Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 216 of 343
Found at i:71190961 original size:25 final size:25
Alignment explanation
Indices: 71190914--71190961 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
71190904 TTCCTTATAA
**
71190914 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
71190939 ACTTTAAATTAGGAATTAGATTA
1 ACTTTAAATTAGGAATTAGATTA
71190962 AGATTTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:71195612 original size:25 final size:25
Alignment explanation
Indices: 71195578--71195628 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
71195568 TTCCTTATAA
**
71195578 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
71195603 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
71195628 A
1 A
71195629 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:71195627 original size:12 final size:12
Alignment explanation
Indices: 71195581--71195628 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
71195571 CTTATAAACT
71195581 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
71195593 TTCTATTAGGACT
1 TTAAATTAGGA-A
71195606 TTAAATTAGGAA
1 TTAAATTAGGAA
*
71195618 TTAGATTAGGA
1 TTAAATTAGGA
71195629 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:71204335 original size:131 final size:128
Alignment explanation
Indices: 71204101--71204364 Score: 501
Period size: 131 Copynumber: 2.0 Consensus size: 128
71204091 TTGGCCGACC
71204101 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
1 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
71204166 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTATTTAGTCTTTCAT
66 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGG--TA-TATTTAGTCTTTCAT
71204231 G
128 G
71204232 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
1 TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
71204297 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTTAGTCTTTCATG
66 CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTTAGTCTTTCATG
71204360 TCTTT
1 TCTTT
71204365 ATTGTCTCTA
Statistics
Matches: 133, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
128 21 0.16
129 2 0.02
131 110 0.83
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (128 bp):
TCTTTGTTGATTTTCTTGTGGCAGCTCGTATTTAATTCCTCAACTTCTAATATTTAGATATTAAT
CCTATGAGAGGTATATTATTATTATTTATTTGGCCAAATGAGAGGTATATTTAGTCTTTCATG
Found at i:71208810 original size:13 final size:13
Alignment explanation
Indices: 71208792--71208816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71208782 AATTAGTATA
71208792 TGTGAAAATTTTG
1 TGTGAAAATTTTG
71208805 TGTGAAAATTTT
1 TGTGAAAATTTT
71208817 ATCGTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:71209969 original size:44 final size:44
Alignment explanation
Indices: 71209906--71210108 Score: 231
Period size: 44 Copynumber: 4.7 Consensus size: 44
71209896 TATGTGTTAT
* *
71209906 CGTGTAAGACCACGTCTAGGACGTCGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATGATTTA
* *
71209950 CGTGTAAGACCACATCTAGGATGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATGATTTA
* *
71209994 CGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGATTTA
* *
71210036 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATTTGA-TTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGACT-TATGATTTA
* *
71210079 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
71210109 TGTACGAGCT
Statistics
Matches: 141, Mismatches: 10, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
41 3 0.02
42 32 0.23
43 34 0.24
44 71 0.50
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGACTTATGATTTA
Found at i:71216486 original size:13 final size:13
Alignment explanation
Indices: 71216468--71216494 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71216458 TGAATTAGTA
71216468 TGTGTGAAAATTT
1 TGTGTGAAAATTT
71216481 TGTGTGAAAATTT
1 TGTGTGAAAATTT
71216494 T
1 T
71216495 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:71217658 original size:44 final size:44
Alignment explanation
Indices: 71217588--71217705 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
71217578 TATGTGTTAT
*
71217588 CGTGTAAGACCACATCTAGGG-CGTTGGCATCGACTTATAATTTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATCGACTTATAATTTA
* * * *
71217632 CGTGTAAGACTACGTCTGGGATGTTGGCATCGGCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATAATTTA
71217676 CGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
71217706 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 3 0.05
44 63 0.95
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATAATTTA
Found at i:71223154 original size:16 final size:16
Alignment explanation
Indices: 71223133--71223163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
71223123 ATTGGGTTGA
*
71223133 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
71223149 GAAAATTAATTAATT
1 GAAAATTAATTAATT
71223164 AAATTAATTT
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:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:71225958 original size:45 final size:45
Alignment explanation
Indices: 71225876--71225964 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
71225866 AGACAAGAGC
* *
71225876 CAGTGTAAGACATATCTGGGACATGCATCAGCTACGAA-ATGTGT
1 CAGTATAAGACATATCTAGGACATGCATCAGCTACGAATATGTGT
* *
71225920 CAGTATAAGACCATTTCTAGGACATGACATCGGC-ACGAATATGTG
1 CAGTATAAGA-CATATCTAGGACATG-CATCAGCTACGAATATGTG
71225965 AGAGCTAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 9 0.24
45 18 0.47
46 11 0.29
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (45 bp):
CAGTATAAGACATATCTAGGACATGCATCAGCTACGAATATGTGT
Found at i:71232271 original size:47 final size:47
Alignment explanation
Indices: 71232217--71232340 Score: 166
Period size: 46 Copynumber: 2.7 Consensus size: 47
71232207 TGTGTGTGCT
* *
71232217 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-AA-TGCC
1 AGTGTAAGACATGTCTGGGATATGCATCGG-C-CATTGAT-ACAAGAGCC
*
71232264 AGTGTAAGACATGTCTGGGATATGCATCAG-CATTGATACAAGAGCC
1 AGTGTAAGACATGTCTGGGATATGCATCGGCCATTGATACAAGAGCC
71232310 AGTGTAAGACATGTCTGGGATATGCATCGGC
1 AGTGTAAGACATGTCTGGGATATGCATCGGC
71232341 TACGAGATGT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
44 5 0.07
45 4 0.06
46 32 0.46
47 28 0.41
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGATATGCATCGGCCATTGATACAAGAGCC
Found at i:71232478 original size:49 final size:48
Alignment explanation
Indices: 71232217--71232532 Score: 187
Period size: 47 Copynumber: 6.7 Consensus size: 48
71232207 TGTGTGTGCT
* *
71232217 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAAATGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATG--A-GCC
* * * * *
71232264 AGTGTAAGA-CATGTCTGGGATAT-GCATCAGCATTGATAC-AAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT-CGATGAGCC
* * *
71232310 AGTGTAAGA-CATGTCTGGGATAT-GCATCGG-CTACGA--GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATCGATGAGCC
* * * * * * * *
71232354 ATTATAAGACCATGTCTAGGACATGACATTGGCAC-AGATATG-TGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-CGAT--GAGCC
* * *
71232404 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--TCGATGAGCC
* * * *
71232453 AGTGTAAGACCATGTCTGGGTCATGGCATC-GACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATGAGCC
*
71232500 AGTGTATGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
71232533 ATTATACCCT
Statistics
Matches: 206, Mismatches: 43, Indels: 39
0.72 0.15 0.14
Matches are distributed among these distances:
44 11 0.05
45 13 0.06
46 45 0.22
47 61 0.30
48 10 0.05
49 33 0.16
50 30 0.15
51 1 0.00
52 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATCGATGAGCC
Found at i:71246796 original size:16 final size:18
Alignment explanation
Indices: 71246770--71246802 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
71246760 TGTAATTGGG
71246770 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
71246787 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
71246803 TTTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:71248199 original size:11 final size:11
Alignment explanation
Indices: 71248168--71248193 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71248158 TTATTACTTA
71248168 AATTTCACAAC
1 AATTTCACAAC
71248179 AATTTCACAAC
1 AATTTCACAAC
71248190 AATT
1 AATT
71248194 ATACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTTCACAAC
Found at i:71256296 original size:12 final size:12
Alignment explanation
Indices: 71256281--71256308 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
71256271 ACTGAGAACT
71256281 TAAGAAAAATTC
1 TAAGAAAAATTC
71256293 TAAGAAAAATTC
1 TAAGAAAAATTC
71256305 TAAG
1 TAAG
71256309 TTTAAGCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (12 bp):
TAAGAAAAATTC
Found at i:71257848 original size:43 final size:43
Alignment explanation
Indices: 71257766--71257851 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
71257756 GTTACGTGAA
* * *
71257766 TCGCATCCATTATGAACTCGGACCTGTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
* * *
71257809 TCGCATCCATAATGAACTCA-AGCCTCTTAACGAGGTCGGATGC
1 TCGCATCCATAATGAACTCAGA-CCTCTCAACAAGCTCGGATGC
71257852 CACATATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
Found at i:71268054 original size:47 final size:47
Alignment explanation
Indices: 71267936--71268057 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 47
71267926 GGATGGTTGA
*
71267936 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
71267984 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
71268027 AGGCATCCGAACTCGTTGAGTTGAGTCCGAG
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAG
71268058 AGTTCGCTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.08
45 3 0.05
46 29 0.44
47 26 0.39
48 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:71277501 original size:45 final size:45
Alignment explanation
Indices: 71277437--71277524 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
71277427 TAGAGTTAGC
71277437 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
71277482 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
1 TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCC
71277525 TAGGTATTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (45 bp):
TTTTTTGCTCTAGGTGTATACCAAAGATGCGTTAGATCATCCCGG
Found at i:71286327 original size:22 final size:22
Alignment explanation
Indices: 71286296--71286343 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
71286286 TATTCACTTA
*
71286296 CAACCTGTACTGAGTCAACCTT
1 CAACCGGTACTGAGTCAACCTT
71286318 CAACCGGTACTGAGTCAACCTT
1 CAACCGGTACTGAGTCAACCTT
71286340 CAAC
1 CAAC
71286344 TCCGATTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (22 bp):
CAACCGGTACTGAGTCAACCTT
Found at i:71316000 original size:79 final size:79
Alignment explanation
Indices: 71315864--71316082 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 79
71315854 AACTTCTGTT
* * ** * * *
71315864 CAGCTCTTGTGAGCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCA
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
71315929 TGTTTC-GATTGGAC
66 TGTTTCAG-TTGGAC
*
71315943 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTA-CAGGCTTCTGTTTGGC
1 CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGG-TTCTGTTTGGC
*
71316007 ATGTTTCAGTTGGAT
65 ATGTTTCAGTTGGAC
** * * * *
71316022 CAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTT
71316083 AGGTGTGTTC
Statistics
Matches: 120, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.03
79 79 0.66
80 36 0.30
81 2 0.02
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (79 bp):
CAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAGCTCTTATCAGGTTCTGTTTGGCA
TGTTTCAGTTGGAC
Found at i:71316091 original size:40 final size:40
Alignment explanation
Indices: 71315863--71316082 Score: 277
Period size: 40 Copynumber: 5.5 Consensus size: 40
71315853 CAACTTCTGT
* ** *
71315863 TCAGCTCTTGTGAGCTTCTG-TTGGCATGTTTTGGATGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
71315902 CCAGCTCTTATGAGGTTCTGTTTGGCATGTTTC-GATTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAG-TTGGA
*
71315942 CCAGCTCTTATGAGCTTCT-TTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
* *
71315981 TCAACTCTTA-CAGGCTTCTGTTTGGCATGTTTCAGTTGGA
1 TCAGCTCTTATGA-GCTTCTGTTTGGCATGTTTCAGTTGGA
** * *
71316021 TCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTCAGTTGGA
1 TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
71316061 TCAGCTCTTATGAGCTTCTGTT
1 TCAGCTCTTATGAGCTTCTGTT
71316083 AGGTGTGTTC
Statistics
Matches: 159, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 50 0.31
40 107 0.67
41 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (40 bp):
TCAGCTCTTATGAGCTTCTGTTTGGCATGTTTCAGTTGGA
Found at i:71316094 original size:119 final size:117
Alignment explanation
Indices: 71315876--71316097 Score: 286
Period size: 119 Copynumber: 1.9 Consensus size: 117
71315866 GCTCTTGTGA
** ** *
71315876 GCTTCTGTTGGCATGTTTTGGATGGACCAGCTCTTATGAGGTTCTGTTTGGCATGTTTCGATTGG
1 GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTCGATTGG
*
71315941 ACCAGCTCTTATGAGCTTCTTTTGGCATGTTTCAGTTGGATCAACTCTTACAG
66 ACCAGCTCTTATGAGCTTCTTTAGG-ATGTTTCAGTTGGATCAACTCTTACAG
* * * *
71315994 GCTTCTGTTTGGCATGTTTCAGTTGGATCAGCTCTTACAAGCTTGTGTTTGGCGTGTTTC-AGTT
1 GCTTCTG-TTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTCGA-TT
*
71316058 GGATCAGCTCTTATGAGCTTCTGTTAGG-TGTGTTCAGTTG
64 GGACCAGCTCTTATGAGCTTCT-TTAGGATGT-TTCAGTTG
71316098 ATCTGACAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 11 0.12
119 74 0.83
120 4 0.04
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.41
Consensus pattern (117 bp):
GCTTCTGTTGGCATGTTTCAGATGGACCAGCTCTTACAAGCTTCTGTTTGGCATGTTTCGATTGG
ACCAGCTCTTATGAGCTTCTTTAGGATGTTTCAGTTGGATCAACTCTTACAG
Found at i:71316586 original size:12 final size:12
Alignment explanation
Indices: 71316569--71316593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71316559 ACTAGCTTGT
71316569 GGCTATGTTTAA
1 GGCTATGTTTAA
71316581 GGCTATGTTTAA
1 GGCTATGTTTAA
71316593 G
1 G
71316594 CCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (12 bp):
GGCTATGTTTAA
Found at i:71320475 original size:32 final size:33
Alignment explanation
Indices: 71320437--71320512 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
71320427 AATCTGAAAA
* *
71320437 TAAGACCATAACCGGGTTATGGC-ATGTGA-ATG
1 TAAGACCATAACAGGGTCATGGCAATGT-ATATG
* * *
71320469 TAAGACCACAGCAGGGTCATGGCAATGTATGTG
1 TAAGACCATAACAGGGTCATGGCAATGTATATG
71320502 TAAGACCATAA
1 TAAGACCATAA
71320513 TTGTACTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAACAGGGTCATGGCAATGTATATG
Found at i:71331636 original size:24 final size:24
Alignment explanation
Indices: 71331605--71331665 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
71331595 TGAATCGGCA
* *
71331605 AAAT-TTGAAATGCC-AGAAAGCTG
1 AAATATTGAAAAGCCGA-AAAGATG
71331628 AAATATTGAAAAGCCGAAAAGATG
1 AAATATTGAAAAGCCGAAAAGATG
**
71331652 AAATACCGAAAAGC
1 AAATATTGAAAAGC
71331666 AAAAGTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 27 0.84
25 1 0.03
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (24 bp):
AAATATTGAAAAGCCGAAAAGATG
Found at i:71334873 original size:16 final size:16
Alignment explanation
Indices: 71334852--71334883 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71334842 GTTGTAACAC
71334852 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
71334868 CCCAAAAATCCCAAAA
1 CCCAAAAATCCCAAAA
71334884 TCCCGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.38, G:0.00, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCAAAA
Found at i:71336146 original size:24 final size:24
Alignment explanation
Indices: 71336111--71336168 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
71336101 ATCGGCAAAA
*
71336111 GCCGAAATGCCAAAAAG-CTGAAAT
1 GCCGAAAAGCCAAAAAGTC-GAAAT
*
71336135 GTCGAAAAGCCAAAAAGTCGAAAT
1 GCCGAAAAGCCAAAAAGTCGAAAT
71336159 GCCGAAAAGC
1 GCCGAAAAGC
71336169 TGAAAGTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 29 0.97
25 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (24 bp):
GCCGAAAAGCCAAAAAGTCGAAAT
Found at i:71336164 original size:8 final size:8
Alignment explanation
Indices: 71336107--71336173 Score: 53
Period size: 8 Copynumber: 8.4 Consensus size: 8
71336097 ATGAATCGGC
71336107 AAAAGCCG
1 AAAAGCCG
* *
71336115 AAATGCCA
1 AAAAGCCG
*
71336123 AAAAGCTG
1 AAAAGCCG
* *
71336131 AAATGTCG
1 AAAAGCCG
*
71336139 AAAAGCCA
1 AAAAGCCG
*
71336147 AAAAGTCG
1 AAAAGCCG
*
71336155 AAATGCCG
1 AAAAGCCG
*
71336163 AAAAGCTG
1 AAAAGCCG
71336171 AAA
1 AAA
71336174 GTTGGGCTAC
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.51, C:0.18, G:0.21, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:71336462 original size:59 final size:57
Alignment explanation
Indices: 71336389--71336498 Score: 130
Period size: 59 Copynumber: 1.9 Consensus size: 57
71336379 GCATGAGTAT
** * **
71336389 AATATGATTTGGGCCAAACGGGCCGTATGAATGTGAATTTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCAAACGGGCCATATGAATAAG-A-TTGGGCCTAGTGGGCCATAAG
* * *
71336448 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGC
1 AATATGAACTGGGCCAAACGGGCCATATGAATAAGATTGGGCCTAGTGGGC
71336499 TATATGCATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
57 15 0.35
58 1 0.02
59 27 0.63
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (57 bp):
AATATGAACTGGGCCAAACGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:71341554 original size:19 final size:19
Alignment explanation
Indices: 71341532--71341599 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
71341522 CTGTCAGAAA
71341532 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
** * * *
71341551 ATAATTAAAGTGTAGTCAGAAA
1 ATAATT-AA-T-TTTTTATAAG
71341573 ATAATTAATTTTTTATAAG
1 ATAATTAATTTTTTATAAG
71341592 ATAATTAA
1 ATAATTAA
71341600 AGTGTACTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 19 0.53
20 3 0.08
21 3 0.08
22 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (19 bp):
ATAATTAATTTTTTATAAG
Found at i:71341569 original size:41 final size:41
Alignment explanation
Indices: 71341524--71341605 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
71341514 TAAAATTCCT
71341524 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
71341565 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
1 GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
71341606 CTTAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (41 bp):
GTCAGAAAATAATTAATTTTTTATAAGATAATTAAAGTGTA
Found at i:71348178 original size:25 final size:25
Alignment explanation
Indices: 71348147--71348199 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
71348137 TAAGGAGCCT
71348147 GAAACGACAATTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
*
71348172 GAAACGACAGTTGATAGGGATTACC
1 GAAACGACAATTGATAGGGATTACC
71348197 GAA
1 GAA
71348200 GCTAGGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (25 bp):
GAAACGACAATTGATAGGGATTACC
Found at i:71354763 original size:48 final size:48
Alignment explanation
Indices: 71354692--71354795 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
71354682 CACACGGGTG
* *
71354692 TGTGGCTGGCTGTGTAACTCAAGTCAGAGAGTTACATGGGTAAGGAGA
1 TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
*
71354740 TGTGGCTGGCTATGTAACTCAAGTTAGAGAGTTACATGAGTAAGGAGA
1 TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
*
71354788 CG-GGCTGG
1 TGTGGCTGG
71354796 AACACGACCG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 6 0.12
48 46 0.88
ACGTcount: A:0.27, C:0.12, G:0.36, T:0.25
Consensus pattern (48 bp):
TGTGGCTGGCTATGTAACTCAAGTCAGAGAGTTACATGAGTAAGGAGA
Found at i:71358005 original size:22 final size:24
Alignment explanation
Indices: 71357965--71358008 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
71357955 TATATTTAGT
71357965 TTAATTAAACATAATTAATTAAGG
1 TTAATTAAACATAATTAATTAAGG
*
71357989 TTAA-TAAA-ATACTTAATTAA
1 TTAATTAAACATAATTAATTAA
71358009 AGTATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 4 0.21
24 4 0.21
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
TTAATTAAACATAATTAATTAAGG
Found at i:71360844 original size:40 final size:40
Alignment explanation
Indices: 71360793--71360908 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
71360783 ACACCATGTT
*
71360793 GGGATAAAATCGACCCACCCATCCCTGCACACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
71360833 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
1 GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
* * *
71360873 GGGATATAATCGACCCATCCAACCCTACACACCATA
1 GGGATATAATCGACCCACCCATCCCTGCACACCATA
71360909 AGGTACCGCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.18
Consensus pattern (40 bp):
GGGATATAATCGACCCACCCATCCCTGCACACCATATATG
Found at i:71361287 original size:49 final size:48
Alignment explanation
Indices: 71361226--71361345 Score: 154
Period size: 47 Copynumber: 2.5 Consensus size: 48
71361216 ACGCCCGTGT
*
71361226 GCCTTGCCAGTGT-GAGCCACACGCCCGTGTGGGTCACACAGCCCAAATTG
1 GCCTTACCAGTGTGGA-CCACACG--CGTGTGGGTCACACAGCCCAAATTG
* * *
71361276 GCCTTA-CAGTGTGGATCACACGCGTGTGGGTCACACTGGCCAAATTG
1 GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
*
71361323 GCCTTACCAGTGTGGATCACACG
1 GCCTTACCAGTGTGGACCACACG
71361346 GCCTAGCCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
47 29 0.45
48 16 0.25
49 12 0.19
50 7 0.11
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (48 bp):
GCCTTACCAGTGTGGACCACACGCGTGTGGGTCACACAGCCCAAATTG
Found at i:71361304 original size:47 final size:48
Alignment explanation
Indices: 71361251--71361345 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
71361241 GCCACACGCC
71361251 CGTGTGGGTCACACAGCCCAAATTGGCCTTA-CAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
* *
71361298 CGTGTGGGTCACACTGGCCAAATTGGCCTTACCAGTGTGGATCACACG
1 CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
71361346 GCCTAGCCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 29 0.64
48 16 0.36
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.22
Consensus pattern (48 bp):
CGTGTGGGTCACACAGCCCAAATTGGCCTTACCAGTGTGGATCACACG
Found at i:71367047 original size:25 final size:25
Alignment explanation
Indices: 71367015--71367063 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
71367005 GATTTGACAC
71367015 GATGAGAAAGTGTTTGTGTACTTAT
1 GATGAGAAAGTGTTTGTGTACTTAT
71367040 GATGAGAAAGTGTTTGTGTACTTA
1 GATGAGAAAGTGTTTGTGTACTTA
71367064 CTTTTAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (25 bp):
GATGAGAAAGTGTTTGTGTACTTAT
Found at i:71368813 original size:54 final size:54
Alignment explanation
Indices: 71368617--71368824 Score: 240
Period size: 55 Copynumber: 3.9 Consensus size: 54
71368607 TTTCCTTTTT
* * * * * *
71368617 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
71368670 GAACTCACCAATGCCATGCCTTGGCTTGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
71368724 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
71368779 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
71368825 ATCTTACCAA
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.32
54 42 0.32
55 44 0.33
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:71368858 original size:47 final size:47
Alignment explanation
Indices: 71368803--71368924 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
71368793 CATGCCTTGG
*
71368803 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
71368850 CATGGTCTTACATGATATCCTTGTCTTACCAAATTCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
71368897 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
71368925 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:71370222 original size:19 final size:19
Alignment explanation
Indices: 71370200--71370241 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
71370190 TTTCTTTCAA
71370200 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
71370219 ATTTGTCCTATTCTTGCCC
1 ATTTGTCCTATTCTTGCCC
71370238 ATTT
1 ATTT
71370242 TTGTCCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTTGTCCTATTCTTGCCC
Found at i:71377470 original size:12 final size:12
Alignment explanation
Indices: 71377453--71377477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71377443 GAGCACCAGG
71377453 ATCATCAGCTTC
1 ATCATCAGCTTC
71377465 ATCATCAGCTTC
1 ATCATCAGCTTC
71377477 A
1 A
71377478 GCAGTGTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCATCAGCTTC
Found at i:71379601 original size:126 final size:126
Alignment explanation
Indices: 71379376--71379759 Score: 741
Period size: 126 Copynumber: 3.0 Consensus size: 126
71379366 TATGAATCAA
71379376 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
71379441 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
71379502 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
71379567 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
* *
71379628 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTTAGCACATTACTCTCTATCTCCTAGCAATA
1 AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
*
71379693 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAATGCTATTGTTTCTGTT
66 GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
71379754 AAATGC
1 AAATGC
71379760 AGGCTACCTC
Statistics
Matches: 255, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 255 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (126 bp):
AAATGCTTAGGTAATCATAAATCCATCAAGAAGCTCAGCACATTGCTCTCTATCTCCTAGCAATA
GAAAGAAAGTAACAGGTAACACTGGAAAGAAAATAATTACTGCAACGCTATTGTTTCTGTT
Found at i:71383189 original size:26 final size:26
Alignment explanation
Indices: 71383159--71383210 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
71383149 TTAAACTAAA
*
71383159 TTTTTCAAAATCACTTTTCAAAAGTAC
1 TTTTTC-AAAGCACTTTTCAAAAGTAC
*
71383186 TTTTTCACAGCACTTTTCAAAAGTA
1 TTTTTCAAAGCACTTTTCAAAAGTA
71383211 TTGTTAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTTTCAAAGCACTTTTCAAAAGTAC
Found at i:71387819 original size:21 final size:20
Alignment explanation
Indices: 71387795--71387839 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
71387785 CCATACAACC
*
71387795 AAAAAAAAACATACTACATTT
1 AAAAAAAAACATACCA-ATTT
**
71387816 AAAAAAATTCATACCAATTT
1 AAAAAAAAACATACCAATTT
71387836 AAAA
1 AAAA
71387840 TTTTGGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAAAACATACCAATTT
Found at i:71392517 original size:8 final size:8
Alignment explanation
Indices: 71392504--71392528 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
71392494 TAAAATTATT
71392504 CATTAATA
1 CATTAATA
71392512 CATTAATA
1 CATTAATA
71392520 CATTAATA
1 CATTAATA
71392528 C
1 C
71392529 TTTGTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (8 bp):
CATTAATA
Found at i:71412465 original size:46 final size:46
Alignment explanation
Indices: 71412412--71412639 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 46
71412402 AGTGTGCTCT
*
71412412 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71412458 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71412504 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
71412550 GTGATATGAAATGAACAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
71412596 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
71412640 TCATGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 166 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71414581 original size:31 final size:31
Alignment explanation
Indices: 71414487--71414597 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 31
71414477 TATCAGAACT
* * * *
71414487 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* * *
71414518 AAAATCAGAATCA-ATATCACTATCAGGTAAC
1 AGAATCAAAATCAGA-ATCAGTATCAGGTAAC
71414549 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
71414580 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
71414598 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.01
31 55 0.81
32 12 0.18
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:71414776 original size:27 final size:26
Alignment explanation
Indices: 71414734--71414835 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
71414724 GCTCAGTTAT
*
71414734 CAGATATTGTGACAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
71414761 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
71414787 CAGATATTTGTGGCATAGCCACTAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
71414815 CAAATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
71414836 TTAACAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:71415022 original size:22 final size:22
Alignment explanation
Indices: 71414994--71415058 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
71414984 GCAAATACGT
*
71414994 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
71415016 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
71415038 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
71415059 AAGGCTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:71415676 original size:27 final size:27
Alignment explanation
Indices: 71415503--71415679 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
71415493 TATCCCACAA
* * * *
71415503 GGTATCTCGGTAATTCCACCCTATAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
71415530 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71415557 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
71415584 GGTATTGT-GATAATTCTACCCTACAGG
1 GGTATT-TCGGTAATTCTACCCTACAGG
*
71415611 GGTATTGCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
71415638 GGTATTTTGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
71415665 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
71415680 TTGTAAATCG
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 130 0.99
28 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:71416038 original size:27 final size:27
Alignment explanation
Indices: 71415719--71416031 Score: 430
Period size: 27 Copynumber: 11.6 Consensus size: 27
71415709 GTAAATCAAT
* **
71415719 GGTACTTTGGTAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAACCAG-G
* * * *
71415746 GGTATTTTAGTAATTTCAGAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
71415773 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
71415800 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
71415827 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
71415854 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * **
71415881 GGTATTTTGGTAATTTTATAAACAAAT
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
71415908 GGTATTTTAGTAATTTTACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
71415935 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
71415962 GGTATTTTGGTGATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
71415989 GGTATTTTAGTGATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
71416016 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
71416032 GGTAAACTAA
Statistics
Matches: 252, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
27 251 1.00
28 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:71420951 original size:49 final size:48
Alignment explanation
Indices: 71420801--71421118 Score: 213
Period size: 49 Copynumber: 6.6 Consensus size: 48
71420791 CATCAAAGTT
* *
71420801 GATGCCATGTCCCAGACAGGTCTTACACT-GACTTCCATATATCGAGGTC
1 GATG-CATGTCCCAGACAGGTCTTACACTAG-CTTCTATATCTCGAGGTC
* * * ** * * *
71420850 GATGCCGTGTCCTAGACAGGTCTTATACCGGCTT-TCATCTATCG-GTATC
1 GATG-CATGTCCCAGACAGGTCTTACACTAGCTTCT-ATATCTCGAG-GTC
* * * *
71420899 AATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
* * * *
71420948 AATGCATGTCCCAGACATGTCTTACACTAG-TTCT-CATCTCGATG-C
1 GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
* * **
71420993 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTC
1 -GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
** * * * * *
71421042 GATGCATGTCCCAGACTTGTATTACACTGGCTCTCAATATAT---GGCC
1 GATGCATGTCCCAGACAGGTCTTACACTAGCT-TCTATATCTCGAGGTC
* * *
71421088 AATGCATGTCCCAGACATGTGTTACACTAGC
1 GATGCATGTCCCAGACAGGTCTTACACTAGC
71421119 ACACATATCA
Statistics
Matches: 217, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.00
46 66 0.30
47 5 0.02
48 61 0.28
49 81 0.37
50 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCATGTCCCAGACAGGTCTTACACTAGCTTCTATATCTCGAGGTC
Found at i:71420970 original size:48 final size:48
Alignment explanation
Indices: 71420898--71421118 Score: 227
Period size: 46 Copynumber: 4.7 Consensus size: 48
71420888 CTATCGGTAT
* * *
71420898 CAATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGC
1 CAATG-CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAGGC
* *
71420947 CAATGCATGTCCCAGACATGTCTTACACTAG-TTCT-CATCTCGATGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAGGC
** * ** *
71420993 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGT
1 CAATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAGGC
* * * * * *
71421041 CGATGCATGTCCCAGACTTGTATTACACTGGCTCTCAATATAT---GGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGCT-TCTATATCTCGAGGC
*
71421087 CAATGCATGTCCCAGACATGTGTTACACTAGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGC
71421119 ACACATATCA
Statistics
Matches: 142, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
46 67 0.47
47 5 0.04
48 60 0.42
49 10 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCGAGGC
Found at i:71421031 original size:94 final size:94
Alignment explanation
Indices: 71420898--71421116 Score: 271
Period size: 94 Copynumber: 2.3 Consensus size: 94
71420888 CTATCGGTAT
* * * *
71420898 CAATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCAATGCATGTCCCAGA
1 CAATG-CATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGA
* * *
71420963 CATGTCTTACACTAGTTCTC-ATCTCGAT-GC
65 CATGTATTACACTAGCTCTCAATAT--ATGGC
** * *
71420993 TGATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGTCGATGCATGTCCCAGAC
1 CAATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
* *
71421058 TTGTATTACACTGGCTCTCAATATATGGC
66 ATGTATTACACTAGCTCTCAATATATGGC
*
71421087 CAATGCATGTCCCAGACATGTGTTACACTA
1 CAATGCATGTCCCAGACATGTCTTACACTA
71421117 GCACACATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 2 0.02
94 98 0.92
95 6 0.06
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (94 bp):
CAATGCATGTCCCAGACATGTCTTACACTAACTGGTATATCTCGAGGCCAATGCATGTCCCAGAC
ATGTATTACACTAGCTCTCAATATATGGC
Found at i:71423036 original size:35 final size:35
Alignment explanation
Indices: 71422975--71423089 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
71422965 AATCACTCCA
71422975 AAACACACCAATGCT-ATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
*
71423009 AAACACACCAATTCTCATAAGAGCTAGTCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
**
71423044 AAACACACCAATGCTCATAAGAGCTAGTCCAACTG
1 AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
*
71423079 AAATACACCAA
1 AAACACACCAA
71423090 ATAGAGAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 14 0.19
35 61 0.81
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAGTCCCTCTG
Found at i:71426107 original size:17 final size:17
Alignment explanation
Indices: 71426085--71426120 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
71426075 CAATTAATTT
*
71426085 AAATAAATTAATTTCTC
1 AAATAAATAAATTTCTC
71426102 AAATAAATAAATTTCTC
1 AAATAAATAAATTTCTC
71426119 AA
1 AA
71426121 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATAAATAAATTTCTC
Found at i:71426192 original size:268 final size:267
Alignment explanation
Indices: 71425699--71426487 Score: 1225
Period size: 262 Copynumber: 3.0 Consensus size: 267
71425689 GTCTTTGCTA
* * * *
71425699 TACTGGGTCCAATTATATATACTTCTTGGATTTTAACCCAACACTCTAT-ATTTATTCCAACCCA
1 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
* *
71425763 ATACATGTTTTTTTTTCTATTTCTCAAATTAAATATTATTTGATCAATTAATTTAAATAAATTAA
66 ATACATG---TTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAA
* *
71425828 TTTATCAAATAAATAGTTTTCTCAATCCAATTCTAATTCTGTTAAAATTAT-AACAACTTTACCA
128 TTTATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAA-AACTTTACCA
* *
71425892 TAAAAGAATCTATGAGAAAATATATCTAATTTTTTTACATTAAATTAGATTCACAATAATCAATT
192 TAAAAGAATCTATGAGAAAATATATTTAA-TTTTTTACATTAAATTAGATTCACAATAACCAATT
71425957 AACTTTTTCCTG
256 AACTTTTTCCTG
*
71425969 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACTCA
1 TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
*
71426034 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTTCTCAATTAATTTAAATAAATTAATTT
66 ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
* * *
71426099 CTCAAATAAATAAATTTCTCAACCCAATTCTAATTCTGTTAAAATAATGAAAACTTTACCATAAA
131 ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
* * *
71426164 AGAATTTATGAGAAAATATATTTAATTTTTT---TTACATTA-ATTCACAATAACCAATT-ATTT
196 AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAACTT
71426224 TTTCCTG
261 TTTCCTG
* * *
71426231 TACTGGATCCAATCATATGTACTTCTT-AGACTTTAACCCAACACTTTATAATTTATTCTAACCC
1 TACTGGATCCAATTATATGTACTTCTTGA-ACTTTAACCCAACACTCTATAATTTATTCCAACCC
*
71426295 AATACATGTTTTTTCTATTTCCCAAATTAAATATTATCTGCTCAATTAATTTAAATAAATTAATT
65 AATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATT
* **
71426360 TATCAAATAAATAATTTTCTCAACCTAATTCTAATTCTGTTAAAATTATGGCAACTTTACCATAA
130 TATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAA
* *
71426425 AAGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTGGATTCACCATAACCAATTAA
195 AAGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAA
71426488 TTTAAATCCA
Statistics
Matches: 477, Mismatches: 34, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
261 1 0.00
262 221 0.46
263 16 0.03
264 7 0.01
265 6 0.01
266 16 0.03
267 7 0.01
268 135 0.28
269 2 0.00
270 45 0.09
271 21 0.04
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (267 bp):
TACTGGATCCAATTATATGTACTTCTTGAACTTTAACCCAACACTCTATAATTTATTCCAACCCA
ATACATGTTTTTTCTATTTCCCAAATTAAATATTATTTGCTCAATTAATTTAAATAAATTAATTT
ATCAAATAAATAATTTTCTCAACCCAATTCTAATTCTGTTAAAATTATGAAAACTTTACCATAAA
AGAATCTATGAGAAAATATATTTAATTTTTTACATTAAATTAGATTCACAATAACCAATTAACTT
TTTCCTG
Found at i:71429753 original size:15 final size:15
Alignment explanation
Indices: 71429733--71429763 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71429723 ATTTCACTAC
*
71429733 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
71429748 TATGTCTTTTATATT
1 TATGTCTTTTATATT
71429763 T
1 T
71429764 TGCATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:71431422 original size:37 final size:36
Alignment explanation
Indices: 71431376--71431451 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
71431366 ATTCCAGAAA
71431376 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATATT-AATTTAATAT
* *
71431412 TAATAATTATTTTATTAGTATTTTATTAATTTAATAT
1 TAAT-ATTATTTTAATAGTATTATATTAATTTAATAT
71431449 TAA
1 TAA
71431452 AGTGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:71438266 original size:27 final size:27
Alignment explanation
Indices: 71438236--71438302 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
71438226 CAGTTGCATT
*
71438236 GAAGTGCCACTTTCACTA-ATTTGCACC
1 GAAGTGCCACTTTCACTATA-TTACACC
*
71438263 GAAGTGCCACTTTCACTATATTACATC
1 GAAGTGCCACTTTCACTATATTACACC
*
71438290 GAAGTACCACTTT
1 GAAGTGCCACTTT
71438303 TCATTCATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (27 bp):
GAAGTGCCACTTTCACTATATTACACC
Found at i:71442123 original size:47 final size:47
Alignment explanation
Indices: 71441875--71442142 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 47
71441865 TGGGGTAGAA
* * *
71441875 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCCTAAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CATAATG
* *
71441924 T--CGATGCCATGTCCC-GTACATGGTCTTACACTGACTATCGA-AATCG
1 TGCCGATGCCATGTCCCAG-ACATGGTCTTACACTGGCTCTC-ATAAT-G
* * * * * *
71441970 AGGCCGACGCCATGTCCCAGACATGATCTTACACTGACACATC-T--CG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * * *
71442016 TAGCCGATG-CATGTCCCAAACAT-GTCTTATACTAGCTCTCGTTTCAA--
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATG
*
71442063 TGCCGCTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
71442110 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
71442143 AGCACACAAA
Statistics
Matches: 173, Mismatches: 25, Indels: 45
0.71 0.10 0.19
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 18 0.10
46 27 0.16
47 61 0.35
48 21 0.12
49 31 0.18
50 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:71444555 original size:14 final size:14
Alignment explanation
Indices: 71444536--71444563 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71444526 ATTATTTCAA
71444536 CCAAAATTTTTGTT
1 CCAAAATTTTTGTT
71444550 CCAAAATTTTTGTT
1 CCAAAATTTTTGTT
71444564 TATAAAGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
CCAAAATTTTTGTT
Found at i:71448032 original size:26 final size:26
Alignment explanation
Indices: 71448001--71448108 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71447991 TAAAATTTCC
71448001 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71448027 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71448053 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71448079 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACCCATT
71448105 ATCA
1 ATCA
71448109 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71448864 original size:23 final size:23
Alignment explanation
Indices: 71448838--71448883 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
71448828 TATAGGTTAG
71448838 CCTTTACCTAAAACAAAACGTGA
1 CCTTTACCTAAAACAAAACGTGA
71448861 CCTTTACCTAAAACAAAACGTGA
1 CCTTTACCTAAAACAAAACGTGA
71448884 TTCTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (23 bp):
CCTTTACCTAAAACAAAACGTGA
Found at i:71451393 original size:15 final size:15
Alignment explanation
Indices: 71451373--71451402 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71451363 TTAATACTAT
71451373 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
71451388 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
71451403 AAAGGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
TGACAAGAAAGAAAA
Found at i:71468687 original size:26 final size:26
Alignment explanation
Indices: 71468656--71468763 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71468646 TGAAATGCCC
*
71468656 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
71468682 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
71468708 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
71468734 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71468760 ATCA
1 ATCA
71468764 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71482300 original size:22 final size:22
Alignment explanation
Indices: 71482258--71482301 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
71482248 AATTATTTAC
* *
71482258 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
71482280 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
71482302 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:71482602 original size:40 final size:40
Alignment explanation
Indices: 71482528--71482749 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
71482518 AACCCAAGTA
* *
71482528 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
71482567 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
71482607 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
71482647 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
71482687 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
71482727 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
71482750 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:71491299 original size:10 final size:9
Alignment explanation
Indices: 71491284--71491393 Score: 69
Period size: 9 Copynumber: 11.6 Consensus size: 9
71491274 CTTTTTCTGA
71491284 TTTTTTTAT
1 TTTTTTTAT
*
71491293 TTGTTTTTAA
1 TT-TTTTTAT
**
71491303 TTTTTTTCC
1 TTTTTTTAT
* *
71491312 TTTTTCTGT
1 TTTTTTTAT
71491321 TTTTTTTAT
1 TTTTTTTAT
**
71491330 TTGTTTGTCCT
1 TT-TTT-TTAT
71491341 TTTTCTTTAT
1 TTTT-TTTAT
*
71491351 TTTCTTT-T
1 TTTTTTTAT
*
71491359 TTTCTTTAT
1 TTTTTTTAT
71491368 TTTATTATTAT
1 TTT-TT-TTAT
71491379 TATTTTTTAT
1 T-TTTTTTAT
71491389 TTTTT
1 TTTTT
71491394 ATAATATTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
8 8 0.10
9 33 0.42
10 24 0.30
11 12 0.15
12 2 0.03
ACGTcount: A:0.10, C:0.07, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:71491344 original size:37 final size:38
Alignment explanation
Indices: 71491272--71491369 Score: 112
Period size: 37 Copynumber: 2.6 Consensus size: 38
71491262 GGGCCTATGG
* *
71491272 TCCTTTTTCTGATTTTTTTATTTGTTTTTAATTTTT-T
1 TCCTTTTTCTGTTTTTTTTATTTGTTTGTAATTTTTCT
**
71491309 TCCTTTTTCTGTTTTTTTTATTTGTTTGTCCTTTTTCT
1 TCCTTTTTCTGTTTTTTTTATTTGTTTGTAATTTTTCT
*
71491347 T--TATTTTCTTTTTTTCTTTATTT
1 TCCT-TTTTCTGTTTTT-TTTATTT
71491370 TATTATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.02
37 43 0.81
38 9 0.17
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (38 bp):
TCCTTTTTCTGTTTTTTTTATTTGTTTGTAATTTTTCT
Found at i:71491353 original size:28 final size:25
Alignment explanation
Indices: 71491286--71491362 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
71491276 TTTTCTGATT
*
71491286 TTTTTATTTGTTTTTAATTTTTTTCC
1 TTTTTCTTT-TTTTTAATTTTTTTCC
*
71491312 TTTTTCTGTTTTTTTTATTTGTTTGTCC
1 TTTTTCT-TTTTTTTAATTT-TTT-TCC
* *
71491340 TTTTTCTTTATTTT-CTTTTTTTC
1 TTTTTCTTTTTTTTAATTTTTTTC
71491363 TTTATTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.05
25 3 0.07
26 18 0.41
27 11 0.25
28 10 0.23
ACGTcount: A:0.06, C:0.10, G:0.05, T:0.78
Consensus pattern (25 bp):
TTTTTCTTTTTTTTAATTTTTTTCC
Found at i:71491403 original size:19 final size:21
Alignment explanation
Indices: 71491363--71491405 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
71491353 TCTTTTTTTC
*
71491363 TTTATTTTATTATTATTATTT
1 TTTATTTTATTATTAATATTT
71491384 TTTATTTT-TTA-TAATATTT
1 TTTATTTTATTATTAATATTT
71491403 TTT
1 TTT
71491406 GTATATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTATTTTATTATTAATATTT
Found at i:71491404 original size:20 final size:20
Alignment explanation
Indices: 71491357--71491405 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
71491347 TTATTTTCTT
*
71491357 TTTTTCTTTATTTTATTATTA
1 TTTTT-TTTATTTTATTATAA
71491378 TTATTTTTTATTTT-TTATAA
1 TT-TTTTTTATTTTATTATAA
71491398 TATTTTTT
1 T-TTTTTT
71491406 GTATATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.44
21 11 0.44
22 3 0.12
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTATTTTATTATAA
Found at i:71494622 original size:30 final size:30
Alignment explanation
Indices: 71494553--71494626 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
71494543 GTTGCAAAGT
* *
71494553 AGTTCATATCACCCGGACATGGGCAGTTTG
1 AGTTCATATCACCTGGACATGGACAGTTTG
*
71494583 AGTTTATATCACCTGGACATGGAC-GCTTTG
1 AGTTCATATCACCTGGACATGGACAG-TTTG
*
71494613 TGTTCATATCACCT
1 AGTTCATATCACCT
71494627 AGAGCAACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATGGACAGTTTG
Found at i:71507399 original size:50 final size:50
Alignment explanation
Indices: 71507344--71507570 Score: 287
Period size: 50 Copynumber: 4.5 Consensus size: 50
71507334 AGTTCTAGTC
*
71507344 TAAGACCATGTCTGGGACATGGCATCGGCACCAATA-GATGAGAGCCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATG-TGAGAGCCAATG
* * * * * *
71507394 CAAGACCATGTCTAGGATATGCCATCGGCTTCAATATGTGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * *
71507444 TAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
* * * *
71507494 TAAGACCATGTCTGGAACATGGCATCAGC-CTCGATATGTGAGAGTCAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCTC-CAATATGTGAGAGCCAATG
*
71507544 TAAGACCATTTCTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
71507571 ACTTTAACGT
Statistics
Matches: 153, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
50 152 0.99
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCCAATATGTGAGAGCCAATG
Found at i:71514598 original size:23 final size:25
Alignment explanation
Indices: 71514572--71514618 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
71514562 TATCATTCAT
*
71514572 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
71514595 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
71514619 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:71514939 original size:46 final size:46
Alignment explanation
Indices: 71514879--71515143 Score: 316
Period size: 46 Copynumber: 5.9 Consensus size: 46
71514869 TTTGACGTGA
* * * * * *
71514879 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
71514925 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71514971 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCAAATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71515017 AT-CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 -TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71515063 TGACATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71515101 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
71515144 AAGAGCACAC
Statistics
Matches: 191, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
38 32 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.03
46 143 0.75
47 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:71515109 original size:38 final size:38
Alignment explanation
Indices: 71515058--71515133 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
71515048 CATTTCATAT
71515058 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACA
*
71515096 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACA
71515134 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGACATGGTATCTTTCAACCATGGTCTTACACA
Found at i:71518699 original size:50 final size:50
Alignment explanation
Indices: 71518640--71518913 Score: 352
Period size: 50 Copynumber: 5.5 Consensus size: 50
71518630 TATGAGTGCT
* ** *
71518640 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACCGATA-GATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATG-TGAGAGCC
* * *
71518690 AGTGCAAGACCATGTCTGGGACATGGCATCGACTTCAATATGTGAGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCC
* * *
71518740 AATGTAAGACCATGTCTGGGACATGGCATCAGTTTCAATATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCC
* * * *
71518790 AGTGTAAGACCATGTCTGGGAAACGCCATCGGCTTCAATATGTGAGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCC
* * * * * *
71518840 AGTGTATGACCATGTCTGGGACATGGCATTGGCCTCTATACGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCC
71518890 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGACCATGTCTGGGACAT
71518914 AGCGTCGACT
Statistics
Matches: 192, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
50 191 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCAATATGTGAGAGCC
Found at i:71520928 original size:48 final size:48
Alignment explanation
Indices: 71520864--71521130 Score: 278
Period size: 48 Copynumber: 5.6 Consensus size: 48
71520854 ACAACAAGCT
* *
71520864 GATGCCATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* * * *
71520913 GATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* * * * *
71520961 GGTGCATGTCCTAGACATGTCTTACACTAGC---TATCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTAT-ATCTCGAGGCC
* * * * *
71521007 AATGCATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
* *
71521055 GATGCATGTCCCGGACATGTCTTACACTAGCTCTCGTA-A--T-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCC
*
71521101 GATGCATGTCCTAGACATGTCTTACACTAG
1 GATGCATGTCCCAGACATGTCTTACACTAG
71521131 AACACATATC
Statistics
Matches: 180, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.01
46 66 0.37
47 1 0.01
48 102 0.57
49 7 0.04
50 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCC
Found at i:71521015 original size:142 final size:140
Alignment explanation
Indices: 71520869--71521130 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 140
71520859 AAGCTGATGC
*
71520869 CATGTCCCAGACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * * *
71520934 TTACACTGGCTTGCATC-T-CTCGAGGCTGGTGCATGTCCTAGACATGTCTTACACTAGCTATCG
66 TTACACTAGC-T-C-TCGTAAT-GAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTATCG
71520997 TCTCAATGCCAATG
127 TCTCAATGCCAATG
* * * * *
71521011 CATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCGGACATGTC
1 CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
*
71521076 TTACACTAGCTCTCGTAATGTGGCCGATGCATGTCCTAGACATGTCTTACACTAG
66 TTACACTAGCTCTCGTAATGAGGCCGATGCATGTCCTAGACATGTCTTACACTAG
71521131 AACACATATC
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 2 0.02
140 35 0.33
141 2 0.02
142 68 0.64
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACAGGTCTTACAGTAGCTTGCATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGTAATGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCTATCGTCTC
AATGCCAATG
Found at i:71521032 original size:94 final size:93
Alignment explanation
Indices: 71520909--71521128 Score: 309
Period size: 94 Copynumber: 2.3 Consensus size: 93
71520899 TATATCTCGA
* * * *
71520909 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCTGGTGCATGTCCTA
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCA
71520974 GACATGTCTTACACTAGCTATCGTCTCAA-T
66 GACATGTCTTACACTAGCTATCG--T-AAGT
* *
71521004 -GCCAATGCATGTCCCAGACATGTCTTACATTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCG
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCA
*
71521068 GACATGTCTTACACTAGCTCTCGTAATGT
66 GACATGTCTTACACTAGCTATCGTAA-GT
* *
71521097 GGCCGATGCATGTCCTAGACATGTCTTACACT
1 GGCCAATGCATGTCCCAGACATGTCTTACACT
71521129 AGAACACATA
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 108 0.96
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (93 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTATCGTAAGT
Found at i:71524675 original size:9 final size:9
Alignment explanation
Indices: 71524661--71524687 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
71524651 TTTTATTATA
71524661 TACATATTT
1 TACATATTT
71524670 TACATATTT
1 TACATATTT
71524679 TACATATTT
1 TACATATTT
71524688 AACCTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TACATATTT
Found at i:71526049 original size:18 final size:18
Alignment explanation
Indices: 71526026--71526061 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
71526016 TTCTTCGGTG
71526026 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
71526044 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
71526062 CAACCATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:71529733 original size:27 final size:27
Alignment explanation
Indices: 71529703--71529880 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
71529693 ATATTGAGTC
* * *
71529703 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
71529730 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
71529757 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
71529785 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
71529812 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
71529839 CGCACACTTAGTGCAACATAGTCAAGT
1 CGCACACTTAGTGCTACATAGTCAACT
71529866 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71529881 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:71529842 original size:82 final size:81
Alignment explanation
Indices: 71529724--71529879 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
71529714 TGCTATATAA
* *
71529724 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AACTCGCA
71529789 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
71529806 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAGTCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCA
71529870 CACTTAGTGC
65 CACTTAGTGC
71529880 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:71537780 original size:27 final size:27
Alignment explanation
Indices: 71537750--71537927 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71537740 ATATTGAGTC
* * * *
71537750 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
71537777 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71537804 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
71537832 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
71537859 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
71537886 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71537913 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71537928 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:71537889 original size:82 final size:81
Alignment explanation
Indices: 71537771--71537926 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71537761 TGCTATATAA
* *
71537771 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
71537836 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
71537853 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
71537917 CACTTAGTGC
65 CACTTAGTGC
71537927 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:71545896 original size:27 final size:27
Alignment explanation
Indices: 71545866--71546043 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71545856 ATATTGAGTC
* * * *
71545866 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
71545893 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71545920 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
71545948 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
71545975 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
71546002 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
71546029 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71546044 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:71546005 original size:82 final size:81
Alignment explanation
Indices: 71545887--71546042 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71545877 TGCTATATAA
* *
71545887 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
71545952 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
71545969 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
71546033 CACTTAGTGC
65 CACTTAGTGC
71546043 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:71550505 original size:48 final size:48
Alignment explanation
Indices: 71550450--71550664 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 48
71550440 AAGCTGACGC
* * *
71550450 CATGTCCCAAACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * ** * * *
71550498 CATGTCCCAGACATGTTTTACACTAGC-TCT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * **
71550544 CATGTCCCAGACATGTCTTACACTAGATTGCATCGCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * *
71550592 CATGTCCCAGACAAGTCTTACGCTGGCTCTCGTA-A--T-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GTATATCTCGAGGCCGATG
*
71550638 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
71550665 ATACATACCA
Statistics
Matches: 131, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
46 67 0.51
47 4 0.03
48 57 0.44
49 1 0.01
50 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:71550639 original size:94 final size:93
Alignment explanation
Indices: 71550450--71550663 Score: 252
Period size: 94 Copynumber: 2.3 Consensus size: 93
71550440 AAGCTGACGC
* * * * * * * *
71550450 CATGTCCCAAACAGGTCTTACAGTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTT
1 CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
71550515 TTACACTAGCTCTCGTCTCAATGCCAATG
66 TTACACTAGCTCTCG-CTCAATGCCAATG
*
71550544 CATGTCCCAGACATGTCTTACACTAGATTGCATCGCTCGAGGCCGATGCATGTCCCAGACAAGTC
1 CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
* * **
71550609 TTACGCTGGCTCTCG-T-AATGTGGCTGATG
66 TTACACTAGCTCTCGCTCAA--T-GCCAATG
*
71550638 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
71550664 CATACATACC
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 99 0.96
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGATTGCATAGCTCGAGGCCGATGCATGTCCCAGACAAGTC
TTACACTAGCTCTCGCTCAATGCCAATG
Found at i:71554047 original size:34 final size:33
Alignment explanation
Indices: 71554009--71554112 Score: 95
Period size: 34 Copynumber: 3.0 Consensus size: 33
71553999 GCTCCACTAA
*
71554009 TTAAAATATATTTTTTAAAATTTTAAATATAATT
1 TTAAAA-ATAATTTTTAAAATTTTAAATATAATT
* * *
71554043 TTAAAAA-AACGTTTGAATATCTTTAAA-AGTAATT
1 TTAAAAATAA-TTTTTAAAAT-TTTAAATA-TAATT
*
71554077 TTAAAAATAATATTTAAAATTTTAAAATATACATT
1 TTAAAAATAATTTTTAAAATTTT-AAATATA-ATT
71554112 T
1 T
71554113 AAATATTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
32 1 0.02
33 12 0.22
34 35 0.64
35 7 0.13
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (33 bp):
TTAAAAATAATTTTTAAAATTTTAAATATAATT
Found at i:71554105 original size:20 final size:22
Alignment explanation
Indices: 71554073--71554124 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
71554063 CTTTAAAAGT
*
71554073 AATTTTAAAAATA-ATATTTAA
1 AATTTTAAAAATATACATTTAA
71554094 AATTTT-AAAATATACATTT-A
1 AATTTTAAAAATATACATTTAA
*
71554114 AATATTAAAAA
1 AATTTTAAAAA
71554125 ACAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTTAAAAATATACATTTAA
Found at i:71554221 original size:22 final size:22
Alignment explanation
Indices: 71554196--71554264 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
71554186 TTAAAATTTT
71554196 ATATTTAAAATTATAAAAAATA
1 ATATTTAAAATTATAAAAAATA
**
71554218 ATATTATAAAA-TATTTAAAATA
1 ATATT-TAAAATTATAAAAAATA
* * *
71554240 TTA-TAAAAATAATAAAGAAATA
1 ATATTTAAAATTATAAA-AAATA
71554262 ATA
1 ATA
71554265 ATAAAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 23 0.64
23 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (22 bp):
ATATTTAAAATTATAAAAAATA
Found at i:71554238 original size:9 final size:10
Alignment explanation
Indices: 71554217--71554247 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
71554207 TATAAAAAAT
71554217 AATATTATAA
1 AATATTATAA
71554227 AATATT-TAA
1 AATATTATAA
71554236 AATATTATAA
1 AATATTATAA
71554246 AA
1 AA
71554248 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATTATAA
Found at i:71554264 original size:14 final size:14
Alignment explanation
Indices: 71554247--71554273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71554237 ATATTATAAA
71554247 AATAATAAAGAAAT
1 AATAATAAAGAAAT
71554261 AATAATAAAGAAA
1 AATAATAAAGAAA
71554274 AACAAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AATAATAAAGAAAT
Found at i:71559102 original size:23 final size:23
Alignment explanation
Indices: 71559059--71559103 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
71559049 ATTCCACATT
* *
71559059 CATATATCAATATCTTACATTTC
1 CATATATCAATACCGTACATTTC
71559082 CATATATCAATAACCGT-CATTT
1 CATATATCAAT-ACCGTACATTT
71559104 TTCTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (23 bp):
CATATATCAATACCGTACATTTC
Found at i:71559487 original size:39 final size:39
Alignment explanation
Indices: 71559444--71559527 Score: 168
Period size: 39 Copynumber: 2.2 Consensus size: 39
71559434 GAAATCTAGT
71559444 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
1 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
71559483 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
1 TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
71559522 TGAAGC
1 TGAAGC
71559528 TCATCATAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.29, T:0.13
Consensus pattern (39 bp):
TGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAAC
Found at i:71559509 original size:21 final size:21
Alignment explanation
Indices: 71559445--71559509 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
71559435 AAATCTAGTT
71559445 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*** *
71559466 GAAGC-CCGGAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
71559484 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
71559505 GAAGC
1 GAAGC
71559510 CCGGAGGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.38, C:0.22, G:0.28, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:71564974 original size:41 final size:41
Alignment explanation
Indices: 71564917--71564999 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
71564907 AGGACCTTAG
71564917 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
1 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
* *
71564958 ATTGTCTTTTTCATTCATATTCTTTGCGGAAAAATTAACAC
1 ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
71564999 A
1 A
71565000 AACATATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (41 bp):
ATTGTCTCTTTCATTCATATTCTTTGAGGAAAAATTAACAC
Found at i:71589333 original size:170 final size:170
Alignment explanation
Indices: 71589051--71589386 Score: 636
Period size: 170 Copynumber: 2.0 Consensus size: 170
71589041 ATTAAAAAAA
*
71589051 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTGGCAGGA
1 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
* *
71589116 TTAAATCTTCCACTATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCATCCTATA
66 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
71589181 ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
131 ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
71589221 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
1 ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
71589286 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
66 TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
*
71589351 ACATTATAAACCATTTTTTGAACAAGATATCTTGTT
131 ACATTATAAACCACTTTTTGAACAAGATATCTTGTT
71589387 CCTAACAAGC
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 162 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (170 bp):
ATATTTACACTAAACTCACTCAACTAAGCCTTAACAGCTTAACCAAATAGTTGCATTTAGCAGGA
TTAAATCTTCCACCATAAAGGTAGCCCATATCCAATCTAGAGGTTTAAGTGCATTCCACCCTATA
ACATTATAAACCACTTTTTGAACAAGATATCTTGTTACAT
Found at i:71591599 original size:11 final size:11
Alignment explanation
Indices: 71591583--71591607 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
71591573 GTTTGAAATG
71591583 TAACTAGATAT
1 TAACTAGATAT
71591594 TAACTAGATAT
1 TAACTAGATAT
71591605 TAA
1 TAA
71591608 GTGTCAACTT
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
TAACTAGATAT
Found at i:71591670 original size:18 final size:17
Alignment explanation
Indices: 71591647--71591681 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
71591637 GAATAGATTT
71591647 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
71591665 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
71591682 ATCTTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:71594914 original size:24 final size:24
Alignment explanation
Indices: 71594884--71594935 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
71594874 ATAACACATC
71594884 AAGCCAACCACCCTTAACCCAACA
1 AAGCCAACCACCCTTAACCCAACA
71594908 AAGCCAACCACCCTTAACCCAACA
1 AAGCCAACCACCCTTAACCCAACA
71594932 AAGC
1 AAGC
71594936 TCAAACCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.44, G:0.06, T:0.08
Consensus pattern (24 bp):
AAGCCAACCACCCTTAACCCAACA
Found at i:71598160 original size:18 final size:17
Alignment explanation
Indices: 71598126--71598160 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
71598116 GATTTTGGGT
71598126 TTAAATTTTTAAATTAA
1 TTAAATTTTTAAATTAA
*
71598143 TTAAATTTATTTAATTAA
1 TTAAATTT-TTAAATTAA
71598161 AAATCTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATTTTTAAATTAA
Found at i:71598357 original size:31 final size:29
Alignment explanation
Indices: 71598288--71598361 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
71598278 ACAAAATAAT
**
71598288 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
71598317 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
71598348 AACAAAAGTGACTA
1 AACATAAGTGACTA
71598362 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:71601303 original size:14 final size:15
Alignment explanation
Indices: 71601284--71601312 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71601274 TTTAGAAAAT
71601284 GGGCCT-TATTTTTG
1 GGGCCTATATTTTTG
71601298 GGGCCTATATTTTTG
1 GGGCCTATATTTTTG
71601313 TTCAAACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.28, T:0.48
Consensus pattern (15 bp):
GGGCCTATATTTTTG
Found at i:71602342 original size:11 final size:12
Alignment explanation
Indices: 71602313--71602341 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
71602303 AGCAAAATAG
71602313 GTTTTTAGCGGC
1 GTTTTTAGCGGC
71602325 GTTTTTAGCGGC
1 GTTTTTAGCGGC
71602337 GTTTT
1 GTTTT
71602342 AATAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.48
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:71603271 original size:15 final size:15
Alignment explanation
Indices: 71603253--71603371 Score: 90
Period size: 15 Copynumber: 8.3 Consensus size: 15
71603243 ACTATTTAAA
*
71603253 GGTTTATGGATTATG
1 GGTTTATGGGTTATG
71603268 GGTTTA-GGGATTAT-
1 GGTTTATGGG-TTATG
*
71603282 -GTTTATGGCTTAT-
1 GGTTTATGGGTTATG
* *
71603295 GGTTTAAGGGTT-GG
1 GGTTTATGGGTTATG
*
71603309 GGTTTAAGGGTTATG
1 GGTTTATGGGTTATG
*
71603324 GG-TTA-GTGGTTAGG
1 GGTTTATG-GGTTATG
71603338 GGTTTATGGGTTATG
1 GGTTTATGGGTTATG
* * *
71603353 GGTTAATGGTTTAGG
1 GGTTTATGGGTTATG
71603368 GGTT
1 GGTT
71603372 AAGGCTTAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
13 10 0.12
14 36 0.42
15 38 0.45
16 1 0.01
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (15 bp):
GGTTTATGGGTTATG
Found at i:71603328 original size:7 final size:7
Alignment explanation
Indices: 71603256--71603372 Score: 62
Period size: 7 Copynumber: 16.4 Consensus size: 7
71603246 ATTTAAAGGT
*
71603256 TTATGGA
1 TTATGGG
71603263 TTATGGG
1 TTATGGG
71603270 TT-TAGGG
1 TTAT-GGG
*
71603277 ATTAT-GT
1 -TTATGGG
*
71603284 TTATGGC
1 TTATGGG
*
71603291 TTATGGT
1 TTATGGG
*
71603298 TTAAGGG
1 TTATGGG
*
71603305 TT-GGGG
1 TTATGGG
*
71603311 TTTAAGGG
1 -TTATGGG
71603319 TTATGGG
1 TTATGGG
71603326 TTA-GTGG
1 TTATG-GG
*
71603333 TTAGGGG
1 TTATGGG
71603340 TTTATGGG
1 -TTATGGG
71603348 TTATGGG
1 TTATGGG
*
71603355 TTAATGGT
1 TT-ATGGG
*
71603363 TTAGGGG
1 TTATGGG
71603370 TTA
1 TTA
71603373 AGGCTTAATG
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
6 9 0.10
7 59 0.68
8 18 0.21
9 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.38, T:0.43
Consensus pattern (7 bp):
TTATGGG
Found at i:71603334 original size:22 final size:20
Alignment explanation
Indices: 71603312--71603387 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 20
71603302 GGGTTGGGGT
71603312 TTAAGGGTTATGGGTTAGTGG
1 TTAAGGGTTATGGGTTA-TGG
*
71603333 TTAGGGGTTTATGGGTTATGGG
1 TTAAGGG-TTATGGGTTAT-GG
* * *
71603355 TTAATGGTTTAGGGGTTAAGG
1 TTAA-GGGTTATGGGTTATGG
*
71603376 CTTAATGGTTAT
1 -TTAAGGGTTAT
71603388 TATTTTGTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 13 0.30
22 28 0.65
23 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.41
Consensus pattern (20 bp):
TTAAGGGTTATGGGTTATGG
Found at i:71603340 original size:29 final size:29
Alignment explanation
Indices: 71603282--71603375 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
71603272 TAGGGATTAT
* * * *
71603282 GTTTATGGCTTATGGTTTAAGGGTT-GGG
1 GTTTAAGGGTTATGGGTTAATGGTTAGGG
*
71603310 GTTTAAGGGTTATGGGTTAGTGGTTAGGG
1 GTTTAAGGGTTATGGGTTAATGGTTAGGG
*
71603339 GTTTATGGGTTATGGGTTAATGGTTTAGGG
1 GTTTAAGGGTTATGGGTTAATGG-TTAGGG
71603369 G-TTAAGG
1 GTTTAAGG
71603376 CTTAATGGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 20 0.36
29 29 0.52
30 7 0.12
ACGTcount: A:0.17, C:0.01, G:0.41, T:0.40
Consensus pattern (29 bp):
GTTTAAGGGTTATGGGTTAATGGTTAGGG
Found at i:71603589 original size:28 final size:29
Alignment explanation
Indices: 71603543--71603609 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
71603533 AATTCATACA
* *
71603543 TTTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
71603571 TTTTGTGGTTTATGG-TTAGGGGATATAG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
71603599 TTTAG-GGTTTA
1 TTTTGTGGTTTA
71603610 GGGGATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 23 0.68
29 5 0.15
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.48
Consensus pattern (29 bp):
TTTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:71603605 original size:14 final size:14
Alignment explanation
Indices: 71603605--71603650 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
71603595 ATAGTTTAGG
71603605 GTTTAGGGGATATA
1 GTTTAGGGGATATA
* *
71603619 GTTTAGGGTACTTTA
1 GTTTAGGGGA-TATA
71603634 G--TAGGGGATATA
1 GTTTAGGGGATATA
71603646 GTTTA
1 GTTTA
71603651 ATGGTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 11 0.44
15 4 0.16
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.39
Consensus pattern (14 bp):
GTTTAGGGGATATA
Found at i:71603612 original size:21 final size:21
Alignment explanation
Indices: 71603578--71603627 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
71603568 TTGTTTTGTG
*
71603578 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
71603598 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
71603619 GTTTAGGGT
1 GTTTAGGGT
71603628 ACTTTAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Found at i:71603629 original size:202 final size:199
Alignment explanation
Indices: 71603397--71603887 Score: 772
Period size: 200 Copynumber: 2.5 Consensus size: 199
71603387 TTATTTTGTG
* *
71603397 GTTTAGGGTTTAAGGGA-ATAGTTCAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
* * *
71603461 TTAAAGTATTGATTAATTAGTGTTATTATTTTGTGGTTTAAGGATCAGCGGATATAGTTTAGGGT
66 TTAGAGTATTGATTAATTAGTGTTATTA-TTTGTGGTTTAAAGATCAGCGGACATAG-TTAGGGT
* * *
71603526 TATGATTAATTCATACATTTTGTGGTTAAGGCTTAGGGGTTATTGTTTTGTGGTTTATGGTTAGG
129 TATGATTAATTCATACATTTTATGGTTAAGGC-TAGGGGTTATTATTTTGTGGTTTATGGTTAAG
71603591 GGATATA
193 GGATATA
*
71603598 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAAGT
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
* *
71603663 TTAGAGTATTGATTAATTAGGGTTATTATTTGTGGTTTAAAGATCAGGGGACATAGTTAGGGTTA
66 TTAGAGTATTGATTAATTAGTGTTATTATTTGTGGTTTAAAGATCAGCGGACATAGTTAGGGTTA
71603728 TGATTAATTCATACATTTTATGGTTAAGGCTAGGGGTTATTATTTTGTGGTTTATGGTTAAGGGA
131 TGATTAATTCATACATTTTATGGTTAAGGCTAGGGGTTATTATTTTGTGGTTTATGGTTAAGGGA
71603793 TATA
196 TATA
* * *
71603797 GTTTAGGGTTTAGGGGATATAGTTTAGAGT--TTAAGGTTATGGGGATATATTTTAATGGTTTAA
1 GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTA-G-TA-GGGGATATAGTTTAATGGTTTAA
*
71603860 GGTTTAGAGTTTTGATTAATTAGTGTTA
63 GGTTTAGAGTATTGATTAATTAGTGTTA
71603888 ATAATATTAA
Statistics
Matches: 269, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
197 3 0.01
198 1 0.00
199 68 0.25
200 85 0.32
201 41 0.15
202 71 0.26
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (199 bp):
GTTTAGGGTTTAGGGGATATAGTTTAGGGTACTTTAGTAGGGGATATAGTTTAATGGTTTAAGGT
TTAGAGTATTGATTAATTAGTGTTATTATTTGTGGTTTAAAGATCAGCGGACATAGTTAGGGTTA
TGATTAATTCATACATTTTATGGTTAAGGCTAGGGGTTATTATTTTGTGGTTTATGGTTAAGGGA
TATA
Found at i:71603806 original size:20 final size:21
Alignment explanation
Indices: 71603777--71603832 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
71603767 TTATTTTGTG
*
71603777 GTTTATGG-TTAAGGGATATA
1 GTTTAGGGTTTAAGGGATATA
*
71603797 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAAGGGATATA
*
71603818 GTTTAGAGTTTAAGG
1 GTTTAGGGTTTAAGG
71603833 TTATGGGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (21 bp):
GTTTAGGGTTTAAGGGATATA
Found at i:71603829 original size:28 final size:28
Alignment explanation
Indices: 71603796--71603863 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
71603786 TAAGGGATAT
*
71603796 AGTTTAGGGTT-TAGGGGATATAGTTTAG
1 AGTTTAAGGTTAT-GGGGATATAGTTTAG
*
71603824 AGTTTAAGGTTATGGGGATATATTTTA-
1 AGTTTAAGGTTATGGGGATATAGTTTAG
71603851 ATGGTTTAAGGTT
1 A--GTTTAAGGTT
71603864 TAGAGTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.66
29 11 0.31
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (28 bp):
AGTTTAAGGTTATGGGGATATAGTTTAG
Done.