Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 270 of 279
Found at i:88145873 original size:79 final size:79
Alignment explanation
Indices: 88145720--88145884 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
88145710 GGACTAAGAT
* **
88145720 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
88145785 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88145799 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
88145862 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88145878 CCGAAGG
1 CCGAAGG
88145885 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88153678 original size:39 final size:40
Alignment explanation
Indices: 88153583--88153805 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
88153573 TTGAATGATG
*
88153583 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
88153621 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
88153662 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
88153701 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
88153740 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
88153779 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88153806 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:88153769 original size:79 final size:81
Alignment explanation
Indices: 88153583--88153805 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
88153573 TTGAATGATG
* * *
88153583 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
88153644 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
88153662 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
88153724 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
88153740 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
88153804 TG
66 TG
88153806 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:88153827 original size:79 final size:79
Alignment explanation
Indices: 88153583--88153838 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
88153573 TTGAATGATG
* * * *
88153583 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
88153644 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
88153662 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
88153726 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
88153740 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
88153804 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
88153820 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
88153839 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:88162749 original size:43 final size:43
Alignment explanation
Indices: 88162684--88162767 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
88162674 AGTGATTGAT
* *
88162684 ATTGAAATGACAAAGATGAGAAATGAATATGAGATGAGAAAAC
1 ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAAAC
* *
88162727 ATTGAAATGACAAATATAAGAAATGATTATGACATGAGAAA
1 ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAA
88162768 TGAGATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.54, C:0.05, G:0.20, T:0.21
Consensus pattern (43 bp):
ATTGAAATGACAAAGATAAGAAATGAATATGACATGAGAAAAC
Found at i:88171333 original size:40 final size:40
Alignment explanation
Indices: 88171278--88171451 Score: 285
Period size: 40 Copynumber: 4.3 Consensus size: 40
88171268 NNNNNNNNNN
*
88171278 CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
*
88171318 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
*
88171358 CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
** * *
88171398 TTCGAAGGCAATTGTGTGAGTTACTATAACCGGGCTAAGT
1 CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
88171438 CCCGAAGGCATTTG
1 CCCGAAGGCATTTG
88171452 AGCAAGAAGT
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGT
Found at i:88173503 original size:13 final size:13
Alignment explanation
Indices: 88173485--88173510 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88173475 TCCAAACCGA
88173485 GTTTCGAAAGAAG
1 GTTTCGAAAGAAG
88173498 GTTTCGAAAGAAG
1 GTTTCGAAAGAAG
88173511 TATATCAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GTTTCGAAAGAAG
Found at i:88176988 original size:40 final size:40
Alignment explanation
Indices: 88176867--88176980 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
88176857 ATTCGGATTG
*
88176867 ATAATCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
88176906 ATTACCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
88176946 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
88176981 AAGCTATATC
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.18
40 54 0.82
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:88183601 original size:44 final size:42
Alignment explanation
Indices: 88183538--88183693 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 42
88183528 TGTGCTTTCG
* *
88183538 TGTAAGGCCACGTCTGGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
* *
88183582 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* * * *
88183624 TGTAAGACCCT-ACTGGGATAGTGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACA
* *
88183666 TGTAAGACCATGTCTAGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
88183694 TGTATGATCT
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 16 0.17
42 29 0.32
43 17 0.18
44 29 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:88183658 original size:42 final size:40
Alignment explanation
Indices: 88183522--88183674 Score: 121
Period size: 42 Copynumber: 3.6 Consensus size: 40
88183512 CACATAAGAT
* * * *
88183522 TCGATATGTGCTTTCGTGTAAGGCCACGTCTGGGACATTGGCA
1 TCGATATTTGATTTCATGTAAGACC-C-TCTGGGACA-TGGCA
* *
88183565 TCGACT-TATGATTTACATGTAAGACCATGTCTGGGACATCGGCA
1 TCGA-TATTTGATTT-CATGTAAGACC--CTCTGGGACAT-GGCA
* *
88183609 TCG-TATTTGATTTCGTGTAAGACCCTACTGGGATAGTGGCA
1 TCGATATTTGATTTCATGTAAGACCCT-CTGGGACA-TGGCA
*
88183650 TCGATATTTGATTACATGTAAGACC
1 TCGATATTTGATTTCATGTAAGACC
88183675 ATGTCTAGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
40 1 0.01
41 14 0.16
42 31 0.34
43 18 0.20
44 26 0.29
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
TCGATATTTGATTTCATGTAAGACCCTCTGGGACATGGCA
Found at i:88184968 original size:27 final size:27
Alignment explanation
Indices: 88184892--88184980 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
88184882 AATACAAATC
*
88184892 AGTCATTTTACGTTATAGGGGTAATAT
1 AGTCATTTTACCTTATAGGGGTAATAT
* * * *
88184919 AATCATTTTACCCTAT-GGTGGTATTTT
1 AGTCATTTTACCTTATAGG-GGTAATAT
* * *
88184946 GGTCATTTTACCTTATAAGGGTAAAAT
1 AGTCATTTTACCTTATAGGGGTAATAT
88184973 AGTCATTT
1 AGTCATTT
88184981 CAATACATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
26 2 0.04
27 44 0.94
28 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCTTATAGGGGTAATAT
Found at i:88193581 original size:18 final size:18
Alignment explanation
Indices: 88193558--88193625 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
88193548 TCCCTAGACC
88193558 TTTAGCATCTAGGTGAAT
1 TTTAGCATCTAGGTGAAT
**
88193576 TTTAGCATCTAACACT-ACACT
1 TTTAGCATCT-A-GGTGA-A-T
88193597 TTTAGCATCTAGGTGAAT
1 TTTAGCATCTAGGTGAAT
*
88193615 TTCAGCATCTA
1 TTTAGCATCTA
88193626 ACACCTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 21 0.52
19 4 0.10
20 4 0.10
21 11 0.28
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTAGCATCTAGGTGAAT
Found at i:88204048 original size:17 final size:19
Alignment explanation
Indices: 88204026--88204072 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
88204016 GTTTAAAAAC
*
88204026 TTTTTATTTATTA-TTTT-
1 TTTTTATTTATCACTTTTA
88204043 TTTTTATTT-TCACTTTTA
1 TTTTTATTTATCACTTTTA
88204061 TTTTTATTTATC
1 TTTTTATTTATC
88204073 TTATTTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 9 0.35
19 2 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTATCACTTTTA
Found at i:88210426 original size:37 final size:37
Alignment explanation
Indices: 88210367--88210473 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
88210357 AGCTCAGACG
* *
88210367 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
88210404 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88210441 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
88210474 AAATATATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:88210780 original size:48 final size:49
Alignment explanation
Indices: 88210621--88210806 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 49
88210611 GCACATCGCC
* * *
88210621 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATATGCATATCTCA-A
*
88210671 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCATA
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATGCATATCTCA-A
* * *
88210721 TATATATTTCACATT-GACCATTCAACTTTACCATATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCAGCTTTACCACATATGCATATCTCAA
*
88210769 TACATATTTCACATTAGCCATTCGGCTTTACCACATAT
1 TACATATTTCACATTAGCCATTCAGCTTTACCACATAT
88210807 ATGCATGTTC
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
48 33 0.27
49 2 0.02
50 89 0.72
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCAGCTTTACCACATATGCATATCTCAA
Found at i:88210808 original size:50 final size:49
Alignment explanation
Indices: 88210621--88210906 Score: 222
Period size: 50 Copynumber: 5.9 Consensus size: 49
88210611 GCACATCGCC
*
88210621 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCTCATA
1 TACATATTTCACA-TTGCCATTCGGCTTTACCACATATATGCATATCTC--A
* *
88210671 TATATATTTCACATTGACCATTCAGCTTTACCAC--ATATGCATATCTCATA
1 TACATATTTCACATTG-CCATTCGGCTTTACCACATATATGCATATCTC--A
* **
88210721 TATATATTTCACATTGACCATTCAACTTTA-C-CATATATGCATATCTCA
1 TACATATTTCACATTG-CCATTCGGCTTTACCACATATATGCATATCTCA
*
88210769 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATGT-TCA
1 TACATATTTCACATT-GCCATTCGGCTTTACCACATATATGCATATCTCA
** * * * *
88210818 T--AT-TCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-
1 TACATAT-TTCACATT-GCCATTCGGCTTTACCACATATATGCATATCTCA
* * *
88210864 -ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
1 TACATAT-TTCACATT-GCCATTCGGCTTTACCACATATATGCAT
88210907 GTTCACATTC
Statistics
Matches: 207, Mismatches: 17, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
46 1 0.00
47 74 0.36
48 30 0.14
49 9 0.04
50 93 0.45
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (49 bp):
TACATATTTCACATTGCCATTCGGCTTTACCACATATATGCATATCTCA
Found at i:88210839 original size:47 final size:47
Alignment explanation
Indices: 88210777--88210970 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
88210767 CATACATATT
* * * *
88210777 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
88210824 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
88210871 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
88210918 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
88210965 TCACAT
1 TCACAT
88210971 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:88210897 original size:22 final size:22
Alignment explanation
Indices: 88210870--88210941 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
88210860 GCTCACATTC
88210870 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
88210892 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
88210916 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
88210939 ATC
1 ATC
88210942 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:88214225 original size:40 final size:40
Alignment explanation
Indices: 88214181--88215227 Score: 1959
Period size: 40 Copynumber: 26.2 Consensus size: 40
88214171 CACGAATGCT
*
88214181 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214221 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214261 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214301 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214341 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214381 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214421 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214461 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214501 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214541 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214581 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214621 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214661 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214701 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214741 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214781 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214821 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214861 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214901 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88214941 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
* *
88214981 CATCACTAGCACGAATGCTCTTCGGGGCTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
88215021 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
* *
88215061 CATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
* *
88215101 CATCACTAGCACGAATGCTGTTCGGGACTTAGTCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
* * *
88215141 CATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
* * * *
88215181 TATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATA
1 CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
*
88215221 TATCACT
1 CATCACT
88215228 CTCAATTCTC
Statistics
Matches: 992, Mismatches: 15, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 992 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CATCACTAGCACAAATGCTCTTCGGGACTTAGTCCGGATA
Found at i:88216541 original size:37 final size:37
Alignment explanation
Indices: 88216491--88217269 Score: 1513
Period size: 37 Copynumber: 21.1 Consensus size: 37
88216481 CTTTAGCTCA
* * *
88216491 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
88216528 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216565 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216602 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216639 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216676 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216713 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216750 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216787 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216824 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216861 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216898 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216935 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88216972 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217009 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217046 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217083 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217120 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217157 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217194 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
88217231 GACATAATCTCCACACGTAGTCATCGGGTCTTACTCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
88217268 GA
1 GA
88217270 ATATATTTCC
Statistics
Matches: 738, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 738 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:88217468 original size:48 final size:48
Alignment explanation
Indices: 88217410--88217616 Score: 333
Period size: 48 Copynumber: 4.3 Consensus size: 48
88217400 ATATACACAC
* *
88217410 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
88217458 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
88217506 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACGTGTACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
88217554 ATCTCATTCATATTTTACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
88217602 ATCTCATATATATTT
1 ATCTCATACATATTT
88217617 TGTAACACCC
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:88219029 original size:37 final size:37
Alignment explanation
Indices: 88218979--88219057 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
88218969 TTATTACGAA
* *
88218979 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
88219016 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
88219053 GTCTT
1 GTCTT
88219058 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:88219253 original size:47 final size:47
Alignment explanation
Indices: 88219175--88219381 Score: 297
Period size: 47 Copynumber: 4.4 Consensus size: 47
88219165 CCCTTCGGGA
* * * * * * *
88219175 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88219222 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88219269 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88219316 CTTATTACATATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88219363 CTTATCACATATATACACT
1 CTTATCACATATATACACT
88219382 GTCTTGGCTG
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 143 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88222024 original size:50 final size:50
Alignment explanation
Indices: 88221909--88222147 Score: 259
Period size: 50 Copynumber: 4.8 Consensus size: 50
88221899 TAATAACATA
* * ** * * *
88221909 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC--TG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTG
* * * ** *
88221958 CCAATGCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* ** *
88222008 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
88222058 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
88222108 CCAACT-CCATGTCCTAGACATGGTCTTACATGGGACCTCT
1 CCAA-TGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
88222148 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 123 0.77
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:88229299 original size:171 final size:171
Alignment explanation
Indices: 88229011--88229352 Score: 648
Period size: 171 Copynumber: 2.0 Consensus size: 171
88229001 TTACGCATTA
88229011 CGACTTAAATATCTCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAAAAACTAGAC
1 CGACTTAAATATCTCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAAAAACTAGAC
*
88229076 TCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCCGGTTAATTTATAATGAATT
66 TCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCCGGTTAATTTATAATAAATT
88229141 TCCAAAGTCGAAACAGGGAATCCAAAAACCGTTCTGGCCCT
131 TCCAAAGTCGAAACAGGGAATCCAAAAACCGTTCTGGCCCT
88229182 CGACTTAAATATCTCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAAAAACTAGAC
1 CGACTTAAATATCTCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAAAAACTAGAC
*
88229247 TCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCTGGTTAATTTATAATAAATT
66 TCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCCGGTTAATTTATAATAAATT
* *
88229312 TCCAAAGTCGGAACAGGGAATCCAGAAACCGTTCTGGCCCT
131 TCCAAAGTCGAAACAGGGAATCCAAAAACCGTTCTGGCCCT
88229353 GTCTCACGAG
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (171 bp):
CGACTTAAATATCTCCCTGTACAGGGCTTCAATACTGATGTCGTTTGTTTCTATAAAAACTAGAC
TCAAAGAGGAATCTATACATATATGGAATGACTCCTAATTATCTCCGGTTAATTTATAATAAATT
TCCAAAGTCGAAACAGGGAATCCAAAAACCGTTCTGGCCCT
Found at i:88237669 original size:40 final size:40
Alignment explanation
Indices: 88237632--88238577 Score: 1711
Period size: 40 Copynumber: 23.6 Consensus size: 40
88237622 GCTACTCGTT
* *
88237632 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
88237672 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237712 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237752 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237792 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237832 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237872 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237912 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237952 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88237992 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238032 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238072 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238112 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238192 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238232 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238272 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238312 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238352 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238392 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
88238432 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
88238472 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
88238512 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
88238553 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
88238578 CATCATTCAA
Statistics
Matches: 889, Mismatches: 13, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
39 3 0.00
40 872 0.98
41 14 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:88242100 original size:75 final size:75
Alignment explanation
Indices: 88242020--88242161 Score: 232
Period size: 75 Copynumber: 1.9 Consensus size: 75
88242010 GGAAAATCAT
* *
88242020 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTA-GAAAAGTGAATTATATTCTTTCCA
1 GATTATTCCCTTATTAATAGAAAAGACAAATGAAAAGTTAGGAAAAG-GAATTATATTCTTTCCA
88242084 AAAGAATATAG
65 AAAGAATATAG
* *
88242095 GATTATTCCCTTATTAATAGAAAATAGAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
1 GATTATTCCCTTATTAATAGAAAAGACAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
88242160 AA
66 AA
88242162 AAATTAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
75 56 0.90
76 6 0.10
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (75 bp):
GATTATTCCCTTATTAATAGAAAAGACAAATGAAAAGTTAGGAAAAGGAATTATATTCTTTCCAA
AAGAATATAG
Found at i:88242389 original size:138 final size:136
Alignment explanation
Indices: 88242143--88242691 Score: 831
Period size: 138 Copynumber: 4.0 Consensus size: 136
88242133 TAGGAAAAGG
*
88242143 AATTATATTCTTTCCAAAAAAATTAATTTCCATATCTTTTATATTTTG-GCAGAAATTAATTAAT
1 AATTATATTCTTTCCAAAAAAATTAATTTCCATGTCTTTTATATTTTGAGCA-AAATTAATTAAT
* *
88242207 ACAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
65 ATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
88242272 ATATATT
130 ATATATT
*
88242279 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTGTTTTATATTTTGAGCAAAATTAATTAA
1 AATTATATTCTTTCCAAAA-AA-ATTAATTTCCATGTCTTTTATATTTTGAGCAAAATTAATTAA
* * * *
88242344 TATAATTGCTTATATTAATAAATTCAATCAAATATATACAATTAATATTTTTTATGAATCAAATT
64 TATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
88242409 CTTATATT
129 CATATATT
*
88242417 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTGAAATTAATTA
1 AATTATATTCTTTCCAAAA-AA-ATTAATTTCCATGTCTTTTATATTTTGAGC-AAAATTAATTA
* *
88242481 ATATAACTATTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATGAAAT
63 ATATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAAT
88242546 TCATATATT
128 TCATATATT
* * * *
88242555 AATTGTATTCATTCCAAAAAAA-AAATTT-CATGTCTTTTATATTTTGATCAAAATTAATTAATA
1 AATTATATTCTTTCCAAAAAAATTAATTTCCATGTCTTTTATATTTTGAGCAAAATTAATTAATA
* *
88242618 TAACTG-TTATATTAATAAA-TCTGATGAAATATATACAATTAATATTTTGTATGAATCAAATTC
66 TAACTGTTTATATTAATAAATTC-AATAAAATATATACAATTAATATTTTGTATGAATCAAATTC
88242681 ATATATT
130 ATATATT
88242688 AATT
1 AATT
88242692 TTATCTATGT
Statistics
Matches: 381, Mismatches: 26, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
132 2 0.01
133 62 0.16
134 37 0.10
135 6 0.02
136 20 0.05
137 5 0.01
138 246 0.65
139 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (136 bp):
AATTATATTCTTTCCAAAAAAATTAATTTCCATGTCTTTTATATTTTGAGCAAAATTAATTAATA
TAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATT
Found at i:88248612 original size:25 final size:25
Alignment explanation
Indices: 88248575--88248628 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
88248565 TTTTCTCAAA
* * *
88248575 AATTTAATTAATATAAAATATTA-AT
1 AATTCAATAAATAGAAAA-ATTAGAT
88248600 AATTCAATAAATAGAAAAATTAGAT
1 AATTCAATAAATAGAAAAATTAGAT
88248625 AATT
1 AATT
88248629 AAATTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTCAATAAATAGAAAAATTAGAT
Found at i:88249360 original size:29 final size:29
Alignment explanation
Indices: 88249303--88249360 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
88249293 GCTTTTTAAA
* * *
88249303 AATATTTACAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAGAGGCAACCAAATTTT
88249332 AATATTTACAAAA-AGAGCAACCAAATTTT
1 AATATTTACAAAAGAG-GCAACCAAATTTT
88249361 GAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (29 bp):
AATATTTACAAAAGAGGCAACCAAATTTT
Found at i:88257208 original size:12 final size:12
Alignment explanation
Indices: 88257167--88257209 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
88257157 AGTTAATTTC
88257167 TATATTAGTATG
1 TATATTAGTATG
* *
88257179 TCTGTTATGTATG
1 TATATTA-GTATG
88257192 TATATTAGTATG
1 TATATTAGTATG
*
88257204 GATATT
1 TATATT
88257210 TTGTATGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (12 bp):
TATATTAGTATG
Found at i:88257214 original size:25 final size:25
Alignment explanation
Indices: 88257167--88257217 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
88257157 AGTTAATTTC
** *
88257167 TATATTAGTATGTCTGTTATGTATG
1 TATATTAGTATGGATATTATGTATG
*
88257192 TATATTAGTATGGATATTTTGTATG
1 TATATTAGTATGGATATTATGTATG
88257217 T
1 T
88257218 TATGTATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (25 bp):
TATATTAGTATGGATATTATGTATG
Found at i:88258717 original size:39 final size:39
Alignment explanation
Indices: 88258673--88258812 Score: 212
Period size: 39 Copynumber: 3.6 Consensus size: 39
88258663 CATATTCACT
* *
88258673 TTTAAGCATATGTCACATTA-TACATATAATCACATAACA
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACA
*
88258712 TTTAAGCATATATCACAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
88258751 TTCAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
88258790 -TTAAGCATATATCATAATACTCA
1 TTTAAGCATATATCACAATACTCA
88258813 AAAACATGTT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 21 0.23
39 71 0.76
40 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:88258726 original size:22 final size:22
Alignment explanation
Indices: 88258695--88258767 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
88258685 TCACATTATA
88258695 CATATAATCACATAACATTTAAG
1 CATAT-ATCACATAACATTTAAG
*
88258718 CATATATCACA-ATAC---T-CG
1 CATATATCACATA-ACATTTAAG
* *
88258736 TATA-ATCACATAACATTCAAG
1 CATATATCACATAACATTTAAG
88258757 CATATATCACA
1 CATATATCACA
88258768 ATACTCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
17 8 0.21
18 5 0.13
19 1 0.03
21 5 0.13
22 14 0.37
23 5 0.13
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (22 bp):
CATATATCACATAACATTTAAG
Found at i:88261672 original size:33 final size:32
Alignment explanation
Indices: 88261629--88261695 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
88261619 GACCAACCCT
88261629 TACTAAGGTTCCCAAGTTTAGGAGATTTCGTG
1 TACTAAGGTTCCCAAGTTTAGGAGATTTCGTG
*
88261661 TNACTAAGGTTCCCAAGTTTTGGAGATTTCGTG
1 T-ACTAAGGTTCCCAAGTTTAGGAGATTTCGTG
88261694 TA
1 TA
88261696 GGGTTTAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (32 bp):
TACTAAGGTTCCCAAGTTTAGGAGATTTCGTG
Found at i:88276252 original size:29 final size:29
Alignment explanation
Indices: 88276184--88276316 Score: 137
Period size: 29 Copynumber: 4.7 Consensus size: 29
88276174 AATTTACATC
* *
88276184 AAAGGATGCCTTTGTGGCTATCTCTG---
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
*
88276210 AAAGGAATCCTTTGTGGCGATCTCTGTTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
**
88276239 AAAGGAAGCCTTTGTGGTAATCTCTGTTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
* * * * *
88276268 AAAAGAAGACTTTATGGCGATTTCTGCTA
1 AAAGGAAGCCTTTGTGGCGATCTCTGTTA
* *
88276297 AATGGATGCCTTTGTGGCGA
1 AAAGGAAGCCTTTGTGGCGA
88276317 GACTCTGAAA
Statistics
Matches: 86, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 23 0.27
29 63 0.73
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (29 bp):
AAAGGAAGCCTTTGTGGCGATCTCTGTTA
Found at i:88279492 original size:40 final size:40
Alignment explanation
Indices: 88279448--88279524 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
88279438 CTACCTCTAA
88279448 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
1 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
88279488 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAA
1 TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAA
88279525 GGGTATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.23
Consensus pattern (40 bp):
TGTAATGACTAAGGATAAAAGATGGATTAAGGCCTAAAGG
Found at i:88284513 original size:68 final size:67
Alignment explanation
Indices: 88284399--88284738 Score: 376
Period size: 68 Copynumber: 5.0 Consensus size: 67
88284389 TTAAAATCGA
* * * * *
88284399 GAGTCTGCCAGGACATCAAACATGAGGTTAAATTGTGTAAGGCCATAACTCGGCTATGGCAACAT
1 GAGTCTGCCAGGACATTAAACATG-GGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACAT
88284464 ATG
65 ATG
* * * *
88284467 GAGTCTGCCAAGACATTAAATATAGGGTTATATTGTGTAAGACCATAGCTCGACTATGGAAACAT
1 GAGTCTGCCAGGACATTAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACAT
88284532 ATG
65 ATG
* * *
88284535 GAGTCCGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAAATATGGCAACAT
1 GAGTCTGCCAGGACATTAAACATG-GGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACAT
88284600 ATG
65 ATG
** * * * * * ** *
88284603 GAGTCCACTAAGACATTAAACATGGGGTTACATTATGTAATACCAAAGCTCGACTATTACAACGT
1 GAGTCTGCCAGGACATTAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACAT
88284668 ATG
65 ATG
* * * * *
88284671 GAGTCTTCTAGGACATTAAACACGGGGTTACGTTGTGTAAGACCATAGCTC-AGCTATGGTAACA
1 GAGTCTGCCAGGACATTAAACA-TGGGTTACATTGTGTAAGACCATAGCTCGA-CTATGGCAACA
88284735 TATG
64 TATG
88284739 AAGTTTGCGA
Statistics
Matches: 229, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
67 2 0.01
68 225 0.98
69 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (67 bp):
GAGTCTGCCAGGACATTAAACATGGGTTACATTGTGTAAGACCATAGCTCGACTATGGCAACATA
TG
Found at i:88284653 original size:136 final size:136
Alignment explanation
Indices: 88284399--88284738 Score: 439
Period size: 136 Copynumber: 2.5 Consensus size: 136
88284389 TTAAAATCGA
* * * * *
88284399 GAGTCTGCCAGGACATCAAACATGAGGTTAAATTGTGTAAGGCCATAACTCGGCTATGGCAACAT
1 GAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACAT
** * * * *
88284464 ATGGAGTCTGCCAAGACATTAAATATAGGGTTATATTGTGTAAGACCATAGCTCGACTATGGA-A
66 ATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTAT-GACA
88284528 ACATATG
130 ACATATG
* **
88284535 GAGTCCGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAAATATGGCAACAT
1 GAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACAT
* * * *
88284600 ATGGAGTCCACTAAGACATTAAACATGGGGTTACATTATGTAATACCAAAGCTCGACTATTACAA
66 ATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTATGACAA
*
88284665 CGTATG
131 CATATG
* * * * * *
88284671 GAGTCTTCTAGGACATTAAACACGGGGTTACGTTGTGTAAGACCATAGCTCAGCTATGGTAACAT
1 GAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACAT
88284736 ATG
66 ATG
88284739 AAGTTTGCGA
Statistics
Matches: 175, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
135 1 0.01
136 174 0.99
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (136 bp):
GAGTCTGCCAGGACATTAAACATGAGGTTACATTGTGTAAGACCATAGCTCAGCTATGGCAACAT
ATGGAGTCCACCAAGACATTAAACATAGGGTTACATTATGTAAGACCAAAGCTCGACTATGACAA
CATATG
Found at i:88288335 original size:40 final size:40
Alignment explanation
Indices: 88288305--88288474 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
88288295 GGACTAAGAT
* *
88288305 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
88288345 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
88288385 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
88288425 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
88288464 CCGAAGGCATT
1 CCGAAGGCATT
88288475 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:88288389 original size:80 final size:79
Alignment explanation
Indices: 88288252--88288476 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
88288242 TTGAATGCTG
* * * * * * *
88288252 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
88288316 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
88288332 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
88288397 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * *
88288412 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
88288477 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 36 0.29
80 83 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:88288494 original size:79 final size:80
Alignment explanation
Indices: 88288327--88288509 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
88288317 GTGCGAGATA
* * *
88288327 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
88288392 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
88288407 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
88288471 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
88288486 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
88288510 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:88289714 original size:79 final size:79
Alignment explanation
Indices: 88289583--88289737 Score: 301
Period size: 79 Copynumber: 2.0 Consensus size: 79
88289573 CGTAATGAGC
*
88289583 AAAGGTCAGTGTAGTTGACCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCC
1 AAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCC
88289648 CGACCAAAAATGGA
66 CGACCAAAAATGGA
88289662 AAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCC
1 AAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCC
88289727 CGACCAAAAAT
66 CGACCAAAAAT
88289738 TCTAGAAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (79 bp):
AAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACTAATAAACTGTACTAATTGGCC
CGACCAAAAATGGA
Found at i:88291076 original size:30 final size:30
Alignment explanation
Indices: 88291041--88291152 Score: 145
Period size: 30 Copynumber: 3.7 Consensus size: 30
88291031 CAGAAAAAAA
* * *
88291041 TAGATAGCCGCAAAGGTGTCC-TCGCATCAT
1 TAGATAGCCACAAAGGCGTCCAT-ACATCAT
* *
88291071 AAGATAGCCACAAAGGCATCCATACATCAT
1 TAGATAGCCACAAAGGCGTCCATACATCAT
* *
88291101 TAGATAGCCAGAAAGGTGTCCATACATCAT
1 TAGATAGCCACAAAGGCGTCCATACATCAT
88291131 TAGATAGCCACAAAGGCGTCCA
1 TAGATAGCCACAAAGGCGTCCA
88291153 AACAAGAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
30 69 0.99
31 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (30 bp):
TAGATAGCCACAAAGGCGTCCATACATCAT
Found at i:88291085 original size:60 final size:60
Alignment explanation
Indices: 88291012--88291152 Score: 169
Period size: 60 Copynumber: 2.4 Consensus size: 60
88291002 CTGGAGCACT
* *
88291012 AGATAGCCACAAAGGTGTCCAGAAAAAAATAGATAGCC-GCAAAGGTGTCC-TCGCATCATA
1 AGATAGCCACAAAGGCGTCCAGAAAAAAATAGATAGCCAG-AAAGGTGTCCAT-ACATCATA
* * * ** * *
88291072 AGATAGCCACAAAGGCATCCATACATCATTAGATAGCCAGAAAGGTGTCCATACATCATT
1 AGATAGCCACAAAGGCGTCCAGAAAAAAATAGATAGCCAGAAAGGTGTCCATACATCATA
88291132 AGATAGCCACAAAGGCGTCCA
1 AGATAGCCACAAAGGCGTCCA
88291153 AACAAGAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
60 67 0.97
61 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (60 bp):
AGATAGCCACAAAGGCGTCCAGAAAAAAATAGATAGCCAGAAAGGTGTCCATACATCATA
Found at i:88293210 original size:29 final size:30
Alignment explanation
Indices: 88293141--88293220 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
88293131 CATAATTTGA
*
88293141 TCGTCGCCATCCCTTTTCATAGTTCAATGG
1 TCGTCACCATCCCTTTTCATAGTTCAATGG
* * *
88293171 TCGTCAACATCCCTTTTCATTGTT-GATGG
1 TCGTCACCATCCCTTTTCATAGTTCAATGG
*
88293200 TCGTCACCATCCATTTTCATA
1 TCGTCACCATCCCTTTTCATA
88293221 ATCAATAGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 22 0.51
30 21 0.49
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.39
Consensus pattern (30 bp):
TCGTCACCATCCCTTTTCATAGTTCAATGG
Found at i:88293240 original size:29 final size:28
Alignment explanation
Indices: 88293208--88293277 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
88293198 GGTCGTCACC
88293208 ATCCATTTTCATAATCAATAGCCGAAGCT
1 ATCC-TTTTCATAATCAATAGCCGAAGCT
* * * *
88293237 ATCCCTTTCTGTATTCGATAGCCGAAGCT
1 ATCCTTTTC-ATAATCAATAGCCGAAGCT
88293266 ATCCCTTTTCAT
1 AT-CCTTTTCAT
88293278 TTGTTGATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 4 0.12
29 23 0.70
30 6 0.18
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (28 bp):
ATCCTTTTCATAATCAATAGCCGAAGCT
Found at i:88293398 original size:41 final size:41
Alignment explanation
Indices: 88293341--88293424 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 41
88293331 TATTATACAA
88293341 TAGTAGCATTCAAATCATGAAATAAAAA-AGAAACTTAAATG
1 TAGTAGCATTCAAATCATGAAATAAAAACA-AAACTTAAATG
88293382 TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
1 TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
88293423 TA
1 TA
88293425 CAAACTTACT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (41 bp):
TAGTAGCATTCAAATCATGAAATAAAAACAAAACTTAAATG
Found at i:88300147 original size:22 final size:22
Alignment explanation
Indices: 88300119--88300162 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
88300109 TGAAAGAGTA
88300119 GGCTTTGAAGAGGGCAAGTCCT
1 GGCTTTGAAGAGGGCAAGTCCT
88300141 GGCTTTGAAGAGGGCAAGTCCT
1 GGCTTTGAAGAGGGCAAGTCCT
88300163 TTGTATTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (22 bp):
GGCTTTGAAGAGGGCAAGTCCT
Found at i:88302075 original size:12 final size:13
Alignment explanation
Indices: 88302058--88302086 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88302048 CTCATACATG
88302058 AATAAATAAA-GC
1 AATAAATAAATGC
88302070 AATAAATAAATGC
1 AATAAATAAATGC
88302083 AATA
1 AATA
88302087 GTCATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:88310830 original size:80 final size:79
Alignment explanation
Indices: 88310746--88310917 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
88310736 GGACTAAGAT
*
88310746 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
88310810 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
** * * * * * *
88310826 CCGAAGGCATCCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
88310891 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
88310905 CCGAAGGCATTTG
1 CCGAAGGCATTTG
88310918 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:88310897 original size:39 final size:39
Alignment explanation
Indices: 88310693--88310915 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
88310683 TTGAATGCTG
* * * * *
88310693 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
88310733 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
88310772 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * *
88310813 TCCGGGTTAAGTCCCGAAGGCATCCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCAT-TGTGCGAGATACTAAA
* * *
88310853 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
88310892 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
88310916 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:88313437 original size:20 final size:18
Alignment explanation
Indices: 88313395--88313431 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
88313385 AAATAATAAT
*
88313395 TATTAATATACAATTATA
1 TATTAATATATAATTATA
88313413 TATTAATATATAATTATA
1 TATTAATATATAATTATA
88313431 T
1 T
88313432 CCATTATATT
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATATATAATTATA
Found at i:88319670 original size:79 final size:81
Alignment explanation
Indices: 88319534--88319718 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
88319524 TTGAATGATG
* *
88319534 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
88319598 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88319613 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88319675 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
88319693 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88319719 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:88319732 original size:40 final size:40
Alignment explanation
Indices: 88319535--88319718 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
88319525 TGAATGATGT
* * * *
88319535 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88319575 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
88319615 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
88319653 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88319694 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88319719 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:88319740 original size:79 final size:79
Alignment explanation
Indices: 88319587--88319751 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
88319577 GGACTAAGAT
* * **
88319587 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
88319652 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
88319666 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
88319729 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
88319745 CCGAAGG
1 CCGAAGG
88319752 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:88327073 original size:27 final size:27
Alignment explanation
Indices: 88327043--88327220 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
88327033 ATATTGAGCC
* *
88327043 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
88327070 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88327097 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
88327125 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
88327152 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
88327179 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88327206 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
88327221 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:88327182 original size:82 final size:81
Alignment explanation
Indices: 88327064--88327219 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
88327054 TGCTATATAA
* * *
88327064 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
88327129 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
88327146 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88327210 CCCTTAGTGC
65 CCCTTAGTGC
88327220 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:88338636 original size:18 final size:18
Alignment explanation
Indices: 88338613--88338650 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
88338603 TTTATTTTAC
88338613 TTAGTTAAAATCCTAGTT
1 TTAGTTAAAATCCTAGTT
88338631 TTAGTTAAAATCCTAGTT
1 TTAGTTAAAATCCTAGTT
88338649 TT
1 TT
88338651 TAATCACCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTAGTTAAAATCCTAGTT
Found at i:88340175 original size:39 final size:39
Alignment explanation
Indices: 88340132--88340210 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
88340122 CCATAGAATA
88340132 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
1 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
*
88340171 AGTAAATTTCTCACATACAAACATATCATTTACTTTATC
1 AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
88340210 A
1 A
88340211 ATCTCTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (39 bp):
AGTAAATTTCTCACATACAAACATATCATTTAATTTATC
Found at i:88340241 original size:17 final size:17
Alignment explanation
Indices: 88340219--88340251 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88340209 CAATCTCTTT
88340219 TTACATATAATATCATG
1 TTACATATAATATCATG
*
88340236 TTACATATGATATCAT
1 TTACATATAATATCAT
88340252 CCATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
TTACATATAATATCATG
Found at i:88349197 original size:68 final size:69
Alignment explanation
Indices: 88349087--88349268 Score: 323
Period size: 68 Copynumber: 2.7 Consensus size: 69
88349077 TGATAATACA
*
88349087 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGTTTAT
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGGTTAT
88349152 GCCT
66 GCCT
*
88349156 TAAGTA-TTGTTAACTGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGGTTAT
1 TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGGTTAT
88349220 GCCT
66 GCCT
88349224 TAAGTATTTGTTAACCGATGATAAC-TTCCGTTTATTTTATGGTGA
1 TAAGTATTTGTTAACCGATGATAACTTTCC-TTTATTTTATGGTGA
88349269 TAAATTATTA
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
68 70 0.65
69 38 0.35
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (69 bp):
TAAGTATTTGTTAACCGATGATAACTTTCCTTTATTTTATGGTGAAAAGATTGGCTTTTGGTTAT
GCCT
Found at i:88351216 original size:99 final size:100
Alignment explanation
Indices: 88351021--88351361 Score: 422
Period size: 99 Copynumber: 3.4 Consensus size: 100
88351011 TATCGATGAA
* * *
88351021 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATCGATAAATGTTGGTGACATGTGTAGTTC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA--TTGGTCACATGTGTAGTAC
*
88351086 TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
64 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* *
88351123 CACGAGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA-TGGTCACTTGTGTAGTACTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTGGTCACATGTGTAGTACTA
88351187 AGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 AGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * * *
88351222 CACCTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGAT-AAA-TTGGTCACATGTGTAGTAC
* ** * * *
88351286 TATA-TGAAGGCTACTACCTGAACCGTA-AAAC-TTGAT
64 TA-AGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
* * *
88351322 CACGTGTGTAGTACTATGTGAAGGGTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
88351362 ATGATAAAAG
Statistics
Matches: 211, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
98 1 0.00
99 90 0.43
100 38 0.18
101 38 0.18
102 44 0.21
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTGGTCACATGTGTAGTACTA
AGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:88351294 original size:50 final size:50
Alignment explanation
Indices: 88351021--88351361 Score: 321
Period size: 51 Copynumber: 6.8 Consensus size: 50
88351011 TATCGATGAA
* * * *
88351021 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGAATCGATAAATGTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAGAAA-CTTGGT
* * * * * * * *
88351072 GACATGTGTAGTTCTAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAGAAAC-TTGGT
* * *
88351123 CACGAGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA--TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAGAAACTTGGT
* * * * * * *
88351171 CACTTGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAGAAAC-TTGGT
* * * *
88351222 CACCTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGTA-AAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-AGAAACTTGGT
* * * *
88351272 CACGTGTGTAGTACTATATGAAGGCTACTACCTGAACCGTA-AAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-AGAAACTTGGT
* *
88351322 CACGTGTGTAGTACTATGTGAAGGGTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
88351362 ATGATAAAAG
Statistics
Matches: 233, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
48 38 0.16
49 1 0.00
50 82 0.35
51 111 0.48
52 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAGAAACTTGGT
Found at i:88352927 original size:23 final size:24
Alignment explanation
Indices: 88352884--88352937 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
88352874 GAAATTGATT
*
88352884 TGAATTG-TGAACATAAGAAATTA
1 TGAATTGATGAACATAAGAAATGA
88352907 TGAATTGAATGAA-ATAA-AAATGA
1 TGAATTG-ATGAACATAAGAAATGA
*
88352930 AGAATTGA
1 TGAATTGA
88352938 GTTACATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 1 0.04
23 18 0.67
24 4 0.15
25 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28
Consensus pattern (24 bp):
TGAATTGATGAACATAAGAAATGA
Found at i:88357031 original size:51 final size:51
Alignment explanation
Indices: 88356976--88357313 Score: 308
Period size: 51 Copynumber: 6.6 Consensus size: 51
88356966 AATGAACACG
88356976 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACA
* * * * * * * *
88357027 TGTGTAGTTCTAAT-TGAAGGCTACAATGTGTATCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACT-GTGTGAAGGCTACTATGTGAATCGATAA-ATGATGGTCACA
* *
88357078 TGTGTAGCACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACA
** * * * * * * * *
88357129 TGTGTAGTACTAAGGGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACT
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAA-ATGATGGTCACA
* *
88357180 TGTGTAGTACTGTGTGAAGGTTACTATGTGAATCGATAAATGATGGTTACA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACA
* *** * * * *
88357231 TTTGTAGTACTAAATGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACG
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATG--ATGGTCACA
* *
88357282 TGTGTAGTATTGTGTGAAGGCTACTACGTGAA
1 TGTGTAGTACTGTGTGAAGGCTACTATGTGAA
88357314 CCGTAAAACT
Statistics
Matches: 220, Mismatches: 59, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
49 1 0.00
50 6 0.03
51 210 0.95
52 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACA
Found at i:88357148 original size:102 final size:101
Alignment explanation
Indices: 88356972--88357417 Score: 574
Period size: 102 Copynumber: 4.4 Consensus size: 101
88356962 TATCAATGAA
* *
88356972 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTTC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
88357037 TAATTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
66 TAA-TGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
88357074 CACGTGTGTAGCACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
88357139 TAAGGGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAA-TGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * * * *
88357176 CACTTGTGTAGTACTGTGTGAAGGTTACTATGTGAATCGATAAATGATGGTTACATTTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
88357241 TAAATGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 T-AATGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * *** ** *
88357278 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAACCG-TAAAACTTTATCACCTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * * *
88357342 TACATGAAGGCTACTACGTGAACCGTA-AAACTTT-AT
66 TA-ATGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
* * *
88357378 CACGTGTGTAGTACTATGTGAAGGCTACAACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
88357418 ATGATAAAAG
Statistics
Matches: 303, Mismatches: 37, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
100 36 0.12
101 44 0.15
102 221 0.73
103 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAATGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:88357350 original size:50 final size:50
Alignment explanation
Indices: 88357233--88357411 Score: 234
Period size: 50 Copynumber: 3.6 Consensus size: 50
88357223 TGGTTACATT
* * * *
88357233 TGTAGTACTAAATGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACGTG
1 TGTAGTACTATATGAAGGCTACTACGTGAACCGTAAAA-CTTT-ATCACGTG
* * * *
88357284 TGTAGTATTGTGTGAAGGCTACTACGTGAACCGTAAAACTTTATCACCTG
1 TGTAGTACTATATGAAGGCTACTACGTGAACCGTAAAACTTTATCACGTG
*
88357334 TGTAGTACTACATGAAGGCTACTACGTGAACCGTAAAACTTTATCACGTG
1 TGTAGTACTATATGAAGGCTACTACGTGAACCGTAAAACTTTATCACGTG
* *
88357384 TGTAGTACTATGTGAAGGCTACAACGTG
1 TGTAGTACTATATGAAGGCTACTACGTG
88357412 TATCGAATGA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
50 76 0.68
51 31 0.28
52 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TGTAGTACTATATGAAGGCTACTACGTGAACCGTAAAACTTTATCACGTG
Found at i:88357678 original size:37 final size:39
Alignment explanation
Indices: 88357612--88357684 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 39
88357602 TGTGGATTTG
* **
88357612 AATTGAATATTGACTTGAAAATGGCAAAGT-AAATTTTT
1 AATTGAATAGTGACTTGAAAATGAAAAAGTGAAATTTTT
*
88357650 AATTGAATAGTGA-TTGAAAGTGAAAAAGTGAAATT
1 AATTGAATAGTGACTTGAAAATGAAAAAGTGAAATT
88357685 ATGAAAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 13 0.43
38 17 0.57
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (39 bp):
AATTGAATAGTGACTTGAAAATGAAAAAGTGAAATTTTT
Found at i:88367917 original size:20 final size:20
Alignment explanation
Indices: 88367882--88367930 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
88367872 ATCATGGTCT
*
88367882 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
88367901 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
88367921 TTGCTTACTT
1 TTGCTTACTT
88367931 AAAAAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:88368239 original size:50 final size:50
Alignment explanation
Indices: 88368159--88368291 Score: 158
Period size: 50 Copynumber: 2.7 Consensus size: 50
88368149 CAATGCCATA
** * *
88368159 TCCCAGATATGGTCTTACAAGGGAGTTCTCATATCGATGCCCATGCAATG
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCAATG
** * *
88368209 TCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATG
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCAATG
* * * *
88368259 TCCCAAACATGATCTTACATGGGACCTCTCATA
1 TCCCAGATATGGTCTTACAAGGGACCTCTCATA
88368292 ACCTCAATAA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
TCCCAGATATGGTCTTACAAGGGACCTCTCATATCGATGCCAACGCAATG
Found at i:88371613 original size:17 final size:17
Alignment explanation
Indices: 88371593--88371631 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
88371583 GAAATTTTTT
88371593 AAAAA-AGTGAATTGAAA
1 AAAAATAGTGAATT-AAA
*
88371610 AAAAATCGTGAATTAAA
1 AAAAATAGTGAATTAAA
88371627 AAAAA
1 AAAAA
88371632 GGTGTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.67, C:0.03, G:0.13, T:0.18
Consensus pattern (17 bp):
AAAAATAGTGAATTAAA
Found at i:88377060 original size:20 final size:20
Alignment explanation
Indices: 88377026--88377069 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
88377016 GTCTTAACCG
88377026 AATTAATTTGTTCTTAG-TTT
1 AATTAATTTGTTCTT-GTTTT
88377046 AATTAA-TTGTGTCTTGTTTT
1 AATTAATTTGT-TCTTGTTTT
88377066 AATT
1 AATT
88377070 TAAGATGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (20 bp):
AATTAATTTGTTCTTGTTTT
Found at i:88384292 original size:50 final size:50
Alignment explanation
Indices: 88384220--88384344 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
88384210 TATCCCAAAT
* ** * *
88384220 ATGGTCTTACATGGGAATTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
*** * * *
88384270 ATGGTCTTATGGGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGAG
1 ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
88384320 ATGGTCTTACACGGGACCTCTCATA
1 ATGGTCTTACACGGGACCTCTCATA
88384345 ACCTTAATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:88384385 original size:56 final size:50
Alignment explanation
Indices: 88384249--88384386 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 50
88384239 CTCATATCGG
* *** **
88384249 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTTAA
* *
88384299 TGCCAACGCCATGTCCCAGAGATGGTCTTACACGGGACCTCTCATAACCTTAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCAT---C-T--TAA
88384355 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
88384387 AAGGGTCTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 39 0.54
53 1 0.01
54 1 0.01
56 31 0.43
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTTAA
Found at i:88394399 original size:48 final size:48
Alignment explanation
Indices: 88394345--88394460 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
88394335 CCACCAAGGT
* *
88394345 CACAGATAAACTACCATATAATTAGAATCGTGAACAGCATCACATTAA
1 CACAGATAAACTACCATATAATCAGAATCATGAACAGCATCACATTAA
** * * **
88394393 TGCAGATAAACTGCCATATAATCAGATTCATGAACAGTGTCACATTAA
1 CACAGATAAACTACCATATAATCAGAATCATGAACAGCATCACATTAA
88394441 CACAGATAAACTACCATATA
1 CACAGATAAACTACCATATA
88394461 CTTCCACCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (48 bp):
CACAGATAAACTACCATATAATCAGAATCATGAACAGCATCACATTAA
Found at i:88398341 original size:53 final size:54
Alignment explanation
Indices: 88398283--88398390 Score: 150
Period size: 53 Copynumber: 2.0 Consensus size: 54
88398273 AATTTTTTTT
*
88398283 AAAAAATATTGGGTGTTGGGACAATGATGGTCGA-CACCCTC-GTACCAG-ATTTAA
1 AAAAAAT-TTGGGTGTTGGGACAATGATGG-CCATCA-CCTCAGTACCAGAATTTAA
*
88398337 AAAAAATTTGGGTGTTGGGACATTGATGGCCATCACCTCAGTACCAGAATTTAA
1 AAAAAATTTGGGTGTTGGGACAATGATGGCCATCACCTCAGTACCAGAATTTAA
88398391 TTAAAAAGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
52 6 0.12
53 30 0.61
54 13 0.27
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (54 bp):
AAAAAATTTGGGTGTTGGGACAATGATGGCCATCACCTCAGTACCAGAATTTAA
Found at i:88398447 original size:21 final size:21
Alignment explanation
Indices: 88398421--88398460 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
88398411 GATAAATTAA
88398421 TTTAAAAGAATA-AATTTAAAT
1 TTTAAAA-AATAGAATTTAAAT
88398442 TTTAAAAAATAGAATTTAA
1 TTTAAAAAATAGAATTTAA
88398461 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TTTAAAAAATAGAATTTAAAT
Found at i:88398452 original size:20 final size:18
Alignment explanation
Indices: 88398412--88398542 Score: 94
Period size: 18 Copynumber: 7.2 Consensus size: 18
88398402 ATATTGAAGG
88398412 ATAAA-TTAATTTAAAAGA
1 ATAAATTTAATTTAAAA-A
88398430 ATAAATTTAAATTTTAAAAA
1 ATAAATTT-AA-TTTAAAAA
88398450 ATAGAATTTAA-TTAAAAA
1 ATA-AATTTAATTTAAAAA
* *
88398468 ATAAA--TAA-TTAATAG
1 ATAAATTTAATTTAAAAA
* *
88398483 ATAAATAT-ATTTAAAGGA
1 ATAAATTTAATTTAAA-AA
*
88398501 ATAAATTTAAATTTTAAAA
1 ATAAATTT-AATTTAAAAA
* *
88398520 ATAGAATTTAACTAAAAAA
1 ATA-AATTTAATTTAAAAA
88398539 ATAA
1 ATAA
88398543 TTAAAGGATA
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
15 13 0.14
16 1 0.01
17 7 0.08
18 23 0.25
19 16 0.18
20 19 0.21
21 12 0.13
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAAATTTAATTTAAAAA
Found at i:88398520 original size:70 final size:69
Alignment explanation
Indices: 88398382--88398580 Score: 264
Period size: 67 Copynumber: 2.9 Consensus size: 69
88398372 CCTCAGTACC
* * *
88398382 AGAATTTAATTAAAAAGTAAAT-ATTGAAGGATAAATTAATTTAAAAGAATAAATTTAAATTTTA
1 AGAATTTAATTAAAAAATAAATAATT-AAAGATAAATT-ATTTAAAGGAATAAATTTAAATTTTA
88398446 AAAAAT
64 AAAAAT
88398452 AGAATTTAATTAAAAAATAAATAATTAATAGATAAATATATTTAAAGGAATAAATTTAAATTTT-
1 AGAATTTAATTAAAAAATAAATAATTAA-AGATAAAT-TATTTAAAGGAATAAATTTAAATTTTA
88398516 AAAAAT
64 AAAAAT
* *
88398522 AGAATTTAACT--AAAA-AAATAATTAAAGGATAAATCTATTTAAAGGAATAAATTCAAATT
1 AGAATTTAATTAAAAAATAAATAATTAAA-GATAAAT-TATTTAAAGGAATAAATTTAAATT
88398581 GTGACATCCC
Statistics
Matches: 119, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
66 1 0.01
67 40 0.34
68 4 0.03
70 39 0.33
71 34 0.29
72 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (69 bp):
AGAATTTAATTAAAAAATAAATAATTAAAGATAAATTATTTAAAGGAATAAATTTAAATTTTAAA
AAAT
Found at i:88400935 original size:48 final size:47
Alignment explanation
Indices: 88400873--88400968 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 47
88400863 AATTCTAAAT
88400873 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
88400920 TGTGAATAGGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
88400968 T
1 T
88400969 AGGAAAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 4 0.09
48 42 0.91
ACGTcount: A:0.30, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:88402805 original size:20 final size:20
Alignment explanation
Indices: 88402780--88402822 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
88402770 AGGGTAAATT
*
88402780 AATTTAAAGGAATA-AATTTA
1 AATTTAAA-AAATAGAATTTA
88402800 AATTTAAAAAATAGAATTTA
1 AATTTAAAAAATAGAATTTA
88402820 AAT
1 AAT
88402823 AAAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (20 bp):
AATTTAAAAAATAGAATTTA
Found at i:88402828 original size:20 final size:19
Alignment explanation
Indices: 88402790--88402828 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
88402780 AATTTAAAGG
**
88402790 AATAAATTTAAATTTAAAA
1 AATAAATTTAAATAAAAAA
88402809 AATAGAATTTAAATAAAAAA
1 AATA-AATTTAAATAAAAAA
88402829 GAAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAAATTTAAATAAAAAA
Found at i:88402884 original size:16 final size:16
Alignment explanation
Indices: 88402865--88402897 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
88402855 AAATAAATAG
88402865 AAATTAAAAAAAGAAA
1 AAATTAAAAAAAGAAA
*
88402881 AAATTAGAAAAAGAAA
1 AAATTAAAAAAAGAAA
88402897 A
1 A
88402898 GAGGATGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAATTAAAAAAAGAAA
Found at i:88402885 original size:36 final size:36
Alignment explanation
Indices: 88402805--88402886 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
88402795 ATTTAAATTT
* **
88402805 AAAAAATAGAATTTAAATAAAAAAGAAATAATTAAAG
1 AAAAAAT-TAATTTAAATAAAAAAGAAATAAAAAAAG
* * *
88402842 GATAAATTAATTTAAAT-AAATAGAAATTAAAAAAAG
1 AAAAAATTAATTTAAATAAAAAAGAAA-TAAAAAAAG
88402878 AAAAAATTA
1 AAAAAATTA
88402887 GAAAAAGAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
35 8 0.22
36 23 0.64
37 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (36 bp):
AAAAAATTAATTTAAATAAAAAAGAAATAAAAAAAG
Found at i:88403514 original size:25 final size:26
Alignment explanation
Indices: 88403471--88403521 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
88403461 ATACAAACTT
88403471 AAACCACAAGAATGAAGGAAAATACA
1 AAACCACAAGAATGAAGGAAAATACA
88403497 AAACCACAA-AATGAAGGAAAATACA
1 AAACCACAAGAATGAAGGAAAATACA
88403522 TGAAAGCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.63, C:0.16, G:0.14, T:0.08
Consensus pattern (26 bp):
AAACCACAAGAATGAAGGAAAATACA
Found at i:88409409 original size:24 final size:24
Alignment explanation
Indices: 88409380--88409440 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
88409370 TAGTCCTTTT
* * *
88409380 TTATTATTCTTGTTATC-TTATTGA
1 TTATTATTATTATCATCATTATT-A
88409404 TTATTATTATTATCATCATTATTA
1 TTATTATTATTATCATCATTATTA
88409428 TTATTATTATTAT
1 TTATTATTATTAT
88409441 TATTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (24 bp):
TTATTATTATTATCATCATTATTA
Found at i:88409411 original size:3 final size:3
Alignment explanation
Indices: 88409397--88409446 Score: 73
Period size: 3 Copynumber: 16.3 Consensus size: 3
88409387 TCTTGTTATC
* *
88409397 TTA TTGA TTA TTA TTA TTA TCA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88409443 TTA T
1 TTA T
88409447 ATTTCTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88410089 original size:72 final size:71
Alignment explanation
Indices: 88409972--88410114 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 71
88409962 TCTTTTCAAA
* *
88409972 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
88410037 ATTTTTT
66 -TTTTTT
88410044 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
88410109 TTTTTT
66 TTTTTT
88410115 AAATCCGAGA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 6 0.09
72 63 0.91
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGCGTCCTAACTTACTGGGCATGATCCC
TTTTTT
Found at i:88414192 original size:2 final size:2
Alignment explanation
Indices: 88414185--88414220 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88414175 AGGTAGAAGG
88414185 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
88414221 ATATTTGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:88421506 original size:47 final size:47
Alignment explanation
Indices: 88421428--88421612 Score: 262
Period size: 47 Copynumber: 3.9 Consensus size: 47
88421418 CCCTTCGGGA
* * * * * *
88421428 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
88421475 CCTGTCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
88421522 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
88421569 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTA
88421613 ATTCATCACA
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:88421507 original size:25 final size:25
Alignment explanation
Indices: 88421479--88421556 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
88421469 CTCGGCCCTG
88421479 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
*** *** *
88421504 TCACAT-TGGCCA-TTAGGCCTT-A
1 TCACATATATACACTTTCACATTCA
88421526 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
88421551 TCACAT
1 TCACAT
88421557 CGGCGATTAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:88421618 original size:20 final size:20
Alignment explanation
Indices: 88421593--88421632 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88421583 ACACTTTCAC
*
88421593 ATTCATCACATCGGCTATTA
1 ATTCATCACATCGGCCATTA
88421613 ATTCATCACATCGGCCATTA
1 ATTCATCACATCGGCCATTA
88421633 GGCCTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (20 bp):
ATTCATCACATCGGCCATTA
Found at i:88421625 original size:67 final size:67
Alignment explanation
Indices: 88421542--88422297 Score: 1322
Period size: 67 Copynumber: 11.2 Consensus size: 67
88421532 ATATACACTT
*
88421542 TCACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
*
88421607 CTA
66 C-C
*
88421610 TTA-ATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88421674 CC
66 CC
88421676 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88421741 CC
66 CC
88421743 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88421808 CC
66 CC
88421810 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88421875 CC
66 CC
* *
88421877 TCACATTCATCACATCGGCCACGGCTATTAGGCGTTATCACACATATACACTTTCACATTCATCA
1 TCACATTCATCACATCGG---C--C-ATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
88421942 CATCGGCTA
60 CATCGGC-C
* *
88421951 TTAGGCCTT-AT--CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
1 TCA--CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
88422013 GGCC
64 GGCC
88422017 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88422082 CC
66 CC
88422084 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88422149 CC
66 CC
88422151 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88422216 CC
66 CC
88422218 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
88422283 CC
66 CC
88422285 TCACATTCATCAC
1 TCACATTCATCAC
88422298 TTGGCTGAAT
Statistics
Matches: 661, Mismatches: 14, Indels: 27
0.94 0.02 0.04
Matches are distributed among these distances:
64 3 0.00
65 2 0.00
66 4 0.01
67 589 0.89
68 3 0.00
70 2 0.00
72 1 0.00
73 50 0.08
74 2 0.00
75 2 0.00
76 3 0.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (67 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CC
Found at i:88421681 original size:20 final size:21
Alignment explanation
Indices: 88421655--88421896 Score: 117
Period size: 20 Copynumber: 11.0 Consensus size: 21
88421645 TATATACACT
88421655 TTCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
88421676 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88421696 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88421721 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88421743 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88421763 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88421788 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88421810 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88421830 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88421855 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88421877 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
88421897 ACGGCTATTA
Statistics
Matches: 167, Mismatches: 27, Indels: 55
0.67 0.11 0.22
Matches are distributed among these distances:
20 80 0.48
21 3 0.02
22 21 0.13
23 18 0.11
24 18 0.11
25 24 0.14
26 3 0.02
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.29
Consensus pattern (21 bp):
TTCACATTCATCACATCGGCC
Found at i:88421731 original size:114 final size:109
Alignment explanation
Indices: 88421479--88421742 Score: 290
Period size: 114 Copynumber: 2.3 Consensus size: 109
88421469 CTCGGCCCTG
*
88421479 TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
88421544 ACATTCATCACATCGGCGATTAGGCCTTATCACATATATACACTT
66 ACATTCATCACATCGGCGATCA-GCATTATCACATATATACACTT
88421589 TCACAT-TCATCACATCGGCTATT-A-ATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TCACATAT-AT-ACA----CT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
88421651 CACTTTCACATTCATCACATCGGC-CTCA-CATTCATCACATCGGCCAT-TAGGC-CTT
59 CACTTTCACATTCATCACATCGGCGATCAGCATT-ATCACAT-----ATATA--CACTT
88421706 ATCACATATATACACTTTCACATTCATCACATCGGCC
1 -TCACATATATACACTTTCACATTCATCACATCGGCC
88421743 TCACATTCAT
Statistics
Matches: 131, Mismatches: 4, Indels: 34
0.78 0.02 0.20
Matches are distributed among these distances:
109 1 0.01
110 8 0.06
111 6 0.05
112 9 0.07
113 5 0.04
114 77 0.59
115 3 0.02
116 4 0.03
117 8 0.06
118 9 0.07
119 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (109 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCGATCAGCATTATCACATATATACACTT
Found at i:88421967 original size:20 final size:20
Alignment explanation
Indices: 88421942--88421983 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
88421932 ACATTCATCA
*
88421942 CATCGGCTATTAGGCCTTAT
1 CATCGGCCATTAGGCCTTAT
88421962 CATCGGCCATTAGGCCTTAT
1 CATCGGCCATTAGGCCTTAT
88421982 CA
1 CA
88421984 CATATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
CATCGGCCATTAGGCCTTAT
Found at i:88422022 original size:20 final size:21
Alignment explanation
Indices: 88421996--88422297 Score: 117
Period size: 20 Copynumber: 13.7 Consensus size: 21
88421986 TATATACACT
88421996 TTCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
88422017 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88422037 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88422062 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88422084 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88422104 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88422129 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88422151 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88422171 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88422196 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88422218 -TCACATTCATCACATCGGCC
1 TTCACATTCATCACATCGGCC
* ***
88422238 ATT-AGGCCTT-ATCACATATATACAC
1 -TTCA--CATTCATCAC--ATCGGC-C
88422263 TTTCACATTCATCACATCGGCC
1 -TTCACATTCATCACATCGGCC
88422285 -TCACATTCATCAC
1 TTCACATTCATCAC
88422298 TTGGCTGAAT
Statistics
Matches: 209, Mismatches: 36, Indels: 73
0.66 0.11 0.23
Matches are distributed among these distances:
20 93 0.44
21 4 0.02
22 28 0.13
23 24 0.11
24 24 0.11
25 32 0.15
26 4 0.02
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (21 bp):
TTCACATTCATCACATCGGCC
Found at i:88422185 original size:341 final size:337
Alignment explanation
Indices: 88421542--88422283 Score: 1350
Period size: 341 Copynumber: 2.2 Consensus size: 337
88421532 ATATACACTT
88421542 TCACATTCATCACATCGGC-G-ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
1 TCACATTCATCACATCGGCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
**
88421605 GGCTATTAATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 GGCTATTAAGGCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
88421670 TCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
131 TCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
88421735 CATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
196 CATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
88421800 CACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
261 CACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
88421865 ATCACATCGGCC
326 ATCACATCGGCC
* *
88421877 TCACATTCATCACATCGGCCACGGCTATTAGGCGTTATCACACATATACACTTTCACATTCATCA
1 TCACATTCATCACATCGG---CGGC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* *
88421942 CATCGGCTATT-AGGCCTTATCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
62 CATCGGCTATTAAGGCATCA-CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
88422006 TCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
126 TCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
88422071 CATCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
191 CATCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
88422136 TTCATCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
256 TTCATCACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
88422201 CATTCATCACATCGGCC
321 CATTCATCACATCGGCC
88422218 TCACATTCATCACATCGGC--CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
1 TCACATTCATCACATCGGCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
88422281 GGC
66 GGC
88422284 CTCACATTCA
Statistics
Matches: 392, Mismatches: 8, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
335 62 0.16
336 1 0.00
338 2 0.01
339 1 0.00
340 4 0.01
341 322 0.82
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (337 bp):
TCACATTCATCACATCGGCGGCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCTATTAAGGCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
ATCACATCGGCC
Found at i:88425903 original size:20 final size:21
Alignment explanation
Indices: 88425862--88425905 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
88425852 AAATCAAGTT
*
88425862 TTATACTTAACATTTCATAAC
1 TTATACTTAAAATTTCATAAC
88425883 TTATA-TTAAAATTTCCA-AAC
1 TTATACTTAAAATTT-CATAAC
88425903 TTA
1 TTA
88425906 CAAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATACTTAAAATTTCATAAC
Found at i:88427866 original size:31 final size:30
Alignment explanation
Indices: 88427830--88427891 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
88427820 ATTTTTAATT
*
88427830 AATTTA-TCATCTTT-TATTATTTCATCTTTCC
1 AATTTATTCAT-TTTCT-TTATTTAAT-TTTCC
88427861 AATTTATTCATTTTCTTTATTTAATTTTCC
1 AATTTATTCATTTTCTTTATTTAATTTTCC
88427891 A
1 A
88427892 TTGATGAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 6 0.21
31 17 0.61
32 5 0.18
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (30 bp):
AATTTATTCATTTTCTTTATTTAATTTTCC
Found at i:88431087 original size:27 final size:27
Alignment explanation
Indices: 88431057--88431116 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
88431047 ATGAATTGGA
88431057 AAGCTCATGAAAAAGCATTTAATCAGG
1 AAGCTCATGAAAAAGCATTTAATCAGG
* * *
88431084 AAGCTCATGAAATAGCCTTTAATCGGG
1 AAGCTCATGAAAAAGCATTTAATCAGG
88431111 AAGCTC
1 AAGCTC
88431117 CAGAGAGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (27 bp):
AAGCTCATGAAAAAGCATTTAATCAGG
Found at i:88431245 original size:25 final size:24
Alignment explanation
Indices: 88431188--88431247 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
88431178 CACAACCAAT
* *
88431188 CGGGAAGCTCAAAAGAGCTATTAA
1 CGGGAAGCTCGAAAGAACTATTAA
* *
88431212 TGGGAAGCTCGCAAGAACTATATAA
1 CGGGAAGCTCGAAAGAACTAT-TAA
88431237 CGGGAAGCTCG
1 CGGGAAGCTCG
88431248 TGAGAGCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.37, C:0.18, G:0.28, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCGAAAGAACTATTAA
Found at i:88431628 original size:5 final size:5
Alignment explanation
Indices: 88431618--88431642 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88431608 ATTAATTTAT
88431618 ATTCA ATTCA ATTCA ATTCA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA
88431643 CATCTTTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:88449068 original size:35 final size:35
Alignment explanation
Indices: 88448952--88449069 Score: 137
Period size: 35 Copynumber: 3.4 Consensus size: 35
88448942 AAGGTATTGT
* * *
88448952 TCCGTAGAGCCAATAGACCATTTCCATGATGCCGT
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * *
88448987 TTCGTAGAGCCAGCAGATCATTTCTATGATGCCGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * **
88449022 TCTGTAAAGCCAGTAGATCATTTCCATGATGTTGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
*
88449057 TCCATAGAGCCAG
1 TCCGTAGAGCCAG
88449070 CAGACTATTT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (35 bp):
TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
Found at i:88480567 original size:12 final size:13
Alignment explanation
Indices: 88480550--88480578 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88480540 TAAACAGAAA
88480550 CATAT-AATAAAT
1 CATATAAATAAAT
88480562 CATATAAATAAAT
1 CATATAAATAAAT
88480575 CATA
1 CATA
88480579 ACTAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
CATATAAATAAAT
Found at i:88486278 original size:47 final size:48
Alignment explanation
Indices: 88486168--88486537 Score: 182
Period size: 47 Copynumber: 7.8 Consensus size: 48
88486158 TCATTTGTGC
* * * **
88486168 GCTAGTATAAGA-CATGTCTGGGACAT-GCATCAGCCA-CATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTAAGATGAGA
* * *
88486214 G-TCATTGTAAGGCCATGTCTGGGACATGGCATTGGCATTAAGATGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGA
* ** * ***
88486262 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATTAGCCTCGTGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATG-AGA
* * *
88486308 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGC--TACGA-GATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGA-GA
* * * *
88486352 G-TCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATG-TGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA---TTAAGATGAGA
* ** * ** ** *
88486402 GCTAATGTAAGACCATGTCTGGGACATGGTGTCGGCCTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGAT-GAGA
* * *
88486451 G-TCAGTGTAAGACCATGTCGGGGACATGGCATTGAC-TT--GATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGAT-GA-GA
* *
88486498 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTA
88486538 TACCCTATGG
Statistics
Matches: 244, Mismatches: 55, Indels: 47
0.71 0.16 0.14
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 12 0.05
45 15 0.06
46 60 0.25
47 62 0.25
48 24 0.10
49 32 0.13
50 30 0.12
51 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGATGAGA
Found at i:88486377 original size:45 final size:49
Alignment explanation
Indices: 88486168--88486429 Score: 189
Period size: 46 Copynumber: 5.6 Consensus size: 49
88486158 TCATTTGTGC
* *
88486168 GCTAGTATAAGA-CATGTCTGGGACATG-CATCAGCCAC--ATTATG-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAG-CACGGA-GATGTAGA
* * * ** ***
88486214 G-TCATTGTAAGGCCATGTCTGGGACATGGCATTGGCATTAAGATG-AGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGACATCAGCACGGAGATGTAGA
* * * *
88486262 GCTAGTGTAAGA-CATGTTTGGGACATG-CATTAGC-CTCGTGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCAC-GGAGATGTAGA
*
88486308 GCTAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCTAC-GAGATGT-G-
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAGC-ACGGAGATGTAGA
* *
88486353 TC-AGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGAGATGT-AGA
*
88486402 GCTAATGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
88486430 GTGTCGGCCT
Statistics
Matches: 173, Mismatches: 24, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 67 0.39
47 32 0.18
48 20 0.12
49 3 0.02
50 24 0.14
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGAGATGTAGA
Found at i:88494917 original size:38 final size:38
Alignment explanation
Indices: 88494866--88494957 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
88494856 ATTTCCTTTT
* *
88494866 GAAAATCCATTTACAACCTAGTGGTTTGCTACCAAGAG
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
* * *
88494904 GAAAATACATTTACAACTTAATGGTTTGCTACTAAGAA
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
88494942 GAAAATCCATTTACAA
1 GAAAATCCATTTACAA
88494958 TGACTTAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (38 bp):
GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
Found at i:88496508 original size:49 final size:48
Alignment explanation
Indices: 88496453--88496580 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 48
88496443 TTGAATTTTA
*
88496453 AAAACTCTTTTAAATAATAATTTCAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTT-AATTCTATTTAATTAT-TATTTATCT
88496502 AAAACTCTTTTAAATAATAATATT-ATT-T-TTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAAT-TTAATTCTATTTAATTATTATTTATCT
*
88496548 AAAACTCTTTTAAATAATAATTAAATTCTATTT
1 AAAACTCTTTTAAATAATAATTTAATTCTATTT
88496581 CCTTATTTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
45 2 0.03
46 39 0.54
47 2 0.03
48 6 0.08
49 21 0.29
50 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTTAATTCTATTTAATTATTATTTATCT
Found at i:88497940 original size:20 final size:23
Alignment explanation
Indices: 88497915--88497959 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
88497905 AGTTCGTATG
88497915 GTTAAAATT-T-AATGTT-ATAT
1 GTTAAAATTATGAATGTTAATAT
*
88497935 GTTAAATTTATGAATGTTAATAT
1 GTTAAAATTATGAATGTTAATAT
88497958 GT
1 GT
88497960 AGTTGTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 6 0.29
23 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
GTTAAAATTATGAATGTTAATAT
Found at i:88498288 original size:101 final size:101
Alignment explanation
Indices: 88498078--88498268 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
88498068 TGATGGATAT
* * * * * *
88498078 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
88498143 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* *
88498179 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
88498244 TAAGACCATAACT-AGGTTACGGCAC
66 AAAGACCATAACTGAGG-TACGGCAC
88498269 TATGGCTGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 3 0.04
101 76 0.96
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:88498297 original size:101 final size:101
Alignment explanation
Indices: 88498078--88498297 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 101
88498068 TGATGGATAT
* * * * * * *
88498078 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
88498143 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* * *
88498179 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
* *
88498244 TAAGACCATAACT-AGGTTACGGCA-CTATG-GCTGTAA
66 AAAGACCATAACTGAGG-TACGGCACCT-TGAAC-GTAA
*
88498280 GACCATGGTAGGGCCATG
1 GACCATGGTAGGACCATG
88498298 GCAATGCATG
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 6 0.06
101 97 0.94
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:88512779 original size:78 final size:79
Alignment explanation
Indices: 88512663--88512811 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 79
88512653 TTCCTCGAAG
* * *
88512663 TTAAAAAAAAAATTAACCTTATTTTTTTTACATCCAATTGGTTACTTAAACTTTCAAAATGTATA
1 TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCA-A
88512728 AAAAAAGTCCTTAAA
65 AAAAAAGTCCTTAAA
* * * *
88512743 TTAAAAAAAATAATTAAGCTT-TTTTTTTCAC-T-CAATTGGGTATTTGAACTTTTAAAATGCAA
1 TTAAAAAAAA-AATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAA
88512805 AAAAAAG
65 AAAAAAG
88512812 CAATTAAGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 8 0.13
78 24 0.39
79 1 0.02
80 19 0.31
81 9 0.15
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (79 bp):
TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAAA
AAAAAGTCCTTAAA
Found at i:88513165 original size:9 final size:9
Alignment explanation
Indices: 88513079--88513177 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 9
88513069 TATGTGACAA
88513079 AAAAATTAT
1 AAAAATTAT
88513088 AAAAA--AT
1 AAAAATTAT
88513095 AAAAATTAGT
1 AAAAATTA-T
*
88513105 AAAAGTTAT
1 AAAAATTAT
* *
88513114 AAGAATCATT
1 AAAAATTA-T
**
88513124 AAATTTTAAT
1 AAAAATT-AT
88513134 AAAAA-TATT
1 AAAAATTA-T
*
88513143 TAAAATTGATT
1 AAAAATT-A-T
88513154 AAAAATTAT
1 AAAAATTAT
*
88513163 AAAAAATTCT
1 -AAAAATTAT
88513173 AAAAA
1 AAAAA
88513178 GATTTATTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 24 0.35
10 26 0.38
11 10 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:88513433 original size:28 final size:28
Alignment explanation
Indices: 88513371--88513451 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
88513361 GTACGATAAT
**
88513371 CTTTATAATTTTTTTTATGAATTTTATATTT
1 CTTTATAA--TTTTTTAT-AATTTTATATGA
88513402 CTTTAT-ATTTTTTATAATTTTATTATGA
1 CTTTATAATTTTTTATAATTTTA-TATGA
**
88513430 CTTTATAAAATTTTATAATTTT
1 CTTTATAATTTTTTATAATTTT
88513452 TTTTTACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.16
28 17 0.39
29 13 0.30
30 1 0.02
31 6 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (28 bp):
CTTTATAATTTTTTATAATTTTATATGA
Found at i:88513502 original size:19 final size:19
Alignment explanation
Indices: 88513431--88513533 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 19
88513421 TTATTATGAC
88513431 TTTATAAAATTTTATAATTTT
1 TTTATAAAATTTTATAA--TT
*
88513452 TTTTTACAAATTTTATAA-T
1 TTTATA-AAATTTTATAATT
88513471 TTTA-AATATATTTTAT-ATT
1 TTTATAA-A-ATTTTATAATT
*
88513490 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTTATAATT
* *
88513510 TTTGT-AATTTTTATTAATT
1 TTTATAAAATTTTA-TAATT
88513529 TTTAT
1 TTTAT
88513534 TTTTATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 32 0.48
20 7 0.10
21 7 0.10
22 11 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:88513521 original size:10 final size:10
Alignment explanation
Indices: 88513487--88513534 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
88513477 TATATTTTAT
88513487 ATTTTTATTA
1 ATTTTTATTA
** *
88513497 AAATTTAATA
1 ATTTTTATTA
*
88513507 ATTTTT-GTA
1 ATTTTTATTA
88513516 ATTTTTATTA
1 ATTTTTATTA
88513526 ATTTTTATT
1 ATTTTTATT
88513535 TTTATCATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:88513532 original size:29 final size:28
Alignment explanation
Indices: 88513462--88513532 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
88513452 TTTTTACAAA
*
88513462 TTTTA-TAATTTTAAATATATTTTATAT
1 TTTTATTAATTTTTAATATATTTTATAT
** *
88513489 TTTTATTAAAATTTAATA-ATTTTTGTAAT
1 TTTTATTAATTTTTAATATA-TTTTAT-AT
88513518 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
88513533 TTTTTATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.17
28 14 0.40
29 15 0.43
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTATTAATTTTTAATATATTTTATAT
Found at i:88513727 original size:26 final size:25
Alignment explanation
Indices: 88513698--88513748 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
88513688 TTGAGTAAAA
**
88513698 AAAAAAGACTTAATTATTTTTTTATG
1 AAAAAAGA-TTAAGAATTTTTTTATG
*
88513724 AAAAAAGATTGAGAATTTTTTTATG
1 AAAAAAGATTAAGAATTTTTTTATG
88513749 CATTTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAAAAGATTAAGAATTTTTTTATG
Done.