Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 32 of 310
Found at i:8698280 original size:15 final size:16
Alignment explanation
Indices: 8698260--8698289 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8698250 CGAATAGCAT
8698260 TGTAC-TTGCTCACAA
1 TGTACTTTGCTCACAA
8698275 TGTACTTTGCTCACA
1 TGTACTTTGCTCACA
8698290 TAACATGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (16 bp):
TGTACTTTGCTCACAA
Found at i:8704852 original size:3 final size:3
Alignment explanation
Indices: 8704844--8705707 Score: 1728
Period size: 3 Copynumber: 288.0 Consensus size: 3
8704834 AACTAAAACG
8704844 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8704892 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8704940 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8704988 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705036 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705084 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705132 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705180 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705228 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705276 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705324 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705372 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705420 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705468 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705516 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705564 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705612 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705660 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8705708 CTACTGATGA
Statistics
Matches: 861, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 861 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8708967 original size:16 final size:16
Alignment explanation
Indices: 8708942--8708981 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8708932 AAGTCTTAAG
*
8708942 AAAATTAAATAAAACA
1 AAAATAAAATAAAACA
*
8708958 AAAATAAAATAAAATA
1 AAAATAAAATAAAACA
8708974 AAAATAAA
1 AAAATAAA
8708982 TAGACTCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAACA
Found at i:8711863 original size:3 final size:3
Alignment explanation
Indices: 8711855--8711890 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
8711845 ACGAACTAAG
*
8711855 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8711891 TCAATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8715181 original size:46 final size:45
Alignment explanation
Indices: 8715114--8715288 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
8715104 TGTAACCCGC
*
8715114 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
*
8715160 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGTAT
* *** * * * *
8715206 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGTAT
*
8715253 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
8715289 ATTCCCAAAC
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.65
47 35 0.32
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGTAT
Found at i:8715234 original size:93 final size:93
Alignment explanation
Indices: 8715122--8715290 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
8715112 GCCCATAAGT
* * *
8715122 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8715187 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
8715215 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8715280 CGAGTTCGGAT
66 CGAGCTCGGAT
8715291 TCCCAAACAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:8715308 original size:46 final size:46
Alignment explanation
Indices: 8715119--8715308 Score: 140
Period size: 46 Copynumber: 4.1 Consensus size: 46
8715109 CCCGCCCATA
* * ** * *
8715119 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATTCCCATACATCCT
* * *
8715165 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCCA--TACATC-CT
* ** * *
8715214 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATTCCCATACATCCT
*
8715258 AGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCCATACATCCT
8715304 AGTGA
1 AGTGA
8715309 CATGTCACTT
Statistics
Matches: 114, Mismatches: 19, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
44 12 0.11
45 2 0.02
46 66 0.58
47 31 0.27
49 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATTCCCATACATCCT
Found at i:8720280 original size:38 final size:38
Alignment explanation
Indices: 8720229--8720305 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
8720219 TGGGCTCTGG
*
8720229 CCCAAATGTCTTACCCGAAGCCTAACCTATTTTTAAAA
1 CCCAAATATCTTACCCGAAGCCTAACCTATTTTTAAAA
8720267 CCCAAATATCTTACCCGAAGCCTAACCTATTTTTAAAA
1 CCCAAATATCTTACCCGAAGCCTAACCTATTTTTAAAA
8720305 C
1 C
8720306 AGGCCTTACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.30, G:0.06, T:0.29
Consensus pattern (38 bp):
CCCAAATATCTTACCCGAAGCCTAACCTATTTTTAAAA
Found at i:8721849 original size:3 final size:3
Alignment explanation
Indices: 8721841--8721885 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
8721831 AGTATCTCCA
* *
8721841 CTT CTT CTT CTT CTT CCT CTT CTT ATT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8721886 GGTTTGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:8722650 original size:20 final size:21
Alignment explanation
Indices: 8722615--8722654 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8722605 GTGTTTTATT
8722615 TAATTTATAAAAATAAAAATA
1 TAATTTATAAAAATAAAAATA
*
8722636 TAATTT-TATAAATAAAAAT
1 TAATTTATAAAAATAAAAAT
8722655 TCATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTTATAAAAATAAAAATA
Found at i:8726159 original size:34 final size:35
Alignment explanation
Indices: 8726121--8726221 Score: 159
Period size: 35 Copynumber: 2.9 Consensus size: 35
8726111 AATATTCACC
* * *
8726121 AAAATGAAACAAAAATGATAAGGCTTAAAATTA-A
1 AAAATGAAACAAAAATAATAAGACTTAAAACTACA
8726155 AAAATGAAACAAAAATAATAAGACTTAAAACTACA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTACA
*
8726190 AAAATGAAACAAAAATAATAAGATTTAAAACT
1 AAAATGAAACAAAAATAATAAGACTTAAAACT
8726222 CTAACAACAG
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 30 0.48
35 32 0.52
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (35 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTACA
Found at i:8726200 original size:35 final size:34
Alignment explanation
Indices: 8726121--8726281 Score: 157
Period size: 34 Copynumber: 4.7 Consensus size: 34
8726111 AATATTCACC
* * *
8726121 AAAATGAAACAAAAATGATAAGGCTTAAAATTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
8726155 AAAATGAAACAAAAATAATAAGACTTAAAACTACA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTA-A
*
8726190 AAAATGAAACAAAAATAATAAGATTTAAAACTCTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAA--CTAA
* **** *
8726226 CAACA-GAAACACTGCTATTAAGACTTAAAACTAA
1 -AAAATGAAACAAAAATAATAAGACTTAAAACTAA
* *
8726260 AAAATG-GA-AAAAATTATAAGAC
1 AAAATGAAACAAAAATAATAAGAC
8726282 CTATAATTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
32 8 0.08
33 4 0.04
34 35 0.34
35 30 0.29
36 20 0.19
37 6 0.06
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.20
Consensus pattern (34 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTAA
Found at i:8726353 original size:40 final size:40
Alignment explanation
Indices: 8726268--8726354 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
8726258 AAAAAATGGA
* * *
8726268 AAAAATTATAAGACCTATAATTAATAATACAAAAGATTCAT
1 AAAAA-TATAAAACCTATAATTAACAATACAAAAGATTCAC
* * * * *
8726309 AAAAATATAAAACTTATTATTAACACTACAAAATATTTAC
1 AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
8726349 AAAAAT
1 AAAAAT
8726355 TCAAATAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 33 0.87
41 5 0.13
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.30
Consensus pattern (40 bp):
AAAAATATAAAACCTATAATTAACAATACAAAAGATTCAC
Found at i:8737677 original size:15 final size:16
Alignment explanation
Indices: 8737652--8737700 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 16
8737642 TAGTTTACTA
8737652 TTACTTTTTTTCTTTTT
1 TTAC-TTTTTTCTTTTT
8737669 TT-CTTTTTTCTTTTT
1 TTACTTTTTTCTTTTT
8737684 TTAACTTTTCTTCTTTT
1 TT-ACTTTT-TTCTTTT
8737701 CTAAGGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 14 0.48
16 1 0.03
17 7 0.24
18 7 0.24
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTACTTTTTTCTTTTT
Found at i:8737702 original size:8 final size:8
Alignment explanation
Indices: 8737655--8737700 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
8737645 TTTACTATTA
8737655 CTTTTTTT
1 CTTTTTTT
8737663 CTTTTTTT
1 CTTTTTTT
8737671 C-TTTTTT
1 CTTTTTTT
8737678 CTTTTTTT
1 CTTTTTTT
*
8737686 AACTTTTCTT
1 --CTTTTTTT
8737696 CTTTT
1 CTTTT
8737701 CTAAGGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 20 0.59
10 7 0.21
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.80
Consensus pattern (8 bp):
CTTTTTTT
Found at i:8747522 original size:17 final size:17
Alignment explanation
Indices: 8747500--8747536 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
8747490 AATCTATTCA
*
8747500 TCAAAAGATACAATTGT
1 TCAAAAGATACAACTGT
8747517 TCAAAAGATACAACTGT
1 TCAAAAGATACAACTGT
8747534 TCA
1 TCA
8747537 TCAAGAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (17 bp):
TCAAAAGATACAACTGT
Found at i:8757188 original size:18 final size:18
Alignment explanation
Indices: 8757157--8757201 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
8757147 GTCAATCATT
8757157 TATTCAGTAACAGTCAAA
1 TATTCAGTAACAGTCAAA
* * *
8757175 TATTCGGTAGCAGTCAAT
1 TATTCAGTAACAGTCAAA
*
8757193 TTTTCAGTA
1 TATTCAGTA
8757202 CCTTTATTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
TATTCAGTAACAGTCAAA
Found at i:8757997 original size:16 final size:17
Alignment explanation
Indices: 8757976--8758008 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8757966 TCTTTTTCTT
*
8757976 TTCTTTTGTTTC-TTTA
1 TTCTTTTATTTCATTTA
8757992 TTCTTTTATTTCATTTA
1 TTCTTTTATTTCATTTA
8758009 CTTTATATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (17 bp):
TTCTTTTATTTCATTTA
Found at i:8765363 original size:52 final size:53
Alignment explanation
Indices: 8765298--8765410 Score: 147
Period size: 53 Copynumber: 2.2 Consensus size: 53
8765288 ACATGCCTGC
* ** * *
8765298 TATTCAGTTCAATATGCTAAGCTAA-GACAACTATAGGAACATGAAAACCCGT
1 TATTCAGTACAATACACTAAACTAACGAAAACTATAGGAACATGAAAACCCGT
* *
8765350 TATTCAGTACAATACACTAAATTAACGAAAACTATAGGAACATGAAAACCGGT
1 TATTCAGTACAATACACTAAACTAACGAAAACTATAGGAACATGAAAACCCGT
*
8765403 TGTTCAGT
1 TATTCAGT
8765411 TTGATACACC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
52 20 0.38
53 32 0.62
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.26
Consensus pattern (53 bp):
TATTCAGTACAATACACTAAACTAACGAAAACTATAGGAACATGAAAACCCGT
Found at i:8771187 original size:48 final size:48
Alignment explanation
Indices: 8771105--8771198 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
8771095 TTTCTTGGCT
* *
8771105 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
8771153 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
8771199 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:8772633 original size:28 final size:28
Alignment explanation
Indices: 8772593--8772650 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
8772583 CCAAGCTTGT
* *
8772593 CTTTCCCTAGACCAAGCTTGACCATGGA
1 CTTTCCCTAGACCAAGCTTCACCACGGA
8772621 CTTTCCCTAGACCAAGCTTCACCACGGA
1 CTTTCCCTAGACCAAGCTTCACCACGGA
8772649 CT
1 CT
8772651 CAACTACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (28 bp):
CTTTCCCTAGACCAAGCTTCACCACGGA
Found at i:8773738 original size:48 final size:48
Alignment explanation
Indices: 8773649--8773742 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
8773639 TTTCTTGGCT
* * *
8773649 TAAAAACGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
8773697 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
8773743 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:8776514 original size:3 final size:3
Alignment explanation
Indices: 8776508--8776725 Score: 58
Period size: 3 Copynumber: 72.3 Consensus size: 3
8776498 AAAATACAAC
* * *
8776508 AAT AAT AAT AGT AA- AAG ATAT AAT AACCT AAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * * *
8776554 AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* ** * *
8776598 AGT AAT AA- AAGT AAT GCT AAT AAT AAT AAT AAT AAT AAT -CT ATT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
8776642 AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT -AT ATT AGAT AAT AAT
1 AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * *
8776688 AGT AA- AAT AAT AAGT AAC AAT GAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
8776726 GTGATGAGAA
Statistics
Matches: 154, Mismatches: 42, Indels: 38
0.66 0.18 0.16
Matches are distributed among these distances:
2 17 0.11
3 117 0.76
4 17 0.11
5 3 0.02
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8776514 original size:22 final size:22
Alignment explanation
Indices: 8776463--8776523 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
8776453 ATAAGTAAAT
* *
8776463 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
8776484 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
8776506 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
8776524 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:8776746 original size:16 final size:16
Alignment explanation
Indices: 8776725--8776756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8776715 TTATAATAAT
8776725 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
8776741 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
8776757 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:8776890 original size:16 final size:15
Alignment explanation
Indices: 8776861--8776903 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
8776851 TATACGTATG
*
8776861 AAAAATAATGATAGT
1 AAAAATAATAATAGT
8776876 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
8776892 AATAATAATAAT
1 AAAAATAATAAT
8776904 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:8777006 original size:3 final size:3
Alignment explanation
Indices: 8776998--8777027 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8776988 ACACTACCAT
8776998 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8777028 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8777137 original size:3 final size:3
Alignment explanation
Indices: 8777123--8777153 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
8777113 AAATATACAC
8777123 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
8777154 ATAAAATGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8781781 original size:41 final size:42
Alignment explanation
Indices: 8781724--8781807 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
8781714 ATTAAAATAA
8781724 TTAGGAGTTTTTTTTA-TTTAGTTTTATAATTAGATTAGGAC
1 TTAGGAGTTTTTTTTATTTTAGTTTTATAATTAGATTAGGAC
*
8781765 TTAGGAGTTTTTTTTATTTTAGTTTTCTAATTAGATTAGGAC
1 TTAGGAGTTTTTTTTATTTTAGTTTTATAATTAGATTAGGAC
8781807 T
1 T
8781808 AGTTATAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 16 0.39
42 25 0.61
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.55
Consensus pattern (42 bp):
TTAGGAGTTTTTTTTATTTTAGTTTTATAATTAGATTAGGAC
Found at i:8789917 original size:15 final size:17
Alignment explanation
Indices: 8789897--8789929 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8789887 ACAAAAAGAC
8789897 AAAA-GGAAAA-GAAAA
1 AAAAGGGAAAATGAAAA
8789912 AAAAGGGAAAATGAAAA
1 AAAAGGGAAAATGAAAA
8789929 A
1 A
8789930 GTGACCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAGGGAAAATGAAAA
Found at i:8807790 original size:24 final size:23
Alignment explanation
Indices: 8807741--8807790 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
8807731 TGATTTAAAC
* * *
8807741 AAATATTTATATTTATATTATTA
1 AAATATTCATATTTATACTATAA
8807764 AAATATTCATATTTTATACTATAA
1 AAATATTCATA-TTTATACTATAA
8807788 AAA
1 AAA
8807791 ATTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTCATATTTATACTATAA
Found at i:8818119 original size:12 final size:12
Alignment explanation
Indices: 8818099--8818134 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
8818089 TGGGATATGC
*
8818099 AATGTATGAATG
1 AATGCATGAATG
8818111 AATGCATGAATG
1 AATGCATGAATG
8818123 AATGCATGAATG
1 AATGCATGAATG
8818135 TCAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:8822538 original size:24 final size:23
Alignment explanation
Indices: 8822489--8822538 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
8822479 TGATTTAAAC
* * *
8822489 AAATATTTATATTTATATTATTA
1 AAATATTCATATTTATACTATAA
8822512 AAATATTCATATTTTATACTATAA
1 AAATATTCATA-TTTATACTATAA
8822536 AAA
1 AAA
8822539 ATTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTCATATTTATACTATAA
Found at i:8833052 original size:29 final size:29
Alignment explanation
Indices: 8833019--8833074 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
8833009 AATAACAGTT
8833019 AATATTCTTTAGTAACAATCAATTGATTC
1 AATATTCTTTAGTAACAATCAATTGATTC
8833048 AATATTCTTTAGTAACAATCAATTGAT
1 AATATTCTTTAGTAACAATCAATTGAT
8833075 CTTTATTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (29 bp):
AATATTCTTTAGTAACAATCAATTGATTC
Found at i:8833124 original size:18 final size:18
Alignment explanation
Indices: 8833083--8833142 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
8833073 ATCTTTATTG
* * *
8833083 TTCAGTATCAGTCAGTCA
1 TTCAGTATTAATCAGTTA
8833101 -TCAGTATTAATCAGTTA
1 TTCAGTATTAATCAGTTA
* *
8833118 TTCAGTAATAATCATTTA
1 TTCAGTATTAATCAGTTA
8833136 TTCAGTA
1 TTCAGTA
8833143 ACAGTTGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (18 bp):
TTCAGTATTAATCAGTTA
Found at i:8833187 original size:18 final size:18
Alignment explanation
Indices: 8833108--8833193 Score: 54
Period size: 18 Copynumber: 4.9 Consensus size: 18
8833098 TCATCAGTAT
*
8833108 TAATCAGTTATTCAGTAA
1 TAATCAGTTATTCAATAA
* *
8833126 TAATCATTTATTCAGTAA
1 TAATCAGTTATTCAATAA
* * *
8833144 CAGT-TGCTTATTC---AA
1 TAATCAG-TTATTCAATAA
* *
8833159 TAGTCAATTATTCAATAA
1 TAATCAGTTATTCAATAA
*
8833177 TAATCAGTTATTTAATA
1 TAATCAGTTATTCAATA
8833194 CCTTTATTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
15 11 0.21
18 41 0.79
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (18 bp):
TAATCAGTTATTCAATAA
Found at i:8834675 original size:20 final size:20
Alignment explanation
Indices: 8834652--8834719 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
8834642 GTTACTTGAT
8834652 TAATAAATATCTTTTATAAA
1 TAATAAATATCTTTTATAAA
* *
8834672 TAATAAATATC---TATTAG
1 TAATAAATATCTTTTATAAA
8834689 TAAT-AATATCTTTTATAAA
1 TAATAAATATCTTTTATAAA
*
8834708 TAGTAAATATCT
1 TAATAAATATCT
8834720 ATTAGTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.15
17 8 0.21
19 7 0.18
20 18 0.46
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (20 bp):
TAATAAATATCTTTTATAAA
Found at i:8834704 original size:36 final size:37
Alignment explanation
Indices: 8834652--8834734 Score: 141
Period size: 36 Copynumber: 2.2 Consensus size: 37
8834642 GTTACTTGAT
8834652 TAATAAATATCTTTTATAAATAATAAATATCTATTAG
1 TAATAAATATCTTTTATAAATAATAAATATCTATTAG
*
8834689 TAAT-AATATCTTTTATAAATAGTAAATATCTATTAG
1 TAATAAATATCTTTTATAAATAATAAATATCTATTAG
8834725 TAATTAAATA
1 TAA-TAAATA
8834735 CAAGTATTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
36 34 0.79
37 5 0.12
38 4 0.09
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (37 bp):
TAATAAATATCTTTTATAAATAATAAATATCTATTAG
Found at i:8834812 original size:4 final size:4
Alignment explanation
Indices: 8834803--8834836 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
8834793 CACATTTGTC
8834803 TTTA TTTA TTTTA TTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA
8834837 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:8834817 original size:9 final size:8
Alignment explanation
Indices: 8834803--8834836 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
8834793 CACATTTGTC
8834803 TTTATTTA
1 TTTATTTA
8834811 TTTTATTTA
1 -TTTATTTA
8834820 TTTATTTA
1 TTTATTTA
8834828 CTTTATTTA
1 -TTTATTTA
8834837 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:8834821 original size:13 final size:13
Alignment explanation
Indices: 8834802--8834836 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
8834792 ACACATTTGT
8834802 CTTTATTTATTTTA
1 CTTTATTTA-TTTA
8834816 -TTTATTTATTTA
1 CTTTATTTATTTA
8834828 CTTTATTTA
1 CTTTATTTA
8834837 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:8837307 original size:13 final size:14
Alignment explanation
Indices: 8837289--8837319 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8837279 CTATCACATC
8837289 TTTTA-TATTTTCT
1 TTTTATTATTTTCT
8837302 TTTTATTATTTTCT
1 TTTTATTATTTTCT
8837316 TTTT
1 TTTT
8837320 TTTCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTATTTTCT
Found at i:8837820 original size:17 final size:18
Alignment explanation
Indices: 8837798--8837832 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8837788 AGATTGGGCG
8837798 TGTGGGT-AACACGGGTA
1 TGTGGGTCAACACGGGTA
8837815 TGTGGGTCAACACGGGTA
1 TGTGGGTCAACACGGGTA
8837833 CGTCACATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.23, C:0.14, G:0.40, T:0.23
Consensus pattern (18 bp):
TGTGGGTCAACACGGGTA
Found at i:8841063 original size:40 final size:40
Alignment explanation
Indices: 8841035--8841180 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
8841025 AAAGCATTCT
* * *
8841035 TTTCAGTGGATTCAGTATGTATGGCTCGAAAGGGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGAGCATACG
* * **
8841075 TTTCAGTAGATTCAGTAGGTGTGGCTCAAAATCGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGAGCATACG
* * * * * *
8841115 TTTTAGTAGATTCAGTAAGCATGGCTCAAAAGTGCATACA
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGAGCATACG
*
8841155 TTTCAGTAGATTCAATAGGTATGGCT
1 TTTCAGTAGATTCAGTAGGTATGGCT
8841181 TGACTGAGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGAGCATACG
Found at i:8861127 original size:21 final size:21
Alignment explanation
Indices: 8861101--8861145 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
8861091 GTGCACACTA
*
8861101 CTATAATTTGTCAATTCATAT
1 CTATAATTCGTCAATTCATAT
8861122 CTATAATTCGTCAATTCATAT
1 CTATAATTCGTCAATTCATAT
8861143 CTA
1 CTA
8861146 GAAGTACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (21 bp):
CTATAATTCGTCAATTCATAT
Found at i:8868438 original size:35 final size:35
Alignment explanation
Indices: 8868388--8868456 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
8868378 TACTTTTTGA
*
8868388 ATTTAAAGATCCACTTTCAAATTATATATAACAAC
1 ATTTAAAAATCCACTTTCAAATTATATATAACAAC
*
8868423 ATTTAAAAATTCACTTTCAAATTATATATAACAA
1 ATTTAAAAATCCACTTTCAAATTATATATAACAA
8868457 TGTAATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (35 bp):
ATTTAAAAATCCACTTTCAAATTATATATAACAAC
Found at i:8868556 original size:21 final size:18
Alignment explanation
Indices: 8868532--8868581 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
8868522 ATAAATTGTG
8868532 TTAAAAATTAAATTATAAGAA
1 TTAAAAATTAAA-T-TAA-AA
**
8868553 TTAAATTTTAAATTAAAA
1 TTAAAAATTAAATTAAAA
8868571 TTAAAAATTAA
1 TTAAAAATTAA
8868582 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 11 0.44
19 3 0.12
20 1 0.04
21 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TTAAAAATTAAATTAAAA
Found at i:8870227 original size:31 final size:31
Alignment explanation
Indices: 8870192--8870257 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
8870182 TTCCATTAGC
*
8870192 AAATTTGTAGTCAGCCTTTCTGCAATGTTAA
1 AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
* *
8870223 AAATTTGTAGTCAGTCTTTCTGAAATGTTAC
1 AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
8870254 AAAT
1 AAAT
8870258 ATAGTTTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (31 bp):
AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
Found at i:8874618 original size:3 final size:3
Alignment explanation
Indices: 8874604--8874639 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
8874594 TTATCTCCAT
8874604 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8874640 TCTTTTACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8881670 original size:5 final size:5
Alignment explanation
Indices: 8881656--8881742 Score: 57
Period size: 5 Copynumber: 16.6 Consensus size: 5
8881646 GATGGGGTAG
* * * * *
8881656 GATAT CATAT GATAT GCTAT GATAC GTTAT GAGATAT GATAT GATAT GATAC
1 GATAT GATAT GATAT GATAT GATAT GATAT --GATAT GATAT GATAT GATAT
* * * *
8881708 GAAATGT GCTAT GACAT GATAT GATAA GATAT GAT
1 G--ATAT GATAT GATAT GATAT GATAT GATAT GAT
8881743 GTAAGATAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
5 53 0.88
7 7 0.12
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (5 bp):
GATAT
Found at i:8881703 original size:27 final size:27
Alignment explanation
Indices: 8881662--8881733 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
8881652 GTAGGATATC
* **
8881662 ATATGATATGCTATGATACGTTATGAG
1 ATATGATATGATATGATACGAAATGAG
*
8881689 ATATGATATGATATGATACGAAATGTG
1 ATATGATATGATATGATACGAAATGAG
* *
8881716 CTATGACATGATATGATA
1 ATATGATATGATATGATA
8881734 AGATATGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (27 bp):
ATATGATATGATATGATACGAAATGAG
Found at i:8882589 original size:19 final size:18
Alignment explanation
Indices: 8882557--8882593 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
8882547 GCCATTTTCT
8882557 GTTAAAAACGAAAAAAAA
1 GTTAAAAACGAAAAAAAA
8882575 GTTAAAAACGAAAAAAAA
1 GTTAAAAACGAAAAAAAA
8882593 G
1 G
8882594 GGGGTTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.11
Consensus pattern (18 bp):
GTTAAAAACGAAAAAAAA
Found at i:8886525 original size:14 final size:14
Alignment explanation
Indices: 8886503--8886540 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
8886493 TAATTTTAAT
*
8886503 TAAACTTTAAATCA
1 TAAATTTTAAATCA
*
8886517 TAAATTTTAAATCC
1 TAAATTTTAAATCA
8886531 TAAATTTTAA
1 TAAATTTTAA
8886541 TTAAATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATTTTAAATCA
Found at i:8898171 original size:6 final size:6
Alignment explanation
Indices: 8898160--8898186 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8898150 TGTTGTAATC
8898160 ATTTTA ATTTTA ATTTTA ATTTTA ATT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATT
8898187 AATGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:8902580 original size:50 final size:50
Alignment explanation
Indices: 8902504--8902605 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
8902494 TGTATAGGAG
*
8902504 AAGAAGATGATTGAACTTGCACTGGTGGCTTCTTCCTTGAGTAAACCAGT
1 AAGAAGATGATTGAACTTGCACTGGTGCCTTCTTCCTTGAGTAAACCAGT
*
8902554 AAGAAGATGATTGAACTTGCATTGGTGCCTTCTTCCTTGAGTAAACCAGT
1 AAGAAGATGATTGAACTTGCACTGGTGCCTTCTTCCTTGAGTAAACCAGT
8902604 AA
1 AA
8902606 CGGACGAGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (50 bp):
AAGAAGATGATTGAACTTGCACTGGTGCCTTCTTCCTTGAGTAAACCAGT
Found at i:8915286 original size:21 final size:20
Alignment explanation
Indices: 8915262--8915304 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8915252 TAACTAGTTT
8915262 AATTGAAAAGAT-TATTAAAAA
1 AATTGAAAA-ATATA-TAAAAA
*
8915283 AATTTAAAAATATATAAAAA
1 AATTGAAAAATATATAAAAA
8915303 AA
1 AA
8915305 CAGAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTGAAAAATATATAAAAA
Found at i:8916258 original size:16 final size:16
Alignment explanation
Indices: 8916230--8916269 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
8916220 ATATATATGA
8916230 AATTTTGATTTTGAT-T
1 AATTTT-ATTTTGATCT
8916246 CAATTTTATTTTGATCT
1 -AATTTTATTTTGATCT
8916263 AATTTTA
1 AATTTTA
8916270 CATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (16 bp):
AATTTTATTTTGATCT
Found at i:8918426 original size:3 final size:3
Alignment explanation
Indices: 8918418--8918442 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8918408 TTTTAAAATT
8918418 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
8918443 ATACAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8918666 original size:11 final size:10
Alignment explanation
Indices: 8918643--8918676 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
8918633 ATAGTAAGTG
8918643 TTTTAAATTT
1 TTTTAAATTT
8918653 TTTTAAAGTTT
1 TTTTAAA-TTT
8918664 TTTTAAATTT
1 TTTTAAATTT
8918674 TTT
1 TTT
8918677 AAAAAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:8921510 original size:28 final size:27
Alignment explanation
Indices: 8921479--8921536 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
8921469 GAACTGCTTT
*
8921479 TTTAAAA-AATTAAAAATTATTAAAATTA
1 TTTAAAAGAA-TAAAAATTA-TAAAAATA
8921507 TTTAAAAGAATAAAAATTATAAAAATA
1 TTTAAAAGAATAAAAATTATAAAAATA
8921534 TTT
1 TTT
8921537 TTTAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 10 0.36
28 16 0.57
29 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
TTTAAAAGAATAAAAATTATAAAAATA
Found at i:8921922 original size:18 final size:19
Alignment explanation
Indices: 8921880--8921922 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
8921870 AATTAACGCA
8921880 TAATTT-ATTATAAAACTT
1 TAATTTAATTATAAAACTT
*
8921898 TAA-TTAATTATCAAA-TT
1 TAATTTAATTATAAAACTT
8921915 TAATTTAA
1 TAATTTAA
8921923 AAAGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTTAATTATAAAACTT
Found at i:8925920 original size:68 final size:68
Alignment explanation
Indices: 8925781--8925947 Score: 176
Period size: 68 Copynumber: 2.5 Consensus size: 68
8925771 GTGAACTTCT
* * * * * * *
8925781 TATGTTGCCACAGCCTACCTATGGTCTTACATAGTATTAACCTATGTTTACTGTCCTACTGGACT
1 TATGTTACCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCTACTAGACT
8925846 CTA
66 CTA
* * * * *
8925849 TATGTTATCATAGTCTAGCTATGGTTTTACACAATATTGACCCATGTTTACTGTCTTAGC-AGAC
1 TATGTTACCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCTA-CTAGAC
8925913 T-TCA
65 TCT-A
* *
8925917 TATGTTGCCATAGCCTAGTTATGGTCTTACA
1 TATGTTACCATAGCCTAGCTATGGTCTTACA
8925948 TATCAGATCT
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
67 1 0.01
68 78 0.98
69 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (68 bp):
TATGTTACCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCTACTAGACT
CTA
Found at i:8927997 original size:17 final size:16
Alignment explanation
Indices: 8927975--8928007 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
8927965 ATATGGTCTT
8927975 TTAACCAACTCATATAA
1 TTAACCAACTCA-ATAA
8927992 TTAACCAACTCAATAA
1 TTAACCAACTCAATAA
8928008 ATAATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACCAACTCAATAA
Found at i:8929889 original size:5 final size:5
Alignment explanation
Indices: 8929879--8929914 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
8929869 GACCAAAATC
8929879 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA A
8929915 TTGGTAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:8961897 original size:26 final size:26
Alignment explanation
Indices: 8961866--8961916 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
8961856 TAGAAGTACA
*
8961866 TAATTTTA-CTTTCTTATTCTACAAGT
1 TAATTTTAGCTTT-TTAGTCTACAAGT
8961892 TAATTTTAGCTTTTTAGTCTACAAG
1 TAATTTTAGCTTTTTAGTCTACAAG
8961917 AATAAAGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (26 bp):
TAATTTTAGCTTTTTAGTCTACAAGT
Found at i:8967084 original size:102 final size:102
Alignment explanation
Indices: 8966908--8967098 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 102
8966898 CTGGTTTCAC
* * * * * * * * *
8966908 TATCATCTAATTTCTTTAAATTATTACGCTAGAATTCTTTTCATTTTCAAAGAGATACAGAAGCA
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
*
8966973 TAAATACGGCTAAATGGCAAGAACATGACTGCTAGTT
66 TAAATACGGCTAAATGACAAGAACATGACTGCTAGTT
* * *
8967010 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAATGAGATAAAGATGTA
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
8967075 TAAATACGGCTAAATGACAAGAAC
66 TAAATACGGCTAAATGACAAGAAC
8967099 GTTCATGTAG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 76 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (102 bp):
TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
TAAATACGGCTAAATGACAAGAACATGACTGCTAGTT
Found at i:8969336 original size:14 final size:14
Alignment explanation
Indices: 8969313--8969351 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
8969303 TTTTTCAACA
8969313 TTTTACCTTTTCTT
1 TTTTACCTTTTCTT
* *
8969327 TTTTAACTTTACTT
1 TTTTACCTTTTCTT
8969341 TTTTACCTTTT
1 TTTTACCTTTT
8969352 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACCTTTTCTT
Found at i:8973808 original size:19 final size:19
Alignment explanation
Indices: 8973783--8973835 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
8973773 ATGAATAATT
*
8973783 TAAAATTTATAAAAAATCA
1 TAAAAATTATAAAAAATCA
*
8973802 -AAAAATTATAAAAATTCA
1 TAAAAATTATAAAAAATCA
8973820 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
8973836 ATAGTATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATTATAAAAAATCA
Found at i:8973814 original size:9 final size:9
Alignment explanation
Indices: 8973779--8973834 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
8973769 GTTAATGAAT
8973779 AATT-TAAA
1 AATTATAAA
*
8973787 ATTTATAAAA
1 AATTAT-AAA
*
8973797 AATCA-AAA
1 AATTATAAA
8973805 AATTATAAA
1 AATTATAAA
8973814 AATTCATAAA
1 AATT-ATAAA
8973824 AATTATAAA
1 AATTATAAA
8973833 AA
1 AA
8973835 AATAGTATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 10 0.25
9 15 0.38
10 15 0.38
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:8973933 original size:31 final size:31
Alignment explanation
Indices: 8973898--8973959 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
8973888 ATATTTTAGT
8973898 TATTAAAAAATAGTAATTTAA-T-TTTTTAAAA
1 TATTAAAAAATA--AATTTAATTCTTTTTAAAA
* *
8973929 TATTAATAATTAAATTTAATTCTTTTTAAAA
1 TATTAAAAAATAAATTTAATTCTTTTTAAAA
8973960 GACTACAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.26
30 1 0.04
31 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTAAAAAATAAATTTAATTCTTTTTAAAA
Found at i:8977646 original size:39 final size:39
Alignment explanation
Indices: 8977601--8977686 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
8977591 AACTTAATGT
* *
8977601 CTAGCAGGCCTCGTGTCGGTGAT-AGATTCAGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAG-TTCAGGTTTATAC
* *
8977640 CTAGCAGGCCTCATGCCGGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAGTTCAGGTTTATAC
8977679 CTAGCAGG
1 CTAGCAGG
8977687 AAAATTGCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 40 0.95
40 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCATGCCGGTGATAAGTTCAGGTTTATAC
Found at i:8979622 original size:5 final size:5
Alignment explanation
Indices: 8979612--8979643 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
8979602 TCAAGTGTGA
8979612 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8979644 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8979637 original size:9 final size:9
Alignment explanation
Indices: 8979613--8979643 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8979603 CAAGTGTGAA
8979613 AAATAAAAT
1 AAATAAAAT
8979622 AAAATAAAAT
1 -AAATAAAAT
8979632 AAATAAAAT
1 AAATAAAAT
8979641 AAA
1 AAA
8979644 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:8982317 original size:15 final size:15
Alignment explanation
Indices: 8982297--8982332 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
8982287 ACAATCTATT
8982297 AAACTCATCAGAACA
1 AAACTCATCAGAACA
8982312 AAACTCATCAGAACA
1 AAACTCATCAGAACA
8982327 AAACTC
1 AAACTC
8982333 TAAGCCATTG
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:0.53, C:0.28, G:0.06, T:0.14
Consensus pattern (15 bp):
AAACTCATCAGAACA
Found at i:8984084 original size:5 final size:5
Alignment explanation
Indices: 8984074--8984105 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
8984064 CAATTTGTGA
8984074 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8984106 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8984099 original size:9 final size:9
Alignment explanation
Indices: 8984075--8984105 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8984065 AATTTGTGAA
8984075 AAATAAAAT
1 AAATAAAAT
8984084 AAAATAAAAT
1 -AAATAAAAT
8984094 AAATAAAAT
1 AAATAAAAT
8984103 AAA
1 AAA
8984106 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:8990613 original size:23 final size:23
Alignment explanation
Indices: 8990595--8990648 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
8990585 GGTATACACG
8990595 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
8990618 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
8990640 TAC-TAATAA
1 TACATAATAA
8990649 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:8990629 original size:3 final size:3
Alignment explanation
Indices: 8990598--8990668 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
8990588 ATACACGTAC
* * * * *
8990598 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
8990645 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
8990669 CAAGGATATT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8991157 original size:18 final size:18
Alignment explanation
Indices: 8991130--8991167 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8991120 AGAAAAAAAA
*
8991130 AGAAGAGAGAGGGAAGAG
1 AGAAGAGAGAGAGAAGAG
*
8991148 AGAAGGGAGAGAGAAGAG
1 AGAAGAGAGAGAGAAGAG
8991166 AG
1 AG
8991168 GGGAATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (18 bp):
AGAAGAGAGAGAGAAGAG
Found at i:8991162 original size:11 final size:12
Alignment explanation
Indices: 8991131--8991163 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8991121 GAAAAAAAAA
8991131 GAAGAGAG-AGG
1 GAAGAGAGAAGG
8991142 GAAGAGAGAAGG
1 GAAGAGAGAAGG
8991154 G-AGAGAGAAG
1 GAAGAGAGAAG
8991164 AGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:9000162 original size:34 final size:32
Alignment explanation
Indices: 9000088--9000151 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
9000078 TAAGCAAAAA
9000088 AATGTTGGAATAAACATTATTGTGTGTTGAGT
1 AATGTTGGAATAAACATTATTGTGTGTTGAGT
*
9000120 AATGTTGGAATGAACATTATTGTGTGTTGAGT
1 AATGTTGGAATAAACATTATTGTGTGTTGAGT
9000152 GTTGTGTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (32 bp):
AATGTTGGAATAAACATTATTGTGTGTTGAGT
Found at i:9014393 original size:9 final size:9
Alignment explanation
Indices: 9014379--9014404 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9014369 CTATGCCAAG
9014379 AAATGCCAT
1 AAATGCCAT
9014388 AAATGCCAT
1 AAATGCCAT
9014397 AAATGCCA
1 AAATGCCA
9014405 AATTTATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (9 bp):
AAATGCCAT
Found at i:9016380 original size:89 final size:89
Alignment explanation
Indices: 9016229--9016439 Score: 320
Period size: 89 Copynumber: 2.4 Consensus size: 89
9016219 ACAACGGTGA
* *
9016229 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCTCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
* **
9016294 AGGGTAATAGGCTGGAAATTACAG
66 AAGGTAATAGGCTAAAAATTACAG
*
9016318 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAATCCTTAACCCCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
9016383 AAGGTAATAGGCTAAAAATTACAG
66 AAGGTAATAGGCTAAAAATTACAG
9016407 ATCTTG--TATCTCTGAAGTTGCAGTGGAA-CAGAT
1 ATCTTGCCT-TC-CTGAAGTTGCAGT-GAAGCAGAT
9016440 CGAATACAGC
Statistics
Matches: 113, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
87 1 0.01
88 2 0.02
89 107 0.95
90 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (89 bp):
ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
AAGGTAATAGGCTAAAAATTACAG
Found at i:9017383 original size:12 final size:12
Alignment explanation
Indices: 9017346--9017385 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
9017336 GAAATAAAGA
9017346 TGTTTTTACTTT
1 TGTTTTTACTTT
* *
9017358 TGTCTTTA-TCT
1 TGTTTTTACTTT
9017369 TGTTTTTACTTT
1 TGTTTTTACTTT
9017381 TGTTT
1 TGTTT
9017386 CTCTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.72
Consensus pattern (12 bp):
TGTTTTTACTTT
Found at i:9020799 original size:2 final size:2
Alignment explanation
Indices: 9020792--9020816 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9020782 TTCCAAGATA
9020792 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9020817 AATCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9020939 original size:21 final size:19
Alignment explanation
Indices: 9020918--9020968 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
9020908 GATTAAATTA
9020918 AATTTAATTAATCATATGTT
1 AATTTAATTAATCATAT-TT
* *
9020938 AATTATGATTAATCTTATTT
1 AATT-TAATTAATCATATTT
9020958 AATTTAATTAA
1 AATTTAATTAA
9020969 ACCAATGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTTAATTAATCATATTT
Found at i:9023955 original size:12 final size:12
Alignment explanation
Indices: 9023938--9023964 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9023928 ATCTTTTCAT
9023938 GTTAATTAGTTA
1 GTTAATTAGTTA
9023950 GTTAATTAGTTA
1 GTTAATTAGTTA
9023962 GTT
1 GTT
9023965 GATGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (12 bp):
GTTAATTAGTTA
Found at i:9024149 original size:27 final size:27
Alignment explanation
Indices: 9024098--9024184 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 27
9024088 GAGTTAATAA
* * *
9024098 AATTCTCTTTGAG-TTTTCTTTTGAAG
1 AATTTTCTTTAAGTTTTTTTTTTGAAG
*
9024124 AATTTTTTTTAAGTTTTTTTTTTGAAG
1 AATTTTCTTTAAGTTTTTTTTTTGAAG
* *
9024151 AATTTCCCTTTAAGTTTTTTTTTAGAAG
1 AATTT-TCTTTAAGTTTTTTTTTTGAAG
*
9024179 AGTTTT
1 AATTTT
9024185 AATAATCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 10 0.20
27 17 0.34
28 23 0.46
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.59
Consensus pattern (27 bp):
AATTTTCTTTAAGTTTTTTTTTTGAAG
Found at i:9028804 original size:21 final size:21
Alignment explanation
Indices: 9028746--9028806 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
9028736 ATAATTTAAT
*
9028746 TTATTTTTAAAATTTAAAAAA
1 TTATTTTTAAAATATAAAAAA
* *
9028767 TTATCTTTAAAAAATAAAAAA
1 TTATTTTTAAAATATAAAAAA
9028788 -TATTTTTAAAAGTATAAAA
1 TTATTTTTAAAA-TATAAAA
9028807 TTTAGTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTTTTAAAATATAAAAAA
Found at i:9036319 original size:4 final size:4
Alignment explanation
Indices: 9036310--9036346 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
9036300 AAATGGCCGC
9036310 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
9036347 ATTGCTGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:9039377 original size:102 final size:102
Alignment explanation
Indices: 9039213--9039416 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 102
9039203 ATTATTTGCT
* ** *
9039213 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTATTTATGTGAAAGA
1 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
9039278 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
*
9039315 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGT
1 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
9039380 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
9039417 AGTGAAGCGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (102 bp):
TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
Found at i:9042514 original size:28 final size:28
Alignment explanation
Indices: 9042474--9042530 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
9042464 GTTAGAGTTA
9042474 TGGATAGGAATTAGAATATCCAATTTTT
1 TGGATAGGAATTAGAATATCCAATTTTT
9042502 TGGATAGGAATTAGAATATCCAATTTTT
1 TGGATAGGAATTAGAATATCCAATTTTT
9042530 T
1 T
9042531 CTTTCCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (28 bp):
TGGATAGGAATTAGAATATCCAATTTTT
Found at i:9044430 original size:12 final size:13
Alignment explanation
Indices: 9044401--9044437 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9044391 GAATTTTTAG
*
9044401 TTTTTCAGAAGTA
1 TTTTTCAAAAGTA
9044414 TTTTTCAAAAGTA
1 TTTTTCAAAAGTA
*
9044427 TTTTTGAAAAG
1 TTTTTCAAAAG
9044438 GAGAAGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (13 bp):
TTTTTCAAAAGTA
Found at i:9049940 original size:46 final size:46
Alignment explanation
Indices: 9049873--9049963 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
9049863 AGCAAGTAGT
9049873 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
9049919 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTT
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTT
9049964 GTCCCTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (46 bp):
TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
Found at i:9053693 original size:22 final size:22
Alignment explanation
Indices: 9053650--9053694 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9053640 AATTTGTTAC
*
9053650 ATTATATATGTAATTTGTTTTT
1 ATTATATATGTAATTTATTTTT
*
9053672 ATTATATAT-TGATTTATGTTTT
1 ATTATATATGTAATTTAT-TTTT
9053694 A
1 A
9053695 AACCATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTATATATGTAATTTATTTTT
Found at i:9059491 original size:30 final size:30
Alignment explanation
Indices: 9059455--9059511 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9059445 TAGGCACTTC
* **
9059455 CAAACGGGTAAACCACATGCCTGTGTGAGG
1 CAAACGGGCAAACCACACACCTGTGTGAGG
*
9059485 CAAACGGGCAGACCACACACCTGTGTG
1 CAAACGGGCAAACCACACACCTGTGTG
9059512 TCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (30 bp):
CAAACGGGCAAACCACACACCTGTGTGAGG
Found at i:9060399 original size:46 final size:46
Alignment explanation
Indices: 9060346--9060435 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
9060336 TCTTCTTAAT
9060346 TGGTTTTCCTAAAGTATTTTCCAACTTTCGCCTCTGTCCTGATAAC
1 TGGTTTTCCTAAAGTATTTTCCAACTTTCGCCTCTGTCCTGATAAC
*
9060392 TGGTTTTCCTAAAGTATTTTCCAACTTTTGCCTCTGTCCTGATA
1 TGGTTTTCCTAAAGTATTTTCCAACTTTCGCCTCTGTCCTGATA
9060436 TTAGATAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.19, C:0.24, G:0.13, T:0.43
Consensus pattern (46 bp):
TGGTTTTCCTAAAGTATTTTCCAACTTTCGCCTCTGTCCTGATAAC
Found at i:9067010 original size:30 final size:30
Alignment explanation
Indices: 9066976--9067041 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
9066966 AACGAACGTA
9066976 CACACGACCGTGCGACATGGCCGTGTGCAC
1 CACACGACCGTGCGACATGGCCGTGTGCAC
*
9067006 CACACGACCGTGCGACATGGTCGTGTGCAC
1 CACACGACCGTGCGACATGGCCGTGTGCAC
9067036 CACACG
1 CACACG
9067042 GCCTAGGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CACACGACCGTGCGACATGGCCGTGTGCAC
Found at i:9067249 original size:47 final size:47
Alignment explanation
Indices: 9067196--9067288 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
9067186 ATCTCCCCCT
*
9067196 AACCCTAATTTTTTTTATTTCATTCACTATTTACTTTCTTTCCCAAA
1 AACCCTAATTTTTTTTATTTCATTCACTATTTACTTTCTTCCCCAAA
9067243 AACCCTAATTTTTTTTATTTCATTCACTATTTACTTTCTTCCCCAA
1 AACCCTAATTTTTTTTATTTCATTCACTATTTACTTTCTTCCCCAA
9067289 CCCAGCCACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (47 bp):
AACCCTAATTTTTTTTATTTCATTCACTATTTACTTTCTTCCCCAAA
Found at i:9067602 original size:17 final size:17
Alignment explanation
Indices: 9067580--9067630 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
9067570 TTATTTCACT
9067580 TTTATTTTCTTTTATTC
1 TTTATTTTCTTTTATTC
* *
9067597 TTTATTTTATTTTAAT-
1 TTTATTTTCTTTTATTC
*
9067613 TTTATCTCTCTTTTATTC
1 TTTAT-TTTCTTTTATTC
9067631 ATCCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTCTTTTATTC
Found at i:9067606 original size:33 final size:34
Alignment explanation
Indices: 9067561--9067630 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
9067551 CTTTTTTCTT
* *
9067561 TTCTTTGATTTATTTCACTTTTAT-TTTCTTTTA
1 TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
*
9067594 TTCTTT-ATTTTATTTTAATTTTATCTCTCTTTTA
1 TTCTTTGA-TTTATTTCAATTTTATCTCTCTTTTA
9067628 TTC
1 TTC
9067631 ATCCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 20 0.62
34 11 0.34
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.70
Consensus pattern (34 bp):
TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
Found at i:9067626 original size:22 final size:21
Alignment explanation
Indices: 9067569--9067629 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
9067559 TTTTCTTTGA
* * *
9067569 TTTATTTCACTTTTATTTTCT
1 TTTATCTCTCTTTTATTTTAT
* *
9067590 TTTATTCTTTATTTTATTTTAAT
1 TTTA-TCTCTCTTTTATTTT-AT
9067613 TTTATCTCTCTTTTATT
1 TTTATCTCTCTTTTATT
9067630 CATCCTTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.13
22 22 0.71
23 5 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATCTCTCTTTTATTTTAT
Found at i:9070812 original size:12 final size:12
Alignment explanation
Indices: 9070795--9070828 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
9070785 CCCGGCCGCC
9070795 TATATTAATTTT
1 TATATTAATTTT
9070807 TATATT-ATTTT
1 TATATTAATTTT
9070818 TATA-TAATTTT
1 TATATTAATTTT
9070829 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:9070996 original size:30 final size:31
Alignment explanation
Indices: 9070953--9071015 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
9070943 CTTAACAAGT
*
9070953 AAATGTTTCTAAAATAAT-AACAAAATTAAC
1 AAATGTTTCTAAAATAATAAAAAAAATTAAC
9070983 AAATGTGTT-TAAAATAATAAAAAAAATTAAC
1 AAATGT-TTCTAAAATAATAAAAAAAATTAAC
9071014 AA
1 AA
9071016 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (31 bp):
AAATGTTTCTAAAATAATAAAAAAAATTAAC
Found at i:9071070 original size:22 final size:22
Alignment explanation
Indices: 9071045--9071087 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9071035 TATCCAAACA
9071045 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
*
9071067 ATAACAGCAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
9071088 AATAGGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:9071086 original size:11 final size:11
Alignment explanation
Indices: 9071052--9071092 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
9071042 ACAATAACAA
9071052 CAAAATAGTAG
1 CAAAATAGTAG
* **
9071063 CAACATAACAG
1 CAAAATAGTAG
9071074 CAAAATAGTAG
1 CAAAATAGTAG
9071085 CAAAATAG
1 CAAAATAG
9071093 GGGGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:9075272 original size:17 final size:17
Alignment explanation
Indices: 9075250--9075283 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9075240 ATTTTATATA
9075250 TATTAAATATTA-ATTAT
1 TATT-AATATTATATTAT
9075267 TATTAATATTATATTAT
1 TATTAATATTATATTAT
9075284 GAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATATTATATTAT
Found at i:9075281 original size:14 final size:15
Alignment explanation
Indices: 9075243--9075289 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
9075233 TTCTTAGATT
9075243 TTATATATATTAAATA
1 TTATAT-TATTAAATA
9075259 TTA-ATTATTATTAATA
1 TTATATTATTA--AATA
*
9075275 TTATATTATGAAATA
1 TTATATTATTAAATA
9075290 AATTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 10 0.37
17 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATATTATTAAATA
Found at i:9080756 original size:6 final size:6
Alignment explanation
Indices: 9080745--9080772 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9080735 TCCTACATTA
9080745 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
1 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
9080773 ACTCTCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.18, T:0.68
Consensus pattern (6 bp):
TGTTCT
Found at i:9088921 original size:17 final size:17
Alignment explanation
Indices: 9088899--9088938 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
9088889 ATCCAACTCT
9088899 ATCCCTAT-CTAAACCCC
1 ATCCCTATCCT-AACCCC
9088916 ATCCCTATCCTAACCCC
1 ATCCCTATCCTAACCCC
9088933 ATCCCT
1 ATCCCT
9088939 CAAATCTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (17 bp):
ATCCCTATCCTAACCCC
Found at i:9098317 original size:73 final size:71
Alignment explanation
Indices: 9098129--9098368 Score: 354
Period size: 73 Copynumber: 3.3 Consensus size: 71
9098119 CTTTCCAAGG
* * *
9098129 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
9098194 GTTTTC
66 GTTTTC
* * *
9098200 AAAATTCAGCTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
9098265 TGCTTTTC
65 TG-TTTTC
* * *
9098273 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAGGACACGATGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
9098338 TGTTTGTC
65 TGTTT-TC
9098346 AAGAATCAACTCATATTGCGAGA
1 AA-AATCAACTCATATTGCGAGA
9098369 GGTGGGTTGA
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
71 4 0.03
72 59 0.39
73 88 0.58
74 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCT
GTTTTC
Found at i:9098429 original size:127 final size:122
Alignment explanation
Indices: 9098254--9098598 Score: 422
Period size: 124 Copynumber: 2.7 Consensus size: 122
9098244 CGTTGAGGTA
* * ** *
9098254 TTTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAGGACACG
1 TTTT-AATTTCTACTTTTCAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
* *
9098319 ATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CC
64 CTGAGGTAATTTCAATTTCTGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCC
* * *
9098382 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTAATTTCTAC-TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
* * **
9098447 TGAGGTATTTTCAATTTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
65 TGAGGTAATTTCAA--TTTCTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
* ** *
9098507 TTTTAATTTTTGGTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTTAATTTCTACTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
9098572 GAGGTAATTTCAATTTCTGTTGTTAAA
66 GAGGTAATTTCAATTTCTGTT-TTAAA
9098599 AAAAATCAAC
Statistics
Matches: 189, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
122 7 0.04
123 5 0.03
124 62 0.33
125 37 0.20
126 1 0.01
127 55 0.29
128 14 0.07
129 8 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (122 bp):
TTTTAATTTCTACTTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTCTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:9098648 original size:75 final size:73
Alignment explanation
Indices: 9098525--9099413 Score: 652
Period size: 76 Copynumber: 11.8 Consensus size: 73
9098515 TTTGGTTTTC
* *
9098525 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
9098590 GTTGTTAAAA
66 GTT-TT-AAA
* ** *
9098600 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
9098665 GTTTT-CA
66 GTTTTAAA
* * * ** * *
9098672 AAATTCGACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
9098737 GTTTTCAAA
66 GTTTT-AAA
* * * *
9098746 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
* *
9098811 GATTTCAA
66 GTTTTAAA
* * * * * *
9098819 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
**
9098883 G-TTTATT
66 GTTTTAAA
* * * * * * * *
9098890 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCATCGGGTCATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA----TTTTCAAT
** **
9098954 TTCCATTTTTCA
62 TTCTGTTTTAAA
* * * * * *
9098966 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GAGTCATGCCGAGGTATTTCTTTTAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTA--T-TTTCAA-
** **
9099029 TTTCCATTTTTCA
61 TTTCTGTTTTAAA
* * * * * * *
9099042 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA--T-TTTC-AAT
**
9099106 TT-TCGTTTTTCA
62 TTCT-GTTTTAAA
* *
9099118 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGATCACATGCCGAGGTATTTCTTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC--GCTGAGGTA----TTTTC
**
9099182 AATTTCTGTTTTTCA
59 AATTTCTGTTTTAAA
* * * * * * *
9099197 AAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA----TTTTCAAT
*
9099261 TTCTGTTTT-CA
62 TTCTGTTTTAAA
* * * *
9099272 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGATCACATGCCGAGGTATTTCTTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC--GCTGAGGTA----TTTTC
* *
9099336 AATTTTTGTTTT-CA
59 AATTTCTGTTTTAAA
*
9099350 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
9099414 AAGCCTTTTG
Statistics
Matches: 715, Mismatches: 71, Indels: 57
0.85 0.08 0.07
Matches are distributed among these distances:
71 52 0.07
72 110 0.15
73 17 0.02
74 73 0.10
75 98 0.14
76 197 0.28
77 22 0.03
78 94 0.13
79 41 0.06
80 8 0.01
81 3 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTAAA
Found at i:9098808 original size:146 final size:145
Alignment explanation
Indices: 9098507--9099886 Score: 834
Period size: 147 Copynumber: 8.9 Consensus size: 145
9098497 GAGTTAAGCC
* *
9098507 TTTTAATTTTTGGTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * ** **
9098571 TGAGGTA-ATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC
65 CGAGGTATTTTTCAATTTCTGTT-TT--CAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCC
* * *
9098635 TCAGGACACGCTGAGGTA-A
126 TCAGGTCACGCCGAGGTATT
* * * * ** * **
9098654 TTTCAATTTCTGTTTTCAAAATTCGACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCC
* * *
9098719 GAGGTA-TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
66 GAGGTATTTTTCAATTTCTGTTTTC--AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
*
9098783 AGGTCACGCTGAGGTA-T
128 AGGTCACGCCGAGGTATT
* * * * * *
9098800 TTTTAATTTATGATTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGC
1 TTTTAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * *
9098864 TGAGGTATTTTT-AATTTATGTTTAT-TAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCG
65 CGAGGTATTTTTCAATTTCTGTTT-TCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCA
*
9098927 GGTCATGCCGAGGTATTT
129 GGTCACGCCGAGGTA-TT
* * *
9098945 CTTTTAAATTTCCAT-TTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GAGTC
1 -TTTT-AATTT-C-TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GAC
* *
9099007 ATGCCGAGGTATTTCTTTTAATTTTCCAT-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTT
61 ACGCCGAGGTA-TT-TTTCAA-TTT-C-TGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTT
* * *
9099071 GAGCCTCGGGTCATGCCGAAGTATT
121 GAGCCTCAGGTCACGCCGAGGTATT
*
9099096 TCTTTCAAATTT-TCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGAT
1 T-TTT--AATTTCT-G-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-
9099159 CACATGCCGAGGTATTTCTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAG
60 CAC--GCCGAGGTA--T-TTTTCAATTTCTG-TTTTCAAAAATCAACTCATAATACAGAGGTGAG
* *
9099224 TTGAGCCTCGGGTCATGCCGAGGTATTT
119 TTGAGCCTCAGGTCACGCCGAGGTA-TT
* *
9099252 CTTTTAAATTTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGATCAC
1 -TTTT-AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC
* * * *
9099316 ATGCCGAGGTATTTCTTTTAAATTTTTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
63 --GCCGAGGTA--T-TTTTCAATTTCTGTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTG
*
9099381 AGCCTCAGGACACACGCCGAGGTATT
122 AGCCTCAGG--TCACGCCGAGGTATT
*
9099407 TTCAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TT---TT-A--------ATTTCT-GTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
9099472 TGAGCCTCAGGACACACTCCGAGGTATTTTCAATTAAGCCTTTTGATTTCTATTTTTCAAAAAAA
48 TGAGCCTCAGG--ACACGCCGAGGTA-TTT---TT----C----AATTTCT-GTTTTC-----AA
* * *
9099537 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTCCATTTCT
93 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCAGGTCACGCCGAGG-----T--A--T-T
* * * ** *
9099601 GTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 -TTTT-AAT-TTCTG-TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*** * * * * * **
9099666 ACATTGAGGTA-ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGATAAATGAGTTGAGC
61 ACGCCGAGGTATTTTTCAATTTCTGTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGC
* * **
9099730 CTCAAGACACGTTGAGGTA-T
125 CTCAGGTCACGCCGAGGTATT
* * **
9099750 TTTCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* * * * * * * *
9099815 TGAGGTA-ATTTCAATTTCTGTTGTCAAAAAAATAAACTCATATTGCGAAAAGTGAGTTGAGCCT
65 CGAGGTATTTTTCAATTTCTGTTTTC--AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
*
9099879 CAGTTCAC
127 CAGGTCAC
9099887 ATGTTGAGAT
Statistics
Matches: 1025, Mismatches: 114, Indels: 188
0.77 0.09 0.14
Matches are distributed among these distances:
143 30 0.03
144 15 0.01
145 65 0.06
146 123 0.12
147 181 0.18
148 9 0.01
149 6 0.01
150 3 0.00
151 9 0.01
152 82 0.08
153 45 0.04
154 98 0.10
155 79 0.08
156 24 0.02
157 6 0.01
160 43 0.04
165 11 0.01
166 11 0.01
169 2 0.00
170 3 0.00
171 44 0.04
172 4 0.00
173 3 0.00
174 3 0.00
177 1 0.00
179 10 0.01
180 8 0.01
181 40 0.04
184 10 0.01
185 7 0.01
186 41 0.04
189 1 0.00
191 1 0.00
192 3 0.00
193 1 0.00
194 1 0.00
195 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (145 bp):
TTTTAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCC
GAGGTATTTTTCAATTTCTGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCAGG
TCACGCCGAGGTATT
Found at i:9098993 original size:76 final size:76
Alignment explanation
Indices: 9098725--9099386 Score: 784
Period size: 76 Copynumber: 8.7 Consensus size: 76
9098715 CGTTGAGGTA
* * * * *
9098725 TTTTCAATTTC-TGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTAAATTTCATGTTTTC--AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCA
* *
9098789 CGCTGAGGTA--T-
63 TGCCGAGGTATTTC
* *
9098800 TTTT-AATTT-ATGATTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACG
1 TTTTAAATTTCATGTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
*
9098863 CTGAGGTA--T-
65 CCGAGGTATTTC
* *
9098872 TTTT-AATTT-ATGTTTAT-TAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCATG
1 TTTTAAATTTCATGTTT-TCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
9098934 CCGAGGTATTTC
65 CCGAGGTATTTC
*
9098946 TTTTAAATTTCCAT-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCATG
1 TTTTAAATTT-CATGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
9099010 CCGAGGTATTTC
65 CCGAGGTATTTC
*
9099022 TTTTAATTTTCCAT-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
1 TTTTAAATTT-CATGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
*
9099086 CCGAAGTATTTC
65 CCGAGGTATTTC
* * * * * *
9099098 TTTCAAATTTTCGT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCAC
1 TTTTAAA-TTTCATGTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGT--C
9099162 ATGCCGAGGTATTTC
62 ATGCCGAGGTATTTC
*
9099177 TTTTCAATTTC-TGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
1 TTTTAAATTTCATG-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
9099241 CCGAGGTATTTC
65 CCGAGGTATTTC
* ** * *
9099253 TTTTAAATTTC-TGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGATCACA
1 TTTTAAATTTCATGTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTCGGGT--CA
9099317 TGCCGAGGTATTTC
63 TGCCGAGGTATTTC
* * *
9099331 TTTTAAATTT-TTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTAAATTTCATGTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
9099387 AGGACACACG
Statistics
Matches: 528, Mismatches: 39, Indels: 37
0.87 0.06 0.06
Matches are distributed among these distances:
71 49 0.09
72 48 0.09
73 19 0.04
74 15 0.03
75 31 0.06
76 207 0.39
77 26 0.05
78 91 0.17
79 42 0.08
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (76 bp):
TTTTAAATTTCATGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
CGAGGTATTTC
Found at i:9099213 original size:231 final size:228
Alignment explanation
Indices: 9098725--9099407 Score: 853
Period size: 231 Copynumber: 3.0 Consensus size: 228
9098715 CGTTGAGGTA
* * *
9098725 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-AGGTC
1 TTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGA-GTC
* * *
9098788 ACGCTGAGGTA--T-TTTTAATTT-ATGATTTCAAAAAATCAACTCATAATACAGAGGTGAGTTG
62 ATGCCGAGGTATTTCTTTTAATTTCATGTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTG
* * * *
9098849 AGCCTCGGGTCACGCTGAGGTA-TT-TTT-AATTTATGTTTATT--AAAATCAACTCATAATAC-
126 AGCCTCGGGTCATGCCGAGGTATTTCTTTAAATTT-TGTTT-TTCAAAAATCAACTCATATTGCG
* * *
9098908 AGAGGTGAGTTGAGCATCGGGT--CATGCCGAGGTATTTC
189 AGAGGTGAGTTGAGCCTAGGATCACATGCCGAGGTATTTC
* **
9098946 TTTTAAATTTCCATTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCATGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCATGC
9099011 CGAGGTATTTCTTTTAATTTTCCAT-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
66 CGAGGTATTTCTTTTAA-TTT-CATGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGC
*
9099075 CTCGGGTCATGCCGAAGTATTTCTTTCAAATTTTCGTTTTTCAAAAATCAACTCATATTGCGAGA
129 CTCGGGTCATGCCGAGGTATTTCTTT-AAATTTT-GTTTTTCAAAAATCAACTCATATTGCGAGA
*
9099140 GGTGAGTTGAGCCTTGGATCACATGCCGAGGTATTTC
192 GGTGAGTTGAGCCTAGGATCACATGCCGAGGTATTTC
*
9099177 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCATGC
* **
9099242 CGAGGTATTTCTTTTAAATTTC-TGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
66 CGAGGTATTTCTTTT-AATTTCATGTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGC
* *
9099306 CTTGGATCACATGCCGAGGTATTTCTTTTAAATTTT-TGTTTTCAAAAATCAACTCATATTGCGA
129 CTCGGGT--CATGCCGAGGTATTTC-TTTAAATTTTGT-TTTTCAAAAATCAACTCATATTGCGA
*
9099370 GAGGTGAGTTGAGCCTCAGGA-CACACGCCGAGGTATTT
190 GAGGTGAGTTGAGCCT-AGGATCACATGCCGAGGTATTT
9099408 TCAATTAAGC
Statistics
Matches: 407, Mismatches: 29, Indels: 41
0.85 0.06 0.09
Matches are distributed among these distances:
219 30 0.07
220 17 0.04
221 11 0.03
222 11 0.03
223 53 0.13
224 6 0.01
225 5 0.01
226 3 0.01
227 9 0.02
228 16 0.04
229 20 0.05
230 22 0.05
231 116 0.29
232 60 0.15
233 25 0.06
234 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (228 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGAGTCATGC
CGAGGTATTTCTTTTAATTTCATGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCT
CGGGTCATGCCGAGGTATTTCTTTAAATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTAGGATCACATGCCGAGGTATTTC
Found at i:9099346 original size:154 final size:152
Alignment explanation
Indices: 9098745--9099386 Score: 805
Period size: 154 Copynumber: 4.2 Consensus size: 152
9098735 CTGTTTTCAA
* * * * * *
9098745 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA--T-TTTT-AA
1 AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAA
* * * * *
9098806 TTTATGATTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGG
65 TTTCTGTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGG
*
9098869 TA--T-TTTTAATTTATGTTTATT-
129 TATTTCTTTTAATTTTTGTTT-TTC
*
9098890 -AAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGGGTCATGCCGAGGTATTTCTTTTAAAT
1 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
*
9098954 TTCCAT-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCC-TCGAGT--CATGCCGAG
66 TT-C-TGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGA-TCACATGCCGAG
**
9099015 GTATTTCTTTTAATTTTCCATTTTTC
128 GTATTTCTTTTAATTTT-TGTTTTTC
* *
9099041 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAAGTATTTCTTTCAAAT
1 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
* *
9099106 TT-TCGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGATCACATGCCGAG
66 TTCT-G-TTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTTGGATCACATGCCGAG
*
9099170 GTATTTCTTTTCAATTTCTGTTTTTC
128 GTATTTCTTTT-AATTTTTGTTTTTC
9099196 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
1 AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
* **
9099261 TTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGGT
66 TTCTGTTTTCAAAAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGGT
9099326 ATTTCTTTTAAATTTTTG-TTTTC
130 ATTTCTTTT-AATTTTTGTTTTTC
* *
9099349 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
9099387 AGGACACACG
Statistics
Matches: 438, Mismatches: 33, Indels: 43
0.85 0.06 0.08
Matches are distributed among these distances:
143 30 0.07
144 15 0.03
145 2 0.00
146 5 0.01
147 49 0.11
148 4 0.01
149 3 0.01
150 11 0.03
151 3 0.01
152 85 0.19
153 39 0.09
154 94 0.21
155 92 0.21
156 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (152 bp):
AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAT
TTCTGTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTTGGATCACATGCCGAGGTA
TTTCTTTTAATTTTTGTTTTTC
Found at i:9099484 original size:93 final size:92
Alignment explanation
Indices: 9099349--9099593 Score: 456
Period size: 93 Copynumber: 2.7 Consensus size: 92
9099339 TTTTGTTTTC
9099349 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC-CCGAGGTATTTTCAATT
9099414 AAGCCTTTTGATTTCTATTTTTCAAAAA
65 AAGCCTTTTGATTTCTATTTTTCAAAAA
9099442 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC-CCGAGGTATTTTCAATT
9099507 AAGCCTTTTGATTTCTATTTTTCAAAAA
65 AAGCCTTTTGATTTCTATTTTTCAAAAA
*
9099535 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA-CCGAGGTATTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTATTTTC
9099594 CATTTCTGTT
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
91 13 0.09
93 137 0.91
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (92 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACCCGAGGTATTTTCAATTA
AGCCTTTTGATTTCTATTTTTCAAAAA
Found at i:9099806 original size:73 final size:72
Alignment explanation
Indices: 9099628--9099880 Score: 391
Period size: 73 Copynumber: 3.5 Consensus size: 72
9099618 TTTGAAAGAA
*
9099628 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
9099693 TCAAAAT
66 TCAAAAT
* *
9099700 TCAACTCATATTGCGATAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TT
9099765 TTCAAAAT
65 TTCAAAAT
* * *
9099773 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
*
9099838 TCAAAAAAA
66 TC--AAAAT
*
9099847 TAAACTCATATTGCGA-AAAGTGAGTTGAGCCTCA
1 TCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCA
9099881 GTTCACATGT
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
72 63 0.38
73 71 0.43
74 33 0.20
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (72 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTT
TCAAAAT
Found at i:9101095 original size:16 final size:15
Alignment explanation
Indices: 9101074--9101108 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
9101064 AAAGTATAAT
*
9101074 ATAAAAAATACAAGAA
1 ATAAAAAATA-AAAAA
9101090 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
9101105 ATAA
1 ATAA
9101109 TTTCTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Done.