAGGTACCAAATTAGGA
* * *
17044379 CAAAAA--A-AAAGTTTAAGTACCAAATTA-AA
1 -AAAAAGTATCAAGTTTAGGTACCAAATTAGGA
* *
17044408 AAAAAATGTCAAGTT
1 AAAAAGTATCAAGTT
17044423 CAAATACTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
28 5 0.08
29 17 0.28
30 1 0.02
31 8 0.13
32 29 0.48
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (32 bp):
AAAAAGTATCAAGTTTAGGTACCAAATTAGGA
Found at i:17045046 original size:13 final size:13
Alignment explanation
Indices: 17045028--17045054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17045018 CGGTGCTTTC
17045028 GTTAAATCTATTA
1 GTTAAATCTATTA
17045041 GTTAAATCTATTA
1 GTTAAATCTATTA
17045054 G
1 G
17045055 AAAAAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (13 bp):
GTTAAATCTATTA
Found at i:17054733 original size:44 final size:44
Alignment explanation
Indices: 17054679--17054770 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
17054669 TCGATGTAAC
* *
17054679 AGTAGCAGTACGACACACA-AGGTGCCTCATCGACTCGAAGTCGA
1 AGTAACAGTACGACACACATA-GTGCCTCATCGACTCAAAGTCGA
** *
17054723 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAAGTTGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGA
17054767 AGTA
1 AGTA
17054771 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAAGTCGA
Found at i:17063081 original size:40 final size:41
Alignment explanation
Indices: 17063037--17063152 Score: 173
Period size: 40 Copynumber: 2.9 Consensus size: 41
17063027 TTAAGTTACC
* *
17063037 ATAGTGAATAAGGAACAAATCCTATCCACTTTAAATAT-TT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
*
17063077 ATAGTGAATCAGGAACAAATCCTATTCACTTT-AATTTCTT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
* *
17063117 TTAGTGAATCAGGAATAAATCCTATTCACTTTAAAT
1 ATAGTGAATCAGGAACAAATCCTATTCACTTTAAAT
17063153 TCTCAAGAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.06
40 62 0.90
41 3 0.04
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (41 bp):
ATAGTGAATCAGGAACAAATCCTATTCACTTTAAATATCTT
Found at i:17071876 original size:28 final size:28
Alignment explanation
Indices: 17071836--17071894 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
17071826 GGTATGCTAC
17071836 ACAGTCTATGTCTAGGGATTGCACACAT
1 ACAGTCTATGTCTAGGGATTGCACACAT
17071864 ACAGTCTATGTCTAGGGATTGCACACAT
1 ACAGTCTATGTCTAGGGATTGCACACAT
17071892 ACA
1 ACA
17071895 CTGTAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (28 bp):
ACAGTCTATGTCTAGGGATTGCACACAT
Found at i:17076015 original size:17 final size:17
Alignment explanation
Indices: 17075995--17076028 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17075985 TTTTTAAAAA
17075995 CATCAAACGATTTTTCC
1 CATCAAACGATTTTTCC
*
17076012 CATCAAACGGTTTTTCC
1 CATCAAACGATTTTTCC
17076029 TATACTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.35
Consensus pattern (17 bp):
CATCAAACGATTTTTCC
Found at i:17078023 original size:43 final size:43
Alignment explanation
Indices: 17077975--17078135 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
17077965 CGAGATGTCA
17077975 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACG
* * *
17078018 TGTAAGACCATGTCTGAG-CTATTGGCATTGTTATT-CGATTTCG
1 TGTAAGACCATGTCTGGGAC-ATTGGCATTG-TATTGTGATTACG
* * * * **
17078061 TGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAATA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTGATTACG
* * *
17078104 TGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT
17078136 GAGTTTTATG
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 79 0.83
44 5 0.05
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACG
Found at i:17099208 original size:22 final size:22
Alignment explanation
Indices: 17099182--17099236 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
17099172 TTTCTAAAAT
17099182 TATGTTATATGATAAGCTCCGA
1 TATGTTATATGATAAGCTCCGA
* * *
17099204 TATGTTACATGATATGCTCTGA
1 TATGTTATATGATAAGCTCCGA
*
17099226 TATGTAATATG
1 TATGTTATATG
17099237 GTAGGAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (22 bp):
TATGTTATATGATAAGCTCCGA
Found at i:17101225 original size:3 final size:3
Alignment explanation
Indices: 17101217--17101314 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
17101207 CTTTTGTTCT
17101217 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17101265 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17101313 TT
1 TT
17101315 TTGTCGTTCT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17105160 original size:13 final size:12
Alignment explanation
Indices: 17105142--17105184 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
17105132 TTTTTTAATG
17105142 TTTATAGTAATAT
1 TTTATAGTAA-AT
17105155 TTTATAGTAAAT
1 TTTATAGTAAAT
*
17105167 TTTAGTAATAAAAT
1 TTTA-TAGT-AAAT
17105181 TTTA
1 TTTA
17105185 GATAGTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 6 0.22
13 13 0.48
14 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (12 bp):
TTTATAGTAAAT
Found at i:17114563 original size:27 final size:27
Alignment explanation
Indices: 17114525--17114576 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
17114515 ATCAGGATGT
17114525 TACAAACCCTAAGTATACGAACCCTTG
1 TACAAACCCTAAGTATACGAACCCTTG
* * *
17114552 TACAAACTCTAAGTGTGCGAACCCT
1 TACAAACCCTAAGTATACGAACCCT
17114577 GATGTGCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (27 bp):
TACAAACCCTAAGTATACGAACCCTTG
Found at i:17114772 original size:22 final size:22
Alignment explanation
Indices: 17114742--17114784 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17114732 TTATGCAAAC
* *
17114742 TTATTACATACGAATCCTAGGA
1 TTATGACATACGAACCCTAGGA
*
17114764 TTATGACATGCGAACCCTAGG
1 TTATGACATACGAACCCTAGG
17114785 TCATGCTATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (22 bp):
TTATGACATACGAACCCTAGGA
Found at i:17115310 original size:13 final size:14
Alignment explanation
Indices: 17115279--17115311 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17115269 ATTTTCTGCA
*
17115279 TAATTTTAATTATT
1 TAATGTTAATTATT
17115293 TAATGTTAATTA-T
1 TAATGTTAATTATT
17115306 TAATGT
1 TAATGT
17115312 GTTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TAATGTTAATTATT
Found at i:17120159 original size:26 final size:26
Alignment explanation
Indices: 17120104--17120161 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17120094 ACCTCGATTT
** *
17120104 GTAATATTATCAAAATACCCTTGTAGG
1 GTAA-ATTATCAAAATACCCCAGTAAG
*
17120131 GTAAATTATCGAAATACCCCAGTAAG
1 GTAAATTATCAAAATACCCCAGTAAG
17120157 GTAAA
1 GTAAA
17120162 ATGACGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (26 bp):
GTAAATTATCAAAATACCCCAGTAAG
Found at i:17120476 original size:50 final size:49
Alignment explanation
Indices: 17120413--17120603 Score: 204
Period size: 50 Copynumber: 3.8 Consensus size: 49
17120403 TATTCTGATT
* * * * *
17120413 ATGGCTTTGTGCCGATATGCTGATGAAGGCTTTGTGCCGATATGCTATTG
1 ATGGCTATATGCCGATATG-TTATGATGGCTTTGTGCCGATATGATATTG
* *
17120463 AAGGCT-TCATGCCGGTATGTTATTGATGGCTTTGTGCCGATATGATATTG
1 ATGGCTAT-ATGCCGATATGTTA-TGATGGCTTTGTGCCGATATGATATTG
* * *
17120513 ATGGCTATGTGCCGATTTGTTATCCATGGCTTTGTGCCGATATGATATTG
1 ATGGCTATATGCCGATATGTTAT-GATGGCTTTGTGCCGATATGATATTG
* * * *
17120563 ATGGCTATGTGCCGATCTGTTATCAATGGTTTTGTGCCGAT
1 ATGGCTATATGCCGATATGTTAT-GATGGCTTTGTGCCGAT
17120604 CGTATTATCG
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
49 4 0.03
50 118 0.96
51 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (49 bp):
ATGGCTATATGCCGATATGTTATGATGGCTTTGTGCCGATATGATATTG
Found at i:17120506 original size:75 final size:75
Alignment explanation
Indices: 17120413--17120578 Score: 199
Period size: 75 Copynumber: 2.2 Consensus size: 75
17120403 TATTCTGATT
* * **
17120413 ATGGCTTTGTGCCGATATGCTGA-TGAAGGCTTTGTGCCGATATGCTATTGAAGGCTTCATGCCG
1 ATGGCTTTGTGCCGATATGAT-ATTGAAGGCTATGTGCCGATATGCTATCCAAGGCTTCATGCCG
* *
17120477 GTATGTTATTG
65 ATATGATATTG
* * * * **
17120488 ATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATTTGTTATCCATGGCTTTGTGCCGA
1 ATGGCTTTGTGCCGATATGATATTGAAGGCTATGTGCCGATATGCTATCCAAGGCTTCATGCCGA
17120553 TATGATATTG
66 TATGATATTG
*
17120563 ATGGCTATGTGCCGAT
1 ATGGCTTTGTGCCGAT
17120579 CTGTTATCAA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
74 1 0.01
75 76 0.99
ACGTcount: A:0.19, C:0.16, G:0.28, T:0.37
Consensus pattern (75 bp):
ATGGCTTTGTGCCGATATGATATTGAAGGCTATGTGCCGATATGCTATCCAAGGCTTCATGCCGA
TATGATATTG
Found at i:17120604 original size:25 final size:25
Alignment explanation
Indices: 17120413--17120603 Score: 177
Period size: 25 Copynumber: 7.6 Consensus size: 25
17120403 TATTCTGATT
*
17120413 ATGGCTTTGTGCCGATATGCTGAT-G
1 ATGGCTTTGTGCCGATATGAT-ATCG
* * *
17120438 AAGGCTTTGTGCCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGATATCG
* ** * * *
17120463 AAGGCTTCATGCCGGTATGTTATTG
1 ATGGCTTTGTGCCGATATGATATCG
*
17120488 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGATATCG
* * * *
17120513 ATGGCTATGTGCCGATTTGTTATCC
1 ATGGCTTTGTGCCGATATGATATCG
*
17120538 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGATATCG
* * * *
17120563 ATGGCTATGTGCCGATCTGTTATCA
1 ATGGCTTTGTGCCGATATGATATCG
*
17120588 ATGGTTTTGTGCCGAT
1 ATGGCTTTGTGCCGAT
17120604 CGTATTATCG
Statistics
Matches: 138, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
24 2 0.01
25 136 0.99
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGATATCG
Found at i:17133528 original size:30 final size:30
Alignment explanation
Indices: 17133494--17133595 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
17133484 TGGTCTAAGG
*
17133494 ACACGCCCGTGTGGTCAGGCTGTGAACTAC
1 ACACGCCCGTGTGGTCAGGCTGTGTACTAC
*
17133524 ACACGCCCGTATGGTCAGGCTGTGTACTAC
1 ACACGCCCGTGTGGTCAGGCTGTGTACTAC
* * *
17133554 ATATGCCCGTGTGGTCAGGCCGTGTACTAC
1 ACACGCCCGTGTGGTCAGGCTGTGTACTAC
* *
17133584 ACATGCCTGTGT
1 ACACGCCCGTGT
17133596 AACTCTCTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (30 bp):
ACACGCCCGTGTGGTCAGGCTGTGTACTAC
Found at i:17140606 original size:16 final size:17
Alignment explanation
Indices: 17140585--17140620 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17140575 GTTAACAACC
*
17140585 TAATTTTCTATTTT-AT
1 TAATTTACTATTTTAAT
17140601 TAATTTACTATTTTAAT
1 TAATTTACTATTTTAAT
17140618 TAA
1 TAA
17140621 GATAGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTACTATTTTAAT
Found at i:17142902 original size:23 final size:24
Alignment explanation
Indices: 17142876--17142930 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
17142866 TAATTTATGT
17142876 ATTTTATAAATTTTAAAATT-TTA
1 ATTTTATAAATTTTAAAATTATTA
* * *
17142899 ATTTGATAATTTTTAAATTTATTA
1 ATTTTATAAATTTTAAAATTATTA
17142923 AGTTTTAT
1 A-TTTTAT
17142931 TTTTCTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTTATAAATTTTAAAATTATTA
Found at i:17147824 original size:20 final size:20
Alignment explanation
Indices: 17147795--17147884 Score: 128
Period size: 20 Copynumber: 4.5 Consensus size: 20
17147785 TTACACGGAT
* *
17147795 AAGG-CACACGAGCATGTGA
1 AAGGCCACACGAGCGTGTGG
17147814 AAGGCCACACGAGCGTGTGG
1 AAGGCCACACGAGCGTGTGG
17147834 AAGGCCACACGAGCGTGTGG
1 AAGGCCACACGAGCGTGTGG
* *
17147854 AAGGTCACGCGAGCGTGTGG
1 AAGGCCACACGAGCGTGTGG
*
17147874 AAGGTCACACG
1 AAGGCCACACG
17147885 GGCATGGGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
19 4 0.06
20 61 0.94
ACGTcount: A:0.28, C:0.23, G:0.38, T:0.11
Consensus pattern (20 bp):
AAGGCCACACGAGCGTGTGG
Found at i:17151502 original size:4 final size:4
Alignment explanation
Indices: 17151493--17151517 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17151483 CACGTATATA
17151493 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
17151518 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:17152505 original size:11 final size:11
Alignment explanation
Indices: 17152463--17152514 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
17152453 AAAGAAGTTT
*
17152463 AATAACAAT-A
1 AATAAAAATAA
17152473 AATAGAAAGATAAA
1 AATA-AAA-AT-AA
17152487 AATAAAAATAA
1 AATAAAAATAA
*
17152498 ACTAAAAATAA
1 AATAAAAATAA
17152509 AATAAA
1 AATAAA
17152515 GGAGATGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 4 0.11
11 19 0.54
12 4 0.11
13 3 0.09
14 5 0.14
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:17152505 original size:17 final size:16
Alignment explanation
Indices: 17152483--17152514 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
17152473 AATAGAAAGA
17152483 TAAAAATAAAAATAAAC
1 TAAAAAT-AAAATAAAC
17152500 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
17152515 GGAGATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAATAAAATAAAC
Found at i:17154216 original size:17 final size:17
Alignment explanation
Indices: 17154162--17154202 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17154152 AAAAGAATTA
17154162 AAAATAAACTA-ATAAAAT
1 AAAATAAA-TAGAT-AAAT
17154180 AAAATAAATAGATAAAT
1 AAAATAAATAGATAAAT
17154197 AAAATA
1 AAAATA
17154203 GAAAGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATAAATAGATAAAT
Found at i:17155334 original size:6 final size:6
Alignment explanation
Indices: 17155245--17155319 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
17155235 ATTGATTCCA
17155245 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
17155293 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
17155320 TTGGTTTTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:17157236 original size:30 final size:30
Alignment explanation
Indices: 17157202--17157266 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
17157192 GCACATGCTT
* *
17157202 GTGTGAGCCACACGGGCTGGCCACACGCCC
1 GTGTGAGCCACACAGGCTGGCCACACGCCA
*
17157232 GTGTGAGCCACACAGGCTGGCCACATGCCA
1 GTGTGAGCCACACAGGCTGGCCACACGCCA
17157262 GTGTG
1 GTGTG
17157267 CTAGCTCGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.34, G:0.34, T:0.14
Consensus pattern (30 bp):
GTGTGAGCCACACAGGCTGGCCACACGCCA
Done.