Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 130 of 295
Found at i:39777509 original size:17 final size:16
Alignment explanation
Indices: 39777414--39777501 Score: 53
Period size: 16 Copynumber: 5.8 Consensus size: 16
39777404 ATTTTTATTT
*
39777414 ATTAAATAAAATTTAA
1 ATTAAATAAAATTAAA
*
39777430 A-T-AATTAAATT-AA
1 ATTAAATAAAATTAAA
* *
39777443 ATTAAATAATA-TATCA
1 ATTAAATAAAATTA-AA
* *
39777459 ATTACATAAGA-T-AA
1 ATTAAATAAAATTAAA
* *
39777473 TTTAAGTAAAATTAAA
1 ATTAAATAAAATTAAA
39777489 ATTAAATAAAATT
1 ATTAAATAAAATT
39777502 TTAAATTATT
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
13 3 0.06
14 18 0.34
15 7 0.13
16 25 0.47
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTAAATAAAATTAAA
Found at i:39779655 original size:22 final size:23
Alignment explanation
Indices: 39779611--39779656 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
39779601 AGTTTAAAAA
* **
39779611 TTAATTTTTAAAATATTTTATAT
1 TTAATTTTCAAAATATTAAATAT
39779634 TTAATTTTCAAAATA-TAAATAT
1 TTAATTTTCAAAATATTAAATAT
39779656 T
1 T
39779657 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATTTTCAAAATATTAAATAT
Found at i:39780395 original size:27 final size:27
Alignment explanation
Indices: 39780357--39780410 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
39780347 TTTTAAGAAA
39780357 TGTAATCCTTTTTTACGAGAATTTTTT
1 TGTAATCCTTTTTTACGAGAATTTTTT
39780384 TGTAATCCTTTTTTACGAGAATTTTTT
1 TGTAATCCTTTTTTACGAGAATTTTTT
39780411 GATAAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (27 bp):
TGTAATCCTTTTTTACGAGAATTTTTT
Found at i:39780512 original size:22 final size:23
Alignment explanation
Indices: 39780482--39780529 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
39780472 TTGTGAAATG
39780482 TTATAAAATAAAAATAA-TATTT
1 TTATAAAATAAAAATAAGTATTT
*
39780504 TTATTAAATAAAAATAAGGTATTT
1 TTATAAAATAAAAATAA-GTATTT
39780528 TT
1 TT
39780530 CTGCATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TTATAAAATAAAAATAAGTATTT
Found at i:39783135 original size:48 final size:48
Alignment explanation
Indices: 39783079--39783409 Score: 269
Period size: 48 Copynumber: 6.9 Consensus size: 48
39783069 GGTGAATTGT
* *
39783079 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * * * * *
39783127 CGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATCGAGGC
* * * * * * *
39783175 CGGTGCCAT-TTCCTAGACATGGTCTTGCACTGGCTCTCGTGTTGTGGC
1 CGATGCCATGTTCC-AGACATGGTCTTACACTGGCTCACATATCGAGGC
* ** * * **
39783223 CGATGCCATGTCCCAGACATGGTCTTACACCAGCACACATATCAATAC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * * *
39783271 CGATGCCATGTCCCAGACATGGTCTTACATTAGCTTTCACA-A-C-ATCGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGC--TCACATATCGA-GGC
* * * *
39783319 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
* * *
39783367 CAACGCCATGTCCCAGACATGGTCTTACACTGGCAT-ACATATC
1 CGATGCCATGTTCCAGACATGGTCTTACACTGGC-TCACATATC
39783410 ACCCAAATGT
Statistics
Matches: 225, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
46 4 0.02
47 5 0.02
48 207 0.92
49 5 0.02
50 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATATCGAGGC
Found at i:39783339 original size:144 final size:143
Alignment explanation
Indices: 39783079--39783410 Score: 400
Period size: 144 Copynumber: 2.3 Consensus size: 143
39783069 GGTGAATTGT
* * * * * * *
39783079 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAGACCGATGCCATGTCCCAGA
* * * *
39783144 CATGGTCTTACACTAGCTCTCGTCTCAATGCCGGTGCCATTTCCTAGACATGGTCTTGCACTGGC
66 CATGGTCTTACACTAGCTCTC-TCACAATGCCGATGCCATTTCCTAAACATGGTCTTACACTGGC
* * *
39783209 TCTCGTGTTGTGGC
130 TCTCATATCGTGGC
** *
39783223 CGATGCCATGTCCCAGACATGGTCTTACACCAGCACACATATCAATACCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAGACCGATGCCATGTCCCAGA
* *
39783288 CATGGTCTTACATTAGCT-T-TCACAACATCGCTGATGCCATGTTCC-AAACATGGTCTTACACT
66 CATGGTCTTACACTAGCTCTCTCAC-A-AT-GCCGATGCCAT-TTCCTAAACATGGTCTTACACT
39783350 GGCTCTCATATCGTGGC
127 GGCTCTCATATCGTGGC
* * *
39783367 CAACGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
39783411 CCCAAATGTC
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
141 3 0.02
142 1 0.01
143 3 0.02
144 149 0.93
145 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (143 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAGACCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCTCTCTCACAATGCCGATGCCATTTCCTAAACATGGTCTTACACTGGCT
CTCATATCGTGGC
Found at i:39793912 original size:7 final size:7
Alignment explanation
Indices: 39793900--39794034 Score: 126
Period size: 7 Copynumber: 18.3 Consensus size: 7
39793890 TGAAGCTTCC
39793900 ACCCTAA
1 ACCCTAA
39793907 ACCCTAA
1 ACCCTAA
*
39793914 ACCTTAA
1 ACCCTAA
39793921 ACCCTAA
1 ACCCTAA
39793928 ACCCTAA
1 ACCCTAA
39793935 ACCCTAA
1 ACCCTAA
*
39793942 ACCATAA
1 ACCCTAA
**
39793949 ACTATAA
1 ACCCTAA
*
39793956 ACCATAAA
1 ACCCT-AA
*
39793964 ACTCTAAA
1 ACCCT-AA
39793972 ACCCTAAA
1 ACCCT-AA
39793980 ACCCTAAA
1 ACCCT-AA
*
39793988 ACCTTAAA
1 ACCCT-AA
*
39793996 ACCATAA
1 ACCCTAA
39794003 ACCCTAAA
1 ACCCT-AA
39794011 ACCCTAAA
1 ACCCT-AA
*
39794019 ACCATAA
1 ACCCTAA
39794026 ACCCTAA
1 ACCCTAA
39794033 AC
1 AC
39794035 TTACTACTAT
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
7 65 0.58
8 48 0.42
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:39793971 original size:8 final size:8
Alignment explanation
Indices: 39793954--39794033 Score: 101
Period size: 8 Copynumber: 10.2 Consensus size: 8
39793944 CATAAACTAT
*
39793954 AAACCATA
1 AAACCCTA
*
39793962 AAACTCTA
1 AAACCCTA
39793970 AAACCCTA
1 AAACCCTA
39793978 AAACCCTA
1 AAACCCTA
*
39793986 AAACCTTA
1 AAACCCTA
*
39793994 AAACCAT-
1 AAACCCTA
39794001 AAACCCTA
1 AAACCCTA
39794009 AAACCCTA
1 AAACCCTA
*
39794017 AAACCAT-
1 AAACCCTA
39794024 AAACCCTA
1 AAACCCTA
39794032 AA
1 AA
39794034 CTTACTACTA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
7 12 0.19
8 50 0.81
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
AAACCCTA
Found at i:39796052 original size:137 final size:137
Alignment explanation
Indices: 39795806--39796092 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
39795796 CATTGGGCCT
** *
39795806 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
* * *
39795871 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATGCATGCAATATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
39795936 CATATGC
131 CATATGC
39795943 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
39796008 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
39796073 CATATGC
131 CATATGC
39796080 AAGCCCATTTGGG
1 AAGCCCATTTGGG
39796093 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACCGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:39797918 original size:26 final size:26
Alignment explanation
Indices: 39797880--39797963 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
39797870 CATGAAATTC
*
39797880 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
39797906 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
39797932 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
39797958 TTATCA
1 TTATCA
39797964 ATTTGCATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:39799426 original size:43 final size:43
Alignment explanation
Indices: 39799360--39799532 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
39799350 AGCTCGTACA
* * *
39799360 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* * * *
39799403 ATGCCACTGTCCCAGACAG-GGTCTTTCACGAAATTAAATA-AG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
* *
39799445 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATC-AAATATCG
** *
39799489 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
39799532 A
1 A
39799533 AAATCCTATG
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.26
43 47 0.44
44 31 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:39799512 original size:86 final size:85
Alignment explanation
Indices: 39799360--39799522 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
39799350 AGCTCGTACA
* * * *
39799360 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
*
39799425 CTTTCACGAAATTAAATAAG
66 CTTACACGAAATTAAATAAG
*
39799445 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-ATCCCAGAC-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTATCCCAGACAG
39799507 TGGTCTTACACGAAAT
63 -GGTCTTACACGAAAT
39799523 CACATATCGA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 29 0.43
86 35 0.51
87 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATTAAATAAG
Found at i:39805930 original size:23 final size:22
Alignment explanation
Indices: 39805888--39805930 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
39805878 ATAATCCATA
**
39805888 CCAAATCATACCAATTCATAAG
1 CCAAATCATACCAAAACATAAG
39805910 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
39805931 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.28, G:0.05, T:0.19
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:39807653 original size:42 final size:43
Alignment explanation
Indices: 39807555--39807723 Score: 191
Period size: 42 Copynumber: 4.0 Consensus size: 43
39807545 TCGTACAATA
* * * * *
39807555 CCAAAGTCCCAGACGTGGTCTTACATG-TATCAAATATAGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
* **
39807597 CCACTGTCATAGACATGGTCTTACACGAAATCAAATA-CGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
*
39807639 TCAATGTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCGATG
1 CCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCGATG
* * *
39807683 CCAATGTCCCAGACGTGGTCTTACATGAAATCACATATCGA
1 CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGA
39807724 AAATCCTATG
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 50 0.47
43 24 0.23
44 32 0.30
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCGATG
Found at i:39807713 original size:86 final size:84
Alignment explanation
Indices: 39807560--39807715 Score: 206
Period size: 86 Copynumber: 1.8 Consensus size: 84
39807550 CAATACCAAA
* * * *
39807560 GTCCCAGACGTGGTCTTACATGTATCAAATATAGATGCCACTGTCATAGACATGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGTATCAAATATAGATGCCAATGTCACAGACATGGTCTTACACGA
39807625 AATCAAATACGATGTCAAT
66 AATCAAATACGATGTCAAT
* * *
39807644 GTCCCAGACATGGTCTTACACGTAAATCTAAA-ATCGATGCCAATGTCCCAGACGTGGTCTTACA
1 GTCCCAGACATGGTCTTACACGT--ATC-AAATATAGATGCCAATGTCACAGACATGGTCTTACA
*
39807708 TGAAATCA
63 CGAAATCA
39807716 CATATCGAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 21 0.34
86 37 0.61
87 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTATCAAATATAGATGCCAATGTCACAGACATGGTCTTACACGA
AATCAAATACGATGTCAAT
Found at i:39821608 original size:45 final size:45
Alignment explanation
Indices: 39821543--39821664 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
39821533 GGGTATAATA
*
39821543 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTTGTAG-
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTT-AAGC
* *
39821589 CCGATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTTAAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTTAAGC
* *
39821635 CCAATGCATGTCCAAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
39821665 AGCACACAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
44 11 0.16
45 16 0.24
46 40 0.60
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTTAAGC
Found at i:39824916 original size:40 final size:40
Alignment explanation
Indices: 39824861--39825079 Score: 252
Period size: 38 Copynumber: 5.5 Consensus size: 40
39824851 TATTCGGATG
39824861 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
39824901 ATATCCGGGCTAAGTCTCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
39824944 ATA-CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
39824983 ATATCCGGGCTAAGT-CCGAAGGCATTCATGCTAGTGAC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
39825021 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
39825060 ATATCC-GGCTAA-TCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39825080 ATACTTAGGT
Statistics
Matches: 154, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
38 44 0.29
39 34 0.22
40 41 0.27
41 1 0.01
42 25 0.16
43 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:39824965 original size:42 final size:41
Alignment explanation
Indices: 39824861--39825079 Score: 189
Period size: 40 Copynumber: 5.5 Consensus size: 41
39824851 TATTCGGATG
* *
39824861 ATATCCGGGCTAAGTCCCGAAGGCATTTGT-GCA-AGTTACT
1 ATATCCGGGCTAAGTCCTGAAGGCATTTGTCG-ATAGTTGCT
39824901 ATATCCGGGCTAAGT-CTCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCT-GAAGGCATTTGT-CGA-TAGTTGCT
*
39824944 ATA-CCGGGCTAAGTCCTGAAGGCATTTGT-GCTAG-TGACT
1 ATATCCGGGCTAAGTCCTGAAGGCATTTGTCGATAGTTG-CT
** *
39824983 ATATCCGGGCTAAGTCC-GAAGGCATTCAT-GCTAG-TGAC-
1 ATATCCGGGCTAAGTCCTGAAGGCATTTGTCGATAGTTG-CT
* *
39825021 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCG--AGTTGCT
1 ATATCCGGGCTAAGTCCTGAAGGCATTTGT-CGATAGTTGCT
*
39825060 ATATCC-GGCTAA-TCCCGAAG
1 ATATCCGGGCTAAGTCCTGAAG
39825080 ATACTTAGGT
Statistics
Matches: 157, Mismatches: 9, Indels: 28
0.81 0.05 0.14
Matches are distributed among these distances:
37 2 0.01
38 41 0.26
39 36 0.23
40 42 0.27
41 1 0.01
42 24 0.15
43 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCTGAAGGCATTTGTCGATAGTTGCT
Found at i:39828496 original size:45 final size:44
Alignment explanation
Indices: 39828367--39828703 Score: 412
Period size: 45 Copynumber: 7.6 Consensus size: 44
39828357 AGTTGACGGA
* *
39828367 ATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTAGTGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGC-GGTGAAATGTT
*
39828412 ATTCGGGCCTTTGAG-CTAGCAGGCTATAATGCTGATGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGC-GGTGAAATGTT
39828456 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGGTGAAATGTT
* * *
39828501 ATTCTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGGTGAAATGTT
* * *
39828546 ATTCGGGCCTTTGAGCCTAGAAGGCTATAATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGGTGAAATGTT
* * * * **
39828591 ATTCAGGCCTTTGAGCCTAGTAGGCTATAATGCCGATGAGATACT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-CGGTGAAATGTT
* *
39828636 ATTCGGG-CTTTCGAGCCTAACAGGCTATAATGCAGGTGAAATGAT
1 ATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGC-GGTGAAATGTT
*
39828681 A-TCGGGCC-TCGAGCCTAGCAGGC
1 ATTCGGGCCTTTGAGCCTAGCAGGC
39828704 GAATGCTGGT
Statistics
Matches: 264, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
43 12 0.05
44 53 0.20
45 198 0.75
46 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCGGTGAAATGTT
Found at i:39831527 original size:25 final size:25
Alignment explanation
Indices: 39831499--39831585 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
39831489 CTTCTCGAGA
*
39831499 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
* * **
39831524 GAGCTT-GCTATTATTCAATTCGTAT
1 GAGCTTACCGA-TATTCAGCTCGTAT
* * *
39831549 GAGCTTACTGTTACTCAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
39831574 GAGCTTACCGAT
1 GAGCTTACCGAT
39831586 TATAGCTCAA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
24 2 0.04
25 44 0.96
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGTAT
Found at i:39831626 original size:25 final size:24
Alignment explanation
Indices: 39831565--39831630 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
39831555 ACTGTTACTC
* *
39831565 AGCTCGTATGAGCTTACCGATTAT
1 AGCTCGTATGAGCATACCGATTAG
** *
39831589 AGCTCAAAAGAGCATACCGATTCAG
1 AGCTCGTATGAGCATACCGATT-AG
39831614 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
39831631 ATGTACAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (24 bp):
AGCTCGTATGAGCATACCGATTAG
Found at i:39832479 original size:20 final size:20
Alignment explanation
Indices: 39832454--39832493 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39832444 AAATGTAATA
*
39832454 AGAAAGTCCACGCAGTTGTG
1 AGAAAGTCCACGCAGATGTG
*
39832474 AGAAAGTCCATGCAGATGTG
1 AGAAAGTCCACGCAGATGTG
39832494 TGGCCACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (20 bp):
AGAAAGTCCACGCAGATGTG
Found at i:39833130 original size:17 final size:17
Alignment explanation
Indices: 39833108--39833141 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39833098 CCCAACAGTA
39833108 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
39833125 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
39833142 AGTGACCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (17 bp):
GGTCCACAGTCGTCTCG
Found at i:39838821 original size:40 final size:40
Alignment explanation
Indices: 39838766--39838957 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
39838756 CGGATGATAA
39838766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
39838806 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
39838846 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
39838886 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
39838926 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39838958 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:39840419 original size:16 final size:16
Alignment explanation
Indices: 39840400--39840430 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39840390 CTTCTTCACT
39840400 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
39840416 TACTTACTTACTTAA
1 TACTCACTTACTTAA
39840431 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:39840436 original size:20 final size:20
Alignment explanation
Indices: 39840397--39840436 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39840387 AAACTTCTTC
* *
39840397 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
39840417 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
39840437 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:39840875 original size:55 final size:55
Alignment explanation
Indices: 39840621--39840875 Score: 246
Period size: 55 Copynumber: 4.8 Consensus size: 55
39840611 ACACGGGTAC
* *
39840621 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TTT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
* * * * *
39840670 ATTACC-ATTGCCATGTCTTGACATGGTCTCACATGGTAGCCTTGCCTTTTG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
* * * *
39840723 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTT-TAGAAA
* * * *
39840778 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCC-TTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
* *
39840831 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
39840876 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 2 0.01
53 47 0.28
54 12 0.07
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
Found at i:39863735 original size:1 final size:1
Alignment explanation
Indices: 39863697--39863725 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
39863687 TGATTGTTTA
39863697 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39863726 GTGTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:39872529 original size:45 final size:45
Alignment explanation
Indices: 39872464--39872585 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
39872454 GGGTATAATA
*
39872464 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTTGTAG-
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTT-AAGC
* *
39872510 CCGATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTTAAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTTAAGC
* *
39872556 CCAATGCATGTCCAAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
39872586 AGCACACAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
44 11 0.16
45 16 0.24
46 40 0.60
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTTAAGC
Found at i:39875844 original size:40 final size:40
Alignment explanation
Indices: 39875789--39876012 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
39875779 TATTCGGATG
39875789 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
39875829 ATATCCGGGCTAAGTCTCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
39875872 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * * *
39875912 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
39875952 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
39875992 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39876013 ATACTTAGGT
Statistics
Matches: 157, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 14 0.09
40 108 0.69
41 1 0.01
43 34 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:39879465 original size:45 final size:45
Alignment explanation
Indices: 39879401--39879751 Score: 442
Period size: 45 Copynumber: 7.9 Consensus size: 45
39879391 AGTTGACGGA
* *
39879401 ATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCTAGTGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
*
39879446 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGATGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
39879491 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-TCGGTGAAATGTT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCT-GGTGAAATGTT
* * * *
39879536 ATTCTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
* * * *
39879581 ATTCGGGCCTTTGAGCCTAGAAGGCTATAATGCCGGTGAGATATT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
* * * * * **
39879626 ATTCAGGCCTTTGAGCCTAGTAGGCTATAATGCCGATGAGATACT
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
* * *
39879671 ATTCGGG-CTTTCGAGCCTAACAGGCTATAATGCAGGTGAAATGAT
1 ATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
* *
39879716 A-TCGGGCC-TCGAGCCTAGCAGGCGA-AATGCTGGTGA
1 ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGA
39879752 TTTGAGAAAA
Statistics
Matches: 276, Mismatches: 26, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
42 10 0.04
43 13 0.05
44 11 0.04
45 242 0.88
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (45 bp):
ATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAATGTT
Found at i:39882568 original size:25 final size:25
Alignment explanation
Indices: 39882540--39882626 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
39882530 CTTCTCGAGA
*
39882540 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
* * **
39882565 GAGCTT-GCTATTATTCAATTCGTAT
1 GAGCTTACCGA-TATTCAGCTCGTAT
* * *
39882590 GAGCTTACTGTTACTCAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
39882615 GAGCTTACCGAT
1 GAGCTTACCGAT
39882627 TATAGCTCAA
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
24 2 0.04
25 44 0.96
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGTAT
Found at i:39882667 original size:25 final size:24
Alignment explanation
Indices: 39882606--39882671 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
39882596 ACTGTTACTC
* *
39882606 AGCTCGTATGAGCTTACCGATTAT
1 AGCTCGTATGAGCATACCGATTAG
** *
39882630 AGCTCAAAAGAGCATACCGATTCAG
1 AGCTCGTATGAGCATACCGATT-AG
39882655 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
39882672 ATGTACAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (24 bp):
AGCTCGTATGAGCATACCGATTAG
Found at i:39883521 original size:20 final size:20
Alignment explanation
Indices: 39883496--39883535 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39883486 AAATGTAATA
*
39883496 AGAAAGTCCACGCAGTTGTG
1 AGAAAGTCCACGCAGATGTG
*
39883516 AGAAAGTCCATGCAGATGTG
1 AGAAAGTCCACGCAGATGTG
39883536 TGGCCACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (20 bp):
AGAAAGTCCACGCAGATGTG
Found at i:39884172 original size:17 final size:17
Alignment explanation
Indices: 39884150--39884183 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
39884140 CCCAACAGTA
39884150 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
39884167 GGTCCACAGTCGTCTCG
1 GGTCCACAGTCGTCTCG
39884184 AGTGACCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (17 bp):
GGTCCACAGTCGTCTCG
Found at i:39889904 original size:40 final size:40
Alignment explanation
Indices: 39889847--39890038 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
39889837 CGGATGATAA
*
39889847 CCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
39889887 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
39889927 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
39889967 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
39890007 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39890039 AGCTATATCC
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 137 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:39897924 original size:40 final size:40
Alignment explanation
Indices: 39897869--39898060 Score: 305
Period size: 40 Copynumber: 4.8 Consensus size: 40
39897859 CGGATGATAA
39897869 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
39897909 CCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
39897949 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
39897989 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
39898029 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
39898061 AGCTATATCC
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 138 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:39900750 original size:40 final size:40
Alignment explanation
Indices: 39900615--39900837 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
39900605 TATTCGGATG
* * *
39900615 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
39900655 ATATCC-GGCTAAGTATCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
39900697 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
** *
39900737 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
39900777 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
39900817 ATATTC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39900838 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 38 0.24
40 83 0.53
41 2 0.01
42 9 0.06
43 24 0.15
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:39915934 original size:12 final size:12
Alignment explanation
Indices: 39915917--39915943 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39915907 GTCAGAATCA
39915917 GCTCCAAAATAG
1 GCTCCAAAATAG
39915929 GCTCCAAAATAG
1 GCTCCAAAATAG
39915941 GCT
1 GCT
39915944 GCATAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (12 bp):
GCTCCAAAATAG
Found at i:39921396 original size:21 final size:21
Alignment explanation
Indices: 39921370--39921443 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
39921360 TAACTCATGA
39921370 GTTTCAGTTTAACCCTTTTGG
1 GTTTCAGTTTAACCCTTTTGG
* * *
39921391 GTTTCAGTTTAGCTCTTTTGA
1 GTTTCAGTTTAACCCTTTTGG
* * * * *
39921412 GCTTCAGATTAATCCTTATAG
1 GTTTCAGTTTAACCCTTTTGG
*
39921433 GTTTCCGTTTA
1 GTTTCAGTTTA
39921444 GCTCCTACGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTTTGG
Found at i:39921436 original size:42 final size:42
Alignment explanation
Indices: 39921367--39921487 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 42
39921357 AGTTAACTCA
* * * *
39921367 TGAGTTTCAGTTTAACCCTTTTGGGTTTCAGTTTAGCTCTTT
1 TGAGCTTCAGATTAACCCTTATAGGTTTCAGTTTAGCTCTTT
* * * *
39921409 TGAGCTTCAGATTAATCCTTATAGGTTTCCGTTTAGCTCCTA
1 TGAGCTTCAGATTAACCCTTATAGGTTTCAGTTTAGCTCTTT
* * * * *
39921451 CGAGCTTCCA-TTTAACCCTTACAAGTTTCCGTTTAGC
1 TGAGCTT-CAGATTAACCCTTATAGGTTTCAGTTTAGC
39921488 ACTTATGTGC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (42 bp):
TGAGCTTCAGATTAACCCTTATAGGTTTCAGTTTAGCTCTTT
Found at i:39921459 original size:21 final size:21
Alignment explanation
Indices: 39921435--39921492 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
39921425 CCTTATAGGT
*
39921435 TTCCGTTTAGCTCC-TACGAGC
1 TTCCGTTTAGC-CCTTACAAGC
* * *
39921456 TTCCATTTAACCCTTACAAGT
1 TTCCGTTTAGCCCTTACAAGC
*
39921477 TTCCGTTTAGCACTTA
1 TTCCGTTTAGCCCTTA
39921493 TGTGCAGCCT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (21 bp):
TTCCGTTTAGCCCTTACAAGC
Found at i:39923996 original size:177 final size:177
Alignment explanation
Indices: 39923689--39924044 Score: 667
Period size: 177 Copynumber: 2.0 Consensus size: 177
39923679 TCTAACTGCC
*
39923689 AAACCTGACATTTGAAGAAAACCATGTCAGCAACACTGAGTTCAATTCAAAAATTAGAATTTTGA
1 AAACCTGACATTTGAAGAAAACCATGTCAGAAACACTGAGTTCAATTCAAAAATTAGAATTTTGA
* *
39923754 ATACTTGGTAAAATAATACTAGGCCATAACCAATTCATATCAAAAGGATCTACCCTTAGAACCTG
66 ATACTTGGTAAAATAATACTAGGCCATAACCAATTCATATAAAAAGGATCTACCCTTAAAACCTG
*
39923819 CATCGTTGTGTTAGATGTTAGATAGGATATATTATAAGTCAAATATT
131 CATCATTGTGTTAGATGTTAGATAGGATATATTATAAGTCAAATATT
39923866 AAACCTGACATTTGAAGAAAACCATGTCAGAAACACTGAGTTCAATTCAAAAATTAGAATTTTGA
1 AAACCTGACATTTGAAGAAAACCATGTCAGAAACACTGAGTTCAATTCAAAAATTAGAATTTTGA
*
39923931 ATACTTGGTAAAATAATACTAGGCCATAACCAATTCATATAAAAAGGATCTACCTTTAAAACCTG
66 ATACTTGGTAAAATAATACTAGGCCATAACCAATTCATATAAAAAGGATCTACCCTTAAAACCTG
39923996 CATCATTGTGTTAGATGTTAGATAGGATATATTATAAGTCAAATATT
131 CATCATTGTGTTAGATGTTAGATAGGATATATTATAAGTCAAATATT
39924043 AA
1 AA
39924045 GATTTGTTTT
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (177 bp):
AAACCTGACATTTGAAGAAAACCATGTCAGAAACACTGAGTTCAATTCAAAAATTAGAATTTTGA
ATACTTGGTAAAATAATACTAGGCCATAACCAATTCATATAAAAAGGATCTACCCTTAAAACCTG
CATCATTGTGTTAGATGTTAGATAGGATATATTATAAGTCAAATATT
Found at i:39925266 original size:21 final size:21
Alignment explanation
Indices: 39925242--39925292 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
39925232 AGGGACACAT
39925242 GCCCGTGTGGAAGGGTAACAC
1 GCCCGTGTGGAAGGGTAACAC
39925263 GCCCGTGTGGAAGGGTAACAC
1 GCCCGTGTGGAAGGGTAACAC
39925284 GCCCGTGTG
1 GCCCGTGTG
39925293 TCTTGTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.39, T:0.16
Consensus pattern (21 bp):
GCCCGTGTGGAAGGGTAACAC
Found at i:39926547 original size:48 final size:48
Alignment explanation
Indices: 39926481--39926655 Score: 194
Period size: 48 Copynumber: 3.6 Consensus size: 48
39926471 TGAATTGCCA
* *
39926481 ATGCCATGTTCCGA-ACATGGTCTTACACTGGCTCACATGTCGAGGCCG
1 ATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
* * * *
39926529 AAGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCCG
* * * ** *
39926577 ATGCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATACTG
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
39926625 ATGCCATGTACC-AGACATGGTCTTACACTGG
1 ATGCCATGT-CCTAGACATGGTCTTACACTGG
39926656 ATCTCATTAC
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
47 6 0.06
48 97 0.92
49 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:39926645 original size:96 final size:96
Alignment explanation
Indices: 39926481--39926714 Score: 278
Period size: 96 Copynumber: 2.4 Consensus size: 96
39926471 TGAATTGCCA
* * * * * *
39926481 ATGCCATGTTCCGAACATGGTCTTACACTGGCTCACATGTCGAGGCCGAAGCCATGTCCTAGACA
1 ATGCCATGTTCCCAACATGGTCTTACACTAGCACACATATCAAGACCGAAGCCATGTCCTAGACA
* *
39926546 TGGTCTTACACTGGCTCTCA-TA-ATGTGGTCG
66 TGGTCTTACACTGGATCTCATTACAT-T-ATCG
* * * * *
39926577 ATGCCATG-TCCTAGACATGGTCTTACACTAGCGCACATATCAATACTGATGCCATGTACC-AGA
1 ATGCCATGTTCCCA-ACATGGTCTTACACTAGCACACATATCAAGACCGAAGCCATGT-CCTAGA
39926640 CATGGTCTTACACTGGATCTCATTACATTATCG
64 CATGGTCTTACACTGGATCTCATTACATTATCG
*
39926673 ATGCCATGTTCCCAACATGGTCTTACACTAGCACACGTATCA
1 ATGCCATGTTCCCAACATGGTCTTACACTAGCACACATATCA
39926715 CCCAAATGTC
Statistics
Matches: 119, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
95 4 0.03
96 104 0.87
97 9 0.08
98 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCCATGTTCCCAACATGGTCTTACACTAGCACACATATCAAGACCGAAGCCATGTCCTAGACA
TGGTCTTACACTGGATCTCATTACATTATCG
Found at i:39926676 original size:48 final size:47
Alignment explanation
Indices: 39926531--39926701 Score: 188
Period size: 48 Copynumber: 3.6 Consensus size: 47
39926521 CGAGGCCGAA
*
39926531 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-ATGTGGTCGAT
1 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATACAT-T-ATCGAT
* * * *
39926579 GCCATGTCCTAGACATGGTCTTACACTAGCGCACATATCAATA-CTGAT
1 GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-CATTATC-GAT
*
39926627 GCCATGTACC-AGACATGGTCTTACACTGGATCTCATTACATTATCGAT
1 GCCATGT-CCTAGACATGGTCTTACACTGGCTCTCA-TACATTATCGAT
*
39926675 GCCATGTTCCCA-ACATGGTCTTACACT
1 GCCATG-TCCTAGACATGGTCTTACACT
39926702 AGCACACGTA
Statistics
Matches: 105, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
47 1 0.01
48 95 0.90
49 8 0.08
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
GCCATGTCCTAGACATGGTCTTACACTGGCTCTCATACATTATCGAT
Found at i:39927106 original size:25 final size:25
Alignment explanation
Indices: 39927076--39927132 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
39927066 ACAAAAATTA
39927076 CGATTTTACCACTAGGCTCGTAAAT
1 CGATTTTACCACTAGGCTCGTAAAT
* *
39927101 CGATTTTACCCCTAGGCTTGTAAAT
1 CGATTTTACCACTAGGCTCGTAAAT
39927126 CGATTTT
1 CGATTTT
39927133 TATCGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (25 bp):
CGATTTTACCACTAGGCTCGTAAAT
Found at i:39930936 original size:37 final size:37
Alignment explanation
Indices: 39930890--39930962 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
39930880 GAGGTTTTGG
39930890 GTTTGAATCTTTTCCTTAAGTTTTTGTTATTTTTTTT
1 GTTTGAATCTTTTCCTTAAGTTTTTGTTATTTTTTTT
*
39930927 GTTTGAATCTTTTCCTTGAGTTTTTGTTATTTTTTT
1 GTTTGAATCTTTTCCTTAAGTTTTTGTTATTTTTTT
39930963 GGTAATCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.67
Consensus pattern (37 bp):
GTTTGAATCTTTTCCTTAAGTTTTTGTTATTTTTTTT
Found at i:39933557 original size:43 final size:43
Alignment explanation
Indices: 39933502--39933717 Score: 256
Period size: 43 Copynumber: 5.0 Consensus size: 43
39933492 ATATCGCGCA
* * *
39933502 ATGCCAAC-GTCCCAGATATGGTTTTACACGTAATCACATATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
39933545 ATGCCACTGTCCCAGATAGGGTCTTACACGTAATCACATATTG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
39933588 ATGCCAAC-ATCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
39933631 ATGTCATTTTTCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
39933674 ATGCCATTGTCCCGGACAGGGTCTTACACGTAATCACATATCG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
39933717 A
1 A
39933718 AAATCCTATG
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.02
43 148 0.97
44 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:39935317 original size:34 final size:33
Alignment explanation
Indices: 39935279--39935356 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
39935269 TCTGATATAT
* *
39935279 TATGACATTTTGATATGATATATGTTTCTAAAAA
1 TATGACATTCTGATATGATATAAGTTT-TAAAAA
* * **
39935313 TATGACATTCTGATCTGGTATAAGTTTTGGAAA
1 TATGACATTCTGATATGATATAAGTTTTAAAAA
39935346 TATGACATTCT
1 TATGACATTCT
39935357 AATTTGACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
33 15 0.39
34 23 0.61
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (33 bp):
TATGACATTCTGATATGATATAAGTTTTAAAAA
Found at i:39938453 original size:37 final size:37
Alignment explanation
Indices: 39938408--39938478 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
39938398 TATTTTCATG
39938408 ATTCTATAAAATGTTATATTATTCAATACATAGAAAT
1 ATTCTATAAAATGTTATATTATTCAATACATAGAAAT
39938445 ATTCTATAAAATGTTATATTATTCAATACATAGA
1 ATTCTATAAAATGTTATATTATTCAATACATAGA
39938479 TTAGTTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (37 bp):
ATTCTATAAAATGTTATATTATTCAATACATAGAAAT
Found at i:39950322 original size:3 final size:3
Alignment explanation
Indices: 39950314--39950362 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
39950304 AAGGAAGATA
39950314 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
39950362 A
1 A
39950363 GACTCAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:39950530 original size:15 final size:15
Alignment explanation
Indices: 39950502--39950542 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
39950492 TTAATTAATT
* *
39950502 AATTAGTAAAATAAA
1 AATTAATAATATAAA
39950517 AATTAATAATATAAA
1 AATTAATAATATAAA
39950532 AATTAATAATA
1 AATTAATAATA
39950543 AATAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AATTAATAATATAAA
Found at i:39953814 original size:39 final size:39
Alignment explanation
Indices: 39953759--39953847 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
39953749 TACCAGAAGC
39953759 AAATAAAA-G-AAAAGTTAGTAAATTAAAGTAAAAACAA
1 AAATAAAATGCAAAAGTTAGTAAATTAAAGTAAAAACAA
39953796 AAATAAAATGCAAAAGTTAGTAAATTAAAGTAAAAACAA
1 AAATAAAATGCAAAAGTTAGTAAATTAAAGTAAAAACAA
39953835 AAATAAAATGCAA
1 AAATAAAATGCAA
39953848 TAAAAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 8 0.16
38 1 0.02
39 41 0.82
ACGTcount: A:0.66, C:0.04, G:0.10, T:0.19
Consensus pattern (39 bp):
AAATAAAATGCAAAAGTTAGTAAATTAAAGTAAAAACAA
Found at i:39955595 original size:24 final size:23
Alignment explanation
Indices: 39955551--39955595 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
39955541 AGGTAAGCAT
39955551 TTTCCAAATTTCTTCTCTCTTCC
1 TTTCCAAATTTCTTCTCTCTTCC
39955574 TTTCCAAGATTTGCTTCT-TCTT
1 TTTCCAA-ATTT-CTTCTCTCTT
39955596 AATTTGCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.13, C:0.29, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTCCAAATTTCTTCTCTCTTCC
Found at i:39963849 original size:41 final size:41
Alignment explanation
Indices: 39963798--39963939 Score: 248
Period size: 41 Copynumber: 3.5 Consensus size: 41
39963788 TATTCGGGCT
*
39963798 TTATTGCCTAGCAGGCTTTGTGCCGCTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
*
39963839 TTATTTCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
* *
39963880 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAAGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
39963921 TTATTGCCTAGCAGGCTTT
1 TTATTGCCTAGCAGGCTTT
39963940 ATATTTCGGT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGC
Found at i:39965748 original size:27 final size:27
Alignment explanation
Indices: 39965718--39965896 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
39965708 ATATTGAGCC
* *
39965718 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
39965745 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
39965772 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
39965800 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
39965827 CGCACACTTAGTGC-ATCATATTCTTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
39965854 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
39965881 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
39965897 TACAATTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39966460 original size:13 final size:13
Alignment explanation
Indices: 39966442--39966466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39966432 TACTAAATTT
39966442 TCATGGATTCAAG
1 TCATGGATTCAAG
39966455 TCATGGATTCAA
1 TCATGGATTCAA
39966467 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:39980172 original size:21 final size:21
Alignment explanation
Indices: 39980139--39980189 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
39980129 CTGACCATAT
* *
39980139 GGGCATGTCCCCAGAGCACAC
1 GGGCGTGTGCCCAGAGCACAC
*
39980160 GGGCGTGTGCCCAGATCACAC
1 GGGCGTGTGCCCAGAGCACAC
*
39980181 GGTCGTGTG
1 GGGCGTGTG
39980190 AGCCCTGCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.31, G:0.35, T:0.16
Consensus pattern (21 bp):
GGGCGTGTGCCCAGAGCACAC
Found at i:39981688 original size:14 final size:14
Alignment explanation
Indices: 39981669--39981698 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39981659 TTAAACCTAG
39981669 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
39981683 ACCAATCCAATTCA
1 ACCAATCCAAATCA
39981697 AC
1 AC
39981699 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:39982102 original size:12 final size:12
Alignment explanation
Indices: 39982085--39982110 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39982075 AAAATAGGGC
39982085 TTTAGCGGCGTT
1 TTTAGCGGCGTT
39982097 TTTAGCGGCGTT
1 TTTAGCGGCGTT
39982109 TT
1 TT
39982111 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:39982247 original size:41 final size:41
Alignment explanation
Indices: 39982165--39982383 Score: 298
Period size: 41 Copynumber: 5.4 Consensus size: 41
39982155 CGTTTTACCA
* * *
39982165 AAAACACCGCTAAAAA-CAGTGCAATAGCGGCGCATTT-GGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTCGGT
*
39982205 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* *
39982246 AAAACGCCGCTAAAAACTAGAGCATTAGCGGTGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * **
39982287 AAAACACCGCTAAAAACCAGAGCAATAGCAACGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
* **
39982328 AAAACGCCGCTAAAAACCAGAACATTAGCGGCGCTTTCAAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
39982369 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
39982384 GTTATATAAC
Statistics
Matches: 157, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 17 0.11
41 140 0.89
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:39982463 original size:23 final size:22
Alignment explanation
Indices: 39982416--39982463 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
39982406 CAAAAATCAT
* *
39982416 AAACACTAATCTATAACCCCTA
1 AAACACTAAACTATAAACCCTA
*
39982438 AAACACTAAAACTCTAAACCCTA
1 AAACACT-AAACTATAAACCCTA
39982461 AAA
1 AAA
39982464 ATCCTAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACACTAAACTATAAACCCTA
Found at i:39982464 original size:16 final size:16
Alignment explanation
Indices: 39982438--39982478 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
39982428 ATAACCCCTA
*
39982438 AAACACTAAAACT-CT
1 AAACACTAAAAATCCT
*
39982453 AAACCCTAAAAATCCT
1 AAACACTAAAAATCCT
39982469 AAACACTAAA
1 AAACACTAAA
39982479 CTATAACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACACTAAAAATCCT
Found at i:39983272 original size:7 final size:7
Alignment explanation
Indices: 39983258--39983349 Score: 102
Period size: 8 Copynumber: 12.9 Consensus size: 7
39983248 ACATTAAATC
39983258 AAAA-TA
1 AAAATTA
39983264 AAAATTA
1 AAAATTA
39983271 AAAATTA
1 AAAATTA
39983278 AAAATT-
1 AAAATTA
39983284 AAAATT-
1 AAAATTA
39983290 AAAATT-
1 AAAATTA
39983296 AAAATTAA
1 AAAATT-A
39983304 AAAATTAA
1 AAAATT-A
39983312 AAAATTAA
1 AAAATT-A
39983320 AAAATTAAA
1 AAAATT--A
39983329 AAAATTA
1 AAAATTA
39983336 AAAACTTA
1 AAAA-TTA
39983344 AAAATT
1 AAAATT
39983350 TAATATTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
6 22 0.27
7 22 0.27
8 29 0.36
9 8 0.10
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:39983330 original size:25 final size:25
Alignment explanation
Indices: 39983270--39983347 Score: 83
Period size: 25 Copynumber: 3.1 Consensus size: 25
39983260 AATAAAAATT
39983270 AAAAATT-AAAAATT--AAAATTAAA
1 AAAAATTAAAAAATTAAAAAATT-AA
39983293 ATTAAAATTAAAAAATTAAAAAATT-A
1 A--AAAATTAAAAAATTAAAAAATTAA
*
39983319 AAAAATTAAAAAAATTAAAAACTTAA
1 AAAAATT-AAAAAATTAAAAAATTAA
39983345 AAA
1 AAA
39983348 TTTAATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
23 1 0.02
24 6 0.13
25 21 0.45
26 13 0.28
28 6 0.13
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAAATTAAAAAATTAAAAAATTAA
Found at i:39983338 original size:6 final size:6
Alignment explanation
Indices: 39983253--39983305 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
39983243 ATTACACATT
* *
39983253 AAATCA AAATAA AAATTAA AAATTAA AAATTA AAATTA AAATTA AAATTA
1 AAATTA AAATTA AAATT-A AAATT-A AAATTA AAATTA AAATTA AAATTA
39983303 AAA
1 AAA
39983306 AATTAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 31 0.70
7 13 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:39983466 original size:20 final size:20
Alignment explanation
Indices: 39983443--39983529 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
39983433 TTTGAAAGAA
39983443 AAAAATAAAAAATATATGTT
1 AAAAATAAAAAATATATGTT
*
39983463 AAAAATGAAAAA-A-A--TT
1 AAAAATAAAAAATATATGTT
* * * *
39983479 AAAATTAAACAATAAAAG--
1 AAAAATAAAAAATATATGTT
39983497 AAAAACTAAAAAATATATGTT
1 AAAAA-TAAAAAATATATGTT
39983518 AAAAATAAAAAA
1 AAAAATAAAAAA
39983530 AATAAAATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
16 11 0.21
17 1 0.02
18 6 0.12
19 11 0.21
20 18 0.35
21 5 0.10
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAATAAAAAATATATGTT
Found at i:39983482 original size:29 final size:29
Alignment explanation
Indices: 39983440--39983536 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 29
39983430 AAATTTGAAA
39983440 GAAAAAAATAAAAAATATATGTTAAAAAT
1 GAAAAAAATAAAAAATATATGTTAAAAAT
* * * ***
39983469 GAAAAAAATTAAAATTAAACAAT-AAAA-
1 GAAAAAAATAAAAAATATATGTTAAAAAT
*
39983496 G-AAAAACTAAAAAATATATGTTAAAAAT
1 GAAAAAAATAAAAAATATATGTTAAAAAT
*
39983524 AAAAAAAATAAAA
1 GAAAAAAATAAAA
39983537 TTAAACAATA
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
26 14 0.28
27 5 0.10
28 4 0.08
29 27 0.54
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (29 bp):
GAAAAAAATAAAAAATATATGTTAAAAAT
Found at i:39983529 original size:54 final size:56
Alignment explanation
Indices: 39983437--39983546 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 56
39983427 AAAAAATTTG
*
39983437 AAAGAAAAAAATAAAAAATATATGTTAAAAATGAAAAAAATTAAAATTAAACAATA
1 AAAGAAAAAAATAAAAAATATATGTTAAAAATGAAAAAAAATAAAATTAAACAATA
*
39983493 AAAG-AAAAACTAAAAAATATATGTTAAAAAT-AAAAAAAATAAAATTAAACAATA
1 AAAGAAAAAAATAAAAAATATATGTTAAAAATGAAAAAAAATAAAATTAAACAATA
39983547 GTGGCGTGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 22 0.42
55 26 0.50
56 4 0.08
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (56 bp):
AAAGAAAAAAATAAAAAATATATGTTAAAAATGAAAAAAAATAAAATTAAACAATA
Found at i:39987358 original size:19 final size:19
Alignment explanation
Indices: 39987336--39987376 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
39987326 TTTATTGATA
39987336 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
39987354 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
39987373 TTTT
1 TTTT
39987377 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:40002220 original size:39 final size:39
Alignment explanation
Indices: 40002143--40002273 Score: 217
Period size: 39 Copynumber: 3.3 Consensus size: 39
40002133 GCTCCTCGTT
* * * *
40002143 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
40002183 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
40002222 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
40002261 CAAATGCCTTCGG
1 CAAATGCCTTCGG
40002274 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 73 0.84
40 14 0.16
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:40002310 original size:79 final size:78
Alignment explanation
Indices: 40002143--40002326 Score: 212
Period size: 78 Copynumber: 2.3 Consensus size: 78
40002133 GCTCCTCGTT
* *
40002143 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAATAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
40002208 ATTAGTATCTCGCA
65 ATTAGTATCTAGCA
* * * *
40002222 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAATAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA
*
40002286 ATATGGTCA-CTTAGCA
65 AT-TAGT-ATC-TAGCA
*
40002302 CAAA-GCCTTCTGGACTTAGCCCGGA
1 CAAATGCCTTC-GGGCTTAGCCCGGA
40002327 CAACATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 36 0.40
79 33 0.36
80 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAATAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAA
TTAGTATCTAGCA
Found at i:40017178 original size:40 final size:40
Alignment explanation
Indices: 40017026--40017171 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
40017016 TTGAATGATG
* * * *
40017026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
40017066 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40017106 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40017147 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40017172 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.89
41 9 0.10
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40017178 original size:80 final size:80
Alignment explanation
Indices: 40017026--40017204 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 80
40017016 TTGAATGATG
*
40017026 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
**
40017091 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
40017106 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATGA-CCGGGCTATG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGAT-CCGAAGGCA
*
40017168 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
* *
40017186 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40017205 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
79 17 0.20
80 59 0.70
81 8 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:40017900 original size:9 final size:9
Alignment explanation
Indices: 40017886--40017964 Score: 131
Period size: 9 Copynumber: 8.8 Consensus size: 9
40017876 TTTGGTTAAA
40017886 AATTACCCG
1 AATTACCCG
40017895 AATTACCCG
1 AATTACCCG
40017904 AATTACCCG
1 AATTACCCG
40017913 AATTACCCG
1 AATTACCCG
40017922 AATTACCCG
1 AATTACCCG
40017931 AATTACCCG
1 AATTACCCG
*
40017940 AATTAACCG
1 AATTACCCG
* *
40017949 AATTAACCT
1 AATTACCCG
40017958 AATTACC
1 AATTACC
40017965 GAAAAATACC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 67 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:40020186 original size:17 final size:17
Alignment explanation
Indices: 40020164--40020202 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
40020154 AACCAGAACT
*
40020164 ACACCAGAACAAGCTCA
1 ACACCAGAACAAACTCA
*
40020181 ACACCAGAATAAACTCA
1 ACACCAGAACAAACTCA
40020198 ACACC
1 ACACC
40020203 TCCCCACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.36, G:0.08, T:0.08
Consensus pattern (17 bp):
ACACCAGAACAAACTCA
Found at i:40027098 original size:17 final size:18
Alignment explanation
Indices: 40027076--40027109 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
40027066 AAATACTAAC
40027076 AATTAAAT-AAATTGAAA
1 AATTAAATAAAATTGAAA
40027093 AATTAAATAAAATTGAA
1 AATTAAATAAAATTGAA
40027110 TTTTGGGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
AATTAAATAAAATTGAAA
Found at i:40027927 original size:30 final size:31
Alignment explanation
Indices: 40027869--40027928 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
40027859 TGCTTTTGAA
* *
40027869 AATATTTACAAAAAAGAGATATCTAATTTTT
1 AATATTTACAAAAAAGAGATACCAAATTTTT
40027900 AATATTTAC-AAAAAGAGCA-ACCAAATTTT
1 AATATTTACAAAAAAGAG-ATACCAAATTTT
40027929 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (31 bp):
AATATTTACAAAAAAGAGATACCAAATTTTT
Found at i:40032413 original size:19 final size:21
Alignment explanation
Indices: 40032389--40032427 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40032379 TGCTATTTAG
40032389 AGTTTC-CA-AAGAAAAATCC
1 AGTTTCACAGAAGAAAAATCC
*
40032408 AGTTTCACAGCAGAAAAATC
1 AGTTTCACAGAAGAAAAATC
40032428 AGTGTCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (21 bp):
AGTTTCACAGAAGAAAAATCC
Found at i:40032437 original size:21 final size:21
Alignment explanation
Indices: 40032398--40032437 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
40032388 GAGTTTCCAA
*
40032398 AGAAAAATCCAGTTTCACAGC
1 AGAAAAATCCAGTTCCACAGC
40032419 AGAAAAAT-CAGTGTCCACA
1 AGAAAAATCCAGT-TCCACA
40032438 ACCATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (21 bp):
AGAAAAATCCAGTTCCACAGC
Found at i:40033972 original size:7 final size:7
Alignment explanation
Indices: 40033960--40033987 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
40033950 CCATAGCCCT
40033960 TTTCATA
1 TTTCATA
40033967 TTTCATA
1 TTTCATA
40033974 TTTCATA
1 TTTCATA
40033981 TTTCATA
1 TTTCATA
40033988 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:40034015 original size:31 final size:31
Alignment explanation
Indices: 40033974--40034037 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
40033964 ATATTTCATA
* *
40033974 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
**
40034005 TTTCAAATTTCATATTACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
40034036 TT
1 TT
40034038 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:40034295 original size:24 final size:24
Alignment explanation
Indices: 40034245--40034394 Score: 200
Period size: 24 Copynumber: 6.4 Consensus size: 24
40034235 CTGGAGGCCT
*
40034245 AGCCTCTTTTAATAACTAGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
*
40034269 AGCCCTTTTAACAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
40034293 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
40034316 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
40034340 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
40034364 AGCCC-TTTAATAACT-AGGCCTA
1 AGCCCTTTTAATAACTGGGGCATA
40034386 AGCCCTTTT
1 AGCCCTTTT
40034395 TCACTTCCTC
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
22 10 0.09
23 49 0.43
24 55 0.48
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:40034324 original size:47 final size:46
Alignment explanation
Indices: 40034252--40034393 Score: 180
Period size: 47 Copynumber: 3.1 Consensus size: 46
40034242 CCTAGCCTCT
* * *
40034252 TTTAATAACTAGGGCAAAGCCCTTTTAACAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCTAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
40034298 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGC-TAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
40034345 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACT-AGGCCTAAGCCC
1 -TTTAATAACTGGGGC-TAAGCCCTTTTAATAACTGGGGCATAAGCCC
40034391 TTT
1 TTT
40034394 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.04
46 24 0.28
47 37 0.44
48 21 0.25
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCTAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:40034357 original size:71 final size:69
Alignment explanation
Indices: 40034239--40034394 Score: 224
Period size: 71 Copynumber: 2.2 Consensus size: 69
40034229 ATATATCTGG
40034239 AGGCCT-AGCCTCTTTTAATAACTAGGGCAAAGCCCTTTTAACAACTGGGGCATAAGCCCTTTAA
1 AGGCCTAAGCC-CTTTTAATAACTAGGGCAAAGCCCTTTTAACAACTGGGGCATAAGCCCTTTAA
40034303 TAACT
65 TAACT
* * * * * *
40034308 GGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 -AGGCCTAAGCCCTTTTAATAACTAGGGCA-AAGCCCTTTTAACAACTGGGGCATAAGCCCTTTA
40034373 ATAACT
64 ATAACT
40034379 AGGCCTAAGCCCTTTT
1 AGGCCTAAGCCCTTTT
40034395 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
70 34 0.45
71 42 0.55
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (69 bp):
AGGCCTAAGCCCTTTTAATAACTAGGGCAAAGCCCTTTTAACAACTGGGGCATAAGCCCTTTAAT
AACT
Found at i:40034469 original size:20 final size:20
Alignment explanation
Indices: 40034444--40034510 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
40034434 TTTTGAATAC
40034444 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40034464 ATCATGTGCAGATCATACAT
1 ATCATGTGCATATCATACAT
*
40034484 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
40034504 ACCATGT
1 ATCATGT
40034511 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:40034579 original size:25 final size:25
Alignment explanation
Indices: 40034547--40034594 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
40034537 ATACATAAAC
* *
40034547 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
40034572 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
40034595 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:40038223 original size:16 final size:17
Alignment explanation
Indices: 40038204--40038235 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
40038194 GAAAGTGACA
40038204 AAATTAAA-AGATAATT
1 AAATTAAATAGATAATT
40038220 AAATTAAATAGATAAT
1 AAATTAAATAGATAAT
40038236 ATAATCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
AAATTAAATAGATAATT
Found at i:40041996 original size:40 final size:39
Alignment explanation
Indices: 40041919--40042134 Score: 276
Period size: 40 Copynumber: 5.4 Consensus size: 39
40041909 AAACCAAGTA
* * *
40041919 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATG
* *
40041958 CCTTTGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATG
40041998 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATG
* *
40042038 CCTTCGGGACTTAGCCCGGA-ATTAGTCCCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
*
40042078 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATG
40042118 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
40042135 CGTTATCATC
Statistics
Matches: 162, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATG
Found at i:40046427 original size:16 final size:16
Alignment explanation
Indices: 40046408--40046442 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
40046398 TTATGTATGT
40046408 ATGACTGTAATCGAGC
1 ATGACTGTAATCGAGC
40046424 ATGACTGTAATCGAGC
1 ATGACTGTAATCGAGC
40046440 ATG
1 ATG
40046443 CCATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (16 bp):
ATGACTGTAATCGAGC
Found at i:40050167 original size:27 final size:27
Alignment explanation
Indices: 40050129--40050307 Score: 166
Period size: 27 Copynumber: 6.6 Consensus size: 27
40050119 TAAATTGTAC
40050129 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
40050156 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** *
40050182 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCGGTTTGACT-ATGT
*
40050210 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
40050238 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
40050265 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
40050292 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
40050308 GCTCAATATA
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.02
27 103 0.81
28 21 0.17
29 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:40050297 original size:82 final size:81
Alignment explanation
Indices: 40050126--40050307 Score: 240
Period size: 82 Copynumber: 2.2 Consensus size: 81
40050116 GATTAAATTG
* *
40050126 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
40050191 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * ** *
40050207 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* *
40050271 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
40050289 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
40050308 GCTCAATATA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 18 0.21
82 68 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGATCA
Found at i:40063744 original size:55 final size:54
Alignment explanation
Indices: 40063657--40063911 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
40063647 ATTAGGGTTT
* * *
40063657 AAGGATATCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
40063712 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
40063767 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
40063820 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
40063869 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
40063912 GTACCCGTGT
Statistics
Matches: 174, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 42 0.24
54 12 0.07
55 69 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:40063863 original size:108 final size:110
Alignment explanation
Indices: 40063667--40063913 Score: 325
Period size: 108 Copynumber: 2.3 Consensus size: 110
40063657 AAGGATATCG
*
40063667 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
40063732 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
**
40063777 TGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* * * *
40063839 ATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG---A--TACCA
65 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
40063879 TGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
40063914 ACCCGTGTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
102 32 0.26
103 2 0.02
104 1 0.01
107 8 0.07
108 48 0.39
109 8 0.07
110 24 0.20
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:40064124 original size:16 final size:16
Alignment explanation
Indices: 40064103--40064133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40064093 ATAAATTTGA
40064103 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40064119 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40064134 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40065538 original size:53 final size:54
Alignment explanation
Indices: 40065355--40065611 Score: 210
Period size: 55 Copynumber: 4.8 Consensus size: 54
40065345 ATTAGGGTTT
* * *
40065355 AAGGATACCGTGTAAGACTATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGG-TTCATAAGGC
* * * * *
40065410 AAGGAAATCTTGTAAGACCATGTCAAGACATGGCATTGAT-AGGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTT-C-ATAAGGC
* *
40065465 AAAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GTTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTCATAAGGC
* * * * *
40065518 AAGGCTACCATGTAAGACCATGTCAAGACACGGCAATGGTAAGTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTCATAAGGC
* * ** *
40065567 AAGGATACCACGTAAGACCATGACAATTCATGGCAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
40065612 ACCCGTGTAT
Statistics
Matches: 167, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
49 38 0.23
52 8 0.05
53 40 0.24
54 12 0.07
55 64 0.38
56 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTCATAAGGC
Found at i:40065822 original size:16 final size:16
Alignment explanation
Indices: 40065801--40065831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40065791 ATAAATTTGA
40065801 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40065817 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40065832 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40077889 original size:55 final size:54
Alignment explanation
Indices: 40077802--40078056 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
40077792 ATTAGGGTTT
* *
40077802 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
40077857 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
40077912 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCAAAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * * *
40077965 AAGGCTACCATGTGAGACCATGTCAAGACATGGCAA-TGGTAATTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* *
40078014 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
40078057 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 38 0.23
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:40078269 original size:16 final size:16
Alignment explanation
Indices: 40078248--40078278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40078238 ATAAATTTGA
40078248 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
40078264 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
40078279 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:40079768 original size:40 final size:41
Alignment explanation
Indices: 40079731--40079926 Score: 271
Period size: 40 Copynumber: 4.9 Consensus size: 41
40079721 GGATATAGCT
* *
40079731 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATA-GTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGGTA
*
40079771 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-T-GGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGGTA
* *
40079811 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTA-GTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGGTA
40079851 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T-GGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGGTA
40079891 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
40079927 CATCCGAATA
Statistics
Matches: 139, Mismatches: 8, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.01
40 135 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGGTA
Found at i:40079864 original size:80 final size:80
Alignment explanation
Indices: 40079731--40079922 Score: 323
Period size: 80 Copynumber: 2.4 Consensus size: 80
40079721 GGATATAGCT
* * * *
40079731 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
40079796 AGCCCGGATTTGGTA
66 AGCCCGGATTTGGTA
*
40079811 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTTACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACT
40079875 TAGCCCGGATTTGGTA
65 TAGCCCGGATTTGGTA
40079891 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
40079923 TTATCATCCG
Statistics
Matches: 106, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 1 0.01
80 105 0.99
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGGATTTGGTA
Found at i:40085609 original size:17 final size:17
Alignment explanation
Indices: 40085587--40085620 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40085577 ACAGGTCACT
40085587 CGAGACGACTGTGGACC
1 CGAGACGACTGTGGACC
40085604 CGAGACGACTGTGGACC
1 CGAGACGACTGTGGACC
40085621 TACTGTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (17 bp):
CGAGACGACTGTGGACC
Found at i:40087142 original size:25 final size:25
Alignment explanation
Indices: 40087113--40087192 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
40087103 ATAATCGGTC
*
40087113 AGCTCATACGAGCTGAGTAACAGTA
1 AGCTCATACGAGCTGAATAACAGTA
** *
40087138 AGCTCATACGAATTGAATAATAGTA
1 AGCTCATACGAGCTGAATAACAGTA
* * *
40087163 AGCTCATACGAGCTAAATATCGGTA
1 AGCTCATACGAGCTGAATAACAGTA
40087188 AGCTC
1 AGCTC
40087193 TCTCGAGATG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCTCATACGAGCTGAATAACAGTA
Found at i:40090040 original size:45 final size:45
Alignment explanation
Indices: 40089943--40090349 Score: 554
Period size: 45 Copynumber: 9.1 Consensus size: 45
40089933 TTTTCTCAAA
* *
40089943 TCACCGGCATT-TCA-CCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTAT-AGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * ** *
40089985 TCACCTGCATTATAGCCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATT
* ** * *
40090030 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCATGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * *
40090075 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
40090120 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCAGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
40090165 TCACCTGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * *
40090210 TCATCAGCATTATAGCCTGCTAGGCTTAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
40090255 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
40090300 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
40090345 TCACC
1 TCACC
40090350 AGTTCTTTCC
Statistics
Matches: 326, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
42 11 0.03
43 12 0.04
44 8 0.02
45 295 0.90
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:40090057 original size:25 final size:25
Alignment explanation
Indices: 40090029--40090102 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
40090019 CGAATAGTAT
40090029 CTCACCGGCATTATAGCCTACTAGG
1 CTCACCGGCATTATAGCCTACTAGG
** * * *
40090054 CTCAAAGGCATGA-A---TAATA-T
1 CTCACCGGCATTATAGCCTACTAGG
*
40090074 CTCACCGGCATTATAGCCTGCTAGG
1 CTCACCGGCATTATAGCCTACTAGG
40090099 CTCA
1 CTCA
40090103 AAAGCCCGAA
Statistics
Matches: 33, Mismatches: 11, Indels: 10
0.61 0.20 0.19
Matches are distributed among these distances:
20 10 0.30
21 5 0.15
24 4 0.12
25 14 0.42
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (25 bp):
CTCACCGGCATTATAGCCTACTAGG
Found at i:40100339 original size:40 final size:40
Alignment explanation
Indices: 40100259--40100479 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
40100249 TATTTGGACG
* *
40100259 ATATCCGGGCTAAGTCCTGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
40100298 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
40100338 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
** *
40100378 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * *
40100418 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
40100458 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40100480 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 41 0.25
40 118 0.72
41 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:40100392 original size:80 final size:79
Alignment explanation
Indices: 40100259--40100479 Score: 320
Period size: 80 Copynumber: 2.8 Consensus size: 79
40100249 TATTTGGACG
* * *
40100259 ATATCCGGGCTAAGTCCTGAAGGCATTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCA
*
40100323 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
* *
40100338 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
40100403 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* *
40100418 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGG
40100480 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 38 0.29
80 90 0.69
81 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCAAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:40108525 original size:40 final size:40
Alignment explanation
Indices: 40108445--40108665 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
40108435 TATTCGGACG
*
40108445 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
40108484 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
*
40108524 ATATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTA-TTGACT
** *
40108564 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
* * * *
40108604 ATATCCGGGCTAAGACCCGAAGGCATTTGTCCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTA-TTGACT
*
40108644 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
40108666 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 42 0.26
40 117 0.71
41 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
Found at i:40108579 original size:80 final size:79
Alignment explanation
Indices: 40108445--40108665 Score: 329
Period size: 80 Copynumber: 2.8 Consensus size: 79
40108435 TATTCGGACG
* *
40108445 ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCA
*
40108509 GTTGTGCTATTGACT
65 GTTGTGCTAGTGACT
*
40108524 ATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
*
40108589 TTTGTGCTAGTGACT
65 GTTGTGCTAGTGACT
* * *
40108604 ATATCCGGGCTAAGACCCGAAGGCATTTGTCCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
40108666 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 39 0.30
80 90 0.69
81 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAG
TTGTGCTAGTGACT
Found at i:40111274 original size:25 final size:25
Alignment explanation
Indices: 40111196--40111276 Score: 126
Period size: 25 Copynumber: 3.2 Consensus size: 25
40111186 CTATAATCGA
*
40111196 TAAGCTCATACGAGCTAAATAATGG
1 TAAGCTCATACGAGCTGAATAATGG
* *
40111221 TAAACTCATACGAGCTGAATAACGG
1 TAAGCTCATACGAGCTGAATAATGG
*
40111246 TAAGCTCATACGAGCTGAATATTGG
1 TAAGCTCATACGAGCTGAATAATGG
40111271 TAAGCT
1 TAAGCT
40111277 TTCTCGAGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAATGG
Found at i:40111297 original size:50 final size:51
Alignment explanation
Indices: 40111190--40111298 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 51
40111180 TGTGAGCTAT
* *
40111190 AATCGATAAGCTCATACGAGCTAAATAATGGTAAACTCATACGAGCTGAAT
1 AATCGGTAAGCTCATACGAGCTAAATAATGGTAAACTCATACGAGCTGAAG
* * *
40111241 AA-CGGTAAGCTCATACGAGCTGAATATTGGTAAGCTTTC-T-CGAGCT-AAG
1 AATCGGTAAGCTCATACGAGCTAAATAATGGTAAAC--TCATACGAGCTGAAG
40111290 AATCGGTAA
1 AATCGGTAA
40111299 CCCTAATTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
49 4 0.08
50 41 0.82
51 3 0.06
52 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (51 bp):
AATCGGTAAGCTCATACGAGCTAAATAATGGTAAACTCATACGAGCTGAAG
Found at i:40119739 original size:37 final size:37
Alignment explanation
Indices: 40119678--40119756 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
40119668 TTATTACGAA
* *
40119678 GTCTTACCCGAACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
* *
40119715 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCT-CCACACGAAGTCATCGG
40119752 GTCTT
1 GTCTT
40119757 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:40119953 original size:47 final size:47
Alignment explanation
Indices: 40119875--40120256 Score: 595
Period size: 47 Copynumber: 8.1 Consensus size: 47
40119865 CCCTTCGGGA
* * * * * *
40119875 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
***
40119922 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40119969 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40120016 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40120063 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40120112 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40120159 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40120206 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40120253 CTTA
1 CTTA
40120257 CTATCATTTC
Statistics
Matches: 314, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.01
47 266 0.85
49 46 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40120109 original size:143 final size:141
Alignment explanation
Indices: 40119926--40120256 Score: 590
Period size: 143 Copynumber: 2.3 Consensus size: 141
40119916 CTCAGCCCCG
*
40119926 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
* *
40119991 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
40120056 ATTAGGCCTTA
131 ATTAGGCCTTA
*
40120067 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTT
1 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTT
*
40120132 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
64 TCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGG
*
40120197 CTATTAGGCCTTA
129 CCATTAGGCCTTA
40120210 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
40120257 CTATCATTTC
Statistics
Matches: 181, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 46 0.25
143 135 0.75
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
ATTAGGCCTTA
Found at i:40130664 original size:46 final size:46
Alignment explanation
Indices: 40130577--40130750 Score: 135
Period size: 46 Copynumber: 3.7 Consensus size: 46
40130567 ACATCTCGTA
* * * *
40130577 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGCCTACGTCTCAAG
* * *
40130623 GCCGATGCATGTCCAAGACATGTCTTATAGTAGCACT-CGTCTCAAT
1 GCCGATGCATGTCCAAGACATGTCTTACACTAGC-CTACGTCTCAAG
* *
40130669 GCCAATGACATGTCCCAA-ACATGGTCTTACACTAGCTCTTA--TACT-ATG
1 GCCGATG-CATGT-CCAAGACAT-GTCTTACACTAGC-C-TACGT-CTCAAG
* *
40130717 GTCGATGCATGTCCCAA-ACATGTCTCACACTAGC
1 GCCGATGCATGT-CCAAGACATGTCTTACACTAGC
40130751 TCACAATAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
46 55 0.52
47 24 0.23
48 23 0.22
49 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCAAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:40139511 original size:37 final size:37
Alignment explanation
Indices: 40139461--40139534 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
40139451 AATGACTCAA
*
40139461 AAATAATAATAAATAATTTATTCAACTGTAAATTTAT
1 AAATAATAATAAATAATTTATTCAACTCTAAATTTAT
*
40139498 AAATAATAATAAATAATTTATTCAACTCTGAATTTAT
1 AAATAATAATAAATAATTTATTCAACTCTAAATTTAT
40139535 GGTCTCGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
AAATAATAATAAATAATTTATTCAACTCTAAATTTAT
Found at i:40141449 original size:18 final size:18
Alignment explanation
Indices: 40141416--40141451 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
40141406 GAGGAAGTGC
* *
40141416 TAAAAAAATGAGAAAATA
1 TAAAAAAATAAAAAAATA
40141434 TAAAAAAATAAAAAAATA
1 TAAAAAAATAAAAAAATA
40141452 CCAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
TAAAAAAATAAAAAAATA
Found at i:40149613 original size:40 final size:40
Alignment explanation
Indices: 40149558--40149796 Score: 307
Period size: 40 Copynumber: 6.0 Consensus size: 40
40149548 CTTTTAGTGA
* * *
40149558 TATATCCGGGTTAAGTCCCGAAGAGCATACGTGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
40149598 TATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
40149638 TATATCAGGGCTAAGTCCCGAAGAGCATACGTGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
40149678 CATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
** * * *
40149718 TATATTAGGGTTAAGTCCCGAAGAGCATTCGTACTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
40149758 TATATCCGGGCTAAGTCCCAAAGAGCATTCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
40149797 ATGTGTATTC
Statistics
Matches: 167, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Done.