Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_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: 3725575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:1035009 original size:172 final size:171
Alignment explanation
Indices: 1034723--1035065 Score: 636
Period size: 172 Copynumber: 2.0 Consensus size: 171
1034713 GAAATTACTG
1034723 GAAGAGTTATAAGTTGAAAGAGTGGGTTGGATCTCGCCGGAATTTATCAACTAAATCAGCAGGCA
1 GAAGAGTTATAAGTTGAAAGAGTGGGTTGGATCTCGCCGGAATTTATCAACTAAATCAGCAGGCA
1034788 CAGTGGGAGGAAATTCGGCCAGTCTTTCATCACAGACATTGTCAATCCAAGGGCAAA-ACATTTG
66 CAGTGGGAGGAAATTCGGCCAGTCTTTCATCACAGACATTGTCAATCCAA-GGCAAACA-ATTTG
*
1034852 TGTCCACTATCCAGCTTTAATCTAAATACTGAGGCTGCCTTCT
129 TGTCCACTATCCAGCTTTAAGCTAAATACTGAGGCTGCCTTCT
1034895 GAAGAGTTATAAGTTGAAAGAGTGGGTTGGATCTCGCCCGGAATTTATCAACTAAATCAGCAGGC
1 GAAGAGTTATAAGTTGAAAGAGTGGGTTGGATCTCG-CCGGAATTTATCAACTAAATCAGCAGGC
1034960 ACAGTGGGAGGAAATTCGGCCAGTC-TTCATCACAGACATTGTCAATCCAAGGCAAACAATTTGT
65 ACAGTGGGAGGAAATTCGGCCAGTCTTTCATCACAGACATTGTCAATCCAAGGCAAACAATTTGT
1035024 GTCCACTATCCAGCTTTAAGCTAAATACTGAGGCTGCCTTCT
130 GTCCACTATCCAGCTTTAAGCTAAATACTGAGGCTGCCTTCT
1035066 CAACTGAAGT
Statistics
Matches: 168, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
171 53 0.32
172 62 0.37
173 53 0.32
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (171 bp):
GAAGAGTTATAAGTTGAAAGAGTGGGTTGGATCTCGCCGGAATTTATCAACTAAATCAGCAGGCA
CAGTGGGAGGAAATTCGGCCAGTCTTTCATCACAGACATTGTCAATCCAAGGCAAACAATTTGTG
TCCACTATCCAGCTTTAAGCTAAATACTGAGGCTGCCTTCT
Found at i:1039079 original size:2 final size:2
Alignment explanation
Indices: 1039069--1039112 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
1039059 AAAAAAATAG
*
1039069 TA TA CA TA TA TA -A TA -A TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1039108 TA TA T
1 TA TA T
1039113 TAAATTAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1039354 original size:21 final size:20
Alignment explanation
Indices: 1039277--1039373 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
1039267 AATTAGTTTC
1039277 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1039298 -GAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1039318 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
1039338 CCAAAATCGCAACGCGATATT
1 -CAAAATCGCAACGCGATTTT
1039359 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1039374 ACACATAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 15 0.25
20 16 0.27
21 29 0.48
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1039385 original size:20 final size:20
Alignment explanation
Indices: 1039360--1039567 Score: 210
Period size: 20 Copynumber: 10.5 Consensus size: 20
1039350 CGCGATATTA
* *
1039360 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1039380 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1039400 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1039420 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1039440 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1039460 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1039480 -AATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1039499 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1039519 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1039539 -AATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1039558 AAATCACAAC
1 AAATCGCAAC
1039568 ACTGAAATTT
Statistics
Matches: 158, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
18 1 0.01
19 30 0.19
20 125 0.79
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1039525 original size:59 final size:58
Alignment explanation
Indices: 1039379--1039567 Score: 218
Period size: 59 Copynumber: 3.2 Consensus size: 58
1039369 CGCGAACACA
* **
1039379 TAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAAATCGCAACGCGT-ATGGG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACG-GTATCCGT-AATCGCAACG-ATAATCCG
* *
1039439 TAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAATCGCAACGATAATCCG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACG-GTATCCGTAATCGCAACGATAATCCG
* * * * * *
1039498 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCGTAAATCGCAACGGT-ATCCGTAATCGCAACGATAATCCG
*
1039557 TAAATCACAAC
1 TAAATCGCAAC
1039568 ACTGAAATTT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.02
59 72 0.64
60 38 0.34
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (58 bp):
TAAATCGCAACGCGTATCCGTAAATCGCAACGGTATCCGTAATCGCAACGATAATCCG
Found at i:1040278 original size:24 final size:24
Alignment explanation
Indices: 1040239--1040285 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1040229 AAATTTGGTC
1040239 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1040263 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1040286 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1040475 original size:12 final size:12
Alignment explanation
Indices: 1040458--1040482 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1040448 ATATAATCCT
1040458 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1040470 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1040482 G
1 G
1040483 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1041893 original size:14 final size:14
Alignment explanation
Indices: 1041874--1041963 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1041864 TTGAAATGAA
1041874 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1041888 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
1041907 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1041921 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1041940 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1041954 AATCGCAACG
1 AATCGCAACG
1041964 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1041905 original size:33 final size:33
Alignment explanation
Indices: 1041866--1041980 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
1041856 TCTTTTGGTT
1041866 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1041899 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1041932 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1041965 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1041981 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1041912 original size:19 final size:19
Alignment explanation
Indices: 1041888--1041985 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
1041878 GCAACGAGAG
*
1041888 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
1041907 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1041921 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1041940 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
1041954 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1041973 AATCGCAATGCGA
1 AATCGCAACGCGA
1041986 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1042016 original size:14 final size:14
Alignment explanation
Indices: 1041997--1042053 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1041987 TTTGGTTTCG
1041997 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1042011 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1042030 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1042044 CGTTGCGATT
1 CGTTGCGATT
1042054 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1042029 original size:33 final size:33
Alignment explanation
Indices: 1041981--1042061 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1041971 AAAATCGCAA
**
1041981 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1042014 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1042047 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
1042062 TCTCGTTACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1042064 original size:21 final size:21
Alignment explanation
Indices: 1042038--1042113 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1042028 CGCGTTGCGA
1042038 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
1042059 TTCTCTCGTTACGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1042079 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1042100 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1042114 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1042094 original size:41 final size:41
Alignment explanation
Indices: 1042037--1042114 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1042027 TCGCGTTGCG
*
1042037 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTACGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTACGACAGTC
*
1042078 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTACGAC
1042115 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:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTACGACAGTC
Found at i:1042235 original size:32 final size:32
Alignment explanation
Indices: 1042196--1042264 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
1042186 ATTAACTTGA
*
1042196 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
1042228 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
1042260 AAATC
1 AAATC
1042265 TAAGTGATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:1042238 original size:18 final size:18
Alignment explanation
Indices: 1042215--1042264 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
1042205 CGAGAGAATA
1042215 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
1042233 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
1042247 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
1042265 TAAGTGATAT
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:1042652 original size:19 final size:20
Alignment explanation
Indices: 1042573--1042762 Score: 185
Period size: 20 Copynumber: 9.7 Consensus size: 20
1042563 CTTTAAATAT
1042573 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1042593 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1042615 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1042634 CGCGTTGCGATAT-CGGATA
1 CGCGTTGCGATTTACGGATA
* **
1042653 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1042673 CGCGTTGCGATTTAC-GATA
1 CGCGTTGCGATTTACGGATA
*
1042692 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1042712 --CGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1042730 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1042750 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1042763 TGGAAAATCG
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
18 14 0.10
19 37 0.26
20 74 0.52
21 14 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1042713 original size:39 final size:39
Alignment explanation
Indices: 1042575--1042723 Score: 171
Period size: 39 Copynumber: 3.8 Consensus size: 39
1042565 TTAAATATCG
* *
1042575 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA-T
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACG-A-TACA
* *
1042616 CGTTGCGATTTACGGATACGCGTTGCGATAT-CGGATACG
1 CGTTGCGATTTACGGATACGCGTTGCGATTTAC-GATACA
* **
1042655 CATTGCGATTTACCCATACGCGTTGCGATTTACGATACA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGATACA
1042694 CGTTGCGATTTACGGATA--CGTTGCGATTTA
1 CGTTGCGATTTACGGATACGCGTTGCGATTTA
1042724 TGTGTTCGCG
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
37 12 0.13
38 2 0.02
39 48 0.51
40 4 0.04
41 28 0.30
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (39 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGATACA
Found at i:1042779 original size:21 final size:21
Alignment explanation
Indices: 1042749--1042830 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
1042739 ATTTTCATAT
*
1042749 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1042770 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1042791 TCG-ATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1042811 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1042831 CTGATTTGCG
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 29 0.64
22 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1043030 original size:14 final size:14
Alignment explanation
Indices: 1043011--1043076 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
1043001 TAAACAAACA
1043011 AAAAGTAATAATAT
1 AAAAGTAATAATAT
*
1043025 AAAAGTAA-AATAG
1 AAAAGTAATAATAT
* *
1043038 AAACGT-AT-ATGT
1 AAAAGTAATAATAT
*
1043050 ATAAGTAATAATATT
1 AAAAGTAATAATA-T
1043065 AAAA-TAATAATA
1 AAAAGTAATAATA
1043077 ATTATAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 7 0.17
13 11 0.28
14 18 0.45
15 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (14 bp):
AAAAGTAATAATAT
Found at i:1044140 original size:2 final size:2
Alignment explanation
Indices: 1044133--1044187 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
1044123 TAATAAATAA
1044133 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1044173 A- AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT A
1044188 ACATTAGAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1044148 original size:21 final size:21
Alignment explanation
Indices: 1044123--1044188 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
1044113 ACTTGTACCC
1044123 TAATAAATAAATATATATATA
1 TAATAAATAAATATATATATA
* *
1044144 TAATATATATATATATATATA
1 TAATAAATAAATATATATATA
*
1044165 T-AT-ATTATAATATATATAATA
1 TAATAAATA-AATATATAT-ATA
1044186 TAA
1 TAA
1044189 CATTAGAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.05
20 10 0.27
21 24 0.65
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATAAATAAATATATATATA
Found at i:1044225 original size:39 final size:39
Alignment explanation
Indices: 1044178--1044255 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
1044168 ATTATAATAT
1044178 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1044217 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1044256 GCTGCCCCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (39 bp):
ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
Found at i:1045189 original size:205 final size:209
Alignment explanation
Indices: 1044706--1045472 Score: 1166
Period size: 205 Copynumber: 3.7 Consensus size: 209
1044696 GTACTGTTCC
* * * * * * * * * *
1044706 GAGTCCAATATCCTCCGCTGTGAAGTTAAAACTGGTTCTGGAACTGGGAAATTCTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTATTGACAA
*
1044771 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTTTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
*
1044836 GTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTT
130 GTTGAAATTGGCTCTGAAATTGAG-AATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAA---
1044901 GAACTTGAACTTGCGTTGTCTG
191 G---TTGAACTTGCGTTGTCTG
* *
1044923 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
1044988 CAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1045051 TTGAAATTGGCTCTGAAATTGAGAATATTT-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1045115 ACTTGCGTTGTCTG
196 ACTTGCGTTGTCTG
* *
1045129 GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTAAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
*
1045193 CAGCGGTCCC-TCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTG-AG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1045256 TTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTG
131 TTGAAATTGGCTCTGAAATTGAGA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
1045321 AACTTGCG-TGTCTG
195 AACTTGCGTTGTCTG
*
1045335 GAGTCC--TATCCTTCGTTGTGAAGTTG----TGGCTCTG-AATTGAGAGATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
*
1045393 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1045458 TTGAAATTGGCTCTG
131 TTGAAATTGGCTCTG
1045473 GGTAAAACCT
Statistics
Matches: 518, Mismatches: 25, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
200 32 0.06
201 56 0.11
202 17 0.03
204 19 0.04
205 125 0.24
206 56 0.11
207 40 0.08
209 1 0.00
212 28 0.05
213 6 0.01
214 29 0.06
215 34 0.07
216 33 0.06
217 42 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (209 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTG
Found at i:1045268 original size:103 final size:105
Alignment explanation
Indices: 1044706--1045472 Score: 1168
Period size: 103 Copynumber: 7.4 Consensus size: 105
1044696 GTACTGTTCC
* * * * * * * * * **
1044706 GAGTCCAATATCCTCCGCTGTGAAGTTAAAACTGGTTCTGGAACTGGGAAATTCTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
1044771 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1044812 GAGTCCAATATCCTTCGTTTTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAAAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1044877 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAA---G---TTGAACTTGCGTTGTCTG
*
1044923 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1044988 CAGCGGTCCCTTCGTCGTGAAG-TGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1045027 GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATATTT-TTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1045089 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1045129 GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTAAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
1045193 CAGCGGTCCC-TCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1045232 GAGTCCAATATCCTTCGTTGTG-AGTTGAAATTGGCTCTGAAATTGAGAGATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
1045296 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCG-TGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1045335 GAGTCC--TATCCTTCGTTGTGAAGTTG----TGGCTCTG-AATTGAGAGATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
1045393 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1045433 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1045473 GGTAAAACCT
Statistics
Matches: 616, Mismatches: 26, Indels: 40
0.90 0.04 0.06
Matches are distributed among these distances:
97 54 0.09
98 20 0.03
100 20 0.03
101 44 0.07
102 74 0.12
103 142 0.23
104 86 0.14
105 31 0.05
106 42 0.07
108 2 0.00
111 101 0.16
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1055566 original size:14 final size:15
Alignment explanation
Indices: 1055539--1055570 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1055529 CAAAAAGGTT
1055539 AATAAAATATAAATA
1 AATAAAATATAAATA
1055554 AATAAAA-ATAAATA
1 AATAAAATATAAATA
1055568 AAT
1 AAT
1055571 GGTAAAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAAAATATAAATA
Found at i:1056614 original size:17 final size:16
Alignment explanation
Indices: 1056592--1056623 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1056582 TATATACAAC
1056592 CAATGAATAAATAAATA
1 CAATGAATAAA-AAATA
1056609 CAATGAATAAAAAAT
1 CAATGAATAAAAAAT
1056624 GATCATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.22
Consensus pattern (16 bp):
CAATGAATAAAAAATA
Found at i:1058077 original size:2 final size:2
Alignment explanation
Indices: 1058070--1058119 Score: 56
Period size: 2 Copynumber: 27.0 Consensus size: 2
1058060 ATAAATAAAT
1058070 TA TA TA TA TA TA TA TA T- TA TA -A TA -A TA TGA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
1058109 TA TA TA -A TA TA
1 TA TA TA TA TA TA
1058120 ACATTAGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
1 5 0.12
2 35 0.83
3 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1058097 original size:11 final size:12
Alignment explanation
Indices: 1058070--1058119 Score: 61
Period size: 11 Copynumber: 4.3 Consensus size: 12
1058060 ATAAATAAAT
1058070 TATATA-TAT-A
1 TATATATTATAA
1058080 TATATATTATAA
1 TATATATTATAA
*
1058092 TA-ATATGATAA
1 TATATATTATAA
1058103 TATATATATATAA
1 TATATAT-TATAA
1058116 TATA
1 TATA
1058120 ACATTAGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 6 0.18
11 13 0.38
12 7 0.21
13 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (12 bp):
TATATATTATAA
Found at i:1058153 original size:39 final size:39
Alignment explanation
Indices: 1058110--1058187 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
1058100 TAATATATAT
1058110 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1058149 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1 ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
1058188 GGTGGCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (39 bp):
ATATAATATAACATTAGAGGACGAATTTGAGTGTCTTCA
Found at i:1066319 original size:23 final size:23
Alignment explanation
Indices: 1066292--1066338 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1066282 AGGTATCAAT
1066292 AATCAGACATAGGGCTGTAAATG
1 AATCAGACATAGGGCTGTAAATG
1066315 AATCAGACATAGGGCTGTAAATG
1 AATCAGACATAGGGCTGTAAATG
1066338 A
1 A
1066339 GAGGAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (23 bp):
AATCAGACATAGGGCTGTAAATG
Found at i:1067092 original size:24 final size:24
Alignment explanation
Indices: 1067052--1067105 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
1067042 ACGTTTAGTA
1067052 TTTAA-ATTATTACTTTTATTTTAT
1 TTTAATATTATTACTTTTATTTT-T
*
1067076 TTTAATATT-TTATTTTTATTTTT
1 TTTAATATTATTACTTTTATTTTT
1067099 TTATAAT
1 TT-TAAT
1067106 CATACCTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTAATATTATTACTTTTATTTTT
Found at i:1067743 original size:30 final size:30
Alignment explanation
Indices: 1067709--1067792 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
1067699 AGTTAGACCT
*
1067709 TAAACTTTAGATGAAGTATTAATTGACCCC
1 TAAACTTTAGATGAAGTATTAATTAACCCC
1067739 TAAACTTTAGATGAAGTATTAATTAACCCC
1 TAAACTTTAGATGAAGTATTAATTAACCCC
* *
1067769 TAAACTTTAGATAAACTATTAATT
1 TAAACTTTAGATGAAGTATTAATT
1067793 TGATCACTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (30 bp):
TAAACTTTAGATGAAGTATTAATTAACCCC
Found at i:1072905 original size:22 final size:22
Alignment explanation
Indices: 1072852--1072907 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1072842 TTCAGTATTT
1072852 GTCCCGAAGGACCACTAGATAC
1 GTCCCGAAGGACCACTAGATAC
* * *
1072874 ATCTCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTAGATAC
*
1072896 GTCCCAAAGGAC
1 GTCCCGAAGGAC
1072908 TAATATACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.14
Consensus pattern (22 bp):
GTCCCGAAGGACCACTAGATAC
Found at i:1073540 original size:47 final size:45
Alignment explanation
Indices: 1073466--1073591 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
1073456 TATAAAATCT
*
1073466 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * * *
1073511 CTTACCATTTAAATTCCATAAGCTTGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
1073558 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1073592 GCATGGTTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:1078349 original size:64 final size:62
Alignment explanation
Indices: 1078265--1078475 Score: 205
Period size: 64 Copynumber: 3.3 Consensus size: 62
1078255 CATTCATAAG
*
1078265 TGCATCGATGCATTCC-TTTAAAAGAATAACATCGAATGCCTTTGATGCATCGATGCATAGCTAA
1 TGCATCGATGCA-TCCTTTTAAAAGAATAACATCGAATGCATTT-ATGCATCGATGCATAG-TAA
* * *
1078329 TGCATCGATGCATCCTTTTAAAATAATAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGT
1 TGCATCGATGCATCCTTTTAAAAGAAT--AACATCGAATGCATTTA-TGCATCGATGCAT-A-GT
1078394 -A
61 AA
* * * * *
1078395 TGCATCGATGCAT-CTCATTAATAAGGA-AACATCGAATGCATTTTATGCACCGATGCACAGTAG
1 TGCATCGATGCATCCT-TTTAA-AAGAATAACATCGAATGCA-TTTATGCATCGATGCATAGTAA
1078458 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
1078476 CATTGAAAGA
Statistics
Matches: 122, Mismatches: 13, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
62 2 0.02
63 17 0.14
64 45 0.37
65 8 0.07
66 44 0.36
67 5 0.04
68 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (62 bp):
TGCATCGATGCATCCTTTTAAAAGAATAACATCGAATGCATTTATGCATCGATGCATAGTAA
Found at i:1082075 original size:17 final size:17
Alignment explanation
Indices: 1082034--1082075 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1082024 AAGTTATCTT
*
1082034 AAGATTGAAAGATAAAG
1 AAGAATGAAAGATAAAG
*
1082051 AAGTATGAAAGATTAAAG
1 AAGAATGAAAGA-TAAAG
1082069 AA-AATGA
1 AAGAATGA
1082076 GTTTTTAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (17 bp):
AAGAATGAAAGATAAAG
Found at i:1082479 original size:64 final size:62
Alignment explanation
Indices: 1082395--1082606 Score: 198
Period size: 64 Copynumber: 3.3 Consensus size: 62
1082385 CATTCATAAG
*
1082395 TGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATAGCTAA
1 TGCATCGATGCA-TCCTTTTAAAAGAAGAACATCGAATGCATTT-ATGCATCGATGCATAG-TAA
* * *
1082459 TGCATCGATGCATCCTTTTAAAATAATAGAACATCAAATGCAATTAGTGCATCGATGCATAAGGT
1 TGCATCGATGCATCCTTTTAAAA-GA-AGAACATCGAATGCATTTA-TGCATCGATGCAT-A-GT
1082524 -A
61 AA
* * * *
1082525 TGCATCGATGCAT-CTCATTAATAAGGA-AACATCGAATGCATTTTATGCACCGATGCACAAGTA
1 TGCATCGATGCATCCT-TTTAA-AAGAAGAACATCGAATGCA-TTTATGCATCGATGCA-TAGTA
*
1082588 G
62 A
1082589 TGCATCGATGCATACCTT
1 TGCATCGATGCAT-CCTT
1082607 CATTGAAAGA
Statistics
Matches: 122, Mismatches: 13, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
63 5 0.04
64 56 0.46
65 8 0.07
66 48 0.39
67 4 0.03
68 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (62 bp):
TGCATCGATGCATCCTTTTAAAAGAAGAACATCGAATGCATTTATGCATCGATGCATAGTAA
Found at i:1082512 original size:66 final size:62
Alignment explanation
Indices: 1082372--1082538 Score: 174
Period size: 66 Copynumber: 2.5 Consensus size: 62
1082362 TCTGGACAAG
* * * * *
1082372 GTGCATCGATGCACATTCATAAGTGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTT
1 GTGCATCGATGCATA-GC-TAA-TGCATCGATGCA-TCCTTTAAAAAAAGAACATCAAATGCATT
*
1082437 T
62 A
1082438 GATGCATCGATGCATAGCTAATGCATCGATGCATCCTTTTAAAATAATAGAACATCAAATGCAAT
1 G-TGCATCGATGCATAGCTAATGCATCGATGCATCC-TTTAAAA-AA-AGAACATCAAATGC-AT
1082503 TA
61 TA
*
1082505 GTGCATCGATGCATAAGGT-ATGCATCGATGCATC
1 GTGCATCGATGCAT-AGCTAATGCATCGATGCATC
1082539 TCATTAATAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
63 3 0.03
64 19 0.22
65 4 0.05
66 43 0.49
67 19 0.22
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (62 bp):
GTGCATCGATGCATAGCTAATGCATCGATGCATCCTTTAAAAAAAGAACATCAAATGCATTA
Found at i:1083309 original size:30 final size:30
Alignment explanation
Indices: 1083258--1083321 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
1083248 AAGGAAGATA
* *
1083258 TGGATAGTTGCCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATAACCTC
* *
1083288 TGGATAGTTATCG-GGATTCTTTGTAACCTC
1 TGGATAGTTACCGAGGA-TCTTTATAACCTC
1083318 TGGA
1 TGGA
1083322 CAGGTCCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATAACCTC
Found at i:1089374 original size:18 final size:18
Alignment explanation
Indices: 1089351--1089429 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 18
1089341 GTTCAGTATT
*
1089351 TATCCCGAATGACCACTA
1 TATCCCGAAGGACCACTA
1089369 TATCCCGAAGGACCACTGGA
1 TATCCCGAAGGACCACT--A
1089389 TACGTCCCGAAGGACCACTGGA
1 TA--TCCCGAAGGACCACT--A
1089411 TACGTCCCGAAGGACCACT
1 TA--TCCCGAAGGACCACT
1089430 GGATACGTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
18 16 0.29
20 3 0.05
22 37 0.66
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.16
Consensus pattern (18 bp):
TATCCCGAAGGACCACTA
Found at i:1089399 original size:22 final size:22
Alignment explanation
Indices: 1089371--1089447 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
1089361 GACCACTATA
1089371 TCCCGAAGGACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
1089393 TCCCGAAGGACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
1089415 TCCCGAAGGACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
*
1089437 TCCCAAAGGAC
1 TCCCGAAGGAC
1089448 TAATATACCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (22 bp):
TCCCGAAGGACCACTGGATACG
Found at i:1090105 original size:64 final size:65
Alignment explanation
Indices: 1089997--1090159 Score: 174
Period size: 64 Copynumber: 2.5 Consensus size: 65
1089987 CCCTTGACGG
* * *
1089997 GTGCATCGATGCACTACTCATGCATCGGTGCA-TAAATCCTATTCGATGTT-TGTATTTTAAGCA
1 GTGCATCGATGCACTCCTTATGCATCGATGCACTAAATCCTATTCGATGTTATGTATTTTAA--A
1090060 T-
64 TA
* *
1090061 GTGCATCGATGCACTCCTTATGCATCGATGCACT-AATGGC-ATTCGATGTTCATTTATTTTAAA
1 GTGCATCGATGCACTCCTTATGCATCGATGCACTAAAT-CCTATTCGATGTT-ATGTATTTTAAA
1090124 TGA
64 T-A
* * *
1090127 GTGCATCGATACACTCCATGTGCATCGATGCAC
1 GTGCATCGATGCACTCCTTATGCATCGATGCAC
1090160 CTTCAACAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
64 44 0.52
65 2 0.02
66 39 0.46
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (65 bp):
GTGCATCGATGCACTCCTTATGCATCGATGCACTAAATCCTATTCGATGTTATGTATTTTAAATA
Found at i:1102117 original size:20 final size:21
Alignment explanation
Indices: 1102080--1102119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1102070 AATAAAAAAT
* *
1102080 TATTATTAAATAATTAATATA
1 TATTATTAAACAAATAATATA
1102101 TATT-TTAAACAAATAATAT
1 TATTATTAAACAAATAATAT
1102120 CTTACATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATTAAACAAATAATATA
Found at i:1111753 original size:365 final size:362
Alignment explanation
Indices: 1111083--1111929 Score: 1164
Period size: 365 Copynumber: 2.3 Consensus size: 362
1111073 GATACAAATG
* ** * * * *
1111083 AAAAATGTATCGCTCCATAGTAATATTACAGGTAAAAATATGACAAAACCGGTCCCAAAATAATA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
* * *
1111148 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
66 AAACCGGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGAAACTTT
* *
1111213 CTGAATTTAAAAGAGAAGAAGTTATAGTGCCTAAAAGTATCGACACTTTATGAAAATGTATTGAT
129 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTATCGACACTTTATAAAAATGTATTGAT
* * *
1111278 CCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTTAAAAATGACAAAACCAGTAAAAA
194 CCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAATGACAAAACCAGTAAAAA
*
1111343 GATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTG-AATTTAAAA
259 GATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT-TGAAATTTAAAA
* * * *
1111407 GAGAATAAGTTATAGCGCCTAAAAAGT-GTCGACGCTTTAT
323 GAGAAGAAGTTATAGCGCCTAAAAA-TAATCGACACTTTAA
* ** *
1111447 GAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
** * *
1111512 AAACATGTAAATAACTACCAGATATGTTGAAAGTGTCGATACTTTCATATAAGTATCGATACTTT
66 AAACCGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATACTTT-ATATAAGTATCGAAACTTT
* * *
1111577 CTGAGTTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-TAAAAAATGTATTG
129 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTA-AAAGTATCGACACTTTAT-AAAAATGTATTG
* * * *
1111641 ATCTATAATAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAATGACAAAA-TAGGTAT
192 ATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAATGACAAAACCA-GTAA
* * *
1111705 AAATATATCGAATATGTTGAAAGTGTTGATAATTTAATATAAGTATCGACACTTTTGAAATTTAA
256 AAAGATACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGAAATTTAA
* * *
1111770 AAGAGAAGAAGTTATAGCGCCTATAAATAATCGATATTTTAA
321 AAGAGAAGAAGTTATAGCGCCTAAAAATAATCGACACTTTAA
* * *
1111812 AAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
*
1111877 AAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATACTTTA-ATAAGTA
66 AAACCGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATACTTTATATAAGTA
1111930 CGCGTAATAA
Statistics
Matches: 423, Mismatches: 54, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
363 7 0.02
364 146 0.35
365 270 0.64
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (362 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACA
AAACCGGTAAAAACTACCGGATATGTTGAAAGTGTCGATACTTTATATAAGTATCGAAACTTTCT
GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAGTATCGACACTTTATAAAAATGTATTGATCC
ATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAATGACAAAACCAGTAAAAAGA
TACCGAATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTGAAATTTAAAAGAG
AAGAAGTTATAGCGCCTAAAAATAATCGACACTTTAA
Found at i:1111791 original size:183 final size:180
Alignment explanation
Indices: 1111083--1111925 Score: 1034
Period size: 182 Copynumber: 4.6 Consensus size: 180
1111073 GATACAAATG
* ** * * * *
1111083 AAAAATGTATCGCTCCATAGTAATATTACAGGTAAAAATATGACAAAACCGGTCCCAAAATAATA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* * * *
1111148 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
65 AAACAGGTAAAA-GATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
*
1111213 CTGAATTTAAAAGAGAAGAAGTTATAGTGCCTA-AAAGTATCGACACTTTAT
129 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGACACTTTAT
* * * * *
1111264 GAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTTAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-GGTC-TCAAAATGAC
1111329 AAAACCA-GTAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
64 AAAA-CAGGT-AAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
* * * *
1111393 TTCTGAATTTAAAAGAGAATAAGTTATAGCGCCTAAAAAGTGTCGACGCTTTAT
127 TTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGACACTTTAT
* **
1111447 GAAAATGTATCGATCCATAACAATATAACAACTAAAAATATGACAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* * * * *
1111512 AAACATGTAAATA-ACTACCAGATATGTTGAAAGTGTCGATACTTTCATATAAGTATCGATACTT
65 AAACAGGTAAA-AGA-TACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
* * *
1111576 TCTGAGTTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTT-T
128 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGACACTTTAT
* * * *
1111628 AAAAAATGTATTGATCTATAATAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAATGA
1 -AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC-GGTCTC-AAAATGA
* * * * *
1111693 CAAAATAGGTATAAATATATCGAATATGTTGAAAGTGTTGATAATTTAATATAAGTATCGACACT
63 CAAAACAGGTA-AAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
* * *
1111758 TT-TGAAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA-TAATCGATATTTTAA
127 TTCTG-AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGT-ATCGACACTTTAT
* * *
1111812 AAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGATCTCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA-CGGTCTCAAAATGACA
* *
1111877 AAACCGGT-AAAGCACTACCGGATATGTTGAAAGTGTCGATACTTTAATA
65 AAACAGGTAAAAG-A-TACCGGATATGTTGAAAGTGTCGATAATTTAATA
1111926 AGTACGCGTA
Statistics
Matches: 574, Mismatches: 68, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
180 4 0.01
181 53 0.09
182 294 0.51
183 218 0.38
184 5 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (180 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACGGTCTCAAAATGACAA
AACAGGTAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT
GAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGACACTTTAT
Found at i:1112374 original size:19 final size:19
Alignment explanation
Indices: 1112316--1112380 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
1112306 TATTTAATAT
1112316 TTATAGGTAAAAAATGATA
1 TTATAGGTAAAAAATGATA
*
1112335 TAATAGGTAAAAAATGATA
1 TTATAGGTAAAAAATGATA
* *
1112354 TTATAGATAGAAAATGATA
1 TTATAGGTAAAAAATGATA
*
1112373 TTTTAGGT
1 TTATAGGT
1112381 TGTATAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (19 bp):
TTATAGGTAAAAAATGATA
Found at i:1113852 original size:64 final size:64
Alignment explanation
Indices: 1113784--1114008 Score: 208
Period size: 64 Copynumber: 3.5 Consensus size: 64
1113774 TTGTTTGAAT
* * **
1113784 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAA-T
1113847 C-
63 CG
** * *
1113848 GTGCATCGATGCATAATTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* ** * ** **
1113912 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCATCAATAATACTACATCGAATACCTTTT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
* *
1113976 ATGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCAT
1114009 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
63 3 0.02
64 124 0.93
65 6 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCG
Found at i:1113870 original size:19 final size:19
Alignment explanation
Indices: 1113843--1113880 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1113833 CATCGAATGC
*
1113843 AATTCGTGCATCGATGCAT
1 AATTAGTGCATCGATGCAT
1113862 AATTAGTGCATCGATGCAT
1 AATTAGTGCATCGATGCAT
1113881 CCCATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (19 bp):
AATTAGTGCATCGATGCAT
Found at i:1114334 original size:12 final size:12
Alignment explanation
Indices: 1114316--1114351 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1114306 TATATATGTT
1114316 CATGTGATATGA
1 CATGTGATATGA
*
1114328 TATGTGATATGA
1 CATGTGATATGA
1114340 CATGTGATATGA
1 CATGTGATATGA
1114352 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:1114683 original size:31 final size:31
Alignment explanation
Indices: 1114490--1114680 Score: 346
Period size: 31 Copynumber: 6.2 Consensus size: 31
1114480 AGAGTCGAGG
*
1114490 GTTTACATATATTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
1114521 GTTTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1114552 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1114583 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1114614 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
1114645 ATTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
1114676 GTTTA
1 GTTTA
1114681 TATTGTGACC
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:1116024 original size:22 final size:22
Alignment explanation
Indices: 1115973--1116028 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
1115963 AATGTTTTTG
*
1115973 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
1115996 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
1116018 CTTTTATTATA
1 -TTTTATTATA
1116029 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:1116746 original size:22 final size:18
Alignment explanation
Indices: 1116697--1116735 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1116687 GAAAAAATTT
*
1116697 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1116715 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1116733 GAA
1 GAA
1116736 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:1118230 original size:19 final size:19
Alignment explanation
Indices: 1118206--1118255 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1118196 AAATGCAGGG
1118206 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
1118225 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
1118244 ATAATTTTGTAT
1 TTAATTTTGTAT
1118256 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:1119121 original size:199 final size:198
Alignment explanation
Indices: 1118772--1119862 Score: 1612
Period size: 199 Copynumber: 5.5 Consensus size: 198
1118762 TTTCAAAACC
* * * *
1118772 AAGTG-CGATACATTTATAGCAAGTGTCGATCCCAAAAATATCGAAACCAATAATTAAAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * *
1118836 CAGGTAAATTAGCAATGTAACCGGTCTAAATACACTGGTTTTTAAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATAC-CGTTTTTGAGAAAACAGGTGTACAAAAAG
* * * * *
1118901 TATTGAAACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATATATTTCAAAATCAAGTGCAC
130 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
1118966 TAAA
195 TAAA
* *
1118970 AAGTGTCGAAACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * **
1119035 TAGATAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACATTTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAG
*
1119100 TATCGACACAAATAAAACAAGTGTCGAAACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
130 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
1119165 TAAA
195 TAAA
*
1119169 AAGTATCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
1119234 TAGGTAAATTCA-CAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATT-AGCAATATAACCGGTCTAAATATACCG-TTTTTGAGAAAACAGGTGTACAAAAA
* *
1119298 GTATCGACACAAATTAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCA
129 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
1119363 CTAAA
194 CTAAA
*
1119368 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* *
1119433 TAGGTAAATTAGCAATATAACCGGTCTAAATATACTAGTTTTTGAGAAAACAGGTGTACACAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATAC-CGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
1119498 TATCGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCAC
130 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
1119563 TAAA
195 TAAA
* * *
1119567 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAGCCATAATTATGATGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
* * * * ** * * ** *
1119632 TATGTAAATTAACAATGTAATCATTCTAAATGTACCGCTTTAATT-TGAAAACAGGTCAACATAA
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCG-TTT--TTGAGAAAACAGGTGTACAAAA
** * *
1119696 TTTATCGACACAAATAAAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGC
128 AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
1119761 ACTAAA
193 ACTAAA
* * * *
1119767 AAGTGTTGATACATTTATAACAAGTGCCGATCCCAGAAACATCGAAACCCATAATTATATTGTAA
1 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
*
1119832 TAGGTAAATTAGCAATGTAACCGGTCTAAAT
66 TAGGTAAATTAGCAATATAACCGGTCTAAAT
1119863 GTACTGCTTT
Statistics
Matches: 816, Mismatches: 68, Indels: 16
0.91 0.08 0.02
Matches are distributed among these distances:
198 8 0.01
199 638 0.78
200 168 0.21
201 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (198 bp):
AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAA
TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGT
ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
AAA
Found at i:1119319 original size:398 final size:395
Alignment explanation
Indices: 1118589--1119862 Score: 1872
Period size: 398 Copynumber: 3.2 Consensus size: 395
1118579 TAAACTTATA
*
1118589 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* ** * *
1118654 GTAAATTAGCAATTTAACCAATCTAAATATACC-GGTTTTGAGAAAACATGTGTATAAAAAGTAT
66 GTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTAT
*
1118718 CGACACAAATAAAACAAGTGTCGATACTATTGGTCCAGAATGTATTTCAAAACCAA--G---T--
131 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
* * *
1118776 ---G--CGATACATTTATAGCAAGTGTCGATCCCAAAAATATCGAAACCAATAATTAAAATGTAA
196 AAAGTTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAA
* * * *
1118836 CAGGTAAATTAGCAATGTAACCGGTCTAAATACACTGGTTTTTAAGAAAACAGGTGTACAAAAAG
261 TAGGTAAATTA-CAATGTAACCGGTCTAAATATACCGATTTTT-AGAAAACAGGTGTACAAAAAG
* * * *
1118901 TATTGAAACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATATATTTCAAAATCAAGTGCAC
324 TATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCAC
1118966 TAAAAAG
389 TAAAAAG
* *
1118973 TGTCGAAACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
1119038 ATAAATTAGAAATATAACCGGTCTAAATATACCAGTTTTTTAGAAAACATTTGTACAAAAAGTAT
66 GTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTAT
*
1119103 CGACACAAATAAAACAAGTGTCGAAACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
131 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
*
1119168 AAAGTATCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
196 AAAGT-TCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTA
*
1119233 ATAGGTAAATTCACAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAA
260 ATAGGTAAATT-ACAATGTAACCGGTCTAAATATACCGATTTTT-AGAAAACAGGTGTACAAAAA
*
1119298 GTATCGACACAAATTAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCA
323 GTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCA
1119363 CTAAAAAG
388 CTAAAAAG
*
1119371 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
1119436 GTAAATTAGCAATATAACCGGTCTAAATATACTAGTTTTTGAGAAAACAGGTGTACACAAAGTAT
66 GTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTAT
* *
1119501 CGACACAAATCAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
131 CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
* *
1119566 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAGCCATAATTATGATGTA
196 AAAGT-TCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTA
* * ** * * * ** *
1119631 ATATGTAAATTAACAATGTAATCATTCTAAATGTACCGCTTTAATTTGAAAACAGGTCAACATAA
260 ATAGGTAAATT-ACAATGTAACCGGTCTAAATATACCGATTT--TTAGAAAACAGGTGTACAAAA
** * * *
1119696 TTTATCGACACAAATAAAATAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGC
322 AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGC
1119761 ACTAAAAAG
387 ACTAAAAAG
* * * *
1119770 TGTTGATACATTTATAACAAGTGCCGATCCCAGAAACATCGAAACCCATAATTATATTGTAATAG
1 TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
*
1119835 GTAAATTAGCAATGTAACCGGTCTAAAT
66 GTAAATTAGCAATATAACCGGTCTAAAT
1119863 GTACTGCTTT
Statistics
Matches: 803, Mismatches: 70, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
384 90 0.11
385 81 0.10
387 1 0.00
390 1 0.00
395 1 0.00
398 456 0.57
399 171 0.21
400 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (395 bp):
TGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAAATTAGCAATATAACCGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAGTAT
CGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
AAAGTTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAA
TAGGTAAATTACAATGTAACCGGTCTAAATATACCGATTTTTAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
AAAAG
Found at i:1120240 original size:15 final size:15
Alignment explanation
Indices: 1120220--1120261 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1120210 TTTCTTAAAG
1120220 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
1120235 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
*
1120250 CTCTTTTCAACC
1 CTCTTCTCAACC
1120262 ACAACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:1121446 original size:3 final size:3
Alignment explanation
Indices: 1121421--1121464 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
1121411 CAAGCGGTCA
* * *
1121421 ATG AAG ATG ACG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1121465 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (3 bp):
ATG
Found at i:1122683 original size:24 final size:24
Alignment explanation
Indices: 1122650--1122707 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1122640 TTTTCATTTC
1122650 ATTTATAATTAGAGTTTGAATTTAA
1 ATTTA-AATTAGAGTTTGAATTTAA
* *
1122675 ATTTAAATTTGATTTTGAATTTAA
1 ATTTAAATTAGAGTTTGAATTTAA
*
1122699 ATGTAAATT
1 ATTTAAATT
1122708 TCGGCTCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAAATTAGAGTTTGAATTTAA
Found at i:1122685 original size:18 final size:18
Alignment explanation
Indices: 1122664--1122700 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1122654 ATAATTAGAG
1122664 TTTGAATTTAAATTTAAA
1 TTTGAATTTAAATTTAAA
* *
1122682 TTTGATTTTGAATTTAAA
1 TTTGAATTTAAATTTAAA
1122700 T
1 T
1122701 GTAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTGAATTTAAATTTAAA
Found at i:1122943 original size:19 final size:20
Alignment explanation
Indices: 1122904--1122943 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
1122894 GCACGAAAAG
*
1122904 AGTGTCGATACATTTAAAACA
1 AGTGTCGATACA-TAAAAACA
1122925 AGTGTCGATAC-TAAAAACA
1 AGTGTCGATACATAAAAACA
1122944 TCAAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AGTGTCGATACATAAAAACA
Found at i:1123368 original size:201 final size:201
Alignment explanation
Indices: 1122885--1123573 Score: 1057
Period size: 200 Copynumber: 3.4 Consensus size: 201
1122875 ATGTATTTCC
* * *
1122885 AAACCAAGTGCACGAA-AAGAGTGTCGATACATTTAAAACAAGTGTCGATACTAAAAACATC-AA
1 AAACCAAGTGCAC-AACAA-AGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAA
* *
1122948 AACACATAGA-TATAATGTAATAGGTAAAATAACAATGTAACCGGTCAAAATATACCGGTTTTTG
64 AA-ACATA-ATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTG
*
1123012 AGAAAACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATAC-TTTTTGTCCAGAG
127 AGAAAACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGAT
1123076 TGT-TTTTAAA
192 TGTATTTT-AA
* *
1123086 AAACCAAGTGCACAACAAAGTTTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
1 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAA
* ** *
1123151 ACATAATTATAATGTAATAGCTAAATTAACAATGTAACAAGTCTAAATATACCGGTTTATGAGAA
66 ACATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAA
* * *
1123216 AACATGTATACATGAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCATATTGTA
131 AACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTA
1123281 TTTTAA
196 TTTTAA
* * **
1123287 AAACCAAGTGGACAACAAAGTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAA
1 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAA
* *
1123352 ACATAATTATAATGTAATAGGTAAATTAGCAATGTAACCGGTCTAAACATACCGGTTTTTGAGAA
66 ACATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAA
* * **
1123417 AACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACA-TTTTGTCCAGATTGTA
131 AACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTA
1123481 TTTTAA
196 TTTTAA
*
1123487 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAA
1 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAA
1123552 ACATAATTATAATGTAATAGGT
66 ACATAATTATAATGTAATAGGT
1123574 CTAAATATAC
Statistics
Matches: 446, Mismatches: 37, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
199 1 0.00
200 244 0.55
201 197 0.44
202 4 0.01
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.27
Consensus pattern (201 bp):
AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAA
ACATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAA
AACAGGTATACATAAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTA
TTTTAA
Found at i:1123684 original size:180 final size:180
Alignment explanation
Indices: 1123382--1123750 Score: 605
Period size: 180 Copynumber: 2.0 Consensus size: 180
1123372 GTAAATTAGC
** * * *
1123382 AATGTAACCGGTCTAAACATACCGGTTT-TTGAGAAAACAGGTGTACAAAAAGTATCGACACAAA
1 AATGTAATAGGTCTAAATATACCGGTTTATT-AGAAAACACGTGTACATAAAGTATCGACACAAA
* *
1123446 TAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTC
65 TCAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
* *
1123511 GATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAAACATAATTAT
130 GATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
* *
1123562 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACACGTGTACATAAAGTATCGACACAAAT
* *
1123627 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
66 CAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
1123692 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
1123742 AATGTAATA
1 AATGTAATA
1123751 AGTAAATTAA
Statistics
Matches: 176, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
180 174 0.99
181 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (180 bp):
AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACACGTGTACATAAAGTATCGACACAAAT
CAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
Found at i:1124084 original size:581 final size:585
Alignment explanation
Indices: 1122981--1124542 Score: 2472
Period size: 581 Copynumber: 2.6 Consensus size: 585
1122971 GTAAAATAAC
** * *
1122981 AATGTAACCGGTCAAAATATACCGGTTT-TTGAGAAAACAGGTATACATAAAGTATCGACACAAA
1 AATGTAATAGGTCTAAATATACCGGTTTATT-AGAAAACATGTATACATAAAGTATCGACACAAA
* * *
1123045 TCCAACAAGTGTCGATACTTTTTGTCCAGAGTGT-TTTTAAAAAACCAAGTGCACAACAAAGTTT
65 TCCAACAAGTGTCGATACATTTTGTCCATATTGTATTTT-AAAAACCAAGTGCACAACAAAGTTT
* *
1123109 CGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAAT-AGCT
129 CGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAG-T
* * *
1123173 AAATTAACAATGTAACAAGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCG
193 AAATTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAAGTATACATGAAGTATCG
* *
1123238 ACACAAATCCAACAAGTGTCGATACATTTTTGTCCATATTGTATTTTAAAAACCAAGTGGACAAC
258 ACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAC
1123303 AAAGTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAAACATAATTATAATGTA
323 AAAGTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAAACATAATTATAATGTA
* * * *
1123368 ATAGGTAAATTAGCAATGTAACCGGTCTAAACATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
388 ATAGGTAAATTAACAATGTAACAGGTCTAAACATACCGGTTTATGAGAAAACAGGTATACAAAAA
1123433 GTATCGACACAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGC
453 GTATCGACACAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGC
* *
1123498 ACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAAACATAA-T-T-
518 ACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATA
1123560 A-T
583 AGT
1123562 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
1123627 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
1123692 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
*
1123757 TTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAGGTATACATGAAGTATCGACA
196 TTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAAGTATACATGAAGTATCGACA
* *
1123822 CAAATCTAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCATAACAAA
261 CAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
* * *
1123887 GTTTCGATACATTTATAACAAGTGTCGATCATGAAAACATCAAAAAATATAATTATAATGTAATA
326 GTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAAACATAATTATAATGTAATA
* * * *
1123952 GGTAAATTAACAATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTA
391 GGTAAATTAACAATGTAACAGGTCTAAACATACCGGTTTATGAGAAAACAGGTATACAAAAAGTA
* *
1124017 TCGACACAAATATAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACA
456 TCGACACAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACA
* * *
1124082 ACAAAGTTTTGATACATTTATAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATG
521 ACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATAA-G
1124147 T
585 T
* *
1124148 AATAGGTAAATTAACAATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGA
1 AAT--GT-AA-T----A-G------GTCTAAATATACCGGTTTATTAGAAAACATGTATACATAA
*
1124213 AGTATCGACACAAATCCAACAAGTGTCAATACATTTTGTCCATATTGTATTTTAAAAACCAAGTG
51 AGTATCGACACAAATCCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTG
*
1124278 CACAACAAAGTTTTGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
116 CACAACAAAGTTTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTAT
* * *
1124343 AATGTAATAGGTAAATTAACAATGTAACCGGTCTAAATATACTAGTTTATGAGAAAACAAGTATA
181 AATGTAATAAGTAAATTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAAGTATA
* * *
1124408 CATGAAGTATCGATACAAATCCAACAAGTGTCGATACATTTTTTTCCAGAGTGTATTTTAAAAAC
246 CATGAAGTATCGACACAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAAC
* **
1124473 CAAGTGCACAACAAAGTTTCGATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACAT
311 CAAGTGCACAACAAAGTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAAACAT
1124538 AATTA
376 AATTA
1124543 AAACCAAATG
Statistics
Matches: 905, Mismatches: 53, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
581 532 0.59
582 9 0.01
583 1 0.00
584 1 0.00
586 4 0.00
588 2 0.00
589 2 0.00
590 1 0.00
594 1 0.00
595 1 0.00
601 351 0.39
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.28
Consensus pattern (585 bp):
AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
TTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAAGTATACATGAAGTATCGACA
CAAATCCAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
GTTTCGATACATTTATAACAAGTGTCGATCCTGAAAACATCGAAAAACATAATTATAATGTAATA
GGTAAATTAACAATGTAACAGGTCTAAACATACCGGTTTATGAGAAAACAGGTATACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACA
ACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCAAAAAACATAATTATAAGT
Found at i:1124152 original size:200 final size:200
Alignment explanation
Indices: 1123562--1124542 Score: 1656
Period size: 200 Copynumber: 4.9 Consensus size: 200
1123552 ACATAATTAT
* * *
1123562 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
1123627 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
*
1123692 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA
1123757 TTAAC
196 TTAAC
* *
1123762 AATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAGGTATACATGAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
* * *
1123827 CTAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCATAACAAAGTTTC
66 CCAACAAGTGTCGATACA-TTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
** * *
1123892 GATACATTTATAACAAGTGTCGATCATGAAAACATCAAAAAATATAATTATAATGTAATAGGTAA
130 GATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAA
1123957 ATTAAC
195 ATTAAC
* *
1123963 AATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
** *
1124028 ATAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
*
1124093 ATACATTTATAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA
1124158 TTAAC
196 TTAAC
*
1124163 AATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
* *
1124228 CCAACAAGTGTCAATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
1124293 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA
1124358 TTAAC
196 TTAAC
* ** * *
1124363 AATGTAACCGGTCTAAATATACTAGTTTATGAGAAAACAAGTATACATGAAGTATCGATACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
* * *
1124428 CCAACAAGTGTCGATACATTTTTTTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
66 CCAACAAGTGTCGATACA-TTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
* *
1124493 GATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTA
130 GATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTA
1124543 AAACCAAATG
Statistics
Matches: 737, Mismatches: 42, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
200 459 0.62
201 278 0.38
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (200 bp):
AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACACAAAT
CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA
TTAAC
Found at i:1124465 original size:401 final size:401
Alignment explanation
Indices: 1123562--1124542 Score: 1667
Period size: 401 Copynumber: 2.4 Consensus size: 401
1123552 ACATAATTAT
* *
1123562 AATGTAATAGGTCTAAATATACCGGTTTATTAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
1123627 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
1123692 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
*
1123757 TTAACAATGTAACAGGTCTAAATATACTGGTTTATGAGAAAACAGGTATACATGAAGTATCGACA
196 TTAACAATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACATGAAGTATCGACA
* * *
1123822 CAAATCTAACAAGTGTCGATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCATAACAAA
261 CAAATCCAACAAGTGTCAATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
* *
1123887 GTTTCGATACATTTATAACAAGTGTCGATCATGAAAACATCAAAAAATATAATTATAATGTAATA
326 GTTTCGATACATTTATAACAAGTGTCGATCACGAAAACATCAAAAAACATAATTATAATGTAATA
1123952 GGTAAATTAAC
391 GGTAAATTAAC
*
1123963 AATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
** *
1124028 ATAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTG
66 CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
* *
1124093 ATACATTTATAACAAGTGTCGATCCCGAAAACATCAAAAAACATAATTATAATGTAATAGGTAAA
131 ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
* *
1124158 TTAACAATGTAACATGTCTAAATATACCGGTTTATGAGAAAACATGTATACATGAAGTATCGACA
196 TTAACAATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACATGAAGTATCGACA
*
1124223 CAAATCCAACAAGTGTCAATACA-TTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAA
261 CAAATCCAACAAGTGTCAATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
* * *
1124287 GTTTTGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATA
326 GTTTCGATACATTTATAACAAGTGTCGATCACGAAAACATCAAAAAACATAATTATAATGTAATA
1124352 GGTAAATTAAC
391 GGTAAATTAAC
* ** * * *
1124363 AATGTAACCGGTCTAAATATACTAGTTTATGAGAAAACAAGTATACATGAAGTATCGATACAAAT
1 AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
* * *
1124428 CCAACAAGTGTCGATACATTTTTTTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
66 CCAACAAGTGTCGATACA-TTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTC
* *
1124493 GATACATTTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTA
130 GATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTA
1124543 AAACCAAATG
Statistics
Matches: 543, Mismatches: 36, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
400 184 0.34
401 359 0.66
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (401 bp):
AATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACATGTATACATAAAGTATCGACACAAAT
CCAACAAGTGTCGATACATTTTGTCCATATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCG
ATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAA
TTAACAATGTAACAGGTCTAAATATACCGGTTTATGAGAAAACAGGTATACATGAAGTATCGACA
CAAATCCAACAAGTGTCAATACATTTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
GTTTCGATACATTTATAACAAGTGTCGATCACGAAAACATCAAAAAACATAATTATAATGTAATA
GGTAAATTAAC
Found at i:1127598 original size:15 final size:15
Alignment explanation
Indices: 1127578--1127608 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1127568 ATATAAGCGC
1127578 TACTTAATATGTTAT
1 TACTTAATATGTTAT
1127593 TACTTAATATGTTAT
1 TACTTAATATGTTAT
1127608 T
1 T
1127609 GTGCTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TACTTAATATGTTAT
Found at i:1128949 original size:22 final size:24
Alignment explanation
Indices: 1128918--1128965 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
1128908 TAAAAAAAAC
1128918 TAATGATAATA-TA-AAATATATA
1 TAATGATAATAGTATAAATATATA
* *
1128940 TAATGCTAATAGTATATATATATA
1 TAATGATAATAGTATAAATATATA
1128964 TA
1 TA
1128966 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 2 0.09
24 10 0.45
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (24 bp):
TAATGATAATAGTATAAATATATA
Found at i:1128957 original size:2 final size:2
Alignment explanation
Indices: 1128952--1128998 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
1128942 ATGCTAATAG
*
1128952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TA AA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1128991 TA TA -A TA T
1 TA TA TA TA T
1128999 TTGGAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
1 4 0.10
2 35 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1130651 original size:105 final size:105
Alignment explanation
Indices: 1130365--1131348 Score: 1680
Period size: 105 Copynumber: 9.4 Consensus size: 105
1130355 GCATCGTTTC
* * * * * * * *
1130365 GAGTCCAATACCCTCCGCTGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATCGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAA
*
1130430 CCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1130471 GAGTCCAATATCCTTCTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAA
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
1130536 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1130577 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1130642 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1130682 GTGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1130747 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1130787 GAGTCCAATATCATTCGTTGTGAAGTAGAAATTGGCTCTGAAATTGAAAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1130852 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1130892 GTGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1130957 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1130997 GAGTCCAATATCATTCGTTGTGAAGTAGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* * *
1131062 CAGCGGTCCCTTCGTTGTGAAGTTGAACATGCGTCGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1131102 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
1131167 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1131207 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
1131272 CAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1131312 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
1131349 TTGGGTAAAA
Statistics
Matches: 827, Mismatches: 50, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
105 717 0.87
106 80 0.10
107 30 0.04
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1142932 original size:16 final size:16
Alignment explanation
Indices: 1142911--1142963 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
1142901 AAATAATAAC
1142911 AATAATAGAAAAAATA
1 AATAATAGAAAAAATA
1142927 AATAAT-G-AAAAATA
1 AATAATAGAAAAAATA
*
1142941 TAATAATA-AAAAAGTA
1 -AATAATAGAAAAAATA
*
1142957 AAGAATA
1 AATAATA
1142964 ATAAGATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 7 0.22
15 13 0.41
16 12 0.38
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (16 bp):
AATAATAGAAAAAATA
Found at i:1142964 original size:37 final size:35
Alignment explanation
Indices: 1142897--1142976 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 35
1142887 TGAGAGAGAG
*
1142897 GAAAAA-ATAATAACAATAATAGAAAAAATAAATAA
1 GAAAAATATAATAACAATAAAAGAAAAAAT-AATAA
* *
1142932 TGAAAAATATAATAATAA-AAAAGTAAAGAATAATAA
1 -GAAAAATATAATAACAATAAAAG-AAAAAATAATAA
1142968 GATAAAATA
1 GA-AAAATA
1142977 CGGATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
35 2 0.05
36 21 0.55
37 15 0.39
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.20
Consensus pattern (35 bp):
GAAAAATATAATAACAATAAAAGAAAAAATAATAA
Found at i:1142999 original size:2 final size:2
Alignment explanation
Indices: 1142980--1143021 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
1142970 TAAAATACGG
*
1142980 AT AT AT A- AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1143019 AT A
1 AT A
1143022 GCATATAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1143027 original size:12 final size:11
Alignment explanation
Indices: 1142980--1143061 Score: 57
Period size: 10 Copynumber: 7.6 Consensus size: 11
1142970 TAAAATACGG
*
1142980 ATATATAATAC
1 ATATATAATAT
1142991 ATA-AT-ATAT
1 ATATATAATAT
1143000 ATATAT-ATAT
1 ATATATAATAT
1143010 ATATATAATAT
1 ATATATAATAT
*
1143021 AGCATATAAGTA-
1 A-TATATAA-TAT
*
1143033 AAATAATAATAT
1 ATAT-ATAATAT
* *
1143045 ACA-ATAATAC
1 ATATATAATAT
1143055 ATATATA
1 ATATATA
1143062 CGAGAGTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
9 6 0.10
10 22 0.38
11 15 0.26
12 13 0.22
13 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
ATATATAATAT
Found at i:1145006 original size:38 final size:38
Alignment explanation
Indices: 1144918--1145098 Score: 233
Period size: 38 Copynumber: 4.8 Consensus size: 38
1144908 GATAATGTTC
* *
1144918 TATTATTTAAGAA-TTATATT-GATTAAAATATGAATA
1 TATTATTTATGAATTTATATTCGATTAAAATAAGAATA
* * * * *
1144954 T-TTATTTACGAATTTATATTTGATTAAAGTATGAAAA
1 TATTATTTATGAATTTATATTCGATTAAAATAAGAATA
* *
1144991 TATTATTTATGAATTTATATTCAATTAAAATAAGAATG
1 TATTATTTATGAATTTATATTCGATTAAAATAAGAATA
* *
1145029 TATTATTTATGAATTTATATTCGATTAAAATAAGTATG
1 TATTATTTATGAATTTATATTCGATTAAAATAAGAATA
*
1145067 TATTATTTATGAATTTATATTGGATTAAAATA
1 TATTATTTATGAATTTATATTCGATTAAAATA
1145099 CAGTATTATA
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
35 10 0.08
36 8 0.06
37 15 0.12
38 96 0.74
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (38 bp):
TATTATTTATGAATTTATATTCGATTAAAATAAGAATA
Found at i:1147836 original size:17 final size:18
Alignment explanation
Indices: 1147814--1147850 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1147804 AAAAAAGAAA
*
1147814 GAAAG-AAAGAAAGTAGT
1 GAAAGAAAACAAAGTAGT
1147831 GAAAGAAAACAAAGTAGT
1 GAAAGAAAACAAAGTAGT
1147849 GA
1 GA
1147851 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.59, C:0.03, G:0.27, T:0.11
Consensus pattern (18 bp):
GAAAGAAAACAAAGTAGT
Found at i:1150249 original size:18 final size:17
Alignment explanation
Indices: 1150209--1150250 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1150199 ACAAAATACA
1150209 ACATTCCCAATAATCTT
1 ACATTCCCAATAATCTT
*
1150226 --ATTCCCTGATAATCTT
1 ACATTCCC-AATAATCTT
1150242 ACATTCCCA
1 ACATTCCCA
1150251 CATGTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 6
0.71 0.07 0.21
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
18 6 0.30
ACGTcount: A:0.31, C:0.31, G:0.02, T:0.36
Consensus pattern (17 bp):
ACATTCCCAATAATCTT
Found at i:1150434 original size:49 final size:49
Alignment explanation
Indices: 1150355--1150449 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 49
1150345 TCATCACGAT
* * **
1150355 CAGGGGCGGACCTCCATGGTGCCTGAGGTATCTCGGGCAACCCCTCATC
1 CAGGGGAGGACCTCCATGGTGCCTGAGGTATCCCAAGCAACCCCTCATC
*
1150404 CAGGGGAGGACCTCCATGGTG-CTCGGGGTATCCCAAGCAACCCCTC
1 CAGGGGAGGACCTCCATGGTGCCT-GAGGTATCCCAAGCAACCCCTC
1150450 CACAAGCGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.05
49 38 0.95
ACGTcount: A:0.18, C:0.35, G:0.31, T:0.17
Consensus pattern (49 bp):
CAGGGGAGGACCTCCATGGTGCCTGAGGTATCCCAAGCAACCCCTCATC
Found at i:1154918 original size:2 final size:2
Alignment explanation
Indices: 1154911--1154937 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1154901 ATGAATCTGC
1154911 AT 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 AT A
1154938 GGTTCCGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1166973 original size:20 final size:21
Alignment explanation
Indices: 1166945--1166991 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1166935 TAGTATGAAT
1166945 AAAAA-TAAAATATCA-A-TAA
1 AAAAATTAAAATAT-ATATTAA
1166964 AAAAATTAAAATATATATTAA
1 AAAAATTAAAATATATATTAA
1166985 AAAAATT
1 AAAAATT
1166992 CTAGAAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 9 0.36
21 10 0.40
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAATTAAAATATATATTAA
Found at i:1167210 original size:23 final size:23
Alignment explanation
Indices: 1167184--1167231 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1167174 ATAAAGTACA
*
1167184 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1167207 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1167230 AT
1 AT
1167232 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1167477 original size:30 final size:29
Alignment explanation
Indices: 1167437--1167503 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
1167427 TCATTTGCAC
* * *
1167437 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
1167467 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
1167496 AATAATAT
1 AA-AATAT
1167504 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:1167689 original size:23 final size:23
Alignment explanation
Indices: 1167659--1167721 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1167649 ATATAACCAC
1167659 TACATATTACATTATATAAACGA
1 TACATATTACATTATATAAACGA
* * *
1167682 TACCTATTACATTATATAAGCGC
1 TACATATTACATTATATAAACGA
*
1167705 TACATATTACATCATAT
1 TACATATTACATTATAT
1167722 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TACATATTACATTATATAAACGA
Found at i:1168199 original size:39 final size:38
Alignment explanation
Indices: 1168145--1168229 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 38
1168135 CAAGTTGTAG
*
1168145 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTAA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAG-TTTAA
**
1168184 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGTTTAA
1168222 ATTTTGAT
1 ATTTTGAT
1168230 GAGCATCGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
38 11 0.26
39 32 0.74
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (38 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGTTTAA
Found at i:1169376 original size:25 final size:25
Alignment explanation
Indices: 1169319--1169384 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
1169309 CACTCAAAAG
* *
1169319 ATGTATATACATAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1169344 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1169369 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
1169385 TTAATGATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1172143 original size:176 final size:176
Alignment explanation
Indices: 1171832--1172237 Score: 635
Period size: 176 Copynumber: 2.3 Consensus size: 176
1171822 AATACCGACC
1171832 TTTTAAATGGTATCGACACATTTTCTTCCAATCTGGAC--AAAGTACCGACACAATATTATAAAG
1 TTTTAAAT-GTATCGACACATTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTATAAAG
* *
1171895 TGTCGATATAGTTGTAGACTTATTCGCTCATAAAACCGGTATATTTATACCGGTTATATTACAAA
65 TGTCGATATAGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAA
* *
1171960 ATTATCTATTACATTATAAATCTGGGTTCCGA-TGTAAATGTCGATACT
130 ATTATCTATTACATTATAAATAT-GGTT-CGAGTGTAAATGTCGACACT
*
1172008 TTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA-AAA
1 TTTTAAAT-GTATCGACACA-TTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTATAAA
1172072 GTGTCGATATAGTTGTAGACCTATTCGCGCATAAAACCGGTATA-TT-TACCGGTTATATTACAA
64 GTGTCGATATAGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAA
*
1172135 AATTATCTATTACATTATAATTATGGTTCGATGTGTAAATGTCGACACT
129 AATTATCTATTACATTATAAATATGGTTCGA-GTGTAAATGTCGACACT
* *
1172184 TTTAACAATGTATCGACATATTTTCTTCCAATCTGGACATAAAGTACCGACACA
1 TTTTA-AATGTATCGACACATTTTCTTCCAATCTGGACATAAAGTACCGACACA
1172238 TCGATATTTT
Statistics
Matches: 214, Mismatches: 10, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
174 3 0.01
175 37 0.17
176 87 0.41
177 22 0.10
178 45 0.21
179 20 0.09
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (176 bp):
TTTTAAATGTATCGACACATTTTCTTCCAATCTGGACATAAAGTACCGACACAATATTATAAAGT
GTCGATATAGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAA
TTATCTATTACATTATAAATATGGTTCGAGTGTAAATGTCGACACT
Found at i:1172519 original size:20 final size:20
Alignment explanation
Indices: 1172494--1172532 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1172484 TCCACAGTGA
*
1172494 AAAAAGTATAGACACTTTAT
1 AAAAAGGATAGACACTTTAT
*
1172514 AAAAAGGATAGATACTTTA
1 AAAAAGGATAGACACTTTA
1172533 CAATATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:1173630 original size:3 final size:3
Alignment explanation
Indices: 1173622--1173663 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
1173612 ACTTGTTTGG
* * *
1173622 ATC ATC ATC TTC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1173664 GCCAGCTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:1173637 original size:9 final size:9
Alignment explanation
Indices: 1173623--1173663 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
1173613 CTTGTTTGGA
1173623 TCATCATCT
1 TCATCATCT
*
1173632 TCATCATCA
1 TCATCATCT
*
1173641 TCATCATCG
1 TCATCATCT
1173650 TCATCATCT
1 TCATCATCT
1173659 TCATC
1 TCATC
1173664 GCCAGCTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.39
Consensus pattern (9 bp):
TCATCATCT
Found at i:1173639 original size:12 final size:12
Alignment explanation
Indices: 1173626--1173737 Score: 98
Period size: 12 Copynumber: 8.9 Consensus size: 12
1173616 GTTTGGATCA
*
1173626 TCATCTTCATCA
1 TCATCTTCATCG
*
1173638 TCATCATCATCG
1 TCATCTTCATCG
1173650 TCATCATCTTCATCG
1 ---TCATCTTCATCG
* * *
1173665 CCAGCTTCACGTCA
1 TCATCTTCA--TCG
1173679 TCATCTTCATCG
1 TCATCTTCATCG
* *
1173691 CCAGCTTCATCG
1 TCATCTTCATCG
*
1173703 TCATCATCATCG
1 TCATCTTCATCG
1173715 TCATCTTCATCG
1 TCATCTTCATCG
*
1173727 TCAGCTTCATC
1 TCATCTTCATC
1173738 TTTCTGCGAC
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
12 59 0.75
14 9 0.11
15 11 0.14
ACGTcount: A:0.21, C:0.36, G:0.09, T:0.35
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:1173645 original size:18 final size:18
Alignment explanation
Indices: 1173622--1173739 Score: 76
Period size: 18 Copynumber: 6.6 Consensus size: 18
1173612 ACTTGTTTGG
1173622 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
*
1173640 ATCATCATCGTCATCATC
1 ATCATCATCTTCATCATC
* ** ** *
1173658 TTCATCGCCAGCTTCA-C
1 ATCATCATCTTCATCATC
* **
1173675 GTCATCATCTTCATCGCC
1 ATCATCATCTTCATCATC
* * *
1173693 AGCTTCATCGTCATCATC
1 ATCATCATCTTCATCATC
* *
1173711 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
1173729 AGCTTCATCTT
1 ATCATCATCTT
1173740 TCTGCGACCG
Statistics
Matches: 73, Mismatches: 26, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
17 10 0.14
18 63 0.86
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:1175526 original size:198 final size:199
Alignment explanation
Indices: 1175170--1175938 Score: 1365
Period size: 198 Copynumber: 3.9 Consensus size: 199
1175160 TTTAAATTAG
1175170 TATCGACACAAACTATA--ACGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
*
1175232 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
1175297 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
1175361 AAAAA
195 AAAAA
1175366 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1175431 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1175496 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACCCTGTTTTCCATTCATTCTAGAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTG--CACCCTGTTTTCCATTCATTCTGGAA
1175561 AAAAAA
194 AAAAAA
* *
1175567 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1175632 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1175697 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1175761 AAAA
196 AAAA
*
1175765 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* * *
1175830 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
1175895 TTGA-AC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1175939 GGCCATATTG
Statistics
Matches: 554, Mismatches: 12, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
196 51 0.09
197 41 0.07
198 226 0.41
199 41 0.07
200 2 0.00
201 193 0.35
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:1176103 original size:19 final size:19
Alignment explanation
Indices: 1176057--1176105 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1176047 TTATATTCAC
*
1176057 ATACAAAAATATAAATTGT
1 ATACAAAATTATAAATTGT
1176076 ATACAAAATTATAAATCT-T
1 ATACAAAATTATAAAT-TGT
1176095 ATACAAAATTA
1 ATACAAAATTA
1176106 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATTGT
Found at i:1176605 original size:37 final size:40
Alignment explanation
Indices: 1176524--1176608 Score: 140
Period size: 37 Copynumber: 2.2 Consensus size: 40
1176514 CTTCTTATGC
1176524 TCCACAAATTTGAAATTTTTCAAGGGATACTTTCCTAGAGA
1 TCCAC-AATTTGAAATTTTTCAAGGGATACTTTCCTAGAGA
1176565 TCCACAA-TTGAAA-TTTTCAAGGGATAC-TTCCTAGAGA
1 TCCACAATTTGAAATTTTTCAAGGGATACTTTCCTAGAGA
1176602 TCCACAA
1 TCCACAA
1176609 GACTCACCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
37 17 0.39
38 14 0.32
39 6 0.14
40 2 0.05
41 5 0.11
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (40 bp):
TCCACAATTTGAAATTTTTCAAGGGATACTTTCCTAGAGA
Found at i:1177961 original size:33 final size:33
Alignment explanation
Indices: 1177924--1177989 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1177914 CATCTTAATA
*
1177924 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1177957 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1177990 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1178047 original size:21 final size:20
Alignment explanation
Indices: 1178022--1178085 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
1178012 CCCCTTATGC
*
1178022 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGT-TCTCTTCGACT
* *
1178043 CTCTCGAGTTCTCTACGACT
1 CTCTCAAGTTCTCTTCGACT
**
1178063 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAG-TTCTCTTCGACT
1178084 CT
1 CT
1178086 TGATTGTCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (20 bp):
CTCTCAAGTTCTCTTCGACT
Found at i:1180361 original size:19 final size:19
Alignment explanation
Indices: 1180306--1180352 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
1180296 ATCCGGTATC
1180306 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
1180325 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
1180345 ATTTTACC
1 ATTTTACC
1180353 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:1180574 original size:179 final size:180
Alignment explanation
Indices: 1180274--1180741 Score: 697
Period size: 179 Copynumber: 2.6 Consensus size: 180
1180264 CGTACTTACG
* * *
1180274 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1180339 TATCATATTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTAAAGTATCGACACATTATAG
66 TATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATAG
* *
1180404 GCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
1180453 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1180518 TATCATATTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACTTTATAG
66 TATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATAG
** *
1180583 GATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * *
1180633 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTGACCGGTTTTATCATTTCT-ATATCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* *
1180697 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTT
65 TTATCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTT
1180742 AATTTGGATC
Statistics
Matches: 261, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
179 165 0.63
180 61 0.23
181 35 0.13
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (180 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATAG
GAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:1181195 original size:222 final size:221
Alignment explanation
Indices: 1180808--1181282 Score: 789
Period size: 222 Copynumber: 2.1 Consensus size: 221
1180798 ACATACTTTT
*
1180808 ATAAGTATGGAACACTTTTATAAAAATGATATATTTTTTTAAAGTTATGTAATTTATGTTTCAAT
1 ATAAGTATGG-ACACTTTTATAAAAATGATATATTTTTTGAAAGTTA-GTAATTTATGTTTCAAT
1180873 TTTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTAATTTACACAAAATAT
64 TTTTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTAATTTACACAAAATAT
*
1180938 TATTTGATTGTTTTGATATTTTATAAATATTATTTAGAA-TTTAAATTTAACAATATTAAC-CAA
129 TATTTGATTGTTTTGATATTTTATAAATATTATTTA-AATTTTAAATTTAACAATATTAACTAAA
* *
1181001 TATAATAATAAATATGTTTTCAACAGTGAA
193 GATAATAATAAATATATTTTC-ACAGTGAA
1181031 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTGAAAGTTA-TAATTTATGTTTCAAT
1 ATAAGTATGGACACTTTTATAAAAATGATATAT--TTTTTGAAAGTTAGTAATTTATGTTTCAAT
*
1181095 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA-A
64 TTTTTAATAGTGTTTCATGTTTTCCA-CTACAATATTAATTTAATAATTTAATTTACACAAAATA
1181159 TTA-TTGATTGTTTTGATATTTTATAAAATATTATTTAAATTTTAAATTTAACAATATTAACTAA
128 TTATTTGATTGTTTTGATATTTTAT-AAATATTATTTAAATTTTAAATTTAACAATATTAACTAA
1181223 AGATAATAATAAATATATTTTCACAGTGAA
192 AGATAATAATAAATATATTTTCACAGTGAA
*
1181253 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
1181283 GATAATTTAC
Statistics
Matches: 240, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
221 23 0.10
222 139 0.58
223 66 0.28
224 12 0.05
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (221 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATTTTTTGAAAGTTAGTAATTTATGTTTCAATTT
TTTAATAGTGTTTCATGTTTTCCACTACAATATTAATTTAATAATTTAATTTACACAAAATATTA
TTTGATTGTTTTGATATTTTATAAATATTATTTAAATTTTAAATTTAACAATATTAACTAAAGAT
AATAATAAATATATTTTCACAGTGAA
Found at i:1195233 original size:60 final size:60
Alignment explanation
Indices: 1195115--1195230 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 60
1195105 ATCTTTAAAC
* ** *
1195115 TATGACTATCATTCTAAATTAGTCTTCAAACTTTTGAAAATTTCAATTTCATCCCCAAAT
1 TATGACTATCATCCTAAATTAGTCCCCAAACTTTTGAAAATTCCAATTTCATCCCCAAAT
* * * *
1195175 TATGACCT-TCATCCTAAATTAGTCCCCAAATTTTTTTAATATTCCAATTTTATCCC
1 TATGA-CTATCATCCTAAATTAGTCCCCAAA-CTTTTGAAAATTCCAATTTCATCCC
1195231 AAACTATACA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
60 24 0.52
61 22 0.48
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
TATGACTATCATCCTAAATTAGTCCCCAAACTTTTGAAAATTCCAATTTCATCCCCAAAT
Found at i:1195432 original size:59 final size:60
Alignment explanation
Indices: 1195351--1195466 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 60
1195341 ATATATTTGG
* *** **
1195351 ATGAAATTGGAAGATTCAAAAGTTTGGGGACTAATTTAAA-TGAGGGTTATAGTTTAAGA
1 ATGAAATTAGAAGATTCAAAAGTTTAAAGACTAATTTAAAGTGAGAATTATAGTTTAAGA
* * *
1195410 ATGAAATTAGAATATTTAAAAGTTTAAAGACTTATTTAAAGTGAGAATTATAGTTTA
1 ATGAAATTAGAAGATTCAAAAGTTTAAAGACTAATTTAAAGTGAGAATTATAGTTTA
1195467 GAAAAATATA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
59 33 0.70
60 14 0.30
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (60 bp):
ATGAAATTAGAAGATTCAAAAGTTTAAAGACTAATTTAAAGTGAGAATTATAGTTTAAGA
Found at i:1196199 original size:27 final size:27
Alignment explanation
Indices: 1196158--1196214 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
1196148 AAATATTTAA
*
1196158 AATATATTTATTAATATTTCTAATAATAT
1 AATATATTTATTAATA-TTATAATAA-AT
1196187 AATATA-TT-TTAATATTATAATAAAT
1 AATATATTTATTAATATTATAATAAAT
1196212 AAT
1 AAT
1196215 CAATTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 8 0.30
27 6 0.22
28 2 0.07
29 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AATATATTTATTAATATTATAATAAAT
Found at i:1196205 original size:18 final size:19
Alignment explanation
Indices: 1196171--1196208 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1196161 ATATTTATTA
1196171 ATATTTCTAATAATATAAT
1 ATATTTCTAATAATATAAT
*
1196190 ATATTT-TAATATTATAAT
1 ATATTTCTAATAATATAAT
1196208 A
1 A
1196209 AATAATCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTCTAATAATATAAT
Found at i:1196367 original size:27 final size:27
Alignment explanation
Indices: 1196287--1196367 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
1196277 AATAAAATTT
* *
1196287 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
1196314 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
*
1196341 ATATTATTTATATATTTAATATTAATA
1 ATATTATTTATATATTTAATATAAATA
1196368 TAATCTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 24 0.56
28 10 0.23
29 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:1196409 original size:23 final size:22
Alignment explanation
Indices: 1196383--1196433 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
1196373 TAATATATTT
1196383 TAATAAAGATATTTAAAATATA
1 TAATAAAGATATTTAAAATATA
* * *
1196405 CTAATTAATATTTTTAAAATATA
1 -TAATAAAGATATTTAAAATATA
1196428 TAATAA
1 TAATAA
1196434 TTACTTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATATTTAAAATATA
Found at i:1196470 original size:25 final size:25
Alignment explanation
Indices: 1196442--1196489 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
1196432 AATTACTTTA
* *
1196442 ATAAATTAATATTTATTAATAAAAT
1 ATAAAATAATATTTAATAATAAAAT
1196467 ATAAAATAATATTTAATAATAAA
1 ATAAAATAATATTTAATAATAAA
1196490 TAAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATAATATTTAATAATAAAAT
Found at i:1196498 original size:40 final size:42
Alignment explanation
Indices: 1196419--1196498 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
1196409 TTAATATTTT
* * *
1196419 TAAAATATATAATAATTACTTTAATAAATTAATATTTATTAA
1 TAAAATATAAAATAATTACTTTAATAAATAAATAATTATTAA
1196461 TAAAATATAAAATAA-TA-TTTAAT-AATAAATAAATTATT
1 TAAAATATAAAATAATTACTTTAATAAATAAAT-AATTATT
1196499 TTAATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.18
40 12 0.35
41 2 0.06
42 14 0.41
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (42 bp):
TAAAATATAAAATAATTACTTTAATAAATAAATAATTATTAA
Found at i:1196669 original size:15 final size:14
Alignment explanation
Indices: 1196634--1196665 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1196624 TAAACATCGT
*
1196634 AAAACGTTTTTCAG
1 AAAATGTTTTTCAG
1196648 AAAATGTTTTTCAG
1 AAAATGTTTTTCAG
1196662 AAAA
1 AAAA
1196666 ATGTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (14 bp):
AAAATGTTTTTCAG
Found at i:1204094 original size:30 final size:31
Alignment explanation
Indices: 1204060--1204122 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
1204050 GGGTATGAAC
* *
1204060 AAAAT-ACTTTGAAT-ATCTATTTTTATTAAA
1 AAAATAACTTTAAATAAT-TATTTTAATTAAA
1204090 AAAATAACTTTAAATAATTATTTTAATTAAA
1 AAAATAACTTTAAATAATTATTTTAATTAAA
1204121 AA
1 AA
1204123 CACTTAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 22 0.76
32 2 0.07
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (31 bp):
AAAATAACTTTAAATAATTATTTTAATTAAA
Found at i:1206276 original size:2 final size:2
Alignment explanation
Indices: 1206269--1206312 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1206259 ACCATATAAG
1206269 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
1206311 AT
1 AT
1206313 TTCTTCATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1221596 original size:13 final size:14
Alignment explanation
Indices: 1221577--1221609 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
1221567 ATGCTATTAA
1221577 AATTTTAAAATTTT
1 AATTTTAAAATTTT
1221591 -ATTTTAAAATTTT
1 AATTTTAAAATTTT
1221604 AATTTT
1 AATTTT
1221610 TTATATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTTAAAATTTT
Found at i:1224397 original size:24 final size:23
Alignment explanation
Indices: 1224355--1224402 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1224345 TCGAGGTAGA
1224355 TTTATTCATTTAAGAGCTTAAGGG
1 TTTATTCATTTAAGAGCTT-AGGG
*
1224379 TTTATTCATTCT-AGGGCTTAGGG
1 TTTATTCATT-TAAGAGCTTAGGG
1224402 T
1 T
1224403 ATTTTGAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 16 0.73
25 1 0.05
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (23 bp):
TTTATTCATTTAAGAGCTTAGGG
Found at i:1225306 original size:19 final size:21
Alignment explanation
Indices: 1225282--1225329 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1225272 ATATACATTT
1225282 TATGAACAGT-AA-AATACGG
1 TATGAACAGTGAATAATACGG
**
1225301 TATGAACAGTGAATAATATTG
1 TATGAACAGTGAATAATACGG
1225322 TATGAACA
1 TATGAACA
1225330 ATAATGAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 2 0.08
21 13 0.52
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (21 bp):
TATGAACAGTGAATAATACGG
Found at i:1225410 original size:23 final size:21
Alignment explanation
Indices: 1225392--1225434 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1225382 ATTGCTTGAG
1225392 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGATT-CCCTGCTACA
*
1225414 GGGTACCGATTCCCTGCTACA
1 GGGAACCGATTCCCTGCTACA
1225435 ATACTTTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.21, C:0.35, G:0.23, T:0.21
Consensus pattern (21 bp):
GGGAACCGATTCCCTGCTACA
Found at i:1227285 original size:37 final size:38
Alignment explanation
Indices: 1227239--1227310 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
1227229 TTGGTCAAGG
1227239 TCAACAGTCAAC-GATCAAAGTCAAAGTCAACGGGTAGT
1 TCAACAGTCAACGGATC-AAGTCAAAGTCAACGGGTAGT
* * *
1227277 TCAA-AGTCAACGGTTCAGGTCAAGGTCAACGGGT
1 TCAACAGTCAACGGATCAAGTCAAAGTCAACGGGT
1227311 CAGACCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (38 bp):
TCAACAGTCAACGGATCAAGTCAAAGTCAACGGGTAGT
Found at i:1227304 original size:19 final size:19
Alignment explanation
Indices: 1227231--1227313 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
1227221 TTGACTTTTT
1227231 GGTCAAGGTCAACAGTCAAC-
1 GGTC-AGGTCAA-AGTCAACG
* *
1227251 GATCAAAGTCAAAGTCAACG
1 GGTC-AGGTCAAAGTCAACG
*
1227271 GGT-AGTTCAAAGTCAACG
1 GGTCAGGTCAAAGTCAACG
* *
1227289 GTTCAGGTCAAGGTCAACG
1 GGTCAGGTCAAAGTCAACG
1227308 GGTCAG
1 GGTCAG
1227314 ACCTTTCAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
18 15 0.29
19 25 0.48
20 12 0.23
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (19 bp):
GGTCAGGTCAAAGTCAACG
Found at i:1227934 original size:32 final size:32
Alignment explanation
Indices: 1227891--1227967 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
1227881 GGATAATTTT
* *
1227891 TTTTTGGGATTTTCTCAAGTTGGGTATTTCGA
1 TTTTGGGGATTTTCACAAGTTGGGTATTTCGA
* * *
1227923 TTTTGGGGATTTTCACAAGTTGGTTGTTTTGA
1 TTTTGGGGATTTTCACAAGTTGGGTATTTCGA
1227955 TTTTGGGGATTTT
1 TTTTGGGGATTTT
1227968 GGATATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.14, C:0.06, G:0.27, T:0.52
Consensus pattern (32 bp):
TTTTGGGGATTTTCACAAGTTGGGTATTTCGA
Found at i:1228596 original size:15 final size:15
Alignment explanation
Indices: 1228576--1228607 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1228566 AATCAATGTT
1228576 TACAAAGTTTATGGA
1 TACAAAGTTTATGGA
1228591 TACAAAGTTTATGGA
1 TACAAAGTTTATGGA
1228606 TA
1 TA
1228608 ATGATGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (15 bp):
TACAAAGTTTATGGA
Found at i:1229759 original size:17 final size:17
Alignment explanation
Indices: 1229737--1229770 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1229727 CATACTTTTT
1229737 TTTTAAATATTT-AATAA
1 TTTTAAAT-TTTCAATAA
1229754 TTTTAAATTTTCAATAA
1 TTTTAAATTTTCAATAA
1229771 GACGAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTAAATTTTCAATAA
Found at i:1230680 original size:3 final size:3
Alignment explanation
Indices: 1230674--1230717 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
1230664 TTACGAACAA
1230674 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1230718 GTAGCAGACG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.