Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, whole genome shotgun sequence
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: 1592963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:942743 original size:19 final size:18
Alignment explanation
Indices: 942704--942816 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
942694 GTTGAAATGA
942704 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
942719 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
942736 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
942752 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
942769 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
942785 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
942802 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
942817 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:942845 original size:19 final size:19
Alignment explanation
Indices: 942812--942856 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
942802 AAAATCGCAA
**
942812 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
942831 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
942850 TGCGATT
1 TGCGATT
942857 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:942914 original size:41 final size:41
Alignment explanation
Indices: 942854--942931 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
942844 TCGCGTTGCG
* *
942854 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
942895 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
942932 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:942930 original size:21 final size:21
Alignment explanation
Indices: 942855--942930 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
942845 CGCGTTGCGA
*
942855 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
942876 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
942896 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
942917 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
942931 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:943054 original size:18 final size:18
Alignment explanation
Indices: 943031--943080 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
943021 CGAGAGAATA
943031 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
943049 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
943063 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
943081 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:943055 original size:32 final size:32
Alignment explanation
Indices: 943012--943080 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
943002 ACTAACTTGA
* *
943012 AAATCGGAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
943044 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
943076 AAATC
1 AAATC
943081 TAAGTGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:943308 original size:22 final size:22
Alignment explanation
Indices: 943256--943310 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
943246 TGGTTGTGAG
**
943256 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
943278 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
943300 GGATTTCTTCG
1 GGATTTCTTCG
943311 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:943480 original size:20 final size:20
Alignment explanation
Indices: 943455--943646 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
943445 CTTTAAATAT
943455 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
943475 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
943497 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
943516 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
943536 CGCATTGCGATTT-C-CCTA
1 CGCGTTGCGATTTACGGATA
943554 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
943574 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
943594 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
943614 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
943634 CGCGTTGCGATTT
1 CGCGTTGCGATTT
943647 TGGAAAAGCA
Statistics
Matches: 143, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
18 14 0.10
19 4 0.03
20 108 0.76
21 15 0.10
22 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:943570 original size:38 final size:40
Alignment explanation
Indices: 943459--943607 Score: 160
Period size: 38 Copynumber: 3.8 Consensus size: 40
943449 AAATATCGCG
* * * * *
943459 TTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA-TCG
1 TTGCGATTTACGCATACGCGTTGCGA-TTTACGGA-TACACA
* * *
943500 TTGCGATTTACGGATACGCGTTGCGATATACGGATACGCA
1 TTGCGATTTACGCATACGCGTTGCGATTTACGGATACACA
* *
943540 TTGCGATTT-C-CCTACGCGTTGCGATTTACGGATACACG
1 TTGCGATTTACGCATACGCGTTGCGATTTACGGATACACA
*
943578 TTGCGATTTACGGATACGCGTTGCGATTTA
1 TTGCGATTTACGCATACGCGTTGCGATTTA
943608 TGTGTTCGCG
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
38 32 0.34
39 4 0.04
40 31 0.33
41 26 0.28
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (40 bp):
TTGCGATTTACGCATACGCGTTGCGATTTACGGATACACA
Found at i:943590 original size:58 final size:59
Alignment explanation
Indices: 943457--943607 Score: 205
Period size: 58 Copynumber: 2.5 Consensus size: 59
943447 TTAAATATCG
** * *
943457 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACCTA-TAGCGTTGCGATTTACGGATACA
* * * *
943518 CGTTGCGATATACGGATACGCATTGCGATTTCCCTA-CGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACCTATAGCGTTGCGATTTACGGATACA
943576 CGTTGCGATTTACGGATACGCGTTGCGATTTA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTA
943608 TGTGTTCGCG
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
58 48 0.61
60 5 0.06
61 26 0.33
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (59 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACCTATAGCGTTGCGATTTACGGATACA
Found at i:943647 original size:20 final size:20
Alignment explanation
Indices: 943594--943686 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
943584 TTTACGGATA
* *
943594 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
943614 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* *
943634 CGCGTTGCGATTTTGGA-A-A
1 CGCGTTGCGATTTT-CATATT
* **
943653 AGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
943673 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
943687 GGAAAATCGC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.02
19 13 0.23
20 42 0.74
21 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:943670 original size:39 final size:40
Alignment explanation
Indices: 943619--943728 Score: 154
Period size: 39 Copynumber: 2.7 Consensus size: 40
943609 GTGTTCGCGT
943619 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA-GCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAACGCAA
943658 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCAA
1 TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA-CGCAA
*
943699 TGCGAATTTGT-ACTA-TCGCATTGCGATTTT
1 TGCG-ATTT-TCA-TATTCGCGTTGCGATTTT
943729 CAAGAATCGC
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
39 35 0.54
41 8 0.12
42 19 0.29
43 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (40 bp):
TGCGATTTTCATATTCGCGTTGCGATTTTGGAAAACGCAA
Found at i:943702 original size:21 final size:21
Alignment explanation
Indices: 943633--943754 Score: 90
Period size: 21 Copynumber: 6.0 Consensus size: 21
943623 ATTTTCATAT
*
943633 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * *
943654 --GCAATGCGATTTT-CATAT
1 TCGCATTGCGATTTTGGAAAA
*
943672 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
943693 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
943714 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
943735 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
943755 CTGATTTGCG
Statistics
Matches: 73, Mismatches: 23, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
18 2 0.03
19 11 0.15
20 12 0.16
21 46 0.63
22 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:944018 original size:16 final size:16
Alignment explanation
Indices: 943999--944029 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
943989 CAGAAAAATA
*
943999 TTATTTTAATTTTTAT
1 TTATATTAATTTTTAT
944015 TTATATTAATTTTTA
1 TTATATTAATTTTTA
944030 AGTTTAATGT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATATTAATTTTTAT
Found at i:946935 original size:30 final size:30
Alignment explanation
Indices: 946899--946962 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
946889 GAAGGACCTG
* *
946899 TCCAGAGGTTACAAAGAACCCCGGTAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
* * *
946929 TCCAGAGGTCATAAAGATCCTCGGCAACTA
1 TCCAGAGGTCACAAAGAACCCCGGCAACTA
946959 TCCA
1 TCCA
946963 TATGTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGAACCCCGGCAACTA
Found at i:947686 original size:63 final size:64
Alignment explanation
Indices: 947615--947754 Score: 176
Period size: 63 Copynumber: 2.2 Consensus size: 64
947605 TAATGAAGGT
* * *
947615 ATGCATCGATGCACTACTTGTGCATCGATGCATAAAATGCATTCGATGTTCATTA-ATAA-CGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTT-ATTATATAATCGGG
* * * * * *
947678 ATGCATCGATACACTACTTATGCATCGATGCACGAATTACATTCGATGTTTTTATTTAATGGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTATTATATAATCGGG
947742 ATGCATCGATGCA
1 ATGCATCGATGCA
947755 TAAATCCTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 3 0.05
63 47 0.72
64 15 0.23
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAAATACATTCGATGTTATTATATAATCGGG
Found at i:947746 original size:45 final size:47
Alignment explanation
Indices: 947697--947800 Score: 126
Period size: 45 Copynumber: 2.3 Consensus size: 47
947687 TACACTACTT
* ** *
947697 ATGCATCGATGCACGAATTAC-ATTCGATGTTTT-TATTTAATGGGG
1 ATGCATCGATGCACGAAATACTATTCGATGTTTTCTATTTAAAAGAG
* *
947742 ATGCATCGATGCA-TAAATCCTATTCGATGTTTTCTATTTAAAAGAG
1 ATGCATCGATGCACGAAATACTATTCGATGTTTTCTATTTAAAAGAG
947788 -TGCATCGATGCAC
1 ATGCATCGATGCAC
947801 TACCTATGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.08
45 37 0.74
46 9 0.18
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (47 bp):
ATGCATCGATGCACGAAATACTATTCGATGTTTTCTATTTAAAAGAG
Found at i:961152 original size:15 final size:15
Alignment explanation
Indices: 961111--961146 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
961101 GCTCGATAAA
961111 TACTCGGATCGAATG
1 TACTCGGATCGAATG
961126 TACTCGGATCGAATG
1 TACTCGGATCGAATG
961141 TACTCG
1 TACTCG
961147 ACTCGAGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (15 bp):
TACTCGGATCGAATG
Found at i:966562 original size:2 final size:2
Alignment explanation
Indices: 966555--966582 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
966545 GATCTAATTA
966555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
966583 GAGTTGCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:966578 original size:108 final size:108
Alignment explanation
Indices: 966386--966602 Score: 359
Period size: 108 Copynumber: 2.0 Consensus size: 108
966376 GGATGCAATT
966386 AAAAATATATGAAGGAAAGGATAAATTTTTCTTAACAAAAGTTTGTTAAAGGATCTAATTAATAT
1 AAAAATATATGAAGGAAAGGATAAATTTTTCTTAACAAAAGTTTGTTAAAGGATCTAATTAATAT
966451 ATATATATATATATATATAT-GA-AGTTGCCATAAACATATCA
66 ATATATATATATATATATATAGAGAGTTGCCATAAACATATCA
966492 AAAATATATATGAA-GAAAGGATAAATTTCTTCTTAACAAAAGTTTTGTTAAAGGATCTAATTAA
1 AAAA-ATATATGAAGGAAAGGATAAATTT-TTCTTAACAAAAG-TTTGTTAAAGGATCTAATTAA
* *
966556 TATATATATATATATATATATATATATGAGTTGCCATTAACATATCA
63 TATATATATATATATATATATATAGA-GAGTTGCCATAAACATATCA
966603 CTCAAAGCTT
Statistics
Matches: 103, Mismatches: 2, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
106 18 0.17
107 22 0.21
108 44 0.43
109 1 0.01
111 18 0.17
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (108 bp):
AAAAATATATGAAGGAAAGGATAAATTTTTCTTAACAAAAGTTTGTTAAAGGATCTAATTAATAT
ATATATATATATATATATATAGAGAGTTGCCATAAACATATCA
Found at i:967625 original size:23 final size:23
Alignment explanation
Indices: 967599--967646 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
967589 ATAAATTACA
* *
967599 ATAACATACTAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
967622 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
967645 AT
1 AT
967647 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:968107 original size:20 final size:20
Alignment explanation
Indices: 968082--968121 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
968072 TTTTCCACAG
*
968082 TAAAAAGTATAGACACTTTA
1 TAAAAAGGATAGACACTTTA
*
968102 TAAAAAGGATAGATACTTTA
1 TAAAAAGGATAGACACTTTA
968122 CATATAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (20 bp):
TAAAAAGGATAGACACTTTA
Found at i:968151 original size:23 final size:23
Alignment explanation
Indices: 968123--968195 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
968113 GATACTTTAC
968123 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
968146 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * *
968169 ATATAAGCGCTACCTATTACATC
1 ATATAACCACTACCTATTACATT
968192 ATAT
1 ATAT
968196 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 37 0.86
24 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:968628 original size:21 final size:20
Alignment explanation
Indices: 968619--968673 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 20
968609 ATAACCACTA
968619 ACCTATTACATTATAAACGAT
1 ACCTATTACA-TATAAACGAT
*
968640 ACCTATTACATTATATAAGCGCT
1 ACCTATTACA-TATA-AA-CGAT
968663 ACCTATTACAT
1 ACCTATTACAT
968674 CATATTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 15 0.48
22 3 0.10
23 13 0.42
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (20 bp):
ACCTATTACATATAAACGAT
Found at i:968665 original size:23 final size:22
Alignment explanation
Indices: 968619--968678 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
968609 ATAACCACTA
968619 ACCTATTACATTATA-AACGAT
1 ACCTATTACATTATATAACGAT
*
968640 ACCTATTACATTATATAAGCGCT
1 ACCTATTACATTATATAA-CGAT
*
968663 ACCTATTACATCATAT
1 ACCTATTACATTATAT
968679 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.43
22 2 0.06
23 18 0.51
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (22 bp):
ACCTATTACATTATATAACGAT
Found at i:968695 original size:483 final size:485
Alignment explanation
Indices: 967720--969444 Score: 2936
Period size: 483 Copynumber: 3.6 Consensus size: 485
967710 TTATAATATG
* * *
967720 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACGTTTTTTAAAGTTATATAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACGTTGTTTAAAGTTATGTAATTTATGTT
967785 TCAATTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
967849 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAAAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA-TTAACAATAT
*
967914 TAACCAAAAATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
194 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
967979 ATCGTAACGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
259 A---T--CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
*
968044 TCACTCAAAAGATAACCTTAAATTAATG-TTTTCCACAGTAAAAAGTATAGACAC-TTTATAAAA
319 TCACTCAAAAGATAACCTTAAATT-ATGTTTTTTCACAGTAAAAAGTATAGACACTTTTATAAAA
968107 AGGATAGATACTTTACATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATA
383 AGGATAGATACTTTACATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATA
968172 TAAGCGCTACCTATTACATCATATTTTTACCTATTATA
448 TAAGCGCTACCTATTACATCATATTTTTACCTATTATA
968210 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTGTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACGTTGTTTAAAGTTATGTAATTTATGTT
*
968274 TCATTTTTTTTAATAGTGTTTCATGTTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
968339 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA-
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAA-TTAACAATAT
*
968403 TAACCAAAGATAATAAT-AATATGTAATATATATGTTTATTTTTTTTTAATTTAAT-ATAATATA
194 TAACCAAAGATAATAATAAATATGTAATATATATGTTTA-TTGTTTTTAATTTAATAATAATATA
968466 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
258 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
968531 TC-AAAGATAACCTTAAATTATGTTTTTTCACAGTAAAAAAAGTATAGACACTTTTAT-AAAAGG
323 TCAAAAGATAACCTTAAATTATGTTTTTTCACAGT--AAAAAGTATAGACACTTTTATAAAAAGG
968594 ATAGATACTTTACATATAACCACTAACCTATTACA-T-TATAAACGATACCTATTACATTATATA
386 ATAGATACTTTACATATAACCACT-ACCTATTACATTATATAAACGATACCTATTACATTATATA
968657 AGCGCTACCTATTACATCATATTTTTACCTATTATA
450 AGCGCTACCTATTACATCATATTTTTACCTATTATA
*
968693 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTA-GTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACGTTGTTTAAAGTTATGTAATTTATGTT
* *
968757 TCAATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGTAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
968822 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAG-ATTT-AATTAACAATATTA
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTAACAATATTA
968885 ACCAAAGATAAT-AT-AATATGTAATATATATGTTTATTG-TTTTAATTTAATAAT-A-ATATAT
196 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
968945 CGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACT-AATTAATATCTTAAAACTCACTCA
261 CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
*
969008 AAAGATAACCTTAAATTATGTTTTCT-ACAGTGAAAAA-TAT--ACACTTTTATAAAAAGGATAG
326 AAAGATAACCTTAAATTATGTTTTTTCACAGT-AAAAAGTATAGACACTTTTATAAAAAGGATAG
969069 ATACTTTACATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGC
390 ATACTTTACATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGC
*
969134 TACATATTACATCATATTTTTACCTATTATA
455 TACCTATTACATCATATTTTTACCTATTATA
* *
969165 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTG-TT-AAGTT-TGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACGTTGTTTAAAGTTATGTAATTTATGTT
969227 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
* *
969291 AAAAAATTATTTGATTGTTTTGTTGTTTTATAAAATAATATTTAGAA-TTAAATT-ACAATATTA
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTAACAATATTA
*
969354 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTAAATTTAATAATAATATATAT
196 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
969419 CGTAACGTAAAAAATAAATCATTAGA
261 CGTAACGTAAAAAATAAATCATTAGA
969445 AACTCACTCA
Statistics
Matches: 1190, Mismatches: 21, Indels: 63
0.93 0.02 0.05
Matches are distributed among these distances:
469 88 0.07
470 84 0.07
471 57 0.05
472 120 0.10
473 6 0.01
474 49 0.04
475 59 0.05
476 21 0.02
477 13 0.01
478 4 0.00
479 32 0.03
480 16 0.01
481 7 0.01
482 110 0.09
483 201 0.17
484 59 0.05
485 16 0.01
488 33 0.03
489 76 0.06
490 139 0.12
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (485 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACGTTGTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTAACAATATTA
ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
CGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
AAAGATAACCTTAAATTATGTTTTTTCACAGTAAAAAGTATAGACACTTTTATAAAAAGGATAGA
TACTTTACATATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCT
ACCTATTACATCATATTTTTACCTATTATA
Found at i:969106 original size:23 final size:23
Alignment explanation
Indices: 969078--969150 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
969068 GATACTTTAC
969078 ATATAACCACTACCTATTACATT
1 ATATAACCACTACCTATTACATT
*
969101 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* * * *
969124 ATATAAGCGCTACATATTACATC
1 ATATAACCACTACCTATTACATT
969147 ATAT
1 ATAT
969151 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 36 0.86
24 4 0.10
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:971334 original size:20 final size:21
Alignment explanation
Indices: 971305--971356 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
971295 CTCAAGAGTA
* *
971305 TCTTCTACTCTCTC-AGTTTC
1 TCTTCGACTCTATCAAGTTTC
971325 TCTTCGACTCTATCAAGTTTC
1 TCTTCGACTCTATCAAGTTTC
971346 TCTTCGACTCT
1 TCTTCGACTCT
971357 TGATTGTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.13, C:0.33, G:0.08, T:0.46
Consensus pattern (21 bp):
TCTTCGACTCTATCAAGTTTC
Found at i:971464 original size:15 final size:15
Alignment explanation
Indices: 971441--971484 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
971431 TATGTTTTCC
* *
971441 CTCATCGTCGTCCCA
1 CTCACCGTCATCCCA
971456 CTCACCGTCATCCCA
1 CTCACCGTCATCCCA
971471 CTCACCGTCATCCC
1 CTCACCGTCATCCC
971485 CCAATACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.16, C:0.52, G:0.09, T:0.23
Consensus pattern (15 bp):
CTCACCGTCATCCCA
Found at i:973397 original size:24 final size:24
Alignment explanation
Indices: 973360--973412 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
973350 TCCGTCTATC
973360 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
973384 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
973408 TATTT
1 TATTT
973413 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:973574 original size:17 final size:18
Alignment explanation
Indices: 973552--973594 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
973542 ATATATCCGG
973552 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
973569 TATCATTTTTATACCGGTTT
1 TATCA--TTTATACCGGTTT
973589 TATCAT
1 TATCAT
973595 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 3 0.13
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:973585 original size:20 final size:21
Alignment explanation
Indices: 973560--973599 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
973550 GGTATCATTT
973560 TACCGGTTTTATCAT-TTTTA
1 TACCGGTTTTATCATATTTTA
973580 TACCGGTTTTATCATATTTT
1 TACCGGTTTTATCATATTTT
973600 TACATGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (21 bp):
TACCGGTTTTATCATATTTTA
Found at i:973763 original size:19 final size:19
Alignment explanation
Indices: 973739--973797 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
973729 CGGTAACGTT
973739 TTACCGGTTTATCATTTTG
1 TTACCGGTTTATCATTTTG
973758 TTACCGGTTTTATCATATTT-
1 TTACCGG-TTTATCAT-TTTG
* *
973778 TTACCTGGTATATCGTTTTG
1 TTACC-GGTTTATCATTTTG
973798 GATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.29
20 19 0.56
21 5 0.15
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (19 bp):
TTACCGGTTTATCATTTTG
Found at i:973771 original size:20 final size:19
Alignment explanation
Indices: 973737--973782 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
973727 TCCGGTAACG
973737 TTTTACCGGTTTATCAT-T
1 TTTTACCGGTTTATCATAT
973755 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGG-TTTATCATAT
973776 TTTTACC
1 TTTTACC
973783 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 13 0.52
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTATCATAT
Found at i:973835 original size:179 final size:178
Alignment explanation
Indices: 973524--973984 Score: 575
Period size: 179 Copynumber: 2.6 Consensus size: 178
973514 CGTACTTACA
* *
973524 AAAGTATCGACACTTTAAATATATCCGGTATCATTTTACCGGTTTTATCATTTTTATACCGGTTT
1 AAAGTATCGACACTTT-AATATATCCGGTAACGTTTTACCGGTTTTATCATTTTT-TACCGGTTT
* * *
973589 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
64 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACA-TTTTTAAAAGTATCGACACATTAT
* * *
973654 AGGCGCTAAAACTGCTTCTC-TTTAAATTCAC-AGAGTGTTGATCCTTATA-T
128 AGG-ACTAAAACTGCTTATCTTTTAAATTCACGA-AGTGTCGATCCTTATATT
973704 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGG-TTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTT-AATATATCCGGTAACGTTTTACCGGTTTTATCATTTT-TTACCGGTTT
* * *
973768 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACCACTTTAT
64 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGA-CACATTAT
*
973833 AGGATTAAAACTGCTTATCTTTTAAATTCACGAAGTGTCGATCCTTATATT
128 AGGACTAAAACTGCTTATCTTTTAAATTCACGAAGTGTCGATCCTTATATT
* * * *
973884 AAAGTACCG--ACTTT-A-A-AT--GGTAGCGCTTTACCGGTTTTATCATTTCTATACCGGTTTT
1 AAAGTATCGACACTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TTTACCGGTTTT
* * * * *
973942 GTCATAGTTTTACTTGTTATATCATTTTGGATCGACACATTTT
65 ATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTT
973985 AATTTTGATC
Statistics
Matches: 251, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
172 14 0.06
173 57 0.23
174 3 0.01
175 1 0.00
176 1 0.00
178 33 0.13
179 92 0.37
180 50 0.20
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (178 bp):
AAAGTATCGACACTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTTTACCGGTTTTA
TCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTAAAAGTATCGACACATTATAGG
ACTAAAACTGCTTATCTTTTAAATTCACGAAGTGTCGATCCTTATATT
Found at i:983244 original size:220 final size:221
Alignment explanation
Indices: 982999--983439 Score: 875
Period size: 221 Copynumber: 2.0 Consensus size: 221
982989 CTTAAAGAGT
982999 TTGACAGAGACCTTCACTAATCGAGTTG-AGTAATAAATCAGAAAATAAAATGTTCACATGAAGC
1 TTGACAGAGACCTTCACTAATCGAGTTGAAGTAATAAATCAGAAAATAAAATGTTCACATGAAGC
983063 TAAATATGAGGAATTGAAAAAAAAAAGCAAAATAAACAAATTCCGAAAGTCTAGGAAATCAGTAC
66 TAAATATGAGGAATTGAAAAAAAAAAGCAAAATAAACAAATTCCGAAAGTCTAGGAAATCAGTAC
983128 CCATCGTGGCAAACTTCCTCTCTAACCGTTCAATGACCGGATTAAAGGCTCTGAACTGAGCACGG
131 CCATCGTGGCAAACTTCCTCTCTAACCGTTCAATGACCGGATTAAAGGCTCTGAACTGAGCACGG
983193 AGGTTAAGAGGAGATCTCCAATCAAG
196 AGGTTAAGAGGAGATCTCCAATCAAG
983219 TTGACAGAGACCTTCACTAATCGAGTTGAAGTAATAAATCAGAAAATAAAATGTTCACATGAAGC
1 TTGACAGAGACCTTCACTAATCGAGTTGAAGTAATAAATCAGAAAATAAAATGTTCACATGAAGC
983284 TAAATATGAGGAATTGAAAAAAAAAAGCAAAATAAACAAATTCCGAAAGTCTAGGAAATCAGTAC
66 TAAATATGAGGAATTGAAAAAAAAAAGCAAAATAAACAAATTCCGAAAGTCTAGGAAATCAGTAC
983349 CCATCGTGGCAAACTTCCTCTCTAACCGTTCAATGACCGGATTAAAGGCTCTGAACTGAGCACGG
131 CCATCGTGGCAAACTTCCTCTCTAACCGTTCAATGACCGGATTAAAGGCTCTGAACTGAGCACGG
983414 AGGTTAAGAGGAGATCTCCAATCAAG
196 AGGTTAAGAGGAGATCTCCAATCAAG
983440 ACGGTGACTC
Statistics
Matches: 220, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
220 28 0.13
221 192 0.87
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (221 bp):
TTGACAGAGACCTTCACTAATCGAGTTGAAGTAATAAATCAGAAAATAAAATGTTCACATGAAGC
TAAATATGAGGAATTGAAAAAAAAAAGCAAAATAAACAAATTCCGAAAGTCTAGGAAATCAGTAC
CCATCGTGGCAAACTTCCTCTCTAACCGTTCAATGACCGGATTAAAGGCTCTGAACTGAGCACGG
AGGTTAAGAGGAGATCTCCAATCAAG
Found at i:999162 original size:29 final size:28
Alignment explanation
Indices: 999116--999185 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 28
999106 GGTTCTTCGG
* *
999116 GACCTATGGACAGTACCGAGGATC-TTAT
1 GACCTCTGGATAGTACCGA-GATCTTTAT
999144 GACCTCTGGATAGTTACCGAGATCTTTAT
1 GACCTCTGGATAG-TACCGAGATCTTTAT
999173 GACCTCTGGATAG
1 GACCTCTGGATAG
999186 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (28 bp):
GACCTCTGGATAGTACCGAGATCTTTAT
Found at i:1002000 original size:3 final size:3
Alignment explanation
Indices: 1001992--1002019 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1001982 TGAGGAAGAA
1001992 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1002020 CCAAGTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1004145 original size:30 final size:30
Alignment explanation
Indices: 1004075--1004147 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
1004065 GGTTCTTCGG
* *
1004075 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1004105 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1004135 GACCTCTGGATAG
1 GACCTCTGGATAG
1004148 GTTCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:1005349 original size:35 final size:38
Alignment explanation
Indices: 1005263--1005354 Score: 129
Period size: 35 Copynumber: 2.5 Consensus size: 38
1005253 ATCCCATTAT
* *
1005263 CATTTTTC-AACAAACATCTACCAAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAAACTTTGAAAAAC
*
1005300 TATTTTTCAAAGAAACATTTACC-AAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATTTACCAAAACTTTGAAAAAC
1005336 CA-TTTTCAAAGAAACATTT
1 CATTTTTCAAAGAAACATTT
1005355 TTCAAAGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
35 17 0.34
36 6 0.12
37 15 0.30
38 12 0.24
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (38 bp):
CATTTTTCAAAGAAACATTTACCAAAACTTTGAAAAAC
Found at i:1009881 original size:35 final size:36
Alignment explanation
Indices: 1009795--1009942 Score: 155
Period size: 35 Copynumber: 4.2 Consensus size: 36
1009785 ATCTCATTAT
*
1009795 CATTTTTC-AACAAACA-TCTACCAAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACAGT-TACC-AAACTTTG-AAAAC
*
1009832 TATTTTTCAAAGAAACAGTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACAGTTACCAAACTTTGAAAAC
*
1009868 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACAGTTACCAAACTTTGAAAAC
* ***
1009903 AATTTTTTCAAAG--TTGGTTACCAAAC-TTGAAAAC
1 CA-TTTTTCAAAGAAACAGTTACCAAACTTTGAAAAC
1009937 CATTTT
1 CATTTT
1009943 AATACTTTCA
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.04
34 9 0.09
35 42 0.43
36 6 0.06
37 24 0.25
38 11 0.11
39 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACAGTTACCAAACTTTGAAAAC
Found at i:1009913 original size:72 final size:69
Alignment explanation
Indices: 1009798--1009942 Score: 177
Period size: 72 Copynumber: 2.1 Consensus size: 69
1009788 TCATTATCAT
*
1009798 TTTTCAACAAACATCTACCAAAACTTTGAAAAACTATTTTTCAAAGAAACAGTTACCAAACTTTG
1 TTTTCAACAAACATCTACCAAAACTTTGAAAAAATATTTTTCAAAG--ACAGTTACCAAAC-TTG
1009863 AAAACCA
63 AAAACCA
* * ***
1009870 TTTTCAAAGAAACATTTACC-AAACTTTGAAAACAAT-TTTTTCAAAGTTGGTTACCAAACTTGA
1 TTTTC-AACAAACATCTACCAAAACTTTGAAAA-AATATTTTTCAAAGACAGTTACCAAACTTGA
1009933 AAACCA
64 AAACCA
1009939 TTTT
1 TTTT
1009943 AATACTTTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
69 14 0.22
70 10 0.15
72 27 0.42
73 14 0.22
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.32
Consensus pattern (69 bp):
TTTTCAACAAACATCTACCAAAACTTTGAAAAAATATTTTTCAAAGACAGTTACCAAACTTGAAA
ACCA
Found at i:1016051 original size:99 final size:98
Alignment explanation
Indices: 1015938--1016123 Score: 284
Period size: 99 Copynumber: 1.9 Consensus size: 98
1015928 TAACTGTCAT
* * * *
1015938 AGACTCATAGTACTAGAAGTAATGAATCTCAT-TTTTAATATTGAAATATCAACTAAAACTCTCA
1 AGACTCATAGTACTACAAGTAATGAATAT-ATATTTTAACATTAAAATATCAACT-AAACTCTCA
*
1016002 GGCAATTACTGTAAAAGAAACACGAAATTGCTGTC
64 GGAAATTACTGTAAAAGAAACACGAAATTGCTGTC
*
1016037 AGACTCATAGTACTACAAGTAATGAATATATCATTTTAACATTAAAATATCAACTCAACTCTCAG
1 AGACTCATAGTACTACAAGTAATGAATATAT-ATTTTAACATTAAAATATCAACTAAACTCTCAG
1016102 GAAATTACTGTAAAAGAAACAC
65 GAAATTACTGTAAAAGAAACAC
1016124 CAAAGAAAGA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
98 2 0.03
99 57 0.72
100 20 0.25
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (98 bp):
AGACTCATAGTACTACAAGTAATGAATATATATTTTAACATTAAAATATCAACTAAACTCTCAGG
AAATTACTGTAAAAGAAACACGAAATTGCTGTC
Found at i:1018359 original size:14 final size:14
Alignment explanation
Indices: 1018340--1018367 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1018330 ATCATAACAA
1018340 AATTATATAACTAT
1 AATTATATAACTAT
1018354 AATTATATAACTAT
1 AATTATATAACTAT
1018368 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:1018442 original size:16 final size:16
Alignment explanation
Indices: 1018421--1018451 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1018411 TTCTAATTTT
1018421 TTTTTGAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
1018437 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
1018452 TTCAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:1020099 original size:17 final size:18
Alignment explanation
Indices: 1020044--1020104 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
1020034 AATCTATTGG
* *
1020044 AATAAGAAAATTTATTTAA
1 AATAATAAAATTT-TATAA
1020063 AATAATAAAATTCTTA-AA
1 AATAATAAAATT-TTATAA
1020081 AAT-ATAAAATTTTATAA
1 AATAATAAAATTTTATAA
*
1020098 AAAAATA
1 AATAATA
1020105 TTAAAATATC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.08
17 12 0.33
18 8 0.22
19 12 0.33
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAAAATTTTATAA
Found at i:1036283 original size:36 final size:36
Alignment explanation
Indices: 1036149--1036396 Score: 200
Period size: 36 Copynumber: 7.1 Consensus size: 36
1036139 AGTTTTAAAA
* * *
1036149 AAAACATTTT-AGAAA-ATATATA-TATATAATTTTT
1 AAAACATTTTGA-AAACATTTATATTATATAGTTTTG
1036183 AAAATCATTTTGAAAAC--TTATATATATATAGTTTTG
1 AAAA-CATTTTGAAAACATTTATAT-TATATAGTTTTG
*
1036219 AAAACATTTTGAAAACATATATA-T-TATAGTTTTG
1 AAAACATTTTGAAAACATTTATATTATATAGTTTTG
* *
1036253 AAAACCTTTTGAAAACATTTATATTATATAGTTTTT
1 AAAACATTTTGAAAACATTTATATTATATAGTTTTG
* * * * * **
1036289 AAAGCGTTTTGGGAAA-ATTTATATAATCTTTTTTTG
1 AAAACATTTT-GAAAACATTTATATTATATAGTTTTG
* *
1036325 AAAACATGTTGAAAAAATTCATATATTATATAG-TTT-
1 AAAACATTTTGAAAACATT--TATATTATATAGTTTTG
*
1036361 AAAACATTTTG--AA-ATTTATATT-TATATTTTTG
1 AAAACATTTTGAAAACATTTATATTATATAGTTTTG
1036393 AAAA
1 AAAA
1036397 TATTATATTA
Statistics
Matches: 174, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
30 4 0.02
31 9 0.05
32 4 0.02
33 3 0.02
34 41 0.24
35 27 0.16
36 67 0.39
37 11 0.06
38 8 0.05
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (36 bp):
AAAACATTTTGAAAACATTTATATTATATAGTTTTG
Found at i:1036392 original size:21 final size:24
Alignment explanation
Indices: 1036367--1036411 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1036357 GTTTAAAACA
1036367 TTTTG-AAAT-TTATATT-TATAT
1 TTTTGAAAATATTATATTATATAT
1036388 TTTTGAAAATATTATATTATATAT
1 TTTTGAAAATATTATATTATATAT
1036412 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 7 0.33
24 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTGAAAATATTATATTATATAT
Found at i:1037627 original size:8 final size:8
Alignment explanation
Indices: 1037616--1037674 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1037606 TAACCTTTTA
1037616 TTATTATT
1 TTATTATT
1037624 TTATTATT
1 TTATTATT
*
1037632 TCT-TTCTT
1 T-TATTATT
*
1037640 TCATTATT
1 TTATTATT
1037648 ATTATTATT
1 -TTATTATT
1037657 TT-TTATAT
1 TTATTAT-T
*
1037665 TTTTTATT
1 TTATTATT
1037673 TT
1 TT
1037675 TTAGCATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 4 0.10
8 26 0.62
9 12 0.29
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:1043050 original size:164 final size:163
Alignment explanation
Indices: 1042779--1043750 Score: 1374
Period size: 164 Copynumber: 5.9 Consensus size: 163
1042769 ACCTGCCACC
*
1042779 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* **
1042844 AAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
*
1042909 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGAA
130 CATAACTCAAGGCAAGAAGGGTTATCTGTTAGAA
* *
1042943 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* **
1043008 AAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAA-GGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* *
1043072 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
130 CATAACTCAAGGCAAGAAGGGTTATCTGTTAGAA
*
1043106 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * * *
1043171 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
66 AAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * **
1043236 CATAACTTAAGTCAAGAAGGGTTATCTGCCA-ATCA
130 CATAACTCAAGGCAAGAAGGGTTATCTGTTAGA--A
* * * *
1043271 AAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
1043336 AAGGGCCATCTGCCAAAGACTCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* *
1043401 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
130 CATAACTCAAGGCAAGAAGGGTTATCTGTTAGAA
*
1043435 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * ** * *
1043500 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAG
66 AAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* * **
1043565 CATAACTTAAGTCAAGAAGGGTTATCTGCCA-ATCA
130 CATAACTCAAGGCAAGAAGGGTTATCTGTTAGA--A
* * *
1043600 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * * * *
1043665 AAGGGCCATCTGCCAAAGACTCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCATTTACAA
66 AAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
* *
1043730 CATAGCTCATGGCAAGAAGGG
130 CATAACTCAAGGCAAGAAGGG
1043751 CTATTTGTCA
Statistics
Matches: 730, Mismatches: 68, Indels: 19
0.89 0.08 0.02
Matches are distributed among these distances:
163 152 0.21
164 299 0.41
165 279 0.38
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (163 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGC
ATAACTCAAGGCAAGAAGGGTTATCTGTTAGAA
Found at i:1043481 original size:329 final size:329
Alignment explanation
Indices: 1042779--1043750 Score: 1592
Period size: 329 Copynumber: 3.0 Consensus size: 329
1042769 ACCTGCCACC
* *
1042779 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* *** * * * * *
1042844 AAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
* * * ** *
1042909 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGA--AAAGACCTTTGAGTTCGACTACGCTCAGCT
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCA-ATCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * * * * **
1042972 CCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGAC-CCTTAAGT
195 CCAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCC-CGAGT
1043036 TCGATTACACTCAGCTTCAA-GGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
259 TCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
1043100 TTAGCA
324 TTAGCA
1043106 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1043171 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
*
1043236 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTTGACTACGCTCAGCTC
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1043301 CAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCCCGAGTTC
196 CAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCCCGAGTTC
1043366 GATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTT
261 GATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTT
1043431 AGCA
326 AGCA
1043435 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
*
1043500 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGCATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
1043565 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
131 CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1043630 CAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCCCGAGTTC
196 CAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCCCGAGTTC
* * * * * * * *
1043695 GATTACACTCAACTTCGAGGTCATATCATTTACAACATAGCTCATGGCAAGAAGGG
261 GATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGG
1043751 CTATTTGTCA
Statistics
Matches: 606, Mismatches: 35, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
326 1 0.00
327 145 0.24
328 102 0.17
329 358 0.59
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (329 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCAGCTTCGAGGGCGTATCATTTGCAG
CATAACTTAAGTCAAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAAGGCATATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCCATCTGCCAAAGACTCCCGAGTTC
GATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTT
AGCA
Found at i:1044476 original size:34 final size:34
Alignment explanation
Indices: 1044350--1044665 Score: 155
Period size: 34 Copynumber: 8.8 Consensus size: 34
1044340 TGAAACTACG
* ** *
1044350 TATATAATATATAGTTTTTAATAGTTTTTAAAA-T
1 TATAT-ATATATAGTTTTTAAAACATTTGAAAACT
* *
1044384 TATATAATATATAGTTTTAAAAAAAAACATTTTAGAAA-T
1 TATAT-ATATATAGTTTT----TAAAACATTTGA-AAACT
* *
1044423 ATATATAATATATAATTTTTAAATCATTTGAAAACT
1 -TATAT-ATATATAGTTTTTAAAACATTTGAAAACT
*
1044459 TATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATATATATAGTTTTT-AAAACA--TTTGAAAACT
* *
1044496 TATATAT-TATAGTTTTGAAAACCTTTTGAAAACAT
1 TATATATATATAGTTTTTAAAA-CATTTGAAAAC-T
* * *
1044531 T-TATATTATATAGTTTTTAAAGCGTTTTGGGAAAATT
1 TATATA-TATATAGTTTTTAAAAC-ATTT--GAAAACT
* * *
1044568 TATATA-ATCT-TTTTTTGAAAACATGTTGAAAAAAT
1 TATATATATATAGTTTTT-AAAACAT-TTG-AAAACT
* *
1044603 TCATATATTATATAG-TTTAAAAACATTTTG-AAATT
1 T-ATATA-TATATAGTTTTTAAAACA-TTTGAAAACT
*
1044638 TATATAT-TATATGTTTTTGAAAATATTT
1 TATATATATATA-GTTTTT-AAAACATTT
1044666 ATGTATATAT
Statistics
Matches: 225, Mismatches: 28, Indels: 58
0.72 0.09 0.19
Matches are distributed among these distances:
32 4 0.02
33 2 0.01
34 55 0.24
35 42 0.19
36 50 0.22
37 27 0.12
38 24 0.11
39 4 0.02
40 17 0.08
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (34 bp):
TATATATATATAGTTTTTAAAACATTTGAAAACT
Found at i:1044489 original size:12 final size:12
Alignment explanation
Indices: 1044472--1044496 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1044462 ATATATATAG
1044472 TTTTTGAAAACA
1 TTTTTGAAAACA
1044484 TTTTTGAAAACA
1 TTTTTGAAAACA
1044496 T
1 T
1044497 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:1044499 original size:74 final size:71
Alignment explanation
Indices: 1044350--1044502 Score: 159
Period size: 74 Copynumber: 2.1 Consensus size: 71
1044340 TGAAACTACG
* *
1044350 TATATAATATATAGTTTTTAATAGTTTTTAAAATTATATAATATATAGTTTTAAAAAAAAACATT
1 TATATAATATATAATTTTTAATAG-TTTGAAAATTATATAATATATAGTTTT--AAAAAAACATT
*
1044415 TTAGAAATA
63 TTAAAAATA
**
1044424 TATATAATATATAATTTTTAAATCA-TTTGAAAACTTATAT-ATATATAGTTTT-TGAAAACATT
1 TATATAATATATAATTTTT-AAT-AGTTTGAAAA-TTATATAATATATAGTTTTAAAAAAACA-T
1044486 TTTGAAAACATA
62 TTT-AAAA-ATA
1044498 TATAT
1 TATAT
1044503 TATAGTTTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
71 6 0.09
72 4 0.06
73 3 0.04
74 45 0.66
75 9 0.13
76 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (71 bp):
TATATAATATATAATTTTTAATAGTTTGAAAATTATATAATATATAGTTTTAAAAAAACATTTTA
AAAATA
Found at i:1044536 original size:36 final size:36
Alignment explanation
Indices: 1044407--1044665 Score: 157
Period size: 36 Copynumber: 7.2 Consensus size: 36
1044397 GTTTTAAAAA
* * * *
1044407 AAAACATTTT-AGAA-ATATATATAATATATAATTTTT
1 AAAACATTTTGAAAACATTTATAT-AT-TATAGTTTTG
*
1044443 AAATCA-TTTGAAAAC-TTATATATA-TATAGTTTTTG
1 AAAACATTTTGAAAACATT-TATATATTATAG-TTTTG
1044478 AAAACATTTTTGAAAACA--TATATATTATAGTTTTG
1 AAAACA-TTTTGAAAACATTTATATATTATAGTTTTG
* *
1044513 AAAACCTTTTGAAAACATTTATAT-TATATAGTTTTT
1 AAAACATTTTGAAAACATTTATATAT-TATAGTTTTG
* * * * * **
1044549 AAAGCGTTTTGGGAAA-ATTTATATAATCTTTTTTTG
1 AAAACATTTT-GAAAACATTTATATATTATAGTTTTG
* * * *
1044585 AAAACATGTTGAAAAAATTCATATATTATA-TAGTTTA
1 AAAACATTTTGAAAACATTTATATATTATAGT--TTTG
1044622 AAAACATTTTG--AA-ATTTATATATTATATGTTTTTG
1 AAAACATTTTGAAAACATTTATATATTATA-G-TTTTG
*
1044657 AAAATATTT
1 AAAACATTT
1044666 ATGTATATAT
Statistics
Matches: 175, Mismatches: 29, Indels: 39
0.72 0.12 0.16
Matches are distributed among these distances:
34 28 0.16
35 47 0.27
36 68 0.39
37 32 0.18
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (36 bp):
AAAACATTTTGAAAACATTTATATATTATAGTTTTG
Found at i:1044644 original size:72 final size:71
Alignment explanation
Indices: 1044379--1044660 Score: 193
Period size: 72 Copynumber: 3.9 Consensus size: 71
1044369 AATAGTTTTT
* * * * *
1044379 AAAATTATATAATATATAGTTTTAAAAAAAAACATTTTAG-AAATATATATAATATATAATTTTT
1 AAAATT-TATATTATATAGTTTT----AAAAACATTTTGGAAAATTTATATAATATGT--TTTTG
*
1044443 AAATCAT-TTG--
59 AAAACATGTTGAA
* * * ** *
1044453 AAAACTTATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATAG-TTTTGAAAA
1 AAAATTTATAT-TATATAG-TTTTAAAAACATTTTGGAAAATTTATATAATAT-GTTTTTGAAAA
* *
1044517 CCTTTTGAA
63 CATGTTGAA
* * * * * *
1044526 AACATTTATATTATATAGTTTTTAAAGCGTTTTGGGAAAATTTATATAATCTTTTTTTGAAAACA
1 AAAATTTATATTATATAGTTTTAAAAACATTTT-GGAAAATTTATATAATATGTTTTTGAAAACA
1044591 TGTTGAA
65 TGTTGAA
1044598 AAAATTCATATATTATATAG-TTTAAAAACATTTT-G-AAATTTATATATTATATGTTTTTGAAA
1 AAAATT--TATATTATATAGTTTTAAAAACATTTTGGAAAATTTATATA--ATATGTTTTTGAAA
1044660 A
62 A
1044661 TATTTATGTA
Statistics
Matches: 166, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
70 20 0.12
71 27 0.16
72 67 0.40
73 24 0.14
74 24 0.14
75 4 0.02
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (71 bp):
AAAATTTATATTATATAGTTTTAAAAACATTTTGGAAAATTTATATAATATGTTTTTGAAAACAT
GTTGAA
Found at i:1044672 original size:24 final size:24
Alignment explanation
Indices: 1044628--1044673 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1044618 TTTAAAAACA
*
1044628 TTTTGAAATTTATATATTATATGT
1 TTTTGAAATATATATATTATATGT
*
1044652 TTTTGAAA-ATATTTATGTATAT
1 TTTTGAAATATATATAT-TATAT
1044674 ATATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
TTTTGAAATATATATATTATATGT
Found at i:1045870 original size:23 final size:23
Alignment explanation
Indices: 1045839--1045897 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
1045829 ATTTTATCTT
* * *
1045839 TATTCTTTTATTTTACTTTTTAA
1 TATTATTTTATTTAACCTTTTAA
* *
1045862 TATTTTTTTAATTTAACCTTTTAT
1 TATTATTTT-ATTTAACCTTTTAA
1045886 TATTATTTTATT
1 TATTATTTTATT
1045898 ATTTCTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTATTTTATTTAACCTTTTAA
Found at i:1045896 original size:8 final size:8
Alignment explanation
Indices: 1045885--1045943 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
1045875 TAACCTTTTA
1045885 TTATTATT
1 TTATTATT
1045893 TTATTATT
1 TTATTATT
*
1045901 TCT-TTCTT
1 T-TATTATT
*
1045909 TCATTATT
1 TTATTATT
1045917 ATTATTATT
1 -TTATTATT
1045926 TT-TTATAT
1 TTATTAT-T
*
1045934 TTTTTATT
1 TTATTATT
1045942 TT
1 TT
1045944 TTAGCATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 4 0.10
8 26 0.62
9 12 0.29
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTATT
Found at i:1047372 original size:14 final size:14
Alignment explanation
Indices: 1047355--1047385 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1047345 AAATGCATAA
*
1047355 AAATTATTTTTTTT
1 AAATAATTTTTTTT
1047369 AAATAATTTTTTTT
1 AAATAATTTTTTTT
1047383 AAA
1 AAA
1047386 AAAAATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATAATTTTTTTT
Found at i:1057366 original size:21 final size:21
Alignment explanation
Indices: 1057341--1057382 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1057331 AAATTATATA
* *
1057341 ATATAATCTTAATCATTATTT
1 ATATAATATTAATCATCATTT
1057362 ATATAATATTAATCATCATTT
1 ATATAATATTAATCATCATTT
1057383 GTATTTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATAATATTAATCATCATTT
Found at i:1057379 original size:24 final size:24
Alignment explanation
Indices: 1057334--1057381 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
1057324 TATAAAAAAA
1057334 TTATATAATATAATCTTAATCATTAT
1 TTATATAATATAATC-T-ATCATTAT
1057360 TTATATAATATTAATC-ATCATT
1 TTATATAATA-TAATCTATCATT
1057382 TGTATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
26 10 0.48
27 5 0.24
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (24 bp):
TTATATAATATAATCTATCATTAT
Found at i:1058012 original size:57 final size:60
Alignment explanation
Indices: 1057890--1058017 Score: 156
Period size: 57 Copynumber: 2.2 Consensus size: 60
1057880 GGGTGACCAT
* * * *
1057890 TTTATAATTTTTAATAGTCGACGGACTCAACAAAACAACTATCTATAGTCGAGTGATCAG
1 TTTATAACTTTTAATAGTCGACGAACTCAACAAAACAACTATCTATAGTAGAGTGATCAA
* **
1057950 TTTATAACTTTTAATAGTC-ACGAACTCAAC-AAATATGTAT-TATAGTTAGA-TGATCAA
1 TTTATAACTTTTAATAGTCGACGAACTCAACAAAACAACTATCTATAG-TAGAGTGATCAA
1058007 TTTATAACTTT
1 TTTATAACTTT
1058018 CTTGGGTTAG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 22 0.37
58 10 0.17
59 10 0.17
60 18 0.30
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (60 bp):
TTTATAACTTTTAATAGTCGACGAACTCAACAAAACAACTATCTATAGTAGAGTGATCAA
Found at i:1058430 original size:17 final size:17
Alignment explanation
Indices: 1058408--1058443 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1058398 ATTATTAATA
1058408 TAAAACCTATTTTATAT
1 TAAAACCTATTTTATAT
1058425 TAAAACCTATTTTATAT
1 TAAAACCTATTTTATAT
1058442 TA
1 TA
1058444 TTTTTAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAACCTATTTTATAT
Found at i:1058866 original size:6 final size:6
Alignment explanation
Indices: 1058857--1058892 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
1058847 TCATCCTTGT
*
1058857 TTGTCG TTGTCG TTCTCG TTGTCG TTGTCG TTGTCG
1 TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG
1058893 CCACTTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (6 bp):
TTGTCG
Found at i:1059883 original size:94 final size:94
Alignment explanation
Indices: 1059722--1060001 Score: 497
Period size: 94 Copynumber: 3.0 Consensus size: 94
1059712 GCTTTTGTGG
* *
1059722 AAGAGTTATCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATATACAGGT
1 AAGAGTTCTCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATGTACAGGT
1059787 TTAGAACATTGGTTAAGTTCATTTTATGA
66 TTAGAACATTGGTTAAGTTCATTTTATGA
1059816 AAGAGTTCTCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATGTACAGGT
1 AAGAGTTCTCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATGTACAGGT
1059881 TTAGAACATTGGTTAAGTTCATTTTATGA
66 TTAGAACATTGGTTAAGTTCATTTTATGA
* * *
1059910 AAGAGTTCTCTTTTTGTATAAAGCTAGTCTATTGTGTTAGAAATGGGAGTTGCAGATGTACAGGT
1 AAGAGTTCTCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATGTACAGGT
* *
1059975 TTAAAACATTGGTTAAGTTCAGTTTAT
66 TTAGAACATTGGTTAAGTTCATTTTAT
1060002 AAAATGTTTA
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 179 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (94 bp):
AAGAGTTCTCTTTTTGTATAAAGCTTGTCTATTTTGTTAGAAATGGGAGGTGCAGATGTACAGGT
TTAGAACATTGGTTAAGTTCATTTTATGA
Found at i:1080049 original size:25 final size:24
Alignment explanation
Indices: 1080019--1080072 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
1080009 AATGATAAAC
* *
1080019 AAAATCGTGCCATAAAAGTAGATA
1 AAAATCATGCCATAAAAGCAGATA
* *
1080043 AGAAATCATGTCATAAATGCAGATA
1 A-AAATCATGCCATAAAAGCAGATA
1080068 AAAAT
1 AAAAT
1080073 AAACGCTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (24 bp):
AAAATCATGCCATAAAAGCAGATA
Found at i:1086555 original size:18 final size:20
Alignment explanation
Indices: 1086532--1086573 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1086522 CCACCTGAAA
1086532 TTTAAA-ATTA-CTATATAT
1 TTTAAATATTATCTATATAT
*
1086550 TTTAAATTTTATCTATATAT
1 TTTAAATATTATCTATATAT
1086570 TTTA
1 TTTA
1086574 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAATATTATCTATATAT
Found at i:1090428 original size:20 final size:21
Alignment explanation
Indices: 1090405--1090445 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1090395 CATTATATGT
**
1090405 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
1090425 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
1090446 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:1091866 original size:3 final size:3
Alignment explanation
Indices: 1091858--1091987 Score: 208
Period size: 3 Copynumber: 43.7 Consensus size: 3
1091848 TTAATATATT
*
1091858 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1091905 TAA TAA TAT TAA TAA TAA TAT TAA TAA TGA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1091953 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1091988 TGGATAAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
2 2 0.02
3 114 0.98
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1092560 original size:119 final size:116
Alignment explanation
Indices: 1092233--1092799 Score: 878
Period size: 119 Copynumber: 4.9 Consensus size: 116
1092223 GCTCTTGATG
* *
1092233 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
* * * *
1092297 -CTGGTAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACA
66 TCTGGAAATGATGATCCATCAATTTGATGAATTCAAACAAAAGGTTGAACA
*
1092346 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-C
* *
1092410 CTCTGGAAATGATGATCCATCAGTTTGATGAATTTAAACAAAAGGTTGAACA
65 CTCTGGAAATGATGATCCATCAATTTGATGAATTCAAACAAAAGGTTGAACA
1092462 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT
* *
1092527 TCCTCTGAAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
63 TCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAACAAAAGGTTGAACA
1092581 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-CTT-C
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
* * *
1092644 TCTGGAAAAGAATGATCCATCAA-GTGATGAATTTAAACAAAAGGTTGAACA
66 TCTGGAAATG-ATGATCCATCAATTTGATGAATTCAAACAAAAGGTTGAACA
*
1092695 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCT
1092760 TCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAA
63 TCCTCTGGAAATGATGATCCATCAATTTGATGAATTCAAA
1092800 TCTTTGCTAA
Statistics
Matches: 417, Mismatches: 23, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
113 60 0.14
114 73 0.18
115 33 0.08
116 83 0.20
117 20 0.05
118 15 0.04
119 131 0.31
120 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (116 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCC
TCTGGAAATGATGATCCATCAATTTGATGAATTCAAACAAAAGGTTGAACA
Found at i:1092744 original size:233 final size:233
Alignment explanation
Indices: 1092235--1092798 Score: 946
Period size: 233 Copynumber: 2.4 Consensus size: 233
1092225 TCTTGATGAG
* *
1092235 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* * *
1092296 C-CTGGTAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATT
66 CTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATT
* *
1092359 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTCTGGAAATGATG
131 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTA-CTCTGGAAAAGATG
*
1092424 ATCCATCAGTTTGATGAATTTAAACAAAAGGTTGAACAAG
195 ATCCATCAG-TTGATGAATTTAAACAAAAGGTTGAACAAA
1092464 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* *
1092529 CTCTGAAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATT
66 CTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATT
1092594 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CTCTGGAAAAGAATG
131 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTACTCTGGAAAAG-ATG
1092658 ATCCATCAAG-TGATGAATTTAAACAAAAGGTTGAACAAA
195 ATCCATC-AGTTGATGAATTTAAACAAAAGGTTGAACAAA
1092697 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1092762 CTCTGGAAATGATGATCCATCAATTTGATGAATTCAA
66 CTCTGGAAATGATGATCCATCAATTTGATGAATTCAA
1092799 ATCTTTGCTA
Statistics
Matches: 316, Mismatches: 11, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
229 36 0.11
232 21 0.07
233 142 0.45
234 28 0.09
235 89 0.28
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (233 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
CTCTGGAAATGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATT
ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTACTCTGGAAAAGATGA
TCCATCAGTTGATGAATTTAAACAAAAGGTTGAACAAA
Found at i:1093485 original size:52 final size:52
Alignment explanation
Indices: 1093436--1093680 Score: 481
Period size: 52 Copynumber: 4.7 Consensus size: 52
1093426 CTATCCAATT
1093436 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
*
1093488 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1093540 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1093592 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1093644 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1093681 TGAGCATATT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 191 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.23
Consensus pattern (52 bp):
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
Found at i:1106220 original size:20 final size:21
Alignment explanation
Indices: 1106197--1106237 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1106187 CATTATATGT
**
1106197 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
1106217 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
1106238 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:1107651 original size:3 final size:3
Alignment explanation
Indices: 1107643--1107781 Score: 219
Period size: 3 Copynumber: 46.7 Consensus size: 3
1107633 TTAATATATT
*
1107643 TAA TAA TAA -AA TAA TAA TAA TAA TATA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * *
1107688 TAA TAA TAT TAA TAA TAA TAT TAA TAA TGA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1107735 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1107782 TGGATAAAAA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
2 4 0.03
3 118 0.94
4 3 0.02
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1109089 original size:21 final size:22
Alignment explanation
Indices: 1109065--1109115 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
1109055 TCATAAATCC
1109065 CTAAACTTAAATCCC-AAATTA
1 CTAAACTTAAATCCCAAAATTA
* *
1109086 CTAATCCT-AATCCCAAAATTA
1 CTAAACTTAAATCCCAAAATTA
*
1109107 TTAAA-TTAA
1 CTAAACTTAA
1109116 TTTTCTATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (22 bp):
CTAAACTTAAATCCCAAAATTA
Found at i:1134196 original size:120 final size:120
Alignment explanation
Indices: 1133983--1134221 Score: 433
Period size: 120 Copynumber: 2.0 Consensus size: 120
1133973 CAGGTCCAAA
* *
1133983 AGACGATATTGAAACCGTTTGCATGAGCGGAGAAAGAAGGATCCAAAGCTTTCTTGTCTGATATC
1 AGACGATATTGAAACCATTTGCATGAGCGGAGAAAGAAGGATCCAAAGCTTTCTCGTCTGATATC
*
1134048 AACTCAAGCAGCACAACTCCATAACTGTAGACATCGGCCTTCTCATATACACGAT
66 AACTCAAGCAGCACAACTCCATAACTGTAGACATCGGCCTTCTCAGATACACGAT
1134103 AGACGATATTGAAACCATTTGCATGAGCGGAGAAAGAAGGATCCAAAGCTTTCTCGTCTGATATC
1 AGACGATATTGAAACCATTTGCATGAGCGGAGAAAGAAGGATCCAAAGCTTTCTCGTCTGATATC
* *
1134168 AACTCAAGCAGCACAATTCCATAGCTGTAGACATCGGCCTTCTCAGATACACGA
66 AACTCAAGCAGCACAACTCCATAACTGTAGACATCGGCCTTCTCAGATACACGA
1134222 CAGGTCATAG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (120 bp):
AGACGATATTGAAACCATTTGCATGAGCGGAGAAAGAAGGATCCAAAGCTTTCTCGTCTGATATC
AACTCAAGCAGCACAACTCCATAACTGTAGACATCGGCCTTCTCAGATACACGAT
Found at i:1141488 original size:91 final size:90
Alignment explanation
Indices: 1141203--1141534 Score: 455
Period size: 91 Copynumber: 3.8 Consensus size: 90
1141193 ATAAATTTTA
* * *
1141203 TTTTAAATTTTTATTAATAATCTATTTT-ATTGCTAAAATTTTAAAAGTTTAATTCTAACAT-AA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
*
1141266 ATTTTATTTC--ATATTTTAGATTT
66 ATTCTATTTCATATATTTTAGATTT
* * *
1141289 TTTTATATTTTTA-T--TAATCTATTTTC-TTCCTGAAACTTTAAAAAGTTTAATCTTAACATAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCT-AAAATTTTAAAAGTTTAATCCTAACATAA
* * *
1141350 GAGTCTATTTCATATATTTTAAATTT
65 AATTCTATTTCATATATTTTAGATTT
* *
1141376 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATATTAAAATTTTAATCCTAACATAAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
1141441 ATTCTATTTCATATATTTTAGATTAT
66 ATTCTATTTCATATATTTTAGATT-T
** *
1141467 TTTTATATTTTTATTAATAATCTATTTTCATTTTTAAAATTTTAAAAGTTTAATCCTAGCATAAA
1 TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
1141532 ATT
66 ATT
1141535 TTATGTCCAT
Statistics
Matches: 213, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
83 15 0.07
84 23 0.11
85 10 0.05
86 12 0.06
87 25 0.12
88 1 0.00
90 58 0.27
91 69 0.32
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (90 bp):
TTTTATATTTTTATTAATAATCTATTTTCATTCCTAAAATTTTAAAAGTTTAATCCTAACATAAA
ATTCTATTTCATATATTTTAGATTT
Found at i:1147687 original size:28 final size:28
Alignment explanation
Indices: 1147655--1147710 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
1147645 CTCGTCGGCG
1147655 TTCTCAATTCATGCTTCAATCAATCATA
1 TTCTCAATTCATGCTTCAATCAATCATA
1147683 TTCTCAATTCATGCTTCAATCAATCATA
1 TTCTCAATTCATGCTTCAATCAATCATA
1147711 GTAGGGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (28 bp):
TTCTCAATTCATGCTTCAATCAATCATA
Found at i:1147705 original size:16 final size:16
Alignment explanation
Indices: 1147658--1147706 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
1147648 GTCGGCGTTC
1147658 TCAATTCATGCTTCAA
1 TCAATTCATGCTTCAA
*
1147674 TCAA-TCAT-ATTC--
1 TCAATTCATGCTTCAA
1147686 TCAATTCATGCTTCAA
1 TCAATTCATGCTTCAA
1147702 TCAAT
1 TCAAT
1147707 CATAGTAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 6 0.22
15 4 0.15
16 9 0.33
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (16 bp):
TCAATTCATGCTTCAA
Found at i:1149305 original size:58 final size:60
Alignment explanation
Indices: 1149185--1149307 Score: 223
Period size: 60 Copynumber: 2.1 Consensus size: 60
1149175 ATTGATTTTA
1149185 TTTTTCTTCTTGACCAAGCCGTCTTTTCAAGCTCTTGTTTAAAGTCTGACACCGTAATGGT
1 TTTTTCTTCTTGACCAAGCCGTCTTTTCAAGCTCTTGTTTAAAGTCTGA-ACCGTAATGGT
1149246 TTTTTCTTC-TGACCAAGCCGTCTTTTCAAGCTCTTGTTTAAAGTCTG-ACCGTAATGGT
1 TTTTTCTTCTTGACCAAGCCGTCTTTTCAAGCTCTTGTTTAAAGTCTGAACCGTAATGGT
1149304 TTTT
1 TTTT
1149308 GCATTAGGGC
Statistics
Matches: 62, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
58 15 0.24
60 38 0.61
61 9 0.15
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (60 bp):
TTTTTCTTCTTGACCAAGCCGTCTTTTCAAGCTCTTGTTTAAAGTCTGAACCGTAATGGT
Found at i:1150735 original size:71 final size:70
Alignment explanation
Indices: 1150619--1150763 Score: 281
Period size: 71 Copynumber: 2.1 Consensus size: 70
1150609 TGACAATGTT
1150619 CCATATGTATGGTAAGTTTGGTCTGCGTAATGACTCCCATATTGTTAAATGCTGCTAACATCTTA
1 CCATATGTATGGTAAGTTTGGTCTGCGTAATGACTCCCATATTGTT-AATGCTGCTAACATCTTA
1150684 GAACAG
65 GAACAG
1150690 CCATATGTATGGTAAGTTTGGTCTGCGTAATGACTCCCATATTGTTAATGCTGCTAACATCTTAG
1 CCATATGTATGGTAAGTTTGGTCTGCGTAATGACTCCCATATTGTTAATGCTGCTAACATCTTAG
1150755 AACAG
66 AACAG
1150760 CCAT
1 CCAT
1150764 TCATGTCTTT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 28 0.38
71 46 0.62
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (70 bp):
CCATATGTATGGTAAGTTTGGTCTGCGTAATGACTCCCATATTGTTAATGCTGCTAACATCTTAG
AACAG
Found at i:1152752 original size:32 final size:33
Alignment explanation
Indices: 1152694--1152757 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1152684 CCACTGCTTC
*
1152694 AATGGTGGAAATCAAAAAACCCTTTTTTAATCA
1 AATGGTGCAAATCAAAAAACCCTTTTTTAATCA
*
1152727 AATGGTGCAAATC-AACAACCCTTTTTTAATC
1 AATGGTGCAAATCAAAAAACCCTTTTTTAATC
1152758 TAATTCATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (33 bp):
AATGGTGCAAATCAAAAAACCCTTTTTTAATCA
Found at i:1157991 original size:101 final size:102
Alignment explanation
Indices: 1157809--1158024 Score: 371
Period size: 101 Copynumber: 2.1 Consensus size: 102
1157799 GTCGAGGGTC
*
1157809 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGAGACA-ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1157874 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCCTAGCATATGTATATGATTCCTAAGGAATGA
1157912 TATGTGGTCCTTCGAGAC-ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTCGAGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
*
1157976 TGATCCCTAGTATATGTATATGATTCCTAAGGAATGA
66 TGATCCCTAGCATATGTATATGATTCCTAAGGAATGA
1158013 TATGTGGTCCTT
1 TATGTGGTCCTT
1158025 ATGGAAATTA
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 91 0.84
103 17 0.16
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (102 bp):
TATGTGGTCCTTCGAGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCCTAGCATATGTATATGATTCCTAAGGAATGA
Found at i:1158067 original size:23 final size:23
Alignment explanation
Indices: 1158041--1158108 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1158031 ATTATTATAT
*
1158041 GGCACTACGGTACAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1158064 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1158087 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1158109 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1159744 original size:21 final size:21
Alignment explanation
Indices: 1159714--1159915 Score: 141
Period size: 21 Copynumber: 9.6 Consensus size: 21
1159704 GATTTACATA
* *
1159714 TTCGCATTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
1159735 TTCGCGTTACGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
*
1159758 TT--CGTTGCGATAGTCGAAA
1 TTCGCGTTGCGATAGTCGAAG
* *
1159777 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCGAAG
*
1159800 --CTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
*
1159819 TTCGCGTTGCGATTTATTCGAAG
1 TTCGCGTTGCGA--TAGTCGAAG
*
1159842 --CTCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
1159861 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
*
1159884 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
1159903 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1159916 TTATTCCAAG
Statistics
Matches: 142, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
19 32 0.23
21 79 0.56
23 31 0.22
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:1159931 original size:21 final size:21
Alignment explanation
Indices: 1159739--1159934 Score: 147
Period size: 21 Copynumber: 9.3 Consensus size: 21
1159729 TCGAAGTTCG
*
1159739 CGTTACGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* * *
1159760 CGTTGCGA--TAGTCGAAATT
1 CGTTGCGATTTATTCCAAGTT
*
1159779 CGCGTTGCGATTTATTCCAAGCT
1 --CGTTGCGATTTATTCCAAGTT
* *
1159802 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
1159821 CGCGTTGCGATTTATTCGAAGCT
1 --CGTTGCGATTTATTCCAAGTT
* *
1159844 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
1159863 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
*
1159886 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
1159905 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAGTT
1159928 CGTTGCG
1 CGTTGCG
1159935 GTAGTCCAAA
Statistics
Matches: 138, Mismatches: 21, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
19 34 0.25
21 70 0.51
23 34 0.25
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:1159943 original size:42 final size:42
Alignment explanation
Indices: 1159723--1159940 Score: 364
Period size: 42 Copynumber: 5.2 Consensus size: 42
1159713 ATTCGCATTA
*
1159723 CGATAGTCGAAGTTCGCGTTACGATTTATTCCAAGTTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
* *
1159765 CGATAGTCGAAATTCGCGTTGCGATTTATTCCAAGCTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
* *
1159807 CGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAGCTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
*
1159849 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
*
1159891 CGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
1 CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
*
1159933 CGGTAGTC
1 CGATAGTC
1159941 CAAAATCGCA
Statistics
Matches: 165, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 165 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (42 bp):
CGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTG
Found at i:1160561 original size:6 final size:6
Alignment explanation
Indices: 1160540--1160588 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
1160530 GTCCGTCTCG
** *
1160540 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTAAT AGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1160586 GGT
1 GGT
1160589 AATACGTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.06, C:0.14, G:0.49, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:1160580 original size:18 final size:18
Alignment explanation
Indices: 1160557--1160592 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1160547 TCGGGTCGTG
1160557 GTCGTGGTCGTGGTAATA
1 GTCGTGGTCGTGGTAATA
1160575 GTCGTGGTCGTGGTAATA
1 GTCGTGGTCGTGGTAATA
1160593 CGTGTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (18 bp):
GTCGTGGTCGTGGTAATA
Found at i:1160730 original size:21 final size:21
Alignment explanation
Indices: 1160706--1160780 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
1160696 TTTGGAATAA
*
1160706 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
1160727 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1160748 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
1160769 ATCGCATTGCGA
1 ATCGCAATGCGA
1160781 TTTACATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:1160815 original size:21 final size:20
Alignment explanation
Indices: 1160770--1160860 Score: 98
Period size: 21 Copynumber: 4.5 Consensus size: 20
1160760 ACTTGGACTA
1160770 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
1160790 TCGCATTGCGATTGTCCA-AGT
1 TCGCATTGCGATT-TACATA-T
*
1160811 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
1160832 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1160852 TCGCATTGC
1 TCGCATTGC
1160861 AATAGTCGAC
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.03
20 26 0.43
21 31 0.52
23 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1160831 original size:62 final size:62
Alignment explanation
Indices: 1160765--1161007 Score: 342
Period size: 62 Copynumber: 4.0 Consensus size: 62
1160755 TGCGAACTTG
*
1160765 GACTATCGCATTGCGATTTACATATTCGCATTGCGATTGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *
1160827 GACTATCGCATTGCGATTTACATATTCGCATTGCAATAGT-C--G-AC-TATTGC---AGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *
1160881 GACTATCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCTAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1160944 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1161006 GA
1 GA
1161008 AGTTCGCGTT
Statistics
Matches: 157, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
54 22 0.14
55 18 0.11
57 5 0.03
58 2 0.01
59 2 0.01
60 5 0.03
61 1 0.01
62 80 0.51
63 22 0.14
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (62 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:1160910 original size:21 final size:21
Alignment explanation
Indices: 1160886--1161021 Score: 170
Period size: 21 Copynumber: 6.5 Consensus size: 21
1160876 CAGTCGACTA
1160886 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
1160907 TCGCATTGCGATAGTCTAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
1160928 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
1160948 ATCGCATTGCGAT-TTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
1160969 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
1160990 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
1161011 TCGCGTTGCGA
1 TCGCATTGCGA
1161022 ATCTGGAAAC
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.16
21 83 0.83
22 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:1160944 original size:117 final size:116
Alignment explanation
Indices: 1160765--1160984 Score: 370
Period size: 117 Copynumber: 1.9 Consensus size: 116
1160755 TGCGAACTTG
* *
1160765 GACTATCGCATTGCGATTTACATATTCGCATTGCGATTGTCCAAGTTCGCATTGCGATAGTCGAC
1 GACTATCGCATTGCGATGTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAC
1160830 TATCGCATTGCGATTTACATATTCGCATTGCAATAGTCGACTATTGCAGTC
66 TATCGCATTGCGATTTACATATTCGCATTGCAATAGTCGACTATTGCAGTC
* *
1160881 GACTATCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCTAAGTTCGCATTGCGATAGTCG
1 GACTATCGCATTGCGAT-GTACATA-TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
*
1160945 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
64 ACTATCGCATTGCGATTTACATATTCGCATTGCAATAGTC
1160985 CAAGTTCGCA
Statistics
Matches: 97, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
116 18 0.19
117 79 0.81
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (116 bp):
GACTATCGCATTGCGATGTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAC
TATCGCATTGCGATTTACATATTCGCATTGCAATAGTCGACTATTGCAGTC
Found at i:1161256 original size:21 final size:21
Alignment explanation
Indices: 1161190--1161257 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
1161180 GATTTACATA
1161190 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
1161211 TTCACATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* *
1161232 TTCGTATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
1161253 TTCGC
1 TTCGC
1161258 GTTACGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:1161356 original size:243 final size:242
Alignment explanation
Indices: 1160972--1161408 Score: 784
Period size: 243 Copynumber: 1.8 Consensus size: 242
1160962 TACATATTCG
*
1160972 CATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGAATCTGGAAACTGATT
1 CATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTACGAATCTGGAAACTGATT
* *
1161037 TGCGATACCGGAGATCGCGTTGCGAATTATCGATCGTATTGCGATTTAGTTGGTCATTTTGGCAA
66 TGCGATACCGGAGATCGCGTTACGAATTATCGATCGTATTGCGATTTAGTTGGTCATTTTGACAA
* *
1161102 ATCCAAAAAAAAATTAGTTAAAATCGTATATTATAAGGCATTTTTGGTCAATGAGATTATTTTAT
131 ATCC-AAAAAAAATTAGTTAAAATCGTATATTATAAGACATTTTTGATCAATGAGATTATTTTAT
1161167 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCA
195 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCA
*
1161215 CATTGCGATAGTCCAAGTTCGTATTGCGATAGTCGAAGTTCGCGTTACGAATCTGGAAACTGATT
1 CATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTACGAATCTGGAAACTGATT
* * *
1161280 TGCGATACTGGAGGTCGCGTTACGAATTATCGATCGTATTGCGATTTAGTTGGTCATTTTGATAA
66 TGCGATACCGGAGATCGCGTTACGAATTATCGATCGTATTGCGATTTAGTTGGTCATTTTGACAA
1161345 ATCCAAAAAAAATTAGTTAAAATCGTATATTATAAGACATTTTTGATCAATGAGATTATTTTAT
131 ATCCAAAAAAAATTAGTTAAAATCGTATATTATAAGACATTTTTGATCAATGAGATTATTTTAT
1161409 CATAAGTAAA
Statistics
Matches: 185, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
242 58 0.31
243 127 0.69
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (242 bp):
CATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTACGAATCTGGAAACTGATT
TGCGATACCGGAGATCGCGTTACGAATTATCGATCGTATTGCGATTTAGTTGGTCATTTTGACAA
ATCCAAAAAAAATTAGTTAAAATCGTATATTATAAGACATTTTTGATCAATGAGATTATTTTATA
CTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCA
Found at i:1164732 original size:24 final size:24
Alignment explanation
Indices: 1164705--1164885 Score: 119
Period size: 24 Copynumber: 7.4 Consensus size: 24
1164695 TGTGCCGGTT
*
1164705 GTCGGTGTTGTTGGAGTCCCCATG
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * *
1164729 GTCGGCGTTGTTGAAGGAATACCCGTG
1 GTCGGTGTTGTT---GGAGTCCCCGTG
* * *
1164756 CTCGGTGTTGTTGGAGTCCCGGTT
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * *
1164780 GTCGGTGTTGTCGGAGTACCGGTC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * * *
1164804 GTCGGCGTTGTTGGAATTCCGGTC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * * * *
1164828 GTCGGCGTTGTCGGAGTACCGGTC
1 GTCGGTGTTGTTGGAGTCCCCGTG
* * *
1164852 GTCGGCGTTGTTGGAGTTCCGGTG
1 GTCGGTGTTGTTGGAGTCCCCGTG
1164876 GTCGGTGTTG
1 GTCGGTGTTG
1164886 AGCTTGAGCC
Statistics
Matches: 129, Mismatches: 25, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
24 110 0.85
27 19 0.15
ACGTcount: A:0.08, C:0.20, G:0.40, T:0.31
Consensus pattern (24 bp):
GTCGGTGTTGTTGGAGTCCCCGTG
Found at i:1164818 original size:48 final size:48
Alignment explanation
Indices: 1164757--1164885 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
1164747 ATACCCGTGC
* * *
1164757 TCGGTGTTGTTGGAGTCCCGGTTGTCGGTGTTGTCGGAGTACCGGTCG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGTCG
* *
1164805 TCGGCGTTGTTGGAATTCCGGTCGTCGGCGTTGTCGGAGTACCGGTCG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGTCG
*
1164853 TCGGCGTTGTTGGAGTTCCGGTGGTCGGTGTTG
1 TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTG
1164886 AGCTTGAGCC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.06, C:0.19, G:0.42, T:0.33
Consensus pattern (48 bp):
TCGGCGTTGTTGGAGTTCCGGTCGTCGGTGTTGTCGGAGTACCGGTCG
Found at i:1164844 original size:72 final size:73
Alignment explanation
Indices: 1164699--1164885 Score: 207
Period size: 72 Copynumber: 2.5 Consensus size: 73
1164689 GGTGGTTGTG
* ** *
1164699 CCGGTTGTCGGTGTTGTTGGAGTCCCCATGGTCGGCGTTGTTGAAGGAATACCCGTGCTCGGTGT
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTT--AGGAATACCCGTGCTCGGCGT
* *
1164764 TGTTGGAGTC
64 TGTCGGAGTA
* * * *
1164774 CCGGTTGTCGGTGTTGTCGGAGTACCGGTCGTCGGCGTTGTT-GGAATTCCGGT-CGTCGGCGTT
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTTAGGAATACCCGTGC-TCGGCGTT
1164837 GTCGGAGTA
65 GTCGGAGTA
* * * *
1164846 CCGGTCGTCGGCGTTGTTGGAGTTCCGGTGGTCGGTGTTG
1 CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTG
1164886 AGCTTGAGCC
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
71 1 0.01
72 57 0.60
75 37 0.39
ACGTcount: A:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (73 bp):
CCGGTTGTCGGTGTTGTTGGAGTACCGGTGGTCGGCGTTGTTAGGAATACCCGTGCTCGGCGTTG
TCGGAGTA
Found at i:1166481 original size:30 final size:30
Alignment explanation
Indices: 1166445--1166504 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1166435 GTAGTTCCAT
*
1166445 AGGTCGCCGTGTGCTCCTAGAAACCTATGG
1 AGGTCGCCATGTGCTCCTAGAAACCTATGG
* *
1166475 AGGTCGCCATGTGCTCGTAGAGACCTATGG
1 AGGTCGCCATGTGCTCCTAGAAACCTATGG
1166505 TTGTCACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (30 bp):
AGGTCGCCATGTGCTCCTAGAAACCTATGG
Found at i:1169048 original size:29 final size:29
Alignment explanation
Indices: 1168853--1169035 Score: 320
Period size: 29 Copynumber: 6.4 Consensus size: 29
1168843 GAACGCTTGG
1168853 ATGAGAATTGGA--CT-TTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
* *
1168879 ATGAGAATTGAACTAT-TTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
1168907 ATGAGAATTGGACTCTCTTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
1168936 ATGAGAATTGGACTCTCTTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
1168965 ATGAGAATTGGACTCTCTTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
1168994 ATGAGAATTGGACTCTCTTTTTTTAATTA
1 ATGAGAATTGGACTCTCTTTTTTTAATTA
1169023 ATGAGAATTGGAC
1 ATGAGAATTGGAC
1169036 CTAATTATAT
Statistics
Matches: 150, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
26 11 0.07
28 27 0.18
29 112 0.75
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (29 bp):
ATGAGAATTGGACTCTCTTTTTTTAATTA
Found at i:1169885 original size:111 final size:111
Alignment explanation
Indices: 1169691--1170023 Score: 576
Period size: 111 Copynumber: 3.0 Consensus size: 111
1169681 TGGAAATCAT
* *
1169691 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
1169756 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
1169802 ATATCTCGACACTTTACTGATATGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
1169867 TAATTAGTTGATTTATTTAATACATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
1169913 ATATCTCGATACTTTACTGATACGATAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
1169978 TAATTAATTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
1170024 TTTTTGTAAT
Statistics
Matches: 210, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 210 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:1172703 original size:18 final size:18
Alignment explanation
Indices: 1172680--1172725 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
1172670 AACATTCCCA
1172680 GTAATCTTATTCCCACCG
1 GTAATCTTATTCCCACCG
* *
1172698 GTAATCTCATTCCCACTG
1 GTAATCTTATTCCCACCG
1172716 GTAATCTTAT
1 GTAATCTTAT
1172726 ATTCCGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (18 bp):
GTAATCTTATTCCCACCG
Found at i:1174514 original size:3 final size:3
Alignment explanation
Indices: 1174506--1174534 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1174496 TACTGTACTT
1174506 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1174535 TTTGCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1180410 original size:24 final size:24
Alignment explanation
Indices: 1180374--1180440 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
1180364 AAAGTTTAGG
*
1180374 TTTT-TTTTT-AAAAAATTATGAA
1 TTTTATTTTTAAAAAAATTATAAA
* *
1180396 TTTTATTTTTAAAAATATAATAAA
1 TTTTATTTTTAAAAAAATTATAAA
1180420 TTTTATTTTTTAAAAAAATTA
1 TTTTA-TTTTTAAAAAAATTA
1180441 AAAGAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 4 0.11
23 5 0.14
24 15 0.41
25 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
TTTTATTTTTAAAAAAATTATAAA
Found at i:1180814 original size:30 final size:30
Alignment explanation
Indices: 1180778--1180847 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
1180768 TCAAAGTATT
1180778 AAATATAAATTAATTTTATATTAAAATTGA
1 AAATATAAATTAATTTTATATTAAAATTGA
* *
1180808 AAATATAAATTCATTTTATATTAAGATTGA
1 AAATATAAATTAATTTTATATTAAAATTGA
*
1180838 AAATAAAAAT
1 AAATATAAAT
1180848 ATTTTACTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATATAAATTAATTTTATATTAAAATTGA
Found at i:1181244 original size:5 final size:5
Alignment explanation
Indices: 1181234--1181260 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1181224 TTCACCTAGA
1181234 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1181261 CATTGAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:1183687 original size:2 final size:2
Alignment explanation
Indices: 1183680--1183757 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1183670 AATCACCAGG
1183680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1183722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1183758 TGGTACATTC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1183901 original size:31 final size:31
Alignment explanation
Indices: 1183866--1183933 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
1183856 ATGGTTTCTT
*
1183866 TGAATGTGACATTATGTTTGATAACTGGCTC
1 TGAATGTGACATGATGTTTGATAACTGGCTC
1183897 TGAATGTGACATGATGTTTGATAACTGGCTC
1 TGAATGTGACATGATGTTTGATAACTGGCTC
1183928 TGAATG
1 TGAATG
1183934 ATTCAGAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (31 bp):
TGAATGTGACATGATGTTTGATAACTGGCTC
Found at i:1185166 original size:32 final size:32
Alignment explanation
Indices: 1185130--1185193 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1185120 TAAATAAGAT
1185130 TTCTTATATGAGCAAAT-TCAAAAAATATTAAA
1 TTCTTATATGAGCAAATGT-AAAAAATATTAAA
* * *
1185162 TTCTTATTTGATCAAATGTGAAAAATATTAAA
1 TTCTTATATGAGCAAATGTAAAAAATATTAAA
1185194 CACCAGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (32 bp):
TTCTTATATGAGCAAATGTAAAAAATATTAAA
Found at i:1193260 original size:2 final size:2
Alignment explanation
Indices: 1193253--1193286 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1193243 TGCACCTTTC
*
1193253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1193287 CCACGCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1193613 original size:30 final size:30
Alignment explanation
Indices: 1193554--1193685 Score: 221
Period size: 30 Copynumber: 4.4 Consensus size: 30
1193544 CCCGAAGGAC
* *
1193554 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1193583 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1193613 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1193643 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1193673 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1193686 CCGAAGAACC
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 19 0.19
30 79 0.81
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1193702 original size:60 final size:60
Alignment explanation
Indices: 1193554--1193702 Score: 210
Period size: 60 Copynumber: 2.5 Consensus size: 60
1193544 CCCGAAGGAC
**
1193554 CTATCCAGAGGTCACAAAG-ACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * *
1193613 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * *
1193673 CTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCACAAAGAACCTAGGTAA
1193703 ACTGTCCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 18 0.23
60 61 0.77
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (60 bp):
CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:1193781 original size:63 final size:61
Alignment explanation
Indices: 1193668--1193796 Score: 188
Period size: 63 Copynumber: 2.1 Consensus size: 61
1193658 AAAGATCCTC
* *
1193668 GGTAACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
* *
1193729 GGTATACTGTCCATATGTCTCGAA-AGACATAGGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGTA-ACTGTCCATAGGTCCCGAAGA-ACATAGGT-AAACTGTCCATATGTTCCGTAGAACATA
1193792 GGTAA
1 GGTAA
1193797 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 31 0.51
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (61 bp):
GGTAACTGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCCGTAGAACATA
Found at i:1193791 original size:32 final size:31
Alignment explanation
Indices: 1193671--1193798 Score: 152
Period size: 31 Copynumber: 4.1 Consensus size: 31
1193661 GATCCTCGGT
* * * *
1193671 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
*
1193702 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
1193733 TACTGTCCATATG-TCTCG-AAAGACATAGGTAA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGT-A
1193765 AACTGTCCATATGTTCCGTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
1193796 AAC
1 AAC
1193799 CCTCGACTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.05
31 51 0.62
32 23 0.28
33 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:1194323 original size:19 final size:21
Alignment explanation
Indices: 1194281--1194323 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1194271 TTCATAATCA
1194281 CATATTCATATAGTTTATTAT
1 CATATTCATATAGTTTATTAT
*
1194302 CATA-TCATATGGTTTA-TAT
1 CATATTCATATAGTTTATTAT
1194321 CAT
1 CAT
1194324 CATAACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.49
Consensus pattern (21 bp):
CATATTCATATAGTTTATTAT
Found at i:1194332 original size:22 final size:20
Alignment explanation
Indices: 1194287--1194333 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
1194277 ATCACATATT
*
1194287 CATATAGTTTATTATCATAT
1 CATATAGTTTATTATCATAA
*
1194307 CATATGGTTTATATCATCATAA
1 CATATAGTTTAT-T-ATCATAA
1194329 CATAT
1 CATAT
1194334 CACATATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 1 0.04
22 11 0.48
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (20 bp):
CATATAGTTTATTATCATAA
Found at i:1197909 original size:2 final size:2
Alignment explanation
Indices: 1197902--1197939 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1197892 CGCACCTTTC
*
1197902 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1197940 CCACACATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1198225 original size:30 final size:30
Alignment explanation
Indices: 1198166--1198297 Score: 212
Period size: 30 Copynumber: 4.4 Consensus size: 30
1198156 CCCGAAGGAC
* *
1198166 CTATCCAGAGGTCAAAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1198195 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
1198225 CTATCCAGAGGTCATAAAGATCATCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1198255 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
1198285 CTGTCCATAGGTC
1 CTATCCAGAGGTC
1198298 CCGAAGAACC
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
29 19 0.20
30 77 0.80
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Done.