Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 30
Found at i:3276129 original size:19 final size:19
Alignment explanation
Indices: 3276101--3276175 Score: 71
Period size: 20 Copynumber: 3.9 Consensus size: 19
3276091 TCAAAGGGGT
* **
3276101 AGTATTGATACTCATTTAA
1 AGTATCGATACTCACCTAA
*
3276120 AGTATCGATACTCAACCTAG
1 AGTATCGATACTC-ACCTAA
*
3276140 AGTATCGATACTCAACCTAG
1 AGTATCGATACTC-ACCTAA
*
3276160 AGTATAGATACT-ACCT
1 AGTATCGATACTCACCT
3276176 TACTCAAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.08
19 12 0.24
20 34 0.68
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (19 bp):
AGTATCGATACTCACCTAA
Found at i:3276145 original size:20 final size:20
Alignment explanation
Indices: 3276120--3276171 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3276110 ACTCATTTAA
3276120 AGTATCGATACTCAACCTAG
1 AGTATCGATACTCAACCTAG
3276140 AGTATCGATACTCAACCTAG
1 AGTATCGATACTCAACCTAG
*
3276160 AGTATAGATACT
1 AGTATCGATACT
3276172 ACCTTACTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTCAACCTAG
Found at i:3276824 original size:11 final size:11
Alignment explanation
Indices: 3276808--3276832 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3276798 TATAGTACAT
3276808 TTTAGAATATG
1 TTTAGAATATG
3276819 TTTAGAATATG
1 TTTAGAATATG
3276830 TTT
1 TTT
3276833 CTATGCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAATATG
Found at i:3287231 original size:15 final size:15
Alignment explanation
Indices: 3287211--3287277 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
3287201 TTCCGGAAAA
*
3287211 TGAATTACTGGAGTT
1 TGAATTACTGGAATT
**
3287226 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
*
3287241 TAAATTACTGGAATT
1 TGAATTACTGGAATT
**
3287256 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
3287270 TGAATTAC
1 TGAATTAC
3287278 ATTTCTGGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 12 0.29
15 30 0.71
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.34
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:3287275 original size:29 final size:30
Alignment explanation
Indices: 3287205--3287277 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
3287195 TTGGTTTTCC
*
3287205 GGAAAATGAATTACTGGAGTTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTACT
*
3287235 GGAAAATAAATTACTGGAATTTGAATT-CT
1 GGAAAATGAATTACTGGAATTTGAATTACT
3287264 GGAAAATGAATTAC
1 GGAAAATGAATTAC
3287278 ATTTCTGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 15 0.38
30 25 0.62
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.32
Consensus pattern (30 bp):
GGAAAATGAATTACTGGAATTTGAATTACT
Found at i:3287283 original size:20 final size:20
Alignment explanation
Indices: 3287260--3287309 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
3287250 GGAATTTGAA
3287260 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
3287280 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
3287300 TTCTGGAAAA
1 TTCTGGAAAA
3287310 CATCTGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:3287541 original size:27 final size:24
Alignment explanation
Indices: 3287509--3287566 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
3287499 TTACTAAAAT
3287509 ATTATTGAAATATAAATAATATTATTC
1 ATTATT-AAATATAAA-AAT-TTATTC
3287536 ATTATTAAATATAAAAATTTATT-
1 ATTATTAAATATAAAAATTTATTC
3287559 ATATATTA
1 AT-TATTA
3287567 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 2 0.07
24 10 0.33
25 3 0.10
26 9 0.30
27 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTATTAAATATAAAAATTTATTC
Found at i:3287567 original size:27 final size:26
Alignment explanation
Indices: 3287507--3287661 Score: 95
Period size: 26 Copynumber: 5.6 Consensus size: 26
3287497 CTTTACTAAA
3287507 ATATTATTGAAATATAAATAATATTAT
1 ATATTATT-AAATATAAATAATATTAT
3287534 -TCATTATTAAATATAAA-AATTTATTAT
1 AT-ATTATTAAATATAAATAA--TATTAT
3287561 ATATTATTAAA-A-AAATAAAATATCT-T
1 ATATTATTAAATATAAAT--AATAT-TAT
* *
3287587 ATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTA-AATATAA---ATAATATTAT
* *
3287617 ATAATATTAAAAATAAATATAATATTAT
1 ATATTATTAAATAT-AA-ATAATATTAT
*
3287645 ATAAATTAATAAATATA
1 AT--ATTATTAAATATA
3287662 TTTTAAATAT
Statistics
Matches: 100, Mismatches: 10, Indels: 34
0.69 0.07 0.24
Matches are distributed among these distances:
25 5 0.05
26 24 0.24
27 24 0.24
28 14 0.14
29 8 0.08
30 23 0.23
32 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
ATATTATTAAATATAAATAATATTAT
Found at i:3287645 original size:56 final size:53
Alignment explanation
Indices: 3287516--3287646 Score: 131
Period size: 56 Copynumber: 2.4 Consensus size: 53
3287506 AATATTATTG
*
3287516 AAATATAAATAATATTATTCATTATTAAATATAAAAATTTATTATATATTATTAAAA
1 AAATA-AAATAATATTA-T-ATTATTAAATATAAAAATTTATTATATAATATT-AAA
* ** *
3287573 AAATAAAAT-ATCTTATATTATTATAATATAATTGATTATTTTATATAATATT-AA
1 AAATAAAATAATATTATATTATTA-AATATAA-AAATT-TATTATATAATATTAAA
3287627 AAATAAATATAATATTATAT
1 AAATAAA-ATAATATTATAT
3287647 AAATTAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
53 7 0.11
54 17 0.27
55 10 0.16
56 24 0.38
57 5 0.08
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (53 bp):
AAATAAAATAATATTATATTATTAAATATAAAAATTTATTATATAATATTAAA
Found at i:3287648 original size:28 final size:28
Alignment explanation
Indices: 3287507--3287647 Score: 98
Period size: 27 Copynumber: 5.1 Consensus size: 28
3287497 CTTTACTAAA
*
3287507 ATATTATT-GAAATATAA-ATAATATTAT
1 ATATTATTAAAAATA-AATATAATATTAT
* * *
3287534 -TCATTATTAAATATAAAAAT-TTATTAT
1 AT-ATTATTAAAAATAAATATAATATTAT
*
3287561 ATATTATT-AAAA-AAATAAAATATCT-T
1 ATATTATTAAAAATAAATATAATAT-TAT
* * * *
3287587 ATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTA-AAAATAAAT-ATAATATTAT
*
3287617 ATAATATTAAAAATAAATATAATATTAT
1 ATATTATTAAAAATAAATATAATATTAT
3287645 ATA
1 ATA
3287648 AATTAATAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
25 4 0.05
26 16 0.19
27 21 0.24
28 21 0.24
29 11 0.13
30 13 0.15
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAAAATAAATATAATATTAT
Found at i:3287909 original size:42 final size:42
Alignment explanation
Indices: 3287857--3287976 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
3287847 ATGAATTACA
*
3287857 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
3287899 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
3287941 TTCCAGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
3287977 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:3293314 original size:20 final size:19
Alignment explanation
Indices: 3293291--3293328 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3293281 ACAAGTTAGG
*
3293291 GGGTATTAATACCAGAAGGA
1 GGGTATCAATACCA-AAGGA
3293311 GGGTATCAATACCAAAGG
1 GGGTATCAATACCAAAGG
3293329 TTTAGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.18
Consensus pattern (19 bp):
GGGTATCAATACCAAAGGA
Found at i:3298408 original size:22 final size:22
Alignment explanation
Indices: 3298380--3298422 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3298370 TTAATTTCTG
3298380 TTAGGGTGATA-TTTGTGTAAAA
1 TTAGGGTGATAGTTT-TGTAAAA
*
3298402 TTAGGGTGTTAGTTTTGTAAA
1 TTAGGGTGATAGTTTTGTAAA
3298423 TATTTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (22 bp):
TTAGGGTGATAGTTTTGTAAAA
Found at i:3300821 original size:12 final size:12
Alignment explanation
Indices: 3300806--3300889 Score: 64
Period size: 12 Copynumber: 7.0 Consensus size: 12
3300796 GATACATTAC
3300806 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
3300818 CTGATTTCTGAT
1 CTGAATTCTGTT
* *
3300830 ATGGATTCTGTT
1 CTGAATTCTGTT
* *
3300842 ATGATATT-TGAT
1 CTGA-ATTCTGTT
3300854 CTGAATTCTGTT
1 CTGAATTCTGTT
*
3300866 CTGATATT-TGAT
1 CTGA-ATTCTGTT
*
3300878 CTAAATTCTGTT
1 CTGAATTCTGTT
3300890 TTAATTTCTG
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
11 6 0.11
12 43 0.78
13 6 0.11
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:3300901 original size:24 final size:24
Alignment explanation
Indices: 3300783--3300889 Score: 128
Period size: 24 Copynumber: 4.5 Consensus size: 24
3300773 ATTTTCGACT
* *
3300783 TGAATTCTGTTCTGATACATT-ACC
1 TGAATTCTGTTCTGATA-TTTGATC
*
3300807 TGAATTCTGTTCTGAT-TTCTGATA
1 TGAATTCTGTTCTGATATT-TGATC
* *
3300831 TGGATTCTGTTATGATATTTGATC
1 TGAATTCTGTTCTGATATTTGATC
3300855 TGAATTCTGTTCTGATATTTGATC
1 TGAATTCTGTTCTGATATTTGATC
*
3300879 TAAATTCTGTT
1 TGAATTCTGTT
3300890 TTAATTTCTG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 67 0.94
25 2 0.03
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATTTGATC
Found at i:3302918 original size:18 final size:18
Alignment explanation
Indices: 3302897--3303063 Score: 259
Period size: 18 Copynumber: 9.4 Consensus size: 18
3302887 TTTATCCCAT
3302897 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3302915 AGGACCACTGTGTCCCGA
1 AGGACCACTATGTCCCGA
*
3302933 AGGACCATTATGT-CCGA
1 AGGACCACTATGTCCCGA
3302950 AGGA--ACTATGTCCCGA
1 AGGACCACTATGTCCCGA
3302966 AGGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3302984 AGGACCACTATTTCCCGA
1 AGGACCACTATGTCCCGA
*
3303002 AGGACCATTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3303020 AAGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
*
3303038 AGGACCACTGTGTCCCGA
1 AGGACCACTATGTCCCGA
3303056 AGGACCAC
1 AGGACCAC
3303064 GTAGACCCTC
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
15 6 0.04
16 8 0.06
17 8 0.06
18 113 0.84
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:3303894 original size:20 final size:21
Alignment explanation
Indices: 3303869--3303927 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 21
3303859 TTTCCCCTTG
3303869 AAGTGCATCGATGCATTC-TA
1 AAGTGCATCGATGCATTCTTA
3303889 AAGTGCATCGATGCATTCTTTA
1 AAGTGCATCGATGCATTC-TTA
3303911 ACATGTGCATCGATGCA
1 A-A-GTGCATCGATGCA
3303928 CTACCCATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.51
22 3 0.09
23 1 0.03
24 13 0.37
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
AAGTGCATCGATGCATTCTTA
Found at i:3304003 original size:19 final size:19
Alignment explanation
Indices: 3303979--3304030 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
3303969 TTTTAAGGGG
3303979 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
3303998 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
3304017 ATGCATCGATGCAC
1 ATGCATCGATGCAC
3304031 CAATTGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:3304057 original size:83 final size:81
Alignment explanation
Indices: 3303916--3304074 Score: 187
Period size: 83 Copynumber: 1.9 Consensus size: 81
3303906 CTTTAACATG
* * * *
3303916 TGCATCGATGCACTACCCATGCATTGATACACAAATTACCTTCGATGTTTTCATTTTAAGGGGAT
1 TGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTTCA-TTTAAAGAG-T
3303981 GCATCGATGCACTCCTTA
64 GCATCGATGCACTCCTTA
* * * *
3303999 TGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTATTC-TTTAAAGAG
1 TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATG-TT-TTCATTTAAAGAG
3304062 TGCATCGATGCAC
63 TGCATCGATGCAC
3304075 ATTGATGCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
82 15 0.23
83 45 0.69
84 2 0.03
85 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (81 bp):
TGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTTCATTTAAAGAGTGC
ATCGATGCACTCCTTA
Found at i:3305000 original size:2 final size:2
Alignment explanation
Indices: 3304993--3305036 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
3304983 GACAGCCAGC
3304993 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3305034 TA T
1 TA T
3305037 GCAAGGTTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3308201 original size:18 final size:18
Alignment explanation
Indices: 3308175--3308209 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3308165 TACTCCTAAA
* *
3308175 CTTGTGTATCGATACTAT
1 CTTGAGTATCAATACTAT
3308193 CTTGAGTATCAATACTA
1 CTTGAGTATCAATACTA
3308210 AAATTTTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (18 bp):
CTTGAGTATCAATACTAT
Found at i:3314654 original size:16 final size:18
Alignment explanation
Indices: 3314628--3314660 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3314618 CTTCTTCTTT
3314628 CATATTCTCTAA-GTAAC
1 CATATTCTCTAATGTAAC
3314645 CATATT-TCTAATGTAA
1 CATATTCTCTAATGTAA
3314661 GGTCTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (18 bp):
CATATTCTCTAATGTAAC
Found at i:3316669 original size:20 final size:19
Alignment explanation
Indices: 3316628--3316677 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
3316618 AAAAAGTTTT
*
3316628 TATGAATAGTACTTTACTG
1 TATGAATAGTACTGTACTG
*
3316647 TATGAATAGTACTGGTGCTG
1 TATGAATAGTACT-GTACTG
*
3316667 TATAAATAGTA
1 TATGAATAGTA
3316678 TCGATATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (19 bp):
TATGAATAGTACTGTACTG
Found at i:3316766 original size:19 final size:20
Alignment explanation
Indices: 3316739--3316778 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3316729 TGTAAAATGG
3316739 GTATAGAT-ACTGCTACAGT
1 GTATAGATAACTGCTACAGT
*
3316758 GTATCGATACACTGCTACAGT
1 GTATAGATA-ACTGCTACAGT
3316779 AATTTCAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
GTATAGATAACTGCTACAGT
Found at i:3319500 original size:20 final size:20
Alignment explanation
Indices: 3319460--3319502 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3319450 AGTACTTTAT
* **
3319460 TGTATGAATAGTACCGGTAC
1 TGTATAAATAGTACCAATAC
3319480 TGTATAAATAGTACCAATAC
1 TGTATAAATAGTACCAATAC
3319500 TGT
1 TGT
3319503 GTGAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATAAATAGTACCAATAC
Found at i:3323788 original size:11 final size:12
Alignment explanation
Indices: 3323772--3323804 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3323762 CATTCTCATA
3323772 TTTTCTTCTT-C
1 TTTTCTTCTTCC
3323783 TTTTCTTCTTCC
1 TTTTCTTCTTCC
3323795 TTTATCTTCT
1 TTT-TCTTCT
3323805 CTTAGTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 4 0.20
13 6 0.30
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTCTTCTTCC
Found at i:3325829 original size:21 final size:21
Alignment explanation
Indices: 3325787--3325829 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3325777 TTTCTGGGTT
* * *
3325787 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
3325808 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
3325829 A
1 A
3325830 TGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:3325890 original size:67 final size:68
Alignment explanation
Indices: 3325809--3325954 Score: 222
Period size: 67 Copynumber: 2.2 Consensus size: 68
3325799 ACCCATTCAA
* * * *
3325809 GGGGAACCGATACCCCCTCAATGAATATGAATTTCCAGAATGCTAGAGGGGAATCGATACCCCAA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
3325874 G-G
66 GAG
* * *
3325876 GGGGAACCGATACCCCCTCAACGGACATGAAATTCCAGAATGTTAGAGGGGAACCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
3325941 GAG
66 GAG
3325944 GGGGAACCGAT
1 GGGGAACCGAT
3325955 TCCCACATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 59 0.83
68 12 0.17
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.15
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
GAG
Found at i:3326625 original size:149 final size:149
Alignment explanation
Indices: 3326438--3326741 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
3326428 GGGTAGAGGG
* *
3326438 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGAAACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGAAACAT
* *
3326503 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGAAATCATTA
3326568 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
3326587 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGAAACAT
3326652 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGAAATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGAAATCATTA
3326717 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
3326736 TCTACG
1 TCTACG
3326742 GGGCACTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGAAACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGAAATCATTA
TATGGCACTACGGTGCAAT
Found at i:3326764 original size:23 final size:23
Alignment explanation
Indices: 3326720--3326764 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3326710 ATCATTATAT
*
3326720 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
3326743 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
3326765 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:3332844 original size:21 final size:21
Alignment explanation
Indices: 3332802--3332844 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3332792 TTTCTGGGTT
* * *
3332802 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
3332823 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
3332844 A
1 A
3332845 TGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:3332905 original size:67 final size:68
Alignment explanation
Indices: 3332824--3332969 Score: 213
Period size: 67 Copynumber: 2.2 Consensus size: 68
3332814 ACCCATTCAA
* * * *
3332824 GGGGAACCGATACCCCCTCAATGAATATGAATTTCCAGAATGCTAGAGGGGAATCGATACCCCAA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
3332889 G-G
66 GAG
* * * *
3332891 GGGGAACCGATACCCCCTCAACGGACCTGAAATTCCAGAATGTTAGAGGGGAACCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
3332956 GAG
66 GAG
3332959 GGGGAACCGAT
1 GGGGAACCGAT
3332970 TCCCACATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 58 0.83
68 12 0.17
ACGTcount: A:0.32, C:0.26, G:0.27, T:0.15
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAACATGAAATTCCAGAATGCTAGAGGGGAACCGATACCCCAA
GAG
Found at i:3333647 original size:149 final size:149
Alignment explanation
Indices: 3333454--3333757 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
3333444 GGGTAGAGGG
* *
3333454 TCTACGCGGTTCTTTGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
3333519 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
3333584 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
3333603 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
3333668 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
3333733 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
3333752 TCTACG
1 TCTACG
3333758 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:3336207 original size:49 final size:49
Alignment explanation
Indices: 3336135--3336231 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
3336125 TTATAACTTG
3336135 TAGTGTTATTTAGTGAAGTTCTGGTGTTATTAAGCCCTTTTCTCAAACA
1 TAGTGTTATTTAGTGAAGTTCTGGTGTTATTAAGCCCTTTTCTCAAACA
*
3336184 TAGTGTTATTTAGTGAAGTTCTGGTGTTATTAGGCCCTTTTCTCAAAC
1 TAGTGTTATTTAGTGAAGTTCTGGTGTTATTAAGCCCTTTTCTCAAAC
3336232 CTCTTGATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (49 bp):
TAGTGTTATTTAGTGAAGTTCTGGTGTTATTAAGCCCTTTTCTCAAACA
Found at i:3353725 original size:2 final size:2
Alignment explanation
Indices: 3353718--3353748 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3353708 CTTGAACGCT
3353718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3353749 TTGGTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3353778 original size:19 final size:21
Alignment explanation
Indices: 3353747--3353790 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
3353737 ATATATATAT
*
3353747 ATTTGGTTTTGATT-GTTTGA
1 ATTTGGTTTTGATTAGTTTAA
3353767 ATTTGG-TTTGATTAGTTTAA
1 ATTTGGTTTTGATTAGTTTAA
3353787 ATTT
1 ATTT
3353791 AATGTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGGTTTTGATTAGTTTAA
Found at i:3354059 original size:12 final size:14
Alignment explanation
Indices: 3354032--3354066 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
3354022 AGGGGGAGTA
3354032 ATTTTCAAAAATTG
1 ATTTTCAAAAATTG
3354046 A-TTTCAAAAA-TG
1 ATTTTCAAAAATTG
3354058 ATTTTCAAA
1 ATTTTCAAA
3354067 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 16 0.80
14 1 0.05
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:3354505 original size:19 final size:19
Alignment explanation
Indices: 3354481--3354533 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
3354471 GAATGTAATT
3354481 AGTGTATCGATACACCCCA
1 AGTGTATCGATACACCCCA
*
3354500 AGTGTACCGATACACCCCA
1 AGTGTATCGATACACCCCA
*
3354519 AGTTTATCGATACAC
1 AGTGTATCGATACAC
3354534 TAGGTCAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (19 bp):
AGTGTATCGATACACCCCA
Found at i:3356156 original size:19 final size:19
Alignment explanation
Indices: 3356118--3356157 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3356108 CCCGAAGGGG
*
3356118 GCTGTTTGAGCTGAGCCGA
1 GCTGTTTGAGCTAAGCCGA
*
3356137 GCTGTTTGAGCTAAGTCGA
1 GCTGTTTGAGCTAAGCCGA
3356156 GC
1 GC
3356158 CACCTGGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (19 bp):
GCTGTTTGAGCTAAGCCGA
Found at i:3357980 original size:24 final size:24
Alignment explanation
Indices: 3357953--3358013 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
3357943 ATTTTTGTTC
*
3357953 TGATTTCTGATATGGATTCGGTTA
1 TGATTTCTGATATGAATTCGGTTA
* * * *
3357977 TGATATCTGATCTGAATTCTGTTT
1 TGATTTCTGATATGAATTCGGTTA
3358001 TGATTTCTGATAT
1 TGATTTCTGATAT
3358014 CTCTGTTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (24 bp):
TGATTTCTGATATGAATTCGGTTA
Found at i:3360116 original size:42 final size:43
Alignment explanation
Indices: 3360056--3360146 Score: 166
Period size: 42 Copynumber: 2.1 Consensus size: 43
3360046 CCTCCAACCG
*
3360056 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
3360099 AACACA-CATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
3360141 AACACA
1 AACACA
3360147 AGTAAGGCCC
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 41 0.87
43 6 0.13
ACGTcount: A:0.37, C:0.35, G:0.11, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:3360275 original size:24 final size:24
Alignment explanation
Indices: 3360262--3360379 Score: 166
Period size: 24 Copynumber: 4.9 Consensus size: 24
3360252 AAACATAATT
*
3360262 CATGTCAAGTATCACATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* * *
3360286 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAAAATC
*
3360310 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
*
3360334 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAAAATC
3360358 CATGTCAAGTATCAGATCAAAA
1 CATGTCAAGTATCAGATCAAAA
3360380 ATCAAATCGA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAAAATC
Found at i:3360396 original size:72 final size:71
Alignment explanation
Indices: 3360262--3360403 Score: 164
Period size: 72 Copynumber: 2.0 Consensus size: 71
3360252 AAACATAATT
* * * *
3360262 CATGTCAAGTATCACATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCACATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAAATCAAGAATCAGAT
3360327 CAAAATC
66 -AAAATC
* * *
3360334 CATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCAAAAAT-CAAATCGAA-AATCA
1 CATGTCAAG-TATCACATCAAAATCCAGGTCAAGTATCAGATC-AAAATCCAAATC-AAGAATCA
3360396 GATAAAAT
63 GATAAAAT
3360404 ATTCATGTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
71 7 0.12
72 47 0.78
73 6 0.10
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (71 bp):
CATGTCAAGTATCACATCAAAATCCAGGTCAAGTATCAGATCAAAATCCAAATCAAGAATCAGAT
AAAATC
Found at i:3365147 original size:43 final size:43
Alignment explanation
Indices: 3365077--3365164 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
3365067 CCTCCAACCG
* * * *
3365077 AACACACCATAATGTGTATGTTTCCCAGAACCATACACCCACC
1 AACACAACAAAATGTGTAGGTTCCCCAGAACCATACACCCACC
3365120 AACACAACAAAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACAACAAAATGTGTAGGTTCCCCAGAACCATACACCCACC
3365163 AA
1 AA
3365165 TACACCAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (43 bp):
AACACAACAAAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:3365300 original size:24 final size:24
Alignment explanation
Indices: 3365287--3365405 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
3365277 AAACATAATT
* *
3365287 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* * *
3365311 CAAGTTAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
3365335 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
3365359 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
3365383 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
3365406 TCAAATCGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
23 2 0.02
24 83 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:3365421 original size:48 final size:48
Alignment explanation
Indices: 3365290--3365423 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
3365280 CATAATTCAT
* * * * * *
3365290 GTCAAGTATCATATCAAAATCCAAGTTA-AGTATCATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAAATCAGA-AATCAGATCAGAATCCAA
** * *
3365338 GTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
*
3365386 GTCAAGTATCAGATCAGAATTCAAATC-GAAAATCAGAT
1 GTCAAGTATCAGATCAGAATCCAAATCAG-AAATCAGAT
3365424 AAAATATTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 72 0.97
49 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAAATCAGAAATCAGATCAGAATCCAA
Found at i:3365421 original size:72 final size:72
Alignment explanation
Indices: 3365287--3365423 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
3365277 AAACATAATT
* * * * *
3365287 CATGTCAAGTATCATATCAAAATCCAAGTTAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
3365352 CAGAATC
66 CAGAATC
* * *
3365359 CATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAG
3365422 AT
64 AT
3365424 AAAATATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.93
73 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCAGATCAAAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:3370169 original size:42 final size:43
Alignment explanation
Indices: 3370109--3370195 Score: 149
Period size: 42 Copynumber: 2.0 Consensus size: 43
3370099 CCTCCAACCG
* *
3370109 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACAACATAATGTGTAGGTTCCCCAGAACCATACACCCACC
3370152 AACACAACA-AATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACAACATAATGTGTAGGTTCCCCAGAACCATACACCCACC
3370194 AA
1 AA
3370196 TACACCAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 34 0.81
43 8 0.19
ACGTcount: A:0.38, C:0.34, G:0.11, T:0.16
Consensus pattern (43 bp):
AACACAACATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:3370330 original size:24 final size:24
Alignment explanation
Indices: 3370317--3370435 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
3370307 AAACATAATT
* *
3370317 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCAGATCAGAATC
* * *
3370341 CAGGTTAAGTATCATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
*
3370365 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
3370389 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
3370413 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
3370436 TCAAATCGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 2 0.02
24 82 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:3370451 original size:48 final size:48
Alignment explanation
Indices: 3370351--3370453 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 48
3370341 CAGGTTAAGT
* ** *
3370351 ATCATATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAA
* *
3370399 ATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAG-AA
3370447 ATCAGAT
1 ATCAGAT
3370454 AAAATATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCCAAATCAGAA
Found at i:3370451 original size:72 final size:72
Alignment explanation
Indices: 3370317--3370453 Score: 170
Period size: 72 Copynumber: 1.9 Consensus size: 72
3370307 AAACATAATT
* * * * *
3370317 CATGTCAAGTATCATATCAAAATCCAGGTTAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
3370382 CAGAATC
66 CAGAATC
* * *
3370389 CATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAG
3370452 AT
64 AT
3370454 AAAATATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.93
73 2 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:3373002 original size:13 final size:13
Alignment explanation
Indices: 3372984--3373056 Score: 83
Period size: 13 Copynumber: 5.2 Consensus size: 13
3372974 AACGGTCAAT
3372984 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3372997 GGTCAACAGGTCGGGTCG
1 GGTC-A-A---CGGGTCG
*
3373015 AGTCAACGGGTCG
1 GGTCAACGGGTCG
*
3373028 GGTCAACGGGTCA
1 GGTCAACGGGTCG
3373041 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3373054 GGT
1 GGT
3373057 TATGACCGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
13 37 0.73
14 1 0.02
15 1 0.02
16 1 0.02
17 1 0.02
18 10 0.20
ACGTcount: A:0.18, C:0.22, G:0.44, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3373013 original size:26 final size:28
Alignment explanation
Indices: 3372970--3373056 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 28
3372960 GGTCAACGTC
* *
3372970 GGTCAAC-GGTCAATGGTCAACGGGTCG
1 GGTCAACAGGTCGACGGTCAACGGGTCG
*
3372997 GGTCAACAGGTCGGGTCGAGTCAACGGGTCG
1 GGTCAACAGGTC--GACG-GTCAACGGGTCG
*
3373028 GGTCAACGGGTC-A-GGTCAACGGGTCG
1 GGTCAACAGGTCGACGGTCAACGGGTCG
3373054 GGT
1 GGT
3373057 TATGACCGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
26 15 0.29
27 8 0.16
28 4 0.08
30 1 0.02
31 23 0.45
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.17
Consensus pattern (28 bp):
GGTCAACAGGTCGACGGTCAACGGGTCG
Found at i:3373022 original size:31 final size:31
Alignment explanation
Indices: 3372985--3373044 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
3372975 ACGGTCAATG
*
3372985 GTCAACGGGTCGGGTCAACAGGTCGGGTCGA
1 GTCAACGGGTCGGGTCAACAGGTCAGGTCGA
*
3373016 GTCAACGGGTCGGGTCAACGGGTCAGGTC
1 GTCAACGGGTCGGGTCAACAGGTCAGGTC
3373045 AACGGGTCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.42, T:0.17
Consensus pattern (31 bp):
GTCAACGGGTCGGGTCAACAGGTCAGGTCGA
Found at i:3373044 original size:18 final size:18
Alignment explanation
Indices: 3372990--3373031 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3372980 CAATGGTCAA
*
3372990 CGGGTCGGGTCAACAGGT
1 CGGGTCGAGTCAACAGGT
*
3373008 CGGGTCGAGTCAACGGGT
1 CGGGTCGAGTCAACAGGT
3373026 CGGGTC
1 CGGGTC
3373032 AACGGGTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (18 bp):
CGGGTCGAGTCAACAGGT
Found at i:3375227 original size:43 final size:43
Alignment explanation
Indices: 3375166--3375260 Score: 156
Period size: 43 Copynumber: 2.2 Consensus size: 43
3375156 CCTCCAACTG
*
3375166 AACACACCATAATGTGTAGGTTTCCC-AGAACCATACACCCACC
1 AACACACCATAATGTGTAGG-TTCCCTAAAACCATACACCCACC
3375209 AACACACCATAATGTGTAGGTTCCCTAAAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCTAAAACCATACACCCACC
*
3375252 AATACACCA
1 AACACACCA
3375261 AGTAAGGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 5 0.10
43 44 0.90
ACGTcount: A:0.38, C:0.35, G:0.09, T:0.18
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCTAAAACCATACACCCACC
Found at i:3375491 original size:24 final size:24
Alignment explanation
Indices: 3375384--3375494 Score: 134
Period size: 24 Copynumber: 4.6 Consensus size: 24
3375374 TTCATGTCAT
* * * *
3375384 GTATCATATCAAAATCCAGGTCAA
1 GTATCAGATCAGAATCCATGCCAA
* * *
3375408 GTATCATATCAGAATCCAAGTCAA
1 GTATCAGATCAGAATCCATGCCAA
*
3375432 GTATCAGATGAGAATCCATGCC-A
1 GTATCAGATCAGAATCCATGCCAA
3375455 GATATCAGATCAGAATCCATGCCAA
1 G-TATCAGATCAGAATCCATGCCAA
3375480 GTATCAGATCAGAAT
1 GTATCAGATCAGAAT
3375495 TCAAATCGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.03
24 74 0.95
25 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (24 bp):
GTATCAGATCAGAATCCATGCCAA
Found at i:3377998 original size:18 final size:18
Alignment explanation
Indices: 3377975--3378011 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3377965 CAACGGTCAA
3377975 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
*
3377993 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
3378011 C
1 C
3378012 AGGTAAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.24, G:0.46, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:3378011 original size:13 final size:13
Alignment explanation
Indices: 3377969--3377998 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3377959 GCCGGTCAAC
*
3377969 GGTCAACGGGTCG
1 GGTCAACAGGTCG
3377982 GGTCAACAGGTCG
1 GGTCAACAGGTCG
3377995 GGTC
1 GGTC
3377999 GGGTCAACGG
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:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:3378020 original size:13 final size:13
Alignment explanation
Indices: 3377993--3378026 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3377983 GTCAACAGGT
* *
3377993 CGGGTCGGGTCAA
1 CGGGTCAGGTAAA
3378006 CGGGTCAGGTAAA
1 CGGGTCAGGTAAA
3378019 CGGGTCAG
1 CGGGTCAG
3378027 TTTGGGTCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.44, T:0.15
Consensus pattern (13 bp):
CGGGTCAGGTAAA
Found at i:3383959 original size:21 final size:21
Alignment explanation
Indices: 3383934--3383989 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
3383924 ACAACAGTAG
*
3383934 GAGTCAATAACAATAGATGAA
1 GAGTCAAGAACAATAGATGAA
* *
3383955 GAGTCAAGAACAGTAGATGAG
1 GAGTCAAGAACAATAGATGAA
*
3383976 GAGTTAAGAACAAT
1 GAGTCAAGAACAAT
3383990 CGATCGAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (21 bp):
GAGTCAAGAACAATAGATGAA
Found at i:3384349 original size:2 final size:2
Alignment explanation
Indices: 3384342--3384403 Score: 56
Period size: 2 Copynumber: 31.5 Consensus size: 2
3384332 TACTTGTATG
* * * * *
3384342 TA TA TA TA TA TA TA GA TA TT TA AA CA -A T- TA TA CTA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
3384383 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
3384404 TGTATAAGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
1 2 0.04
2 45 0.92
3 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:3384452 original size:14 final size:14
Alignment explanation
Indices: 3384433--3384507 Score: 60
Period size: 14 Copynumber: 6.0 Consensus size: 14
3384423 AAGTATAACT
3384433 TACTTATAAGTATA
1 TACTTATAAGTATA
3384447 TAC-T-T-A-TATA
1 TACTTATAAGTATA
*
3384457 TACTTATAAGTATG
1 TACTTATAAGTATA
3384471 TA--TAT--GTATA
1 TACTTATAAGTATA
*
3384481 -ACATATAAGTATA
1 TACTTATAAGTATA
*
3384494 AACTTATAAGTATA
1 TACTTATAAGTATA
3384508 AATAAACTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
9 1 0.02
10 11 0.22
11 5 0.10
12 5 0.10
13 7 0.14
14 20 0.41
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (14 bp):
TACTTATAAGTATA
Found at i:3384508 original size:14 final size:14
Alignment explanation
Indices: 3384406--3384509 Score: 57
Period size: 14 Copynumber: 7.9 Consensus size: 14
3384396 ATATATATTG
*
3384406 TATAAGTATAAAGT
1 TATAAGTATAAACT
3384420 T-TAAAGTATAACTTACT
1 TAT-AAGTATAA---ACT
*
3384437 TATAAGTATATACT
1 TATAAGTATAAACT
3384451 TAT-A-TAT--ACT
1 TATAAGTATAAACT
*
3384461 TATAAGTAT----G
1 TATAAGTATAAACT
* *
3384471 TATATGTAT-AACA
1 TATAAGTATAAACT
3384484 TATAAGTATAAACT
1 TATAAGTATAAACT
3384498 TATAAGTATAAA
1 TATAAGTATAAA
3384510 TAAACTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
10 14 0.19
11 1 0.01
12 6 0.08
13 10 0.14
14 30 0.42
17 10 0.14
18 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (14 bp):
TATAAGTATAAACT
Found at i:3384514 original size:18 final size:20
Alignment explanation
Indices: 3384485--3384540 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
3384475 TGTATAACAT
*
3384485 ATAAGTATAAACTTATA-AGT
1 ATAA-TATAAACTTATATAGA
3384505 ATAA-ATAAACTTATATAGA
1 ATAATATAAACTTATATAGA
*
3384524 ATAATATAAAATTATAT
1 ATAATATAAACTTATAT
3384541 TTATACTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 11 0.34
19 6 0.19
20 15 0.47
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAATATAAACTTATATAGA
Found at i:3384550 original size:12 final size:12
Alignment explanation
Indices: 3384535--3384615 Score: 63
Period size: 13 Copynumber: 6.4 Consensus size: 12
3384525 TAATATAAAA
*
3384535 TTATATTTATAC
1 TTATAATTATAC
3384547 TTATAATTATAC
1 TTATAATTATAC
* *
3384559 TTTTATTATATAC
1 TTATAAT-TATAC
*
3384572 TTATAATTATAA
1 TTATAATTATAC
* *
3384584 TGTATAGTTATAA
1 T-TATAATTATAC
*
3384597 TGTAAAATGTATAC
1 T-TATAAT-TATAC
3384611 TTATA
1 TTATA
3384616 CATATACATA
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
12 21 0.38
13 29 0.53
14 5 0.09
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (12 bp):
TTATAATTATAC
Found at i:3384556 original size:6 final size:6
Alignment explanation
Indices: 3384533--3384597 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
3384523 AATAATATAA
* * * *
3384533 AATTAT ATTTAT ACTTAT AATTAT ACTT-T TATTAT ATACTTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT A-A-TTAT AATTAT
*
3384582 AATGTAT AGTTAT AAT
1 AAT-TAT AATTAT AAT
3384598 GTAAAATGTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
5 3 0.07
6 31 0.67
7 7 0.15
8 5 0.11
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (6 bp):
AATTAT
Found at i:3384595 original size:25 final size:24
Alignment explanation
Indices: 3384524--3384595 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
3384514 CTTATATAGA
*
3384524 ATAATATAAAATTATATTTATACTT
1 ATAAT-TATAATTATATTTATACTT
* *
3384549 ATAATTATACTTTTATTATATACTT
1 ATAATTATAATTATATT-TATACTT
*
3384574 ATAATTATAATGTATAGTTATA
1 ATAATTATAAT-TATATTTATA
3384596 ATGTAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 9 0.23
25 26 0.67
26 4 0.10
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (24 bp):
ATAATTATAATTATATTTATACTT
Found at i:3384607 original size:20 final size:19
Alignment explanation
Indices: 3384567--3384615 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
3384557 ACTTTTATTA
*
3384567 TATACTTATAATTATAATG
1 TATACTTATAATTAAAATG
*
3384586 TATAGTTATAATGTAAAATG
1 TATACTTATAAT-TAAAATG
3384606 TATACTTATA
1 TATACTTATA
3384616 CATATACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (19 bp):
TATACTTATAATTAAAATG
Found at i:3384621 original size:6 final size:6
Alignment explanation
Indices: 3384606--3386706 Score: 2931
Period size: 6 Copynumber: 352.3 Consensus size: 6
3384596 ATGTAAAATG
*
3384606 TATACT TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384654 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384702 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384750 TATACA TATAC- -ATACA TATACA TATAC- -ATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384794 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384842 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384890 TATACA TATACA TATACA TATACA TATACA TATACA TAT--A -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384935 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3384983 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385029 TATAC- -ATACA TATACA TATACA TATACA TATACA TATACATA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A TATACA
3385077 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385123 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385169 TATACA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385215 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385263 TATACA TATACA TATACA TATACA TATAC- TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385310 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TAT-ACA
3385359 TATACA TATACA TATACA TATACA TATACA TATACA TACATACA TAT-CA
1 TATACA TATACA TATACA TATACA TATACA TATACA T--ATACA TATACA
3385408 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
3385454 TATACA TATACA TATACA TATACA TATACA TATACA TATGCA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* * * * * * *
3385502 TATGCA TATGCA TATACA TATGCA TATGCA TATGCA TATGCA TATGCA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* *
3385550 TATGCA TATACA TATGCA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385598 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
3385646 TATACA TATACA TATGCA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
3385694 TATGCA TATACA TATACA TATACA TATACA TATAC- -ATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
3385739 -ATACA TATACA TATACA TATACATA TATACA TATACA TATACATA TATAGA
1 TATACA TATACA TATACA TATAC--A TATACA TATACA TATAC--A TATACA
*
3385790 CATACA TATACA TATACA TATACATA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATAC--A TATACA TATACA TATACA TATACA
3385840 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3385888 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*** * ***
3385936 TATACA TATACA TATACA TATACA TATACA TATGTGTG TGTGTGT TATA-A
1 TATACA TATACA TATACA TATACA TATACA TA--TACA TAT-ACA TATACA
* * * * * *
3385986 GTCTCTCTC TCTCACA CCATACA T-T--A TATACT TATA-A GTATA-A
1 -TAT-AC-A TAT-ACA -TATACA TATACA TATACA TATACA -TATACA
* * * *** * * *
3386029 TGTAACTTA TATATA TATATA TATACA TATGTT TATATA TA-ATA TATATA
1 TAT-AC--A TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* * * * * * * * * * * *
3386079 TATAACA CACATCA TTCTAAA AATTCA GGAAAAA T-TAAA AATA-A TTTTA-A
1 TAT-ACA TATA-CA -TATACA TATACA -TATACA TATACA TATACA -TATACA
*
3386129 TA-A-A TATATA TATA-A CTATACA TTATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA -TATACA -TATACA TATACA TATACA TATACA
3386176 TATACATA TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATAC--A TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3386224 TAT-CA TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
3386269 TATACA TATACA TATACA TATATGCA TATGCA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATA--CA TATACA TATACA TATACA TATACA
*
3386319 TATGCA TATACA TAT-CA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3386366 TATACA TATACA TATACA TATACA TATACACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TAT--ACA TATACA TATACA TATACA
* *
3386416 TATACA TATACA TATACA TACATACA TATACA TATGCA TATGCA TATAC-
1 TATACA TATACA TATACA T--ATACA TATACA TATACA TATACA TATACA
* * *
3386465 -ATACA -ATACA TATACA TATGCA TATGCA TATACA TATATA TACATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA T--ATACA
3386513 TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3386559 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC-
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3386606 -ATACA TATACA TATACA TATACA TATACA TAT--A TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
* * *
3386651 TATACA TATACA TATACA TATACA TATACA TATACA TACATA CATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
3386699 TATACA TA
1 TATACA TA
3386707 CATATGGTGT
Statistics
Matches: 1924, Mismatches: 84, Indels: 174
0.88 0.04 0.08
Matches are distributed among these distances:
3 4 0.00
4 70 0.04
5 41 0.02
6 1713 0.89
7 26 0.01
8 67 0.03
9 3 0.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:3386045 original size:4 final size:4
Alignment explanation
Indices: 3386036--3386082 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
3386026 TAATGTAACT
* * *
3386036 TATA TATA TATA TATA TACA TATG TTTA TATA TA-A TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
3386083 ACACACATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 3 0.08
4 33 0.92
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:3386776 original size:2 final size:2
Alignment explanation
Indices: 3386769--3386811 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
3386759 AAGTATAATG
* * *
3386769 TA TA TA TA TA TA TA TA TA CA TA TG TT TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3386810 TA
1 TA
3386812 ACACACATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3386946 original size:2 final size:2
Alignment explanation
Indices: 3386941--3387218 Score: 98
Period size: 2 Copynumber: 149.0 Consensus size: 2
3386931 CGTAATTAAG
*
3386941 TA TA TA TA TA TA TA TA -A CT- TA TA T- TA T- TA TA TA TA -A TG
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
3386979 TA TA -A T- TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3387018 TA TA TT TA TA -A GT- TA TA TA CT- TA TA T- TA TA TA T- TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
3387056 TA CT- TA TA -A GTA TA -A TG TA TA GT- TA TA TA TG T- TT TA CA
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
3387094 TA TA TA GT- TA TA TA GA T- TA TA AA TA TA AA CA TA TG TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3387135 TA TA -A T- TA TA CA T- TA TA -A GTA TA -A GTA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* *
3387173 CT- TA TA T- TA TA TA CT- TA -A AA GTA TA -A TG TA TA TA TA TA
1 -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
3387211 TA TA TA TA
1 TA TA TA TA
3387219 AAAATTATTT
Statistics
Matches: 208, Mismatches: 24, Indels: 88
0.65 0.08 0.28
Matches are distributed among these distances:
1 32 0.15
2 166 0.80
3 10 0.05
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3386971 original size:19 final size:19
Alignment explanation
Indices: 3386941--3387023 Score: 77
Period size: 17 Copynumber: 4.4 Consensus size: 19
3386931 CGTAATTAAG
3386941 TATATA-TA-TATATATAA
1 TATATATTATTATATATAA
3386958 CT-TATATTATTATATATAA
1 -TATATATTATTATATATAA
* *
3386977 TGTATA--ATTATATATTA
1 TATATATTATTATATATAA
3386994 TATATATATATATATATATATA
1 TATATAT-TAT-TATATATA-A
3387016 TATATATT
1 TATATATT
3387024 TATAAGTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
17 19 0.35
18 4 0.07
19 13 0.24
20 2 0.04
21 8 0.15
22 8 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TATATATTATTATATATAA
Found at i:3387083 original size:71 final size:71
Alignment explanation
Indices: 3386942--3387219 Score: 72
Period size: 71 Copynumber: 3.8 Consensus size: 71
3386932 GTAATTAAGT
*
3386942 ATATATATATATATAACTTATATTATTATATATA-ATGTATA-AT-TATATAT-TATATAT-A-T
1 ATATATA-ATATATAA-TTATA-TATTATATATATATATATATATATATATATATATATATAACT
3387001 ATATATATATAT
63 -TATAT-TAT-T
* *
3387013 ATATATATATTTATAAGTTATATACTTATAT-TATATAT-TAT-TATACT-TATA-A-GTATAA-
1 ATATATA-ATATATAA-TTATATA-TTATATATATATATATATATATA-TATATATATATATAAC
3387071 TGTATAGTTATAT
62 T-TATA-TTAT-T
* * * * * * *
3387084 ATGTTTTACATATATAGTTATATAGATTATAAATATAAACATATGTATATATATA-AT-TAT-AC
1 AT-ATATA-ATATATAATTATAT--ATTATATATATATATATATATATATATATATATATATAAC
* *
3387146 ATTATAAGTATA
62 -TTAT-ATTATT
* * *
3387158 AGTATATAATATAT-ACT-TATATTATATACT-TAAAAGTATAATGTATATATATATATATATAA
1 A-TATATAATATATAATTATATATTATATA-TAT-ATA-TAT-ATATATATATATATATATATAA
3387220 AAATTATTTT
Statistics
Matches: 159, Mismatches: 21, Indels: 50
0.69 0.09 0.22
Matches are distributed among these distances:
69 8 0.05
70 14 0.09
71 59 0.37
72 30 0.19
73 14 0.09
74 12 0.08
75 20 0.13
76 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (71 bp):
ATATATAATATATAATTATATATTATATATATATATATATATATATATATATATATATAACTTAT
ATTATT
Found at i:3387119 original size:23 final size:23
Alignment explanation
Indices: 3386970--3387120 Score: 65
Period size: 23 Copynumber: 6.8 Consensus size: 23
3386960 TATATTATTA
*
3386970 TATATAATG-TATAATTATATA-T
1 TATAT-ATGTTATAAATATATAGT
* *
3386992 TATATATATATATATATATATA-T
1 TATATATGT-TATAAATATATAGT
* *
3387015 ATATATAT-TTATAAGTTATATACT
1 -TATATATGTTATAA-ATATATAGT
* * *
3387039 TATAT-T-ATAT-ATTATTATACT
1 TATATATGTTATAAATA-TATAGT
*
3387060 TATA-A-G-TAT-AATGTATAGT
1 TATATATGTTATAAATATATAGT
* *
3387079 TATATATGTTTTACATATATAGT
1 TATATATGTTATAAATATATAGT
3387102 TATATA-GATTATAAATATA
1 TATATATG-TTATAAATATA
3387121 AACATATGTA
Statistics
Matches: 102, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
19 9 0.09
20 9 0.09
21 14 0.14
22 16 0.16
23 46 0.45
24 8 0.08
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
TATATATGTTATAAATATATAGT
Found at i:3387178 original size:13 final size:13
Alignment explanation
Indices: 3387135--3387189 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
3387125 TATGTATATA
3387135 TATAAT-TATACAT
1 TATAATATATAC-T
*
3387148 TATAAGTATA-AGT
1 TATAA-TATATACT
3387161 ATATAATATATACT
1 -TATAATATATACT
*
3387175 TATATTATATACT
1 TATAATATATACT
3387188 TA
1 TA
3387190 AAAGTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 24 0.69
14 9 0.26
15 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.45
Consensus pattern (13 bp):
TATAATATATACT
Found at i:3389230 original size:252 final size:252
Alignment explanation
Indices: 3388785--3389292 Score: 1016
Period size: 252 Copynumber: 2.0 Consensus size: 252
3388775 CAAGGTAAGA
3388785 GGGATATGTGCTATGTGACGATGACCAGGAGTCCAGAGACCGTATTTTTTTTTGTTGCCCTTATT
1 GGGATATGTGCTATGTGACGATGACCAGGAGTCCAGAGACCGTATTTTTTTTTGTTGCCCTTATT
3388850 TTAAAAAGGTTGGTTTGGGATCTTGAGGGCTTGCAACTTGCATAGGAGGATTATGAATTGGAGTA
66 TTAAAAAGGTTGGTTTGGGATCTTGAGGGCTTGCAACTTGCATAGGAGGATTATGAATTGGAGTA
3388915 CGATATTGAGTTGGGTTACTAACATGCTTAGTGGGAGGTCCATTCTTACTATTGTGCTTATACTT
131 CGATATTGAGTTGGGTTACTAACATGCTTAGTGGGAGGTCCATTCTTACTATTGTGCTTATACTT
3388980 GTTGGGAACTCGACTGTTTATTTTATCTGGAAGGAGAGTAATGCGAGGATTTTTCAG
196 GTTGGGAACTCGACTGTTTATTTTATCTGGAAGGAGAGTAATGCGAGGATTTTTCAG
3389037 GGGATATGTGCTATGTGACGATGACCAGGAGTCCAGAGACCGTATTTTTTTTTGTTGCCCTTATT
1 GGGATATGTGCTATGTGACGATGACCAGGAGTCCAGAGACCGTATTTTTTTTTGTTGCCCTTATT
3389102 TTAAAAAGGTTGGTTTGGGATCTTGAGGGCTTGCAACTTGCATAGGAGGATTATGAATTGGAGTA
66 TTAAAAAGGTTGGTTTGGGATCTTGAGGGCTTGCAACTTGCATAGGAGGATTATGAATTGGAGTA
3389167 CGATATTGAGTTGGGTTACTAACATGCTTAGTGGGAGGTCCATTCTTACTATTGTGCTTATACTT
131 CGATATTGAGTTGGGTTACTAACATGCTTAGTGGGAGGTCCATTCTTACTATTGTGCTTATACTT
3389232 GTTGGGAACTCGACTGTTTATTTTATCTGGAAGGAGAGTAATGCGAGGATTTTTCAG
196 GTTGGGAACTCGACTGTTTATTTTATCTGGAAGGAGAGTAATGCGAGGATTTTTCAG
3389289 GGGA
1 GGGA
3389293 ATCAGGTGCA
Statistics
Matches: 256, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 256 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (252 bp):
GGGATATGTGCTATGTGACGATGACCAGGAGTCCAGAGACCGTATTTTTTTTTGTTGCCCTTATT
TTAAAAAGGTTGGTTTGGGATCTTGAGGGCTTGCAACTTGCATAGGAGGATTATGAATTGGAGTA
CGATATTGAGTTGGGTTACTAACATGCTTAGTGGGAGGTCCATTCTTACTATTGTGCTTATACTT
GTTGGGAACTCGACTGTTTATTTTATCTGGAAGGAGAGTAATGCGAGGATTTTTCAG
Found at i:3395949 original size:19 final size:17
Alignment explanation
Indices: 3395925--3395967 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
3395915 ACCAACATCC
*
3395925 AAAATAAGACCTTTCCCAT
1 AAAATAAGACCATT--CAT
*
3395944 AAAATAATACCATTCAT
1 AAAATAAGACCATTCAT
3395961 AAAATAA
1 AAAATAA
3395968 ATTGTCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.53, C:0.19, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAATAAGACCATTCAT
Found at i:3401500 original size:2 final size:2
Alignment explanation
Indices: 3401495--3401583 Score: 162
Period size: 2 Copynumber: 45.0 Consensus size: 2
3401485 AAAGACATGA
3401495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3401537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3401578 AT AT AT
1 AT AT AT
3401584 TTGATACATA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
1 1 0.01
2 83 0.99
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3403920 original size:212 final size:211
Alignment explanation
Indices: 3403543--3403940 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 211
3403533 TGGATGGCCT
* * * *
3403543 AAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACTCGAAGGATTTAAGTATCATGCTCGA
1 AAAGGACTCATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGA
* * *
3403608 AAGACTTATTAATGGCCCAAAGGACTTACCAACTTTGGAAATAGTTTACTAGGTAAGAAACCTTT
66 AAAACTTACTAATGGCCCAAAGGACTTACCAACTTTGGAAATAGTTTACTAGATAAGAAACCTTT
*
3403673 CTTACTTTTCAAAAATTTCAAATTTCAGTTTTAAATGAGGAACTTTCCTCATCTTTTTAAATCAC
131 CTTACTTTTCAAAAATTTCAAATTTCAGTTTTAAATGAGAAACTTTCCTCAT-TTTTTAAATCAC
3403738 GTGAAAACATCCTAACC
195 GTGAAAACATCCTAACC
* *
3403755 AAAGGTCTCATCATCTTGCTCGAAATG-CTTACAAATGACCCGAAGGATTTAAGCATCATGCTTG
1 AAAGGACTCATCATCTTGCTCGAAA-GACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCG
* * *
3403819 AAAAACTTACTAGTGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGATAAGAAACCTT
65 AAAAACTTACTAATGGCCCAAAGGACTTACCAACTTTGGAAATAGTTTACTAGATAAGAAACCTT
* *
3403884 TCTTACTTTTCAAAATTTTCAAATTTCA-TATTTAAATGAGAAACTTTTCTCATTTTT
130 TCTTACTTTTCAAAAATTTCAAATTTCAGT-TTTAAATGAGAAACTTTCCTCATTTTT
3403941 AAGAGATATG
Statistics
Matches: 169, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
211 5 0.03
212 163 0.96
213 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (211 bp):
AAAGGACTCATCATCTTGCTCGAAAGACTTACAAATGACCCGAAGGATTTAAGCATCATGCTCGA
AAAACTTACTAATGGCCCAAAGGACTTACCAACTTTGGAAATAGTTTACTAGATAAGAAACCTTT
CTTACTTTTCAAAAATTTCAAATTTCAGTTTTAAATGAGAAACTTTCCTCATTTTTTAAATCACG
TGAAAACATCCTAACC
Found at i:3403974 original size:212 final size:214
Alignment explanation
Indices: 3403552--3404408 Score: 797
Period size: 233 Copynumber: 3.8 Consensus size: 214
3403542 TAAAGGACTT
* * * *
3403552 ATCATCTTGCTCGAAAGACTTACAGATGACTCGAAGGATTTAAGTATCATGCTCG-AAAGACTTA
1 ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTTAAGCATCATGCTTGAAAAGACTTA
*
3403616 TTA-ATGGCCCAAAGGACTTACCAACTTT-GGAAATAGTTTACTAGGTAAGAAACCTTTCTTACT
66 CTAGATGGCCCAAAGGACTTACCAA-TTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACT
* * *
3403679 TTTCAAAAATTTCAAATTTCAGT-TTTAAATGAGGAA-CTTTCCTCATCTTTTTA-A-ATCACGT
130 TTTCAAAAATTTCAAATTTCA-TATTTAAATGAGAAACCTTT-CTCAT-TTTTAAGAGAT-ATGT
* *
3403740 GAAAACATCCTAACCAAAGGTCTC
191 GAAAACATCCTACCCGAAGGTCTC
* *
3403764 ATCATCTTGCTCGAAATG-CTTACAAATGACCCGAAGGATTTAAGCATCATGCTTGAAAA-ACTT
1 ATCATCTTGCTCGAAA-GACTTACAGATGACCCGAAAGATTTAAGCATCATGCTTGAAAAGACTT
* * *
3403827 ACTAG-TGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGATAAGAAACCTTTCTTACT
65 ACTAGATGGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACT
* * *
3403891 TTTCAAAATTTTCAAATTTCATATTTAAATGAGAAACTTTTCTCATTTTTAAGAGATATGTGAAT
130 TTTCAAAAATTTCAAATTTCATATTTAAATGAGAAACCTTTCTCATTTTTAAGAGATATGTGAAA
* * *
3403956 GCATCCTGCCCGAAGGTCTTATGG
195 ACATCCTACCCGAAGGTC---T-C
* * * *
3403980 ATGGCCCGAATGACTTATCATCTTGCTTGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCA
1 AT----C--AT--CTT-GC-TC--G---AAAG-ACTTACAGATGACCCGAAAGATTTAAGCATCA
* *
3404045 TGC-TCAAAAGACTTACT-GATAGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAA
50 TGCTTGAAAAGACTTACTAGATGGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAA
* * * *
3404108 GAAACATTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTCAATGAGAAACCTTTCTCATTTTT
115 GAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCATATTTAAATGAGAAACCTTTCTCA-TTTT
** *
3404173 TAAGAGGCATGTGAAAACATCCTACCCGAAGGTCTTATGG
179 TAAGAGATATGTGAAAACATCCTACCCGAAGGTC---T-C
* * * *
3404213 ATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTTAAGCATCA
1 AT---C---A--TCTT-GC-TC--G---AAAG-ACTTACAGATGACCCGAAAGATTTAAGCATCA
* *
3404278 TGC-TCAAAAGACTTACT-GATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAA
50 TGCTTGAAAAGACTTACTAGATGGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAA
* * *
3404341 GAAACCTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTATATGAGAAACCTTTCTTATTATT
115 GAAACCTTTCTTACTTTTCAAAAATTTCAAATTTCATATTTAAATGAGAAACCTTTCTCATT-TT
3404406 TAA
179 TAA
3404409 CTTATAAAAT
Statistics
Matches: 560, Mismatches: 49, Indels: 51
0.85 0.07 0.08
Matches are distributed among these distances:
211 9 0.02
212 167 0.30
213 9 0.02
215 1 0.00
216 2 0.00
220 1 0.00
222 2 0.00
224 3 0.01
225 1 0.00
226 2 0.00
228 1 0.00
231 8 0.01
232 139 0.25
233 215 0.38
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (214 bp):
ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTTAAGCATCATGCTTGAAAAGACTTA
CTAGATGGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTT
TTCAAAAATTTCAAATTTCATATTTAAATGAGAAACCTTTCTCATTTTTAAGAGATATGTGAAAA
CATCCTACCCGAAGGTCTC
Found at i:3404280 original size:233 final size:232
Alignment explanation
Indices: 3403764--3404408 Score: 1010
Period size: 233 Copynumber: 2.8 Consensus size: 232
3403754 CAAAGGTCTC
* *
3403764 ATCATCTTGCTCGAAATG-CTTACAAATGACCCGAAGGATTTAAGCATCATGCTTGAAAA-ACTT
1 ATCATCTTGCTCGAAA-GACTTACAGATGACCCGAAGGATTTAAGCATCATGC-TCAAAAGACTT
* *
3403827 ACT-AGTGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGATAAGAAACCTTTCTTACT
64 ACTGA-TGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACT
* * * *
3403891 TTTCAAAATTTTCAAATTTCATATTTAAATGAGAAACTTTTCTCA-TTTTTAAGAGATATGTGAA
128 TTTCAAAAATTTCAATTTTCATATTT-AATGAGAAACCTTTCTCATTTTTTAAGAGACATGTGAA
** * *
3403955 TGCATCCTGCCCGAAGGTCTTATGGATGGCCCGAATGACTT
192 AACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTT
*
3403996 ATCATCTTGCTTGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTAC
1 ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTAC
* * *
3404061 TGATAGCCCAAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACATTTCTTACTTTT
66 TGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTT
* *
3404126 CAAAAATTTCAATTTTCAGATTTCAATGAGAAACCTTTCTCATTTTTTAAGAGGCATGTGAAAAC
131 CAAAAATTTCAATTTTCATATTT-AATGAGAAACCTTTCTCATTTTTTAAGAGACATGTGAAAAC
*
3404191 ATCCTACCCGAAGGTCTTATGGATGGCCTGAAGGACTT
195 ATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTT
*
3404229 ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTTAAGCATCATGCTCAAAAGACTTAC
1 ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTAC
3404294 TGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTT
66 TGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTT
* *
3404359 CAAAAATTTCAATTTTCATATTTATATGAGAAACCTTTCTTATTATTTAA
131 CAAAAATTTCAATTTTCATATTTA-ATGAGAAACCTTTCTCATTTTTTAA
3404409 CTTATAAAAT
Statistics
Matches: 380, Mismatches: 28, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
231 6 0.02
232 150 0.39
233 224 0.59
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (232 bp):
ATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTAC
TGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTAGGTAAGAAACCTTTCTTACTTTT
CAAAAATTTCAATTTTCATATTTAATGAGAAACCTTTCTCATTTTTTAAGAGACATGTGAAAACA
TCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTT
Found at i:3413900 original size:16 final size:17
Alignment explanation
Indices: 3413881--3413932 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
3413871 TTTATAATTT
3413881 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
3413897 AATTACTCCTAA-TTT-A
1 AATTACT-CTAACTTTCA
*
3413913 AA-CACTCTAACTTTCA
1 AATTACTCTAACTTTCA
3413929 AATT
1 AATT
3413933 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 6 0.21
16 13 0.45
17 3 0.10
18 3 0.10
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:3421553 original size:21 final size:21
Alignment explanation
Indices: 3421527--3421615 Score: 69
Period size: 21 Copynumber: 4.2 Consensus size: 21
3421517 AGGTGATATC
3421527 TTATTAATATATACATAAATA
1 TTATTAATATATACATAAATA
* **
3421548 TTATTAA-ATTTAGGTAAAATA
1 TTATTAATATATACAT-AAATA
* *
3421569 TT-TTTATAATATA-ACTATAT-
1 TTATTAAT-ATATACA-TAAATA
3421589 TATATTAATATATACATAAATA
1 T-TATTAATATATACATAAATA
3421611 TTATT
1 TTATT
3421616 TTTATAAGAA
Statistics
Matches: 51, Mismatches: 9, Indels: 16
0.67 0.12 0.21
Matches are distributed among these distances:
20 9 0.18
21 31 0.61
22 11 0.22
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATTAATATATACATAAATA
Found at i:3422938 original size:63 final size:63
Alignment explanation
Indices: 3422860--3422980 Score: 197
Period size: 63 Copynumber: 1.9 Consensus size: 63
3422850 ACTCTGATAA
*
3422860 AATAAAAACATCGAATGCCATTAGTGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTG
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
** * *
3422923 AATAAAAACATCGAATGTGATTCGTGCACCGATGCATAAGTAGTGCATCGATGCACCC
1 AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCC
3422981 GTTAAGGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (63 bp):
AATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAGTGCATCGATGCACCCCATTG
Found at i:3423440 original size:21 final size:21
Alignment explanation
Indices: 3423387--3423441 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
3423377 ATGATACATG
3423387 TATGTGATTAT-TGAAAAGAAT
1 TATGTG-TTATATGAAAAGAAT
*
3423408 CATGTG-TATATGAAATA-AAT
1 TATGTGTTATATGAAA-AGAAT
3423428 TATGTGTTATATGA
1 TATGTGTTATATGA
3423442 GAAGTGATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 3 0.10
20 13 0.45
21 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (21 bp):
TATGTGTTATATGAAAAGAAT
Found at i:3423568 original size:18 final size:18
Alignment explanation
Indices: 3423545--3423616 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
3423535 AGGGATATAC
3423545 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* **
3423563 AGTGGTTCTTCGAAACAAT
1 AGTGGTCCTTCGGGAC-AT
** *
3423582 CAGTGGTATTTCAGG-CAT
1 -AGTGGTCCTTCGGGACAT
3423600 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
3423617 AATACTGAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
17 11 0.28
18 17 0.43
19 3 0.08
20 9 0.22
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:3429819 original size:63 final size:63
Alignment explanation
Indices: 3429719--3429859 Score: 192
Period size: 63 Copynumber: 2.2 Consensus size: 63
3429709 ACATTCAATA
* *
3429719 TGCATCGATGCACTCTGATAAAATAAAAACATCGAATGCCATTAGTGCATCGATGCATAAGGAG
1 TGCATCGATGCAC-CTCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
** * ** * *
3429783 TGCATCGATGCACCTCATTGAATAAAAACATTGAATGTGATTCGTGCACCGATGCATAAGTAG
1 TGCATCGATGCACCTCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
3429846 TGCATCGATGCACC
1 TGCATCGATGCACC
3429860 CGTTAAGGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 55 0.81
64 13 0.19
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (63 bp):
TGCATCGATGCACCTCATAAAATAAAAACATCGAATGCCATTAGTGCACCGATGCATAAGGAG
Found at i:3430487 original size:18 final size:19
Alignment explanation
Indices: 3430425--3430490 Score: 75
Period size: 18 Copynumber: 3.5 Consensus size: 19
3430415 AGGGATCTAC
*
3430425 AGTGGTTCTTCGG-GACAT
1 AGTGGTCCTTCGGAGACAT
*
3430443 AGTGGTTCTTCGGA-ACAAT
1 AGTGGTCCTTCGGAGAC-AT
3430462 CAGTGGTCCTT-GGAGACAT
1 -AGTGGTCCTTCGGAGACAT
3430481 AGTGGTCCTT
1 AGTGGTCCTT
3430491 TGGAAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 25 0.58
19 7 0.16
20 11 0.26
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (19 bp):
AGTGGTCCTTCGGAGACAT
Found at i:3433779 original size:19 final size:20
Alignment explanation
Indices: 3433740--3433786 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3433730 TAAATGACCA
3433740 GGGGTATCAGTACCTCTAAG
1 GGGGTATCAGTACCTCTAAG
*
3433760 GGGGTATTAGTACCTC-AAG
1 GGGGTATCAGTACCTCTAAG
3433779 GGGGTATC
1 GGGGTATC
3433787 GAAACCCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGTATCAGTACCTCTAAG
Found at i:3433882 original size:74 final size:74
Alignment explanation
Indices: 3433779--3433919 Score: 219
Period size: 74 Copynumber: 1.9 Consensus size: 74
3433769 GTACCTCAAG
* *
3433779 GGGGTATCGAAACCCATTCGGCATCCTATTTTTCTCGGAGCCAAAATTGGCATAGAGGTATTGGT
1 GGGGTATCGAAACCCATTCGGCATCCTATTTTCCTCGGAGCCAAAATTGGCATAGAGGTATCGGT
3433844 ACCCTATAA
66 ACCCTATAA
* * * * *
3433853 GGGGTATCGATACCCATTTGGCATTCTATTTTCCTCGGAGCCAAAATTTGCATAGGGGTATCGGT
1 GGGGTATCGAAACCCATTCGGCATCCTATTTTCCTCGGAGCCAAAATTGGCATAGAGGTATCGGT
3433918 AC
66 AC
3433920 ACCCTATGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (74 bp):
GGGGTATCGAAACCCATTCGGCATCCTATTTTCCTCGGAGCCAAAATTGGCATAGAGGTATCGGT
ACCCTATAA
Found at i:3439800 original size:65 final size:64
Alignment explanation
Indices: 3439728--3439881 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
3439718 TACACTAGGA
* * * *
3439728 GTGCATCGGTACATTAATTATATTCAATGTTTCA-AAAGAACCAGGAGTGCATCGATGCATGGTA
1 GTGCATCGGTACATAAAATACATTCAATGTTTCATAAA-AACCAAGAGTGCATCGATGCATGGT-
3439792 T
64 T
* * * **
3439793 GTGCATCGGTACATAAAATGCATTCGATGTTTCATTAAATTCAAGAGTGCATCGATGCATGGTT
1 GTGCATCGGTACATAAAATACATTCAATGTTTCATAAAAACCAAGAGTGCATCGATGCATGGTT
* * *
3439857 GTGGATCGGTACACAAAATGCATTC
1 GTGCATCGGTACATAAAATACATTC
3439882 GAAATAGGGT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 24 0.31
65 51 0.66
66 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATACATTCAATGTTTCATAAAAACCAAGAGTGCATCGATGCATGGTT
Found at i:3442556 original size:23 final size:22
Alignment explanation
Indices: 3442522--3442595 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
3442512 CATAGCAGAG
3442522 TGCATCGATGCACATTCAAGGAA
1 TGCATCGATGCACATTCAAGG-A
* * *
3442545 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
* *
3442566 TGTATTGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAA-GGA
3442589 TGCATCG
1 TGCATCG
3442596 GTACACTCTC
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
23 23 0.59
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:3448639 original size:65 final size:64
Alignment explanation
Indices: 3448550--3448702 Score: 159
Period size: 65 Copynumber: 2.4 Consensus size: 64
3448540 TACACTAGGG
* * * *
3448550 GTGCATCGGTACACT-AATTACATTCGATATTTCA-AAAGAGCCAGGAGTGCATC-AGTGTATGG
1 GTGCATCGGTACA-TAAAATGCATTCGATATTTCATAAA-AGCCAAGAGTGCATCGA-TGCATGG
3448612 TAT
63 -AT
* * ** *
3448615 GTGCATCGGTACATAAAATGCATTCGATGTTTCATTAAATTCAAGAGTGCATCGATGCATGGCT
1 GTGCATCGGTACATAAAATGCATTCGATATTTCATAAAAGCCAAGAGTGCATCGATGCATGGAT
*
3448679 GTGCATCGGTACACAAAATGCATT
1 GTGCATCGGTACATAAAATGCATT
3448703 AGAAATAGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
64 25 0.33
65 47 0.63
66 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (64 bp):
GTGCATCGGTACATAAAATGCATTCGATATTTCATAAAAGCCAAGAGTGCATCGATGCATGGAT
Found at i:3451950 original size:54 final size:54
Alignment explanation
Indices: 3451867--3451982 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
3451857 ACCTCTAAGA
* * * *
3451867 GGGTATCGGTACCTATTGGGCATTTTGTTTTTCTCGGAGTCAAAATTGGCATAG
1 GGGTATCGATACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTGGCATAG
*
3451921 GGGTATCGATACCCATTTGGCATTCTGTTTTTCTCGGAGCCAAAATTGGCATAG
1 GGGTATCGATACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTGGCATAG
3451975 GGGTATCG
1 GGGTATCG
3451983 GTACACCCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (54 bp):
GGGTATCGATACCCATTGGGCATTCTGTTTTTCTCGGAGCCAAAATTGGCATAG
Found at i:3455982 original size:20 final size:20
Alignment explanation
Indices: 3455957--3455997 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3455947 TAAATTGAAT
3455957 TAATTAAAGAAAATCCTTGG
1 TAATTAAAGAAAATCCTTGG
*
3455977 TAATTAAAGAACATCCTTGG
1 TAATTAAAGAAAATCCTTGG
3455997 T
1 T
3455998 TTAACCGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
TAATTAAAGAAAATCCTTGG
Found at i:3460485 original size:27 final size:27
Alignment explanation
Indices: 3460423--3460503 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
3460413 TTAAAAAATA
*
3460423 TAAGTTTTGGTCACTTATGTTATCGTTTTAT
1 TAAGTTTTGGTCAC-T-TG-GAT-GTTTTAT
3460454 TAAGTTTTGGTCACTTGGATGTTTTAT
1 TAAGTTTTGGTCACTTGGATGTTTTAT
*
3460481 TAAGTTTTGATCACTTGGATGTT
1 TAAGTTTTGGTCACTTGGATGTT
3460504 GAATGTTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
27 29 0.60
28 2 0.04
29 2 0.04
30 1 0.02
31 14 0.29
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.52
Consensus pattern (27 bp):
TAAGTTTTGGTCACTTGGATGTTTTAT
Found at i:3461682 original size:44 final size:45
Alignment explanation
Indices: 3461633--3461872 Score: 165
Period size: 44 Copynumber: 5.4 Consensus size: 45
3461623 TTCTTTAATT
* **
3461633 TTTTTTATCTTTATAATTGATG-CCCTTAATTGTTTTCAATCCCA
1 TTTTTTATCTTTATAATTGAGGACCCTTAATTGTTTTCAATATCA
** * * *
3461677 TTTTTTAAAAATTTATAATTGATGA-TCAT-A-TGTTTTACAATATCA
1 TTTTTT--ATCTTTATAATTGAGGACCCTTAATTGTTTT-CAATATCA
* * * **
3461722 CTTTTTATCTTTATAATTGA-GACCCCTAATTTTTTTCAATCCCA
1 TTTTTTATCTTTATAATTGAGGACCCTTAATTGTTTTCAATATCA
* * * *
3461766 TTTTTT-TACTTATATAATTAAGGTCCC-TAATTTTTTTCAATGTCA
1 TTTTTTAT-CTT-TATAATTGAGGACCCTTAATTGTTTTCAATATCA
* * *
3461811 TTTTTTATCTTTGA-AATTGAGGCCCCTAAATT-TTTTTAATATCA
1 TTTTTTATCTTT-ATAATTGAGGACCCTTAATTGTTTTCAATATCA
* *
3461855 CTTTTTACCTTTATAATT
1 TTTTTTATCTTTATAATT
3461873 AGGCCTGTAA
Statistics
Matches: 156, Mismatches: 26, Indels: 28
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.01
43 16 0.10
44 62 0.40
45 55 0.35
46 21 0.13
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (45 bp):
TTTTTTATCTTTATAATTGAGGACCCTTAATTGTTTTCAATATCA
Found at i:3461794 original size:45 final size:45
Alignment explanation
Indices: 3461632--3461873 Score: 142
Period size: 45 Copynumber: 5.4 Consensus size: 45
3461622 TTTCTTTAAT
* * *
3461632 TTTTTTTATCTTTATAATTGATG-CCCTTAATTGTTTTCAATCCCA
1 TTTTTTTATCTTTATAATT-AAGACCCCTAATTTTTTTCAATCCCA
* ** * * * * * **
3461677 TTTTTTAAAAATTTATAATTGATGA-TCAT-ATGTTTTACAATATCA
1 TTTTTT-TATCTTTATAATT-AAGACCCCTAATTTTTTTCAATCCCA
* *
3461722 -CTTTTTATCTTTATAATTGAGACCCCTAATTTTTTTCAATCCCA
1 TTTTTTTATCTTTATAATTAAGACCCCTAATTTTTTTCAATCCCA
** **
3461766 TTTTTTTA-CTTATATAATTAAGGTCCCTAATTTTTTTCAATGTCA
1 TTTTTTTATCTT-TATAATTAAGACCCCTAATTTTTTTCAATCCCA
* * **
3461811 -TTTTTTATCTTTGA-AATTGAGGCCCCTAAATTTTTTT-AATATCA
1 TTTTTTTATCTTT-ATAATTAAGACCCCT-AATTTTTTTCAATCCCA
* *
3461855 -CTTTTTACCTTTATAATTA
1 TTTTTTTATCTTTATAATTA
3461874 GGCCTGTAAA
Statistics
Matches: 153, Mismatches: 34, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
42 2 0.01
43 13 0.08
44 58 0.38
45 64 0.42
46 16 0.10
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (45 bp):
TTTTTTTATCTTTATAATTAAGACCCCTAATTTTTTTCAATCCCA
Found at i:3461816 original size:89 final size:87
Alignment explanation
Indices: 3461633--3461847 Score: 229
Period size: 89 Copynumber: 2.4 Consensus size: 87
3461623 TTCTTTAATT
* *
3461633 TTTTTTATCTTTATAATTGATGCCCTTAATTGTTTTCAATCCCATTTTTTAAAAATTTATAATTG
1 TTTTTTATCTTTATAATTGA-GCCCCTAATTTTTTTCAATCCCATTTTTT-AAAATTTATAATTG
*
3461698 ATGATCATATGTTTTACAATATCA
64 AAGATCATATGTTTTACAATATCA
* * *
3461722 CTTTTTATCTTTATAATTGAGACCCCTAATTTTTTTCAATCCCATTTTTT-TACTTATATAATT-
1 TTTTTTATCTTTATAATTGAG-CCCCTAATTTTTTTCAATCCCATTTTTTAAAATT-TATAATTG
* * * * *
3461785 AAGGTCCCTAATTTTTTTCAATGTCA
64 AAGAT-CAT-ATGTTTTACAATATCA
3461811 TTTTTTATCTTTGA-AATTGAGGCCCCTAAATTTTTTT
1 TTTTTTATCTTT-ATAATTGA-GCCCCT-AATTTTTTT
3461848 AATATCACTT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
87 6 0.06
88 10 0.09
89 80 0.75
90 11 0.10
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (87 bp):
TTTTTTATCTTTATAATTGAGCCCCTAATTTTTTTCAATCCCATTTTTTAAAATTTATAATTGAA
GATCATATGTTTTACAATATCA
Found at i:3461860 original size:89 final size:88
Alignment explanation
Indices: 3461634--3461873 Score: 213
Period size: 89 Copynumber: 2.7 Consensus size: 88
3461624 TCTTTAATTT
* * * * **
3461634 TTTTTATCTTTATAATTGATG-CCCTTAATTGTTTTCAATCCCATTTTTTAAAAATTTATAATTG
1 TTTTTATCTTTATAATTGA-GACCCCTAATTTTTTTCAATACCACTTTTT--ACCTTTATAATT-
* * * *
3461698 ATGAT-CAT-ATGTTTTACAATATCAC
62 AAGGTCCCTAATTTTTTACAATATCAC
* *
3461723 TTTTTATCTTTATAATTGAGACCCCTAATTTTTTTCAATCCCATTTTTTTA-CTTATATAATTAA
1 TTTTTATCTTTATAATTGAGACCCCTAATTTTTTTCAATACCA-CTTTTTACCTT-TATAATTAA
* * *
3461787 GGTCCCTAATTTTTTTCAATGTCAT
64 GGTCCCTAATTTTTTACAATATCAC
* *
3461812 TTTTTATCTTTGA-AATTGAGGCCCCTAAATTTTTTT-AATATCACTTTTTACCTTTATAATTA
1 TTTTTATCTTT-ATAATTGAGACCCCT-AATTTTTTTCAATACCACTTTTTACCTTTATAATTA
3461874 GGCCTGTAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 17
0.81 0.09 0.11
Matches are distributed among these distances:
87 5 0.04
88 25 0.19
89 83 0.64
90 16 0.12
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (88 bp):
TTTTTATCTTTATAATTGAGACCCCTAATTTTTTTCAATACCACTTTTTACCTTTATAATTAAGG
TCCCTAATTTTTTACAATATCAC
Found at i:3462063 original size:14 final size:14
Alignment explanation
Indices: 3462044--3462089 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
3462034 CGTTCGTGAA
3462044 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
3462058 CGTTCGTTTATGTT
1 CGTTCGGTTATGTT
*
3462072 CATTCGGTTATGTT
1 CGTTCGGTTATGTT
3462086 CGTT
1 CGTT
3462090 TATGTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.09, C:0.15, G:0.24, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:3462960 original size:11 final size:11
Alignment explanation
Indices: 3462944--3462987 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
3462934 TGGGGCAATG
3462944 TCGAGCTTGAA
1 TCGAGCTTGAA
*
3462955 TCGAGCTCAGAA
1 TCGAGCT-TGAA
*
3462967 TCGAGCTTCAA
1 TCGAGCTTGAA
3462978 TCGAGCTTGA
1 TCGAGCTTGA
3462988 GTCTCGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:3463228 original size:10 final size:10
Alignment explanation
Indices: 3463213--3463287 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
3463203 GGGTCTCCAA
3463213 CGTTTATGTT
1 CGTTTATGTT
*
3463223 CGTTTATTTT
1 CGTTTATGTT
3463233 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
3463244 ATGTTCGTGTT
1 -CGTTTATGTT
3463255 CGTTTATG--
1 CGTTTATGTT
3463263 --TTTATGTT
1 CGTTTATGTT
3463271 CGTTTATGTT
1 CGTTTATGTT
3463281 CGTTTAT
1 CGTTTAT
3463288 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
10 33 0.66
11 7 0.14
12 4 0.08
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.60
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:3463244 original size:16 final size:16
Alignment explanation
Indices: 3463219--3463283 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
3463209 CCAACGTTTA
3463219 TGTTCGTTTATTTTCG
1 TGTTCGTTTATTTTCG
* *
3463235 TGTTCATTTATGTTCG
1 TGTTCGTTTATTTTCG
*
3463251 TGTTCGTTTATGTTT-A
1 TGTTCGTTTAT-TTTCG
*
3463267 TGTTCGTTTATGTTCG
1 TGTTCGTTTATTTTCG
3463283 T
1 T
3463284 TTATTTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
15 2 0.05
16 36 0.90
17 2 0.05
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (16 bp):
TGTTCGTTTATTTTCG
Found at i:3463260 original size:32 final size:32
Alignment explanation
Indices: 3463219--3463283 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
3463209 CCAACGTTTA
*
3463219 TGTTCGTTTAT-TTTCGTGTTCATTTATGTTCG
1 TGTTCGTTTATGTTT-ATGTTCATTTATGTTCG
*
3463251 TGTTCGTTTATGTTTATGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTTATGTTCATTTATGTTCG
3463283 T
1 T
3463284 TTATTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.90
33 3 0.10
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.60
Consensus pattern (32 bp):
TGTTCGTTTATGTTTATGTTCATTTATGTTCG
Found at i:3463371 original size:16 final size:16
Alignment explanation
Indices: 3463350--3463380 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3463340 CAAAAAAAAA
3463350 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
*
3463366 TTCGTTTCTGTTCGT
1 TTCGTTTATGTTCGT
3463381 TTATTTATTA
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:0.03, C:0.16, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:3464904 original size:27 final size:27
Alignment explanation
Indices: 3464861--3464929 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
3464851 TCATTAATAA
* *
3464861 AATAAAATAATATTATA-TTTTATTGTT
1 AATAATATATTATTATACTTTTATT-TT
3464888 -ATAATTATATTATTATACTTTTATTTT
1 AATAA-TATATTATTATACTTTTATTTT
*
3464915 AATAATATATAATTA
1 AATAATATATTATTA
3464930 ATAAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 4 0.11
27 21 0.58
28 11 0.31
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
AATAATATATTATTATACTTTTATTTT
Found at i:3471021 original size:3 final size:3
Alignment explanation
Indices: 3471013--3471072 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
3471003 TTAATATATT
* * * * *
3471013 TAA TAA TAA TAA TAA TTA TAA TAT TTA TAA TAA TAA TAA TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3471061 TAA TAA TAA TAA
1 TAA TAA TAA TAA
3471073 ATAAATCAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:3471447 original size:122 final size:120
Alignment explanation
Indices: 3471219--3471500 Score: 340
Period size: 122 Copynumber: 2.4 Consensus size: 120
3471209 GTTGAATAAA
* * * *
3471219 TTCTTCTCTCTTTCTTCAGATGAGTTTCTTCTCATTATGAACTTTCCGCTGGAGATGATGTGAAC
1 TTCTTCTTTCTTT-TTCAGATGAG-TTCTTCTCATTATGAACTTTCCGCTGGAAAGGATGAGAAC
* * * *
3471284 CTATTTCCTTATGTGATAGAGTATTCAAAAGGTAAATAAGCTCTTCTCATTATGAAC
64 CTATTTACTTATGTGACAGAGTATGCAAAAGGTAAACAAGCTCTTCTCATTATGAAC
** * *
3471341 TTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTT-TTCTGGAAAGGTTGAGCTAAT
1 TTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAAAGGATGAG--AAC
* * * *
3471405 CTATTTACTTCTGTGACAGAATTATGCAAAAGGTGAACAAGCTCTTCTCATTGTGAAC
64 CTATTTACTTATGTGACAG-AGTATGCAAAAGGTAAACAAGCTCTTCTCATTATGAAC
3471463 TTCTTC-TTC---TTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
3471501 CTTTTTCTTC
Statistics
Matches: 141, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
118 29 0.21
119 10 0.07
120 20 0.14
121 31 0.22
122 51 0.36
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (120 bp):
TTCTTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGAAAGGATGAGAACCT
ATTTACTTATGTGACAGAGTATGCAAAAGGTAAACAAGCTCTTCTCATTATGAAC
Found at i:3471487 original size:36 final size:36
Alignment explanation
Indices: 3471447--3471535 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
3471437 GTGAACAAGC
* *
3471447 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
*
3471483 TCTTCTCATTATGAACTTCTTTTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
3471519 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
3471536 CTACCTGGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
Found at i:3471684 original size:154 final size:151
Alignment explanation
Indices: 3471431--3471960 Score: 821
Period size: 152 Copynumber: 3.5 Consensus size: 151
3471421 CAGAATTATG
* *
3471431 CAAAAGG-TGAACAAGCTCTTCTCATTGTGAAC--TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
3471492 TATGAACTTCTTTTTCTTCAGATGA--A-TTCTTCTCATTATGAACTCTACCTGGCAATGTTAAT
66 TATGAACTTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGTTAAT
*
3471554 CCATCAAATGATGAATTTAAA
131 CCATCAATTGATGAATTTAAA
* *
3471575 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGTTGACGAATTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGA-G--TTCTTC
3471640 TCATTATGAAC-TCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGT
62 TCATTATGAACTTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGT
3471704 TAATCCATCAATTGATGAATTTAAA
127 TAATCCATCAATTGATGAATTTAAA
3471729 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCA-ATGACGAATTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAAC-TTTTCTTCCTTCTTCAGATGA-G--TTCTTC
3471793 TCATTATGAAC-TC-TCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGT
62 TCATTATGAACTTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGT
3471856 TAATCCATCAATTGATGAATTTAAA
127 TAATCCATCAATTGATGAATTTAAA
*
3471881 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCA
3471946 TTATGAACTTCTTCT
65 TTATGAACTTCTTCT
3471961 GGAAAAGCTG
Statistics
Matches: 359, Mismatches: 11, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
144 7 0.02
145 22 0.06
148 5 0.01
149 12 0.03
150 17 0.05
151 20 0.06
152 143 0.40
153 31 0.09
154 100 0.28
155 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (151 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGTTAAT
CCATCAATTGATGAATTTAAA
Found at i:3471828 original size:37 final size:37
Alignment explanation
Indices: 3471743--3471843 Score: 123
Period size: 37 Copynumber: 2.6 Consensus size: 37
3471733 AGGTTGAACA
3471743 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAATGACG
1 AGTTCTTCTCATTATGAAC----TC-TCCTTCTTCAATGACG
*
3471785 AATTCTTCTCATTATGAACTCT-CTTCTTCAGATGACG
1 AGTTCTTCTCATTATGAACTCTCCTTCTTCA-ATGACG
*
3471822 AGTTCTTCTGATTATGAACTCT
1 AGTTCTTCTCATTATGAACTCT
3471844 ATCTGGCAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
36 8 0.15
37 27 0.49
38 2 0.04
42 18 0.33
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.45
Consensus pattern (37 bp):
AGTTCTTCTCATTATGAACTCTCCTTCTTCAATGACG
Found at i:3471909 original size:73 final size:73
Alignment explanation
Indices: 3471670--3471914 Score: 210
Period size: 73 Copynumber: 3.3 Consensus size: 73
3471660 TCAGATGACG
*
3471670 AGTTCTTCTGATTATGAACTCTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAG
3471735 GTTGAACA
66 GTTGAACA
** ** * * * *
3471743 AGTTCTTCTCATTATGAACTTTTTCT-TCCTTCTTCAATGACGAATTCTTCTCATT-ATGAACTC
1 AGTTCTTCTCATTATGAAC----TCTAT-C-T-GGCAATG-TTAATCCATC-AATTGATGAA-TT
*** *** * *
3471806 TCTTCTTCA-GATG-ACG
56 TAAACAAAAGGTTGAACA
*
3471822 AGTTCTTCTGATTATGAACTCTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAG
3471887 GTTGAACA
66 GTTGAACA
3471895 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
3471915 TCTTCTTCCT
Statistics
Matches: 123, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
71 7 0.06
72 14 0.11
73 44 0.36
74 1 0.01
75 4 0.03
76 2 0.02
77 4 0.03
78 1 0.01
79 25 0.20
80 14 0.11
81 7 0.06
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCTATCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAG
GTTGAACA
Found at i:3472065 original size:110 final size:113
Alignment explanation
Indices: 3471785--3472321 Score: 597
Period size: 110 Copynumber: 4.8 Consensus size: 113
3471775 TTCAATGACG
** * *
3471785 AATTCTTCTCATTATGAAC-TC-TCTT-CTTC-AGATGACGAGTTCTTCTGATTATGAAC-TCTA
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTCT-
* * * * *
3471845 TCTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACA
64 TCTGGAAAAGTTGATCCATCAAGTGATGGATTTAAACAAAAGGTTGAACA
* *
3471895 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
* * *
3471960 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGC-AAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAACAAAAGGTTGAACA
* *
3472007 AACTCTTCTCATT-TGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
* * * *
3472070 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTG--C-
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAACAAAAGGTTGAACA
* * * *
3472115 AATTC-T-TCATTATGAATTTATTCTTCCTCCTTCAATTAATGAGTTTCTTCTCATTA-GAAC-T
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-A--GATGAG-TTCTTCTCATTATGAACTT
* ** * * * *
3472176 CTACCTGGAAATTTTAATCCATCACA-TGATGAATTCAAACAAAAGGTTAAACA
62 CT-TCTGGAAAAGTTGATCCATCA-AGTGATGGATTTAAACAAAAGGTTGAACA
3472229 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
3472293 TGGAAAAGTTGATCCATC-AGTGATGGATT
66 TGGAAAAGTTGATCCATCAAGTGATGGATT
3472322 AAATTTTGCT
Statistics
Matches: 363, Mismatches: 42, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
106 5 0.01
107 5 0.01
108 17 0.05
109 2 0.01
110 102 0.28
111 64 0.18
112 67 0.18
113 64 0.18
114 11 0.03
115 2 0.01
116 24 0.07
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
TGGAAAAGTTGATCCATCAAGTGATGGATTTAAACAAAAGGTTGAACA
Found at i:3472687 original size:52 final size:52
Alignment explanation
Indices: 3472609--3472713 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
3472599 CAACATGTTA
*
3472609 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATTATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
3472661 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
1 ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
3472713 A
1 A
3472714 GATATCGATA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (52 bp):
ATTCTGATAACAACTCATCTGATTATGAAGTGATCTTTCAAGATGATTTCAC
Found at i:3474301 original size:16 final size:17
Alignment explanation
Indices: 3474263--3474307 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
3474253 TTCATAGAAG
*
3474263 AATAAATTGAATTTCGAA
1 AATAAATTGAATCTC-AA
3474281 AATAAATTGAATCTC-A
1 AATAAATTGAATCTCAA
3474297 AATAAATTGAA
1 AATAAATTGAA
3474308 CTTGAAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (17 bp):
AATAAATTGAATCTCAA
Found at i:3474315 original size:16 final size:15
Alignment explanation
Indices: 3474263--3474326 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
3474253 TTCATAGAAG
3474263 AATAAATTGAATTTCGAA
1 AATAAATTGAA-TT-G-A
*
3474281 AATAAATTGAATCTCA
1 AATAAATTGAAT-TGA
3474297 AATAAATTGAACTTGA
1 AATAAATTGAA-TTGA
* *
3474313 AATAGATAGAATTG
1 AATAAATTGAATTG
3474327 TATTCAAAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.08
16 23 0.57
17 2 0.05
18 12 0.30
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (15 bp):
AATAAATTGAATTGA
Found at i:3474650 original size:7 final size:7
Alignment explanation
Indices: 3474633--3474681 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
3474623 TGACCCCCAT
3474633 TTTTCTTC
1 TTTT-TTC
3474641 TTTTTTC
1 TTTTTTC
3474648 TTTTTTC
1 TTTTTTC
3474655 TTTTTCTC
1 TTTTT-TC
*
3474663 TCTTTT-
1 TTTTTTC
3474669 TTTTTTC
1 TTTTTTC
3474676 TTTTTT
1 TTTTTT
3474682 TTTCTCTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.14
7 22 0.59
8 10 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Done.