Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 137 of 208
Found at i:44693982 original size:140 final size:140
Alignment explanation
Indices: 44693793--44694352 Score: 732
Period size: 140 Copynumber: 4.0 Consensus size: 140
44693783 ACAAAAGTCA
* * * * *
44693793 GCATAGTGTTGGACAAACCCAACTCTTGTCTAATTGTTGCCTTAGGCATGCATATCCCAACCCTT
1 GCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTT
* * * * * *
44693858 ATATAAAGAGTTTGTCAAAGCATATGTCAACAAGTCTATCTCAACACTTAAGAAAATGTTGGCCC
66 ATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCTCAACACTTAGGAAAGTGTCGGCCC
44693923 AAAAGTGTCG
131 AAAAGTGTCG
* * * *
44693933 ACATAGTGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAAGCATGCATA-CCCTAACCCT
1 GCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCC-AACCCT
* ** * * *
44693997 TATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACAATTAGGAAAGTGTTGGCC
65 TATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCTCAACACTTAGGAAAGTGTCGGCC
*
44694062 CAAATGTGTCG
130 CAAAAGTGTCG
** * * * * *
44694073 GCATAGTGTTGTG-CAAAGTTGAATCTTATTAAATTGTTGCCTTAGGCATGTATATTCCAACCCT
1 GCATAGTGTTG-GACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCT
* * *
44694137 TATACAAAGAGTTGACCAAAGCGTATGTCAGCAAGTCTATACT-AACACTTAGGAAAGTGTCGGC
65 TATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTAT-CTCAACACTTAGGAAAGTGTCGGC
44694201 CCAAAAGTGTCG
129 CCAAAAGTGTCG
* *
44694213 GCATAATGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATACCCCAACCCTT
1 GCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTT
* *
44694278 ATACAAAGAGTTGGCCAAAGCATATATCGACAAGTCTATC-CTAACACTTAGGAAAGTGTCGGCC
66 ATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCTC-AACACTTAGGAAAGTGTCGGCC
44694342 CAAAAGTGTCG
130 CAAAAGTGTCG
44694353 CGGTAAGCCT
Statistics
Matches: 362, Mismatches: 51, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
139 5 0.01
140 353 0.98
141 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (140 bp):
GCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTT
ATACAAAGAGTTGGCCAAAGCATATGTCAACAAGTCTATCTCAACACTTAGGAAAGTGTCGGCCC
AAAAGTGTCG
Found at i:44694294 original size:280 final size:280
Alignment explanation
Indices: 44693824--44694352 Score: 828
Period size: 280 Copynumber: 1.9 Consensus size: 280
44693814 ACTCTTGTCT
* *
44693824 AATTGTTGCCTTAGGCATGCATATCCCAACCCTTATATAAAGAGTTTGTCAAAGCATATGTCAAC
1 AATTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTTGCCAAAGCATATGTCAAC
* *
44693889 AAGTCTATCTCAACACTTAAGAAAATGTTGGCCCAAAAGTGTCGACATAGTGTTGGACAAAGCCG
66 AAGTCTATCTCAACACTTAAGAAAATGTCGGCCCAAAAGTGTCGACATAATGTTGGACAAAGCCG
*
44693954 ACTCTTATTTAAGAGTTACCTTAAGCATGCATACCCTAACCCTTATACAAAGAGTTGGCCAAAGC
131 ACTCTTATTTAAGAGTTACCTTAAGCATGCATACCCCAACCCTTATACAAAGAGTTGGCCAAAGC
* * * * *
44694019 GTATGTCGGCAAGTCTATCCCAACAATTAGGAAAGTGTTGGCCCAAATGTGTCGGCATAGTGTTG
196 ATATATCGACAAGTCTATCCCAACAATTAGGAAAGTGTCGGCCCAAAAGTGTCGGCATAGTGTTG
44694084 TGCAAAGTTGAATCTTATTA
261 TGCAAAGTTGAATCTTATTA
* * * *
44694104 AATTGTTGCCTTAGGCATGTATATTCCAACCCTTATACAAAGAG-TTGACCAAAGCGTATGTCAG
1 AATTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTTG-CCAAAGCATATGTCAA
* * *
44694168 CAAGTCTATACT-AACACTTAGGAAAGTGTCGGCCCAAAAGTGTCGGCATAATGTTGGACAAAGC
65 CAAGTCTAT-CTCAACACTTAAGAAAATGTCGGCCCAAAAGTGTCGACATAATGTTGGACAAAGC
* * *
44694232 CGACTCTTATTTAAGTGTTGCCTTAGGCATGCATACCCCAACCCTTATACAAAGAGTTGGCCAAA
129 CGACTCTTATTTAAGAGTTACCTTAAGCATGCATACCCCAACCCTTATACAAAGAGTTGGCCAAA
* *
44694297 GCATATATCGACAAGTCTATCCTAACACTTAGGAAAGTGTCGGCCCAAAAGTGTCG
194 GCATATATCGACAAGTCTATCCCAACAATTAGGAAAGTGTCGGCCCAAAAGTGTCG
44694353 CGGTAAGCCT
Statistics
Matches: 225, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
279 3 0.01
280 220 0.98
281 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (280 bp):
AATTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTTGCCAAAGCATATGTCAAC
AAGTCTATCTCAACACTTAAGAAAATGTCGGCCCAAAAGTGTCGACATAATGTTGGACAAAGCCG
ACTCTTATTTAAGAGTTACCTTAAGCATGCATACCCCAACCCTTATACAAAGAGTTGGCCAAAGC
ATATATCGACAAGTCTATCCCAACAATTAGGAAAGTGTCGGCCCAAAAGTGTCGGCATAGTGTTG
TGCAAAGTTGAATCTTATTA
Found at i:44711147 original size:27 final size:26
Alignment explanation
Indices: 44711117--44711170 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
44711107 AGTCCTTGTA
44711117 CTATTTGTATATTT-GGAATTTAGTCTC
1 CTATTT-T-TATTTAGGAATTTAGTCTC
44711144 CTATTTTTATTTCAAGGAATTTAGTCT
1 CTATTTTTATTT--AGGAATTTAGTCT
44711171 TTTTACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
26 1 0.04
27 6 0.25
28 12 0.50
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (26 bp):
CTATTTTTATTTAGGAATTTAGTCTC
Found at i:44715890 original size:6 final size:6
Alignment explanation
Indices: 44715879--44715903 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
44715869 TCTTCTTTAT
44715879 TCTTCC TCTTCC TCTTCC TCTTCC T
1 TCTTCC TCTTCC TCTTCC TCTTCC T
44715904 TAAGTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCC
Found at i:44719767 original size:50 final size:50
Alignment explanation
Indices: 44719692--44720089 Score: 499
Period size: 50 Copynumber: 7.8 Consensus size: 50
44719682 TTTCTTGTAC
* * * * ** * **
44719692 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
44719742 TGCCCATGCCATGTCCCTGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
44719792 TGCCAACGCCATGTCCCAGAGATGGTCTTACATGAGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
44719842 TGCCAACCCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44719892 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44719942 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
44719992 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACATCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC--CTC-TCATCTC---GG
* *
44720048 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44720090 TTACCCAAAT
Statistics
Matches: 308, Mismatches: 34, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
50 257 0.83
52 3 0.01
53 7 0.02
54 3 0.01
56 38 0.12
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44719809 original size:100 final size:100
Alignment explanation
Indices: 44719643--44720089 Score: 493
Period size: 100 Copynumber: 4.4 Consensus size: 100
44719633 GAATATAACA
* * * ** * * * * *
44719643 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--TGCCAATGCCATAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATGT
* **
44719706 CCCAGATATGGTCTTACATGAGAGTTCTCATATAAG
65 CCCAGACATGGTCTTACATGAGACCTCTCATATAAG
* * * ** *
44719742 TGCCCATGCCATGTCCCTGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* * **
44719807 CCAGAGATGGTCTTACATGAGACCTCTCATCTTGG
66 CCAGACATGGTCTTACATGAGACCTCTCATATAAG
* *
44719842 TGCCAACCCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* * * **
44719907 CCAGACATGGTCTTACATGGGACCTCTTATCTCGG
66 CCAGACATGGTCTTACATGAGACCTCTCATATAAG
* *
44719942 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* *
44720007 CCAGACATGGTCTTACATGGGACATCTCATAATCTCAATG
66 CCAGACATGGTCTTACATGAGACCTCTCAT-A--T-AA-G
* *
44720047 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
44720090 TTACCCAAAT
Statistics
Matches: 296, Mismatches: 44, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
99 35 0.12
100 220 0.74
103 1 0.00
105 1 0.00
106 39 0.13
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACATGAGACCTCTCATATAAG
Found at i:44733618 original size:38 final size:38
Alignment explanation
Indices: 44733576--44733707 Score: 124
Period size: 38 Copynumber: 3.5 Consensus size: 38
44733566 TGCCACCCCA
*
44733576 AAGGACTAGTAGATAATCATTTACACAGTGTAGCCTCG
1 AAGGACTAGTAGATAATCAATTACACAGTGTAGCCTCG
* * * ** *
44733614 AAGGACTAGTAGATAATGACTTACA-TGATGTCTCCTCA
1 AAGGACTAGTAGATAATCAATTACACAG-TGTAGCCTCG
* * * * *
44733652 AAGGACCAATAGATAATCAATTACACGGTGTTG-TTCCG
1 AAGGACTAGTAGATAATCAATTACACAGTGTAGCCT-CG
44733690 AAGGACTAGTAGATAATC
1 AAGGACTAGTAGATAATC
44733708 TTCCCATTCC
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
37 2 0.03
38 71 0.96
39 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (38 bp):
AAGGACTAGTAGATAATCAATTACACAGTGTAGCCTCG
Found at i:44738153 original size:23 final size:22
Alignment explanation
Indices: 44738106--44738154 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
44738096 GTGTAATAAT
* *
44738106 ATTGAATATATATATGTTTTTA
1 ATTGAATATATACATGTTTTGA
44738128 ATTGAAT-TATACATGTATTGTGA
1 ATTGAATATATACATGT-TT-TGA
44738151 ATTG
1 ATTG
44738155 CCATATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTGAATATATACATGTTTTGA
Found at i:44738435 original size:25 final size:24
Alignment explanation
Indices: 44738407--44738462 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
44738397 ACAGCTCATG
44738407 TGAGCATTCTGATTCACAACTCGTC
1 TGAGCATTCTGATT-ACAACTCGTC
* *
44738432 TGAGCATTCTGATTACAGCTCGTG
1 TGAGCATTCTGATTACAACTCGTC
44738456 TGAGCAT
1 TGAGCAT
44738463 ACATATAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
TGAGCATTCTGATTACAACTCGTC
Found at i:44738459 original size:24 final size:25
Alignment explanation
Indices: 44738394--44738462 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
44738384 TAAACCCATT
*
44738394 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* *
44738419 TTCACAACTCGTCTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
44738444 TT-ACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
44738463 ACATATAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 15 0.38
25 24 0.62
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:44756737 original size:45 final size:45
Alignment explanation
Indices: 44756634--44756753 Score: 126
Period size: 40 Copynumber: 2.8 Consensus size: 45
44756624 TCCTTTGCCA
* *
44756634 GTTGAACTTTCATTTTATTAAACTCATCTTAGTTAATAATTGAGTT
1 GTTGGACTTTC-TTTTATTAAACTCATATTAGTTAATAATTGAGTT
* *
44756680 -TCTGGA-----TTTTATTAAACTCCTATTAGTTAGTAATTGAGTT
1 GT-TGGACTTTCTTTTATTAAACTCATATTAGTTAATAATTGAGTT
* *
44756720 GTTGGACTTTCTTTTATTTAACTCATTTTAGTTA
1 GTTGGACTTTCTTTTATTAAACTCATATTAGTTA
44756754 CTTAATTGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
40 35 0.58
41 1 0.02
45 21 0.35
46 3 0.05
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (45 bp):
GTTGGACTTTCTTTTATTAAACTCATATTAGTTAATAATTGAGTT
Found at i:44758721 original size:11 final size:11
Alignment explanation
Indices: 44758707--44758739 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
44758697 TATTAAACAC
44758707 AAAACACATTA
1 AAAACACATTA
44758718 AAAACACATT-
1 AAAACACATTA
44758728 -AAACACATTA
1 AAAACACATTA
44758738 AA
1 AA
44758740 CTTAATAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACACATTA
Found at i:44758733 original size:9 final size:9
Alignment explanation
Indices: 44758675--44758740 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
44758665 TAAAACAAAA
*
44758675 ACATTAATC
1 ACATTAAAC
44758684 ACATTTAAACTC
1 ACA-TTAAA--C
*
44758696 ATATTAAAC
1 ACATTAAAC
44758705 ACA--AAAC
1 ACATTAAAC
44758712 ACATTAAAAAC
1 ACATT--AAAC
44758723 ACATTAAAC
1 ACATTAAAC
44758732 ACATTAAAC
1 ACATTAAAC
44758741 TTAATAAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
7 7 0.15
9 19 0.40
10 4 0.09
11 14 0.30
12 3 0.06
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (9 bp):
ACATTAAAC
Found at i:44758865 original size:34 final size:33
Alignment explanation
Indices: 44758826--44758923 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
44758816 TGAAATAATG
44758826 CATGAATTAATTTTAATGATGCAAACTTAACTAA
1 CATGAATTAA-TTTAATGATGCAAACTTAACTAA
* *
44758860 CATG-A--AAGTT-A-CAT---AA-TTAAACTAA
1 CATGAATTAATTTAATGATGCAAACTT-AACTAA
*
44758885 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGAATTAATTTAATGATGCAAACTTAACTAA
44758918 CATGAA
1 CATGAA
44758924 AGTTACATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 21
0.64 0.08 0.28
Matches are distributed among these distances:
24 2 0.04
25 12 0.25
28 6 0.12
29 2 0.04
30 4 0.08
31 2 0.04
33 14 0.29
34 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (33 bp):
CATGAATTAATTTAATGATGCAAACTTAACTAA
Found at i:44760776 original size:45 final size:44
Alignment explanation
Indices: 44760718--44760825 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 44
44760708 AACAATTAAG
*
44760718 TAACTAAAATGAGTTAAATAAAAGAAAGTCCAACAACTCAATTAC
1 TAACTAAGATGAGTT-AATAAAAGAAAGTCCAACAACTCAATTAC
* ** *
44760763 TAACTAAGATGAGTT--T--AATAAAGTCCTGCAACTCAATTAT
1 TAACTAAGATGAGTTAATAAAAGAAAGTCCAACAACTCAATTAC
44760803 TAACTAAGATGAGTTTAATAAAA
1 TAACTAAGATGAG-TTAATAAAA
44760826 TTAAAGTTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
40 33 0.62
41 2 0.04
42 1 0.02
43 1 0.02
45 16 0.30
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (44 bp):
TAACTAAGATGAGTTAATAAAAGAAAGTCCAACAACTCAATTAC
Found at i:44760795 original size:40 final size:40
Alignment explanation
Indices: 44760742--44760824 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
44760732 TAAATAAAAG
44760742 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
** *
44760782 AAAGTCCTGCAACTCAATTATTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
44760822 AAA
1 AAA
44760825 ATTAAAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (40 bp):
AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
Found at i:44765402 original size:45 final size:44
Alignment explanation
Indices: 44765345--44765452 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 44
44765335 AGCAATTAAG
* *
44765345 TAACTAAAATGAGTTAAATAAAAGAAAGTCGACCAACTCAATTAC
1 TAACTAAGATGAGTT-AATAAAAGAAAGTCCACCAACTCAATTAC
* * *
44765390 TAACTAAGATGAGTT--T--AATAAAGTCCAGCAACTCAATTAT
1 TAACTAAGATGAGTTAATAAAAGAAAGTCCACCAACTCAATTAC
44765430 TAACTAAGATGAGTTTAATAAAA
1 TAACTAAGATGAG-TTAATAAAA
44765453 TTAAAGTTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
40 33 0.62
41 2 0.04
42 1 0.02
43 1 0.02
45 16 0.30
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (44 bp):
TAACTAAGATGAGTTAATAAAAGAAAGTCCACCAACTCAATTAC
Found at i:44765413 original size:40 final size:40
Alignment explanation
Indices: 44765369--44765451 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
44765359 TAAATAAAAG
*
44765369 AAAGTCGACCAACTCAATTACTAACTAAGATGAGTTTAAT
1 AAAGTCCACCAACTCAATTACTAACTAAGATGAGTTTAAT
* *
44765409 AAAGTCCAGCAACTCAATTATTAACTAAGATGAGTTTAAT
1 AAAGTCCACCAACTCAATTACTAACTAAGATGAGTTTAAT
44765449 AAA
1 AAA
44765452 ATTAAAGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (40 bp):
AAAGTCCACCAACTCAATTACTAACTAAGATGAGTTTAAT
Found at i:44768661 original size:22 final size:23
Alignment explanation
Indices: 44768626--44768676 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
44768616 TGCAGGCTGT
44768626 CTCT-CCTCAATCTGACTAGCAC
1 CTCTGCCTCAATCTGACTAGCAC
*
44768648 CT-TGCCTCAGTCTGACTAGCAC
1 CTCTGCCTCAATCTGACTAGCAC
44768670 CTCTGCC
1 CTCTGCC
44768677 CGTCCCATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.18, C:0.41, G:0.14, T:0.27
Consensus pattern (23 bp):
CTCTGCCTCAATCTGACTAGCAC
Found at i:44773817 original size:18 final size:18
Alignment explanation
Indices: 44773794--44773834 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
44773784 TCACTAGATT
44773794 CATTATTAACATAATTTG
1 CATTATTAACATAATTTG
*
44773812 CATTATTTACATAATTTG
1 CATTATTAACATAATTTG
44773830 CATTA
1 CATTA
44773835 GTAAATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (18 bp):
CATTATTAACATAATTTG
Found at i:44776404 original size:44 final size:42
Alignment explanation
Indices: 44776311--44776472 Score: 132
Period size: 44 Copynumber: 3.8 Consensus size: 42
44776301 ATGGAAAATT
* * * * *
44776311 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGTCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA-AC-CTGATC
* *
44776355 CTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACCTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACC-T-GATC
* * * ** *
44776399 TTATCTCTCTGAAGTTGCAG-AAAGCAGAAT-GCATCT-AGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCTGA-TC
*
44776439 TTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAA
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
44776473 TAAACAAATC
Statistics
Matches: 93, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 21 0.23
41 9 0.10
42 2 0.02
43 9 0.10
44 51 0.55
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAACCTGATC
Found at i:44776872 original size:21 final size:21
Alignment explanation
Indices: 44776847--44776890 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
44776837 ATCTTCGAGG
44776847 ATATGCAATATTAGATATGAT
1 ATATGCAATATTAGATATGAT
*
44776868 ATATGCAATCTTAGATATGAT
1 ATATGCAATATTAGATATGAT
44776889 AT
1 AT
44776891 GTAATCTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATATTAGATATGAT
Found at i:44776896 original size:19 final size:19
Alignment explanation
Indices: 44776846--44776901 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
44776836 AATCTTCGAG
*
44776846 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
44776865 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
44776886 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
44776902 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44776908 original size:22 final size:23
Alignment explanation
Indices: 44776859--44776924 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
44776849 ATGCAATATT
*
44776859 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
44776880 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
44776902 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
44776925 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:44776934 original size:22 final size:23
Alignment explanation
Indices: 44776890--44776934 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
44776880 AGATATGATA
*
44776890 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
44776913 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
44776935 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:44777474 original size:29 final size:31
Alignment explanation
Indices: 44777412--44777474 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
44777402 CATATGCATG
* **
44777412 TTAATATATATACATATATATTTTAAATGTT
1 TTAATATATATACATATATATTATAAATACT
*
44777443 TTAATATATATACATAT-TA-TATACATACT
1 TTAATATATATACATATATATTATAAATACT
44777472 TTA
1 TTA
44777475 TTATTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 9 0.32
30 2 0.07
31 17 0.61
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (31 bp):
TTAATATATATACATATATATTATAAATACT
Found at i:44777755 original size:51 final size:52
Alignment explanation
Indices: 44777641--44777756 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
44777631 ATTTTCCACG
**
44777641 TTTT-TATAT-TATACTTATATATTTCATTTTTTTGTAAATGCATGAATATA
1 TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
* * * * *
44777691 TTTTATATTTATATATTTATAT-TTTCCTTGTTTTCATAAATGCAT-TATGTA
1 TTTTATATATATATACTTATATATTTCATT-TTTTCATAAATGCATGAATATA
44777742 TTTTATATATATATA
1 TTTTATATATATATA
44777757 AGTTTTATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.07
51 28 0.51
52 23 0.42
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (52 bp):
TTTTATATATATATACTTATATATTTCATTTTTTCATAAATGCATGAATATA
Found at i:44780297 original size:5 final size:5
Alignment explanation
Indices: 44780277--44780315 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
44780267 TTTTATTAAA
44780277 TTTAT TATTA- TTTAT TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT T-TTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
44780316 TGTTCATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 3 0.10
5 20 0.65
6 8 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:44781224 original size:25 final size:25
Alignment explanation
Indices: 44781195--44781245 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
44781185 TGAAGGATTT
44781195 ATGTGTCAAATGAGCATTATGGATG
1 ATGTGTCAAATGAGCATTATGGATG
*
44781220 ATGTGTCAAATGAGCATTGTGGATG
1 ATGTGTCAAATGAGCATTATGGATG
44781245 A
1 A
44781246 GTTTACATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (25 bp):
ATGTGTCAAATGAGCATTATGGATG
Found at i:44788618 original size:2 final size:2
Alignment explanation
Indices: 44788611--44788646 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44788601 TACCGTTCGT
44788611 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
44788647 CATAATTCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:44792504 original size:14 final size:16
Alignment explanation
Indices: 44792487--44792518 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
44792477 AGAAATATAT
44792487 AATTAAAA-A-TTAAA
1 AATTAAAATATTTAAA
44792501 AATTAAAATATTTAAA
1 AATTAAAATATTTAAA
44792517 AA
1 AA
44792519 ATACATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAAAATATTTAAA
Found at i:44796869 original size:20 final size:21
Alignment explanation
Indices: 44796846--44796899 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
44796836 TTATGCTTTT
44796846 AAAATTAAGTTTT-GATCT-AG
1 AAAATTAA-TTTTCGATCTAAG
*
44796866 AAAATCAATTTTCGATCTAAG
1 AAAATTAATTTTCGATCTAAG
*
44796887 AAATATTATTTTT
1 AAA-ATTAATTTT
44796900 GCATATTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 5 0.18
22 7 0.25
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (21 bp):
AAAATTAATTTTCGATCTAAG
Found at i:44798162 original size:18 final size:19
Alignment explanation
Indices: 44798130--44798167 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
44798120 GTCTTTTACA
44798130 AAAATAATACAAAAA-AAT
1 AAAATAATACAAAAATAAT
**
44798148 AAAATAATATTAAAATAAT
1 AAAATAATACAAAAATAAT
44798167 A
1 A
44798168 TAATTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAATACAAAAATAAT
Found at i:44803504 original size:13 final size:13
Alignment explanation
Indices: 44803486--44803512 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44803476 TTTCGGTTTA
44803486 ATTTAAACAATAT
1 ATTTAAACAATAT
44803499 ATTTAAACAATAT
1 ATTTAAACAATAT
44803512 A
1 A
44803513 GTTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:44803763 original size:97 final size:97
Alignment explanation
Indices: 44803597--44803832 Score: 463
Period size: 97 Copynumber: 2.4 Consensus size: 97
44803587 TTAAATTATG
*
44803597 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
44803662 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
44803694 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
44803759 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
44803791 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
44803833 TGTTATTAAA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 138 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATATCCAAATTTAAGATTAAATCTG
CATATTTTAATTAAAATATAATTCGGTACTTA
Found at i:44803905 original size:23 final size:23
Alignment explanation
Indices: 44803870--44803914 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44803860 CCTTATTTAA
**
44803870 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
44803893 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
44803915 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:44807217 original size:92 final size:90
Alignment explanation
Indices: 44807060--44807268 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 90
44807050 TTGATTTTAG
* *
44807060 TAAATTCATATAAAAATATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
44807125 ATTTAAT-ATTAATTATTTTAAATTGTA
64 ATGTAATAATT-ATTATTTTAAATTATA
*
44807152 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAA-AAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
44807216 TATGTAATAATTATTATTTTAAATTATA
63 TATGTAATAATTATTATTTTAAATTATA
*
44807244 CAAATTCATA-AAATATAATTTATTA
1 TAAATTCATATAAA-A-AATTTATTA
44807269 GTTATAATTG
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
90 2 0.02
91 31 0.30
92 66 0.63
93 6 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
GTAATAATTATTATTTTAAATTATA
Found at i:44807231 original size:24 final size:25
Alignment explanation
Indices: 44807196--44807243 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
44807186 TTATGAAATT
44807196 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
44807220 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
44807244 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:44807363 original size:59 final size:57
Alignment explanation
Indices: 44807295--44807483 Score: 154
Period size: 66 Copynumber: 3.2 Consensus size: 57
44807285 ATTATTTTAA
44807295 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTTTCATTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTT-ATTTACAGT
* * ** *
44807354 ATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA-TTA-A--
1 ATC--ATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTA-AATTTTATTTACAGT
* * *
44807415 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTT-TA-TTTACAGT
44807474 ATCATATATT
1 ATCATATATT
44807484 ATGATTTGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
53 5 0.05
54 13 0.13
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 15 0.15
61 5 0.05
62 3 0.03
63 1 0.01
64 13 0.13
65 6 0.06
66 19 0.19
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTTATTTACAGT
Found at i:44807397 original size:66 final size:64
Alignment explanation
Indices: 44807322--44807532 Score: 187
Period size: 66 Copynumber: 3.4 Consensus size: 64
44807312 AAATATATTT
44807322 AATATTAATTATTTCAAATTTTCATTTACAGTATCATATATTATGATTTAAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTACAGTATCATATATTATGATTTAAGTAAATTCATATAA
44807387 G
64 G
* * *
44807388 AATATTAATTATTAAGAATTTTA-TTA-A--AT--TATA-TAT--TTTAATTATAA-T-ATAT-T
1 AATATTAATTATTTA-AATTTTATTTACAGTATCATATATTATGATTTAAGTA-AATTCATATAA
*
44807441 T
64 G
* * *
44807442 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCGTATA
1 AATATTAATTAT-TTAAATTT-TA-TTTACAGTATCATATATTATGATTTAAGTAAATTCATATA
44807506 AG
63 AG
*
44807508 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
44807533 AAATTATATA
Statistics
Matches: 113, Mismatches: 13, Indels: 39
0.68 0.08 0.24
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 11 0.10
57 3 0.03
58 3 0.03
59 6 0.05
61 6 0.05
62 3 0.03
63 3 0.03
64 10 0.09
65 8 0.07
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (64 bp):
AATATTAATTATTTAAATTTTATTTACAGTATCATATATTATGATTTAAGTAAATTCATATAAG
Found at i:44807429 original size:120 final size:120
Alignment explanation
Indices: 44807291--44807576 Score: 479
Period size: 120 Copynumber: 2.4 Consensus size: 120
44807281 TTAAATTATT
* * *
44807291 TTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTACAG
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
44807353 TATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
44807411 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
* *
44807476 CATATATTATGATTTGAGTAAATTCGTATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
44807531 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
44807577 TAAATATGAT
Statistics
Matches: 158, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 6 0.04
120 150 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:44807444 original size:15 final size:15
Alignment explanation
Indices: 44807409--44807460 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44807399 TTAAGAATTT
*
44807409 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44807423 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44807437 TATTTAATAATAAT-
1 TATTTAATTATAATA
44807451 TATGTTAATT
1 TAT-TTAATT
44807461 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44807559 original size:16 final size:16
Alignment explanation
Indices: 44807538--44807579 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44807528 TTATTAAATT
*
44807538 ATATATTTTAATTATA
1 ATATATTTTAATAATA
44807554 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
44807569 AT-TATGTTTAA
1 ATATAT-TTTAA
44807580 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:44807564 original size:15 final size:15
Alignment explanation
Indices: 44807529--44807570 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44807519 TTAAGAATTT
*
44807529 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44807543 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44807557 TATTTAATAATAAT
1 TATTTAATTATAAT
44807571 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44807689 original size:156 final size:156
Alignment explanation
Indices: 44807513--44807794 Score: 503
Period size: 156 Copynumber: 1.8 Consensus size: 156
44807503 ATAAGAATAT
*
44807513 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
44807578 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAA-AATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
44807643 TAATAATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTCTGC
44807670 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
44807734 AAATATGATTAAAAATTTATTACTGATAATAATAATCTTATTATAATTTAAATAACAATAA
66 AAATATGATTAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAA
44807795 TCATTTACCA
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
155 44 0.37
156 70 0.58
157 6 0.05
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAAATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTCTGC
Found at i:44807709 original size:18 final size:17
Alignment explanation
Indices: 44807681--44807715 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44807671 AATTATAAGA
*
44807681 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
44807698 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
44807716 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:44807968 original size:16 final size:16
Alignment explanation
Indices: 44807944--44807979 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44807934 GATTTGCTAT
44807944 TACAACTCTAATCCAA
1 TACAACTCTAATCCAA
*
44807960 TACACCTCTAATCCAA
1 TACAACTCTAATCCAA
44807976 TACA
1 TACA
44807980 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (16 bp):
TACAACTCTAATCCAA
Found at i:44810955 original size:88 final size:90
Alignment explanation
Indices: 44810836--44811046 Score: 244
Period size: 90 Copynumber: 2.4 Consensus size: 90
44810826 TAAAGGGTGT
* *
44810836 AAAAAG-CCCT-CAAA--CTTTAAAAAAAA-CAATTAAG-TCCCTATTTTTTTAT-ACTCAATTG
1 AAAAAGACCCTCCAAATTCTTTAAAAAAAAGCAATTAAGCTCCCGATTTTTCTATCACTCAATTG
44810894 AGCACTTGAACTTTCAAAATGCATC
66 AGCACTTGAACTTTCAAAATGCATC
* * * * *
44810919 AGAAAG-GCCTTCAAACTTCTTTAAAAAAAAGCAATTAAGCTCCGGCTTTTTCTATCACTCAATT
1 AAAAAGACCCTCCAAA-TTCTTTAAAAAAAAGCAATTAAGCTCCCGATTTTTCTATCACTCAATT
* * *
44810983 GGGTACTTGAACTTTTAAAATGCATC
65 GAGCACTTGAACTTTCAAAATGCATC
*
44811009 AAAAAGACCCTCCAAATT-TTT-CAAAAAAGCAATTAAGC
1 AAAAAGACCCTCCAAATTCTTTAAAAAAAAGCAATTAAGC
44811047 CCATGCTCTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
83 8 0.07
84 4 0.04
87 12 0.11
88 24 0.22
89 14 0.13
90 38 0.36
91 7 0.07
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (90 bp):
AAAAAGACCCTCCAAATTCTTTAAAAAAAAGCAATTAAGCTCCCGATTTTTCTATCACTCAATTG
AGCACTTGAACTTTCAAAATGCATC
Found at i:44811431 original size:54 final size:54
Alignment explanation
Indices: 44811342--44811457 Score: 155
Period size: 54 Copynumber: 2.1 Consensus size: 54
44811332 ATTTTGTATA
* * *
44811342 ATTTTCTTACGACTTTATAAAATTTTATAATTTTTTATATTTCTATAT-A-TTTT
1 ATTTTTTTACGACTTTATAAAATTTTACAAATTTTTATATTT-TATATGATTTTT
* *
44811395 ATTTTTTTACGATTTTTATAAAATTTTACAAATTTTTATATTTTTTATGATTTTT
1 ATTTTTTTACGA-CTTTATAAAATTTTACAAATTTTTATATTTTATATGATTTTT
44811450 ATTTTTTT
1 ATTTTTTT
44811458 CTAATTTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 15 0.27
54 28 0.51
55 12 0.22
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (54 bp):
ATTTTTTTACGACTTTATAAAATTTTACAAATTTTTATATTTTATATGATTTTT
Found at i:44811464 original size:17 final size:18
Alignment explanation
Indices: 44811364--44811467 Score: 72
Period size: 17 Copynumber: 5.8 Consensus size: 18
44811354 CTTTATAAAA
44811364 TTTTATAATTTTT-TATAT
1 TTTTATAATTTTTATAT-T
*
44811382 TTCTAT-ATATTTTAT-TT
1 TTTTATAAT-TTTTATATT
** **
44811399 TTTTACGATTTTTATAAAA
1 TTTTATAATTTTTAT-ATT
*
44811418 TTTTACAAATTTTTATATT
1 TTTTA-TAATTTTTATATT
*
44811437 TTTTATGATTTTTAT-TT
1 TTTTATAATTTTTATATT
*
44811454 TTTTCTAATTTTTA
1 TTTTATAATTTTTA
44811468 ATAAATTTCT
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
17 27 0.40
18 20 0.30
19 12 0.18
20 8 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTATATT
Found at i:44811475 original size:55 final size:54
Alignment explanation
Indices: 44811355--44811472 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 54
44811345 TTCTTACGAC
* * *
44811355 TTTATAAAATTTTATAATTTTTTATATTTCTATATATTTTATTTTTTTACGATT
1 TTTATAAAATTTTACAAATTTTTATATTTCTATATATTTTATTTTTTTACAATT
*
44811409 TTTATAAAATTTTACAAATTTTTATATTT-TTTATGATTTTTATTTTTTT-CTAATT
1 TTTATAAAATTTTACAAATTTTTATATTTCTATAT-A-TTTTATTTTTTTAC-AATT
44811464 TTTAATAAA
1 TTT-ATAAA
44811473 TTTCTAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 4 0.07
54 29 0.52
55 18 0.32
56 5 0.09
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (54 bp):
TTTATAAAATTTTACAAATTTTTATATTTCTATATATTTTATTTTTTTACAATT
Found at i:44811677 original size:89 final size:91
Alignment explanation
Indices: 44811573--44811762 Score: 258
Period size: 89 Copynumber: 2.1 Consensus size: 91
44811563 TTTTTTTTTT
* * * * **
44811573 AAGTTTGAGGGTCTTTTTAATGCATTTTGAAAATTCAAGTACCTAATTGGGTGC-AAAA-AAAGG
1 AAGTTTGAGGATCTTTTTAATGCATTTTGAAAATTCAAGTACCCAAATGAGTGCAAAAAGAAAAA
* *
44811636 TAGGGGCTTAATTGCTTTTTTTGAAA
66 CAAGGGCTTAATTGCTTTTTTTGAAA
* * *
44811662 AGGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCAAAAAGAAAAA
1 AAGTTTGAGGATCTTTTTAATGCATTTTGAAAATTCAAGTACCCAAATGAGTGCAAAAAGAAAAA
*
44811727 CAATGGCTTAATTGCTTTTTTTGAAA
66 CAAGGGCTTAATTGCTTTTTTTGAAA
44811753 AAGTTTGAGG
1 AAGTTTGAGG
44811763 GCTTTTTGCA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 47 0.55
90 4 0.05
91 35 0.41
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (91 bp):
AAGTTTGAGGATCTTTTTAATGCATTTTGAAAATTCAAGTACCCAAATGAGTGCAAAAAGAAAAA
CAAGGGCTTAATTGCTTTTTTTGAAA
Found at i:44813986 original size:13 final size:12
Alignment explanation
Indices: 44813959--44814016 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
44813949 AAAACCCTAA
44813959 TTTTCTTCTCCT
1 TTTTCTTCTCCT
44813971 TTTTCTT-TCTCT
1 TTTTCTTCTC-CT
44813983 TTTTCTTCT-CT
1 TTTTCTTCTCCT
* *
44813994 GTTTCGTTCTACT
1 TTTTC-TTCTCCT
44814007 TTGTTCTTCT
1 TT-TTCTTCT
44814017 TTTTCTATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 8 0.21
12 20 0.51
13 8 0.21
14 3 0.08
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.67
Consensus pattern (12 bp):
TTTTCTTCTCCT
Found at i:44813986 original size:24 final size:24
Alignment explanation
Indices: 44813959--44814016 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
44813949 AAAACCCTAA
* *
44813959 TTTTCTTCTCCTTTTTCTTTCT-CT
1 TTTTCTTCT-CTGTTTCGTTCTACT
44813983 TTTTCTTCTCTGTTTCGTTCTACT
1 TTTTCTTCTCTGTTTCGTTCTACT
44814007 TTGTTCTTCT
1 TT-TTCTTCT
44814017 TTTTCTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 13 0.43
25 7 0.23
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.67
Consensus pattern (24 bp):
TTTTCTTCTCTGTTTCGTTCTACT
Found at i:44815536 original size:14 final size:14
Alignment explanation
Indices: 44815517--44815545 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44815507 GGTAGGGAGT
44815517 TCATAAGAAGTGAA
1 TCATAAGAAGTGAA
44815531 TCATAAGAAGTGAA
1 TCATAAGAAGTGAA
44815545 T
1 T
44815546 TAGTGGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TCATAAGAAGTGAA
Found at i:44816875 original size:31 final size:31
Alignment explanation
Indices: 44816806--44816879 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
44816796 CTTAATAGCA
*
44816806 CAATGACTTAAATAAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
* *
44816837 TAGTGACTTAAATAAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
44816868 CAATGAC-TAAAT
1 CAATGACTTAAAT
44816880 TGTAACTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:44820346 original size:25 final size:25
Alignment explanation
Indices: 44820318--44820471 Score: 80
Period size: 25 Copynumber: 6.3 Consensus size: 25
44820308 CCATATTACA
*
44820318 GGAAGCTCATGTGAGCTGTATAA-CG
1 GGAAGCTCATGTGAGCT-CATAATCG
**
44820343 GGAAGCTCATAAGAG-TCATAATCG
1 GGAAGCTCATGTGAGCTCATAATCG
44820367 GGAAGCTCATGTGAGC-CAATAAT-G
1 GGAAGCTCATGTGAGCTC-ATAATCG
* * *
44820391 GGTAGCT--TCGAAGAG-TCATTAATCA
1 GGAAGCTCAT-G-TGAGCTCA-TAATCG
44820416 GGAAGCTC-TAGAT-AGC-CATATATCG
1 GGAAGCTCAT-G-TGAGCTCATA-ATCG
* *
44820441 GGAAGTTCATGCGAG-TCAT-ATCG
1 GGAAGCTCATGTGAGCTCATAATCG
44820464 GGAAGCTC
1 GGAAGCTC
44820472 CGAAGAGCCA
Statistics
Matches: 100, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
22 1 0.01
23 17 0.17
24 34 0.34
25 44 0.44
26 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCTCATAATCG
Found at i:44820414 original size:49 final size:49
Alignment explanation
Indices: 44820316--44820423 Score: 130
Period size: 49 Copynumber: 2.2 Consensus size: 49
44820306 AGCCATATTA
** *
44820316 CAGGAAGCTCATGTGAGCTGTATAACGGGAAGCTCATAAGAGTCATAAT
1 CAGGAAGCTCATGTGAGCTCAATAACGGGAAGCTCAGAAGAGTCATAAT
* * *
44820365 CGGGAAGCTCATGTGAGC-CAATAATGGGTAGCTTC-GAAGAGTCATTAAT
1 CAGGAAGCTCATGTGAGCTCAATAACGGGAAGC-TCAGAAGAGTCA-TAAT
44820414 CAGGAAGCTC
1 CAGGAAGCTC
44820424 TAGATAGCCA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 18 0.36
49 32 0.64
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGGAAGCTCATGTGAGCTCAATAACGGGAAGCTCAGAAGAGTCATAAT
Found at i:44820477 original size:73 final size:73
Alignment explanation
Indices: 44820359--44820496 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
44820349 TCATAAGAGT
* * * * *
44820359 CATAATCGGGAAGCTCATGTGAGCCAATAATGGGTAGCTTCGAAGAGTCATTAATCAGGAAGCTC
1 CATAATCGGGAAGCTCATGCGAGCCAATAATGGGAAGCTCCGAAGAGCCATTAATCAAGAAGCTC
44820424 TAGATAGC
66 TAGATAGC
* *
44820432 CATATATCGGGAAGTTCATGCGAGTC-AT-ATCGGGAAGCTCCGAAGAGCCATTAATCAAGAAGC
1 CATA-ATCGGGAAGCTCATGCGAGCCAATAAT-GGGAAGCTCCGAAGAGCCATTAATCAAGAAGC
44820495 TC
64 TC
44820497 ACAAAGAGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 2 0.04
73 36 0.64
74 18 0.32
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (73 bp):
CATAATCGGGAAGCTCATGCGAGCCAATAATGGGAAGCTCCGAAGAGCCATTAATCAAGAAGCTC
TAGATAGC
Found at i:44820548 original size:26 final size:27
Alignment explanation
Indices: 44820336--44820549 Score: 99
Period size: 25 Copynumber: 8.6 Consensus size: 27
44820326 ATGTGAGCTG
* *
44820336 TATAA-CGGGAAGCTCA-TAAGAGTC-
1 TATAATCGGGAAGCTCACGAAGAGCCA
* *
44820360 -ATAATCGGGAAGCTCATG-TGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
* * *
44820385 -ATAAT-GGGTAGCT-TCGAAGAGTCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
* *
44820409 T-TAATCAGGAAGCTCTA-G-ATAGCCA
1 TATAATCGGGAAGCTC-ACGAAGAGCCA
* * * *
44820434 TAT-ATCGGGAAGTTCATG-CGAGTC-
1 TATAATCGGGAAGCTCACGAAGAGCCA
44820458 -AT-ATCGGGAAGCTC-CGAAGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
** *
44820482 T-TAATCAAGAAGCTCACAAAGAGCC-
1 TATAATCGGGAAGCTCACGAAGAGCCA
* * *
44820507 TTTAATTGGAAAGCTCACGAAGAGCCA
1 TATAATCGGGAAGCTCACGAAGAGCCA
*
44820534 TAT-ATCGGGATGCTCA
1 TATAATCGGGAAGCTCA
44820550 TAAGAGCTAT
Statistics
Matches: 139, Mismatches: 34, Indels: 32
0.68 0.17 0.16
Matches are distributed among these distances:
22 1 0.01
23 22 0.16
24 33 0.24
25 42 0.30
26 39 0.28
27 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
TATAATCGGGAAGCTCACGAAGAGCCA
Found at i:44827098 original size:20 final size:19
Alignment explanation
Indices: 44827046--44827100 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
44827036 CAGGGGCACC
*
44827046 GAAGTACAAACAAGGGATA
1 GAAGTACAAACAGGGGATA
* * * *
44827065 AAAGTGCAATCAGGGGTATT
1 GAAGTACAAACAGGGG-ATA
44827085 GAAGTACAAACAGGGG
1 GAAGTACAAACAGGGG
44827101 CACGTAAGTG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.44, C:0.11, G:0.31, T:0.15
Consensus pattern (19 bp):
GAAGTACAAACAGGGGATA
Found at i:44827109 original size:20 final size:20
Alignment explanation
Indices: 44827086--44827273 Score: 71
Period size: 20 Copynumber: 9.4 Consensus size: 20
44827076 AGGGGTATTG
44827086 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
* * * ***
44827106 AAGTGCAATCA-AGGCTAAAA
1 AAGTACAAACAGGGGC-ACGT
* *
44827126 AAGTACAAATAGGGGCACAT
1 AAGTACAAACAGGGGCACGT
* * * *
44827146 ATGTA-AATTCAAGGGTAC-T
1 AAGTACAA-ACAGGGGCACGT
* * * *
44827165 GAAGTACAAAAAAGGGCATGC
1 -AAGTACAAACAGGGGCACGT
* * *
44827186 AAGTACAATCAGGGGTAC-C
1 AAGTACAAACAGGGGCACGT
* * *
44827205 AGAGTATAAATAAGGGCACGT
1 A-AGTACAAACAGGGGCACGT
* * *
44827226 AAGTGCAATCAGGGGTACAG-
1 AAGTACAAACAGGGGCAC-GT
44827246 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
44827266 AAGTACAA
1 AAGTACAA
44827274 TCATTCAATA
Statistics
Matches: 115, Mismatches: 43, Indels: 20
0.65 0.24 0.11
Matches are distributed among these distances:
19 9 0.08
20 99 0.86
21 7 0.06
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACGT
Found at i:44827130 original size:40 final size:40
Alignment explanation
Indices: 44827086--44827276 Score: 177
Period size: 40 Copynumber: 4.8 Consensus size: 40
44827076 AGGGGTATTG
* * *
44827086 AAGTACAAACAGGGGCACGTAAGTGCAATCAAGGCTAAAA
1 AAGTACAAACAGGGGCACGTAAGTACAATCAAGGGTACAA
* * * **
44827126 AAGTACAAATAGGGGCACATATGTA-AATTCAAGGGTACTG
1 AAGTACAAACAGGGGCACGTAAGTACAA-TCAAGGGTACAA
* * * * * *
44827166 AAGTACAAAAAAGGGCATGCAAGTACAATCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTAAGTACAATCAAGGGTACAA
* * * * * * *
44827206 GAGTATAAATAAGGGCACGTAAGTGCAATCAGGGGTACAG
1 AAGTACAAACAGGGGCACGTAAGTACAATCAAGGGTACAA
44827246 AAGTACAAACAGGGGCACGTAAGTACAATCA
1 AAGTACAAACAGGGGCACGTAAGTACAATCA
44827277 TTCAATAATT
Statistics
Matches: 119, Mismatches: 30, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
39 2 0.02
40 115 0.97
41 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTAAGTACAATCAAGGGTACAA
Found at i:44827182 original size:80 final size:80
Alignment explanation
Indices: 44827047--44827276 Score: 230
Period size: 80 Copynumber: 2.9 Consensus size: 80
44827037 AGGGGCACCG
* * * * * * *
44827047 AAGTACAAACAAGGG-ATAAAAGTGCAATCAGGGGTATTGAAGTACAAACAGGGGCACGTAAGTG
1 AAGTACAAATAAGGGCACATAAGTGAAATCAAGGGTACTGAAGTACAAACAGGGGCACGTAAGTA
44827111 CAATCAAGGCTAAAA
66 CAATCAAGGCTAAAA
* * * * * *
44827126 AAGTACAAATAGGGGCACATATGT-AAATTCAAGGGTACTGAAGTACAAAAAAGGGCATGCAAGT
1 AAGTACAAATAAGGGCACATAAGTGAAA-TCAAGGGTACTGAAGTACAAACAGGGGCACGTAAGT
* * **
44827190 ACAATCAGGGGTACCA
65 ACAATCAAGGCTAAAA
* * * * * *
44827206 GAGTATAAATAAGGGCACGTAAGTGCAATCAGGGGTACAGAAGTACAAACAGGGGCACGTAAGTA
1 AAGTACAAATAAGGGCACATAAGTGAAATCAAGGGTACTGAAGTACAAACAGGGGCACGTAAGTA
44827271 CAATCA
66 CAATCA
44827277 TTCAATAATT
Statistics
Matches: 119, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
79 15 0.13
80 102 0.86
81 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.16
Consensus pattern (80 bp):
AAGTACAAATAAGGGCACATAAGTGAAATCAAGGGTACTGAAGTACAAACAGGGGCACGTAAGTA
CAATCAAGGCTAAAA
Found at i:44829499 original size:12 final size:12
Alignment explanation
Indices: 44829482--44829513 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
44829472 CTTATTACTT
44829482 AAAAATATGCTA
1 AAAAATATGCTA
44829494 AAAAATATGCTA
1 AAAAATATGCTA
44829506 AAAAATAT
1 AAAAATAT
44829514 ATTTTGCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (12 bp):
AAAAATATGCTA
Found at i:44839933 original size:20 final size:20
Alignment explanation
Indices: 44839884--44839934 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 20
44839874 TCTTGTATCA
44839884 TGTCTCAAATCAGTATGGCC
1 TGTCTCAAATCAGTATGGCC
*
44839904 --TCT---TTCAGTATGGCC
1 TGTCTCAAATCAGTATGGCC
44839919 TGTCTCAAATCAGTAT
1 TGTCTCAAATCAGTAT
44839935 CACGCAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
15 11 0.46
17 3 0.12
18 3 0.12
20 7 0.29
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTCTCAAATCAGTATGGCC
Found at i:44843896 original size:12 final size:12
Alignment explanation
Indices: 44843881--44843919 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
44843871 ACTCGCTTCT
*
44843881 TTACTTGCTCAC
1 TTACTTGCTTAC
*
44843893 TTACTTGTTTAC
1 TTACTTGCTTAC
44843905 TTACTTGCTTAC
1 TTACTTGCTTAC
44843917 TTA
1 TTA
44843920 AATAACTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.08, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:44844242 original size:50 final size:49
Alignment explanation
Indices: 44844113--44844252 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 49
44844103 CTGTCTAATA
* * * * *
44844113 ATACATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTCT
1 ATAC-TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCT
* * * *
44844163 GTACTGCCAATGCCATATCCCATATATGGTCTTACATGGGA-GTTCTC-
1 ATACTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCT
*
44844210 ATACTGGTTCCCATGCCATGTCCCAAACATGGTCTTACATGGG
1 ATACT-G--CCAATGCCATGTCCCAAACATGGTCTTACATGGG
44844253 GCCTCTCATA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.05
48 6 0.08
49 31 0.42
50 33 0.45
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
ATACTGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCT
Found at i:44849715 original size:25 final size:25
Alignment explanation
Indices: 44849661--44849832 Score: 91
Period size: 25 Copynumber: 6.9 Consensus size: 25
44849651 GACACACCAC
* * *
44849661 AGCTCTTATGAGCGTCCCGA-TACTT
1 AGCTCTCATGAGCTTCCC-ATTATTT
* *
44849686 GGCTCTCATGAGCTGCCCATTATTT
1 AGCTCTCATGAGCTTCCCATTATTT
* * * * *
44849711 AGCTCTTAGGAGCATCCCAATATAT
1 AGCTCTCATGAGCTTCCCATTATTT
* *
44849736 -GGTACT-ATTGAGCTTCCTATTATTT
1 AGCT-CTCA-TGAGCTTCCCATTATTT
* ** * *
44849761 GGCTCTCCGGAGCTTCCCGTTAATT
1 AGCTCTCATGAGCTTCCCATTATTT
* *
44849786 AGCTCTCATGAGCTTCCCAATCA-AT
1 AGCTCTCATGAGCTTCCC-ATTATTT
* *
44849811 GGCTCTCTTGAGCTTCCCATTA
1 AGCTCTCATGAGCTTCCCATTA
44849833 CAGCTCGTAT
Statistics
Matches: 108, Mismatches: 33, Indels: 13
0.70 0.21 0.08
Matches are distributed among these distances:
24 7 0.06
25 97 0.90
26 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCATTATTT
Found at i:44849804 original size:75 final size:75
Alignment explanation
Indices: 44849684--44849832 Score: 176
Period size: 75 Copynumber: 2.0 Consensus size: 75
44849674 GTCCCGATAC
* * *
44849684 TTGGCTCTCATGAGCTGCCCATTATTTAGCTCTTAGGAGCATCCCAAT-ATATGG-TACTATTGA
1 TTGGCTCTCAGGAGCTGCCCATTAATTAGCTCTCAGGAGCATCCCAATCA-ATGGCT-CTATTGA
*
44849747 GCTTCCTATTAT
64 GCTTCCCATTAT
* * * * * *
44849759 TTGGCTCTCCGGAGCTTCCCGTTAATTAGCTCTCATGAGCTTCCCAATCAATGGCTCTCTTGAGC
1 TTGGCTCTCAGGAGCTGCCCATTAATTAGCTCTCAGGAGCATCCCAATCAATGGCTCTATTGAGC
44849824 TTCCCATTA
66 TTCCCATTA
44849833 CAGCTCGTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
75 60 0.97
76 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (75 bp):
TTGGCTCTCAGGAGCTGCCCATTAATTAGCTCTCAGGAGCATCCCAATCAATGGCTCTATTGAGC
TTCCCATTAT
Found at i:44854460 original size:22 final size:22
Alignment explanation
Indices: 44854418--44854463 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
44854408 GGGCAGAAGA
*
44854418 ATTTTGTTCATAATAAGATAAT
1 ATTTTATTCATAATAAGATAAT
*
44854440 ATTTTATT-ATAATTAATATAAT
1 ATTTTATTCATAA-TAAGATAAT
44854462 AT
1 AT
44854464 ATAAACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTTTATTCATAATAAGATAAT
Found at i:44859590 original size:20 final size:20
Alignment explanation
Indices: 44859549--44859592 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44859539 TGCTTGGGAT
*
44859549 GAAACAAAAAGCAACAAGAA
1 GAAACAAAAAGAAACAAGAA
*
44859569 GAAACAAAAA-AAATAAGAAA
1 GAAACAAAAAGAAACAAG-AA
44859589 GAAA
1 GAAA
44859593 TTAGATAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.75, C:0.09, G:0.14, T:0.02
Consensus pattern (20 bp):
GAAACAAAAAGAAACAAGAA
Found at i:44861256 original size:15 final size:17
Alignment explanation
Indices: 44861236--44861329 Score: 77
Period size: 18 Copynumber: 5.4 Consensus size: 17
44861226 AAGGGTTTCT
44861236 TATTGATGATA-T-CGA
1 TATTGATGATAGTACGA
*
44861251 TATTGATAATAGTGACGA
1 TATTGATGATAGT-ACGA
*
44861269 TATTGATGCTAGTGACGA
1 TATTGATGATAGT-ACGA
* *
44861287 TATTGAT-ACTAATGACGC
1 TATTGATGA-TAGT-ACGA
*
44861305 TATTGATGATAGTGACGC
1 TATTGATGATAGT-ACGA
44861323 TATTGAT
1 TATTGAT
44861330 CGTGACCTTG
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.15
16 1 0.01
18 55 0.82
19 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (17 bp):
TATTGATGATAGTACGA
Found at i:44861271 original size:18 final size:18
Alignment explanation
Indices: 44861248--44861329 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
44861238 TTGATGATAT
44861248 CGATATTGATAATAGTGA
1 CGATATTGATAATAGTGA
**
44861266 CGATATTGATGCTAGTGA
1 CGATATTGATAATAGTGA
* *
44861284 CGATATTGATACTAATGA
1 CGATATTGATAATAGTGA
* *
44861302 CGCTATTGATGATAGTGA
1 CGATATTGATAATAGTGA
*
44861320 CGCTATTGAT
1 CGATATTGAT
44861330 CGTGACCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (18 bp):
CGATATTGATAATAGTGA
Found at i:44861291 original size:36 final size:36
Alignment explanation
Indices: 44861236--44861329 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
44861226 AAGGGTTTCT
*
44861236 TATTGATGATA-T--CGATATTGATAATAGTGACGA
1 TATTGATGATAGTGACGATATTGATAATAATGACGA
* * *
44861269 TATTGATGCTAGTGACGATATTGATACTAATGACGC
1 TATTGATGATAGTGACGATATTGATAATAATGACGA
*
44861305 TATTGATGATAGTGACGCTATTGAT
1 TATTGATGATAGTGACGATATTGAT
44861330 CGTGACCTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.19
34 1 0.02
36 41 0.79
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (36 bp):
TATTGATGATAGTGACGATATTGATAATAATGACGA
Found at i:44866768 original size:9 final size:9
Alignment explanation
Indices: 44866737--44866775 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
44866727 CACTTCCTCC
44866737 ACATAGCATA
1 ACATA-CATA
44866747 ACATA-AT-
1 ACATACATA
44866754 ACATACATA
1 ACATACATA
44866763 ACATACATA
1 ACATACATA
44866772 ACAT
1 ACAT
44866776 TTTTCGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.19
8 4 0.15
9 13 0.48
10 5 0.19
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (9 bp):
ACATACATA
Found at i:44873826 original size:30 final size:30
Alignment explanation
Indices: 44873790--44873852 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
44873780 ACTTATTTTA
44873790 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* * *
44873820 TTGTTAATTTTGTTATTGTTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
44873850 TTG
1 TTG
44873853 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:44874899 original size:6 final size:6
Alignment explanation
Indices: 44874888--44874922 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
44874878 TGAAAATTAT
*
44874888 GAAATA GAAATA GAAATA GAAATA GAAATA AAAAT
1 GAAATA GAAATA GAAATA GAAATA GAAATA GAAAT
44874923 GGAGATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
GAAATA
Found at i:44883234 original size:20 final size:20
Alignment explanation
Indices: 44883197--44883234 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44883187 TTATTTAATA
*
44883197 AATTCATTTTTAATAAATTT
1 AATTCATTTTTAAAAAATTT
44883217 AATT-ATTTTTCAAAAAAT
1 AATTCATTTTT-AAAAAAT
44883235 GTTATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTCATTTTTAAAAAATTT
Found at i:44886189 original size:30 final size:30
Alignment explanation
Indices: 44886155--44886212 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
44886145 TAGTTACAAC
44886155 TGATGATAATGG-AAAATAATGTTATGAATG
1 TGATGATAATGGAAAAAT-ATGTTATGAATG
44886185 TGATGATAATGGAAAAATATGTTATGAA
1 TGATGATAATGGAAAAATATGTTATGAA
44886213 ACATGTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (30 bp):
TGATGATAATGGAAAAATATGTTATGAATG
Found at i:44891427 original size:41 final size:40
Alignment explanation
Indices: 44891366--44891502 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 40
44891356 TTTTTGGGGA
* *
44891366 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTAG-C
* * * * *
44891407 TTTAGCGGCATTTTTGAAGAAGCGCAGCGAAAGACCCCAGC
1 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATG-CTCTAGC
* *
44891448 ATTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-TAGGGC
1 TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTA--GC
44891489 TTTAGCGG-ATTTTT
1 TTTAGCGGCATTTTT
44891503 TTTAGAATCG
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 6 0.08
41 66 0.86
42 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCTAGC
Found at i:44891503 original size:41 final size:41
Alignment explanation
Indices: 44891366--44891519 Score: 129
Period size: 41 Copynumber: 3.8 Consensus size: 41
44891356 TTTTTGGGGA
* *
44891366 TTTAGCGGCGTTTTTT-AAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCATTTTTTGAAGAAGCGCCGCTAATGCT-TAGGC
* * * **
44891407 TTTAGCGGCA-TTTTTGAAGAAGCGCAGCGAAAGACCCCA-GC
1 TTTAGCGGCATTTTTTGAAGAAGCGCCGCTAATG--CTTAGGC
* *
44891448 ATTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGCTTAGGGC
1 TTTAGCGGCATTTTTTGAAGAAGCGCCGCTAATGCTTA-GGC
** *
44891489 TTTAGCGG-ATTTTTTTTAGAATCGCCGCTAA
1 TTTAGCGGCATTTTTTGAAGAAGCGCCGCTAA
44891520 AAACATTTTA
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
39 2 0.02
40 5 0.06
41 79 0.90
42 1 0.01
43 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCATTTTTTGAAGAAGCGCCGCTAATGCTTAGGC
Found at i:44891855 original size:28 final size:30
Alignment explanation
Indices: 44891823--44891884 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
44891813 GGAGTATGGG
* *
44891823 TTTAAGGATTA-TGGTTTAAGGGTT-GAGA
1 TTTAAGGATTAGGGGTTAAAGGGTTAGAGA
* *
44891851 TTTAAGGCTTAGGGGTTAAAGGGTTAGAGG
1 TTTAAGGATTAGGGGTTAAAGGGTTAGAGA
44891881 TTTA
1 TTTA
44891885 GGGGTTAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.36
29 11 0.39
30 7 0.25
ACGTcount: A:0.27, C:0.02, G:0.34, T:0.37
Consensus pattern (30 bp):
TTTAAGGATTAGGGGTTAAAGGGTTAGAGA
Found at i:44891906 original size:16 final size:15
Alignment explanation
Indices: 44891871--44891917 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
44891861 AGGGGTTAAA
*
44891871 GGGTTAGAGGTTTAG
1 GGGTTAGATGTTTAG
44891886 GGGTTAGATGTGTTAG
1 GGGTTAGATGT-TTAG
* *
44891902 TGGTTAAATG-TTAG
1 GGGTTAGATGTTTAG
44891916 GG
1 GG
44891918 ATTTAGGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
16 12 0.44
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (15 bp):
GGGTTAGATGTTTAG
Found at i:44892112 original size:15 final size:15
Alignment explanation
Indices: 44892092--44892123 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44892082 TATTTTAAGG
44892092 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
44892107 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
44892122 TT
1 TT
44892124 AACAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:44892159 original size:21 final size:22
Alignment explanation
Indices: 44892133--44892174 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
44892123 TAACAATTAT
44892133 GGTTTAAGGGTT-GGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
* *
44892154 GGTTTAGGGGTTAGGGGTTTA
1 GGTTTAAGGGTTAGGGATTTA
44892175 GGGGTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGATTTAA
Found at i:44892174 original size:15 final size:15
Alignment explanation
Indices: 44892154--44892182 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44892144 TGGGATTTAA
44892154 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
44892169 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
44892183 ATGTTACGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:44894499 original size:5 final size:5
Alignment explanation
Indices: 44894489--44894513 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44894479 TTGCTTGTCA
44894489 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
44894514 ATACTGGGTA
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:44895879 original size:15 final size:17
Alignment explanation
Indices: 44895845--44895882 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
44895835 TAATTTATTT
44895845 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
*
44895862 ATTTTTA-TA-TTTATA
1 ATTTTTATTATTTTAGA
44895877 ATTTTT
1 ATTTTT
44895883 TTTCCTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:44897008 original size:27 final size:26
Alignment explanation
Indices: 44896978--44897034 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
44896968 AATTTCGAGG
*
44896978 TTTACAATTTT-TAATTTTTATTAATT
1 TTTAC-ATTTTCTAACTTTTATTAATT
* *
44897004 ATTTACGTTTTCTCACTTTTATTAATT
1 -TTTACATTTTCTAACTTTTATTAATT
44897031 TTTA
1 TTTA
44897035 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTACATTTTCTAACTTTTATTAATT
Found at i:44897350 original size:42 final size:43
Alignment explanation
Indices: 44897282--44897404 Score: 169
Period size: 42 Copynumber: 2.9 Consensus size: 43
44897272 GTTTATGATA
* *
44897282 AAAAGCACCTCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGG
* * *
44897325 AAAAGCGCCGC-AAATGTCATGGTCTTTAGCAGCGTTTGTGGG
1 AAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGG
*
44897367 AAAAGCACCGCTAAAAGTCAT-GACTTTTAGCGGCGTTT
1 AAAAGCACCGCTAAAAGTCATGGTC-TTTAGCGGCGTTT
44897405 ATTTTCAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 41 0.59
43 29 0.41
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGG
Found at i:44900347 original size:21 final size:21
Alignment explanation
Indices: 44900309--44900349 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44900299 CTAAGGTCTC
*
44900309 ATTATTTAAGAATTAAATAAA
1 ATTATTTAAGAATAAAATAAA
44900330 ATTATTTACA-AATAAAATAA
1 ATTATTTA-AGAATAAAATAA
44900350 TACATTAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATTATTTAAGAATAAAATAAA
Found at i:44901489 original size:23 final size:23
Alignment explanation
Indices: 44901444--44901506 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
44901434 CAATGATAGA
* * * *
44901444 ATACAAAATTTTCCATAAAGGCT
1 ATACAAAATATGCCACATAGGCT
* * *
44901467 ATCCAGAATATGTCACATAGGCT
1 ATACAAAATATGCCACATAGGCT
44901490 ATACAAAATATGCCACA
1 ATACAAAATATGCCACA
44901507 AAGGATTAGT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (23 bp):
ATACAAAATATGCCACATAGGCT
Found at i:44907479 original size:26 final size:26
Alignment explanation
Indices: 44907449--44907499 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
44907439 TGATAATTAG
44907449 CATAATAGCATTTAAATCAAATACAA
1 CATAATAGCATTTAAATCAAATACAA
44907475 CATAATAGCATTTAAATCAAATACA
1 CATAATAGCATTTAAATCAAATACA
44907500 TTAAAATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (26 bp):
CATAATAGCATTTAAATCAAATACAA
Found at i:44907513 original size:26 final size:26
Alignment explanation
Indices: 44907452--44907516 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
44907442 TAATTAGCAT
*
44907452 AATAGCATTTAAATCAAATACAACAT
1 AATAGCATTTAAATCAAATACAACAA
**
44907478 AATAGCATTTAAATCAAATACATTAA
1 AATAGCATTTAAATCAAATACAACAA
44907504 AAT-GCTATTTAAA
1 AATAGC-ATTTAAA
44907517 CATATAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (26 bp):
AATAGCATTTAAATCAAATACAACAA
Found at i:44908187 original size:34 final size:34
Alignment explanation
Indices: 44908148--44908217 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
44908138 TTCCTTAGTC
44908148 TAATTTCGGTGGAGAATGGACAAAATAAAGATGA
1 TAATTTCGGTGGAGAATGGACAAAATAAAGATGA
44908182 TAATTTCGGTGGAGAATGGACAAAATAAAGATGA
1 TAATTTCGGTGGAGAATGGACAAAATAAAGATGA
44908216 TA
1 TA
44908218 GCTTTGTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (34 bp):
TAATTTCGGTGGAGAATGGACAAAATAAAGATGA
Found at i:44911551 original size:30 final size:29
Alignment explanation
Indices: 44911488--44911564 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
44911478 GGTACGTATA
* * * *
44911488 TATATACAATATATATTCGTGGGTTTTAT
1 TATATATAACATATATGCGTGGGTTTGAT
*
44911517 TATATATGACATATATGCGTGGGTCTTGAT
1 TATATATAACATATATGCGTGGGT-TTGAT
*
44911547 TATATATAATATATATGC
1 TATATATAACATATATGC
44911565 ATATATGGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 20 0.50
30 20 0.50
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (29 bp):
TATATATAACATATATGCGTGGGTTTGAT
Found at i:44911590 original size:33 final size:34
Alignment explanation
Indices: 44911536--44911601 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
44911526 CATATATGCG
44911536 TGGGTCTTGATTATATATAATATATATGCATATA
1 TGGGTCTTGATTATATATAATATATATGCATATA
* *
44911570 TGGGTCTTG-TTTTATATAATATATATGTATAT
1 TGGGTCTTGATTATATATAATATATATGCATAT
44911602 GAGTTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (34 bp):
TGGGTCTTGATTATATATAATATATATGCATATA
Found at i:44911851 original size:18 final size:18
Alignment explanation
Indices: 44911817--44911864 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
44911807 TATTATGAAA
* *
44911817 AATTGTGTTAATTTGGTG
1 AATTGTATTAATATGGTG
44911835 -ATCTGTATTAATATGGTG
1 AAT-TGTATTAATATGGTG
44911853 AATTGTATTAAT
1 AATTGTATTAAT
44911865 TTTCCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (18 bp):
AATTGTATTAATATGGTG
Found at i:44912567 original size:17 final size:17
Alignment explanation
Indices: 44912525--44912576 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
44912515 TATGATGTGG
*
44912525 TATGAATGAATTGTTA-
1 TATGAATGAACTGTTAT
44912541 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
* *
44912559 TATGCATGAACTATTAT
1 TATGAATGAACTGTTAT
44912576 T
1 T
44912577 TCATATGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 27 0.87
18 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:44913667 original size:29 final size:29
Alignment explanation
Indices: 44913630--44913694 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
44913620 TTATTGTTTG
* *
44913630 CTTCTTAGCACGCCAATTTTTGACTATTT
1 CTTCTTAGCACGCCAATTTGTGACTAGTT
* *
44913659 CTTCTTAGCATGCTAATTTGTGACTAGTT
1 CTTCTTAGCACGCCAATTTGTGACTAGTT
44913688 CTT-TTAG
1 CTTCTTAG
44913695 GTTTGTGGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (29 bp):
CTTCTTAGCACGCCAATTTGTGACTAGTT
Found at i:44914050 original size:9 final size:9
Alignment explanation
Indices: 44914036--44914073 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
44914026 TTAATTTGTC
44914036 TTTAGTTAA
1 TTTAGTTAA
44914045 TTTAGTT-A
1 TTTAGTTAA
44914053 TTTAGTTAA
1 TTTAGTTAA
* *
44914062 GTTAATTAA
1 TTTAGTTAA
44914071 TTT
1 TTT
44914074 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (9 bp):
TTTAGTTAA
Found at i:44924636 original size:41 final size:41
Alignment explanation
Indices: 44924448--44924636 Score: 236
Period size: 41 Copynumber: 4.6 Consensus size: 41
44924438 CAAGTGAGAT
* * * * *
44924448 AATTCAGACTCTATGTCTAGTAGGATGGATGCCAGTGAAAC
1 AATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAAC
* * *
44924489 AATTCAAACTCTATGTCTAGCAGGCTGGATGCCGGTGAAAC
1 AATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAAC
* *
44924530 AATTCAGACTTTATGTCTAACAGGCTTGATGCTGGTGAAAC
1 AATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAAC
*
44924571 AATAT-AGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAAC
1 AAT-TCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAAC
* * *
44924612 ATTTCGGACTTTAAGTCTAGCAGGC
1 AATTCAGACTTTATGTCTAGCAGGC
44924637 CAAAAGCCGG
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 129 0.98
42 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (41 bp):
AATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAAC
Found at i:44936986 original size:15 final size:16
Alignment explanation
Indices: 44936958--44936987 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44936948 GTTTATTTTT
44936958 AGTAAATGAAATGGAC
1 AGTAAATGAAATGGAC
44936974 AGTAAAT-AAATGGA
1 AGTAAATGAAATGGA
44936988 ATGATAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.03, G:0.23, T:0.20
Consensus pattern (16 bp):
AGTAAATGAAATGGAC
Found at i:44945645 original size:23 final size:23
Alignment explanation
Indices: 44945615--44945660 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
44945605 ACTATATTAA
44945615 CATGCTATACCAATTCATTCATT
1 CATGCTATACCAATTCATTCATT
*
44945638 CATGCTATATCAATTCATTCATT
1 CATGCTATACCAATTCATTCATT
44945661 ACCCATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (23 bp):
CATGCTATACCAATTCATTCATT
Found at i:44946246 original size:42 final size:42
Alignment explanation
Indices: 44946200--44946311 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
44946190 GGTTAAACGA
* * *
44946200 AAACCCGTAAGGGTTAAACGGAAGGTCATAAGAGCTGAA-TGG
1 AAACCCGTAAGGGTTAAACGGAAGCTCAAAAGAGATGAACT-G
* *
44946242 AAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGATGAACTG
1 AAACCCGTAAGGGTTAAACGGAAGCTCAAAAGAGATGAACTG
* *
44946284 AAACCCAG-AAGGGTTAAACTGAAACTCA
1 AAACCC-GTAAGGGTTAAACGGAAGCTCA
44946312 TATGAGTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 60 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (42 bp):
AAACCCGTAAGGGTTAAACGGAAGCTCAAAAGAGATGAACTG
Found at i:44946320 original size:21 final size:21
Alignment explanation
Indices: 44946163--44946348 Score: 90
Period size: 21 Copynumber: 8.9 Consensus size: 21
44946153 CACAGAAGCA
* * *
44946163 CATAAGTGCTAAACGGAAACT
1 CATAAGAGTTAAACTGAAACT
* * *
44946184 CGTAAGGGTTAAAC-GAAAACC
1 CATAAGAGTTAAACTG-AAACT
* * * **
44946205 CGTAAGGGTTAAACGGAAGGT
1 CATAAGAGTTAAACTGAAACT
* * *
44946226 CATAAGAGCTGAA-TGGAAACC
1 CATAAGAGTTAAACT-GAAACT
* *
44946247 CATAAGGGTTAAACTGAAGCT
1 CATAAGAGTTAAACTGAAACT
* * * *
44946268 CAAAAGAGATGAACTGAAACC
1 CATAAGAGTTAAACTGAAACT
* *
44946289 CAGAAGGGTTAAACTGAAACT
1 CATAAGAGTTAAACTGAAACT
* *
44946310 CATATGAGTT-AACTGAAGCT
1 CATAAGAGTTAAACTGAAACT
* * *
44946330 CATGAGAGCTAAACGGAAA
1 CATAAGAGTTAAACTGAAA
44946349 GTAAACACGG
Statistics
Matches: 120, Mismatches: 40, Indels: 10
0.71 0.24 0.06
Matches are distributed among these distances:
20 17 0.14
21 101 0.84
22 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (21 bp):
CATAAGAGTTAAACTGAAACT
Found at i:44954299 original size:22 final size:22
Alignment explanation
Indices: 44954274--44954335 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
44954264 CATACATATG
*
44954274 TATACTAAAATAAAT-ATATACA
1 TATAATAAAATAAATAAT-TACA
44954296 TATAGATAAAA-AAATAATTACA
1 TATA-ATAAAATAAATAATTACA
*
44954318 TATAAAAAAATAAATAAT
1 TATAATAAAATAAATAAT
44954336 AATAATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 23 0.66
23 7 0.20
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
TATAATAAAATAAATAATTACA
Found at i:44954395 original size:21 final size:21
Alignment explanation
Indices: 44954356--44954396 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44954346 TTATACTACA
* *
44954356 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
44954377 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
44954397 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:44954994 original size:22 final size:21
Alignment explanation
Indices: 44954959--44955054 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 21
44954949 AAAGGGTATC
* *
44954959 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
44954980 TACAAAATCATATCTTCTAAAAT
1 TAC-AAATCATATC-TCTAAGAT
* *
44955003 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
44955022 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
44955041 TGCATATCATATCT
1 TACAAATCATATCT
44955055 AAGATTGCAT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 33 0.54
21 4 0.07
22 15 0.25
23 9 0.15
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:44955028 original size:19 final size:19
Alignment explanation
Indices: 44954972--44955067 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 19
44954962 AAATTAAATC
*
44954972 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
44954992 TCTTCTAAAATTGCATATCATA
1 ---TCTAAGATTACATATCATA
*
44955014 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
*
44955033 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
44955052 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44955068 CCTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 49 0.75
22 7 0.11
23 9 0.14
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44955067 original size:38 final size:36
Alignment explanation
Indices: 44954988--44955067 Score: 115
Period size: 38 Copynumber: 2.2 Consensus size: 36
44954978 ATTACAAAAT
44954988 CATATCTTCTAAAATTGCATATCATATCTAAGATTA
1 CATATCTTCTAAAATTGCATATCATATCTAAGATTA
* * *
44955024 TATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATC-T-TCTAAAATTGCATATCATATCTAAGATTA
44955062 CATATC
1 CATATC
44955068 CCTGAAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 5 0.13
37 1 0.03
38 32 0.84
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (36 bp):
CATATCTTCTAAAATTGCATATCATATCTAAGATTA
Found at i:44962680 original size:33 final size:33
Alignment explanation
Indices: 44962632--44962709 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
44962622 TAAGTAAGAG
*
44962632 AGTAAACACAGAATAGAGTAAGTCTGTAGGGA-T
1 AGTAAACACAGAATAGAGTAAGTCCGT-GGGACT
*
44962665 AGTAAACAC-GAAATAGAGTAAGTCCGTTGGACT
1 AGTAAACACAG-AATAGAGTAAGTCCGTGGGACT
44962698 AGTAAACACAGA
1 AGTAAACACAGA
44962710 TAGTACGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 4 0.10
33 35 0.88
34 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (33 bp):
AGTAAACACAGAATAGAGTAAGTCCGTGGGACT
Found at i:44966833 original size:6 final size:6
Alignment explanation
Indices: 44966823--44966854 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
44966813 AAGTGCTCCC
*
44966823 TCTCTC TCTCTA TCTCTA TCTCTA TCTCTA TC
1 TCTCTA TCTCTA TCTCTA TCTCTA TCTCTA TC
44966855 ATACACTGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTCTA
Found at i:44970831 original size:75 final size:75
Alignment explanation
Indices: 44970736--44970908 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 75
44970726 CCGCAGAGGA
* * * * * *
44970736 GTTTGCGCCCAGCGCTAGTCG-GGTTAACCGACAATATTGAAAGTGAGCCTAGCTCTAGTTGGAT
1 GTTTGCGCCCAGCGCTAGTCGAAGAT-ACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGAT
44970800 AAACCAACAAT
65 AAACCAACAAT
* * * * *
44970811 GTTTGTGCCCAGTGCTAGTCGAAGATACTGACGATAATAAAAGTGAGCCCAACTCTAGTTGGATG
1 GTTTGCGCCCAGCGCTAGTCGAAGATACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGATA
**
44970876 AACCAACGGT
66 AACCAACAAT
*
44970886 GTTTGCGCCTAGCGCTAGTCGAA
1 GTTTGCGCCCAGCGCTAGTCGAA
44970909 TAAACCGATG
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 79 0.98
76 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (75 bp):
GTTTGCGCCCAGCGCTAGTCGAAGATACCGACAATAATAAAAGTGAGCCCAACTCTAGTTGGATA
AACCAACAAT
Found at i:44972845 original size:19 final size:16
Alignment explanation
Indices: 44972804--44972834 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44972794 ATTTTCAATA
44972804 AATTTTTATAATTAAT
1 AATTTTTATAATTAAT
*
44972820 AGTTTTTATAATTAA
1 AATTTTTATAATTAA
44972835 AAATAATTTT
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTTATAATTAAT
Found at i:44976742 original size:99 final size:99
Alignment explanation
Indices: 44976447--44976742 Score: 409
Period size: 99 Copynumber: 3.0 Consensus size: 99
44976437 GCTTAGGGGG
* * *
44976447 AAGTGAGATTCGCCGTTGTGGCTTCGATCTCTTTAATTGCAATGTCTGGGAACAAAATTCGCCAT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCAGGGAACAAGATTCGCC-T
* *
44976512 T-GTAGCTTTAATCTGATCCACTGTA-TCGCCAGGA
65 TCGTAGCTTTAATCTGCTCCACTGTACT-GCCAGAA
* * * * *
44976546 AAGTAAGATTTGCCGTTGCGGCTTCAATCT-TTTAAATTGCAATATCAAGGAAGCAAGATTCGCC
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTT-AATTGCAATGTCAGGGAA-CAAGATTCGCC
*
44976610 GTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGAA
64 TTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGAA
*
44976646 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCTT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCAGGGAACAAGATTCGCCTT
* *
44976711 CGTAGCTTTAATTTGCTCCACTGCACTGCCAG
66 CGTAGCTTTAATCTGCTCCACTGTACTGCCAG
44976743 GGAAGGTAAC
Statistics
Matches: 172, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
98 3 0.02
99 84 0.49
100 81 0.47
101 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (99 bp):
AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCAGGGAACAAGATTCGCCTT
CGTAGCTTTAATCTGCTCCACTGTACTGCCAGAA
Found at i:44976746 original size:49 final size:50
Alignment explanation
Indices: 44976594--44976747 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
44976584 GCAATATCAA
* *
44976594 GGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAG
1 GGAAGCAAGATTCGCCTTCGTAGCTTTAATCTGCTCCACTGCACTGCCAG
** ** * * ** * * * *
44976644 AAAAGTGAGATTCGCCGTT-GTGGCTTCAATCT-CTTTAATTGCAATGTCGG
1 GGAAGCAAGATTCGCC-TTCGTAGCTTTAATCTGC-TCCACTGCACTGCCAG
*
44976694 GGAA-CAAGATTCGCCTTCGTAGCTTTAATTTGCTCCACTGCACTGCCAG
1 GGAAGCAAGATTCGCCTTCGTAGCTTTAATCTGCTCCACTGCACTGCCAG
44976743 GGAAG
1 GGAAG
44976748 GTAACTTCAC
Statistics
Matches: 72, Mismatches: 27, Indels: 10
0.66 0.25 0.09
Matches are distributed among these distances:
48 2 0.03
49 34 0.47
50 35 0.49
51 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCTTCGTAGCTTTAATCTGCTCCACTGCACTGCCAG
Found at i:44976966 original size:32 final size:32
Alignment explanation
Indices: 44976925--44976989 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
44976915 GCCCAGGGAG
44976925 ATAGAACTACCAGCTTCAATGTACTCCACTGT
1 ATAGAACTACCAGCTTCAATGTACTCCACTGT
44976957 ATAGAACTACCAGCTTCAATGTACTCCACTGT
1 ATAGAACTACCAGCTTCAATGTACTCCACTGT
44976989 A
1 A
44976990 ATCAGGGAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (32 bp):
ATAGAACTACCAGCTTCAATGTACTCCACTGT
Found at i:44977117 original size:45 final size:45
Alignment explanation
Indices: 44977057--44977214 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 45
44977047 GATCTGTAAT
*
44977057 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
44977102 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TCG-G
* *
44977152 CTTCAATCTATTCCACTGCCAAATACGGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
44977197 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
44977215 TAGTCAGGGA
Statistics
Matches: 83, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 3 0.04
45 32 0.39
46 4 0.05
49 4 0.05
50 16 0.19
52 3 0.04
53 10 0.12
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Done.