Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 273 of 290
Found at i:87547724 original size:24 final size:24
Alignment explanation
Indices: 87547697--87547775 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
87547687 TCCAATGCAC
87547697 CTAATTTATATTACAAAGTTTGTT
1 CTAATTTATATTACAAAGTTTGTT
* *** * *
87547721 CTAATTTTTAATGTTGTAA-TGTATT
1 CTAATTTAT-AT-TACAAAGTTTGTT
87547746 -TAATTTATATTACAAAGTTTGTT
1 CTAATTTATATTACAAAGTTTGTT
87547769 CTAATTT
1 CTAATTT
87547776 TTAATGTTAT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
22 3 0.08
23 6 0.15
24 21 0.54
25 6 0.15
26 3 0.08
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (24 bp):
CTAATTTATATTACAAAGTTTGTT
Found at i:87547758 original size:48 final size:48
Alignment explanation
Indices: 87547698--87547837 Score: 228
Period size: 48 Copynumber: 2.9 Consensus size: 48
87547688 CCAATGCACC
*
87547698 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTAATGTATT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
87547746 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
* * * *
87547794 TAATTTATATTACAAAATTTGTTCCAA-TTTTAGTGTTTTAATGT
1 TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGT
87547838 TGTAATGTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
47 15 0.17
48 72 0.83
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (48 bp):
TAATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTATAATGTATT
Found at i:87547797 original size:24 final size:24
Alignment explanation
Indices: 87547722--87547799 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
87547712 AAGTTTGTTC
*
87547722 TAATTTTTAATGTTGTAATGTATT
1 TAATTTTTAATGTTATAATGTATT
* * * *
87547746 TAA--TTT-ATATTACAAAGTTTGTT
1 TAATTTTTAATGTTA-TAA-TGTATT
87547769 CTAATTTTTAATGTTATAATGTATT
1 -TAATTTTTAATGTTATAATGTATT
87547794 TAATTT
1 TAATTT
87547800 ATATTACAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 12
0.65 0.15 0.20
Matches are distributed among these distances:
21 4 0.10
22 5 0.13
23 4 0.10
24 12 0.31
25 4 0.10
26 5 0.13
27 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (24 bp):
TAATTTTTAATGTTATAATGTATT
Found at i:87548396 original size:18 final size:18
Alignment explanation
Indices: 87548373--87548413 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
87548363 TGTTGCGACT
*
87548373 GCTCGGGCTCGGGCTGTG
1 GCTCGGGATCGGGCTGTG
* *
87548391 GCTCGGGATCTGGCTTTG
1 GCTCGGGATCGGGCTGTG
87548409 GCTCG
1 GCTCG
87548414 ACCTCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.27, G:0.44, T:0.27
Consensus pattern (18 bp):
GCTCGGGATCGGGCTGTG
Found at i:87549071 original size:14 final size:14
Alignment explanation
Indices: 87549052--87549081 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87549042 TACATGTTAG
*
87549052 AATAGTATCTTTAA
1 AATAGTATCATTAA
87549066 AATAGTATCATTAA
1 AATAGTATCATTAA
87549080 AA
1 AA
87549082 AATGTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
AATAGTATCATTAA
Found at i:87550644 original size:15 final size:16
Alignment explanation
Indices: 87550624--87550653 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87550614 TTTTACCTAC
87550624 ATAAAAAAA-TAAAAA
1 ATAAAAAAATTAAAAA
87550639 ATAAAAAAATTAAAA
1 ATAAAAAAATTAAAA
87550654 TAATCAAAAT
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
ATAAAAAAATTAAAAA
Found at i:87550748 original size:29 final size:29
Alignment explanation
Indices: 87550709--87550768 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
87550699 ATCAACCTAC
*
87550709 AACACACATAACATATAAATTACATAAAA
1 AACACACATAACAAATAAATTACATAAAA
87550738 AACACACATAACAAATAAATTACATAAAA
1 AACACACATAACAAATAAATTACATAAAA
87550767 AA
1 AA
87550769 TAAAACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.18
Consensus pattern (29 bp):
AACACACATAACAAATAAATTACATAAAA
Found at i:87550769 original size:16 final size:16
Alignment explanation
Indices: 87550723--87550789 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 16
87550713 CACATAACAT
87550723 ATAAATTACAT-AAAA
1 ATAAATTACATAAAAA
* * *
87550738 A-ACA-CACATAACAA
1 ATAAATTACATAAAAA
87550752 ATAAATTACATAAAAA
1 ATAAATTACATAAAAA
*
87550768 ATAAA--ACATTAAAA
1 ATAAATTACATAAAAA
*
87550782 CTAAATTA
1 ATAAATTA
87550790 TGAATGAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
13 4 0.10
14 18 0.46
15 3 0.08
16 14 0.36
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAATTACATAAAAA
Found at i:87550787 original size:30 final size:29
Alignment explanation
Indices: 87550714--87550789 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
87550704 CCTACAACAC
* * *
87550714 ACATAACATATAAATTACATAAAAAACAC
1 ACATAACAAATAAATTACATAAAAAAAAA
87550743 ACATAACAAATAAATTACATAAAAAATAAA
1 ACATAACAAATAAATTACATAAAAAA-AAA
*
87550773 ACATTAA-AACTAAATTA
1 ACA-TAACAAATAAATTA
87550790 TGAATGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 25 0.61
30 13 0.32
31 3 0.07
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.22
Consensus pattern (29 bp):
ACATAACAAATAAATTACATAAAAAAAAA
Found at i:87551085 original size:15 final size:15
Alignment explanation
Indices: 87551061--87551117 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
87551051 CTTCCAACCC
87551061 TCTTCTTCTCCTTCT
1 TCTTCTTCTCCTTCT
*
87551076 TCTTCATCT-CTTCT
1 TCTTCTTCTCCTTCT
87551090 T-TTCTTCTCCTTC-
1 TCTTCTTCTCCTTCT
87551103 TCTTTCTTCTCCTTC
1 TC-TTCTTCTCCTTC
87551118 ACTCACCGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 7 0.19
14 10 0.27
15 20 0.54
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTTCTTCTCCTTCT
Found at i:87576105 original size:40 final size:40
Alignment explanation
Indices: 87576050--87576127 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
87576040 GCATTTGAGT
* * *
87576050 GAAAATTGTATAATTTAGCCGGATGAAGTATGTATTAATA
1 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAATA
87576090 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAA
1 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAA
87576128 CAGATATACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (40 bp):
GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAATA
Found at i:87576145 original size:40 final size:40
Alignment explanation
Indices: 87576050--87576146 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
87576040 GCATTTGAGT
* * * * *
87576050 GAAAATTGTATAATTTAGCCGGATGAAGTATGTATTAATA
1 GAAAACTGTAAAATTTAACCGGATGAAGTAGGTATTAACA
*
87576090 GAAAACTGTATAATTTAACCGGATGAAGTAGGTATTAACA
1 GAAAACTGTAAAATTTAACCGGATGAAGTAGGTATTAACA
*
87576130 GATATACT-TAAAATTTA
1 GA-AAACTGTAAAATTTA
87576147 GTTGGCACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (40 bp):
GAAAACTGTAAAATTTAACCGGATGAAGTAGGTATTAACA
Found at i:87576158 original size:18 final size:18
Alignment explanation
Indices: 87576135--87576169 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87576125 TAACAGATAT
*
87576135 ACTTAAAATTTAGTTGGC
1 ACTTAAAATCTAGTTGGC
87576153 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
87576170 ACTGCCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:87576861 original size:16 final size:16
Alignment explanation
Indices: 87576840--87576878 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
87576830 TGAATTACTT
**
87576840 ATTACAGCTTTATTCA
1 ATTACAGCCCTATTCA
*
87576856 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCA
87576872 ATTACAG
1 ATTACAG
87576879 TGAACCAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:87578745 original size:26 final size:27
Alignment explanation
Indices: 87578716--87578771 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
87578706 TTCTAAGGTC
* * *
87578716 TATTTCTTTTTTCGTTTTGTTAAC-TA
1 TATTTATTTATTCATTTTGTTAACATA
*
87578742 TATTTATTTATTCATTTTTTTAACATA
1 TATTTATTTATTCATTTTGTTAACATA
87578769 TAT
1 TAT
87578772 GTAAACATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (27 bp):
TATTTATTTATTCATTTTGTTAACATA
Found at i:87580317 original size:126 final size:125
Alignment explanation
Indices: 87580101--87580330 Score: 381
Period size: 126 Copynumber: 1.8 Consensus size: 125
87580091 TTCTCAGTTG
* * *
87580101 TTTTTAAAATAATGGCAATGTTCGATATTTAAAAAATTTAAAGGATCGTGCCCTAACGTATTGGG
1 TTTTTAAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGGG
87580166 TTTCGCTTTCTTTGTTTGTTTTGAATA-TCAAGATATCCTTTTACCGGTTCACTCTCAAAA
66 TTTCGCTTTCTTTGTTTGTTTTGAATATTCAA-ATATCCTTTTACCGGTTCACTCTCAAAA
* *
87580226 TTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAGGATCGTGCCCTAACGTACTGG
1 TTTTT-AAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGG
*
87580291 GTTTTGCTTTCTTTGTTTGTTTTGAATATTCAAATATCCT
65 GTTTCGCTTTCTTTGTTTGTTTTGAATATTCAAATATCCT
87580331 CTTAAAGCTA
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
125 5 0.05
126 88 0.91
127 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (125 bp):
TTTTTAAAATAAAGGCAATGTTCGATATTTAAAAAATTCAAAGGATCGTGCCCTAACGTACTGGG
TTTCGCTTTCTTTGTTTGTTTTGAATATTCAAATATCCTTTTACCGGTTCACTCTCAAAA
Found at i:87587478 original size:32 final size:32
Alignment explanation
Indices: 87587441--87587522 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
87587431 TTGCAATTAG
*
87587441 TTTGTTGGATTTTGAAATTATTATATTTTAAA
1 TTTGTTGGATATTGAAATTATTATATTTTAAA
* * *
87587473 TTTGTTGGATATTGAATTTATTATGTTTTAAG
1 TTTGTTGGATATTGAAATTATTATATTTTAAA
*
87587505 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
87587523 GATTGACAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATATTTTAAA
Found at i:87590110 original size:2 final size:2
Alignment explanation
Indices: 87590103--87590127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87590093 TTTGACAGTC
87590103 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
87590128 CTGAGATAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87599462 original size:19 final size:19
Alignment explanation
Indices: 87599438--87599477 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
87599428 ATTAATTTCG
87599438 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
87599457 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
87599476 AT
1 AT
87599478 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:87599968 original size:17 final size:19
Alignment explanation
Indices: 87599920--87599971 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
87599910 AATAATATTT
*
87599920 TATTATTTTAATATTAAAA
1 TATTAATTTAATATTAAAA
*
87599939 TAATTATTTTAATATT-AAA
1 T-ATTAATTTAATATTAAAA
87599958 T-TTAATTTAATATT
1 TATTAATTTAATATT
87599972 TATCTTATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.39
19 5 0.16
20 14 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTAATTTAATATTAAAA
Found at i:87601154 original size:12 final size:12
Alignment explanation
Indices: 87601137--87601161 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87601127 TTCTAATTAA
87601137 TGATTAATTATT
1 TGATTAATTATT
87601149 TGATTAATTATT
1 TGATTAATTATT
87601161 T
1 T
87601162 CGAACGTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TGATTAATTATT
Found at i:87601818 original size:46 final size:43
Alignment explanation
Indices: 87601767--87601890 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 43
87601757 AAAATTAGAA
* *
87601767 AAAAATATAAAATAATAAAAATTTATAGAAAATTATTAAATTTTA-
1 AAAAATATAAAA-AATAAAATTTTATA-AAAATTA-GAAATTTTAC
* *
87601812 ATAAAATATATAAAAATTAGAATTTTATTAAAAATTAGAATTTTTAC
1 A-AAAATATA-AAAAA-TAAAATTTTA-TAAAAATTAGAAATTTTAC
87601859 AAAAATAGTAAAAAATAAAATTTTATAAAAAT
1 AAAAATA-TAAAAAATAAAATTTTATAAAAAT
87601891 CATAAAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
44 7 0.10
45 10 0.15
46 28 0.41
47 21 0.31
48 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (43 bp):
AAAAATATAAAAAATAAAATTTTATAAAAATTAGAAATTTTAC
Found at i:87601825 original size:19 final size:20
Alignment explanation
Indices: 87601771--87601826 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
87601761 TTAGAAAAAA
87601771 ATATAAAATA-ATAAAAATTT
1 ATATAAAATATAT-AAAATTT
* *
87601791 ATAGAAAAT-TATTAAATTT
1 ATATAAAATATATAAAATTT
87601810 -TAATAAAATATATAAAA
1 AT-ATAAAATATATAAAA
87601827 ATTAGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 16 0.55
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
ATATAAAATATATAAAATTT
Found at i:87601862 original size:18 final size:18
Alignment explanation
Indices: 87601823--87601864 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
87601813 TAAAATATAT
*
87601823 AAAAATTAGAATTTTATT
1 AAAAATTAGAATTTTATC
87601841 AAAAATTAGAATTTT-TAC
1 AAAAATTAGAATTTTAT-C
87601859 AAAAAT
1 AAAAAT
87601865 AGTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAAATTAGAATTTTATC
Found at i:87601872 original size:45 final size:43
Alignment explanation
Indices: 87601766--87601890 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 43
87601756 AAAAATTAGA
* * *
87601766 AAAAAATATAAAATAATAAAAATTTATAGAAAATTATTAAATTTTAAT
1 AAAATATATAAAA-AAT-AAAATTT-TATAAAA--ATTAAATTTTAAC
* * *
87601814 AAAATATATAAAAATTAGAATTTTATTAAAAATTAGAATTTTTAC
1 AAAATATATAAAAAATAAAATTTTA-TAAAAATTA-AATTTTAAC
87601859 AAAA-ATAGTAAAAAATAAAATTTTATAAAAAT
1 AAAATATA-TAAAAAATAAAATTTTATAAAAAT
87601891 CATAAAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
44 14 0.21
45 28 0.42
46 10 0.15
47 2 0.03
48 12 0.18
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (43 bp):
AAAATATATAAAAAATAAAATTTTATAAAAATTAAATTTTAAC
Found at i:87602196 original size:9 final size:9
Alignment explanation
Indices: 87602125--87602190 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
87602115 ATATATATAT
87602125 TAATTTTTA
1 TAATTTTTA
**
87602134 CGATTTTTA
1 TAATTTTTA
*
87602143 TAAAATTTTA
1 T-AATTTTTA
*
87602153 CAACTTTTTA
1 TAA-TTTTTA
*
87602163 TATTTTCTTA
1 TAATTT-TTA
*
87602173 TGATTTTTA
1 TAATTTTTA
87602182 TAATTTTTA
1 TAATTTTTA
87602191 ATATTTGAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
9 23 0.55
10 19 0.45
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:87606546 original size:16 final size:16
Alignment explanation
Indices: 87606525--87606572 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
87606515 GGCCCAGATT
87606525 TTTTTAAAAATTTTAA
1 TTTTTAAAAATTTTAA
* **
87606541 TTTTTATACTTTTTAA
1 TTTTTAAAAATTTTAA
*
87606557 ATTTT-AAAATTTTAA
1 TTTTTAAAAATTTTAA
87606572 T
1 T
87606573 CATGACCCAA
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTAAAAATTTTAA
Found at i:87608329 original size:14 final size:14
Alignment explanation
Indices: 87608312--87608352 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
87608302 AATTAATTTT
87608312 TTTTAATATTAAAA
1 TTTTAATATTAAAA
*
87608326 TTTTAA-ATTTTAAA
1 TTTTAATA-TTAAAA
87608340 TTTTAATATTAAA
1 TTTTAATATTAAA
87608353 TTAATTGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAATATTAAAA
Found at i:87608649 original size:15 final size:16
Alignment explanation
Indices: 87608631--87608665 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
87608621 AATTTTGAAT
87608631 TTTAATATTT-AAAAA
1 TTTAATATTTCAAAAA
87608646 TTT-ATATTTCAAAAA
1 TTTAATATTTCAAAAA
87608661 TTTAA
1 TTTAA
87608666 ATTAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 11 0.61
16 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAATATTTCAAAAA
Found at i:87617323 original size:93 final size:93
Alignment explanation
Indices: 87617211--87617382 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
87617201 CGCCCATAAG
*
87617211 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
87617275 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
87617304 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
87617369 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
87617383 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:87617377 original size:46 final size:46
Alignment explanation
Indices: 87617204--87617379 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
87617194 TGTAACCCGC
* *
87617204 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
87617250 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
87617300 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
87617343 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
87617380 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87623566 original size:22 final size:20
Alignment explanation
Indices: 87623536--87623584 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
87623526 AGGGAGAAGC
87623536 AAAATAAAATAAAAAATAAAGAG
1 AAAA-AAAAT-AAAAATAAA-AG
* *
87623559 AAAAAAAATTAAATTAAAAG
1 AAAAAAAATAAAAATAAAAG
87623579 AAAAAA
1 AAAAAA
87623585 TTAAATTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 5 0.21
23 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (20 bp):
AAAAAAAATAAAAATAAAAG
Found at i:87625447 original size:17 final size:17
Alignment explanation
Indices: 87625425--87625462 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
87625415 GTTATTTATT
87625425 TTTTTA-ATTTTATGAAC
1 TTTTTATATTTTATG-AC
*
87625442 TTTTTATATTTTTTGAC
1 TTTTTATATTTTATGAC
87625459 TTTT
1 TTTT
87625463 GACTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTATGAC
Found at i:87628842 original size:29 final size:29
Alignment explanation
Indices: 87628800--87628857 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
87628790 ATTTCATCAG
*
87628800 TCATCGTCCAAATTAAGAGAAGAAAAGAA
1 TCATCGGCCAAATTAAGAGAAGAAAAGAA
87628829 TCATCGGCCAAATTAAGAGAAGAAAAGAA
1 TCATCGGCCAAATTAAGAGAAGAAAAGAA
87628858 AGACCATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.16
Consensus pattern (29 bp):
TCATCGGCCAAATTAAGAGAAGAAAAGAA
Found at i:87649137 original size:29 final size:31
Alignment explanation
Indices: 87649103--87649167 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
87649093 AATTATCTTA
87649103 TTTTTT-AAAATT-TATATATATTTATAATT
1 TTTTTTCAAAATTATATATATATTTATAATT
* * * *
87649132 TTTTTTCTAGATTATATATATTTTTATGATT
1 TTTTTTCAAAATTATATATATATTTATAATT
87649163 TTTTT
1 TTTTT
87649168 ATATATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 6 0.20
30 4 0.13
31 20 0.67
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTTCAAAATTATATATATATTTATAATT
Found at i:87649170 original size:21 final size:20
Alignment explanation
Indices: 87649146--87649189 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
87649136 TTCTAGATTA
87649146 TATATATTT-TTATGATTTTTT
1 TATATATTTCTT-T-ATTTTTT
87649167 TATATATTTCTTTATTTTTT
1 TATATATTTCTTTATTTTTT
87649187 TAT
1 TAT
87649190 TTTTACACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 10 0.45
22 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TATATATTTCTTTATTTTTT
Found at i:87664414 original size:23 final size:23
Alignment explanation
Indices: 87664387--87664431 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
87664377 AAATTTAATA
87664387 AATTTTTATTTTGGTTTCTCATT
1 AATTTTTATTTTGGTTTCTCATT
87664410 AATTTTTATTTTGGTTTCTCAT
1 AATTTTTATTTTGGTTTCTCAT
87664432 GTTATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (23 bp):
AATTTTTATTTTGGTTTCTCATT
Found at i:87675685 original size:7 final size:7
Alignment explanation
Indices: 87675673--87675715 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
87675663 TAGAAATTGT
87675673 GGAAAGG
1 GGAAAGG
87675680 GGAAAGG
1 GGAAAGG
87675687 GGAAAGG
1 GGAAAGG
*
87675694 GGAAAGT
1 GGAAAGG
*
87675701 GGAAAGT
1 GGAAAGG
87675708 GGAAAGG
1 GGAAAGG
87675715 G
1 G
87675716 CTTGGAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.42, C:0.00, G:0.53, T:0.05
Consensus pattern (7 bp):
GGAAAGG
Found at i:87675943 original size:17 final size:16
Alignment explanation
Indices: 87675890--87675943 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
87675880 CACTAGATAA
87675890 ATCAAATTTTAA-AA-
1 ATCAAATTTTAACAAT
*
87675904 ATCAAATTTAAACTAAT
1 ATCAAATTTTAAC-AAT
87675921 -TACAAATTTTTAACAAT
1 AT-CAAA-TTTTAACAAT
87675938 ATCAAA
1 ATCAAA
87675944 AATAATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.34
16 3 0.09
17 11 0.34
18 7 0.22
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
ATCAAATTTTAACAAT
Found at i:87679324 original size:33 final size:33
Alignment explanation
Indices: 87679287--87679372 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
87679277 TTTACGATGT
*
87679287 CATAACCCAATTATGGTCTTTTCACTAAAATGC
1 CATAACCCAGTTATGGTCTTTTCACTAAAATGC
* * *
87679320 CATAACCCAGTTATGATATTTTCACTAAAATGT
1 CATAACCCAGTTATGGTCTTTTCACTAAAATGC
* *
87679353 CATAGCCCAGTTCTGGTCTT
1 CATAACCCAGTTATGGTCTT
87679373 ACCTTTAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (33 bp):
CATAACCCAGTTATGGTCTTTTCACTAAAATGC
Found at i:87684954 original size:22 final size:24
Alignment explanation
Indices: 87684929--87684975 Score: 80
Period size: 22 Copynumber: 2.0 Consensus size: 24
87684919 ATTGAGTCCA
87684929 TTTAATTTTATTTT-CT-TTTATT
1 TTTAATTTTATTTTCCTGTTTATT
87684951 TTTAATTTTATTTTCCTGTTTATT
1 TTTAATTTTATTTTCCTGTTTATT
87684975 T
1 T
87684976 GTTTTTTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.61
23 2 0.09
24 7 0.30
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTAATTTTATTTTCCTGTTTATT
Found at i:87684981 original size:22 final size:21
Alignment explanation
Indices: 87684933--87684982 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
87684923 AGTCCATTTA
*
87684933 ATTTTATTTTCTTTTATTTTT
1 ATTTTATTTTCTTTTATTTGT
87684954 AATTTTATTTTCCTGTTTATTTGT
1 -ATTTTATTTT-CT-TTTATTTGT
*
87684978 TTTTT
1 ATTTT
87684983 CCCAGACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTCTTTTATTTGT
Found at i:87693943 original size:21 final size:21
Alignment explanation
Indices: 87693917--87693957 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87693907 ATCTGCTCAA
* *
87693917 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87693938 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87693958 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:87704850 original size:64 final size:64
Alignment explanation
Indices: 87704729--87704850 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
87704719 TTATTTTAAC
* * * * *
87704729 ATAAATTTTAATGATTATTATTTAAAATAAATATGATTTTTTTTCTATATATAAATATCATTTA
1 ATAAATTTTAATGACTATTATTTAAAATAAATATAATTTTATATATATATATAAATATCATTTA
* * *
87704793 ATAAGTTTTAATGACTATTATTTAACATAAATATAATTTTGATATATATA-ATTAATAT
1 ATAAATTTTAATGACTATTATTTAAAATAAATATAATTTT-ATATATATATATAAATAT
87704851 ATAATTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 43 0.88
65 6 0.12
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (64 bp):
ATAAATTTTAATGACTATTATTTAAAATAAATATAATTTTATATATATATATAAATATCATTTA
Found at i:87704861 original size:9 final size:11
Alignment explanation
Indices: 87704836--87704863 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
87704826 TAATTTTGAT
87704836 ATATATAATTA
1 ATATATAATTA
87704847 ATATATAATTA
1 ATATATAATTA
87704858 ATATAT
1 ATATAT
87704864 TTTTTATTAA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATAATTA
Found at i:87706713 original size:42 final size:42
Alignment explanation
Indices: 87706659--87706743 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
87706649 AAATTTACCC
87706659 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
1 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
*
87706701 ATTCTTATAATCTAATAAATAAAGGGATTGAAATTGAAATTT
1 ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
87706743 A
1 A
87706744 CTCATGATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (42 bp):
ATTCTTATAATCTAAAAAATAAAGGGATTGAAATTGAAATTT
Found at i:87707076 original size:30 final size:30
Alignment explanation
Indices: 87707006--87707085 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
87706996 TTTAATAGTT
* * *
87707006 TATATATTTATAATTTTTAAAAGATTAAAT
1 TATAAATTTATTATTTTTAAAAGATTAAAA
* * *
87707036 TA-AAATTTTATTATTTTTAGAGGGTTAAAA
1 TATAAA-TTTATTATTTTTAAAAGATTAAAA
87707066 TATAAATTTATT-TTTATTAA
1 TATAAATTTATTATTT-TTAA
87707086 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
29 5 0.12
30 32 0.80
31 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
TATAAATTTATTATTTTTAAAAGATTAAAA
Found at i:87711660 original size:14 final size:14
Alignment explanation
Indices: 87711641--87711675 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
87711631 TATTTACACT
*
87711641 TCAAAACGCAAAAG
1 TCAAAAAGCAAAAG
*
87711655 TCAAAAATCAAAAG
1 TCAAAAAGCAAAAG
87711669 TCAAAAA
1 TCAAAAA
87711676 CACATAGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.17, G:0.09, T:0.11
Consensus pattern (14 bp):
TCAAAAAGCAAAAG
Found at i:87730272 original size:11 final size:11
Alignment explanation
Indices: 87730254--87730292 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
87730244 AAAAATATAC
87730254 TATTTTCTTGT
1 TATTTTCTTGT
* *
87730265 TGTTTTCTTAT
1 TATTTTCTTGT
*
87730276 TATTTTGTTGT
1 TATTTTCTTGT
87730287 TATTTT
1 TATTTT
87730293 TTCACTGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.74
Consensus pattern (11 bp):
TATTTTCTTGT
Found at i:87730509 original size:16 final size:18
Alignment explanation
Indices: 87730476--87730512 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
87730466 GTAACATTTA
*
87730476 TTTAATGTTGTTAGTATT
1 TTTAATGTTATTAGTATT
87730494 TTTAATG-TATTA-TATT
1 TTTAATGTTATTAGTATT
87730510 TTT
1 TTT
87730513 TAAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 4 0.22
18 7 0.39
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (18 bp):
TTTAATGTTATTAGTATT
Found at i:87736527 original size:62 final size:63
Alignment explanation
Indices: 87736403--87736527 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 63
87736393 TTTTTGTGTT
* *
87736403 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACATGCCAAAACCC
1 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
87736466 AAAATTATTATAATATTATATCATAC-TTTTTTTATATAAATTATAATAACAGGACAAAACCC
1 AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
87736528 GAACAACAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 34 0.57
63 26 0.43
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (63 bp):
AAAATTATTATAATATTATATCATACTTTTTTTTATATAAATTATAATAACAGGACAAAACCC
Found at i:87740106 original size:6 final size:6
Alignment explanation
Indices: 87740095--87740119 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
87740085 TAATTAAAAC
87740095 CCCTAA CCCTAA CCCTAA CCCTAA C
1 CCCTAA CCCTAA CCCTAA CCCTAA C
87740120 ACTTTATCTT
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (6 bp):
CCCTAA
Found at i:87740603 original size:27 final size:27
Alignment explanation
Indices: 87740552--87740604 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87740542 TGTTAATTGC
**
87740552 TCTTAGATTGATATTTATTTATTTTTA
1 TCTTAGATTGATATTTAACTATTTTTA
87740579 TCTTAGATTGATATTTAAACT-TTTTT
1 TCTTAGATTGATATTT-AACTATTTTT
87740605 CATTCACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (27 bp):
TCTTAGATTGATATTTAACTATTTTTA
Found at i:87740762 original size:6 final size:6
Alignment explanation
Indices: 87740751--87740797 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
87740741 TTCATACATC
* * *
87740751 TTTCTT TTTCTT TTTGTT TTTCTT TATTCAT TCTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC
87740798 CTACCTTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:87749754 original size:24 final size:23
Alignment explanation
Indices: 87749715--87749801 Score: 61
Period size: 25 Copynumber: 3.6 Consensus size: 23
87749705 TTAATATTAA
87749715 ATTAATATAATATTTATTGATAAAT
1 ATTAAT-TAA-ATTTATTGATAAAT
*
87749740 ATTAGATTAAATTTACT-ATTAAAT
1 ATTA-ATTAAATTTATTGA-TAAAT
* * * *
87749764 CTT-ATTAAAATAATAAGATAAAT
1 ATTAATTAAATTTAT-TGATAAAT
87749787 ATTAAATTAAATTTA
1 ATT-AATTAAATTTA
87749802 ATATTAAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
22 8 0.17
23 8 0.17
24 14 0.30
25 15 0.32
26 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTAATTAAATTTATTGATAAAT
Found at i:87749763 original size:47 final size:47
Alignment explanation
Indices: 87749733--87749823 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
87749723 AATATTTATT
* * *
87749733 GATAAATATTAGATTAAATTTACTATTAAATCTTATTAAAATAATAA
1 GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATAA
87749780 GATAAATATTAAATTAAATTTAATATTAAA-CT-ATTAAAATAATA
1 GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATA
87749824 TGAAACTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 12 0.29
46 2 0.05
47 28 0.67
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (47 bp):
GATAAATATTAAATTAAATTTAATATTAAATCTAATTAAAATAATAA
Found at i:87749797 original size:12 final size:12
Alignment explanation
Indices: 87749735--87749817 Score: 50
Period size: 12 Copynumber: 6.9 Consensus size: 12
87749725 TATTTATTGA
*
87749735 TAAATATTAGAT
1 TAAATATTAAAT
*
87749747 TAAAT-TTACTAT
1 TAAATATTA-AAT
*
87749759 TAAATCTT--AT
1 TAAATATTAAAT
*
87749769 TAAAATAATAAGA-
1 T-AAATATTAA-AT
87749782 TAAATATTAAAT
1 TAAATATTAAAT
87749794 TAAAT-TTAATAT
1 TAAATATTAA-AT
87749806 TAAACTATTAAA
1 TAAA-TATTAAA
87749818 ATAATATGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
10 3 0.05
11 13 0.23
12 31 0.54
13 5 0.09
14 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:87749841 original size:47 final size:47
Alignment explanation
Indices: 87749734--87749841 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
87749724 ATATTTATTG
* * * *
87749734 ATAAATATTAGATTAAATTTACTATTAAATCTTATTAAAATAATAAG
1 ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATAAA
*
87749781 ATAAATATTAAATTAAATTTAATATTAAA-C-TATTAAAATAATATGAA
1 ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATA--AA
87749828 ACTAAA-ATCAAATT
1 A-TAAATATCAAATT
87749842 TTCTGGTAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
45 13 0.24
46 1 0.02
47 36 0.67
48 4 0.07
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (47 bp):
ATAAATATCAAATTAAATTTAATATTAAATCTTATTAAAATAATAAA
Found at i:87751420 original size:16 final size:16
Alignment explanation
Indices: 87751399--87751432 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87751389 TTATGCATGC
* *
87751399 AAAATATAAAAGATAT
1 AAAATACAAAAGACAT
87751415 AAAATACAAAAGACAT
1 AAAATACAAAAGACAT
87751431 AA
1 AA
87751433 TAGCGAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATACAAAAGACAT
Found at i:87756675 original size:21 final size:21
Alignment explanation
Indices: 87756650--87756692 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
87756640 ATTTTTTAAA
*
87756650 TTTAAAAATTAAAAAAACTAT
1 TTTAAAAATAAAAAAAACTAT
*
87756671 TTTAAAAATAAAAAAAATTAT
1 TTTAAAAATAAAAAAAACTAT
87756692 T
1 T
87756693 AAAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTAAAAATAAAAAAAACTAT
Found at i:87756677 original size:20 final size:20
Alignment explanation
Indices: 87756649--87756686 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
87756639 AATTTTTTAA
*
87756649 ATTTAAAAATTAAAAAAACT
1 ATTTAAAAAATAAAAAAACT
*
87756669 ATTTTAAAAATAAAAAAA
1 ATTTAAAAAATAAAAAAA
87756687 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTTAAAAAATAAAAAAACT
Found at i:87756694 original size:19 final size:19
Alignment explanation
Indices: 87756651--87756717 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
87756641 TTTTTTAAAT
87756651 TTAAAAATTAAAAAAACTATT-
1 TTAAAAA-TAAAAAAA--ATTA
87756672 TTAAAAATAAAAAAAATTA
1 TTAAAAATAAAAAAAATTA
* *
87756691 TT-AAAATATTATAAAATTA
1 TTAAAAATA-AAAAAAATTA
87756710 -TAAAAATA
1 TTAAAAATA
87756718 TTTTTAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.24
19 16 0.39
20 8 0.20
21 7 0.17
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAATAAAAAAAATTA
Found at i:87756752 original size:28 final size:27
Alignment explanation
Indices: 87756668--87756752 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 27
87756658 TTAAAAAAAC
* * *
87756668 TATTTTAAAAATAAAAAAAATTATTAAAA
1 TATTATAAAATTATAAAAAATTATT--AA
*
87756697 TATTATAAAATTATAAAAATATTTTTAA
1 TATTATAAAATTATAAAAA-ATTATTAA
* * *
87756725 TATTTTTAAATTCTAAAAAATTAATTAA
1 TATTATAAAATTATAAAAAATT-ATTAA
87756753 ATGCTAACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.07
28 22 0.48
29 16 0.35
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (27 bp):
TATTATAAAATTATAAAAAATTATTAA
Found at i:87766061 original size:190 final size:190
Alignment explanation
Indices: 87765738--87766118 Score: 699
Period size: 190 Copynumber: 2.0 Consensus size: 190
87765728 ACTTCCAATC
87765738 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
1 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
87765803 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
66 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
*
87765868 CTGAACCCGATGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
131 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
*
87765928 AGCGAACTTTAGGTAAGCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
1 AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
* * **
87765993 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTGTTATGGCAACGATCCCAGTTTGGAAT
66 ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
*
87766058 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAACTCTAAAAGTG
131 CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
87766118 A
1 A
87766119 CGGTAAGAAG
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 184 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (190 bp):
AGCGAACTTTAGGTAACCTTCAGAATTGGGTTACTAATCAGATATTCCAACTTTCTTTCTTAACA
ATCAGCCAACAAATTACTTAAACCTGTTGCAGCCCTTTATGATGGCAACGATCCCAGCGTGGAAT
CTGAACCCGAGGAAACATTGGCAGCTCTGAAAAGCAAAATGAAACCAAAATCTAAAAGTG
Found at i:87767395 original size:23 final size:21
Alignment explanation
Indices: 87767357--87767436 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 21
87767347 TACCAAATTG
*
87767357 AATTAAAAAAACTTAAGAACCA
1 AATTAAAAAAAATTAA-AACCA
*
87767379 AATTAAAAAAAAATTAAACATCA
1 AATT-AAAAAAAATTAAA-ACCA
87767402 AATTAAAAAAAATTAAAAAACCA
1 AATTAAAAAAAATT--AAAACCA
87767425 AATTAAAAAAAA
1 AATTAAAAAAAA
87767437 ATTGTGAAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.29
23 33 0.65
24 3 0.06
ACGTcount: A:0.71, C:0.09, G:0.01, T:0.19
Consensus pattern (21 bp):
AATTAAAAAAAATTAAAACCA
Found at i:87767980 original size:26 final size:25
Alignment explanation
Indices: 87767944--87768000 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
87767934 CAGCAAAAAA
*
87767944 ATAAATAAATAAATAATCCATCAAAT
1 ATAAATAAATAAAAAATCCAT-AAAT
* *
87767970 ATAATTAAATAAAAAATGCATAAAT
1 ATAAATAAATAAAAAATCCATAAAT
*
87767995 ACAAAT
1 ATAAAT
87768001 TTAATCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (25 bp):
ATAAATAAATAAAAAATCCATAAAT
Found at i:87777283 original size:3 final size:3
Alignment explanation
Indices: 87777275--87777308 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
87777265 TTTGAAGGGG
87777275 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
87777309 ATGGATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:87777355 original size:6 final size:6
Alignment explanation
Indices: 87777344--87777379 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
87777334 GTTTCTGTTC
*
87777344 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT CTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
87777380 GGTGTGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:87781381 original size:13 final size:13
Alignment explanation
Indices: 87781363--87781392 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
87781353 ACATGACATC
87781363 ATTGGATTGGTTA
1 ATTGGATTGGTTA
*
87781376 ATTGGATTGGTTG
1 ATTGGATTGGTTA
87781389 ATTG
1 ATTG
87781393 TGTTCCGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (13 bp):
ATTGGATTGGTTA
Found at i:87783629 original size:222 final size:223
Alignment explanation
Indices: 87783216--87783661 Score: 718
Period size: 222 Copynumber: 2.0 Consensus size: 223
87783206 GACTTTAATA
* *
87783216 GTTGATTAAGTCTTCGCTCGATTGGTATAAATATTGTTATCAATGCAGAAGAATGTGGGTTCGAG
1 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
*
87783281 TGCACTAATGCGTAATATCCTCTTATTGATGAGTTGGGAGAGGCTGTAAGTAGTTTTAGGCATTG
66 TGCACTAATGCGTAATA----C-TA-T-ATGAGTTGGGAGAGGCTGTAAGTAGTTTTAAGCATTG
*
87783346 TGTCAAAAAGAACAAATATGATCAGAACCACCTATAATGGTTATTAAACTGACTTTTGTAAGGTA
124 TGTCAAAAAGAACAAATATGATCAGAACCACCTATAATGGTAATTAAACTGACTTTTGTAAGGTA
87783411 ATTGAATCGAACATCTTCAAACTATCATTATCAAT
189 ATTGAATCGAACATCTTCAAACTATCATTATCAAT
*
87783446 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAATAATGTGGGTTCGAG
1 GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
*
87783511 TGCACTAATGCGTAATA-TA-ATGAGTTGGGGAGGGGCTGTAAGTAGTTTTAAGCATTGTGTCAA
66 TGCACTAATGCGTAATACTATATGAGTT-GGGAGAGGCTGTAAGTAGTTTTAAGCATTGTGTCAA
* *
87783574 AAAGAACTAATATGATCATAACCACCTATAATGAG-AATTAAACTGACTTTTGTAAGGTAATTGA
130 AAAGAACAAATATGATCAGAACCACCTATAATG-GTAATTAAACTGACTTTTGTAAGGTAATTGA
87783638 ATCGAACATCTTCAAACTATCATT
194 ATCGAACATCTTCAAACTATCATT
87783662 TATATTTTAA
Statistics
Matches: 206, Mismatches: 8, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
221 7 0.03
222 117 0.57
223 1 0.00
224 2 0.01
230 79 0.38
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (223 bp):
GTTGATTAAGTATTCGCTCGATTGGTATAAATATTATTATCAATGCAGAAGAATGTGGGTTCGAG
TGCACTAATGCGTAATACTATATGAGTTGGGAGAGGCTGTAAGTAGTTTTAAGCATTGTGTCAAA
AAGAACAAATATGATCAGAACCACCTATAATGGTAATTAAACTGACTTTTGTAAGGTAATTGAAT
CGAACATCTTCAAACTATCATTATCAAT
Found at i:87789795 original size:33 final size:33
Alignment explanation
Indices: 87789757--87789827 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
87789747 GCCCATGTAC
87789757 CAAATTACGA-AAAAAAATGAT-AAGTTCAAGTAT
1 CAAATT-CGACAAAAAAATG-TCAAGTTCAAGTAT
* *
87789790 CAAATTGGACAAAAAAATGTCAAGTTTAAGTAT
1 CAAATTCGACAAAAAAATGTCAAGTTCAAGTAT
87789823 CAAAT
1 CAAAT
87789828 GTTATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (33 bp):
CAAATTCGACAAAAAAATGTCAAGTTCAAGTAT
Found at i:87790994 original size:16 final size:17
Alignment explanation
Indices: 87790962--87790995 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
87790952 AATAATGTTT
87790962 TTAATAAAATATTAAAA
1 TTAATAAAATATTAAAA
*
87790979 TTAATAAGAT-TTAAAA
1 TTAATAAAATATTAAAA
87790995 T
1 T
87790996 AAAAATTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTAATAAAATATTAAAA
Found at i:87803284 original size:41 final size:43
Alignment explanation
Indices: 87803233--87803315 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 43
87803223 ATTTTAATAT
87803233 TTTAAAATTAAATT-TA-AATTATAA-A-ATTATTTGATAAATCA
1 TTTAAAATT-AATTATAGAA-TATAATAGATTATTTGATAAATCA
87803274 TTTAAAATTAATTATAGAATATAATTAGATTATTTGATAAAT
1 TTTAAAATTAATTATAGAATATAA-TAGATTATTTGATAAAT
87803316 ATATATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 4 0.11
41 16 0.43
42 2 0.05
43 1 0.03
44 14 0.38
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (43 bp):
TTTAAAATTAATTATAGAATATAATAGATTATTTGATAAATCA
Found at i:87803316 original size:22 final size:22
Alignment explanation
Indices: 87803247--87803319 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
87803237 AAATTAAATT
87803247 TAAAT-TA-TAAAATTATTTGA
1 TAAATATATTAAAATTATTTGA
*
87803267 TAAATCAT-TTAAAATTAATT-A
1 TAAAT-ATATTAAAATTATTTGA
*
87803288 TAGAATATAATT-AGATTATTTGA
1 TA-AATAT-ATTAAAATTATTTGA
87803311 TAAATATAT
1 TAAATATAT
87803320 ATTTTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.12
21 7 0.16
22 26 0.60
23 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (22 bp):
TAAATATATTAAAATTATTTGA
Found at i:87804273 original size:26 final size:26
Alignment explanation
Indices: 87804244--87804311 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 26
87804234 GCACGACTCT
87804244 TTTTTTATATTAAAATATTTTTTTTA
1 TTTTTTATATTAAAATATTTTTTTTA
* * *
87804270 TTTTTTAAAAT-AAA-ATGTTTTTTA
1 TTTTTTATATTAAAATATTTTTTTTA
*
87804294 -TTTTTAT-TAAAAATATTT
1 TTTTTTATATTAAAATATTT
87804312 AAATTTTTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
23 9 0.27
24 12 0.36
25 3 0.09
26 9 0.27
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTTTATATTAAAATATTTTTTTTA
Found at i:87804638 original size:14 final size:14
Alignment explanation
Indices: 87804613--87804680 Score: 72
Period size: 13 Copynumber: 5.1 Consensus size: 14
87804603 TCGAAGAGAG
87804613 AAAGAA-AAGAAAA
1 AAAGAAGAAGAAAA
*
87804626 AAAGGAGAAG-AAA
1 AAAGAAGAAGAAAA
*
87804639 AAA-AAGAAGAGAA
1 AAAGAAGAAGAAAA
* *
87804652 GAAGAAGAAGAAAG
1 AAAGAAGAAGAAAA
87804666 AAAGAAGAA-AAAA
1 AAAGAAGAAGAAAA
87804679 AA
1 AA
87804681 GTAATGTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.11
13 20 0.45
14 19 0.43
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:87804656 original size:11 final size:13
Alignment explanation
Indices: 87804609--87804673 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 13
87804599 CCACTCGAAG
87804609 AGAGAAAGAAAAGA
1 AGAGAAAG-AAAGA
* *
87804623 A-AAAAAG-GAGA
1 AGAGAAAGAAAGA
*
87804634 AGA-AAAAAAAGA
1 AGAGAAAGAAAGA
87804646 AGAG-AAG-AAGA
1 AGAGAAAGAAAGA
87804657 AGAAGAAAGAAAGA
1 AG-AGAAAGAAAGA
87804671 AGA
1 AGA
87804674 AAAAAAAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
11 13 0.32
12 11 0.28
13 9 0.22
14 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAGAAAGAAAGA
Found at i:87804660 original size:37 final size:37
Alignment explanation
Indices: 87804609--87804681 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
87804599 CCACTCGAAG
87804609 AGAGAAAGAAAAGAA-AAA-AAGGAGAAGAAAAAAAAGA
1 AGAGAAAGAAAAGAAGAAAGAA--AGAAGAAAAAAAAGA
87804646 AGAG-AAGAAGAAGAAGAAAGAAAGAAGAAAAAAAAG
1 AGAGAAAGAA-AAGAAGAAAGAAAGAAGAAAAAAAAG
87804682 TAATGTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
36 5 0.15
37 23 0.70
38 3 0.09
39 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (37 bp):
AGAGAAAGAAAAGAAGAAAGAAAGAAGAAAAAAAAGA
Found at i:87805726 original size:30 final size:29
Alignment explanation
Indices: 87805690--87805786 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 29
87805680 TAATTTTAAA
87805690 ATTAATTTGTTAGTAATTTAGAATTATGTT
1 ATTAATTT-TTAGTAATTTAGAATTATGTT
* *
87805720 ATTAATTTTT-GT-GTTT-GTAATTATTTT
1 ATTAATTTTTAGTAATTTAG-AATTATGTT
* *
87805747 AAAATTAATTTATTAGTAATTTAGGATTAAGTT
1 ---ATTAATTT-TTAGTAATTTAGAATTATGTT
*
87805780 ATAAATT
1 ATTAATT
87805787 ATTGCGTTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
26 1 0.02
27 11 0.21
28 2 0.04
29 2 0.04
30 22 0.42
31 2 0.04
32 2 0.04
33 9 0.17
34 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (29 bp):
ATTAATTTTTAGTAATTTAGAATTATGTT
Found at i:87805763 original size:60 final size:60
Alignment explanation
Indices: 87805677--87805795 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
87805667 GTTTTTTTTA
* * * * *
87805677 TAATAATTTTAAAATTAATTTGTTAGTAATTTAGAATTATGTTATTAATTTTTGTGTTTG
1 TAATAATTTTAAAATTAATTTATTAGTAATTTAGAATTAAGTTATAAATTATTGCGTTTG
* *
87805737 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTATTGCGTTT
1 TAATAATTTTAAAATTAATTTATTAGTAATTTAGAATTAAGTTATAAATTATTGCGTTT
87805796 AGTTTAGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.53
Consensus pattern (60 bp):
TAATAATTTTAAAATTAATTTATTAGTAATTTAGAATTAAGTTATAAATTATTGCGTTTG
Found at i:87808342 original size:33 final size:33
Alignment explanation
Indices: 87808300--87808386 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
87808290 CAGCCTACTA
* *
87808300 CCACCTCAGTACTCAACTCCTTCCGGCCCGTAT
1 CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
* * *
87808333 CCACCTCAGTACTCTGCTCCTTTCGGTCCATAT
1 CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
* *
87808366 CCACCGCCGTACTCTACTCCT
1 CCACCTCAGTACTCTACTCCT
87808387 CTTGGCTCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.16, C:0.45, G:0.11, T:0.28
Consensus pattern (33 bp):
CCACCTCAGTACTCTACTCCTTCCGGCCCATAT
Found at i:87808666 original size:76 final size:77
Alignment explanation
Indices: 87808584--87808726 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 77
87808574 AATAACTTCA
* *
87808584 TATTTATATAATAAATTTTTTGGCATTTTATTTATCAA-TCTAAGTTTTTTTTTTGCAATTTAAA
1 TATTTATATAATAAATTTTTTGACATTTTATTTATCAATTCTAAGTTTTTTTTTTGAAATTTAAA
87808648 TAGTCAACTTTG
66 TAGTCAACTTTG
* * * * *
87808660 TATTTATTTAATGACTTTTTTGACATTTTATTTATCAATTTTATGTTTTTTTTTTGAAATTTAAA
1 TATTTATATAATAAATTTTTTGACATTTTATTTATCAATTCTAAGTTTTTTTTTTGAAATTTAAA
87808725 TA
66 TA
87808727 AATAGGCTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
76 34 0.58
77 25 0.42
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (77 bp):
TATTTATATAATAAATTTTTTGACATTTTATTTATCAATTCTAAGTTTTTTTTTTGAAATTTAAA
TAGTCAACTTTG
Found at i:87812012 original size:27 final size:28
Alignment explanation
Indices: 87811977--87812035 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
87811967 TACTGATCCG
*
87811977 AAAAT-AAAAAATAATATTTT-ATTTAAA
1 AAAATAAAAAAATAA-ATTTTAATATAAA
87812004 AAAATAAAAAAATAAATTTTAATATAAA
1 AAAATAAAAAAATAAATTTTAATATAAA
87812032 AAAA
1 AAAA
87812036 GAGTCGCGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATAAAAAAATAAATTTTAATATAAA
Found at i:87818156 original size:16 final size:16
Alignment explanation
Indices: 87818135--87818167 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
87818125 TAGCTTGAAA
87818135 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
87818151 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
87818167 G
1 G
87818168 CCGATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (16 bp):
GTCGTCTAAATCATGT
Found at i:87819837 original size:6 final size:6
Alignment explanation
Indices: 87819818--87819896 Score: 54
Period size: 6 Copynumber: 13.5 Consensus size: 6
87819808 GTCATAATAC
* * * * * *
87819818 AATAGT AATAGT AATTGT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT
* * * *
87819866 AATAAT AATAAT -ACA-T AATAGT AATAAT AAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AAT
87819897 GATAATAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
4 1 0.02
5 4 0.06
6 60 0.92
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (6 bp):
AATAGT
Found at i:87820026 original size:65 final size:65
Alignment explanation
Indices: 87819920--87820075 Score: 235
Period size: 65 Copynumber: 2.4 Consensus size: 65
87819910 AGCGGTAAAA
* *
87819920 ATGATAAAAATAATAATGATAATAATAATATATAAAATAATAATAATAGTAAAAAAGATAATAAG
1 ATGATAAAAATAATAATG---ATAATAATATATAAAATAATAAGAACAGTAAAAAAGATAATAAG
87819985 AAT
63 AAT
87819988 ATGATAAAAATAATAATGATAATAATATATAAAATAATAAGAACAGTAAAAAAGATAATAAGAAT
1 ATGATAAAAATAATAATGATAATAATATATAAAATAATAAGAACAGTAAAAAAGATAATAAGAAT
* *
87820053 A-G-TAACAATAATAATGGTAATAA
1 ATGATAAAAATAATAATGATAATAA
87820076 CGATAATAAA
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
63 19 0.23
64 1 0.01
65 46 0.55
68 18 0.21
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.26
Consensus pattern (65 bp):
ATGATAAAAATAATAATGATAATAATATATAAAATAATAAGAACAGTAAAAAAGATAATAAGAAT
Found at i:87820342 original size:3 final size:3
Alignment explanation
Indices: 87819835--87820322 Score: 242
Period size: 3 Copynumber: 162.0 Consensus size: 3
87819825 ATAGTAATTG
87819835 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *** * *
87819881 TAA TAG TAA TAA TAA TGA TAA TAAA TAT TAG CGG TAA AAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
87819927 AAA TAA TAA TGA TAA TAA TAA TATA TAA -AA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * *
87819972 -AA AAGA TAA TAA GAA T-A TGA TAA AAA TAA TAA TGA TAA TAA TATA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * * *
87820017 TAA -AA TAA TAA GAA CAG TAA -AA AAGA TAA TAA GAA TAG TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
** ** * * * *
87820061 TAA TAA TGG TAA TAA CGA TAA TAAA TAA TAG GAG TAAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA
* * * * * * *
87820108 TAA TAA TAG TAA TAA TGA GAA GAT TAA TAA TAG TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
87820156 TAG TAA TAGA AAA TAA -AA AAA TAA AAA AAA T-A TAA TAA TAG CAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *** *
87820200 TAG CAA TAA AAA TAA AAA TAA TAG TAA TAA TAA GGG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
87820248 TAA CAA TAA T-G TAAA TAA TAA T-A TACA T-A TGAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA
* * *
87820293 TAA -AG TAA TTA TAA TTAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
87820323 ACAACAGAAA
Statistics
Matches: 355, Mismatches: 106, Indels: 48
0.70 0.21 0.09
Matches are distributed among these distances:
2 20 0.06
3 304 0.86
4 31 0.09
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:87823778 original size:20 final size:21
Alignment explanation
Indices: 87823740--87823778 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
87823730 TCATGATATC
*
87823740 AATCTCATTCATATGTTATTT
1 AATCTCATTCACATGTTATTT
*
87823761 AATCT-ATTCACATTTTAT
1 AATCTCATTCACATGTTAT
87823779 AACTCTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (21 bp):
AATCTCATTCACATGTTATTT
Found at i:87824004 original size:42 final size:41
Alignment explanation
Indices: 87823851--87824119 Score: 207
Period size: 42 Copynumber: 6.3 Consensus size: 41
87823841 CTAACATCGT
* * * *
87823851 AGTGCATCATCGAATAAACCGAAGGACATATACTGGTACACA
1 AGTGCATCATCG-ATTAACCGAAGCAAATATACTGGTACATA
* * * * * * * *
87823893 TAGTGCTTCATCGGA-CAAGTCAAAGCAATTGTACTGGCACACA
1 -AGTGCATCATC-GATTAA-CCGAAGCAAATATACTGGTACATA
** * * *
87823936 AGGTGCATCATCTGACGAACCAAAGCAAATGTAATGGTACATA
1 A-GTGCATCATC-GATTAACCGAAGCAAATATACTGGTACATA
* **
87823979 AGTGCATCATCGAATTAACCGAAGCAAATATATTGACACATA
1 AGTGCATCATCG-ATTAACCGAAGCAAATATACTGGTACATA
* *
87824021 AGTGCATCATCGGTTAAACCGAAGTAAATATACTGGTACATA
1 AGTGCATCATCGATT-AACCGAAGCAAATATACTGGTACATA
* *
87824063 AGTGCATCATCGGTTAAACCGAAGTAAATATACTGGTACACATA
1 AGTGCATCATCGATT-AACCGAAGCAAATATACTGGT--ACATA
*
87824107 AGTGCATTATCGA
1 AGTGCATCATCGA
87824120 CTAAACTGAA
Statistics
Matches: 187, Mismatches: 31, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
41 3 0.02
42 106 0.57
43 59 0.32
44 19 0.10
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (41 bp):
AGTGCATCATCGATTAACCGAAGCAAATATACTGGTACATA
Found at i:87824058 original size:84 final size:86
Alignment explanation
Indices: 87823851--87824132 Score: 261
Period size: 84 Copynumber: 3.3 Consensus size: 86
87823841 CTAACATCGT
* * * * * * ** *
87823851 AGTGCATCATCGAATAAACCGAAGGACATATACTGGTACACATAGTGCTTCATCGGA-CAAGTCA
1 AGTGCATCATCGACTAAACCGAAGTAAATATACTGGTACATA-AGTGCATCATC-GATTAAACCG
* * *
87823915 AAGCAATTGTACTGGCACACA-A
64 AAGCAAATATACTGGTACACATA
* * * * * *
87823937 GGTGCATCATCTGAC-GAACCAAAGCAAATGTAATGGTACATAAGTGCATCATCGAATT-AACCG
1 AGTGCATCATC-GACTAAACCGAAGTAAATATACTGGTACATAAGTGCATCATCG-ATTAAACCG
*
87824000 AAGCAAATATA-TTG-ACACATA
64 AAGCAAATATACTGGTACACATA
** *
87824021 AGTGCATCATCGGTTAAACCGAAGTAAATATACTGGTACATAAGTGCATCATCGGTTAAACCGAA
1 AGTGCATCATCGACTAAACCGAAGTAAATATACTGGTACATAAGTGCATCATCGATTAAACCGAA
*
87824086 GTAAATATACTGGTACACATA
66 GCAAATATACTGGTACACATA
* *
87824107 AGTGCATTATCGACTAAACTGAAGTA
1 AGTGCATCATCGACTAAACCGAAGTA
87824133 TAAACCCATT
Statistics
Matches: 156, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
83 8 0.05
84 63 0.40
85 24 0.15
86 59 0.38
87 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (86 bp):
AGTGCATCATCGACTAAACCGAAGTAAATATACTGGTACATAAGTGCATCATCGATTAAACCGAA
GCAAATATACTGGTACACATA
Found at i:87826069 original size:11 final size:11
Alignment explanation
Indices: 87826053--87826077 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87826043 ATTTAAAACA
87826053 AATATATTTTT
1 AATATATTTTT
87826064 AATATATTTTT
1 AATATATTTTT
87826075 AAT
1 AAT
87826078 TAATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATATTTTT
Found at i:87826145 original size:21 final size:21
Alignment explanation
Indices: 87826102--87826141 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
87826092 ATAATATCAA
87826102 ATAAATCTGAATTTTCATTAT
1 ATAAATCTGAATTTTCATTAT
87826123 ATAAA-CTGAATTTTCATTA
1 ATAAATCTGAATTTTCATTA
87826142 ATATCCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAAATCTGAATTTTCATTAT
Found at i:87831244 original size:20 final size:19
Alignment explanation
Indices: 87831203--87831245 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
87831193 GTTTACTCCA
**
87831203 AAATCTCGATGTAAATCTT
1 AAATCTCGATGTAAATAAT
*
87831222 AAATCTCGATTTGAAATAAT
1 AAATCTCGATGT-AAATAAT
87831242 AAAT
1 AAAT
87831246 GTTGGAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (19 bp):
AAATCTCGATGTAAATAAT
Found at i:87837276 original size:16 final size:16
Alignment explanation
Indices: 87837255--87837287 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
87837245 TAGCTTGAAA
87837255 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
87837271 GTCGTCTAAATCATGT
1 GTCGTCTAAATCATGT
87837287 G
1 G
87837288 CCGATTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (16 bp):
GTCGTCTAAATCATGT
Found at i:87838964 original size:6 final size:6
Alignment explanation
Indices: 87838945--87839023 Score: 54
Period size: 6 Copynumber: 13.5 Consensus size: 6
87838935 GTCATAATAC
* * * * * *
87838945 AATAGT AATAGT AATTGT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT
* * * *
87838993 AATAAT AATAAT -ACA-T AATAGT AATAAT AAT
1 AATAGT AATAGT AATAGT AATAGT AATAGT AAT
87839024 GATAATAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
4 1 0.02
5 4 0.06
6 60 0.92
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (6 bp):
AATAGT
Found at i:87839465 original size:3 final size:3
Alignment explanation
Indices: 87838962--87839445 Score: 229
Period size: 3 Copynumber: 161.0 Consensus size: 3
87838952 ATAGTAATTG
87838962 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * *** * *
87839008 TAA TAG TAA TAA TAA TGA TAA TAAA TAT TAG CGG TAA AAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
87839054 AAA TAA TAA TGA TAA TAA TATA TATA TAA -AA TAA TAA TAG TAA -AA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * *
87839099 AAGA TAA TAA GAA T-A TGA TAA AAA TAA TAA TGA TAA TAA TATA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * * * *
87839145 -AA TAA TAA GAA CAG TAA -AA AAGA TAA TAA GAA TAG TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
** ** * * * *
87839189 TAA TGG TAA TAA CGA TAA TAAA TAA TAG GAG TAAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * * * * *
87839236 TAA TAG TAA TAA TGA GAA GAT TAA TAA TAG TAA TAA TAA TGA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
87839284 TAA TAGA AAA TAA -AA -AA TAA -AA AAA T-A TAA TAA TAG CAA TAG
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *** *
87839326 CAA TAA AAA TAA AAA TAA TAG TAA TAA TAA GGG TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
87839374 CAA TAA T-G TAAA TAA TAA T-A TACA T-A TGAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA
* * *
87839419 -AG TAA TTA TAA TTAA TAG TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA
87839446 ACAACAGAAA
Statistics
Matches: 352, Mismatches: 104, Indels: 50
0.70 0.21 0.10
Matches are distributed among these distances:
2 24 0.07
3 293 0.83
4 35 0.10
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:87843155 original size:42 final size:42
Alignment explanation
Indices: 87843109--87843259 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
87843099 ATGTACCGGT
* * *
87843109 ACATAAGTGCATAACCGAATAAACCAAAGCAAATATATTGAC
1 ACATAAGTGCATCATCGAATAAACCAAAGCAAATATACTGAC
* * * * *
87843151 ACATAAGTGTATCATC-AGCTAAACCGAAGTAAATATACT-AGT
1 ACATAAGTGCATCATCGA-ATAAACCAAAGCAAATATACTGA-C
**
87843193 ACATAAGTGCATCATCGGTTAAACCAAAGCAAATATACTGAC
1 ACATAAGTGCATCATCGAATAAACCAAAGCAAATATACTGAC
* *
87843235 ACATAAGTGCATTATCGATTAAACC
1 ACATAAGTGCATCATCGAATAAACC
87843260 GAAGTATAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 86 0.97
43 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.23
Consensus pattern (42 bp):
ACATAAGTGCATCATCGAATAAACCAAAGCAAATATACTGAC
Found at i:87843258 original size:84 final size:84
Alignment explanation
Indices: 87843088--87843265 Score: 232
Period size: 84 Copynumber: 2.1 Consensus size: 84
87843078 TCATCTGACG
* * * *
87843088 AACCGAAGCAAATGTACCGGTACATAAGTGCATAACCGAATAAACCAAAGCAAATATATTGACAC
1 AACCGAAGTAAATATACCAGTACATAAGTGCATAACCGAATAAACCAAAGCAAATATACTGACAC
*
87843153 ATAAGTGTATCATCAGCTA
66 ATAAGTGCATCATCAGCTA
* * * **
87843172 AACCGAAGTAAATATACTAGTACATAAGTGCATCATCGGTTAAACCAAAGCAAATATACTGACAC
1 AACCGAAGTAAATATACCAGTACATAAGTGCATAACCGAATAAACCAAAGCAAATATACTGACAC
* *
87843237 ATAAGTGCATTATC-GATTA
66 ATAAGTGCATCATCAG-CTA
87843256 AACCGAAGTA
1 AACCGAAGTA
87843266 TAAACCTATA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
83 1 0.01
84 80 0.99
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (84 bp):
AACCGAAGTAAATATACCAGTACATAAGTGCATAACCGAATAAACCAAAGCAAATATACTGACAC
ATAAGTGCATCATCAGCTA
Found at i:87845200 original size:11 final size:11
Alignment explanation
Indices: 87845184--87845208 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87845174 ATTTAAAACA
87845184 AATATATTTTT
1 AATATATTTTT
87845195 AATATATTTTT
1 AATATATTTTT
87845206 AAT
1 AAT
87845209 TAATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATATTTTT
Found at i:87845276 original size:21 final size:21
Alignment explanation
Indices: 87845233--87845272 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
87845223 ATAATATCAA
87845233 ATAAATCTGAATTTTCATTAT
1 ATAAATCTGAATTTTCATTAT
87845254 ATAAA-CTGAATTTTCATTA
1 ATAAATCTGAATTTTCATTA
87845273 ATATCCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAAATCTGAATTTTCATTAT
Found at i:87856958 original size:25 final size:25
Alignment explanation
Indices: 87856924--87856973 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
87856914 TTCCAAAGAC
87856924 CATATGCATTTAGATTTAAACTTTA
1 CATATGCATTTAGATTTAAACTTTA
*
87856949 CATATGCATTTAGATTTAAATTTTA
1 CATATGCATTTAGATTTAAACTTTA
87856974 ACTTATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
CATATGCATTTAGATTTAAACTTTA
Found at i:87863146 original size:196 final size:196
Alignment explanation
Indices: 87862812--87863204 Score: 786
Period size: 196 Copynumber: 2.0 Consensus size: 196
87862802 CACTGAAAAC
87862812 AACTTTTACAAAATGTTTTCAGGAAATTTGCCAAACATGTAAAATATTTTACCCAGAATCATCCA
1 AACTTTTACAAAATGTTTTCAGGAAATTTGCCAAACATGTAAAATATTTTACCCAGAATCATCCA
87862877 AACACCAGAAAATATTAGCTTTTTCAGAAAATCAAGTCATTTTCTAGAGATCAATTTCCAGAAGC
66 AACACCAGAAAATATTAGCTTTTTCAGAAAATCAAGTCATTTTCTAGAGATCAATTTCCAGAAGC
87862942 TATTTTCAGCGAAACAAATGCATCCTAAGATTCTTAAAACCTTTTTATTCTTTCTTTTTCTGCAG
131 TATTTTCAGCGAAACAAATGCATCCTAAGATTCTTAAAACCTTTTTATTCTTTCTTTTTCTGCAG
87863007 A
196 A
87863008 AACTTTTACAAAATGTTTTCAGGAAATTTGCCAAACATGTAAAATATTTTACCCAGAATCATCCA
1 AACTTTTACAAAATGTTTTCAGGAAATTTGCCAAACATGTAAAATATTTTACCCAGAATCATCCA
87863073 AACACCAGAAAATATTAGCTTTTTCAGAAAATCAAGTCATTTTCTAGAGATCAATTTCCAGAAGC
66 AACACCAGAAAATATTAGCTTTTTCAGAAAATCAAGTCATTTTCTAGAGATCAATTTCCAGAAGC
87863138 TATTTTCAGCGAAACAAATGCATCCTAAGATTCTTAAAACCTTTTTATTCTTTCTTTTTCTGCAG
131 TATTTTCAGCGAAACAAATGCATCCTAAGATTCTTAAAACCTTTTTATTCTTTCTTTTTCTGCAG
87863203 A
196 A
87863204 A
1 A
87863205 GGGGAAAAAG
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 197 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (196 bp):
AACTTTTACAAAATGTTTTCAGGAAATTTGCCAAACATGTAAAATATTTTACCCAGAATCATCCA
AACACCAGAAAATATTAGCTTTTTCAGAAAATCAAGTCATTTTCTAGAGATCAATTTCCAGAAGC
TATTTTCAGCGAAACAAATGCATCCTAAGATTCTTAAAACCTTTTTATTCTTTCTTTTTCTGCAG
A
Found at i:87865676 original size:22 final size:22
Alignment explanation
Indices: 87865651--87865701 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
87865641 TGTTGTTTTA
87865651 AATTTTTATAAAATTACATATT
1 AATTTTTATAAAATTACATATT
* * ** *
87865673 AATTATAATAAAATTGTATTTT
1 AATTTTTATAAAATTACATATT
87865695 AATTTTT
1 AATTTTT
87865702 CAATAATTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AATTTTTATAAAATTACATATT
Found at i:87868434 original size:15 final size:15
Alignment explanation
Indices: 87868414--87868445 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
87868404 GACATGAATG
*
87868414 ACAACAAAAATATTA
1 ACAACAAAAACATTA
87868429 ACAACAAAAACATTA
1 ACAACAAAAACATTA
87868444 AC
1 AC
87868446 GCGTATTCGG
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:0.66, C:0.19, G:0.00, T:0.16
Consensus pattern (15 bp):
ACAACAAAAACATTA
Found at i:87873030 original size:12 final size:12
Alignment explanation
Indices: 87873013--87873039 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87873003 AAATATACTA
87873013 TTTTTATATTAT
1 TTTTTATATTAT
87873025 TTTTTATATTAT
1 TTTTTATATTAT
87873037 TTT
1 TTT
87873040 AGTGCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:87873040 original size:10 final size:11
Alignment explanation
Indices: 87873006--87873039 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
87872996 TTTTTTAAAA
*
87873006 TATACTATTTT
1 TATATTATTTT
87873017 TATATTATTTTT
1 TATATTA-TTTT
87873029 TATATTATTTT
1 TATATTATTTT
87873040 AGTGCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTTT
Found at i:87873220 original size:150 final size:150
Alignment explanation
Indices: 87872972--87873282 Score: 484
Period size: 150 Copynumber: 2.1 Consensus size: 150
87872962 TATATTTTGG
*
87872972 TATTTATTTTATTTTCTGATTTTATTTTTTAAAATATACTATTTTTATATTATTTTTTATATTAT
1 TATTTATTTTATTTTCTGATTTTATTTATTAAAATATACTATTTTTATATTATTTTTTATATTAT
* *
87873037 TTTAGTGCATAATTTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
87873102 GATTTTGGCCC-TTTTTTAT
131 GATTTTGGCCCTTTTTTTAT
*
87873121 TATTTATTTTATTTT-TGGATTTTATTTATTAAAATATACTATTTTCGTATTTTA-TTTTTATAT
1 TATTTATTTTATTTTCT-GATTTTATTTATTAAAATATACTATTTT--TATATTATTTTTTATAT
* * *
87873184 TATTTTAGTATATAATGTTTCAAATGTATTGTTTTAGTGTTTTTTATATTAATTTAGTAAAAAAC
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAAC
* *
87873249 TCTGGTTTTGGCCCTTTTTTTCT
128 TCTGATTTTGGCCCTTTTTTTAT
87873272 TATTTTATTTT
1 TA-TTTATTTT
87873283 TTAAAATAAA
Statistics
Matches: 148, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
148 1 0.01
149 42 0.28
150 82 0.55
151 15 0.10
152 8 0.05
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (150 bp):
TATTTATTTTATTTTCTGATTTTATTTATTAAAATATACTATTTTTATATTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
GATTTTGGCCCTTTTTTTAT
Found at i:87876558 original size:18 final size:19
Alignment explanation
Indices: 87876510--87876579 Score: 101
Period size: 18 Copynumber: 3.8 Consensus size: 19
87876500 ATAATCTTCA
*
87876510 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
87876529 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
87876546 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
87876564 ATGATATGTAATCTTA
1 ATGATATGCAATCTTA
87876580 AAAGATATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
17 15 0.33
18 16 0.35
19 15 0.33
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:87876588 original size:22 final size:23
Alignment explanation
Indices: 87876560--87876602 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
87876550 TTGCAATCTT
87876560 AGATATGA-TATGTAATCTTAAA
1 AGATATGATTATGTAATCTTAAA
*
87876582 AGATATGATTTTGTAATCTTA
1 AGATATGATTATGTAATCTTA
87876603 GAGATTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAAA
Found at i:87888041 original size:23 final size:25
Alignment explanation
Indices: 87888015--87888061 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
87888005 AATATATATT
87888015 TAAAT-AATTAAAAA-AAAAGAATG
1 TAAATAAATTAAAAACAAAAGAATG
*
87888038 TAAATAAATTAAAAACTAAAGAAT
1 TAAATAAATTAAAAACAAAAGAAT
87888062 TATACCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (25 bp):
TAAATAAATTAAAAACAAAAGAATG
Found at i:87889405 original size:17 final size:17
Alignment explanation
Indices: 87889380--87889419 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
87889370 GTTATTGGAT
* *
87889380 TAATGATTTAATATATA
1 TAATTATTTAACATATA
87889397 TAATTATTTAACATATA
1 TAATTATTTAACATATA
87889414 TAATTA
1 TAATTA
87889420 ATATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATTATTTAACATATA
Found at i:87889421 original size:30 final size:31
Alignment explanation
Indices: 87889387--87889446 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
87889377 GATTAATGAT
87889387 TTAATATATATAATTATT-TAACAT-ATATAA
1 TTAATATA-ATAATTATTATAACATAATATAA
* *
87889417 TTAATATAATATTTTTTATAACATAATATA
1 TTAATATAATAATTATTATAACATAATATA
87889447 TTCGGGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 14 0.54
31 5 0.19
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
TTAATATAATAATTATTATAACATAATATAA
Found at i:87899752 original size:15 final size:15
Alignment explanation
Indices: 87899708--87899754 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
87899698 CACGTTAACT
87899708 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
* ** *
87899723 TAA-CATTTCAAATA
1 TAAGTAACTAAAATA
87899737 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
87899752 TAA
1 TAA
87899755 TCTGAGAGAG
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (15 bp):
TAAGTAACTAAAATA
Found at i:87899835 original size:7 final size:7
Alignment explanation
Indices: 87899823--87899862 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
87899813 AATCAACCTC
87899823 AAATTAG
1 AAATTAG
87899830 AAATTAG
1 AAATTAG
87899837 AAATTAG
1 AAATTAG
87899844 AAATTAG
1 AAATTAG
87899851 AAATTAG
1 AAATTAG
87899858 AAATT
1 AAATT
87899863 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (7 bp):
AAATTAG
Found at i:87899875 original size:21 final size:21
Alignment explanation
Indices: 87899830--87899875 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
87899820 CTCAAATTAG
* *
87899830 AAATTAGAAATTAGAAATTAG
1 AAATTAGAAATTAGAAATAAA
**
87899851 AAATTAGAAATTTTAAATAAA
1 AAATTAGAAATTAGAAATAAA
87899872 AAAT
1 AAAT
87899876 AAGATTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATTAGAAATTAGAAATAAA
Found at i:87907504 original size:22 final size:21
Alignment explanation
Indices: 87907478--87907523 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
87907468 ATTATTGAAA
*
87907478 TAAAACAT-TATTATCAAAGAAT
1 TAAAACATCCATTAT-AAA-AAT
87907500 TAAAACATCCATTATAAAAAT
1 TAAAACATCCATTATAAAAAT
87907521 TAA
1 TAA
87907524 TTACTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAAACATCCATTATAAAAAT
Found at i:87907902 original size:28 final size:27
Alignment explanation
Indices: 87907848--87907906 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
87907838 GCAATGTTGA
* *
87907848 TTTTTGTAGATTCACGTTGGAGTTTTT
1 TTTTTGTAAATTCACGGTGGAGTTTTT
*
87907875 TTTTTGTAAATTCACGGTGGAATTTTT
1 TTTTTGTAAATTCACGGTGGAGTTTTT
87907902 TTTTT
1 TTTTT
87907907 TGAGATTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.58
Consensus pattern (27 bp):
TTTTTGTAAATTCACGGTGGAGTTTTT
Found at i:87908717 original size:16 final size:16
Alignment explanation
Indices: 87908679--87908717 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
87908669 TGTGTTTGTT
*
87908679 TATTTAAATTTATGTA
1 TATTTATATTTATGTA
*
87908695 TATTTATATTTATTTA
1 TATTTATATTTATGTA
87908711 TATTTAT
1 TATTTAT
87908718 TTATTTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TATTTATATTTATGTA
Found at i:87909963 original size:18 final size:17
Alignment explanation
Indices: 87909931--87909964 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
87909921 GAGTCCTTAC
87909931 ATAATATCTAAATACAA
1 ATAATATCTAAATACAA
*
87909948 ATAATGTCTCAAATACA
1 ATAATATCT-AAATACA
87909965 TCATAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAATATCTAAATACAA
Found at i:87929735 original size:28 final size:29
Alignment explanation
Indices: 87929665--87929727 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
87929655 TGATGCGGCG
* *
87929665 AATTTTCGACAAAAATAGTCTAAATCCCT
1 AATTTTCAACTAAAATAGTCTAAATCCCT
*
87929694 AATTTTCAACTAAAATTGTCTAAATCCCT
1 AATTTTCAACTAAAATAGTCTAAATCCCT
87929723 -ATTTT
1 AATTTT
87929728 GTTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTTTCAACTAAAATAGTCTAAATCCCT
Done.