Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 71 of 103
Found at i:26567787 original size:36 final size:36
Alignment explanation
Indices: 26567746--26567818 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
26567736 TCAAAATTGA
* *
26567746 TAATATCATTTCAATCATTAATGTCATTAAAAATTT
1 TAATATCATTTCAATCATTAACGACATTAAAAATTT
*
26567782 TAATATCATTTCAATCATTAACGACATTAAAATTTT
1 TAATATCATTTCAATCATTAACGACATTAAAAATTT
26567818 T
1 T
26567819 TCTCTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (36 bp):
TAATATCATTTCAATCATTAACGACATTAAAAATTT
Found at i:26580759 original size:15 final size:14
Alignment explanation
Indices: 26580739--26580776 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
26580729 CTATAGTCGC
26580739 TTTGATTGATATTAT
1 TTTGATT-ATATTAT
26580754 TTTGA-TA-ATTAT
1 TTTGATTATATTAT
26580766 TTTGATTATAT
1 TTTGATTATAT
26580777 CATTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.48
13 3 0.14
14 3 0.14
15 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (14 bp):
TTTGATTATATTAT
Found at i:26595975 original size:58 final size:58
Alignment explanation
Indices: 26595881--26595995 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
26595871 GTTTTGAGTC
* *
26595881 TACAGAACATATATGTGTAATGACTGATGATAATGTCTATGTAATCTATTTTAGATAA
1 TACAGAACATATATGTGTAATGACTAATGATAATGTCTATGTAATCTATTTAAGATAA
*
26595939 TACAGAACATATATGTGTAATGACTAATGATGATGTCTATGTAATCTATTTAAGATA
1 TACAGAACATATATGTGTAATGACTAATGATAATGTCTATGTAATCTATTTAAGATA
26595996 CTATCGCTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (58 bp):
TACAGAACATATATGTGTAATGACTAATGATAATGTCTATGTAATCTATTTAAGATAA
Found at i:26600065 original size:2 final size:2
Alignment explanation
Indices: 26600060--26600087 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26600050 TTAATGTAAA
26600060 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26600088 GATAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26609826 original size:36 final size:36
Alignment explanation
Indices: 26609785--26609856 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
26609775 ACAATTGTGT
26609785 TTGTTAGGAATAGGCACCTAAGCTTATAAAAATAAC
1 TTGTTAGGAATAGGCACCTAAGCTTATAAAAATAAC
26609821 TTGTTAGGAATAGGCACCTAAGCTTATAAAAATAAC
1 TTGTTAGGAATAGGCACCTAAGCTTATAAAAATAAC
26609857 CCTTTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (36 bp):
TTGTTAGGAATAGGCACCTAAGCTTATAAAAATAAC
Found at i:26612963 original size:36 final size:35
Alignment explanation
Indices: 26612922--26613009 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
26612912 AAGAAAAAAA
* *
26612922 TCATGTCATTTGAAAATTAGAAAATAAAGGAAGGGG
1 TCATGTCATTTGAAAATAAGAAAATAAAGGAA-GAG
*
26612958 TCATGT-TTGTTGAAAATAAGAAAATAAAGGAAGAG
1 TCATGTCAT-TTGAAAATAAGAAAATAAAGGAAGAG
*
26612993 TCATGTCTATTGGAAAA
1 TCATGTC-ATTTGAAAA
26613010 CACTAATAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 9 0.20
36 34 0.77
37 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (35 bp):
TCATGTCATTTGAAAATAAGAAAATAAAGGAAGAG
Found at i:26614864 original size:20 final size:20
Alignment explanation
Indices: 26614839--26614879 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
26614829 TAAATTTTAG
* *
26614839 ATTAGTTTTATTTTTAGTTT
1 ATTAGTTTTAATTTTAATTT
26614859 ATTAGTTTTAATTTTAATTT
1 ATTAGTTTTAATTTTAATTT
26614879 A
1 A
26614880 AATTGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
ATTAGTTTTAATTTTAATTT
Found at i:26616062 original size:28 final size:29
Alignment explanation
Indices: 26616031--26616089 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
26616021 AGGTATATAT
*
26616031 AAAAAGCTATACGA-GAACAAGT-TAAGAG
1 AAAAAGCTATAC-ATGAACAAGTACAAGAG
*
26616059 AAAAAGGTATACATGAACAAGTACAAGAG
1 AAAAAGCTATACATGAACAAGTACAAGAG
26616088 AA
1 AA
26616090 TAAGGAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 1 0.04
28 19 0.70
29 7 0.26
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.14
Consensus pattern (29 bp):
AAAAAGCTATACATGAACAAGTACAAGAG
Found at i:26616087 original size:29 final size:29
Alignment explanation
Indices: 26616031--26616125 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
26616021 AGGTATATAT
* *
26616031 AAAAAGCTATACGA-GAACAAGT-TAAGAG
1 AAAAAGGTATAC-ATGAACAAGTACAAGAG
26616059 AAAAAGGTATACATGAACAAGTACAAGAG
1 AAAAAGGTATACATGAACAAGTACAAGAG
* ** * *
26616088 AATAAGG-AGTATGTGAATAGGTACAAGAG
1 AAAAAGGTA-TACATGAACAAGTACAAGAG
*
26616117 AACAAGGTA
1 AAAAAGGTA
26616126 AGAGAAGGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
27 1 0.02
28 20 0.36
29 33 0.60
30 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.24, T:0.16
Consensus pattern (29 bp):
AAAAAGGTATACATGAACAAGTACAAGAG
Found at i:26628849 original size:2 final size:2
Alignment explanation
Indices: 26628842--26628881 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26628832 AACAATCCAA
26628842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26628882 TGTTGTTNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26628988 original size:2 final size:2
Alignment explanation
Indices: 26628981--26629016 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26628971 NNNNNNNNNN
26628981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26629017 TTGTGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26631234 original size:2 final size:2
Alignment explanation
Indices: 26631227--26631253 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26631217 TTCTTTTAAT
26631227 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
26631254 ATCTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:26644657 original size:15 final size:15
Alignment explanation
Indices: 26644611--26644663 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
26644601 GATTTTCGCC
* *
26644611 CCCTCTTTCATTCGA
1 CCCTCTTCCATTCGG
** *
26644626 CCCTCTTCTGTTTGG
1 CCCTCTTCCATTCGG
26644641 CCCTCTTCCATTCGG
1 CCCTCTTCCATTCGG
*
26644656 CCTTCTTC
1 CCCTCTTC
26644664 AAAAATCTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.06, C:0.42, G:0.11, T:0.42
Consensus pattern (15 bp):
CCCTCTTCCATTCGG
Found at i:26683678 original size:31 final size:30
Alignment explanation
Indices: 26683609--26683691 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
26683599 TATTTTTTAA
*
26683609 ATATTTTT-TTCAATTTAGTCCCTCAACAT
1 ATATTTTTATTCAATTTAGTCCATCAACAT
* * * *
26683638 CTCACTTTTATTCAATTTAGTCTATGAACTAT
1 AT-ATTTTTATTCAATTTAGTCCATCAAC-AT
*
26683670 ATATTTTTATTCATTTTAGTCC
1 ATATTTTTATTCAATTTAGTCC
26683692 CTATGATGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
29 1 0.02
30 5 0.12
31 33 0.79
32 3 0.07
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.51
Consensus pattern (30 bp):
ATATTTTTATTCAATTTAGTCCATCAACAT
Found at i:26684769 original size:19 final size:18
Alignment explanation
Indices: 26684725--26684788 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
26684715 AACAAATAGG
* *
26684725 TAATTTATATTAAAT-TA
1 TAATTTTTATAAAATATA
26684742 TAATATTTTATAAAATATA
1 TAAT-TTTTATAAAATATA
* *
26684761 TAAATTTTTTTAAAAATATC
1 T-AATTTTTAT-AAAATATA
26684781 TAATTTTT
1 TAATTTTT
26684789 TTCTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.10
18 9 0.23
19 15 0.38
20 11 0.28
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTTTTATAAAATATA
Found at i:26684789 original size:19 final size:21
Alignment explanation
Indices: 26684747--26684790 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
26684737 AATTATAATA
26684747 TTTTATAAAATATATAAATTT
1 TTTTATAAAATATATAAATTT
*
26684768 TTTTA-AAAATATCT-AATTT
1 TTTTATAAAATATATAAATTT
26684787 TTTT
1 TTTT
26684791 CTTTTATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 8 0.36
21 5 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTATAAAATATATAAATTT
Found at i:26687488 original size:20 final size:21
Alignment explanation
Indices: 26687459--26687512 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
26687449 TCCACCCTTG
* *
26687459 GGTATCGATACTTTTCATT-A
1 GGTATTGATACTTTCCATTGA
* *
26687479 GGTATTGATACCTTCCCTTGA
1 GGTATTGATACTTTCCATTGA
*
26687500 GATATTGATACTT
1 GGTATTGATACTT
26687513 CATATGTAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (21 bp):
GGTATTGATACTTTCCATTGA
Found at i:26688283 original size:14 final size:14
Alignment explanation
Indices: 26688264--26688308 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
26688254 TGCTAATGAA
26688264 CTTAAGATATAATC
1 CTTAAGATATAATC
*
26688278 CTTAAG-T-TAA-A
1 CTTAAGATATAATC
*
26688289 CTTAGGATATAATC
1 CTTAAGATATAATC
26688303 CTTAAG
1 CTTAAG
26688309 TTAAACTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 5 0.21
12 4 0.17
13 4 0.17
14 11 0.46
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (14 bp):
CTTAAGATATAATC
Found at i:26688297 original size:25 final size:25
Alignment explanation
Indices: 26688262--26688332 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
26688252 GTTGCTAATG
*
26688262 AACTTAAGATATAATCCTTAAGTTA
1 AACTTAGGATATAATCCTTAAGTTA
26688287 AACTTAGGATATAATCCTTAAGTTA
1 AACTTAGGATATAATCCTTAAGTTA
*
26688312 AACTTAGGATATAATCATTAA
1 AACTTAGGATATAATCCTTAA
26688333 TCAAATTAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (25 bp):
AACTTAGGATATAATCCTTAAGTTA
Found at i:26691113 original size:29 final size:28
Alignment explanation
Indices: 26691071--26691138 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
26691061 ATGGTAATTT
* *
26691071 GTTGAGTGAGAAAGAAAAAGAAGT-TGAAA
1 GTTGAGAGAAAAAGAAAAA-AAGTGTG-AA
* *
26691100 GTTGAGAGAAAAAGGAAGAAAGTGTGAA
1 GTTGAGAGAAAAAGAAAAAAAGTGTGAA
26691128 GTT-AGAGAAAA
1 GTTGAGAGAAAA
26691139 TAAGGTAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 9 0.26
29 17 0.50
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.16
Consensus pattern (28 bp):
GTTGAGAGAAAAAGAAAAAAAGTGTGAA
Found at i:26691619 original size:16 final size:17
Alignment explanation
Indices: 26691600--26691633 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26691590 AACAAGAAGC
*
26691600 AAAGAAAGTA-AGAAAA
1 AAAGAAAATAGAGAAAA
26691616 AAAGAAAATAGAGAAAA
1 AAAGAAAATAGAGAAAA
26691633 A
1 A
26691634 GTAAACAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (17 bp):
AAAGAAAATAGAGAAAA
Found at i:26692483 original size:23 final size:22
Alignment explanation
Indices: 26692457--26692513 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
26692447 TATTTTTCCC
*
26692457 TATTCTTTTTTTCTCTAATTTA-T
1 TATTATTTTTTT-T-TAATTTATT
*
26692480 TATTATTATTTTTTTATTTTATT
1 TATTATT-TTTTTTTAATTTATT
26692503 TATTATTTTTT
1 TATTATTTTTT
26692514 ATCGATGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 15 0.50
24 5 0.17
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTATTTTTTTTTAATTTATT
Found at i:26692486 original size:26 final size:26
Alignment explanation
Indices: 26692457--26692509 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
26692447 TATTTTTCCC
* *
26692457 TATTCTTTTTTTCTCTAATTTATTAT
1 TATTATTTTTTTATCTAATTTATTAT
* *
26692483 TATTATTTTTTTATTTTATTTATTAT
1 TATTATTTTTTTATCTAATTTATTAT
26692509 T
1 T
26692510 TTTTATCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (26 bp):
TATTATTTTTTTATCTAATTTATTAT
Found at i:26694623 original size:8 final size:7
Alignment explanation
Indices: 26694611--26694643 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
26694601 TTTTTCATTC
26694611 ATTTTTG
1 ATTTTTG
26694618 ATTTTTG
1 ATTTTTG
26694625 ATTTTTG
1 ATTTTTG
26694632 ATTTTTGG
1 ATTTTT-G
26694640 ATTT
1 ATTT
26694644 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (7 bp):
ATTTTTG
Found at i:26694821 original size:15 final size:16
Alignment explanation
Indices: 26694801--26694830 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26694791 CTTTTTTGCT
26694801 TCCTTTTCA-CTTTCC
1 TCCTTTTCATCTTTCC
26694816 TCCTTTTCATCTTTC
1 TCCTTTTCATCTTTC
26694831 ACTTTTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.57
Consensus pattern (16 bp):
TCCTTTTCATCTTTCC
Found at i:26699693 original size:37 final size:37
Alignment explanation
Indices: 26699643--26699713 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
26699633 ATTCACAAGG
** *
26699643 TATAGTTCAAATTACAAATGTAGTTGTATCAATAGAT
1 TATAGTTCAAATTACAAACATAGTTATATCAATAGAT
26699680 TATAGTTCAAATTACAAACATAGTTATATCAATA
1 TATAGTTCAAATTACAAACATAGTTATATCAATA
26699714 AATTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (37 bp):
TATAGTTCAAATTACAAACATAGTTATATCAATAGAT
Found at i:26720740 original size:23 final size:24
Alignment explanation
Indices: 26720714--26720758 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
26720704 TTTCTATCTT
26720714 CCCTTGAAAAGCT-CTAAAAAAGG
1 CCCTTGAAAAGCTCCTAAAAAAGG
* *
26720737 CCCTTTAAATGCTCCTAAAAAA
1 CCCTTGAAAAGCTCCTAAAAAA
26720759 CCCTAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.22
Consensus pattern (24 bp):
CCCTTGAAAAGCTCCTAAAAAAGG
Found at i:26726082 original size:35 final size:34
Alignment explanation
Indices: 26726034--26726112 Score: 95
Period size: 35 Copynumber: 2.3 Consensus size: 34
26726024 AAATTTAAAT
* *
26726034 TTAAATAATTAAAAACAAATATCTCAAATATCAAC
1 TTAAATAACTAAAAACAAATAT-TCAAATAACAAC
* * *
26726069 TTAAATAACTAAAAGCAAATATTCGAGTAACAAC
1 TTAAATAACTAAAAACAAATATTCAAATAACAAC
*
26726103 TTAAACAACT
1 TTAAATAACT
26726113 TAACTATATG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
34 18 0.47
35 20 0.53
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (34 bp):
TTAAATAACTAAAAACAAATATTCAAATAACAAC
Found at i:26726781 original size:19 final size:18
Alignment explanation
Indices: 26726756--26726790 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26726746 TTTGATTGAT
*
26726756 TTTAAATTATAAAATATA
1 TTTAAAATATAAAATATA
*
26726774 TTTAAAATATTAAATAT
1 TTTAAAATATAAAATAT
26726791 TTAATTTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAAATATAAAATATA
Found at i:26728432 original size:33 final size:33
Alignment explanation
Indices: 26728384--26728466 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
26728374 GGAAAAAATT
*
26728384 AAAAT-AAAATAAAAATATAGAAAATTATATTAA
1 AAAATGAAAAT-AAAATATAGAAAATTATAATAA
* **
26728417 AAAATGAAAATAAAATATATAAGGTTATAATAA
1 AAAATGAAAATAAAATATAGAAAATTATAATAA
*
26728450 GAAATGAAAATAAAATA
1 AAAATGAAAATAAAATA
26728467 ATTGATATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 39 0.89
34 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.25
Consensus pattern (33 bp):
AAAATGAAAATAAAATATAGAAAATTATAATAA
Found at i:26728704 original size:15 final size:15
Alignment explanation
Indices: 26728684--26728739 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
26728674 ATCCTCCATA
* *
26728684 CAATCACATTGCTTG
1 CAATCACATTACTGG
26728699 CAATCACATTACTGG
1 CAATCACATTACTGG
*
26728714 CAATCACCTTATCT-G
1 CAATCACATTA-CTGG
*
26728729 TAATCACATTA
1 CAATCACATTA
26728740 TATTGTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 33 0.94
16 2 0.06
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (15 bp):
CAATCACATTACTGG
Found at i:26740669 original size:2 final size:2
Alignment explanation
Indices: 26740657--26740694 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
26740647 CGCATTTGAT
*
26740657 TC TC T- TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
26740695 TCCTATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:26740708 original size:2 final size:2
Alignment explanation
Indices: 26740698--26740741 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
26740688 TCTCTCTTCC
*
26740698 TA TA CA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26740739 TA T
1 TA T
26740742 TCATGCTCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26755072 original size:18 final size:19
Alignment explanation
Indices: 26755038--26755077 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
26755028 TAATTGGTGA
26755038 TGTGTATTTGTTGTTT-AT
1 TGTGTATTTGTTGTTTAAT
26755056 TGTGTTATTTGTT-TTTAAT
1 TGTG-TATTTGTTGTTTAAT
26755075 TGT
1 TGT
26755078 TTTTATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (19 bp):
TGTGTATTTGTTGTTTAAT
Found at i:26758347 original size:21 final size:21
Alignment explanation
Indices: 26758293--26758348 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
26758283 TTTGTACGTC
* *
26758293 TATTATATAAATTATTAATTAG
1 TATTATAT-AATTACTAATTAA
26758315 TAGTGT-TA-AATTACTAATTAA
1 TA-T-TATATAATTACTAATTAA
26758336 TATTATATAATTA
1 TATTATATAATTA
26758349 TTATTGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 18 0.64
22 2 0.07
23 3 0.11
24 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATTATATAATTACTAATTAA
Found at i:26758447 original size:32 final size:34
Alignment explanation
Indices: 26758385--26758454 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 34
26758375 TGTTAGTAAC
* * *
26758385 TAATATTGTTAAATTTCATAAAATTTTTATAATT
1 TAATATTCTTAAATTTCATAAAATTGTTATAAGT
*
26758419 TAATATTCTT-AATTTGA-AAAATTGTTATAAGT
1 TAATATTCTTAAATTTCATAAAATTGTTATAAGT
26758451 TAAT
1 TAAT
26758455 TCTATAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 17 0.53
33 6 0.19
34 9 0.28
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (34 bp):
TAATATTCTTAAATTTCATAAAATTGTTATAAGT
Found at i:26767237 original size:23 final size:23
Alignment explanation
Indices: 26767194--26767237 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26767184 AAAGTGGATT
*
26767194 ACTCATCCTCCAAGAATAGAATG
1 ACTCATCCTCCAAGAAAAGAATG
*
26767217 ACTCAATCCTCTAA-AAAAGAA
1 ACTC-ATCCTCCAAGAAAAGAA
26767238 AAGATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.20
Consensus pattern (23 bp):
ACTCATCCTCCAAGAAAAGAATG
Found at i:26780655 original size:22 final size:22
Alignment explanation
Indices: 26780629--26780670 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
26780619 ATGTATAATT
26780629 TATTTAAAATATTAATATTTGA
1 TATTTAAAATATTAATATTTGA
*
26780651 TATTTGAAATATTAATATTT
1 TATTTAAAATATTAATATTT
26780671 TTAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TATTTAAAATATTAATATTTGA
Found at i:26780676 original size:16 final size:16
Alignment explanation
Indices: 26780657--26780687 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26780647 TTGATATTTG
26780657 AAATATTAATATTTTT
1 AAATATTAATATTTTT
26780673 AAATATTAATATTTT
1 AAATATTAATATTTT
26780688 ATTTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTAATATTTTT
Found at i:26780687 original size:15 final size:15
Alignment explanation
Indices: 26780650--26780688 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
26780640 TTAATATTTG
*
26780650 ATATTTGAAATATTA
1 ATATTTTAAATATTA
26780665 ATATTTTTAAATATTA
1 ATA-TTTTAAATATTA
26780681 ATATTTTA
1 ATATTTTA
26780689 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATATTTTAAATATTA
Found at i:26780860 original size:16 final size:16
Alignment explanation
Indices: 26780841--26780874 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26780831 TAATTGATAC
26780841 TTTAAATATTAATATT
1 TTTAAATATTAATATT
26780857 TTTAAATATTAATATT
1 TTTAAATATTAATATT
26780873 TT
1 TT
26780875 ATTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATATTAATATT
Found at i:26780879 original size:21 final size:21
Alignment explanation
Indices: 26780853--26780919 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
26780843 TAAATATTAA
26780853 TATTTTTAAATATTAATATTT
1 TATTTTTAAATATTAATATTT
26780874 TATTTTT-AAT-TTAAATATTCT
1 TATTTTTAAATATT-AATATT-T
* *
26780895 TATGGTTAAAATATTAATAATTT
1 TAT-TTTTAAATATTAAT-ATTT
26780918 TA
1 TA
26780920 AGTATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.05
20 9 0.24
21 11 0.29
22 2 0.05
23 9 0.24
24 5 0.13
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTTTTAAATATTAATATTT
Found at i:26780920 original size:17 final size:17
Alignment explanation
Indices: 26780900--26780946 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
26780890 ATTCTTATGG
26780900 TTAAAATATTAATAATT
1 TTAAAATATTAATAATT
* **
26780917 TT-AAGTATTTTTTAATT
1 TTAAAATA-TTAATAATT
26780934 TTAAAATATTAAT
1 TTAAAATATTAAT
26780947 TTTTTATAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
16 4 0.18
17 14 0.64
18 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAAATATTAATAATT
Found at i:26780957 original size:16 final size:17
Alignment explanation
Indices: 26780932--26780964 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26780922 TATTTTTTAA
26780932 TTTTAAAATAT-TAATT
1 TTTTAAAATATATAATT
*
26780948 TTTTATAATATATAATT
1 TTTTAAAATATATAATT
26780965 AAAAACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAAATATATAATT
Found at i:26797213 original size:41 final size:41
Alignment explanation
Indices: 26797156--26797233 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
26797146 AGATGTTGGT
*
26797156 GTTTTCTTTCAACCACACCATTCTGCTGTGGTCTATCAACG
1 GTTTTCTTTCAACCACACCATTCTGCTATGGTCTATCAACG
26797197 GTTTTCTTTCAACCACACCATTCTGCTATGGTCTATC
1 GTTTTCTTTCAACCACACCATTCTGCTATGGTCTATC
26797234 TACACATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.13, T:0.38
Consensus pattern (41 bp):
GTTTTCTTTCAACCACACCATTCTGCTATGGTCTATCAACG
Found at i:26801129 original size:16 final size:16
Alignment explanation
Indices: 26801108--26801143 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26801098 CAAAAGATGA
*
26801108 GCCATGTCAACATTGT
1 GCCATGTCAACATTAT
*
26801124 GCCATGTCAGCATTAT
1 GCCATGTCAACATTAT
26801140 GCCA
1 GCCA
26801144 CATCATCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (16 bp):
GCCATGTCAACATTAT
Found at i:26808502 original size:4 final size:4
Alignment explanation
Indices: 26808475--26808517 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
26808465 TTTCCTTTTA
*
26808475 ATTT ATATT A-TT ATTAT TTTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT AT-TT ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT AT
26808518 ATTTTAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
4 25 0.74
5 6 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:26808610 original size:30 final size:32
Alignment explanation
Indices: 26808564--26808624 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
26808554 ATGAACTATC
26808564 AATCATATTCTTTTTCTTTC-TTTTTATTANTT
1 AATCATATTCTTTTTCTTTCTTTTTTATTA-TT
26808596 AATCATA-T-TTTTTCTTTCTTTTTTATTAT
1 AATCATATTCTTTTTCTTTCTTTTTTATTAT
26808625 ACCATATGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 11 0.39
31 10 0.36
32 7 0.25
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.67
Consensus pattern (32 bp):
AATCATATTCTTTTTCTTTCTTTTTTATTATT
Found at i:26812705 original size:15 final size:14
Alignment explanation
Indices: 26812682--26812726 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 14
26812672 AATATAATTG
26812682 AAAAATATAAATAA
1 AAAAATATAAATAA
*
26812696 TAATAATATAAATAA
1 -AAAAATATAAATAA
26812711 AAAAAT-TAAATAA
1 AAAAATATAAATAA
26812724 AAA
1 AAA
26812727 CTTTATCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 10 0.36
14 5 0.18
15 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATATAAATAA
Found at i:26813911 original size:34 final size:34
Alignment explanation
Indices: 26813844--26813908 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
26813834 ATATTTGGAG
** *
26813844 AATATTATTATGGAATTTAAAATAATTAAAAATA
1 AATATTATTATACAATTAAAAATAATTAAAAATA
26813878 AATATTATTATACAATTAAAAAT-ATTAAAAA
1 AATATTATTATACAATTAAAAATAATTAAAAA
26813909 ATACAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (34 bp):
AATATTATTATACAATTAAAAATAATTAAAAATA
Found at i:26815173 original size:15 final size:14
Alignment explanation
Indices: 26815155--26815185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
26815145 TATATATTTT
26815155 TATTATAATTAATTA
1 TATTATAATT-ATTA
26815170 TATTATAATTATTA
1 TATTATAATTATTA
26815184 TA
1 TA
26815186 AAATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATAATTATTA
Found at i:26816910 original size:5 final size:5
Alignment explanation
Indices: 26816900--26816924 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26816890 ATCATCCAAG
26816900 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
26816925 ATCTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:26826068 original size:15 final size:14
Alignment explanation
Indices: 26826048--26826093 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
26826038 TTCTTAAAAC
26826048 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
26826063 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
26826078 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
26826092 AA
1 AA
26826094 TATTTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 23 0.82
16 1 0.04
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.26
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:26846068 original size:11 final size:11
Alignment explanation
Indices: 26846052--26846106 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
26846042 AGTCTTCTTA
26846052 TTATTTTTATT
1 TTATTTTTATT
26846063 TTATTTTTATT
1 TTATTTTTATT
26846074 TCTATTTATT-TAT
1 T-TATTT-TTAT-T
*
26846087 TTATTGATTATT
1 TTATT-TTTATT
26846099 TT-TTTTTA
1 TTATTTTTA
26846107 GACCAAACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
10 3 0.08
11 14 0.38
12 15 0.41
13 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:26847437 original size:2 final size:2
Alignment explanation
Indices: 26847424--26847456 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
26847414 ATATTATTTT
26847424 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
26847457 AATGGTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26854504 original size:2 final size:2
Alignment explanation
Indices: 26854497--26854536 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
26854487 CTCAAATTGA
* * *
26854497 AT AT AT AT AA AT AT AT AT AT AC AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26854537 TAAAGATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26855951 original size:35 final size:34
Alignment explanation
Indices: 26855911--26855982 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
26855901 AAATTTAAAT
* *
26855911 TTAAATAA-TCAAAAACAAATATCTCAAATATCAAC
1 TTAAATAACT-AAAAACAAATATC-CAAACAACAAC
26855946 TTAAATAACTAAAAACAAATATCCAAACAACAAC
1 TTAAATAACTAAAAACAAATATCCAAACAACAAC
26855980 TTA
1 TTA
26855983 GACAACATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 12 0.35
35 21 0.62
36 1 0.03
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (34 bp):
TTAAATAACTAAAAACAAATATCCAAACAACAAC
Found at i:26857905 original size:17 final size:18
Alignment explanation
Indices: 26857870--26857910 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
26857860 TTATTAATAA
**
26857870 ATATT-ATTTTTTATTAT
1 ATATTAATTTTTTAAAAT
26857887 AT-TTAATTTTTTAAAAT
1 ATATTAATTTTTTAAAAT
26857904 ATATTAA
1 ATATTAA
26857911 AAAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 14 0.70
18 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTAATTTTTTAAAAT
Found at i:26858875 original size:15 final size:15
Alignment explanation
Indices: 26858855--26858897 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
26858845 TATCTTCCTT
26858855 ACAATCACATTACTA
1 ACAATCACATTACTA
* *
26858870 ACAATCATATTACTT
1 ACAATCACATTACTA
**
26858885 GTAATCACATTAC
1 ACAATCACATTAC
26858898 ATTATAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (15 bp):
ACAATCACATTACTA
Found at i:26863498 original size:34 final size:34
Alignment explanation
Indices: 26863449--26863521 Score: 103
Period size: 33 Copynumber: 2.1 Consensus size: 34
26863439 AAATTTAAAT
* *
26863449 TTAAATAATCAAAAACAAATATCTCAAATATCAAC
1 TTAAATAATCAAAAACAAATATC-CAAACAACAAC
*
26863484 TTAAATAAT-TAAAACAAATATCCAAACAACAAC
1 TTAAATAATCAAAAACAAATATCCAAACAACAAC
26863517 TTAAA
1 TTAAA
26863522 CAACATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 14 0.40
34 12 0.34
35 9 0.26
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (34 bp):
TTAAATAATCAAAAACAAATATCCAAACAACAAC
Found at i:26863693 original size:15 final size:17
Alignment explanation
Indices: 26863675--26863707 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
26863665 ATTATTATTA
26863675 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAACGTT
26863690 ATAATTTTTATAACGTT
1 ATAATTTTTATAACGTT
26863707 A
1 A
26863708 ATATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
ATAATTTTTATAACGTT
Found at i:26866893 original size:13 final size:13
Alignment explanation
Indices: 26866875--26866899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26866865 CTCTCTCTCT
26866875 TTATATATATATA
1 TTATATATATATA
26866888 TTATATATATAT
1 TTATATATATAT
26866900 CATGCTAATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATATATATA
Found at i:26874242 original size:18 final size:19
Alignment explanation
Indices: 26874219--26874257 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
26874209 AGTAAAGTAG
26874219 AGGTGT-GTTAATCGGTTA
1 AGGTGTGGTTAATCGGTTA
26874237 AGGTGTGGGGTTAATCGGTTA
1 AGGTGT--GGTTAATCGGTTA
26874258 GAGCACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
21 12 0.67
ACGTcount: A:0.21, C:0.05, G:0.38, T:0.36
Consensus pattern (19 bp):
AGGTGTGGTTAATCGGTTA
Found at i:26881613 original size:23 final size:24
Alignment explanation
Indices: 26881572--26881621 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
26881562 TTAAACTAGA
* *
26881572 TAATTATATAATTATTATTGTTAG
1 TAATTATAGAATTAATATTGTTAG
26881596 TAATTA-AGAATTAATATTGTTAG
1 TAATTATAGAATTAATATTGTTAG
26881619 TAA
1 TAA
26881622 CTAATATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (24 bp):
TAATTATAGAATTAATATTGTTAG
Found at i:26892500 original size:23 final size:23
Alignment explanation
Indices: 26892457--26892500 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26892447 AAAGTGGATT
*
26892457 ACTCATCCTCCAAGAATAGAATG
1 ACTCATCCTCCAAGAAAAGAATG
*
26892480 ACTCAATCCTCTAA-AAAAGAA
1 ACTC-ATCCTCCAAGAAAAGAA
26892501 AAGATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.20
Consensus pattern (23 bp):
ACTCATCCTCCAAGAAAAGAATG
Found at i:26901944 original size:19 final size:19
Alignment explanation
Indices: 26901920--26901957 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26901910 CAAAATAATG
26901920 ATAGGCTCATTGCCATACT
1 ATAGGCTCATTGCCATACT
26901939 ATAGGCTCATTGCCATACT
1 ATAGGCTCATTGCCATACT
26901958 TGTCTGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
ATAGGCTCATTGCCATACT
Found at i:26905930 original size:22 final size:22
Alignment explanation
Indices: 26905880--26905930 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
26905870 TAATGTAATT
*
26905880 TATTTAAAATATTAATATTTAA
1 TATTTAAAATACTAATATTTAA
* *
26905902 TAATTAAAATACTAATATTTTA
1 TATTTAAAATACTAATATTTAA
*
26905924 TTTTTAA
1 TATTTAA
26905931 TTTAATCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTTAAAATACTAATATTTAA
Found at i:26906010 original size:44 final size:42
Alignment explanation
Indices: 26905878--26906002 Score: 132
Period size: 42 Copynumber: 2.9 Consensus size: 42
26905868 AATAATGTAA
* *
26905878 TTTATTTAAAATATTAAT-ATTTAATA-ATTAAAATACTAATAT
1 TTTATTTATAAT-TTAATCA-TTAATATATTAAAATATTAATAT
* *
26905920 TTTATTTTTAATTTAATCATTAATATTTTAAAATATTAATTAT
1 TTTATTTATAATTTAATCATTAATATATTAAAATATTAA-TAT
26905963 TTTATTTATAATTT-ATGCA-TAATTATGATTAAAATATTAA
1 TTTATTTATAATTTAAT-CATTAA-TAT-ATTAAAATATTAA
26906003 CACTTTTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
41 11 0.15
42 27 0.38
43 21 0.30
44 12 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTATTTATAATTTAATCATTAATATATTAAAATATTAATAT
Found at i:26906246 original size:23 final size:23
Alignment explanation
Indices: 26906220--26906265 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
26906210 AATTTAATAA
*
26906220 TTTATTNTTAAATATT-AAATATT
1 TTTATTTTTAAAT-TTAAAATATT
*
26906243 TTTATTTTTTAATTTAAAATATT
1 TTTATTTTTAAATTTAAAATATT
26906266 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTATTTTTAAATTTAAAATATT
Found at i:26906263 original size:30 final size:29
Alignment explanation
Indices: 26906229--26906313 Score: 81
Period size: 30 Copynumber: 3.0 Consensus size: 29
26906219 ATTTATTNTT
*
26906229 AAATATTAAATATTTTTATTTTTTAATTTA
1 AAATATTAAATATTTTTATTTTATAA-TTA
*
26906259 AAATATT-AAT-TTTTTATAATATATAATTA
1 AAATATTAAATATTTTTAT--TTTATAATTA
26906288 AAA-ACTTAAA-ATTTTTATTTTA-AATT
1 AAATA-TTAAATATTTTTATTTTATAATT
26906314 CTTTTTTCTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
27 4 0.09
28 11 0.23
29 11 0.23
30 21 0.45
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
AAATATTAAATATTTTTATTTTATAATTA
Found at i:26915966 original size:41 final size:41
Alignment explanation
Indices: 26915890--26915967 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
26915880 AGATGTTGGT
* *
26915890 GTTTTCTTTCAACCACACCATTCTGCTGTGCTCTATCAACG
1 GTTTTCTTTCAACCACACCATTCTACTATGCTCTATCAACG
* *
26915931 GTTTTCTTTCAACCACACTATTCTACTATGGTCTATC
1 GTTTTCTTTCAACCACACCATTCTACTATGCTCTATC
26915968 TACACATGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (41 bp):
GTTTTCTTTCAACCACACCATTCTACTATGCTCTATCAACG
Found at i:26918940 original size:34 final size:33
Alignment explanation
Indices: 26918897--26918962 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
26918887 TTAATAAGAT
26918897 ATTTAAATAAAATAGGTGTTCTAATCCTAAATNG
1 ATTTAAATAAAATAGGTGTTCTAATCCTAAAT-G
*
26918931 ATTTAAATAAAATAGGTGTTCTATTCCTAAAT
1 ATTTAAATAAAATAGGTGTTCTAATCCTAAAT
26918963 AGAACATGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.38
Consensus pattern (33 bp):
ATTTAAATAAAATAGGTGTTCTAATCCTAAATG
Found at i:26920137 original size:135 final size:136
Alignment explanation
Indices: 26919977--26920230 Score: 386
Period size: 135 Copynumber: 1.9 Consensus size: 136
26919967 CTTGGTAAAG
* *
26919977 AAATTTGGTTAAATTATACAATTAGTCTATGTACTCTATAAAAAAGTATGTATTTAGTCCCTATA
1 AAATTTGGTAAAATTATACAATTAGTCCATGTACTCTAT-AAAAAGTATGTATTTAGTCCCTATA
* * *
26920042 TAATAATTTGTGTGAATT-GATCCTTGTACTTTGTC-ATTTGTTAATTTCAATCCTTAACTAAAA
65 CAATAATTTGTATAAATTGGATCCTTGTACTTTGTCAATTTGTTAATTTCAATCCTTAACTAAAA
26920105 TATTGTT
130 TATTGTT
* * * * * *
26920112 AAATTTTGTAAAATTATACAGTTAGTCCCTGTACTCTATAAAAAGTATGTATTTAGTTCTTGTAC
1 AAATTTGGTAAAATTATACAATTAGTCCATGTACTCTATAAAAAGTATGTATTTAGTCCCTATAC
26920177 AATAATTTGTATAAATTGGATCCTTGTACTTTGTCAATTTGTTAATTTCAATCC
66 AATAATTTGTATAAATTGGATCCTTGTACTTTGTCAATTTGTTAATTTCAATCC
26920231 CTAAATCTAA
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
134 37 0.35
135 51 0.48
136 18 0.17
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (136 bp):
AAATTTGGTAAAATTATACAATTAGTCCATGTACTCTATAAAAAGTATGTATTTAGTCCCTATAC
AATAATTTGTATAAATTGGATCCTTGTACTTTGTCAATTTGTTAATTTCAATCCTTAACTAAAAT
ATTGTT
Found at i:26921234 original size:16 final size:16
Alignment explanation
Indices: 26921213--26921248 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26921203 AAAAAGATGA
*
26921213 GCCATGTCAACATTGT
1 GCCATGTCAACATTAT
*
26921229 GCCATGTCAGCATTAT
1 GCCATGTCAACATTAT
26921245 GCCA
1 GCCA
26921249 CATCATTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (16 bp):
GCCATGTCAACATTAT
Found at i:26928270 original size:18 final size:18
Alignment explanation
Indices: 26928249--26928283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26928239 TGTTATCGTG
*
26928249 TTTAAACGTGTATACATA
1 TTTAAACATGTATACATA
*
26928267 TTTAAATATGTATACAT
1 TTTAAACATGTATACAT
26928284 GACACGTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTAAACATGTATACATA
Found at i:26928553 original size:18 final size:18
Alignment explanation
Indices: 26928530--26928568 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
26928520 ATATTTTTAT
*
26928530 TTAATCGTGTTAAATGTG
1 TTAATCGTGTTAAACGTG
26928548 TTAATCGTGTTAAACGTG
1 TTAATCGTGTTAAACGTG
26928566 TTA
1 TTA
26928569 TTAATCGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (18 bp):
TTAATCGTGTTAAACGTG
Found at i:26929101 original size:1 final size:1
Alignment explanation
Indices: 26929095--26929125 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
26929085 GGGTTCGGCA
26929095 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
26929126 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:26933501 original size:33 final size:34
Alignment explanation
Indices: 26933440--26933503 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
26933430 ATATTTAGAC
* *
26933440 AATATTATTATAGAATTTAAAATAATTAAAAATA
1 AATATTATTATACAATTAAAAATAATTAAAAATA
26933474 AATATTATTATACAATTAAAAAT-ATTAAAA
1 AATATTATTATACAATTAAAAATAATTAAAA
26933504 CATACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (34 bp):
AATATTATTATACAATTAAAAATAATTAAAAATA
Found at i:26957686 original size:19 final size:19
Alignment explanation
Indices: 26957662--26957699 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
26957652 ACTTCTAAAC
26957662 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
26957681 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
26957700 AGTCAAATGG
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:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:26958954 original size:22 final size:22
Alignment explanation
Indices: 26958863--26958947 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
26958853 TAAGTTATGA
26958863 AATGCCTAAAAATCAGACACAC
1 AATGCCTAAAAATCAGACACAC
*
26958885 AATGTCTAAAAATCA-ATCACAC
1 AATGCCTAAAAATCAGA-CACAC
* * * *
26958907 AATGCCT-ACAACCTAGTCACTC
1 AATGCCTAAAAATC-AGACACAC
26958929 AATGCCTAAAAATCAGACA
1 AATGCCTAAAAATCAGACA
26958948 TATAATGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 5 0.10
22 41 0.82
23 4 0.08
ACGTcount: A:0.46, C:0.27, G:0.08, T:0.19
Consensus pattern (22 bp):
AATGCCTAAAAATCAGACACAC
Found at i:26959042 original size:22 final size:22
Alignment explanation
Indices: 26959017--26959082 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
26959007 TGTCTACAAC
*
26959017 CCAATCATACAATACCTGAAAA
1 CCAATCACACAATACCTGAAAA
* *
26959039 CCAATCACGCAATACTTGAAAA
1 CCAATCACACAATACCTGAAAA
*
26959061 CCAGTCACGA-AATACCT-AAAA
1 CCAATCAC-ACAATACCTGAAAA
26959082 C
1 C
26959083 TAGTCACGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.14
22 32 0.86
ACGTcount: A:0.47, C:0.29, G:0.08, T:0.17
Consensus pattern (22 bp):
CCAATCACACAATACCTGAAAA
Found at i:26959087 original size:21 final size:22
Alignment explanation
Indices: 26959027--26959090 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
26959017 CCAATCATAC
* *
26959027 AATACCTGAAAACCAATCACGC
1 AATACCTGAAAACCAGTCACGA
*
26959049 AATACTTGAAAACCAGTCACGA
1 AATACCTGAAAACCAGTCACGA
*
26959071 AATACCT-AAAACTAGTCACG
1 AATACCTGAAAACCAGTCACG
26959091 TAATGCCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 12 0.32
22 25 0.68
ACGTcount: A:0.45, C:0.27, G:0.11, T:0.17
Consensus pattern (22 bp):
AATACCTGAAAACCAGTCACGA
Found at i:26959099 original size:21 final size:21
Alignment explanation
Indices: 26959027--26959100 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
26959017 CCAATCATAC
* *
26959027 AATACCTGAAAACCAATCACGC
1 AATACCT-AAAACCAGTCACGA
*
26959049 AATACTTGAAAACCAGTCACGA
1 AATACCT-AAAACCAGTCACGA
* *
26959071 AATACCTAAAACTAGTCACGT
1 AATACCTAAAACCAGTCACGA
*
26959092 AATGCCTAA
1 AATACCTAA
26959101 GCTCTAGAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 20 0.44
22 25 0.56
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.19
Consensus pattern (21 bp):
AATACCTAAAACCAGTCACGA
Found at i:26959133 original size:22 final size:22
Alignment explanation
Indices: 26959091--26959133 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26959081 ACTAGTCACG
* *
26959091 TAATGCCTAAGCTCTAGAGACA
1 TAATGCCTAAGCTCCAAAGACA
*
26959113 TAATGCCTAAGTTCCAAAGAC
1 TAATGCCTAAGCTCCAAAGAC
26959134 GCAATAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (22 bp):
TAATGCCTAAGCTCCAAAGACA
Found at i:26959176 original size:38 final size:38
Alignment explanation
Indices: 26959134--26959214 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
26959124 TTCCAAAGAC
* * * * *
26959134 GCAATAATTAAGTCACGTAAAGCCTAAAAGCCAGTCTT
1 GCAATAACTAAGTCAAGCAAAGCCTAAAAACCAGCCTT
* *
26959172 GCAATACCTAAGTCAAGCAATGCCTAAAAACCAGCCTT
1 GCAATAACTAAGTCAAGCAAAGCCTAAAAACCAGCCTT
26959210 GCAAT
1 GCAAT
26959215 GCCTAATAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21
Consensus pattern (38 bp):
GCAATAACTAAGTCAAGCAAAGCCTAAAAACCAGCCTT
Found at i:26962079 original size:24 final size:25
Alignment explanation
Indices: 26962030--26962142 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
26962020 TATTATGAAA
* *
26962030 ATGGCATTGCCTAACTGTTA-CATGT
1 ATGGCATTGCATGACTGTTATC-TGT
*
26962055 A-GGCATTGCGTGACTGTTATCTGT
1 ATGGCATTGCATGACTGTTATCTGT
* * * *
26962079 ATGGAAGTT-CTTGAGTGTTATATGT
1 ATGGCA-TTGCATGACTGTTATCTGT
* *
26962104 ATGGCATTGCATGAATTTTATCTGT
1 ATGGCATTGCATGACTGTTATCTGT
* *
26962129 ACGACATTGCATGA
1 ATGGCATTGCATGA
26962143 ATTCTGTATT
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 22 0.31
25 47 0.66
26 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (25 bp):
ATGGCATTGCATGACTGTTATCTGT
Found at i:26965780 original size:2 final size:2
Alignment explanation
Indices: 26965773--26965797 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26965763 CTGATTATTG
26965773 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
26965798 TATCTCAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:26967000 original size:22 final size:23
Alignment explanation
Indices: 26966966--26967012 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
26966956 ATTTCTATGC
26966966 ATTACTATAAAAACTAAGC-CAA
1 ATTACTATAAAAACTAAGCTCAA
* * *
26966988 ATTATTATCAAAATTAAGCTCAA
1 ATTACTATAAAAACTAAGCTCAA
26967011 AT
1 AT
26967013 AACTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (23 bp):
ATTACTATAAAAACTAAGCTCAA
Found at i:26967148 original size:3 final size:3
Alignment explanation
Indices: 26967140--26967181 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
26967130 ATATAGTTAT
*
26967140 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAT TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
26967182 AAAAGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:26968559 original size:4 final size:4
Alignment explanation
Indices: 26968547--26968594 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
26968537 TAATGTAGAG
*
26968547 AAAT AAAAT AAAT -AAT AAAT -AA- AAAT AACT AAA- AAAT AAAT AAAT
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
26968592 AAA
1 AAA
26968595 GAAAAAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
3 10 0.27
4 23 0.62
5 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:26968568 original size:11 final size:11
Alignment explanation
Indices: 26968552--26968593 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
26968542 TAGAGAAATA
26968552 AAATAAATAAT
1 AAATAAATAAT
26968563 AAATAAA-AAT
1 AAATAAATAAT
* *
26968573 AACTAAAAAAT
1 AAATAAATAAT
26968584 AAATAAATAA
1 AAATAAATAA
26968594 AGAAAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:26968573 original size:17 final size:17
Alignment explanation
Indices: 26968547--26968594 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
26968537 TAATGTAGAG
*
26968547 AAAT-AAAATAAATAAT
1 AAATAAAAATAAATAAA
*
26968563 AAATAAAAATAACTAAA
1 AAATAAAAATAAATAAA
26968580 AAAT--AAATAAATAAA
1 AAATAAAAATAAATAAA
26968595 GAAAAAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 10 0.36
16 4 0.14
17 14 0.50
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAAATAAATAAA
Found at i:26968579 original size:10 final size:10
Alignment explanation
Indices: 26968547--26968590 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
26968537 TAATGTAGAG
26968547 AAATAAAATAA
1 AAAT-AAATAA
26968558 ATAATAAATAA
1 A-AATAAATAA
*
26968569 AAATAACTAAA
1 AAATAAAT-AA
26968580 AAATAAATAA
1 AAATAAATAA
26968590 A
1 A
26968591 TAAAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
10 9 0.31
11 17 0.59
12 3 0.10
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAATAA
Found at i:26968628 original size:8 final size:8
Alignment explanation
Indices: 26968610--26968652 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
26968600 AGATTTTTGT
26968610 TGGGT-AA
1 TGGGTAAA
26968617 TGGGTAAA
1 TGGGTAAA
* *
26968625 TGGGTTAG
1 TGGGTAAA
26968633 TGGGTAAA
1 TGGGTAAA
*
26968641 TGGGTAAG
1 TGGGTAAA
26968649 TGGG
1 TGGG
26968653 CTAGTACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
7 5 0.17
8 25 0.83
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (8 bp):
TGGGTAAA
Found at i:26968638 original size:16 final size:16
Alignment explanation
Indices: 26968610--26968652 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
26968600 AGATTTTTGT
26968610 TGGGTAA-TGGGTAAA
1 TGGGTAAGTGGGTAAA
*
26968625 TGGGTTAGTGGGTAAA
1 TGGGTAAGTGGGTAAA
26968641 TGGGTAAGTGGG
1 TGGGTAAGTGGG
26968653 CTAGTACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.26, C:0.00, G:0.47, T:0.28
Consensus pattern (16 bp):
TGGGTAAGTGGGTAAA
Found at i:26968645 original size:24 final size:23
Alignment explanation
Indices: 26968610--26968657 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
26968600 AGATTTTTGT
*
26968610 TGGGTAATGGGTAAATGGGTTAG
1 TGGGTAATGGGTAAATGGGCTAG
*
26968633 TGGGTAAATGGGTAAGTGGGCTAG
1 TGGGT-AATGGGTAAATGGGCTAG
26968657 T
1 T
26968658 ACAATTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.25, C:0.02, G:0.44, T:0.29
Consensus pattern (23 bp):
TGGGTAATGGGTAAATGGGCTAG
Found at i:26971547 original size:11 final size:11
Alignment explanation
Indices: 26971531--26971558 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
26971521 AATAAATCAA
26971531 TAACACCATAT
1 TAACACCATAT
26971542 TAACACCATAT
1 TAACACCATAT
26971553 TAACAC
1 TAACAC
26971559 TAGATTAAGC
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:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (11 bp):
TAACACCATAT
Found at i:26980202 original size:20 final size:20
Alignment explanation
Indices: 26980177--26980217 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
26980167 GTAATTAGTT
26980177 AAAAAAATTTCAAAAAA-AAG
1 AAAAAAA-TTCAAAAAATAAG
26980197 AAAAAAATTCAAAAAATAAG
1 AAAAAAATTCAAAAAATAAG
26980217 A
1 A
26980218 GCTCAGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAAAATTCAAAAAATAAG
Found at i:26990415 original size:49 final size:49
Alignment explanation
Indices: 26990336--26990430 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 49
26990326 GTTTCTAGGA
*
26990336 GGTTTTTCAAATTTTCCAGCACTTCATCTTCTTCTTCTTCCTTTCCATT
1 GGTTCTTCAAATTTTCCAGCACTTCATCTTCTTCTTCTTCCTTTCCATT
*
26990385 NGGTTCTTCAAA-TTTCCAGCACTTCTTCTTCTTCTTCTTCCTTTCC
1 -GGTTCTTCAAATTTTCCAGCACTTCATCTTCTTCTTCTTCCTTTCC
26990431 CATGTTTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 33 0.77
50 10 0.23
ACGTcount: A:0.13, C:0.31, G:0.06, T:0.49
Consensus pattern (49 bp):
GGTTCTTCAAATTTTCCAGCACTTCATCTTCTTCTTCTTCCTTTCCATT
Found at i:26991297 original size:37 final size:37
Alignment explanation
Indices: 26991256--26991327 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
26991246 GTGATGTTGA
26991256 AGTGTGCGAGTAGGGAGTGCACACATGATGATGATAG
1 AGTGTGCGAGTAGGGAGTGCACACATGATGATGATAG
26991293 AGTGTGCGAGTAGGGAGTGCACACATGATGATGAT
1 AGTGTGCGAGTAGGGAGTGCACACATGATGATGAT
26991328 GCATGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.22
Consensus pattern (37 bp):
AGTGTGCGAGTAGGGAGTGCACACATGATGATGATAG
Found at i:26995453 original size:22 final size:22
Alignment explanation
Indices: 26995425--26995472 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
26995415 GTTAGATGCC
26995425 ATGAGTTCATAGAGCCTTACTT
1 ATGAGTTCATAGAGCCTTACTT
*
26995447 ATGAGTTCCTAGAGCCTTACTT
1 ATGAGTTCATAGAGCCTTACTT
26995469 ATGA
1 ATGA
26995473 CCGTGCACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (22 bp):
ATGAGTTCATAGAGCCTTACTT
Found at i:26997819 original size:22 final size:22
Alignment explanation
Indices: 26997790--26997851 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
26997780 TGAATAACAA
*
26997790 CCAGTCACACATTGCCTAATAT
1 CCAGTCACACAATGCCTAATAT
*
26997812 CCATTCACACAATGCCTAATAT
1 CCAGTCACACAATGCCTAATAT
26997834 CCAGTCACGA-AATGCCTA
1 CCAGTCAC-ACAATGCCTA
26997852 CAAAATAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.34, C:0.32, G:0.10, T:0.24
Consensus pattern (22 bp):
CCAGTCACACAATGCCTAATAT
Found at i:26998888 original size:22 final size:21
Alignment explanation
Indices: 26998863--26998925 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
26998853 CACATAACAA
26998863 CCAGTCATACAATGCCTAATAT
1 CCAGTCA-ACAATGCCTAATAT
*
26998885 CCAGTCACACAATACCTAATAT
1 CCAGTCA-ACAATGCCTAATAT
*
26998907 CCAGTGAAGCAATGCCTAA
1 CCAGTCAA-CAATGCCTAA
26998926 AAAATTTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (21 bp):
CCAGTCAACAATGCCTAATAT
Found at i:26999898 original size:21 final size:21
Alignment explanation
Indices: 26999872--26999925 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
26999862 AGTTTTTAGG
26999872 CATTGCGTGACTGACTTTGAA
1 CATTGCGTGACTGACTTTGAA
**
26999893 CATTGCGTGACTGACTTTGGG
1 CATTGCGTGACTGACTTTGAA
*
26999914 CATTGAGTGACT
1 CATTGCGTGACT
26999926 AGTTTTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (21 bp):
CATTGCGTGACTGACTTTGAA
Found at i:26999989 original size:23 final size:23
Alignment explanation
Indices: 26999912--27000042 Score: 149
Period size: 23 Copynumber: 5.6 Consensus size: 23
26999902 ACTGACTTTG
* *
26999912 GGCATTGAGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAG--TTAG-TAA
26999938 GGCATTGCGTGACTAGTT-G-ATA
1 GGCATTGCGTGACTAGTTAGTA-A
26999960 GGCATTGCGTGACTAGTTAGTAA
1 GGCATTGCGTGACTAGTTAGTAA
*
26999983 GGCATTGCATGACTAGTTAGTAA
1 GGCATTGCGTGACTAGTTAGTAA
* *
27000006 GGCATTGTGTGACTAATTAGTAA
1 GGCATTGCGTGACTAGTTAGTAA
* *
27000029 GACATTGTGTGACT
1 GGCATTGCGTGACT
27000043 TAGGCATTAC
Statistics
Matches: 96, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
21 1 0.01
22 19 0.20
23 58 0.60
24 3 0.03
26 15 0.16
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (23 bp):
GGCATTGCGTGACTAGTTAGTAA
Found at i:27000087 original size:22 final size:21
Alignment explanation
Indices: 27000054--27000135 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 21
27000044 AGGCATTACT
27000054 TAAAAATCAGTCACGCAATGCC
1 TAAAAATCAGTCACGCAATG-C
*
27000076 TAAAAA-CTAGTCACACAATGC
1 TAAAAATC-AGTCACGCAATGC
* * * *
27000097 TTATAA-CTAATCACGTAATGTC
1 TAAAAATC-AGTCACGCAATG-C
27000119 TAAAAATCAGTCACGCA
1 TAAAAATCAGTCACGCA
27000136 GTGATTAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
21 17 0.36
22 29 0.62
23 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (21 bp):
TAAAAATCAGTCACGCAATGC
Found at i:27003548 original size:55 final size:55
Alignment explanation
Indices: 27003483--27003599 Score: 216
Period size: 55 Copynumber: 2.1 Consensus size: 55
27003473 TTACAAGCCC
*
27003483 TTAATCTATTTAATTTCCATAGCCACTCATTTGACTGTAGAGGTGCCAAAGATAA
1 TTAATTTATTTAATTTCCATAGCCACTCATTTGACTGTAGAGGTGCCAAAGATAA
*
27003538 TTAATTTATTTAATTTCCATAGCCAGTCATTTGACTGTAGAGGTGCCAAAGATAA
1 TTAATTTATTTAATTTCCATAGCCACTCATTTGACTGTAGAGGTGCCAAAGATAA
27003593 TTAATTT
1 TTAATTT
27003600 TCATACTATC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (55 bp):
TTAATTTATTTAATTTCCATAGCCACTCATTTGACTGTAGAGGTGCCAAAGATAA
Found at i:27011175 original size:10 final size:10
Alignment explanation
Indices: 27011160--27011202 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
27011150 TTATATAGGT
27011160 TATATACATA
1 TATATACATA
**
27011170 TATATAGGT-
1 TATATACATA
27011179 TATATACATA
1 TATATACATA
27011189 TATATACATA
1 TATATACATA
27011199 TATA
1 TATA
27011203 ATTTTTGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (10 bp):
TATATACATA
Found at i:27011175 original size:19 final size:19
Alignment explanation
Indices: 27011151--27011194 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
27011141 AATTTATCAT
27011151 TATATAGGTTATATACATA
1 TATATAGGTTATATACATA
27011170 TATATAGGTTATATACATA
1 TATATAGGTTATATACATA
27011189 TATATA
1 TATATA
27011195 CATATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (19 bp):
TATATAGGTTATATACATA
Found at i:27011707 original size:2 final size:2
Alignment explanation
Indices: 27011700--27011786 Score: 128
Period size: 2 Copynumber: 45.0 Consensus size: 2
27011690 ATGTCTTTTA
*
27011700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT CT AT AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
27011741 AT A- AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27011781 AT AT AT
1 AT AT AT
27011787 CACCTTCATC
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
1 4 0.05
2 73 0.94
3 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27024752 original size:27 final size:28
Alignment explanation
Indices: 27024722--27024783 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
27024712 TAAATTTATA
27024722 TTAATATAA-AA-TTACAAGTTATATATT
1 TTAATATAATAATTTACAAGTTA-ATATT
* *
27024749 TTAA-ATAATAATTTATATGTTAATATT
1 TTAATATAATAATTTACAAGTTAATATT
*
27024776 ATAATATA
1 TTAATATA
27024784 TGATAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 14 0.48
28 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (28 bp):
TTAATATAATAATTTACAAGTTAATATT
Found at i:27024873 original size:16 final size:16
Alignment explanation
Indices: 27024854--27024895 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
27024844 AATAAAAAAT
27024854 ATTATAAATATATATA-
1 ATTATAAATATAT-TAC
*
27024870 ATTATAAAAATATTAC
1 ATTATAAATATATTAC
27024886 A-TATAAATAT
1 ATTATAAATAT
27024896 TTAATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTATAAATATATTAC
Found at i:27025143 original size:23 final size:23
Alignment explanation
Indices: 27025094--27025144 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
27025084 AAGTAATATA
* * *
27025094 TTATACATATACATATATTTAAT
1 TTATACATAAACATATATGTAAC
27025117 TTATACATAAACAT-TAATGTAAC
1 TTATACATAAACATAT-ATGTAAC
27025140 TTATA
1 TTATA
27025145 ATAGAGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (23 bp):
TTATACATAAACATATATGTAAC
Found at i:27026807 original size:41 final size:41
Alignment explanation
Indices: 27026735--27026812 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
27026725 TGCCTTTGTG
* * *
27026735 TTTGTGTCTCTGATGTTGTAAACATCAGAATACAGTGGTGT
1 TTTGTGTCTATGATGATGAAAACATCAGAATACAGTGGTGT
* **
27026776 TTTGTGTCTATGATGATGAAAACTTTTGAATACAGTG
1 TTTGTGTCTATGATGATGAAAACATCAGAATACAGTG
27026813 TTGCTGTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (41 bp):
TTTGTGTCTATGATGATGAAAACATCAGAATACAGTGGTGT
Found at i:27040484 original size:11 final size:11
Alignment explanation
Indices: 27040468--27040536 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
27040458 GCTTTTGAAG
27040468 TTTATT-TTTAT
1 TTTATTATTT-T
27040479 TTTATTATTTT
1 TTTATTATTTT
*
27040490 TTTAATATTATAT
1 TTTATTATT-T-T
* *
27040503 TTTTTTATCTT
1 TTTATTATTTT
*
27040514 TTCATTATATTT
1 TTTATTAT-TTT
27040526 TTTATTTATTT
1 TTTA-TTATTT
27040537 AAAATTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
11 22 0.49
12 12 0.27
13 11 0.24
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:27040493 original size:16 final size:16
Alignment explanation
Indices: 27040472--27040532 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
27040462 TTGAAGTTTA
27040472 TTTTTATTTTATTATT
1 TTTTTATTTTATTATT
*
27040488 TTTTTAATATTA-TATT
1 TTTTT-ATTTTATTATT
27040504 TTTTTATCTTTTCATTATAT
1 TTTTTA--TTTT-ATTAT-T
27040524 TTTTTATTT
1 TTTTTATTT
27040533 ATTTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.38
17 8 0.22
18 4 0.11
19 3 0.08
20 7 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTTTATTATT
Found at i:27040510 original size:24 final size:24
Alignment explanation
Indices: 27040476--27040543 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 24
27040466 AGTTTATTTT
* *
27040476 TATTTTATTATTTTTTTAATATTA
1 TATTTTTTTATTTTTTTAAAATTA
* *
27040500 TATTTTTTTA-TCTTTT--CATTA
1 TATTTTTTTATTTTTTTAAAATTA
*
27040521 TA-TTTTTTATTTATTTAAAATTA
1 TATTTTTTTATTTTTTTAAAATTA
27040544 AAAATCTCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
23 9 0.26
24 9 0.26
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (24 bp):
TATTTTTTTATTTTTTTAAAATTA
Found at i:27041035 original size:24 final size:23
Alignment explanation
Indices: 27041000--27041060 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
27040990 AAGCTACCCC
27041000 TATA-TTATTATTTTTACTATTTAT
1 TATATTTATTATTTTTACT-TTT-T
*
27041024 T-TATTTATTATTTTTTTCTTTTT
1 TATATTTATTA-TTTTTACTTTTT
27041047 TATATTTATTATTT
1 TATATTTATTATTT
27041061 ATCTCCCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 19 0.58
25 7 0.21
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (23 bp):
TATATTTATTATTTTTACTTTTT
Found at i:27041233 original size:17 final size:19
Alignment explanation
Indices: 27041207--27041243 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
27041197 ATATATGTTT
*
27041207 TTATTTTTAT-TAT-TATA
1 TTATTCTTATATATATATA
27041224 TTATTCTTATATATATATA
1 TTATTCTTATATATATATA
27041243 T
1 T
27041244 ATATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTCTTATATATATATA
Found at i:27042588 original size:22 final size:19
Alignment explanation
Indices: 27042553--27042615 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
27042543 CCAAAGTTCC
27042553 TTTTTTTTTGTTGTTTTGT
1 TTTTTTTTTGTTGTTTTGT
27042572 TTTTTATGTTTCGTTGTTTT-T
1 TTTTT-T-TTT-GTTGTTTTGT
*
27042593 TTATTTTTTTTTTGTTTTGT
1 TT-TTTTTTTGTTGTTTTGT
27042613 TTT
1 TTT
27042616 AAATGAGACT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
19 13 0.34
20 7 0.18
21 7 0.18
22 11 0.29
ACGTcount: A:0.03, C:0.02, G:0.13, T:0.83
Consensus pattern (19 bp):
TTTTTTTTTGTTGTTTTGT
Done.