Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 268 of 279
Found at i:87378592 original size:32 final size:32
Alignment explanation
Indices: 87378524--87378604 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
87378514 TGAAATTAGT
*
87378524 TTGTTAGATTTTGAAATTATTATGTCTTAAAT
1 TTGTTAGATTTTGAAATTATTATGTCTTAAAC
* *
87378556 TTGTTAGATTTTGAATTTATTATGT-TTCAAGC
1 TTGTTAGATTTTGAAATTATTATGTCTT-AAAC
* *
87378588 TTGTTGGATATTGAAAT
1 TTGTTAGATTTTGAAAT
87378605 GATTGACAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 2 0.05
32 40 0.95
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (32 bp):
TTGTTAGATTTTGAAATTATTATGTCTTAAAC
Found at i:87380048 original size:19 final size:19
Alignment explanation
Indices: 87380003--87380040 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
87379993 CATCCGAACA
87380003 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
87380022 CTAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
87380041 TCCAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:87380051 original size:14 final size:15
Alignment explanation
Indices: 87380032--87380064 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
87380022 CTAGAAAAGT
87380032 AAATCATTTTCC-AA
1 AAATCATTTTCCGAA
87380046 AAATCATTTTCCGAA
1 AAATCATTTTCCGAA
87380061 AAAT
1 AAAT
87380065 GTTTTACTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATCATTTTCCGAA
Found at i:87382317 original size:16 final size:16
Alignment explanation
Indices: 87382298--87382328 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87382288 CTTCTTCACT
87382298 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
87382314 TACTTACTTACTTAA
1 TACTCACTTACTTAA
87382329 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:87382334 original size:20 final size:20
Alignment explanation
Indices: 87382295--87382334 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
87382285 AAACTTCTTC
* *
87382295 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
87382315 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
87382335 TTATCAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:87390428 original size:55 final size:53
Alignment explanation
Indices: 87390285--87390487 Score: 203
Period size: 55 Copynumber: 3.8 Consensus size: 53
87390275 ATCCTTTTGA
* * * * *
87390285 AACTTACCATTGCCATGTCTCGATATGGTCTTACATGGTATCATTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * * *
87390338 AACTCACCAATGCAATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
87390392 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
*
87390446 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTA
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA
87390488 TTCTTAAACC
Statistics
Matches: 122, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
52 1 0.01
53 43 0.35
54 8 0.07
55 68 0.56
56 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:87390443 original size:108 final size:110
Alignment explanation
Indices: 87390285--87390485 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
87390275 ATCCTTTTGA
* * * *
87390285 AACTTACCATTGCCATGTCTCGATATGGTCTTACATGGTATCATTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTA-GAAACCTCACCAA
87390348 -TGCAATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCAATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
87390393 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCAAT
*
87390458 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCAATGCCTTGGCATGGTCTTACATGG
87390486 TATTCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCATTACCTTAGAAACCTCACCAAT
TGCAATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:87394616 original size:42 final size:42
Alignment explanation
Indices: 87394570--87394679 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
87394560 TGCTAAACAA
* *
87394570 AAACCCATAAAAGTTGAACGGAAGCTC-ATAAAAGCTGAACGG
1 AAACCCATAAAAGTTAAACAGAAGCTCAAT-AAAGCTGAACGG
** * * *
87394612 AAACCCATAAGGGTTTAATAGAAGCTCAATAAAGCTGAATGG
1 AAACCCATAAAAGTTAAACAGAAGCTCAATAAAGCTGAACGG
* *
87394654 AAACTCAT-ATAGTTAAACAGAAGCTC
1 AAACCCATAAAAGTTAAACAGAAGCTC
87394680 GTGAGTGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 14 0.25
42 40 0.71
43 2 0.04
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (42 bp):
AAACCCATAAAAGTTAAACAGAAGCTCAATAAAGCTGAACGG
Found at i:87394620 original size:21 final size:21
Alignment explanation
Indices: 87394570--87394621 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
87394560 TGCTAAACAA
*
87394570 AAACCCATAAAAGTTGAACGG
1 AAACCCATAAAAGCTGAACGG
* *
87394591 AAGCTCATAAAAGCTGAACGG
1 AAACCCATAAAAGCTGAACGG
87394612 AAACCCATAA
1 AAACCCATAA
87394622 GGGTTTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.13
Consensus pattern (21 bp):
AAACCCATAAAAGCTGAACGG
Found at i:87400747 original size:20 final size:19
Alignment explanation
Indices: 87400724--87400787 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
87400714 TTTTGTAGGG
*
87400724 TTTTGAGGTTTTTTTATAT
1 TTTTTAGGTTTTTTTATAT
* *
87400743 TTTTTAAGTTTATTATATAT
1 TTTTTAGGTTT-TTTTATAT
*
87400763 TCTTTA-GTCTTTTTTATAAT
1 TTTTTAGGT-TTTTTTAT-AT
87400783 TTTTT
1 TTTTT
87400788 GAGAAGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTTTAGGTTTTTTTATAT
Found at i:87403470 original size:47 final size:49
Alignment explanation
Indices: 87403391--87403534 Score: 139
Period size: 50 Copynumber: 2.9 Consensus size: 49
87403381 AAAAGGTGGA
* ** * * *
87403391 AGTATGTGGCAGTTTATCTGTAAATCAATGGTGGCTTGTCGACAAAATGTT
1 AGTA-GTGGCAGTATATCTAAAAAT-AGTGGTGGCTTGTCCACAAAATCTT
* *
87403442 -GTAGTGGTAGTATATCTAAAAAT-GTGGTGGCTTGTCCACAAAGTCTT
1 AGTAGTGGCAGTATATCTAAAAATAGTGGTGGCTTGTCCACAAAATCTT
* * **
87403489 ATTAGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAA
1 AGTAGTGGCAGTATATCTAAAAAT-AGTGGTGGCTTGTCCACAAAA
87403535 GGTGTTTCGA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
47 20 0.26
48 18 0.24
49 16 0.21
50 22 0.29
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (49 bp):
AGTAGTGGCAGTATATCTAAAAATAGTGGTGGCTTGTCCACAAAATCTT
Found at i:87403525 original size:50 final size:49
Alignment explanation
Indices: 87403396--87403534 Score: 165
Period size: 47 Copynumber: 2.9 Consensus size: 49
87403386 GTGGAAGTAT
* * * *
87403396 GTGGCAGTTTATCTGTAAATCAATGGTGGCTTGTCGACAAAATGTTGTA
1 GTGGCAGTTTATCTGAAAATCAGTGGTGGCTTGTCCACAAAATCTTGTA
* * * * *
87403445 GTGGTAGTATATCTAAAAAT--GTGGTGGCTTGTCCACAAAGTCTTATTA
1 GTGGCAGTTTATCTGAAAATCAGTGGTGGCTTGTCCACAAAATCTT-GTA
*
87403493 GTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAA
1 GTGGCAGTTTATCTGAAAATCAGTGGTGGCTTGTCCACAAAA
87403535 GGTGTTTCGA
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
47 20 0.27
48 18 0.25
49 16 0.22
50 19 0.26
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (49 bp):
GTGGCAGTTTATCTGAAAATCAGTGGTGGCTTGTCCACAAAATCTTGTA
Found at i:87403776 original size:23 final size:24
Alignment explanation
Indices: 87403745--87403795 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
87403735 CTTGATCTCA
*
87403745 CACTGGGCCC-TTTAAAGCTCACC
1 CACTAGGCCCTTTTAAAGCTCACC
*
87403768 CACTAGGCCCTTTTAAAGTTCACC
1 CACTAGGCCCTTTTAAAGCTCACC
87403792 CACT
1 CACT
87403796 TTACTTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.24, C:0.37, G:0.14, T:0.25
Consensus pattern (24 bp):
CACTAGGCCCTTTTAAAGCTCACC
Found at i:87406800 original size:27 final size:28
Alignment explanation
Indices: 87406716--87406813 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
87406706 CATGAGATTG
* * * *
87406716 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
87406745 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
87406773 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
87406800 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
87406814 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:87406824 original size:27 final size:27
Alignment explanation
Indices: 87406744--87406826 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
87406734 TAAATTGTAC
* *
87406744 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
87406772 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
87406799 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
87406826 A
1 A
87406827 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:87406827 original size:29 final size:27
Alignment explanation
Indices: 87406716--87406827 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
87406706 CATGAGATTG
** * *
87406716 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
87406745 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
87406773 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
87406800 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
87406828 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:87413425 original size:46 final size:46
Alignment explanation
Indices: 87413358--87413479 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
87413348 TGTGTGCCAA
*
87413358 TGTAAGACATGTCTGAGACATGCATCAGCCACATT-ACGAGA-TCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCA-ATTGACGAGAGT-TAG
* *
87413404 TGTAAGACATGTTTGGGACATGCATCAG--ATTTGAGACGAGAGTTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCAATT--GACGAGAGTTAG
*
87413450 TGTAAGACATGTCTAGGACATGCATCAGCC
1 TGTAAGACATGTCTGGGACATGCATCAGCC
87413480 TTGAGATATA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
46 61 0.94
47 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCAATTGACGAGAGTTAG
Found at i:87417431 original size:28 final size:28
Alignment explanation
Indices: 87417395--87417497 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
87417385 TGGCCCCTTT
* *
87417395 AGGCCCAATCTCATTCATATGGCCTATT
1 AGGCCCAATCACATTCATATGGCCTATC
*
87417423 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCTATC
* * *
87417451 AAGCCCAATCACTTTCATATGGCCTGTC
1 AGGCCCAATCACATTCATATGGCCTATC
*
87417479 AGGCCCAATCACACTCATA
1 AGGCCCAATCACATTCATA
87417498 GTCATGCAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCTATC
Found at i:87417734 original size:16 final size:16
Alignment explanation
Indices: 87417713--87417746 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87417703 CCAAACTTCT
87417713 GGCTTTTCAACATTTC
1 GGCTTTTCAACATTTC
**
87417729 GGCTTTTCGGCATTTC
1 GGCTTTTCAACATTTC
87417745 GG
1 GG
87417747 AATTTGTCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (16 bp):
GGCTTTTCAACATTTC
Found at i:87425944 original size:24 final size:23
Alignment explanation
Indices: 87425917--87425967 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
87425907 TTTTCTCTTA
*
87425917 AATTTT-AATTTTATTCTAATAATT
1 AATTTTCAA-TTTATT-GAATAATT
87425941 AATTTTTCAATTTATTGAATAATT
1 AA-TTTTCAATTTATTGAATAATT
87425965 AAT
1 AAT
87425968 AATTATTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.04
24 11 0.46
25 10 0.42
26 2 0.08
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTTTCAATTTATTGAATAATT
Found at i:87427638 original size:27 final size:27
Alignment explanation
Indices: 87427608--87427785 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
87427598 ATATTGAGTC
* * * *
87427608 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
87427635 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87427662 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
87427690 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
87427717 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
87427744 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
87427771 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87427786 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:87427747 original size:82 final size:81
Alignment explanation
Indices: 87427629--87427784 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
87427619 TGCTATATAA
* *
87427629 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
87427694 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
87427711 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
87427775 CACTTAGTGC
65 CACTTAGTGC
87427785 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:87442806 original size:20 final size:20
Alignment explanation
Indices: 87442759--87442806 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
87442749 CCAAGTTGTA
*
87442759 CACATGACATGTATGATATG
1 CACATGATATGTATGATATG
87442779 CACATGATATGTATGATATG
1 CACATGATATGTATGATATG
87442799 CACATGAT
1 CACATGAT
87442807 GTATTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
CACATGATATGTATGATATG
Found at i:87442882 original size:24 final size:24
Alignment explanation
Indices: 87442855--87442983 Score: 215
Period size: 24 Copynumber: 5.4 Consensus size: 24
87442845 GGGGGAAGTG
87442855 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
87442879 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87442903 CAAAAGGGCTTATGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
87442927 AAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
87442950 CTAAAAGGGCTTATGCCCCAGTTAT
1 C-AAAAGGGCTTATGCCCCAGTTAT
*
87442975 TAAAAGGGC
1 CAAAAGGGC
87442984 ACCTTAGTAT
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:87443159 original size:46 final size:46
Alignment explanation
Indices: 87443109--87443281 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
87443099 TTGGGCATCC
*
87443109 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
*** * * ** *
87443155 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACGTCT
* * * * *
87443202 GAGCTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* *
87443248 GAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87443282 GTGGGTTACA
Statistics
Matches: 100, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 66 0.66
47 34 0.34
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:87443261 original size:93 final size:93
Alignment explanation
Indices: 87443102--87443273 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
87443092 AGGATGTTTG
* * * *
87443102 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
87443167 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
87443195 GGCATCTGAGCTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
87443260 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
87443274 ACTTATGGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:87446287 original size:14 final size:15
Alignment explanation
Indices: 87446238--87446287 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
87446228 GTATCTTGGG
*
87446238 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
87446253 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
87446268 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
87446282 TTTCTT
1 TTTCTT
87446288 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:87449686 original size:22 final size:22
Alignment explanation
Indices: 87449591--87449673 Score: 130
Period size: 22 Copynumber: 3.8 Consensus size: 22
87449581 TGAATAGTAC
87449591 CACACGCCCGTGTGGCTTGTGT
1 CACACGCCCGTGTGGCTTGTGT
87449613 CACACGCCCGTGTGGCTTGTGT
1 CACACGCCCGTGTGGCTTGTGT
* *
87449635 CACACGCCCGTGTGACTTGTAT
1 CACACGCCCGTGTGGCTTGTGT
* *
87449657 GAAACGCCCGTGTGGCT
1 CACACGCCCGTGTGGCT
87449674 GATGTGACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.25
Consensus pattern (22 bp):
CACACGCCCGTGTGGCTTGTGT
Found at i:87451918 original size:19 final size:20
Alignment explanation
Indices: 87451884--87451921 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
87451874 AGTCCTTACA
87451884 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
87451904 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
87451922 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:87453395 original size:47 final size:46
Alignment explanation
Indices: 87453261--87453427 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
87453251 GTTATTGTTG
* * *
87453261 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAAACG-TAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATGATAA
* *
87453307 G-TCAGTGTAAGACATGTCTGAGACATGCATCGGCTACGAGATGAT-A
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGATGATAA
* *
87453353 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATGATAA
*
87453400 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
87453428 GCATTGGCAC
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
45 4 0.04
46 47 0.44
47 47 0.44
48 8 0.08
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATGATAA
Found at i:87455289 original size:43 final size:43
Alignment explanation
Indices: 87455133--87455291 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
87455123 CAATACCATA
* ** * * * *
87455133 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCGATAG
1 TCCCAGACATGGTCTTACACATAATCACATAACAATGCCAAT-G
* * * *
87455177 -CCCAG-CTATGTTCTTACACGA-AATCAAATAACAATGTCAATT
1 TCCCAGAC-ATGGTCTTACAC-ATAATCACATAACAATGCCAATG
**
87455219 TCCCAGACATGGTCTTACACATAATCACATAATGATGCCAATG
1 TCCCAGACATGGTCTTACACATAATCACATAACAATGCCAATG
*
87455262 TCCCCGACATGGTCTTACACATAATCACAT
1 TCCCAGACATGGTCTTACACATAATCACAT
87455292 CTCGTTAATC
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 90 0.98
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCACATAACAATGCCAATG
Found at i:87458093 original size:48 final size:48
Alignment explanation
Indices: 87457960--87458082 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
87457950 ATGTGAGAGC
* * * *
87457960 TCTTTTCAAAGAATATGTGAACTGTCACTGTAATGTATGTGTGAATTA
1 TCTTTTCAAAGAATATGCGAACTGTCAATGTAATGTATATGTGAACTA
*
87458008 TCTTTTCAAA-AAGTATGCGAACTATCAATGTAATGTATATGTGAACTA
1 TCTTTTCAAAGAA-TATGCGAACTGTCAATGTAATGTATATGTGAACTA
* * *
87458056 TCTTTTCAAAGGATATGCAAATTGTCA
1 TCTTTTCAAAGAATATGCGAACTGTCA
87458083 TTATATTGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 61 0.95
49 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (48 bp):
TCTTTTCAAAGAATATGCGAACTGTCAATGTAATGTATATGTGAACTA
Found at i:87462298 original size:18 final size:19
Alignment explanation
Indices: 87462263--87462305 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
87462253 GAAAAACAAA
* *
87462263 TGAAAGAAAAAGCTGAAATC
1 TGAAAAAAAAAGC-GAAAAC
87462283 TGAAAAAAAAAG-GAAAAC
1 TGAAAAAAAAAGCGAAAAC
87462301 TGAAA
1 TGAAA
87462306 GGACAGTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (19 bp):
TGAAAAAAAAAGCGAAAAC
Found at i:87466616 original size:53 final size:53
Alignment explanation
Indices: 87466551--87466853 Score: 227
Period size: 53 Copynumber: 5.5 Consensus size: 53
87466541 TCATTATGGT
87466551 GGGATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
* * * * * * * *
87466604 GGGATTATCAGTCCATGTTAAATCCCTTAC-AATGACATACACTCTCATAAGT-TCGGATC
1 GGGATTACCAGTCCAGGCTAAATCCC--CCGTAT--CATA-ACTCACA-GAGTGT-TG-TC
* *
87466663 TGAATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
* * * * * * * *
87466716 GGGATTATCAGTCCATGTTAAATCCCTTAC-AATGACATACACTCTCATAAGT-TCGGATC
1 GGGATTACCAGTCCAGGCTAAATCCC--CCGTAT--CATA-ACTCACA-GAGTGT-TG-TC
* *
87466775 TGAATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
* * *
87466828 GGGATTATCAGTCCATGTTAAATCCC
1 GGGATTACCAGTCCAGGCTAAATCCC
87466854 TTACAATGAC
Statistics
Matches: 187, Mismatches: 43, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
53 69 0.37
54 12 0.06
55 16 0.09
56 16 0.09
57 16 0.09
58 12 0.06
59 46 0.25
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (53 bp):
GGGATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTC
Found at i:87466751 original size:112 final size:112
Alignment explanation
Indices: 87466554--87466909 Score: 712
Period size: 112 Copynumber: 3.2 Consensus size: 112
87466544 TTATGGTGGG
87466554 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
1 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
87466619 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
66 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
87466666 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
1 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
87466731 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
66 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
87466778 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
1 ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
87466843 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
66 TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
87466890 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
87466910 TCAGTCCTTA
Statistics
Matches: 244, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 244 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (112 bp):
ATTACCAGTCCAGGCTAAATCCCCCGTATCATAACTCACAGAGTGTTGTCGGGATTATCAGTCCA
TGTTAAATCCCTTACAATGACATACACTCTCATAAGTTCGGATCTGA
Found at i:87475253 original size:46 final size:46
Alignment explanation
Indices: 87475184--87475284 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
87475174 GAAAAAAGTT
* *
87475184 ATTGTGAATGTGGTTGTTCAAATTGGAATTGAGTATATGTGTTTGA
1 ATTGTGAATGTGGTTGTTCAAATTAGAATTGAGCATATGTGTTTGA
* * *
87475230 ATTGTGAATGTGGTTGTTGAAATTAGAATTGGGCCTATGTGTTTGA
1 ATTGTGAATGTGGTTGTTCAAATTAGAATTGAGCATATGTGTTTGA
87475276 ATTGTGAAT
1 ATTGTGAAT
87475285 TAGATTGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.43
Consensus pattern (46 bp):
ATTGTGAATGTGGTTGTTCAAATTAGAATTGAGCATATGTGTTTGA
Found at i:87476316 original size:28 final size:29
Alignment explanation
Indices: 87476285--87476339 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
87476275 GATTTTGAAT
*
87476285 AAAAATGCATATT-AGGGATTAAATTGAC
1 AAAAATGCAAATTGAGGGATTAAATTGAC
* * *
87476313 AAAAGTGTAAATTGAGGGGTTAAATTG
1 AAAAATGCAAATTGAGGGATTAAATTG
87476340 TGAAATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 10 0.45
29 12 0.55
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.29
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAC
Found at i:87478066 original size:46 final size:46
Alignment explanation
Indices: 87478009--87478147 Score: 253
Period size: 46 Copynumber: 3.0 Consensus size: 46
87477999 CATCCGAACC
87478009 CGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCT
1 CGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCT
87478055 CGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCT
1 CGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCT
*
87478101 CGTTGAGTTGAGTCCGAGTTCAC-CTATGGATGCGAACGCCTGAGCT
1 CGTTGAGTTGAGTCCGAGTTCACTC-ATGGATGCGAACGCCCGAGCT
87478147 C
1 C
87478148 TAGCTAATCC
Statistics
Matches: 91, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
45 1 0.01
46 90 0.99
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.24
Consensus pattern (46 bp):
CGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCT
Found at i:87479166 original size:43 final size:43
Alignment explanation
Indices: 87479022--87479172 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
87479012 TGTTACCGAA
* * *
87479022 ATGTGATTACATGTAATACCATGTCTGGGACATTGGCATTGCAT
1 ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATCG-AT
* * *
87479066 -TTTGA-ATACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATA-ACATGTAAGACCATGTCTGGGACATTGGCATCGAT
** * * * *
87479108 AT-TCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCGTCGAT
1 ATGT-GATAACATGTAAGACCATGTCTGGGACATTGGCATCGAT
87479151 ATGTGATAACATGTAAGACCAT
1 ATGTGATAACATGTAAGACCAT
87479173 ATTTGGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 83 0.97
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATAACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:87481415 original size:833 final size:833
Alignment explanation
Indices: 87479810--87481475 Score: 3332
Period size: 833 Copynumber: 2.0 Consensus size: 833
87479800 ATAGCCAAAT
87479810 AATTGTTATTTGGTTAATTAGTAGATGATTATTAATGCTTGGAAGATTGGCTTATTGTGGTTTGA
1 AATTGTTATTTGGTTAATTAGTAGATGATTATTAATGCTTGGAAGATTGGCTTATTGTGGTTTGA
87479875 TTTTGAGATAGAGATATGGTGCAATTGGTGTCATGAAATAGAGGATAAGTTGATGAGTAAATGCA
66 TTTTGAGATAGAGATATGGTGCAATTGGTGTCATGAAATAGAGGATAAGTTGATGAGTAAATGCA
87479940 TTTGGAAATTAGATAAGTTGTGATGATTTTGGCATAATGATTTGGTATGTTTGAATATGGAATTG
131 TTTGGAAATTAGATAAGTTGTGATGATTTTGGCATAATGATTTGGTATGTTTGAATATGGAATTG
87480005 AGTGGTTGAAATGTTTTTGAATAGATGTCATGATATGTGTAACACCCCCAACCCGTATCCATCGT
196 AGTGGTTGAAATGTTTTTGAATAGATGTCATGATATGTGTAACACCCCCAACCCGTATCCATCGT
87480070 CAGATTAGAGTTATGAGGCATTACTGAACAAAAACATAATCCCTGTAACACCCCAAACCTGGCCT
261 CAGATTAGAGTTATGAGGCATTACTGAACAAAAACATAATCCCTGTAACACCCCAAACCTGGCCT
87480135 AGACGTCATGGCCGAATCTGACGTGCCACATTGGAGTTGAAAACCCATGTTCGGTTTAGTGTTTT
326 AGACGTCATGGCCGAATCTGACGTGCCACATTGGAGTTGAAAACCCATGTTCGGTTTAGTGTTTT
87480200 AAAAACCATATATCTTGTTGAGTTAACAAAGTGAATGGAAGCTGGGCACCAGGTAGGTATCCAAG
391 AAAAACCATATATCTTGTTGAGTTAACAAAGTGAATGGAAGCTGGGCACCAGGTAGGTATCCAAG
87480265 ACAGAGGAGGTGAGCCATGAAGGTTGCTTAAGTACCAAGCTCTTCAGTTGGATCCAATCCTAGAC
456 ACAGAGGAGGTGAGCCATGAAGGTTGCTTAAGTACCAAGCTCTTCAGTTGGATCCAATCCTAGAC
87480330 ATGCCCACAACCATTGCCACACTTTGTTATATCGAGTTTAAATTTGTTTAAGTGGACCTCTTTGA
521 ATGCCCACAACCATTGCCACACTTTGTTATATCGAGTTTAAATTTGTTTAAGTGGACCTCTTTGA
87480395 TTAATCGAATAATCGTGGTGTTGTGATATTTTGAAATCAAGTATCGTTTTGAAATCACGTCCTAA
586 TTAATCGAATAATCGTGGTGTTGTGATATTTTGAAATCAAGTATCGTTTTGAAATCACGTCCTAA
87480460 GTCTAGCCCATTTGAATAATTATCAACCAATTTTAAAGTTATTAAAAATAAAATAATCCCGAAAA
651 GTCTAGCCCATTTGAATAATTATCAACCAATTTTAAAGTTATTAAAAATAAAATAATCCCGAAAA
87480525 GAAGTAAAAAAAAAGTTAAAATGGCCTTATTACAACCCAAGAATAAATAATAATTAAAGAAAAAT
716 GAAGTAAAAAAAAAGTTAAAATGGCCTTATTACAACCCAAGAATAAATAATAATTAAAGAAAAAT
87480590 TAAAGAAAACCAATGCTTATTTAAAAGCCCAAAGGCGATCACCGTGGCCACTC
781 TAAAGAAAACCAATGCTTATTTAAAAGCCCAAAGGCGATCACCGTGGCCACTC
87480643 AATTGTTATTTGGTTAATTAGTAGATGATTATTAATGCTTGGAAGATTGGCTTATTGTGGTTTGA
1 AATTGTTATTTGGTTAATTAGTAGATGATTATTAATGCTTGGAAGATTGGCTTATTGTGGTTTGA
87480708 TTTTGAGATAGAGATATGGTGCAATTGGTGTCATGAAATAGAGGATAAGTTGATGAGTAAATGCA
66 TTTTGAGATAGAGATATGGTGCAATTGGTGTCATGAAATAGAGGATAAGTTGATGAGTAAATGCA
87480773 TTTGGAAATTAGATAAGTTGTGATGATTTTGGCATAATGATTTGGTATGTTTGAATATGGAATTG
131 TTTGGAAATTAGATAAGTTGTGATGATTTTGGCATAATGATTTGGTATGTTTGAATATGGAATTG
87480838 AGTGGTTGAAATGTTTTTGAATAGATGTCATGATATGTGTAACACCCCCAACCCGTATCCATCGT
196 AGTGGTTGAAATGTTTTTGAATAGATGTCATGATATGTGTAACACCCCCAACCCGTATCCATCGT
87480903 CAGATTAGAGTTATGAGGCATTACTGAACAAAAACATAATCCCTGTAACACCCCAAACCTGGCCT
261 CAGATTAGAGTTATGAGGCATTACTGAACAAAAACATAATCCCTGTAACACCCCAAACCTGGCCT
87480968 AGACGTCATGGCCGAATCTGACGTGCCACATTGGAGTTGAAAACCCATGTTCGGTTTAGTGTTTT
326 AGACGTCATGGCCGAATCTGACGTGCCACATTGGAGTTGAAAACCCATGTTCGGTTTAGTGTTTT
87481033 AAAAACCATATATCTTGTTGAGTTAACAAAGTGAATGGAAGCTGGGCACCAGGTAGGTATCCAAG
391 AAAAACCATATATCTTGTTGAGTTAACAAAGTGAATGGAAGCTGGGCACCAGGTAGGTATCCAAG
87481098 ACAGAGGAGGTGAGCCATGAAGGTTGCTTAAGTACCAAGCTCTTCAGTTGGATCCAATCCTAGAC
456 ACAGAGGAGGTGAGCCATGAAGGTTGCTTAAGTACCAAGCTCTTCAGTTGGATCCAATCCTAGAC
87481163 ATGCCCACAACCATTGCCACACTTTGTTATATCGAGTTTAAATTTGTTTAAGTGGACCTCTTTGA
521 ATGCCCACAACCATTGCCACACTTTGTTATATCGAGTTTAAATTTGTTTAAGTGGACCTCTTTGA
87481228 TTAATCGAATAATCGTGGTGTTGTGATATTTTGAAATCAAGTATCGTTTTGAAATCACGTCCTAA
586 TTAATCGAATAATCGTGGTGTTGTGATATTTTGAAATCAAGTATCGTTTTGAAATCACGTCCTAA
87481293 GTCTAGCCCATTTGAATAATTATCAACCAATTTTAAAGTTATTAAAAATAAAATAATCCCGAAAA
651 GTCTAGCCCATTTGAATAATTATCAACCAATTTTAAAGTTATTAAAAATAAAATAATCCCGAAAA
87481358 GAAGTAAAAAAAAAGTTAAAATGGCCTTATTACAACCCAAGAATAAATAATAATTAAAGAAAAAT
716 GAAGTAAAAAAAAAGTTAAAATGGCCTTATTACAACCCAAGAATAAATAATAATTAAAGAAAAAT
87481423 TAAAGAAAACCAATGCTTATTTAAAAGCCCAAAGGCGATCACCGTGGCCACTC
781 TAAAGAAAACCAATGCTTATTTAAAAGCCCAAAGGCGATCACCGTGGCCACTC
87481476 TGAATCCCCT
Statistics
Matches: 833, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
833 833 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (833 bp):
AATTGTTATTTGGTTAATTAGTAGATGATTATTAATGCTTGGAAGATTGGCTTATTGTGGTTTGA
TTTTGAGATAGAGATATGGTGCAATTGGTGTCATGAAATAGAGGATAAGTTGATGAGTAAATGCA
TTTGGAAATTAGATAAGTTGTGATGATTTTGGCATAATGATTTGGTATGTTTGAATATGGAATTG
AGTGGTTGAAATGTTTTTGAATAGATGTCATGATATGTGTAACACCCCCAACCCGTATCCATCGT
CAGATTAGAGTTATGAGGCATTACTGAACAAAAACATAATCCCTGTAACACCCCAAACCTGGCCT
AGACGTCATGGCCGAATCTGACGTGCCACATTGGAGTTGAAAACCCATGTTCGGTTTAGTGTTTT
AAAAACCATATATCTTGTTGAGTTAACAAAGTGAATGGAAGCTGGGCACCAGGTAGGTATCCAAG
ACAGAGGAGGTGAGCCATGAAGGTTGCTTAAGTACCAAGCTCTTCAGTTGGATCCAATCCTAGAC
ATGCCCACAACCATTGCCACACTTTGTTATATCGAGTTTAAATTTGTTTAAGTGGACCTCTTTGA
TTAATCGAATAATCGTGGTGTTGTGATATTTTGAAATCAAGTATCGTTTTGAAATCACGTCCTAA
GTCTAGCCCATTTGAATAATTATCAACCAATTTTAAAGTTATTAAAAATAAAATAATCCCGAAAA
GAAGTAAAAAAAAAGTTAAAATGGCCTTATTACAACCCAAGAATAAATAATAATTAAAGAAAAAT
TAAAGAAAACCAATGCTTATTTAAAAGCCCAAAGGCGATCACCGTGGCCACTC
Found at i:87481797 original size:24 final size:24
Alignment explanation
Indices: 87481629--87481796 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
87481619 GCTTTATCAT
*
87481629 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
87481654 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
87481678 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
87481702 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
87481726 GTAACTGGGGCATAAGCTCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
87481750 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
87481774 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87481797 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
24 121 0.91
25 12 0.09
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:87481871 original size:20 final size:20
Alignment explanation
Indices: 87481846--87481912 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
87481836 TTATGAATAC
87481846 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87481866 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87481886 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87481906 ACCATGT
1 ATCATGT
87481913 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87481877 original size:11 final size:11
Alignment explanation
Indices: 87481846--87481901 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
87481836 TTATGAATAC
87481846 ATCATGTGCAT
1 ATCATGTGCAT
*
87481857 ATCA--TACAT
1 ATCATGTGCAT
87481866 ATCATGTGCAT
1 ATCATGTGCAT
*
87481877 ATCA--TACAT
1 ATCATGTGCAT
*
87481886 GTCATGTGCAT
1 ATCATGTGCAT
87481897 ATCAT
1 ATCAT
87481902 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:87481981 original size:25 final size:25
Alignment explanation
Indices: 87481949--87481996 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87481939 ATATATAAAC
* * *
87481949 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
87481974 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87481997 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:87489118 original size:9 final size:9
Alignment explanation
Indices: 87489104--87489141 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
87489094 AATAATCCCG
87489104 AAAAGAAGT
1 AAAAGAAGT
87489113 AAAAGAAGT
1 AAAAGAAGT
87489122 AAAAGAAGT
1 AAAAGAAGT
87489131 AAAAGAA-T
1 AAAAGAAGT
87489139 AAA
1 AAA
87489142 TAATAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (9 bp):
AAAAGAAGT
Found at i:87489811 original size:24 final size:24
Alignment explanation
Indices: 87489619--87489810 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
87489609 GCTTTATCAT
*
87489619 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
87489644 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
87489668 ATAACTGGGGCATAAACCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
87489692 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
87489716 GTAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* *
87489740 ATAACTGAGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
87489764 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
87489788 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87489811 GCACTTCCCC
Statistics
Matches: 155, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
24 143 0.92
25 12 0.08
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:87489885 original size:20 final size:20
Alignment explanation
Indices: 87489860--87489926 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
87489850 TTATGAATAC
87489860 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87489880 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
87489900 GTCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
*
87489920 ACCATGT
1 ATCATGT
87489927 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87489995 original size:25 final size:25
Alignment explanation
Indices: 87489963--87490010 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87489953 ATATATAAAC
* * *
87489963 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
87489988 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87490011 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:87490312 original size:21 final size:20
Alignment explanation
Indices: 87490280--87490318 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
87490270 GGGCCTGAAA
*
87490280 GCCCATTGGGCCCCACTTCG
1 GCCCATTGGGCCCAACTTCG
*
87490300 GCCCCTTGAGGCCCAACTT
1 GCCCATTG-GGCCCAACTT
87490319 ACCGTGAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.13, C:0.44, G:0.23, T:0.21
Consensus pattern (20 bp):
GCCCATTGGGCCCAACTTCG
Found at i:87493255 original size:35 final size:35
Alignment explanation
Indices: 87493216--87493317 Score: 132
Period size: 35 Copynumber: 2.9 Consensus size: 35
87493206 CGATATGGCT
*
87493216 GAATATACAAATTCAATATAACCTCACATGTAATC
1 GAATATACAAATTCAATATAACCTCACATGTAACC
* * * * *
87493251 GAATATACAAGTTCAATATAACTTCACAAGCAGCC
1 GAATATACAAATTCAATATAACCTCACATGTAACC
* *
87493286 GAATATACAAACTCAATATGACCTCACATGTA
1 GAATATACAAATTCAATATAACCTCACATGTA
87493318 CATACTTGTG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (35 bp):
GAATATACAAATTCAATATAACCTCACATGTAACC
Found at i:87498353 original size:11 final size:12
Alignment explanation
Indices: 87498328--87498357 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
87498318 TTCAACATAT
87498328 AAATAAAGATAA
1 AAATAAAGATAA
87498340 AAATAAAG-TAA
1 AAATAAAGATAA
87498351 AAATAAA
1 AAATAAA
87498358 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (12 bp):
AAATAAAGATAA
Found at i:87504534 original size:40 final size:40
Alignment explanation
Indices: 87504479--87504598 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
87504469 TGGGAAAAAA
87504479 ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
1 ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
87504519 ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
1 ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
* *
87504559 ATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
87504599 GTTACATCCG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
ATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
Found at i:87516220 original size:41 final size:41
Alignment explanation
Indices: 87516163--87516247 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
87516153 ATTTCCCATG
*
87516163 TTAGTCTATTTTCTCCATTTGCAGCCCGTTTCTCGTTCTTT
1 TTAGTCTATTTTCTCCATTTGCAGCCCGTTTCTCGCTCTTT
**
87516204 TTAGTCTATTTTCTCCATTTTTAGCCCGTTTCTCGCTCTTT
1 TTAGTCTATTTTCTCCATTTGCAGCCCGTTTCTCGCTCTTT
87516245 TTA
1 TTA
87516248 CTCTTTTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.53
Consensus pattern (41 bp):
TTAGTCTATTTTCTCCATTTGCAGCCCGTTTCTCGCTCTTT
Found at i:87516245 original size:21 final size:21
Alignment explanation
Indices: 87516185--87516247 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
87516175 CTCCATTTGC
*
87516185 AGCCCGTTTCTCGTTCTTTTT
1 AGCCCGTTTCTCGCTCTTTTT
*** *
87516206 AGTCTATTTTCTC-C-ATTTTT
1 AG-CCCGTTTCTCGCTCTTTTT
87516226 AGCCCGTTTCTCGCTCTTTTT
1 AGCCCGTTTCTCGCTCTTTTT
87516247 A
1 A
87516248 CTCTTTTATG
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 8 0.27
22 7 0.23
ACGTcount: A:0.10, C:0.27, G:0.11, T:0.52
Consensus pattern (21 bp):
AGCCCGTTTCTCGCTCTTTTT
Found at i:87525086 original size:24 final size:25
Alignment explanation
Indices: 87525056--87525102 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
87525046 GATAATATGA
* *
87525056 AAAATGACTATT-TTCCCTTAGGTG
1 AAAATGACCATTATACCCTTAGGTG
87525080 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCTTAGG
87525103 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (25 bp):
AAAATGACCATTATACCCTTAGGTG
Found at i:87525154 original size:10 final size:11
Alignment explanation
Indices: 87525139--87525188 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
87525129 ATTTTGGTAT
*
87525139 ACATGATTTG-
1 ACATGATATGC
87525149 ACATGATATGC
1 ACATGATATGC
87525160 ACATGATATG-
1 ACATGATATGC
*
87525170 -TATGATATGC
1 ACATGATATGC
87525180 ACATGATAT
1 ACATGATAT
87525189 ATTCATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.26
11 17 0.50
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (11 bp):
ACATGATATGC
Found at i:87525176 original size:20 final size:20
Alignment explanation
Indices: 87525151--87525188 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
87525141 ATGATTTGAC
87525151 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
87525171 ATGATATGCACATGATAT
1 ATGATATGCACATGATAT
87525189 ATTCATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:87530491 original size:40 final size:40
Alignment explanation
Indices: 87530407--87530590 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
87530397 TTGAATGCTG
* * * *
87530407 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
87530446 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
87530487 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
87530527 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
87530567 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
87530591 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:87530544 original size:80 final size:81
Alignment explanation
Indices: 87530407--87530587 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
87530397 TTGAATGCTG
* *
87530407 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
87530471 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
87530487 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
87530548 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
87530567 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
87530588 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:87546994 original size:150 final size:150
Alignment explanation
Indices: 87546723--87547024 Score: 604
Period size: 150 Copynumber: 2.0 Consensus size: 150
87546713 AGCAATAGGT
87546723 AATAATTACTGAAATACCCTTATGCTTGCAAAATTACAATTTTACCCCTAGGGCTATTTTTTTCT
1 AATAATTACTGAAATACCCTTATGCTTGCAAAATTACAATTTTACCCCTAGGGCTATTTTTTTCT
87546788 GAAAAGCATGATGTTCTGTTTCTGTATACGTATGCCATGACATATTATTTCTGTTGCATGGGACA
66 GAAAAGCATGATGTTCTGTTTCTGTATACGTATGCCATGACATATTATTTCTGTTGCATGGGACA
87546853 TGGGTTTATATTTATGGAGG
131 TGGGTTTATATTTATGGAGG
87546873 AATAATTACTGAAATACCCTTATGCTTGCAAAATTACAATTTTACCCCTAGGGCTATTTTTTTCT
1 AATAATTACTGAAATACCCTTATGCTTGCAAAATTACAATTTTACCCCTAGGGCTATTTTTTTCT
87546938 GAAAAGCATGATGTTCTGTTTCTGTATACGTATGCCATGACATATTATTTCTGTTGCATGGGACA
66 GAAAAGCATGATGTTCTGTTTCTGTATACGTATGCCATGACATATTATTTCTGTTGCATGGGACA
87547003 TGGGTTTATATTTATGGAGG
131 TGGGTTTATATTTATGGAGG
87547023 AA
1 AA
87547025 GCGTTTTGGT
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (150 bp):
AATAATTACTGAAATACCCTTATGCTTGCAAAATTACAATTTTACCCCTAGGGCTATTTTTTTCT
GAAAAGCATGATGTTCTGTTTCTGTATACGTATGCCATGACATATTATTTCTGTTGCATGGGACA
TGGGTTTATATTTATGGAGG
Found at i:87547551 original size:61 final size:61
Alignment explanation
Indices: 87547428--87547543 Score: 196
Period size: 61 Copynumber: 1.9 Consensus size: 61
87547418 TCGACTACAC
* *
87547428 TGACCTTTTCGCATTACGAGTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTT
1 TGACCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTT
* *
87547489 TGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
1 TGACCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGAT
87547544 TTCGTTTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (61 bp):
TGACCTTTGCGCATTACGACTTGGATATCTCCCTGCACAGAGCTTCAATACTGATGCCGTT
Found at i:87548328 original size:111 final size:109
Alignment explanation
Indices: 87548152--87548366 Score: 308
Period size: 111 Copynumber: 1.9 Consensus size: 109
87548142 AAAAGGGCTT
* * * *
87548152 TAGTTCAACCAAAATTGTACCAAAAGGGGGCTTTGATAGTGTGGGCGACTTTGACCTCAAGATCC
1 TAGTTCAACCAAAAGTGTACCAAAA-GGGGCTTTGATAGTGTGGGAGACTTCGACCTCAAAATCC
*
87548217 CGAGTCCGATAGCTGGA-GAACCCAAATCTATAAAACAGAGGAGCAA
65 CGAATCCGATAGCT-GACG-ACCCAAATCTATAAAACAGAGGAGCAA
*
87548263 TAGTTCAACCAAAAGTGTACCAAAA-GGGCTTTGATAGTGTGGGAGACTTCGACTTCCAAAAATC
1 TAGTTCAACCAAAAGTGTACCAAAAGGGGCTTTGATAGTGTGGGAGACTTCGACCT-C-AAAATC
*
87548327 CCGAATCCGATAGCTGACGAGCCAAATCTATAAAACAGAG
64 CCGAATCCGATAGCTGACGACCCAAATCTATAAAACAGAG
87548367 AAACAAAGAA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
109 27 0.29
110 23 0.24
111 44 0.47
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (109 bp):
TAGTTCAACCAAAAGTGTACCAAAAGGGGCTTTGATAGTGTGGGAGACTTCGACCTCAAAATCCC
GAATCCGATAGCTGACGACCCAAATCTATAAAACAGAGGAGCAA
Found at i:87548913 original size:119 final size:120
Alignment explanation
Indices: 87548733--87548955 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
87548723 TACTCGTTCA
* * * *
87548733 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCACACAAATGCCTTCGGGACTTTGTCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGTCCGGAT
*
87548798 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
87548853 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAGTCCGG
* * *
87548915 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTACCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
87548956 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGTCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:87548955 original size:40 final size:40
Alignment explanation
Indices: 87548712--87548955 Score: 264
Period size: 40 Copynumber: 6.1 Consensus size: 40
87548702 CGGAATTTAA
** *
87548712 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
87548752 CCGGTTATAGTGACTCACACAAATGCCTTCGGGACTTTGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
87548792 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
87548832 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
87548871 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
87548911 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTACC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
87548951 CCGGA
1 CCGGA
87548956 CATCATTCAA
Statistics
Matches: 173, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.19
40 126 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:87551235 original size:29 final size:29
Alignment explanation
Indices: 87551200--87551273 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87551190 GTTGTGAGAT
* *
87551200 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
87551229 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
87551258 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87551274 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:87551710 original size:40 final size:40
Alignment explanation
Indices: 87551661--87551977 Score: 400
Period size: 40 Copynumber: 7.9 Consensus size: 40
87551651 GAGTTACTAA
* *
87551661 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
**
87551701 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGCAATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* *
87551741 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* *
87551781 ATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
*
87551821 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* * *
87551861 ATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* *** * ** * * *
87551901 ATCCGTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
* * * *
87551941 ATCCGGGCTAGGTTCCGAAGAGTAATCATGCTGGTGA
1 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA
87551978 CGTGTATTCG
Statistics
Matches: 244, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 244 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
Found at i:87551719 original size:80 final size:80
Alignment explanation
Indices: 87551585--87551962 Score: 438
Period size: 80 Copynumber: 4.7 Consensus size: 80
87551575 AATGATGTCT
* ** * * *
87551585 GGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCATTG
1 GGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCATTC
* * *
87551647 GTGCGAGTTACTAAATCC
64 GTGCTAGTGA-TATATCC
* * *
87551665 AGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCAT
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGT
** *
87551730 GCTAGCAATGTATCC
66 GCTAGTGATATATCC
* * *
87551745 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATGTATCCGGGCTAAGTTCCAAAGAGCATTCGT
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGT
*
87551810 GCTAGTGATGTATCC
66 GCTAGTGATATATCC
* *
87551825 GGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCTGGGCTAAGTTCCGAAGAGCATTCGT
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGT
87551890 GCTAGTGATATATCC
66 GCTAGTGATATATCC
* ** * * * * * *
87551905 GTGCTAAACCCCAAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTTCCGAAGAG
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAG
87551963 TAATCATGCT
Statistics
Matches: 258, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
80 234 0.91
81 18 0.07
82 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGT
GCTAGTGATATATCC
Found at i:87561055 original size:40 final size:40
Alignment explanation
Indices: 87560910--87561055 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 40
87560900 GCTCCTCGTT
* *
87560910 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
87560950 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
87560990 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
87561031 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87561056 CATCATTCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 11 0.12
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:87575192 original size:42 final size:42
Alignment explanation
Indices: 87575099--87575464 Score: 387
Period size: 42 Copynumber: 8.7 Consensus size: 42
87575089 TATAATGACG
* * * * * *
87575099 ATGTCCCAGACGTGGTCTTACATGTAATTCAG-TATCAATGTCT
1 ATGTCCCAGACATGGTCTTACACG-AAATCAGATA-CGATGCCA
* * * * *
87575142 CTGTCCCAAACA-GGATCTTACACAAAATCAAATACGATGCTA
1 ATGTCCCAGACATGG-TCTTACACGAAATCAGATACGATGCCA
* * * *
87575184 ATGTCCCAAACATGGTTTTACACGAAATTAGATACGATGCCG
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
* * **
87575226 ATGTCTCAGACATGGTCTTACACGAAATCGGATACGATGCTG
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
* * * *
87575268 ATGTCCCAGAAATGGTCTTACATGTAGTCAGATACGATGCCA
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
* *
87575310 ATGTCCTATACATGGTCTTACACGAAATCAGATACGATGCCA
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
* * * *
87575352 CTATCCCAGACATGGTCTTACACGTAATCAGATATGATGCCA
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
*
87575394 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATG-TA
1 ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
*
87575435 GATGTCTCAGACATGGTCTTACACGTAAAT
1 -ATGTCCCAGACATGGTCTTACACG-AAAT
87575465 ATCAAATCGA
Statistics
Matches: 268, Mismatches: 50, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.00
42 243 0.91
43 24 0.09
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCA
Found at i:87577684 original size:50 final size:51
Alignment explanation
Indices: 87577606--87577728 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 51
87577596 GACCATGGCA
* *
87577606 ACAAGTGATAAGTGGTAGCTTCGGCTACACTTATTTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGGTAGCTTCGACTACACTTATCTGATCAAGGACAAA-TG
* *
87577657 A-AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGGTAGCTTCGACTACACTTATCTGATCAAGGACAAATG
*
87577707 ACAAGTGAGAAGTGGTAGCTTC
1 ACAAGTGATAAGTGGTAGCTTC
87577729 AGCTACCTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
50 42 0.66
51 22 0.34
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTCGACTACACTTATCTGATCAAGGACAAATG
Found at i:87577751 original size:31 final size:31
Alignment explanation
Indices: 87577710--87577858 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
87577700 ACAAATGACA
* * *
87577710 AGTGAGAAGTGGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
87577741 AGTGAAAAGTGGTAGTTTCTGCTACGTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
87577772 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
87577803 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
87577834 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
87577859 AAGTGACAAG
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:87577953 original size:47 final size:46
Alignment explanation
Indices: 87577883--87578047 Score: 160
Period size: 47 Copynumber: 3.7 Consensus size: 46
87577873 AAGTGATTTC
* *
87577883 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
87577929 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
87577976 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
87578018 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
87578048 ATTATGTGAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.30
46 26 0.25
47 40 0.38
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:87578035 original size:42 final size:42
Alignment explanation
Indices: 87577977--87578090 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
87577967 TATGTGATTC
*
87577977 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATATGAAGAT
*
87578019 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
* **
87578061 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGCTGGGCTATGGCATCA
87578091 AGAAAATGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 65 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCATTATATGAAGAT
Found at i:87580362 original size:147 final size:147
Alignment explanation
Indices: 87580199--87580670 Score: 487
Period size: 147 Copynumber: 3.2 Consensus size: 147
87580189 CGGTGGCTAA
* * * *
87580199 ATTTTT-TTTTTACAAAATC-AAAATTTTATTTT-AAAAAATCATTACTTTTCGTAAAAATCAAA
1 ATTTTTATTTTT-CAAAATCTAAAATTTTATTTTAAAAAAAACATTATTTTTCTTAAAAATTAAA
* ** *
87580261 ACCTTATTTCGAAATAGTT-AAACGAATCAAAACTTTTTTTTAAAAATTTAAACTTTCCTTTAAA
65 ACTTTATTT-GAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAA
87580325 ATGACTTTAAAAAAAATGCAG
129 AT-ACTTTAAAAAAAAT-CAG
* * * *
87580346 ATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTAAAAAAAAAATTATTTTTCTTAAAGAT
1 ATTTTTATTTTTCAAAATCTAAA--AT-T--TTATTTTAAAAAAAACATTATTTTTCTTAAAAAT
** * * *
87580411 TAAAGTTTTTATTTTGAAGTAGTTAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCA
61 TAAA-ACTTTA-TTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCT
87580476 TTAAAATAAC--T-AAAAAAAT-AG
124 TTAAAAT-ACTTTAAAAAAAATCAG
* * * *
87580497 ATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTAAAAAAAACACTATTTTTCTTAAATATTAAA
1 ATTTTTATTTTTCAAAATCTAAAATTT-TATTTTAAAAAAAACATTATTTTTCTTAAAAATTAAA
* *
87580562 GCTTTTACTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTT-AAAATATTAAACTTTCCTTTA
65 AC-TTTA-TTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAAT-TTAAACTTTCCTTTA
* *
87580626 AAATAATTTAAAAAAAA-CAT
127 AAATACTTTAAAAAAAATCAG
87580646 ATTTTTATTTTTTTCAAAATCTAAA
1 ATTTTTA--TTTTTCAAAATCTAAA
87580671 CTTTCTCCCT
Statistics
Matches: 273, Mismatches: 32, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
146 6 0.02
147 101 0.37
148 10 0.04
149 16 0.06
150 1 0.00
151 42 0.15
153 14 0.05
154 25 0.09
155 11 0.04
156 47 0.17
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (147 bp):
ATTTTTATTTTTCAAAATCTAAAATTTTATTTTAAAAAAAACATTATTTTTCTTAAAAATTAAAA
CTTTATTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAAT
ACTTTAAAAAAAATCAG
Found at i:87581050 original size:13 final size:13
Alignment explanation
Indices: 87581032--87581056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87581022 GTAAAAAATG
87581032 ATAATAATAGTAT
1 ATAATAATAGTAT
87581045 ATAATAATAGTA
1 ATAATAATAGTA
87581057 ATAGTAGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
ATAATAATAGTAT
Found at i:87582540 original size:27 final size:27
Alignment explanation
Indices: 87582494--87582547 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
87582484 TTGGTATGCC
*
87582494 ATTGTTTCATAACAGGGTTACTGTGCA
1 ATTGTTTCATAACAGAGTTACTGTGCA
*
87582521 ATTGTTTCATAGCAGAGTTACTGTGCA
1 ATTGTTTCATAACAGAGTTACTGTGCA
87582548 TCCTTTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (27 bp):
ATTGTTTCATAACAGAGTTACTGTGCA
Found at i:87589455 original size:16 final size:16
Alignment explanation
Indices: 87589434--87589466 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
87589424 TTCGCTGTAT
87589434 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
87589450 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
87589466 T
1 T
87589467 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:87589820 original size:120 final size:121
Alignment explanation
Indices: 87589678--87589900 Score: 412
Period size: 120 Copynumber: 1.9 Consensus size: 121
87589668 ATTTAATTAT
87589678 ATTTAAACATAAATATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
1 ATTTAAACATAAATATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
*
87589743 ATTAATATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
87589799 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAAATATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
87589863 ATTAATATTCTTATATGAATTTACTCAAATCATAATAT
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATAT
87589901 GTTGCCTTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
120 95 0.96
121 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAAATATTATTAAATATATTATAATTAAAATATACAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:87589839 original size:16 final size:16
Alignment explanation
Indices: 87589795--87589841 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
87589785 TACTATAAAA
*
87589795 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
87589811 TATTATT-AAATATAT
1 TATAATTAAAATATAT
87589826 TATAATTAAAATATAT
1 TATAATTAAAATATAT
87589842 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:87595191 original size:26 final size:26
Alignment explanation
Indices: 87595162--87595212 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
87595152 TCAAATATCT
87595162 CTTTTACATATTATTTATCTTAAACC
1 CTTTTACATATTATTTATCTTAAACC
* *
87595188 CTTTTATATATTATTTATTTTAAAC
1 CTTTTACATATTATTTATCTTAAAC
87595213 TATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (26 bp):
CTTTTACATATTATTTATCTTAAACC
Found at i:87595225 original size:26 final size:26
Alignment explanation
Indices: 87595169--87595225 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
87595159 TCTCTTTTAC
* *
87595169 ATATTATTTATCTTAAACCCTTTTAT
1 ATATTATTTATCTTAAACCATTTGAT
* *
87595195 ATATTATTTATTTTAAACTATTTGAT
1 ATATTATTTATCTTAAACCATTTGAT
*
87595221 TTATT
1 ATATT
87595226 TACTTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.58
Consensus pattern (26 bp):
ATATTATTTATCTTAAACCATTTGAT
Found at i:87598524 original size:90 final size:90
Alignment explanation
Indices: 87598367--87598603 Score: 304
Period size: 90 Copynumber: 2.6 Consensus size: 90
87598357 ATGAGCTCCG
* * * *
87598367 TGTTCTTAATGAGTTCATAGCCCAGA-TTTGGATGGTCCTACTAAGACAGACTTGATGACTTCAC
1 TGTTCTTAATAAGTTCATAGCCCAGAGTTTGGGTGGTCCTACTGAGACAAACTTGATGACTTCAC
* *
87598431 CAAATTTATAGGATGAA-CTACTAGA
66 CAAATTTATAGGAT-AAGCCACTAAA
* *
87598456 TGTTTTTAATAAGTTCATAGCCCAGAGTTTGGGTGGTCCTATTGAGACAAACTTGATGAACTT-A
1 TGTTCTTAATAAGTTCATAGCCCAGAGTTTGGGTGGTCCTACTGAGACAAACTTGATG-ACTTCA
87598520 CCAAATTTATAGGATAAGCCACTAAA
65 CCAAATTTATAGGATAAGCCACTAAA
* * *
87598546 TGTTCTTAATGAA-TTCATATCCCAG-GCTTTGGGTGGTCCTAGTGAGGCAAACTTGATG
1 TGTTCTTAAT-AAGTTCATAGCCCAGAG-TTTGGGTGGTCCTACTGAGACAAACTTGATG
87598604 CATTCACTGA
Statistics
Matches: 131, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
89 27 0.21
90 98 0.75
91 6 0.05
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (90 bp):
TGTTCTTAATAAGTTCATAGCCCAGAGTTTGGGTGGTCCTACTGAGACAAACTTGATGACTTCAC
CAAATTTATAGGATAAGCCACTAAA
Found at i:87599447 original size:18 final size:17
Alignment explanation
Indices: 87599420--87599453 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
87599410 ATATCTTCTA
87599420 TCATTCTTCTTGTCTCCC
1 TCATTCTTCTT-TCTCCC
*
87599438 TCATTTTTCTTTCTCC
1 TCATTCTTCTTTCTCC
87599454 AAAAGTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.06, C:0.35, G:0.03, T:0.56
Consensus pattern (17 bp):
TCATTCTTCTTTCTCCC
Found at i:87600905 original size:18 final size:18
Alignment explanation
Indices: 87600882--87600920 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87600872 CGAATTGACC
*
87600882 AATTAACCGAAT-TAACTA
1 AATTAACCAAATGTAA-TA
87600900 AATTAACCAAATGTAATA
1 AATTAACCAAATGTAATA
87600918 AAT
1 AAT
87600921 AATATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (18 bp):
AATTAACCAAATGTAATA
Found at i:87611009 original size:38 final size:38
Alignment explanation
Indices: 87610913--87611078 Score: 163
Period size: 38 Copynumber: 4.3 Consensus size: 38
87610903 CGAGGTATAA
* * * * *
87610913 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCACTAAGCCTGCGGGA-TTT
*** *
87610952 AAACTTAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCACTAAGCCTGCGGGATTT
*
87610991 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACTAAGCCTGCGGGATTT
* * *
87611029 AACCCGGATATAATTCTAGCA-TATAGCCTGCGGGTCTTT
1 AACCCGGATATAATACCAGCACTA-AGCCTGCGGG-ATTT
87611068 AAGCCCGGATA
1 AA-CCCGGATA
87611079 CACATCAAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 62 0.59
39 8 0.08
40 34 0.32
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACTAAGCCTGCGGGATTT
Found at i:87611075 original size:78 final size:78
Alignment explanation
Indices: 87610913--87611078 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 78
87610903 CGAGGTATAA
* * ** *
87610913 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTTAGATATAATACCAGCACTAG
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
87610978 GCCTGCGGGATTT
66 GCCTGCGGGATTT
* * * * *
87610991 AACCCGGATATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCTAGCA-TAT
1 AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTA-
*
87611053 AGCCTGCGGGTCTTT
65 AGCCTGCGGG-ATTT
87611068 AAGCCCGGATA
1 AA-CCCGGATA
87611079 CACATCAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
75 2 0.03
76 25 0.34
77 8 0.11
78 39 0.53
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
AACCCGGATATAACACCAGCACGAAGCCTACGGGACTTTAAACCCAGATATAATACCAGCACTAA
GCCTGCGGGATTT
Found at i:87618945 original size:29 final size:29
Alignment explanation
Indices: 87618885--87618942 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
87618875 AACCATATTT
** *
87618885 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTAAAAAATATAATATAA
*
87618914 TAAAATTATTATTAAAAAATCATAATATA
1 TAAAATAATTATTAAAAAAT-ATAATATA
87618943 TAATAGTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATAATTATTAAAAAATATAATATAA
Found at i:87627025 original size:184 final size:185
Alignment explanation
Indices: 87626701--87627046 Score: 613
Period size: 184 Copynumber: 1.9 Consensus size: 185
87626691 ACTGCCAGAT
*
87626701 AACTTCTACCTTTCACAAGACCCACTCCATGCATGTGATATGACCATTTTCAAATTTAACACATT
1 AACTTCCACCTTTCACAAGACCCACTCCATGCATGTGATATGACCATTTTCAAATTTAACACATT
*
87626766 TAATCATTTTTCACATGTAGTCATGCTCATAGTCTCACTTAACACATATTTCTCAATTTTACACA
66 TAATCATTTTTCACATGTAATCATGCTCATAGTCTCACTTAACACATATTTCTCAATTTTACACA
*
87626831 TTTTCATGTAAACATACTCACATATCACATATTATTCACTTTTTATTCACTTTAG
131 TTTCCATGTAAACATACTCACATATCACATATTATTCACTTTTTATTCACTTTAG
* *
87626886 AACTTCCACCTTTCACCAGACCCACTCCAT-CATGTGATATGGCCATTTTCAAATTTAACACATT
1 AACTTCCACCTTTCACAAGACCCACTCCATGCATGTGATATGACCATTTTCAAATTTAACACATT
**
87626950 TAATCATTTTTCACATGTAATCATGCTCATAGTCTCACTTAATGCATATTTCTCAATTTTACACA
66 TAATCATTTTTCACATGTAATCATGCTCATAGTCTCACTTAACACATATTTCTCAATTTTACACA
*
87627015 TTTCCATGTAAACATGCTCACATATCACATAT
131 TTTCCATGTAAACATACTCACATATCACATAT
87627047 CACATATTAT
Statistics
Matches: 153, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
184 125 0.82
185 28 0.18
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (185 bp):
AACTTCCACCTTTCACAAGACCCACTCCATGCATGTGATATGACCATTTTCAAATTTAACACATT
TAATCATTTTTCACATGTAATCATGCTCATAGTCTCACTTAACACATATTTCTCAATTTTACACA
TTTCCATGTAAACATACTCACATATCACATATTATTCACTTTTTATTCACTTTAG
Found at i:87630492 original size:43 final size:42
Alignment explanation
Indices: 87630426--87630536 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
87630416 AATAAGTACA
* *
87630426 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAATTCA-ATATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACATG-AAATCAGATA-CG
**
87630469 ATGCCTCTGTCCCAGACAGGGTCTTACATGAAATCAGATACG
1 ATGCCGATGTCCCAGACAGGGTCTTACATGAAATCAGATACG
* *
87630511 ATGCCGATGTCCCGGACATGGTCTTA
1 ATGCCGATGTCCCAGACAGGGTCTTA
87630537 TACGTAAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.50
43 28 0.48
44 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACAGGGTCTTACATGAAATCAGATACG
Found at i:87630534 original size:42 final size:43
Alignment explanation
Indices: 87630426--87630546 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
87630416 AATAAGTACA
* * *
87630426 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATATCG
** *
87630469 ATGCCTCTGTCCCAGACAGGGTCTTACATG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCA-ATATCG
* * *
87630511 ATGCCGATGTCCCGGACATGGTCTTATACGTAAATC
1 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATC
87630547 TCAATCGAGG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCAATATCG
Found at i:87631873 original size:41 final size:41
Alignment explanation
Indices: 87631816--87631899 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
87631806 GGCTCGAGAG
87631816 GTAGCTAAAAACGGTAGCCCTAATAGGATTGGAATCTTTAA
1 GTAGCTAAAAACGGTAGCCCTAATAGGATTGGAATCTTTAA
87631857 GTAGCTAAAAACGGTAGCCCTAATAGGATTGGAATCTTTAA
1 GTAGCTAAAAACGGTAGCCCTAATAGGATTGGAATCTTTAA
87631898 GT
1 GT
87631900 CTTTCTTGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (41 bp):
GTAGCTAAAAACGGTAGCCCTAATAGGATTGGAATCTTTAA
Found at i:87634601 original size:53 final size:49
Alignment explanation
Indices: 87634507--87634619 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 49
87634497 AGTGATTATC
* * *
87634507 TTAATATTAAATTTAATTTAATACAAGATAAATATTCTATTATTTATATAGAT
1 TTAATATTAAATTTAATCTAATACAACATAAATATACTATTA--TAT-TA-AT
*
87634560 TTAATATTAAATTTAATCTAATA-AACATCAAGATA-AGTATTATATTAAT
1 TTAATATTAAATTTAATCTAATACAACAT-AA-ATATACTATTATATTAAT
87634609 TTAATATTAAA
1 TTAATATTAAA
87634620 GTGATTAAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
49 13 0.24
50 2 0.04
51 3 0.06
52 4 0.07
53 29 0.54
54 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (49 bp):
TTAATATTAAATTTAATCTAATACAACATAAATATACTATTATATTAAT
Found at i:87641551 original size:12 final size:12
Alignment explanation
Indices: 87641534--87641558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87641524 TTCAAGGGAG
87641534 TTAAAACACAAA
1 TTAAAACACAAA
87641546 TTAAAACACAAA
1 TTAAAACACAAA
87641558 T
1 T
87641559 GAGAGGCTTA
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:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TTAAAACACAAA
Found at i:87648837 original size:25 final size:25
Alignment explanation
Indices: 87648808--87648862 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
87648798 TTTAACTTTT
87648808 TATATAATTTTTAGAATTTTTTAAAAA
1 TATA-AATTTTTA-AATTTTTTAAAAA
*
87648835 TATAAATTTTTAAATTTTTTATAAA
1 TATAAATTTTTAAATTTTTTAAAAA
87648860 TAT
1 TAT
87648863 TTTGAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.56
26 8 0.30
27 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TATAAATTTTTAAATTTTTTAAAAA
Found at i:87648879 original size:28 final size:27
Alignment explanation
Indices: 87648839--87648895 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
87648829 TAAAAATATA
*
87648839 AATTTTTAAATTT-TTTATAAATATTTTG
1 AATTTTAAAATTTATTT-TAAAT-TTTTG
87648867 AATTTTAAAATTTATTTTAAATTTTTG
1 AATTTTAAAATTTATTTTAAATTTTTG
87648894 AA
1 AA
87648896 AATTATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.26
28 17 0.63
29 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (27 bp):
AATTTTAAAATTTATTTTAAATTTTTG
Found at i:87648901 original size:20 final size:19
Alignment explanation
Indices: 87648842--87648911 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
87648832 AAATATAAAT
87648842 TTTTAAATTTTTTATAAA-TA
1 TTTTAAA-TTTTTA-AAATTA
*
87648862 TTTTGAA-TTTTAAAATTTA
1 TTTTAAATTTTTAAAA-TTA
87648881 TTTTAAATTTTTGAAAATTA
1 TTTTAAATTTTT-AAAATTA
87648901 TTTTAAATTTT
1 TTTTAAATTTT
87648912 GTTTTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.07
18 5 0.11
19 8 0.18
20 24 0.55
21 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTAAATTTTTAAAATTA
Found at i:87649440 original size:17 final size:17
Alignment explanation
Indices: 87649418--87649452 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87649408 AAAATGAAAC
87649418 TAAAAATATATAACATG
1 TAAAAATATATAACATG
87649435 TAAAAATATATAACATG
1 TAAAAATATATAACATG
87649452 T
1 T
87649453 TTTTCCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
TAAAAATATATAACATG
Found at i:87651535 original size:19 final size:19
Alignment explanation
Indices: 87651511--87651553 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
87651501 TATAAATCCT
*
87651511 AAAATTCTAAATATATATA
1 AAAATTCAAAATATATATA
* *
87651530 AAAATTCAAAATTTTTATA
1 AAAATTCAAAATATATATA
87651549 AAAAT
1 AAAAT
87651554 AAATAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATATATATA
Found at i:87651565 original size:19 final size:19
Alignment explanation
Indices: 87651519--87651565 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
87651509 CTAAAATTCT
* *
87651519 AAATATATATAAAAATTCA
1 AAATATTTATAAAAATTAA
*
87651538 AAATTTTTATAAAAA-TAA
1 AAATATTTATAAAAATTAA
87651556 ATAATATTTA
1 A-AATATTTA
87651566 AATATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATTTATAAAAATTAA
Found at i:87651701 original size:17 final size:17
Alignment explanation
Indices: 87651585--87651704 Score: 59
Period size: 17 Copynumber: 6.8 Consensus size: 17
87651575 AAAAGTTAAG
87651585 AAAATGTATAGAAAAATTT
1 AAAAT-TATA-AAAAATTT
*
87651604 AAAA-TATAAAATA-TT
1 AAAATTATAAAAAATTT
* **
87651619 AGAAACGTA-AAAAAATCCA
1 A-AAA-TTATAAAAAAT-TT
*
87651638 AAAAGTATAGAAAAA-TT
1 AAAATTATA-AAAAATTT
* *
87651655 AAAAATATAAAAGATTAAT
1 AAAATTATAAAAAATT--T
* *
87651674 TAAATTCTAAAAAATTT
1 AAAATTATAAAAAATTT
87651691 AAAATTATAAAAAA
1 AAAATTATAAAAAA
87651705 AAATAGTTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
15 3 0.04
16 11 0.14
17 34 0.44
18 6 0.08
19 23 0.30
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAATTATAAAAAATTT
Found at i:87653098 original size:12 final size:12
Alignment explanation
Indices: 87653081--87653105 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87653071 AATTTAGGTG
87653081 TAATTACTTACA
1 TAATTACTTACA
87653093 TAATTACTTACA
1 TAATTACTTACA
87653105 T
1 T
87653106 TTTCACCTTC
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTACTTACA
Found at i:87656376 original size:144 final size:144
Alignment explanation
Indices: 87656116--87656396 Score: 508
Period size: 144 Copynumber: 2.0 Consensus size: 144
87656106 CCAAGATTTA
*
87656116 AAATCTTGATTCTTGAAATTGTCTGAAACAACAAAATTTGACCAAGGTTTAGTTTCTTAATTTTC
1 AAATCTTGATTCTTGAAATTGTCTGAAACAACAAAATTTGACCAAGATTTAGTTTCTTAATTTTC
* * *
87656181 TTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCAGTTGTGTGCGTATCTAGGGACTTGGTAA
66 TTGAAAACAAGAAAGTAAATCTTGATTTTCTTTTTCAGTCGTGTGCGTATCTAGAGACTTGGTAA
87656246 CGAAGTCATCTTTG
131 CGAAGTCATCTTTG
*
87656260 AAATCTTGATTCTTGAAATTGTCTGAAACAATAAAATTTGACCAAGATTTAGTTTCTTAATTTTC
1 AAATCTTGATTCTTGAAATTGTCTGAAACAACAAAATTTGACCAAGATTTAGTTTCTTAATTTTC
*
87656325 TTGAAAACAAGAAAGTAAATCTTGATTTTCTTTTTTAGTCGTGTGCGTATCTAGAGACTTGGTAA
66 TTGAAAACAAGAAAGTAAATCTTGATTTTCTTTTTCAGTCGTGTGCGTATCTAGAGACTTGGTAA
87656390 CGAAGTC
131 CGAAGTC
87656397 TTAGATGATC
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 131 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (144 bp):
AAATCTTGATTCTTGAAATTGTCTGAAACAACAAAATTTGACCAAGATTTAGTTTCTTAATTTTC
TTGAAAACAAGAAAGTAAATCTTGATTTTCTTTTTCAGTCGTGTGCGTATCTAGAGACTTGGTAA
CGAAGTCATCTTTG
Found at i:87659184 original size:31 final size:31
Alignment explanation
Indices: 87659149--87659210 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
87659139 CTTAAATTAT
*
87659149 CCTTATTGATTATTGATACTACCTAAAATAC
1 CCTTATTAATTATTGATACTACCTAAAATAC
* *
87659180 CCTTATTAATTTTTTATACTACCTAAAATAC
1 CCTTATTAATTATTGATACTACCTAAAATAC
87659211 GCCTAACAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (31 bp):
CCTTATTAATTATTGATACTACCTAAAATAC
Found at i:87665276 original size:21 final size:21
Alignment explanation
Indices: 87665238--87665280 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87665228 GGTCTTTATA
**
87665238 AAGAAAAACATGGGTTTTTAC
1 AAGAAAAACATGAATTTTTAC
*
87665259 AAGAAAAACTTGAATTTTTAC
1 AAGAAAAACATGAATTTTTAC
87665280 A
1 A
87665281 TGGAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
AAGAAAAACATGAATTTTTAC
Found at i:87666506 original size:8 final size:8
Alignment explanation
Indices: 87666484--87666534 Score: 57
Period size: 8 Copynumber: 5.9 Consensus size: 8
87666474 TTAATACTTC
87666484 TTATAGATT
1 TTATA-ATT
87666493 TTATAATT
1 TTATAATT
*
87666501 TGATAAATTT
1 TTAT-AA-TT
87666511 TTAATAATT
1 TT-ATAATT
87666520 TTATAATT
1 TTATAATT
87666528 TTATAAT
1 TTATAAT
87666535 AAATCTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 19 0.51
9 11 0.30
10 5 0.14
11 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (8 bp):
TTATAATT
Found at i:87666519 original size:19 final size:18
Alignment explanation
Indices: 87666491--87666536 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
87666481 TTCTTATAGA
87666491 TTTT-ATAATTTGATAAAT
1 TTTTAATAATTTGAT-AAT
*
87666509 TTTTAATAATTTTATAAT
1 TTTTAATAATTTGATAAT
87666527 TTTATAATAA
1 TTT-TAATAA
87666537 ATCTTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTAATAATTTGATAAT
Found at i:87667315 original size:19 final size:18
Alignment explanation
Indices: 87667293--87667341 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
87667283 AGGAACAATT
*
87667293 AAATTAGATTTTTTTAATA
1 AAATTAGATTCTTTT-ATA
*
87667312 AAATTAGAACCTCTTTTATA
1 AAATTAG-A-TTCTTTTATA
87667332 AAATTAGATT
1 AAATTAGATT
87667342 GTTAATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 1 0.04
19 8 0.32
20 11 0.44
21 5 0.20
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
AAATTAGATTCTTTTATA
Found at i:87673390 original size:16 final size:16
Alignment explanation
Indices: 87673369--87673402 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
87673359 ACGGATACTT
*
87673369 AAAAAAAA-CAAAAAC
1 AAAAAAAAGAAAAAAC
87673384 AAAAAAAAGAAAAAAC
1 AAAAAAAAGAAAAAAC
87673400 AAA
1 AAA
87673403 GAGTCGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAC
Found at i:87674150 original size:12 final size:11
Alignment explanation
Indices: 87674133--87674160 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
87674123 AAGTTGAGAT
87674133 AAAAAAAAAAG
1 AAAAAAAAAAG
87674144 AAAAAAAAAAG
1 AAAAAAAAAAG
87674155 AAAAAA
1 AAAAAA
87674161 GGTAATGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:87678294 original size:37 final size:37
Alignment explanation
Indices: 87678241--87678343 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
87678231 CGAATAGTCC
*
87678241 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
87678278 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
87678315 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
87678344 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:87678542 original size:48 final size:48
Alignment explanation
Indices: 87678484--87678956 Score: 892
Period size: 48 Copynumber: 9.9 Consensus size: 48
87678474 ATATACACAC
* * * *
87678484 ATCTCCTACATAGTTCACACTAGCCATTCGGCGTTACCACACATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678532 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678580 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678628 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678676 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678724 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678772 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678820 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
87678868 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
87678916 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
87678957 CACATATATA
Statistics
Matches: 419, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 419 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:87682220 original size:38 final size:38
Alignment explanation
Indices: 87682164--87682243 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
87682154 GATGTGTATT
* * *
87682164 CGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
87682202 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
87682240 CGGG
1 CGGG
87682244 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:87682284 original size:43 final size:43
Alignment explanation
Indices: 87682215--87682403 Score: 265
Period size: 43 Copynumber: 4.4 Consensus size: 43
87682205 GATAAATCCC
* * *
87682215 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
87682256 GTAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
87682299 GCAAGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCCA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
87682342 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
87682385 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
87682404 AATGATATGT
Statistics
Matches: 129, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
41 14 0.11
42 2 0.02
43 113 0.88
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:87682804 original size:45 final size:43
Alignment explanation
Indices: 87682720--87682846 Score: 118
Period size: 45 Copynumber: 2.9 Consensus size: 43
87682710 TTGACTTGAT
* * **
87682720 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGC-GGTGAGA-AC
87682765 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGTCGGT--GAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATG-CGGTGAGAAC
* *
87682807 TGATATCGGGCC-TCGAGCCTAACAGGC-AAAATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATG-CGGTGA
87682847 TTTGAGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
42 12 0.17
43 18 0.26
44 7 0.10
45 32 0.46
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCGGTGAGAAC
Found at i:87686591 original size:17 final size:17
Alignment explanation
Indices: 87686569--87686603 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87686559 TAGTCTTTAA
87686569 GGGTCTTTCCTCTATGG
1 GGGTCTTTCCTCTATGG
87686586 GGGTCTTTCCTCTATGG
1 GGGTCTTTCCTCTATGG
87686603 G
1 G
87686604 CATCAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.31, T:0.40
Consensus pattern (17 bp):
GGGTCTTTCCTCTATGG
Found at i:87688194 original size:7 final size:7
Alignment explanation
Indices: 87688182--87688223 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
87688172 TGACGCATTG
87688182 AAAAATC
1 AAAAATC
87688189 AAAAATC
1 AAAAATC
87688196 AAAAATC
1 AAAAATC
87688203 AAAAA-C
1 AAAAATC
*
87688209 AAAACT-
1 AAAAATC
87688215 AAAAATC
1 AAAAATC
87688222 AA
1 AA
87688224 CAAACCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.74, C:0.14, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:87688358 original size:23 final size:24
Alignment explanation
Indices: 87688332--87688387 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
87688322 ATTTTAGTTC
* *
87688332 AAATAAAAATAGGTACAAAAAGA-
1 AAATAAAAATAAGCACAAAAAGAT
* * *
87688355 AAATACAATTAAGCACAAAAATAT
1 AAATAAAAATAAGCACAAAAAGAT
87688379 AAATAAAAA
1 AAATAAAAA
87688388 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (24 bp):
AAATAAAAATAAGCACAAAAAGAT
Found at i:87689051 original size:29 final size:28
Alignment explanation
Indices: 87688982--87689055 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
87688972 GATTTATGGT
* *
87688982 TTAGGG-TTAGGGTGTTGAAAAAATAAA
1 TTAGGGTTTAGGGTTTTTAAAAAATAAA
87689009 TTAGGGTTTAGGGTTTTTAAAAAATAAA
1 TTAGGGTTTAGGGTTTTTAAAAAATAAA
* *
87689037 TTTGGGTTTAGGGGTTTTA
1 TTAGGGTTTAGGGTTTTTA
87689056 GGGTTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 6 0.14
28 36 0.86
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.39
Consensus pattern (28 bp):
TTAGGGTTTAGGGTTTTTAAAAAATAAA
Found at i:87689497 original size:125 final size:124
Alignment explanation
Indices: 87689283--87689572 Score: 413
Period size: 125 Copynumber: 2.3 Consensus size: 124
87689273 TGTAAGTAGA
* * * *
87689283 ATGCACTGTCATCAAAATTACTGAAAAA-CTCCCAACTGGA-TTTTTTTTGTATAGTTGATTCTG
1 ATGCACTGTCAACAAAAGTACTGAAAAAGCTCCCAATTGGACTTTTTTTTGCATAGTTGATTCTG
* *
87689346 AAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAGGTTGAAAAATGCTTCAAGCAGG
66 AAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAAGTTGAAAAATGCTTCAAGCAGG
* * * *
87689405 ATGCATTGTCAACAAAAGTACTGAAAAAGGCTCCCAGTTGGACTTTTTTTTGCATAGTTTATTTT
1 ATGCACTGTCAACAAAAGTACTGAAAAA-GCTCCCAATTGGACTTTTTTTTGCATAGTTGATTCT
* *
87689470 GAAAAAATAATTTTGAGAAGTTAGTTCTGAAAAAATAAGTTGAAAAATGCTTCAAGTAGG
65 GAAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAAGTTGAAAAATGCTTCAAGCAGG
* * *
87689530 ATGCACTGTTAGCAAAAGTACCGAAAAAAGCTCCCAATTGGAC
1 ATGCACTGTCAACAAAAGTACTG-AAAAAGCTCCCAATTGGAC
87689573 GCTCTTTTCA
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 25 0.17
124 10 0.07
125 107 0.73
126 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (124 bp):
ATGCACTGTCAACAAAAGTACTGAAAAAGCTCCCAATTGGACTTTTTTTTGCATAGTTGATTCTG
AAAAAATAATTTTGAGAAGATAGTTCTGAAAAAATAAGTTGAAAAATGCTTCAAGCAGG
Found at i:87689715 original size:25 final size:25
Alignment explanation
Indices: 87689668--87689738 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
87689658 TTACAATAAG
87689668 AGAAATTGAAGAA-TTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
87689692 ATAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
* * *
87689717 AGGAATTAAAGAAGTTGAGAAG
1 AGAAATTGAAGAAGTTCAGAAG
87689739 GTATAAGTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 12 0.29
25 29 0.71
ACGTcount: A:0.52, C:0.03, G:0.24, T:0.21
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Done.