Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 23 of 52
Found at i:3549970 original size:33 final size:33
Alignment explanation
Indices: 3549914--3549982 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
3549904 CTACCACTGT
3549914 TTGTATCGATACATGGCACATTGTATC-AGTACA
1 TTGTATCGATACATGGCACATTGTATCGA-TACA
3549947 TTGTATCGATACATGATG-A-ATTGTATCGATACA
1 TTGTATCGATACATG--GCACATTGTATCGATACA
3549980 TTG
1 TTG
3549983 CTTCAAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
33 30 0.91
34 2 0.06
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGGCACATTGTATCGATACA
Found at i:3551218 original size:19 final size:18
Alignment explanation
Indices: 3551194--3551259 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
3551184 TTTATCCAAA
3551194 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
3551213 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
3551226 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGT-T
3551245 TGTATCGATACATAA
1 TGTATCGATACATAA
3551260 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:3551230 original size:32 final size:32
Alignment explanation
Indices: 3551192--3551256 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
3551182 AATTTATCCA
*
3551192 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
3551224 AATGTATCGATACATAAGTATTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
3551256 A
1 A
3551257 TAATTAGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:3551231 original size:13 final size:13
Alignment explanation
Indices: 3551213--3551237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3551203 ACATAAGTTT
3551213 TGTATCGATACAA
1 TGTATCGATACAA
3551226 TGTATCGATACA
1 TGTATCGATACA
3551238 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3551317 original size:13 final size:13
Alignment explanation
Indices: 3551299--3551324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3551289 CATTTTTCTG
3551299 TGTATCGATACAT
1 TGTATCGATACAT
3551312 TGTATCGATACAT
1 TGTATCGATACAT
3551325 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3551321 original size:33 final size:33
Alignment explanation
Indices: 3551279--3551345 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3551269 GCCAAGGAAA
***
3551279 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3551312 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3551345 T
1 T
3551346 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3553746 original size:51 final size:53
Alignment explanation
Indices: 3553677--3553807 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
3553667 AGTTTATCAA
* * * * *
3553677 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
3553728 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
3553782 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
3553808 CCCGTTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:3553948 original size:51 final size:53
Alignment explanation
Indices: 3553822--3553994 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 53
3553812 TTATTTCCGA
*
3553822 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * * *
3553874 GGGGATACTTCAA-TCCTGGTTTTATTTTC-AAGACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * *
3553925 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGC---TAAAACACTAATTT-TTCCACAATC
3553981 GGGGATACTCCAAC
1 GGGGATACTCCAAC
3553995 CCCGTTATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
51 35 0.35
52 31 0.31
53 2 0.02
55 8 0.08
56 21 0.21
57 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
Found at i:3554069 original size:187 final size:185
Alignment explanation
Indices: 3553680--3554069 Score: 608
Period size: 187 Copynumber: 2.1 Consensus size: 185
3553670 TTATCAATTC
* *
3553680 TCCACAATCGTGGATA-TTCCAACTCC-GATTTTATTTTCAAAACACTAATTTTCTATAATCGGG
1 TCCACAATCGAGGATACTT-CAA-TCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGG
*
3553743 GATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* * *
3553808 CCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTT
129 CCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
* *
3553865 TCCACAATCGGGGATACTTCAATCCTGGTTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
3553930 TACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
66 TACTCCAACTCCGATTTTATTTCC--AAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
*
3553995 CCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTC-CAAAAATACCAATTTT
129 CCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTA--TCGCAAAAACACCAATTTT
*
3554053 T-CACAGTCGAGGATACT
1 TCCACAATCGAGGATACT
3554070 CCGACCTCGT
Statistics
Matches: 189, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
184 3 0.02
185 78 0.41
186 2 0.01
187 90 0.48
188 14 0.07
189 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (185 bp):
TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
Found at i:3554095 original size:28 final size:28
Alignment explanation
Indices: 3554063--3554134 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
3554053 TCACAGTCGA
* * * **
3554063 GGATACTCCGACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
3554091 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
3554119 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
3554135 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:3554098 original size:80 final size:82
Alignment explanation
Indices: 3553922--3554102 Score: 258
Period size: 80 Copynumber: 2.2 Consensus size: 82
3553912 ATTTTCTATA
*
3553922 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTTCACAATCGGGGAT
1 ATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAAAACACCAATTTCTTCACAATCGAGGAT
3553987 ACTCCAACCCCGTTATTTC
64 ACTCCAACCCCGTTATTTC
*** * *
3554006 CGAGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATAC
1 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
* *
3554069 TCCGACCTCGTTATTTC
66 TCCAACCCCGTTATTTC
3554086 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
3554103 CCCGTTACTT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 44 0.51
81 13 0.15
84 29 0.34
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (82 bp):
ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
TCCAACCCCGTTATTTC
Found at i:3554194 original size:108 final size:108
Alignment explanation
Indices: 3553978--3554216 Score: 293
Period size: 107 Copynumber: 2.2 Consensus size: 108
3553968 TTTCTTCACA
* * *
3553978 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
* * * *
3554043 TACCAATTTTTCACAGTCGAGGATACTCCGACCTCGTTATTTC
66 TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
* *
3554086 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
*** * * *
3554150 TATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTC
66 TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTA-TTTC
* * *
3554194 A-AGGGAACACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
3554217 TTATCTCCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
107 56 0.50
108 56 0.50
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (108 bp):
ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
Found at i:3554227 original size:79 final size:80
Alignment explanation
Indices: 3554089--3554243 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
3554079 TTATTTCATC
* * * *
3554089 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAACATT
*
3554154 -GATTTCTCATAATT
66 AAATTTCTCATAATT
* * *
3554168 GGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAACA
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCT-TTATTC-CCAAAACA
3554231 TTAAATTTCTCAT
64 TTAAATTTCTCAT
3554244 CGGGAAATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 4 0.06
79 52 0.80
80 9 0.14
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAACATT
AAATTTCTCATAATT
Found at i:3558229 original size:13 final size:13
Alignment explanation
Indices: 3558211--3558236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3558201 CAACTTTATG
3558211 TGTATCGATACAT
1 TGTATCGATACAT
3558224 TGTATCGATACAT
1 TGTATCGATACAT
3558237 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3559040 original size:45 final size:46
Alignment explanation
Indices: 3558977--3559067 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
3558967 TCCCCCTTAA
* *
3558977 TAAGGTAATATCAAAAAATTTATTTTCACATACATGCATCTATTCT
1 TAAGGTAATATCAAAAAATTTATTTGCACATACATACATCTATTCT
3559023 TAAGGTAATATC-AAAAATTTATTTGCACATACATACATCTATTCT
1 TAAGGTAATATCAAAAAATTTATTTGCACATACATACATCTATTCT
3559068 CTCCCCCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 31 0.72
46 12 0.28
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (46 bp):
TAAGGTAATATCAAAAAATTTATTTGCACATACATACATCTATTCT
Found at i:3560847 original size:13 final size:13
Alignment explanation
Indices: 3560829--3560866 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
3560819 ATAATCCTCC
3560829 TGTATCGATACAG
1 TGTATCGATACAG
*
3560842 TGTATCGATACAT
1 TGTATCGATACAG
3560855 TGTATCGATACA
1 TGTATCGATACA
3560867 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:3562962 original size:15 final size:15
Alignment explanation
Indices: 3562942--3562972 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3562932 ATTTCGTTTG
*
3562942 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3562957 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3562972 G
1 G
3562973 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3567049 original size:13 final size:13
Alignment explanation
Indices: 3567031--3567056 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3567021 CAACTTTATG
3567031 TGTATCGATACAT
1 TGTATCGATACAT
3567044 TGTATCGATACAT
1 TGTATCGATACAT
3567057 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3569584 original size:13 final size:13
Alignment explanation
Indices: 3569566--3569592 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3569556 TACAAAGATT
3569566 AATGTATCGATAC
1 AATGTATCGATAC
3569579 AATGTATCGATAC
1 AATGTATCGATAC
3569592 A
1 A
3569593 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3569589 original size:33 final size:33
Alignment explanation
Indices: 3569547--3569612 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3569537 AAATTCCCAG
*
3569547 ATGTATCGATACAAAGATTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
**
3569580 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
3569613 TTTCCTTGGC
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:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:3570583 original size:49 final size:49
Alignment explanation
Indices: 3570469--3570894 Score: 305
Period size: 49 Copynumber: 8.7 Consensus size: 49
3570459 GAAGAATGCT
** * * * * *
3570469 AATGTGCTGAGACAAGGCCACCAACATTGGGCTTAGAAATGTTAAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATG---AAGGTGCC
* * * * * *
3570521 AATATGCTAATTCAAGACTAGTGATATTGGGCTTAAAAATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
* * * * *
3570570 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACGTAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
* *
3570619 GATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
** * * * *
3570658 AATGTGCTGATTCAAGGCCAATGATATTGGTCTTAAAGACGAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
* * **
3570707 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAGGACAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAA-A--ATGAAGGTGCC
* * * *
3570759 AATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
* * * * * * **
3570808 AATGTGCTGATTTAAGGCCAACAACATTTGACTTAAAGGTGACAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATG---AAGGTGCC
* *
3570860 AATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA
3570895 GAAGAAGATG
Statistics
Matches: 298, Mismatches: 60, Indels: 32
0.76 0.15 0.08
Matches are distributed among these distances:
39 31 0.10
40 1 0.00
41 1 0.00
47 1 0.00
48 1 0.00
49 153 0.51
52 110 0.37
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGAAGGTGCC
Found at i:3570715 original size:88 final size:88
Alignment explanation
Indices: 3570565--3570741 Score: 273
Period size: 88 Copynumber: 2.0 Consensus size: 88
3570555 AAAAATGAAG
* * *
3570565 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACGTAGGTGCCGATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACGAAGGTGCCAATATGCTGAT
* *
3570630 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGACATTGGACTT
* * * *
3570653 ATGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTTAAAGACGAAGGTGCTAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACGAAGGTGCCAATATGCTGAT
3570718 TCAAGGCCAGCGACATTGGACTT
66 TCAAGGCCAGCGACATTGGACTT
3570741 A
1 A
3570742 AAGAGGACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (88 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGACATTGGACTT
Found at i:3570775 original size:52 final size:52
Alignment explanation
Indices: 3570654--3570899 Score: 290
Period size: 52 Copynumber: 4.8 Consensus size: 52
3570644 ATTGGGCTTA
** * *
3570654 TGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTT-AA-A-GACGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGGACAAAGG
* *
3570703 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAGGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGGACAAAGG
* * *
3570755 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG---AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGGACAAAGG
* * * * *
3570804 TGCCAATGTGCTGATTTAAGGCCAACAACATTTGACTTAAAG-GTGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAG-GACAAAGG
*
3570856 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
3570900 AGATGCCACC
Statistics
Matches: 164, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
49 74 0.45
50 2 0.01
51 1 0.01
52 84 0.51
53 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAGGACAAAGG
Found at i:3570835 original size:101 final size:101
Alignment explanation
Indices: 3570654--3570899 Score: 368
Period size: 101 Copynumber: 2.4 Consensus size: 101
3570644 ATTGGGCTTA
* ** * *
3570654 TGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTTAAAGACGAAGGTGCTAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAAGGTGCCAATGTGCTGATT
* *
3570719 CAAGGCCAGCGACATTGGACTTAAAGAG-GACAAAGG
66 CAAGGCCAACAACATTGGACTTAAAG-GTGACAAAGG
* *
3570755 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAAGGTGCCAATGTGCTGATT
* *
3570820 TAAGGCCAACAACATTTGACTTAAAGGTGACAAAGG
66 CAAGGCCAACAACATTGGACTTAAAGGTGACAAAGG
3570856 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
3570900 AGATGCCACC
Statistics
Matches: 131, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 126 0.96
102 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAAGGTGCCAATGTGCTGATT
CAAGGCCAACAACATTGGACTTAAAGGTGACAAAGG
Found at i:3570976 original size:28 final size:27
Alignment explanation
Indices: 3570944--3571238 Score: 297
Period size: 29 Copynumber: 10.4 Consensus size: 27
3570934 TTGCACCAAA
*
3570944 TTGTGTGCTTTTGAAGGTTGCCACT-ACC
1 TTGTGGGC-TTTGAAGGTTGCCACTGA-C
3570972 TTGTGGGCTTTGAAGGTTGCCACTGAC
1 TTGTGGGCTTTGAAGGTTGCCACTGAC
* ** *
3570999 TTGTGGACTTTGAAAATGTGCCACTAAC
1 TTGTGGGCTTTGAAGGT-TGCCACTGAC
3571027 TTGTGGGCTTTTGAAGGTTGCCACTGAC
1 TTGTGGGC-TTTGAAGGTTGCCACTGAC
3571055 TTGTGGGCTTTGAAAAGG-TGCCACTGAC
1 TTGTGGGCTTTG--AAGGTTGCCACTGAC
* * *
3571083 TTATGGGCTTTTGAAAAGATGCCACTGAC
1 TTGTGGGC-TTTG-AAGGTTGCCACTGAC
* *
3571112 TTGTGGGCTTTGACAAGGGTGCCACTAAC
1 TTGTGGGCTTTG--AAGGTTGCCACTGAC
* * *
3571141 TTGTGGGCTTTGAAGGGGGTGCCACCGAT
1 TTGTGGGCTTTGAA--GGTTGCCACTGAC
*
3571170 TTATGGGCTTCTGAAGGTTGCCACTGAC
1 TTGTGGGCTT-TGAAGGTTGCCACTGAC
* *
3571198 TTGTGGGCTTTTGAAAAGATGCCACTGAC
1 TTGTGGGC-TTTG-AAGGTTGCCACTGAC
3571227 TTGTGGGCTTTG
1 TTGTGGGCTTTG
3571239 GAAAGTGAGG
Statistics
Matches: 228, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
27 37 0.16
28 89 0.39
29 98 0.43
30 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (27 bp):
TTGTGGGCTTTGAAGGTTGCCACTGAC
Found at i:3571153 original size:57 final size:57
Alignment explanation
Indices: 3570916--3571243 Score: 337
Period size: 57 Copynumber: 5.8 Consensus size: 57
3570906 CACCAACTTG
* ** * * * *
3570916 TGTGGGCTTTTGAAAGGGTTG-CACCAAATTGTGTGCTTTTG-AAGGTTGCCACTACCT
1 TGTGGGCTTTTGAAA-GGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACT
* * **
3570973 TGTGGGC-TTTG-AAGGTTGCCACTGACTTGTGGACTTTGAAAATGTGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
3571028 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
3571084 TATGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGACAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAACT
* * * * * * *
3571142 TGTGGGC-TTTGAAGGGGGTGCCACCGATTTATGGGCTTCTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAA-AGGATGCCACTGACTTGTGGGCTT-TGAAAGGGTGCCACTAACT
*
3571199 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAG
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAG
3571244 TGAGGAAAGT
Statistics
Matches: 229, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
54 9 0.04
55 31 0.14
56 61 0.27
57 79 0.34
58 47 0.21
59 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:3572794 original size:51 final size:51
Alignment explanation
Indices: 3572724--3573000 Score: 260
Period size: 51 Copynumber: 5.3 Consensus size: 51
3572714 TGAAAATAAT
*
3572724 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * * **
3572775 GGGGTTGAAGTATCTCCGATTGTGAGAAATCAATATTTTGGAAATAAAGAT
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* ** ** **
3572826 GGGGTTGGAGTAT-CCC--TT-CG-GAAAT-AACGGGGTTGGAGTATCCCCAATGAAATAAC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAA---TATTTTAG-A-----AAT-AAA-GCC
*
3572882 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
3572933 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
3572984 AGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3573001 AAAATAACGG
Statistics
Matches: 180, Mismatches: 29, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
45 2 0.01
46 5 0.03
47 1 0.01
48 5 0.03
49 1 0.01
50 2 0.01
51 121 0.67
52 2 0.01
53 3 0.02
54 3 0.02
55 3 0.02
56 14 0.08
57 3 0.02
58 1 0.01
59 6 0.03
60 1 0.01
61 5 0.03
62 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:3572861 original size:28 final size:28
Alignment explanation
Indices: 3572826--3572898 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
3572816 AAATAAAGAT
***
3572826 GGGGTTGGAGTATCCCTTCGGAAATAAC
1 GGGGTTGGAGTATCCCCAAGGAAATAAC
*
3572854 GGGGTTGGAGTATCCCCAATGAAATAAC
1 GGGGTTGGAGTATCCCCAAGGAAATAAC
3572882 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3572899 GATTGTGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCAAGGAAATAAC
Found at i:3572989 original size:158 final size:154
Alignment explanation
Indices: 3572695--3573067 Score: 575
Period size: 158 Copynumber: 2.4 Consensus size: 154
3572685 AAAATAAAAT
* * *
3572695 CGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
3572760 TTTAGAAATAAGGCCGGGGTTGAAGTATCTCCGATTGTGAGAAATCAATATTTTGGAAATAAAGA
65 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGA
** *
3572825 TGGGGTTGGAGTATCCCTTCGGAAATAA
130 CAGGGTTGGAGTATCCC--C-AAAATAA
3572853 CGGGGTTGGAGTATCCCCAATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCC-ATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
3572918 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
65 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGA
3572983 CAGGGTTGGAGTATCCCCAAAATAA
130 CAGGGTTGGAGTATCCCCAAAATAA
**
3573008 CGGGGTTGGAGTATCCCCGATGAAATAATCGAAGTTGGAGTATCCCCCGATTGTGGAGAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA-CGGGGTTGGAGTAT-CCCCGATTGT-GAGAA
3573068 TTGGTGTTTT
Statistics
Matches: 200, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
155 33 0.17
156 13 0.06
157 10 0.05
158 142 0.71
159 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (154 bp):
CGGGGTTGGAGTATCCCCATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
TTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGAC
AGGGTTGGAGTATCCCCAAAATAA
Found at i:3573015 original size:25 final size:28
Alignment explanation
Indices: 3572985--3573054 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 28
3572975 AATAAAGCCA
3572985 GGGTTGGAGTATCCCC-A-AAATAA-CG
1 GGGTTGGAGTATCCCCGAGAAATAATCG
3573010 GGGTTGGAGTATCCCCGATGAAATAATCG
1 GGGTTGGAGTATCCCCGA-GAAATAATCG
**
3573039 AAGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3573055 CGATTGTGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 16 0.41
26 1 0.03
28 6 0.15
29 16 0.41
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGAAATAATCG
Found at i:3573046 original size:29 final size:25
Alignment explanation
Indices: 3572987--3573054 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 25
3572977 TAAAGCCAGG
**
3572987 GTTGGAGTATCCCCAAAATAACGGG
1 GTTGGAGTATCCCCAAAATAACGAA
3573012 GTTGGAGTATCCCCGATGAAATAATCGAA
1 GTTGGAGTATCCCC-A--AAATAA-CGAA
3573041 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3573055 CGATTGTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 14 0.38
26 1 0.03
28 6 0.16
29 16 0.43
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (25 bp):
GTTGGAGTATCCCCAAAATAACGAA
Found at i:3573164 original size:79 final size:78
Alignment explanation
Indices: 3573008--3573419 Score: 413
Period size: 79 Copynumber: 5.2 Consensus size: 78
3572998 CCCAAAATAA
* * * * * *
3573008 CGGGGTTGGAGTATCCCCGAT-GAAATAATCGAAGTTGGAGTATCCCCCGATTGTGGAGAATTGG
1 CGGGGTTGGAGTATCCCC-TTGGAAATAA-CG-GGTTGGAGTAT-CCCCGATTATGAAAAATTGA
*
3573072 TGTTTTAGAAATAAAAT
62 TGTTTTAGAAATAAAAC
* * *
3573089 TGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATTCGCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTTGGAAATAACGGG-TTGGAGTATCCCCGATTATGAAAAATTGATGT
3573154 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
* * * * * **
3573168 TGCGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAACAT
1 CGGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
* *
3573233 TTTGGAAATAAAGC
65 TTTAGAAATAAAAC
*
3573247 CGGGGTTGGAGTAT-CCCTTCGGAAATAACAGGGCTGGAGTATCCCCG---ATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCTT-GGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
3573308 TTTTAGAAATATAAC
64 TTTTAGAAATAAAAC
* * * * * * *
3573323 CAGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTGTG-AAAAGTCAGTG
1 CGGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGA-TG
* *
3573387 TTTTGGAAATAAAAT
64 TTTTAGAAATAAAAC
*
3573402 CGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3573420 GATTATGGAA
Statistics
Matches: 276, Mismatches: 46, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
76 58 0.21
77 4 0.01
78 11 0.04
79 164 0.59
80 15 0.05
81 24 0.09
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTTGGAAATAACGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAAC
Found at i:3573357 original size:155 final size:155
Alignment explanation
Indices: 3573074--3573418 Score: 410
Period size: 155 Copynumber: 2.2 Consensus size: 155
3573064 AGAATTGGTG
* ** * * *
3573074 TTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATTCGCGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTAT-CCCTTGGAAATAACGGGACTGGAGTATCCCCG--T
* *
3573139 ATGAAAAATTGATGTTTTAGAAATAAAACTGCGGTTGGAGTATCCCCTTGAAAATAACAGGGTTG
63 ATGAAAAATTGATGTTTTAGAAATAAAACAGCGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
* *
3573204 GAGTATCCCCGATTATGAGAAA-TTAACA
128 GAGTATCCCCAATTATGA-AAAGTCAACA
*
3573232 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCTTCGGAAATAACAGGG-CTGGAGTATCCCCG-A
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTT-GGAAATAAC-GGGACTGGAGTATCCCCGTA
* * * *
3573295 TGAAAAATTGATGTTTTAGAAATATAACCAG-GGTTGGAGTGTCCCCTCGGAAATAACGGGGTTG
64 TGAAAAATTGATGTTTTAGAAATA-AAACAGCGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
* ***
3573359 GAGTATCCCCAATTGTGAAAAGTCAGTG
128 GAGTATCCCCAATTATGAAAAGTCAACA
* *
3573387 TTTTGGAAATAAAATCGGAGTTGGAGTATCCC
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCC
3573419 CGATTATGGA
Statistics
Matches: 161, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
154 3 0.02
155 101 0.63
156 4 0.02
157 5 0.03
158 45 0.28
159 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (155 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTGGAAATAACGGGACTGGAGTATCCCCGTATG
AAAAATTGATGTTTTAGAAATAAAACAGCGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAG
TATCCCCAATTATGAAAAGTCAACA
Found at i:3573483 original size:51 final size:51
Alignment explanation
Indices: 3573355--3573534 Score: 202
Period size: 51 Copynumber: 3.5 Consensus size: 51
3573345 AAATAACGGG
* * * *
3573355 GTTGGAGTATCCCCAATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * *
3573406 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * * * * *
3573457 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTCTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* *
3573507 GATTAGAGTATCCCCGA-GATGAAAAATC
1 G-TTGGAGTATCCCCGATTATGAAAAATC
3573535 TAGAAATTTA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 9 0.08
51 100 0.92
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
Found at i:3575909 original size:13 final size:13
Alignment explanation
Indices: 3575891--3575916 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3575881 ACAAAGATCG
3575891 ATGTATCGATACA
1 ATGTATCGATACA
3575904 ATGTATCGATACA
1 ATGTATCGATACA
3575917 TTGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3575992 original size:19 final size:19
Alignment explanation
Indices: 3575968--3576093 Score: 102
Period size: 19 Copynumber: 6.7 Consensus size: 19
3575958 AGCGATATAT
3575968 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
3575987 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
3576000 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
3576019 TGTATCGATACAGTTACTATT
1 TGTATCGATACA-AAACT-TA
*
3576040 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
3576059 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA-AAACT-TA
3576080 TGTATCGATACAAA
1 TGTATCGATACAAA
3576094 TTGTTTGAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
13 11 0.13
14 1 0.01
16 2 0.02
18 1 0.01
19 36 0.42
20 9 0.10
21 26 0.30
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:3576002 original size:32 final size:32
Alignment explanation
Indices: 3575955--3576030 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
3575945 GCAGTAGCTT
* *
3575955 TGTAGCGATATATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
3575987 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
3576019 TGTATCGATACA
1 TGTATCGATACA
3576031 GTTACTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:3576005 original size:13 final size:13
Alignment explanation
Indices: 3575987--3576011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3575977 ACAAAACTTA
3575987 TGTATCGATACAT
1 TGTATCGATACAT
3576000 TGTATCGATACA
1 TGTATCGATACA
3576012 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3576045 original size:21 final size:20
Alignment explanation
Indices: 3575999--3576091 Score: 100
Period size: 21 Copynumber: 4.7 Consensus size: 20
3575989 TATCGATACA
**
3575999 TTGTATCGATACA-ACACTT
1 TTGTATCGATACAGTTACTT
*
3576018 ATGTATCGATACAGTTACTAT
1 TTGTATCGATACAGTTACT-T
**
3576039 TTGTATCGATACA-ACACTT
1 TTGTATCGATACAGTTACTT
*
3576058 ATGTATCGATACAGTTACTGT
1 TTGTATCGATACAGTTACT-T
3576079 TTGTATCGATACA
1 TTGTATCGATACA
3576092 AATTGTTTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 25 0.42
20 9 0.15
21 26 0.43
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACAGTTACTT
Found at i:3576054 original size:40 final size:40
Alignment explanation
Indices: 3575999--3576092 Score: 179
Period size: 40 Copynumber: 2.4 Consensus size: 40
3575989 TATCGATACA
3575999 TTGTATCGATACAACACTTATGTATCGATACAGTTACTAT
1 TTGTATCGATACAACACTTATGTATCGATACAGTTACTAT
*
3576039 TTGTATCGATACAACACTTATGTATCGATACAGTTACTGT
1 TTGTATCGATACAACACTTATGTATCGATACAGTTACTAT
3576079 TTGTATCGATACAA
1 TTGTATCGATACAA
3576093 ATTGTTTGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (40 bp):
TTGTATCGATACAACACTTATGTATCGATACAGTTACTAT
Found at i:3577803 original size:13 final size:13
Alignment explanation
Indices: 3577785--3577841 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
3577775 CATAAAGTGT
3577785 TGTATCGATACAA
1 TGTATCGATACAA
3577798 TGTATCGATACATAA
1 TGTATCGATAC--AA
3577813 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3577830 TGTATCGATACA
1 TGTATCGATACA
3577842 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3577820 original size:32 final size:32
Alignment explanation
Indices: 3577765--3577862 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
3577755 TTCAACGATT
3577765 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
3577798 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
3577830 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
3577862 T
1 T
3577863 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:3577822 original size:19 final size:18
Alignment explanation
Indices: 3577763--3577860 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
3577753 ATTTCAACGA
3577763 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
3577782 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3577798 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3577814 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
3577830 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3577846 TTTTGTATCGATACA
1 -TTTGTATCGATACA
3577861 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3577921 original size:13 final size:13
Alignment explanation
Indices: 3577903--3577927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3577893 ATTACTCAAA
3577903 TGTATCGATACAT
1 TGTATCGATACAT
3577916 TGTATCGATACA
1 TGTATCGATACA
3577928 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3600379 original size:52 final size:52
Alignment explanation
Indices: 3600298--3600418 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
3600288 GTCCCGAAAT
*
3600298 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
3600350 CTGCATGTATGGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3600402 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3600419 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3600431 original size:52 final size:51
Alignment explanation
Indices: 3600298--3600438 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
3600288 GTCCCGAAAT
3600298 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
3600350 CTGCATGTATGGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
3600402 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3600439 ATATATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3600529 original size:33 final size:33
Alignment explanation
Indices: 3600492--3600591 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3600482 AGTAGCTTAA
* ***
3600492 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
3600525 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
3600558 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
3600591 A
1 A
3600592 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAACACTTTATGTATCGATAC
Found at i:3600532 original size:13 final size:13
Alignment explanation
Indices: 3600514--3600571 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
3600504 CAAAAAAATA
3600514 TGTATCGATACAT
1 TGTATCGATACAT
3600527 TGTATCGATACAACACTTT
1 TGTATCGAT---ACA---T
3600546 ATGTATCGATACAT
1 -TGTATCGATACAT
3600560 TGTATCGATACA
1 TGTATCGATACA
3600572 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3600552 original size:20 final size:20
Alignment explanation
Indices: 3600527--3600592 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
3600517 ATCGATACAT
3600527 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
3600547 TGTATCGAT---ACA---T-
1 TGTATCGATACAACACTTTA
3600560 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
3600580 TGTATCGATACAA
1 TGTATCGATACAA
3600593 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 22 0.56
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:3601670 original size:49 final size:49
Alignment explanation
Indices: 3601511--3602783 Score: 1711
Period size: 49 Copynumber: 26.6 Consensus size: 49
3601501 AAAAGGATGT
*
3601511 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
3601563 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
**
3601606 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
3601655 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3601698 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
3601747 TAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3601790 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
3601839 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3601888 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3601937 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
3601986 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
3602035 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3602084 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
3602133 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
3602182 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
3602225 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * **
3602274 CAATGTGCTAAGTCAAGGCCAGCTACATTGGGCTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
3602323 CAATATGCTAATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
3602375 CAATATGCTGATTCAAGGCCAGCTATATTAGACTTAAAGAT----GT--
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
**
3602418 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
3602467 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
3602516 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3602565 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
3602614 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
3602663 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
3602706 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
3602755 CAATGTGCTGAGTT-AAGGCCAGCTACATT
1 CAATGTGCTGA-TTCAAGGCCAGCTACATT
3602784 TGGCTTAGAA
Statistics
Matches: 1098, Mismatches: 83, Indels: 83
0.87 0.07 0.07
Matches are distributed among these distances:
43 228 0.21
45 6 0.01
47 7 0.01
48 1 0.00
49 779 0.71
50 2 0.00
52 75 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:3602867 original size:27 final size:27
Alignment explanation
Indices: 3602829--3603041 Score: 138
Period size: 27 Copynumber: 7.2 Consensus size: 27
3602819 TTAGAAGGAG
*
3602829 AAAGGTGCCACGGAATTGTGGGCTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAA
*
3602856 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGGTGCCACGGAGTTGTGGGC-T-----T--AA
*
3602891 AAAAGTGCCACGGAGTTGTGGGCTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAA
* * *
3602918 AAGGGTGCCACAGAGTTGTGGACTTAAAGATGAA
1 AAAGGTGCCACGGAGTTGTGGGC-T-----T-AA
* * *
3602952 AAAAGTGCCACGGAGGTGTAGGCTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTAA
*
3602979 AAGGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGC-TT--AA
* * *
3603009 AGAAGGTGCCACGGAGTCGTGGACTTTA
1 A-AAGGTGCCACGGAGTTGTGGGCTTAA
3603037 AAAGG
1 AAAGG
3603042 GAAAAAGAGT
Statistics
Matches: 145, Mismatches: 22, Indels: 38
0.71 0.11 0.19
Matches are distributed among these distances:
27 67 0.46
28 7 0.05
29 1 0.01
30 5 0.03
31 19 0.13
33 3 0.02
34 20 0.14
35 23 0.16
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
AAAGGTGCCACGGAGTTGTGGGCTTAA
Found at i:3602899 original size:35 final size:34
Alignment explanation
Indices: 3602854--3603220 Score: 278
Period size: 37 Copynumber: 11.1 Consensus size: 34
3602844 TTGTGGGCTT
* *
3602854 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAA-A-GA
3602889 AAAAAAGTGCCACGGAGTTGTGGGC-TTAAAAG-
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* * *
3602921 -----GGTGCCACAGAGTTGTGGAC-TT-AAAGA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* *
3602948 TGAAAAAAGTGCCACGGAGGTGTAGGC-TTAAAAG-
1 --AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
*
3602982 -----GGTGCCACGGAGTTGTGGGCTTT----GA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* * *
3603007 AAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGA
1 AAA-AAAGTGCCACGGAGTTGTGGGCTTTAAAA--GA
*
3603044 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA--GA
*
3603081 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-A
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* *
3603114 GAAAAAGTGCCACGGAGTGGTGGGCTTTGAAAAGGGA
1 AAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAA--GA
*
3603151 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-A
1 AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
* *
3603184 GAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAGA
1 -AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
3603218 AAA
1 AAA
3603221 GGATGCCACT
Statistics
Matches: 274, Mismatches: 28, Indels: 62
0.75 0.08 0.17
Matches are distributed among these distances:
24 1 0.00
26 4 0.01
27 36 0.13
28 2 0.01
31 21 0.08
33 33 0.12
34 49 0.18
35 32 0.12
36 29 0.11
37 67 0.24
ACGTcount: A:0.34, C:0.12, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGA
Found at i:3602963 original size:61 final size:62
Alignment explanation
Indices: 3602833--3603182 Score: 284
Period size: 70 Copynumber: 5.4 Consensus size: 62
3602823 AAGGAGAAAG
* *
3602833 GTGCCACGGAATTGTGGGCTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAA
*
3602895 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAGATG-AAAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAA
* * * *
3602956 GTGCCACGGAGGTGTAGGCTTAAAAGGGTGCCACGGAGTTGTGGGCTT-----TGAAAAGAAG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAA-AAA
* * *
3603014 GTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAA-AG
1 GTGCCACGGAGTTGTGGGC-TTAAAA--G-----G-GTGCCACGGAGTTGTGGAC-TT-AAAGA-
* *
3603078 GGAAAAAGA
54 TGAAAAAAA
* * * *
3603087 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAAA-AGGGA
1 GTGCCACGGAGTTGTGGGC-TT-AAAAG----GGTGCCACGGAGTTGTGGAC-TT-AAAGA-TGA
*
3603151 AAAAGA
57 AAAAAA
3603157 GTGCCACGGAGTTGTGGGCTTTAAAA
1 GTGCCACGGAGTTGTGGGC-TTAAAA
3603183 AGAAAAAGGT
Statistics
Matches: 250, Mismatches: 19, Indels: 31
0.83 0.06 0.10
Matches are distributed among these distances:
56 2 0.01
57 3 0.01
58 17 0.07
59 6 0.02
61 51 0.20
62 52 0.21
66 1 0.00
67 19 0.08
68 2 0.01
69 4 0.02
70 58 0.23
71 4 0.02
72 1 0.00
73 21 0.08
74 9 0.04
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (62 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAA
Found at i:3603077 original size:37 final size:36
Alignment explanation
Indices: 3602977--3603215 Score: 320
Period size: 37 Copynumber: 6.9 Consensus size: 36
3602967 GTGTAGGCTT
*
3602977 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
* *
3603011 --AAG-GTGCCACGGAGTCGTGGACTTT-AAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
3603044 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
*
3603081 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
*
3603115 AAAA-AGTGCCACGGAGTGGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
*
3603151 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
3603186 AAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
3603216 GAAAAGGATG
Statistics
Matches: 184, Mismatches: 9, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
30 4 0.02
31 20 0.11
32 4 0.02
33 22 0.12
34 30 0.16
35 14 0.08
36 32 0.17
37 58 0.32
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (36 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
Found at i:3603144 original size:70 final size:70
Alignment explanation
Indices: 3602983--3603215 Score: 352
Period size: 70 Copynumber: 3.4 Consensus size: 70
3602973 GCTTAAAAGG
* * *
3602983 GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCGTGGACTTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-A
3603042 GAAAAAGA
65 G-AAAA-A
3603050 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
3603115 AAAAA
66 AAAAA
*
3603120 GTGCCACGGAGTGGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
3603185 AAAAA
66 AAAAA
3603190 GGTGCCACGGAGTTGTGGGCTTTGAA
1 -GTGCCACGGAGTTGTGGGCTTTGAA
3603216 GAAAAGGATG
Statistics
Matches: 154, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
67 27 0.18
69 1 0.01
70 70 0.45
71 28 0.18
72 4 0.03
73 24 0.16
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.20
Consensus pattern (70 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
AAAAA
Found at i:3603202 original size:104 final size:105
Alignment explanation
Indices: 3602977--3603246 Score: 399
Period size: 104 Copynumber: 2.6 Consensus size: 105
3602967 GTGTAGGCTT
*
3602977 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG--AAGGTGCCACGGAGTCGTGGACTTT-AAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAA
*
3603039 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
65 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
* * *
3603080 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTGGGCTTTGAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAA
3603145 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
64 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
* *
3603185 AAAAAGGTGCCACGGAGTTGTGGGCTTT-GAAGAAAAGGATGCCACTGAGTCGTGGACTTTGA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGG-TGCCACGGAGTCGTGGACTTTGA
3603247 GACAAAATGC
Statistics
Matches: 151, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
102 8 0.05
103 25 0.17
104 49 0.32
105 7 0.05
106 26 0.17
107 36 0.24
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (105 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTGAAAA
GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
Found at i:3603275 original size:62 final size:63
Alignment explanation
Indices: 3603192--3603339 Score: 237
Period size: 62 Copynumber: 2.4 Consensus size: 63
3603182 AAGAAAAAGG
* *
3603192 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAA
* *
3603254 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
3603317 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
3603340 GAAGAGATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
61 1 0.01
62 55 0.70
63 23 0.29
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:3603348 original size:31 final size:30
Alignment explanation
Indices: 3603186--3603347 Score: 200
Period size: 32 Copynumber: 5.2 Consensus size: 30
3603176 TTTAAAAAGA
* * * *
3603186 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG
3603217 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
3603248 ACAAA-ATGCCACTGAGTCGTGGACTTTGAAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTG-AG
3603279 AAAAGGATGCCACTGAGTCGTGGACTTTGAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAG
* *
3603310 AAGAGATTGCCACTGAGTCGTGGGCTTTGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGAG
*
3603341 AAGAGAT
1 AAAAGAT
3603348 TTGAAGAATT
Statistics
Matches: 119, Mismatches: 6, Indels: 13
0.86 0.04 0.09
Matches are distributed among these distances:
30 29 0.24
31 44 0.37
32 46 0.39
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:3605274 original size:13 final size:13
Alignment explanation
Indices: 3605256--3605281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3605246 ACAATATTCT
3605256 TTGTATCGATACA
1 TTGTATCGATACA
3605269 TTGTATCGATACA
1 TTGTATCGATACA
3605282 AGGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3605393 original size:20 final size:19
Alignment explanation
Indices: 3605365--3605416 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
3605355 CCTAACATCC
*
3605365 TTTCATCAAAATTTATTAAT
1 TTTCTTCAAAATTTATT-AT
*
3605385 TTTCTTC-AAATTTCTTAT
1 TTTCTTCAAAATTTATTAT
3605403 TTTCACTTCAAAAT
1 TTT--CTTCAAAAT
3605417 ACTTCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 8 0.30
20 10 0.37
21 4 0.15
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTCTTCAAAATTTATTAT
Found at i:3605425 original size:21 final size:20
Alignment explanation
Indices: 3605388--3605426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3605378 TATTAATTTT
* *
3605388 CTTCAAATTTCTTATTTTCA
1 CTTCAAAATACTTATTTTCA
3605408 CTTCAAAATACTTCATTTT
1 CTTCAAAATACTT-ATTTT
3605427 TCATCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTCAAAATACTTATTTTCA
Found at i:3607153 original size:19 final size:21
Alignment explanation
Indices: 3607114--3607157 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
3607104 TTTTTAACCG
*
3607114 TTTATCAAGGGGGAGAAATTT
1 TTTATCAAGAGGGAGAAATTT
3607135 TTTATCAA-AGGGA-AAATTT
1 TTTATCAAGAGGGAGAAATTT
3607154 TTTA
1 TTTA
3607158 ACGAGAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 4 0.18
21 8 0.36
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTATCAAGAGGGAGAAATTT
Found at i:3607751 original size:13 final size:13
Alignment explanation
Indices: 3607733--3607757 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3607723 CATTATGCTT
3607733 TGTATCGATACAA
1 TGTATCGATACAA
3607746 TGTATCGATACA
1 TGTATCGATACA
3607758 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3607754 original size:33 final size:32
Alignment explanation
Indices: 3607712--3607776 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
3607702 ACACACCCAG
*
3607712 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
3607745 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
3607777 TGGACCATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:3607787 original size:20 final size:20
Alignment explanation
Indices: 3607746--3607798 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
3607736 ATCGATACAA
**
3607746 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGACCAT
3607765 TGTATCGATACATGGACCAT
1 TGTATCGATACATGGACCAT
3607785 TGTATCGATACATG
1 TGTATCGATACATG
3607799 AAACTAGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACCAT
Found at i:3607862 original size:13 final size:13
Alignment explanation
Indices: 3607844--3607895 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
3607834 GATACATGGC
3607844 ACATTGTATCGAT
1 ACATTGTATCGAT
3607857 ACATTGTATCGAT
1 ACATTGTATCGAT
3607870 ACA-TG-AT-G--
1 ACATTGTATCGAT
3607878 A-ATTGTATCGAT
1 ACATTGTATCGAT
3607890 ACATTG
1 ACATTG
3607896 CTTCAAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:3607869 original size:33 final size:32
Alignment explanation
Indices: 3607827--3607895 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
3607817 CTACCACTGT
3607827 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
3607860 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
3607893 TTG
1 TTG
3607896 CTTCAAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:3611062 original size:41 final size:40
Alignment explanation
Indices: 3611017--3611096 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
3611007 AAAATCATAA
3611017 AATTTAATAAAAAAATT-AAAATACCAATCTTAAAATTTTAC
1 AATTTAATAAAAAAATTAAAAATA--AATCTTAAAATTTTAC
* ** *
3611058 AATTTCATAATTAAATTAAAAATAAATCTTAAATTTTTA
1 AATTTAATAAAAAAATTAAAAATAAATCTTAAAATTTTA
3611097 TAAATCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 14 0.41
41 14 0.41
42 6 0.18
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (40 bp):
AATTTAATAAAAAAATTAAAAATAAATCTTAAAATTTTAC
Found at i:3611096 original size:40 final size:38
Alignment explanation
Indices: 3611029--3611123 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 38
3611019 TTTAATAAAA
*
3611029 AAATT-AAAATACCAATCTTAAAATTTTACAATTTCATAATT
1 AAATTAAAAATA--AATCTTAAAATTTTACAA-ATCA-AATT
* *
3611070 AAATTAAAAATAAATCTTAAATTTTTATAAATCAAATT
1 AAATTAAAAATAAATCTTAAAATTTTACAAATCAAATT
3611108 AAATTACATAAATAAA
1 AAATTA-A-AAATAAA
3611124 AATTTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 10 0.21
39 4 0.08
40 23 0.48
41 5 0.10
42 6 0.12
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (38 bp):
AAATTAAAAATAAATCTTAAAATTTTACAAATCAAATT
Found at i:3612266 original size:12 final size:12
Alignment explanation
Indices: 3612249--3612283 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3612239 TATTCAGAAA
3612249 AAAAAATATTTT
1 AAAAAATATTTT
3612261 AAAAAATATTTT
1 AAAAAATATTTT
3612273 ACAAAAA-ATTT
1 A-AAAAATATTT
3612284 ATTTATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAAAATATTTT
Found at i:3613354 original size:22 final size:22
Alignment explanation
Indices: 3613305--3613359 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3613295 AAATAAATTT
* *
3613305 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATGTAAA
3613327 TATTTTTATAATTAA-ATGTAAA
1 TATTTTTAT-ATTAATATGTAAA
*
3613349 T-TTTTTTTATT
1 TATTTTTATATT
3613360 GTTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 15 0.52
23 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTTTATATTAATATGTAAA
Found at i:3621092 original size:13 final size:13
Alignment explanation
Indices: 3621074--3621099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3621064 AATTTTTTTG
3621074 TGTATCGATACAT
1 TGTATCGATACAT
3621087 TGTATCGATACAT
1 TGTATCGATACAT
3621100 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3621815 original size:17 final size:17
Alignment explanation
Indices: 3621789--3621827 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3621779 CCTTTTCAAA
*
3621789 TTGAAGCATGATAACAT
1 TTGAACCATGATAACAT
* *
3621806 TTGAACCATGTTCACAT
1 TTGAACCATGATAACAT
3621823 TTGAA
1 TTGAA
3621828 TAGCAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
TTGAACCATGATAACAT
Found at i:3630246 original size:20 final size:20
Alignment explanation
Indices: 3630215--3630272 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
3630205 GGAAAAAGAC
* *
3630215 AAAATATATCGATACATTGA
1 AAAATGTATCGATACATCGA
*
3630235 AGAATGTATCGATACATCGA
1 AAAATGTATCGATACATCGA
3630255 AAAATGTATCGATACATC
1 AAAATGTATCGATACATC
3630273 TGGGTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (20 bp):
AAAATGTATCGATACATCGA
Found at i:3638216 original size:13 final size:13
Alignment explanation
Indices: 3638198--3638235 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3638188 ATATTTCACC
3638198 ATGTATCGATACA
1 ATGTATCGATACA
*
3638211 ATGTATGGATACA
1 ATGTATCGATACA
*
3638224 CTGTATCGATAC
1 ATGTATCGATAC
3638236 TGAGCAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3638288 original size:20 final size:19
Alignment explanation
Indices: 3638262--3638317 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
3638252 CTATCAGTTT
**
3638262 CATGTATCGATACAATTCA
1 CATGTATCGATACAATGAA
3638281 CTATGTATCGATACCAA-GAA
1 C-ATGTATCGATA-CAATGAA
3638301 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3638318 TATCAATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 13 0.41
21 3 0.09
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3638341 original size:33 final size:32
Alignment explanation
Indices: 3638283--3638347 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
3638273 ACAATTCACT
* *
3638283 ATGTATCGATACCAAGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
*
3638315 ATGTATCAATACAAAGCAATATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
3638348 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:3640961 original size:13 final size:13
Alignment explanation
Indices: 3640945--3640971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3640935 CTTATATCAT
3640945 TACAATGTATCGA
1 TACAATGTATCGA
3640958 TACAATGTATCGA
1 TACAATGTATCGA
3640971 T
1 T
3640972 GTTAAGATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:3645466 original size:3 final size:3
Alignment explanation
Indices: 3645458--3645492 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
3645448 CGAGTCTGCT
* *
3645458 TCA TCA TCA TCA TCA TCG TCA TCT TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
3645493 TTTGATTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:3645493 original size:12 final size:12
Alignment explanation
Indices: 3645456--3645494 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
3645446 TCCGAGTCTG
3645456 CTTCATCATCAT
1 CTTCATCATCAT
* *
3645468 CATCATCGTCAT
1 CTTCATCATCAT
3645480 CTTCATCATCAT
1 CTTCATCATCAT
3645492 CTT
1 CTT
3645495 TGATTGTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.03, T:0.41
Consensus pattern (12 bp):
CTTCATCATCAT
Found at i:3649337 original size:15 final size:15
Alignment explanation
Indices: 3649317--3649347 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3649307 ATTTCGTTTG
*
3649317 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3649332 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3649347 G
1 G
3649348 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3653452 original size:32 final size:32
Alignment explanation
Indices: 3653392--3653492 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
3653382 CGTTACAAGC
3653392 CAATGTATCGATACATATTTTTTGTGTATCGATA
1 CAATGTATCGATACATA--TTTTGTGTATCGATA
3653426 CAATGTATCGATACATATTTTGTGTATCGATA
1 CAATGTATCGATACATATTTTGTGTATCGATA
3653458 CAATGTATCGATACATATTTTGTGTATCGATA
1 CAATGTATCGATACATATTTTGTGTATCGATA
3653490 CAA
1 CAA
3653493 GTTTGGCTAC
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 50 0.75
34 17 0.25
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (32 bp):
CAATGTATCGATACATATTTTGTGTATCGATA
Found at i:3653453 original size:19 final size:19
Alignment explanation
Indices: 3653395--3653491 Score: 92
Period size: 13 Copynumber: 5.6 Consensus size: 19
3653385 TACAAGCCAA
3653395 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
3653416 TGTATCGATACA-A-----
1 TGTATCGATACATATTTTG
3653429 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3653448 TGTATCGATACA-A-----
1 TGTATCGATACATATTTTG
3653461 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
3653480 TGTATCGATACA
1 TGTATCGATACA
3653492 AGTTTGGCTA
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 24 0.38
14 2 0.03
18 1 0.02
19 24 0.38
20 1 0.02
21 12 0.19
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:3654740 original size:76 final size:75
Alignment explanation
Indices: 3654521--3654795 Score: 261
Period size: 76 Copynumber: 3.6 Consensus size: 75
3654511 TTCCAAAGAT
* * ** ** *
3654521 GAAAAATTTAATATTTTTG-AAGTAAAAATAGGGTCAGAGTATCCCCTC-AGAAATAACGAGGTT
1 GAAAAATTTAATA-TTTTGAAAATTAAAACGGGGTTGGAGTATCTCCTCGA-AAATAACG-GGTT
* *
3654584 GGAGCACCCCCAA
63 AGAGTACCCCCAA
* ** * *
3654597 GAAAAATTTAATATTTTGAAAATAAAAATAGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAG
1 GAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTATCTCCTCGAAAATAA-CGGGTTAG
3654662 AGTACCCCCAA
65 AGTACCCCCAA
*
3654673 GAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTATCTCCTTGAAAATAACAGGGTTAG
1 GAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTATCTCCTCGAAAATAAC-GGGTTAG
* *
3654738 AGTATCCTCGAGA
65 AGTA-CCCCCA-A
* ** *
3654751 TGAAAAATTTAAAATTTTTTAAA-TAAAACGGGATTGGAGTA-CTCC
1 -GAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTATCTCC
3654796 AAAGAAAAAT
Statistics
Matches: 174, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
75 5 0.03
76 122 0.70
77 10 0.06
78 18 0.10
79 19 0.11
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.28
Consensus pattern (75 bp):
GAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTATCTCCTCGAAAATAACGGGTTAGA
GTACCCCCAA
Found at i:3654829 original size:126 final size:126
Alignment explanation
Indices: 3654655--3654922 Score: 337
Period size: 126 Copynumber: 2.1 Consensus size: 126
3654645 GAAAATAATG
* * *
3654655 GGGTTAGAGTACCCCCAAGAAAAATTTAATATTTTGAAAATTAAAACGGGGTTGGAGTAT-CTCC
1 GGGTTGGAGTACCCCAAAGAAAAATTTAATATTTTGAAAATTAAAACGGGGTTAGAGTATCCT-C
* **
3654719 TTGAAAATAACAGGGTTAGAGTATCCTCGAGATGAAAAATTTAAAATTTTTTAAATAAAA-C-
65 TCGAAAATAACAGGGTTAGAGTATCC-CGAGATGAAAAATTTAAAATTTTGGAAATAAAAGCA
* *
3654780 GGGATTGGAGTACTCCAAAGAAAAATTTAATATTTTGGAAA-TAAGAACGGGGTTAGAGTATCCT
1 GGG-TTGGAGTACCCCAAAGAAAAATTTAATATTTTGAAAATTAA-AACGGGGTTAGAGTATCCT
* ** * **
3654844 CTCGAAATTAATGGGGTTGGAGTATCCCGAGATGAAAAATTTAGTATTTTGGAAATAAAAGCA
64 CTCGAAAATAACAGGGTTAGAGTATCCCGAGATGAAAAATTTAAAATTTTGGAAATAAAAGCA
3654907 GGGTTGGAGTATCCCC
1 GGGTTGGAGTA-CCCC
3654923 TCGAAATTGA
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
125 35 0.29
126 79 0.65
127 8 0.07
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (126 bp):
GGGTTGGAGTACCCCAAAGAAAAATTTAATATTTTGAAAATTAAAACGGGGTTAGAGTATCCTCT
CGAAAATAACAGGGTTAGAGTATCCCGAGATGAAAAATTTAAAATTTTGGAAATAAAAGCA
Found at i:3654948 original size:78 final size:80
Alignment explanation
Indices: 3654799--3654964 Score: 212
Period size: 78 Copynumber: 2.1 Consensus size: 80
3654789 GTACTCCAAA
* * ***
3654799 GAAAAATTTAATATTTTGGAAATAAGAACGGGGTTAGAGTATCCTCTCGAAATTAATGGGGTTGG
1 GAAAAATTTAATATTTTGGAAATAAGAACAGGGTTAGAGTATCCCCTCGAAATTAATGGGGTCAA
*
3654864 AGTAT-CCC-GAGAT
66 AATATCCCCTGAGAT
* * *
3654877 GAAAAATTTAGTATTTTGGAAATAA-AAGCAGGGTTGGAGTATCCCCTCGAAATTGATGGGGTCA
1 GAAAAATTTAATATTTTGGAAATAAGAA-CAGGGTTAGAGTATCCCCTCGAAATTAATGGGGTCA
*
3654941 AAATATCCCCTTAGAT
65 AAATATCCCCTGAGAT
3654957 GAAAAATT
1 GAAAAATT
3654965 CGATGCTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
77 2 0.03
78 58 0.77
79 3 0.04
80 12 0.16
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (80 bp):
GAAAAATTTAATATTTTGGAAATAAGAACAGGGTTAGAGTATCCCCTCGAAATTAATGGGGTCAA
AATATCCCCTGAGAT
Found at i:3656101 original size:19 final size:19
Alignment explanation
Indices: 3656074--3656129 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3656064 TGTATCAATA
*
3656074 CATTATATCAATACATGCT
1 CATTATATCGATACATGCT
* *
3656093 CATTGTATCGATACATACT
1 CATTATATCGATACATGCT
3656112 CAATTATATCGATACATG
1 C-ATTATATCGATACATG
3656130 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (19 bp):
CATTATATCGATACATGCT
Found at i:3656187 original size:20 final size:20
Alignment explanation
Indices: 3656158--3656210 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
3656148 CTAAGTGAAA
*
3656158 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
* *
3656178 TGTATTGATACCTGAAGAAT
1 TGTATCGATACATGAAGAAT
3656198 TGTATCGATACAT
1 TGTATCGATACAT
3656211 TATGCCCAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 25 0.93
21 2 0.07
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:3662844 original size:68 final size:68
Alignment explanation
Indices: 3662697--3662957 Score: 213
Period size: 68 Copynumber: 3.9 Consensus size: 68
3662687 TAAGTTAGTG
* * * * * ** * ** * *
3662697 TCACTTGTTTATATGTTGAGAT-TCAATCAAACCTTTGAGGTCATTTATTATTATAAATGACTTA
1 TCACTTGTTTATATGTTGAAATGTCGAGCAAATCTTTAAGGTGGTTTGTTAGCATAAGTGACTTG
*
3662761 GTG
66 GTA
** * *
3662764 TCACCCGTTTATATGTTGAAATATCGAGCAAATCTTTAAGATGGTTTGTTAGCATAAGTGACTTG
1 TCACTTGTTTATATGTTGAAATGTCGAGCAAATCTTTAAGGTGGTTTGTTAGCATAAGTGACTTG
3662829 GTA
66 GTA
* * * ** *
3662832 TCACTTGTTTATATGTT-AAGATGTCGATCAAAGCTTTGAGGTCATTTATTAGCATAAGTGACTT
1 TCACTTGTTTATATGTTGAA-ATGTCGAGCAAATCTTTAAGGTGGTTTGTTAGCATAAGTGACTT
*
3662896 GGTG
65 GGTA
* *** * *
3662900 TCACTTGCTTATATACCGAGATGTCAAGCAAAGT-TTTAAGGTGGTTTGTTAGCATAAG
1 TCACTTGTTTATATGTTGAAATGTCGAGCAAA-TCTTTAAGGTGGTTTGTTAGCATAAG
3662958 CGTCACTTAT
Statistics
Matches: 151, Mismatches: 39, Indels: 7
0.77 0.20 0.04
Matches are distributed among these distances:
67 21 0.14
68 129 0.85
69 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (68 bp):
TCACTTGTTTATATGTTGAAATGTCGAGCAAATCTTTAAGGTGGTTTGTTAGCATAAGTGACTTG
GTA
Found at i:3662895 original size:136 final size:135
Alignment explanation
Indices: 3662697--3662957 Score: 344
Period size: 136 Copynumber: 1.9 Consensus size: 135
3662687 TAAGTTAGTG
* **
3662697 TCACTTGTTTATATGTTGAGATTCAATCAAACCTTTGAGGTCATTTATTATTATAAATGACTTAG
1 TCACTTGTTTATATGTTAAGATTCAATCAAACCTTTGAGGTCATTTATTAGCATAAATGACTTAG
* *** *
3662762 TGTCACCCGTTTATATGTTGAAATATCGAGCAAA-TCTTTAAGATGGTTTGTTAGCATAAGTGAC
66 TGTCACCCGCTTATATACCGAAATATCAAGCAAAGT-TTTAAGATGGTTTGTTAGCATAAGTGAC
3662826 TTGGTA
130 TTGGTA
* * * *
3662832 TCACTTGTTTATATGTTAAGATGTCGATCAAAGCTTTGAGGTCATTTATTAGCATAAGTGACTTG
1 TCACTTGTTTATATGTTAAGAT-TCAATCAAACCTTTGAGGTCATTTATTAGCATAAATGACTTA
** * * *
3662897 GTGTCACTTGCTTATATACCGAGATGTCAAGCAAAGTTTTAAGGTGGTTTGTTAGCATAAG
65 GTGTCACCCGCTTATATACCGAAATATCAAGCAAAGTTTTAAGATGGTTTGTTAGCATAAG
3662958 CGTCACTTAT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
135 21 0.20
136 85 0.79
137 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (135 bp):
TCACTTGTTTATATGTTAAGATTCAATCAAACCTTTGAGGTCATTTATTAGCATAAATGACTTAG
TGTCACCCGCTTATATACCGAAATATCAAGCAAAGTTTTAAGATGGTTTGTTAGCATAAGTGACT
TGGTA
Found at i:3670792 original size:16 final size:16
Alignment explanation
Indices: 3670771--3670802 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3670761 AATATTTAAA
*
3670771 ATTAAATAATTATTTT
1 ATTAAAAAATTATTTT
3670787 ATTAAAAAATTATTTT
1 ATTAAAAAATTATTTT
3670803 GTAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTAAAAAATTATTTT
Found at i:3673590 original size:29 final size:30
Alignment explanation
Indices: 3673531--3673587 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 30
3673521 TTCAAAATTT
*
3673531 AAAATATTAAAAGATATATTTAAAATAATA
1 AAAATATTAAAAGATATATATAAAATAATA
3673561 AAAAT-TTAAAA-ATATA-ATAAAATAATA
1 AAAATATTAAAAGATATATATAAAATAATA
3673588 TAATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 10 0.38
28 5 0.19
29 6 0.23
30 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAATATTAAAAGATATATATAAAATAATA
Found at i:3674536 original size:21 final size:21
Alignment explanation
Indices: 3674483--3674539 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
3674473 TTAATTCTTA
3674483 AAAAT-AATTTTA--TAAATT
1 AAAATAAATTTTATTTAAATT
* **
3674501 -AATTAAATTAAATTTAAATT
1 AAAATAAATTTTATTTAAATT
3674521 AAAATAAATTTTATTTAAA
1 AAAATAAATTTTATTTAAA
3674540 GCTATGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
20 6 0.21
21 15 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATAAATTTTATTTAAATT
Found at i:3674539 original size:16 final size:16
Alignment explanation
Indices: 3674501--3674531 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3674491 TTTATAAATT
*
3674501 AATTAAATTAAATTTA
1 AATTAAAATAAATTTA
3674517 AATTAAAATAAATTT
1 AATTAAAATAAATTT
3674532 TATTTAAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAAATAAATTTA
Found at i:3675691 original size:10 final size:10
Alignment explanation
Indices: 3675678--3675711 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
3675668 TTCTTTGAAA
3675678 ACTTTTGAGT
1 ACTTTTGAGT
3675688 ACTTTTTTGAGT
1 AC--TTTTGAGT
3675700 ACTTTTGAGT
1 ACTTTTGAGT
3675710 AC
1 AC
3675712 AATTAGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (10 bp):
ACTTTTGAGT
Found at i:3675697 original size:12 final size:12
Alignment explanation
Indices: 3675680--3675705 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3675670 CTTTGAAAAC
3675680 TTTTGAGTACTT
1 TTTTGAGTACTT
3675692 TTTTGAGTACTT
1 TTTTGAGTACTT
3675704 TT
1 TT
3675706 GAGTACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (12 bp):
TTTTGAGTACTT
Found at i:3678043 original size:20 final size:20
Alignment explanation
Indices: 3678018--3678068 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
3678008 GTTAGAAGCA
3678018 ATGTATCGATACAATTAATC
1 ATGTATCGATACAATTAATC
3678038 ATGTATCGATACAATTAATC
1 ATGTATCGATACAATTAATC
3678058 ATGTATCGATA
1 ATGTATCGATA
3678069 GAATGTATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTAATC
Found at i:3678076 original size:13 final size:13
Alignment explanation
Indices: 3678058--3678087 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3678048 ACAATTAATC
*
3678058 ATGTATCGATAGA
1 ATGTATCGATACA
3678071 ATGTATCGATACA
1 ATGTATCGATACA
3678084 ATGT
1 ATGT
3678088 GCGATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3682692 original size:31 final size:31
Alignment explanation
Indices: 3682657--3682731 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
3682647 TTTTTTTCAT
* *
3682657 TGTATCAATACATTCTGGGTTTTGACCCATA
1 TGTATCAATACATTATGGGTTTTGACCCAAA
3682688 TGTATCAATACATTATGGGTTTTGACCCAAA
1 TGTATCAATACATTATGGGTTTTGACCCAAA
*
3682719 TGTATCGATACAT
1 TGTATCAATACAT
3682732 GTTTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (31 bp):
TGTATCAATACATTATGGGTTTTGACCCAAA
Found at i:3695033 original size:29 final size:30
Alignment explanation
Indices: 3694998--3695056 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 30
3694988 AGAATAGATT
3694998 AAGGGGGAGTAGTTG-ATAAATGTTTTGAA
1 AAGGGGGAGTAGTTGTATAAATGTTTTGAA
3695027 AAGGGGGAGTAGTTGTTAATAAATGTTTTG
1 AAGGGGGAGTAGTTG-T-ATAAATGTTTTG
3695057 TTAAGGTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.56
32 12 0.44
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (30 bp):
AAGGGGGAGTAGTTGTATAAATGTTTTGAA
Found at i:3695104 original size:54 final size:55
Alignment explanation
Indices: 3695026--3695132 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 55
3695016 AATGTTTTGA
* * *
3695026 AAAGGGGGAGTAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAGTTGTTTAG
1 AAAGAGGGAATAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAATTGTTTAG
3695081 AAAGAGGGAATAG-TGTTAATAAATGTTTTGTTAAGGTGGAGAAAAATTGTTT
1 AAAGAGGGAATAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAATTGTTT
3695133 TATAAAGGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
54 38 0.78
55 11 0.22
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.35
Consensus pattern (55 bp):
AAAGAGGGAATAGTTGTTAATAAATGTTTTGTTAAGGTGGAGAAAAATTGTTTAG
Found at i:3695880 original size:32 final size:33
Alignment explanation
Indices: 3695817--3695881 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3695807 CACACCCAGA
*
3695817 TGTATCGATACATATTGCTTAGTATCTATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
* *
3695850 TGTATCGATACATGTT-CTTGGTATCAATACAT
1 TGTATCGATACATATTGCTTAGTATCAATACAT
3695882 AAAATTGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCAATACAT
Found at i:3696779 original size:15 final size:16
Alignment explanation
Indices: 3696759--3696790 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
3696749 GCGGATGCAA
3696759 AATTAATTA-ATTTTT
1 AATTAATTATATTTTT
3696774 AATTAATTATATTTTT
1 AATTAATTATATTTTT
3696790 A
1 A
3696791 TTTTTATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTAATTATATTTTT
Found at i:3698657 original size:20 final size:20
Alignment explanation
Indices: 3698629--3698677 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
3698619 CAAAGTTAAG
*
3698629 GTATTGATACATAAGTAAAT
1 GTATCGATACATAAGTAAAT
* *
3698649 GTGTCGATACATAAGTGAAT
1 GTATCGATACATAAGTAAAT
3698669 GTATCGATA
1 GTATCGATA
3698678 TTAGACCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (20 bp):
GTATCGATACATAAGTAAAT
Found at i:3924770 original size:13 final size:13
Alignment explanation
Indices: 3924752--3924778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3924742 ACATCATGCT
3924752 TTGTATCGATACA
1 TTGTATCGATACA
3924765 TTGTATCGATACA
1 TTGTATCGATACA
3924778 T
1 T
3924779 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3924812 original size:20 final size:19
Alignment explanation
Indices: 3924762--3924820 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
3924752 TTGTATCGAT
*
3924762 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
* *
3924781 TCATTATATCGATACATGA
1 ACATTGTATCGATACATGA
3924800 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
3924820 A
1 A
3924821 ACTAGCAGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:3924884 original size:13 final size:13
Alignment explanation
Indices: 3924863--3924892 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3924853 CGATATATGG
*
3924863 TACATTGTATCGA
1 TACAATGTATCGA
3924876 TACAATGTATCGA
1 TACAATGTATCGA
3924889 TACA
1 TACA
3924893 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:3924890 original size:33 final size:33
Alignment explanation
Indices: 3924848--3924912 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3924838 TACCACTGTT
* *
3924848 TGTATCGATATATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
*
3924881 TGTATCGATACATGATGAATTGTATTGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
3924913 TTGCATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:3926328 original size:141 final size:142
Alignment explanation
Indices: 3926069--3926349 Score: 510
Period size: 141 Copynumber: 2.0 Consensus size: 142
3926059 ATTAAAGGGA
* * *
3926069 CAAAATGGTCTCTTCCCATTTTAAATTGCCCATTTGGGTTATTTTGGTCATTTTAGAGATATTTA
1 CAAAATGGTCTCTTCCCATTTTAAATTGCCAATTTAGGTTATTTTGGTCATTTAAGAGATATTTA
*
3926134 TAGCATTTTAGGTCCTTTTGAGGTCAATAGAAAATTTTAAAAAGTAAAAGGGCATAACTGTAATT
66 TAGCATTTTAGGTCCTTTTGAGGTCAAAAGAAAATTTTAAAAAGTAAAAGGGCATAACTGTAATT
3926199 TTAACTTTTAGG
131 TTAACTTTTAGG
3926211 CAAAATGGTCTCTTCCCATTTTAAATTGCCAATTTAGGTTATTTTGGTCATTTAAGAGATA-TTA
1 CAAAATGGTCTCTTCCCATTTTAAATTGCCAATTTAGGTTATTTTGGTCATTTAAGAGATATTTA
*
3926275 TAGCATTTTAGGTCCTTTTGAGGTCAAAAGAAAATTTTAAAAAGTAAAAGGGCATAACTGTGATT
66 TAGCATTTTAGGTCCTTTTGAGGTCAAAAGAAAATTTTAAAAAGTAAAAGGGCATAACTGTAATT
3926340 TTAACTTTTA
131 TTAACTTTTA
3926350 AAGTTCAAAT
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
141 76 0.57
142 58 0.43
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (142 bp):
CAAAATGGTCTCTTCCCATTTTAAATTGCCAATTTAGGTTATTTTGGTCATTTAAGAGATATTTA
TAGCATTTTAGGTCCTTTTGAGGTCAAAAGAAAATTTTAAAAAGTAAAAGGGCATAACTGTAATT
TTAACTTTTAGG
Found at i:3932002 original size:88 final size:88
Alignment explanation
Indices: 3931897--3932169 Score: 311
Period size: 88 Copynumber: 3.1 Consensus size: 88
3931887 AATGGGAATA
* **
3931897 GAGTTTCCCAAGGATAAAATTATGCAAAAGAAAATTTTAATTTTTTGTTAGAATTGGGTTGGAA-
1 GAGTTTCCCAAGGATAAAATTATGCAAAAGAAAATTTGAATTTTTTGTTAGAACGGGGTT-GAAG
* **
3931961 TATC-CTTCA-ATGGAATAGGGATG
65 TATCTCCTCAGA-AAAATAGGGATG
* * *
3931984 GAGTTTCCCTAAGAATAAAATTTTGCAGAAGAAAATTTGAATTTTTTGTTAGAACGGGGTTGAAG
1 GAGTTTCCC-AAGGATAAAATTATGCAAAAGAAAATTTGAATTTTTTGTTAGAACGGGGTTGAAG
3932049 TATCTCCTCAGAAAAATAGGGATG
65 TATCTCCTCAGAAAAATAGGGATG
* * ** * *
3932073 GAGTTTTCCCAAGGACAAAATTATACAAAAGATGATTTGAA-TTTTTATTAGAACAGGGTTGAAG
1 GAG-TTTCCCAAGGATAAAATTATGCAAAAGAAAATTTGAATTTTTTGTTAGAACGGGGTTGAAG
* * * *
3932137 TATCCCCTCGGAATAGTAGGGATG
65 TATCTCCTCAGAAAAATAGGGATG
3932161 GAGTTTCCC
1 GAGTTTCCC
3932170 CAAAATCGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
87 18 0.11
88 93 0.58
89 41 0.26
90 7 0.04
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (88 bp):
GAGTTTCCCAAGGATAAAATTATGCAAAAGAAAATTTGAATTTTTTGTTAGAACGGGGTTGAAGT
ATCTCCTCAGAAAAATAGGGATG
Found at i:3932694 original size:17 final size:17
Alignment explanation
Indices: 3932672--3932705 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3932662 TTTAAAAACT
3932672 TTGGAAAAATCATTTGA
1 TTGGAAAAATCATTTGA
3932689 TTGGAAAAATCATTTGA
1 TTGGAAAAATCATTTGA
3932706 CGGGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (17 bp):
TTGGAAAAATCATTTGA
Found at i:3934229 original size:19 final size:20
Alignment explanation
Indices: 3934187--3934238 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
3934177 AAGCCCAGAA
*
3934187 GTATCGATACATATTGCTTT
1 GTATCGATACATATTGCATT
*
3934207 GTATCGATACATGTT-CATT
1 GTATCGATACATATTGCATT
3934226 GTATCGATACATA
1 GTATCGATACATA
3934239 AAGAATTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCATT
Found at i:3940221 original size:13 final size:13
Alignment explanation
Indices: 3940200--3940235 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3940190 AGGATCTTTG
*
3940200 TATCAATACATTA
1 TATCGATACATTA
*
3940213 TATCGATACATTG
1 TATCGATACATTA
3940226 TATCGATACA
1 TATCGATACA
3940236 AGGGCACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3942161 original size:21 final size:20
Alignment explanation
Indices: 3942131--3942189 Score: 84
Period size: 22 Copynumber: 2.9 Consensus size: 20
3942121 AACAAAAAGA
3942131 GGGAG-AAATTTTATTAAGG
1 GGGAGAAAATTTTATTAAGG
3942150 GGGAAGAAAATTTTTATTAAGG
1 GGG-AGAAAA-TTTTATTAAGG
*
3942172 GGGAGAAAATTTTTTTAA
1 GGGAGAAAATTTTATTAA
3942190 TTAAAAAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 3 0.08
20 10 0.28
21 9 0.25
22 14 0.39
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (20 bp):
GGGAGAAAATTTTATTAAGG
Found at i:3942167 original size:22 final size:21
Alignment explanation
Indices: 3942131--3942189 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
3942121 AACAAAAAGA
3942131 GGGAG-AAA-TTTTATTAAGG
1 GGGAGAAAATTTTTATTAAGG
3942150 GGGAAGAAAATTTTTATTAAGG
1 GGG-AGAAAATTTTTATTAAGG
3942172 GGGAGAAAATTTTT-TTAA
1 GGGAGAAAATTTTTATTAA
3942190 TTAAAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.08
20 6 0.16
21 14 0.38
22 14 0.38
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (21 bp):
GGGAGAAAATTTTTATTAAGG
Found at i:3942837 original size:72 final size:72
Alignment explanation
Indices: 3942739--3942895 Score: 260
Period size: 72 Copynumber: 2.2 Consensus size: 72
3942729 ATAGGTATTT
* *
3942739 GTATCGATACATAGAAGGTTGGCTTAAGCTACAAAGGTCAAAACCCTAGAAAATATCGATACAAG
1 GTATCGATACATAGAAGGTTGACTTAAACTACAAAGGTCAAAACCCTAGAAAATATCGATACAAG
*
3942804 CCCAGAA
66 CCCAAAA
* *
3942811 GTATCGATACATAGAAGGTTGACTTAAACTACAAAGGTCAAAACCCTGGAAAGTATCGATACAAG
1 GTATCGATACATAGAAGGTTGACTTAAACTACAAAGGTCAAAACCCTAGAAAATATCGATACAAG
*
3942876 CCGAAAA
66 CCCAAAA
3942883 GTATCGATACATA
1 GTATCGATACATA
3942896 TTGCTTTGTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 79 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (72 bp):
GTATCGATACATAGAAGGTTGACTTAAACTACAAAGGTCAAAACCCTAGAAAATATCGATACAAG
CCCAAAA
Found at i:3943041 original size:20 final size:20
Alignment explanation
Indices: 3942998--3943049 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
3942988 ATCACTGTTT
* **
3942998 GTATCGATACATAGGACATT
1 GTATCGATACATAGGAAAAA
*
3943018 GTATCGATACATAGTAAAAA
1 GTATCGATACATAGGAAAAA
*
3943038 GTATTGATACAT
1 GTATCGATACAT
3943050 TGTGCCAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
GTATCGATACATAGGAAAAA
Found at i:3944526 original size:23 final size:21
Alignment explanation
Indices: 3944479--3944534 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
3944469 GTCAAAACCA
3944479 TGTATCGATACA-TCATAATT
1 TGTATCGATACATTCATAATT
* *
3944499 GGTATCAATACATCTCATGAATT
1 TGTATCGATACAT-TCAT-AATT
3944522 TGTATCGATACAT
1 TGTATCGATACAT
3944535 AAGCTTGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.34
22 4 0.14
23 15 0.52
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCATAATT
Found at i:3947537 original size:110 final size:110
Alignment explanation
Indices: 3947344--3948003 Score: 1149
Period size: 110 Copynumber: 6.0 Consensus size: 110
3947334 AGTTTCAATA
* * * * *
3947344 CTCCTATATCTTAGCTTCATTTGAACATAAATTGAAAAGTTTGGACATTGTCAGTAGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
* *
3947409 CAGTTTGCAGGAAGATGATCTCGATTTTTGTTATATGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
* *
3947454 CTCCTATGTGTTAGCTTCATGTGAGCATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
*
3947519 CGGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
3947564 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
* *
3947629 GAGTTTGCAGGAAGATGATCTTGATTCTTGTTATACGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
3947674 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
3947739 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
* * * *
3947784 TTCCTATGTCTTAGCTTCATTTGAACATAAATTGAAAAGTTTGGGCATTGTCAGTAGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
* *
3947849 CAGTTTGCAGGAAGATGATCTCGATTTTTGTTATATGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
*
3947894 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCTGTCATTGGG
1 CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
3947959 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
66 CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
3948004 TGTTTATTAC
Statistics
Matches: 520, Mismatches: 30, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 520 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (110 bp):
CTCCTATGTCTTAGCTTCATGTGAACATAAATTGAAAAGTTTGGGCATTGTTAGCAGTCATTGGG
CAGTTTGCAGGAAGATGATCTTGATTCTTGTTATATGAATTTAAT
Found at i:3949960 original size:7 final size:7
Alignment explanation
Indices: 3949948--3949972 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3949938 AATTCCCGAG
3949948 TTCACAC
1 TTCACAC
3949955 TTCACAC
1 TTCACAC
3949962 TTCACAC
1 TTCACAC
3949969 TTCA
1 TTCA
3949973 TTGAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.32
Consensus pattern (7 bp):
TTCACAC
Done.