Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 147 of 175
Found at i:44843121 original size:5 final size:5
Alignment explanation
Indices: 44843065--44843122 Score: 62
Period size: 5 Copynumber: 11.2 Consensus size: 5
44843055 CAACTTTTTT
* * * *
44843065 GGCCC TGGCCG GGCCT GGCCT GGCCC GGCCC GGCCC TGGCCT GGCCC GGCCC
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC -GGCCC GGCCC GGCCC
44843117 GGCCC G
1 GGCCC G
44843123 AATATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
5 38 0.83
6 8 0.17
ACGTcount: A:0.00, C:0.50, G:0.41, T:0.09
Consensus pattern (5 bp):
GGCCC
Found at i:44843121 original size:21 final size:21
Alignment explanation
Indices: 44843064--44843121 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
44843054 TCAACTTTTT
*
44843064 TGGCCCTGG-CCGGGCCTGGCC
1 TGGCCC-GGCCCGGCCCTGGCC
44843085 TGGCCCGGCCCGGCCCTGGCC
1 TGGCCCGGCCCGGCCCTGGCC
44843106 TGGCCCGGCCCGGCCC
1 TGGCCCGGCCCGGCCC
44843122 GAATATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.00, C:0.50, G:0.40, T:0.10
Consensus pattern (21 bp):
TGGCCCGGCCCGGCCCTGGCC
Found at i:44845079 original size:19 final size:19
Alignment explanation
Indices: 44845055--44845093 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
44845045 TAAAAAAACC
**
44845055 TATATATATGTATATTTTT
1 TATATATACATATATTTTT
44845074 TATATATACATATATTTTT
1 TATATATACATATATTTTT
44845093 T
1 T
44845094 TTTTGCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATATACATATATTTTT
Found at i:44845081 original size:21 final size:21
Alignment explanation
Indices: 44845055--44845095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44845045 TAAAAAAACC
* *
44845055 TATATATATGTATATTTTTTA
1 TATATACATATATATTTTTTA
*
44845076 TATATACATATATTTTTTTT
1 TATATACATATATATTTTTT
44845096 TTGCAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TATATACATATATATTTTTTA
Found at i:44845768 original size:99 final size:98
Alignment explanation
Indices: 44845637--44845834 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 98
44845627 AAAAAAATAA
* * *
44845637 TAAATGAAATATTCCGAGTTTGGGATTTTAGAGGATTCGTGCCCTAACGTATTGGGTGTGATTTA
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTA
44845702 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
44845735 TAAAGGAAATATTCCAAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCC-AAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
*
44845800 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 ATTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
44845834 T
1 T
44845835 TTTATTGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 14 0.15
99 81 0.85
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTA
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:44846349 original size:9 final size:10
Alignment explanation
Indices: 44846330--44846447 Score: 51
Period size: 10 Copynumber: 12.5 Consensus size: 10
44846320 TATATGTAAA
44846330 ATATAAA-AT
1 ATATAAATAT
44846339 ATA-AAATAT
1 ATATAAATAT
*
44846348 ATATAAGTAT
1 ATATAAATAT
44846358 ATAT--AT-T
1 ATATAAATAT
44846365 CATGA-AAATA-
1 -AT-ATAAATAT
* *
44846375 A-AAAAATGT
1 ATATAAATAT
44846384 ATATAAATAT
1 ATATAAATAT
* *
44846394 ATATAGATTTGT
1 ATATA-A-ATAT
44846406 ATATAAAT-T
1 ATATAAATAT
44846415 ATA-AAATAT
1 ATATAAATAT
* *
44846424 A-AAAAACAT
1 ATATAAATAT
*
44846433 ATATAAGTAT
1 ATATAAATAT
44846443 ATATA
1 ATATA
44846448 TATGTAAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 29
0.67 0.10 0.24
Matches are distributed among these distances:
7 2 0.02
8 15 0.18
9 23 0.28
10 33 0.40
11 2 0.02
12 7 0.09
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (10 bp):
ATATAAATAT
Found at i:44847815 original size:66 final size:68
Alignment explanation
Indices: 44847736--44847881 Score: 206
Period size: 75 Copynumber: 2.1 Consensus size: 68
44847726 AAACTAATTG
*
44847736 TTAGTAAAATTATCAAATTATTAATTG-TTAATTG-TATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTGTAACAAAATCTAACATT
44847799 TGA
66 TGA
44847802 TTAGTAAAATTATCAAATTATTAATTGTATTAATTGTTAATTATATTAATTGTTGTAACAAAATC
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTG-----T-TATTAATTGTTGTAACAAAATC
44847867 TAACATTTGA
59 TAACATTTGA
44847877 TTAGT
1 TTAGT
44847882 TTACATTTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
66 27 0.39
68 7 0.10
75 36 0.51
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTTATTAATTGTTGTAACAAAATCTAACATT
TGA
Found at i:44847841 original size:16 final size:16
Alignment explanation
Indices: 44847817--44847855 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
44847807 AAAATTATCA
* *
44847817 AATTATTAATTGTATT
1 AATTGTTAATTATATT
44847833 AATTGTTAATTATATT
1 AATTGTTAATTATATT
44847849 AATTGTT
1 AATTGTT
44847856 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:44848119 original size:19 final size:19
Alignment explanation
Indices: 44848092--44848137 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
44848082 TCTGTCGGGG
*
44848092 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
*
44848111 AAATAAAATTGAAAACTTA
1 AAATAAAATTGAAAACTAA
*
44848130 AACTAAAA
1 AAATAAAA
44848138 ACTTAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:44848138 original size:13 final size:13
Alignment explanation
Indices: 44848104--44848152 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
44848094 ATGAAATTGA
*
44848104 AAACTAAAAA-TA
1 AAACTAAAAACTT
* *
44848116 AAATTGAAAACTT
1 AAACTAAAAACTT
44848129 AAACTAAAAACTT
1 AAACTAAAAACTT
44848142 AAACATAAAAA
1 AAAC-TAAAAA
44848153 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACTAAAAACTT
Found at i:44848276 original size:16 final size:16
Alignment explanation
Indices: 44848255--44848287 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44848245 TATATTTTTT
44848255 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
44848271 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
44848287 A
1 A
44848288 TATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:44849874 original size:108 final size:103
Alignment explanation
Indices: 44849752--44849966 Score: 279
Period size: 102 Copynumber: 2.0 Consensus size: 103
44849742 AAAATTATTT
* *
44849752 TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTTTTTAAAAAAAATTTTCTTAT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA----TTTTAAAAAAAATTTTC-T-T
*
44849817 TTTTTTTCCTGTCAGAATCAGATATAAATATACGAAAAAAA-AA
60 TTTTTTTCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
* ****
44849860 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTGCAATTTTAAAATTTTTTTTCTTTTTTTT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTTCTTTTTTTT
* *
44849925 TCGTTTCAGAATCAAATATAAATATACGAAAAAAATAA
66 TCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
44849963 TTTT
1 TTTT
44849967 CTTTTTCTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
102 39 0.41
103 7 0.07
104 13 0.14
108 37 0.39
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (103 bp):
TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTTCTTTTTTTT
TCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
Found at i:44854479 original size:21 final size:21
Alignment explanation
Indices: 44854455--44854507 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
44854445 TTAAAATAAT
*
44854455 TTTATTAATTA-CTATTAATCA
1 TTTATT-ATTATCTATCAATCA
*
44854476 TTTATTATTATCTATCAATTA
1 TTTATTATTATCTATCAATCA
44854497 TTT-TTCATTAT
1 TTTATT-ATTAT
44854508 GTTGCTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTATTATTATCTATCAATCA
Found at i:44857550 original size:43 final size:43
Alignment explanation
Indices: 44857455--44857621 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
44857445 TTACAAAAAT
* * ** * *
44857455 AAACCCCGCTAAAGGTCATGTTCTTTAGCGGCGC-ACCGAAAA
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * *
44857497 AAACAACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCGACGC
1 AAAC-GCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * * **
44857541 AAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTTGCTTCAC
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT-CGACAC
* *
44857585 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT
44857622 TATAAAAACG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 4 0.04
43 57 0.55
44 42 0.41
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
Found at i:44858025 original size:21 final size:21
Alignment explanation
Indices: 44858001--44858072 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
44857991 TTCTTTTGAA
* *
44858001 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCCG
44858022 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCCG
44858043 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCCG
44858064 CCTCTGCTT
1 CCTCTGCTT
44858073 TAAGTTATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.01, C:0.49, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCCG
Found at i:44863566 original size:9 final size:9
Alignment explanation
Indices: 44863552--44863797 Score: 249
Period size: 9 Copynumber: 27.9 Consensus size: 9
44863542 TTTTTATGTA
44863552 TTATGTAAG
1 TTATGTAAG
44863561 TTATGTACTAAG
1 TTATG---TAAG
44863573 TTATGT-A-
1 TTATGTAAG
44863580 TTATGTAAG
1 TTATGTAAG
44863589 TTATGTAAG
1 TTATGTAAG
*
44863598 TTGTGT-A-
1 TTATGTAAG
*
44863605 TTATGTGAG
1 TTATGTAAG
44863614 TTATGTAAG
1 TTATGTAAG
*
44863623 TTATGGAAG
1 TTATGTAAG
* *
44863632 TTATTTAAT
1 TTATGTAAG
44863641 TTATGTAAG
1 TTATGTAAG
*
44863650 TTATGTAGG
1 TTATGTAAG
*
44863659 CTATGT-A-
1 TTATGTAAG
* *
44863666 TTATCTAAA
1 TTATGTAAG
*
44863675 TAATGTAAG
1 TTATGTAAG
*
44863684 TTA-GGAATG
1 TTATGTAA-G
44863693 TTATGT-A-
1 TTATGTAAG
44863700 TTATGTAAG
1 TTATGTAAG
44863709 TTATGTAAG
1 TTATGTAAG
* *
44863718 TTATTTAAT
1 TTATGTAAG
44863727 TTATGTAAG
1 TTATGTAAG
44863736 TTATGTAAG
1 TTATGTAAG
* *
44863745 TTATTTAAT
1 TTATGTAAG
44863754 TTATGTAAG
1 TTATGTAAG
44863763 TTATGTAAG
1 TTATGTAAG
*
44863772 TTATGTAAT
1 TTATGTAAG
44863781 TTATGTAAG
1 TTATGTAAG
44863790 TTATGTAA
1 TTATGTAA
44863798 TTAGAAATTT
Statistics
Matches: 194, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
7 21 0.11
8 9 0.05
9 154 0.79
10 1 0.01
12 9 0.05
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:44863578 original size:28 final size:27
Alignment explanation
Indices: 44863545--44863627 Score: 111
Period size: 25 Copynumber: 3.2 Consensus size: 27
44863535 TGATATATTT
44863545 TTATGTATTATGTAAGTTATGTACTAAG
1 TTATGTATTATGTAAGTTATGTA-TAAG
44863573 TTATGTATTATGTAAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
* *
44863598 TTGTGTATTATGTGAGTTATG--TAAG
1 TTATGTATTATGTAAGTTATGTATAAG
44863623 TTATG
1 TTATG
44863628 GAAGTTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
25 31 0.60
28 21 0.40
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (27 bp):
TTATGTATTATGTAAGTTATGTATAAG
Found at i:44863759 original size:95 final size:95
Alignment explanation
Indices: 44863582--44863796 Score: 243
Period size: 95 Copynumber: 2.2 Consensus size: 95
44863572 GTTATGTATT
* * * * *
44863582 ATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAAGTTATTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATGTAAGTTATGT
*
44863647 AAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGCTATGTATTATCTAAATA
** *
44863677 ATGTAAGTTA-GGAATGTTATGTATTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATGTAAGTTATG
* ** * * *
44863741 TAAGTTATTTAATTTATGTAAGTTATGTAAGTT
65 TAAGTTATGTAAGCTATGT-A-TTATCTAAATA
* *
44863774 ATGTAATTTATGTAAGTTATGTA
1 ATGTAAGTTATGGAAGTTATGTA
44863797 ATTAGAAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
94 3 0.03
95 67 0.68
96 1 0.01
97 25 0.25
98 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (95 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAGTTATGTAAGTTATGGAAGTTATGTAAGTTATGT
AAGTTATGTAAGCTATGTATTATCTAAATA
Found at i:44863830 original size:20 final size:20
Alignment explanation
Indices: 44863807--44863907 Score: 102
Period size: 20 Copynumber: 5.2 Consensus size: 20
44863797 ATTAGAAATT
44863807 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
44863827 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
44863847 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
44863864 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
44863884 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
44863904 TTAT
1 TTAT
44863908 GTAATTCGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.02
17 9 0.14
18 2 0.03
19 2 0.03
20 48 0.75
21 2 0.03
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:44863852 original size:57 final size:57
Alignment explanation
Indices: 44863787--44863947 Score: 268
Period size: 57 Copynumber: 2.8 Consensus size: 57
44863777 TAATTTATGT
44863787 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
* * * *
44863844 GAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATAT
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
*
44863901 AAGTTATGTAATTCGAAATTTTATCTTAATATTATCATAAGTTATCT
1 AAGTTATGTAATTAGAAATTTTATCTTAATATTAT-ATAAGTTATCT
44863948 AAAATTAGAA
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 86 0.90
58 10 0.10
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (57 bp):
AAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAAC
Found at i:44864039 original size:20 final size:20
Alignment explanation
Indices: 44864016--44864114 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
44864006 ATTAGAAATT
44864016 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
44864036 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
44864056 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
44864073 TTATCTTAATA-T-TATAAG
1 TTATCTTAATATTATATAAG
*
44864091 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
44864111 TTAT
1 TTAT
44864115 GTAATTCGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.02
17 9 0.15
18 13 0.22
19 6 0.10
20 31 0.52
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:44864045 original size:57 final size:56
Alignment explanation
Indices: 44863984--44864153 Score: 270
Period size: 57 Copynumber: 3.0 Consensus size: 56
44863974 AAATTAGAAA
44863984 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATT-TATAAGTTATC
*
44864041 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATA-TTATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
* ** *
44864096 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATT-TATAAGTTATC
44864153 T
1 T
44864154 AAAATTAGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
55 49 0.47
56 2 0.02
57 54 0.51
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (56 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
Found at i:44864114 original size:55 final size:55
Alignment explanation
Indices: 44863984--44864140 Score: 242
Period size: 55 Copynumber: 2.8 Consensus size: 55
44863974 AAATTAGAAA
* *
44863984 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATA-T-TATAAGTAATC
*
44864041 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
* * *
44864096 TTAATATTATATAAGTTATGTAATTCGAAATTTTATCTTAATATT
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATT
44864141 GTATAAGTTA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 51 0.54
56 1 0.01
57 43 0.45
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (55 bp):
TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
Found at i:44864194 original size:112 final size:112
Alignment explanation
Indices: 44863997--44864198 Score: 271
Period size: 112 Copynumber: 1.8 Consensus size: 112
44863987 ATATTAAACG
* * *
44863997 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
** **
44864062 AATTAGAAATTTTATCTTAATATTATAAGTAATCTTAATATTATATA
66 AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
* * ** *
44864109 AGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATC-TAAAATTAGAAATTGATGTG
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTA-AAAGAGATATG
*
44864173 TACTTAGAAATTAGAAATTAATATTA
65 TAATTAGAAATTAGAAATTAATATTA
44864199 AACGAGTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 7 0.09
112 69 0.91
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (112 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
Found at i:44864234 original size:206 final size:209
Alignment explanation
Indices: 44863788--44864250 Score: 896
Period size: 206 Copynumber: 2.2 Consensus size: 209
44863778 AATTTATGTA
44863788 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
44863853 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
66 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
44863918 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
131 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
44863983 ATTAATATTAAACG
196 ATTAATATTAAACG
44863997 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
44864062 AATTAGAAATTTTATCTTAATA-T-TATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
66 AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
*
44864125 ATTTTATCTTAATATTGT-ATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
131 ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
44864189 ATTAATATTAAACG
196 ATTAATATTAAACG
44864203 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAA
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAA
44864251 AACGAACTAA
Statistics
Matches: 253, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
206 108 0.43
207 57 0.23
208 1 0.00
209 87 0.34
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (209 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
AATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAA
ATTTTATCTTAATATTATCATAAGTTATCTAAAATTAGAAATTGATGTGTACTTAGAAATTAGAA
ATTAATATTAAACG
Found at i:44866596 original size:7 final size:7
Alignment explanation
Indices: 44866586--44866646 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
44866576 CCGTAAATCT
44866586 TAAACCC
1 TAAACCC
**
44866593 TAAACTA
1 TAAACCC
*
44866600 TAAACCT
1 TAAACCC
*
44866607 TAAACTC
1 TAAACCC
44866614 TAAACCC
1 TAAACCC
* * *
44866621 CAAATCG
1 TAAACCC
*
44866628 TAAACCT
1 TAAACCC
44866635 TAAACCC
1 TAAACCC
44866642 TAAAC
1 TAAAC
44866647 ACCTCAATTA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:44866608 original size:21 final size:21
Alignment explanation
Indices: 44866579--44866618 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44866569 GCCTTAACCG
*
44866579 TAAATCTTAAACCCTAAACTA
1 TAAACCTTAAACCCTAAACTA
*
44866600 TAAACCTTAAACTCTAAAC
1 TAAACCTTAAACCCTAAAC
44866619 CCCAAATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACTA
Found at i:44866617 original size:28 final size:28
Alignment explanation
Indices: 44866586--44866646 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
44866576 CCGTAAATCT
* *
44866586 TAAACCCTAAA-CTATAAACCTTAAACTC
1 TAAACCCCAAATC-ATAAACCTTAAACCC
*
44866614 TAAACCCCAAATCGTAAACCTTAAACCC
1 TAAACCCCAAATCATAAACCTTAAACCC
44866642 TAAAC
1 TAAAC
44866647 ACCTCAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAACCCCAAATCATAAACCTTAAACCC
Found at i:44867460 original size:93 final size:93
Alignment explanation
Indices: 44867295--44867475 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
44867285 GACCAAACGT
* * * * *
44867295 TGCGTTTTGGTTAAGCTTTTTTGCGGCGTTTTTTATAATGCGCTGCTAATACTAAGCTTTAACAG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGAAGCTTTAACAG
*
44867360 CGTTTTTTTATAAGCGCCACTAAAACAC
66 CGATTTTTTATAAGCGCCACTAAAACAC
* * * *
44867388 TGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATA-GAGTGCTTTAGCG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGA-AGCTTTAACA
44867452 GCGATTTTTTATAAGCGCCACTAA
65 GCGATTTTTTATAAGCGCCACTAA
44867476 TACTAATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 76 0.99
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (93 bp):
TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGAAGCTTTAACAG
CGATTTTTTATAAGCGCCACTAAAACAC
Found at i:44867572 original size:207 final size:206
Alignment explanation
Indices: 44867185--44867589 Score: 560
Period size: 207 Copynumber: 2.0 Consensus size: 206
44867175 AAACGGCGCG
*
44867185 GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACTGTGATTTAGCGGCGTT
1 GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCGTT
* * ** * *
44867250 TTTGCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCGTTTTGGTTAAGCTTTT
66 TTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATATT
* **
44867315 TTGCGGCGTTTTTTATAATGCGCTGCTAATACTAAGCTTTAACAGCGTTTTTTTATAAGCGCCAC
131 TTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCCAC
44867380 TAAAACACTGC
196 TAAAACACTGC
* * * * *
44867391 GTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTAGCGGCGA
1 GTTTTGGTTAACA-ATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCG-
* * ** *
44867456 TTTTT-TATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGTGTTTTGGTTAAGATA
64 TTTTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATA
* ** * *
44867520 TTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTAGCGGCGTTTTTGCATAAGCGCC
129 TTTTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCC
44867585 ACTAA
194 ACTAA
44867590 TTCTATTATA
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
206 12 0.07
207 155 0.90
208 5 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (206 bp):
GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCGTT
TTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATATT
TTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCCAC
TAAAACACTGC
Found at i:44867584 original size:114 final size:114
Alignment explanation
Indices: 44867384--44867759 Score: 506
Period size: 114 Copynumber: 3.3 Consensus size: 114
44867374 CGCCACTAAA
**
44867384 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* *
44867449 GCGGCGATTTTT-TATAAGCGCCACTAATACTAATATACCTCAAGATCGT
66 GCGGCG-TTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * *
44867498 ACACTGTGTTTTGGTTAAGATATTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* * *
44867563 GCGGCGTTTTTGCATAAGCGCCACTAATTCTATTATACCTTAAGATCAT
66 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * * * *
44867612 ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAA-GCGCCGCTAGTGCTGTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* * *
44867676 GCGACATTTTTGCATAAGCGCCATTAATTCTAATATACCTCAAGATCGT
66 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * * * *
44867725 ACGCTGCATTTTGTTTAACAT-TTTCTGCGGCGCTT
1 ACACTGCGTTTTGGTTAAGATATTT-TGTGGCGCTT
44867760 ACAAATAAAC
Statistics
Matches: 233, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
112 3 0.01
113 95 0.41
114 135 0.58
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (114 bp):
ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
Found at i:44867798 original size:227 final size:227
Alignment explanation
Indices: 44867387--44867800 Score: 507
Period size: 227 Copynumber: 1.8 Consensus size: 227
44867377 CACTAAAACA
* *
44867387 CTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTAGCG
1 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAGAGTGCTTTAGCG
* * ** *
44867452 GCGATTTTTTATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGTGTTTTGGTTAAG
66 ACGATTTTTCATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTAAC
* **** * * * * *
44867517 ATATTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTAGCGGCGTTTTTGCATAAGC
131 ATATTTTGCGGCGTTACAAATAATACACCGCTAATA-TGTGCTATAACGGCGTTTTTGCATAAGC
44867582 GCCACTAATTCTATTATACCTTAAGATCATACG
195 GCCACTAATTCTATTATACCTTAAGATCATACG
* *
44867615 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAA-GCGCCGCTAGT-GCTGTGCTTTAGC
1 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAG-AGTGCTTTAGC
* * * *
44867678 GAC-ATTTTTGCATAAGCGCCATTAATTCTAATATACCTCAAGATCGTACGCTGCATTTTGTTTA
65 GACGATTTTT-CATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTA
*
44867742 ACAT-TTTCTGCGGCGCTTACAAATAA-ACACCGCTAAT-TGTGCTACATAATGGCGTTTTT
129 ACATATTT-TGCGGCG-TTACAAATAATACACCGCTAATATGTGCT--ATAACGGCGTTTTT
44867801 ATAGTGCGCC
Statistics
Matches: 156, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
225 5 0.03
226 10 0.06
227 98 0.63
228 43 0.28
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (227 bp):
CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAGAGTGCTTTAGCG
ACGATTTTTCATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTAAC
ATATTTTGCGGCGTTACAAATAATACACCGCTAATATGTGCTATAACGGCGTTTTTGCATAAGCG
CCACTAATTCTATTATACCTTAAGATCATACG
Found at i:44869800 original size:22 final size:23
Alignment explanation
Indices: 44869772--44869824 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
44869762 TTTTAAAAAA
*
44869772 AATATTTA-TA-TTATATTATTTT
1 AATATTTACTATTTA-ATAATTTT
44869794 AATATTTACTATTTAATAATTTT
1 AATATTTACTATTTAATAATTTT
44869817 ATATATTT
1 A-ATATTT
44869825 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 10 0.37
24 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTACTATTTAATAATTTT
Found at i:44872052 original size:16 final size:17
Alignment explanation
Indices: 44872011--44872053 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
44872001 TTAAAATTTG
44872011 AAAATTTATGTGGTTTCC
1 AAAATTTATGT-GTTTCC
**
44872029 AATTTTTATGT-TTTCC
1 AAAATTTATGTGTTTCC
44872045 AAAATTTAT
1 AAAATTTAT
44872054 TGTATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (17 bp):
AAAATTTATGTGTTTCC
Found at i:44874154 original size:19 final size:19
Alignment explanation
Indices: 44874122--44874160 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44874112 GGTCTTTGGC
44874122 AAAAATAATACAAAAAAAT
1 AAAAATAATACAAAAAAAT
*
44874141 AAAAA-AATACCAAAATAAT
1 AAAAATAATA-CAAAAAAAT
44874160 A
1 A
44874161 TATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAATACAAAAAAAT
Found at i:44874412 original size:24 final size:23
Alignment explanation
Indices: 44874377--44874421 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
44874367 GATTATCTTG
*
44874377 TTATTATGTTTTTTTGTATAGTTT
1 TTATTATGTTTTGTTGT-TAGTTT
*
44874401 TTATTATTTTTTGTTGTTAGT
1 TTATTATGTTTTGTTGTTAGT
44874422 GTAGTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (23 bp):
TTATTATGTTTTGTTGTTAGTTT
Found at i:44874692 original size:40 final size:40
Alignment explanation
Indices: 44874630--44874705 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
44874620 TTATATTATT
* **
44874630 GTTAGTTATTATTTTTAATAAAACCCTAATTATTATTTTTA
1 GTTAGTTATTATTTTGAATAAAAAACT-ATTATTATTTTTA
*
44874671 GTTAG-TATTATTTTGAGTAAAAAACTATTATTATT
1 GTTAGTTATTATTTTGAATAAAAAACTATTATTATT
44874706 GTTATTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.29
40 17 0.55
41 5 0.16
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (40 bp):
GTTAGTTATTATTTTGAATAAAAAACTATTATTATTTTTA
Found at i:44878167 original size:12 final size:12
Alignment explanation
Indices: 44878150--44878183 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44878140 GAATGTAATT
*
44878150 GCTCGGGGTCTG
1 GCTCGGGCTCTG
44878162 GCTCGGGCTCTG
1 GCTCGGGCTCTG
*
44878174 GTTCGGGCTC
1 GCTCGGGCTC
44878184 CGGTTCGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.44, T:0.26
Consensus pattern (12 bp):
GCTCGGGCTCTG
Found at i:44880095 original size:154 final size:152
Alignment explanation
Indices: 44879821--44880361 Score: 720
Period size: 154 Copynumber: 3.5 Consensus size: 152
44879811 TCAAAAAAAA
* *
44879821 TTAGTAAAAAACCCTTGTTTCGGCCATTTGTTCGTATTTTTTCCCCGGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
**
44879886 AA-ATGCTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTCATTAA
66 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT-ATTAA
44879950 TTTAGTGTGTTTTTTAAATAAAT
130 TTTAGTGTGTTTTTTAAATAAAT
* * *
44879973 TTAG-AAAATAACCCTTATTTCGGCCCTTTGCTCGTA-TTTTT-CCCTGATTTTATCACTTTTAA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTAC-TTT-A
44880035 TAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
63 -AAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-T
* * * * *
44880099 ATTAATTAATTCTATTTTTCTTAAA-AATT
125 ATTAATTTAGTGT-GTTTT-TTAAATAAAT
* * *
44880128 TTAGTAAAAAACCTTTATTTCGTCCATTTGTTTGTATTTTTTCCCCTGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
44880193 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAA
66 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA-TTATTAA
44880258 TTTAGTGTGTTTTTTAAATAAAT
130 TTTAGTGTGTTTTTTAAATAAAT
** * *
44880281 TTAAAAAAATAACCCTTATTTCGGCCCTTTATTCGTATTGTTTT-CCC-GAATTTTATTACTTTA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATT-TTTTCCCCTG-ATTTTATTACTTTA
44880344 AATAAATATATATATTTT
63 AA-AAATATAT-TATTTT
44880362 ATTTTGTTAT
Statistics
Matches: 339, Mismatches: 30, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
150 13 0.04
151 12 0.04
152 34 0.10
153 21 0.06
154 173 0.51
155 49 0.14
156 23 0.07
157 14 0.04
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (152 bp):
TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTATTAAT
TTAGTGTGTTTTTTAAATAAAT
Found at i:44880766 original size:15 final size:15
Alignment explanation
Indices: 44880729--44880773 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
44880719 CTTCCTTCCC
*
44880729 TCTTCTTCTTCTCCTTT
1 TCTT-TTCTT-TCTTTT
44880746 TCTTTTCTTTCTTTT
1 TCTTTTCTTTCTTTT
*
44880761 TTTTTTCTTTCTT
1 TCTTTTCTTTCTT
44880774 CTCCTTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 17 0.65
16 5 0.19
17 4 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTCTTTCTTTT
Found at i:44886380 original size:24 final size:24
Alignment explanation
Indices: 44886352--44886402 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
44886342 TTGTGCTATA
44886352 TGCGACCTTCTTGTCCATAAATAT
1 TGCGACCTTCTTGTCCATAAATAT
44886376 TGCGACCTTCTTGTCCATAAATAT
1 TGCGACCTTCTTGTCCATAAATAT
44886400 TGC
1 TGC
44886403 ATTTCATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (24 bp):
TGCGACCTTCTTGTCCATAAATAT
Found at i:44886845 original size:138 final size:138
Alignment explanation
Indices: 44886597--44886872 Score: 525
Period size: 138 Copynumber: 2.0 Consensus size: 138
44886587 AAGCAGTTTG
*
44886597 GGATGGAAAAAGTATCCTGAAAGACTATGATGGAAGGTCCATGAAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
*
44886662 ATTGGATTACCGATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
44886727 CATGCCTA
131 CATGCCTA
*
44886735 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
44886800 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
44886865 CATGCCTA
131 CATGCCTA
44886873 CCATGATCAC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (138 bp):
GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
CATGCCTA
Found at i:44888384 original size:20 final size:20
Alignment explanation
Indices: 44888359--44888398 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44888349 CGTAAAATAA
*
44888359 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
44888379 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
44888399 GGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:44888388 original size:34 final size:35
Alignment explanation
Indices: 44888344--44888410 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
44888334 TAGTAAAATA
*
44888344 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
44888378 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
44888411 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:44889410 original size:31 final size:32
Alignment explanation
Indices: 44889347--44889411 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
44889337 GGCAAATTAC
44889347 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
* *
44889379 AAGAGTAATTGAATCCTAAT-AAAACTTTTTA
1 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
44889410 AA
1 AA
44889412 ATTATCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGCAATTGAATCCTAATAAAAACTCTTTA
Found at i:44895013 original size:16 final size:14
Alignment explanation
Indices: 44894972--44895004 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44894962 TTTTTTGCGG
*
44894972 TTTTTTGCTTCTTC
1 TTTTTTGCTTTTTC
44894986 TTTTTT-CTTTTTC
1 TTTTTTGCTTTTTC
44894999 TTTTTT
1 TTTTTT
44895005 TGCTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTGCTTTTTC
Found at i:44898019 original size:19 final size:19
Alignment explanation
Indices: 44897982--44898020 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44897972 AATTGAGGGA
* *
44897982 GGGTTTTAATTCTATTTTT
1 GGGTTCTAATTCTACTTTT
*
44898001 GGGTTCTAATTCTGCTTTT
1 GGGTTCTAATTCTACTTTT
44898020 G
1 G
44898021 CTGTCAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (19 bp):
GGGTTCTAATTCTACTTTT
Found at i:44898190 original size:26 final size:24
Alignment explanation
Indices: 44898161--44898212 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
44898151 TCGAAATGAA
*
44898161 TTGAGTGAAATGAGATTTATTTCGAG
1 TTGAGTCAAATGA-ATTTATTT-GAG
*
44898187 TTGAGTCAAATGAATTTGTTTGAG
1 TTGAGTCAAATGAATTTATTTGAG
44898211 TT
1 TT
44898213 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TTGAGTCAAATGAATTTATTTGAG
Found at i:44898408 original size:17 final size:18
Alignment explanation
Indices: 44898383--44898416 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44898373 AGGCCTCAAA
*
44898383 TTTATAAAT-ATAATTTT
1 TTTAAAAATAATAATTTT
44898400 TTTAAAAATAATAATTT
1 TTTAAAAATAATAATTT
44898417 AGCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAAAATAATAATTTT
Found at i:44898618 original size:18 final size:18
Alignment explanation
Indices: 44898595--44898630 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44898585 ACATAAATTT
*
44898595 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
44898613 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
44898631 GTTTTAAAAT
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:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:44900315 original size:19 final size:17
Alignment explanation
Indices: 44900291--44900361 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 17
44900281 TTTAACACTG
44900291 TTATATAATTTTTAGAGTT
1 TTATATAATTTTTA-A-TT
44900310 TTATATAATTTTTAATT
1 TTATATAATTTTTAATT
* *
44900327 TTTTATATTTTTATAATT
1 TTATATAATTTT-TAATT
*
44900345 TTTTATAGATATTTTAA
1 TTATATA-AT-TTTTAA
44900362 AATTTTGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.26
18 13 0.28
19 18 0.39
20 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTATATAATTTTTAATT
Found at i:44900349 original size:10 final size:10
Alignment explanation
Indices: 44900318--44900367 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
44900308 TTTTATATAA
44900318 TTTT-TAATT
1 TTTTATAATT
44900327 TTTTAT-A-T
1 TTTTATAATT
44900335 TTTTATAATT
1 TTTTATAATT
*
44900345 TTTTATAGATA
1 TTTTATA-ATT
*
44900356 TTTTAAAATT
1 TTTTATAATT
44900366 TT
1 TT
44900368 GAAGATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 7 0.21
9 6 0.18
10 13 0.38
11 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:44906176 original size:17 final size:17
Alignment explanation
Indices: 44906147--44906179 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44906137 AGGCCTCAAA
44906147 TTTATAAATATAATTTT
1 TTTATAAATATAATTTT
44906164 TTTA-AAATAATAATTT
1 TTTATAAAT-ATAATTT
44906180 AGCATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATAAATATAATTTT
Found at i:44906381 original size:18 final size:18
Alignment explanation
Indices: 44906358--44906393 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44906348 ACATAAATTT
*
44906358 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
44906376 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
44906394 GTTTTAAAAT
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:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:44913216 original size:41 final size:41
Alignment explanation
Indices: 44913114--44913216 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
44913104 GGCACAAAGC
44913114 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
*
44913155 CTGCTAAACATAAAGTCTGAAGTAATTCACCGACATCAAGT
1 CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
* * *
44913196 CTGCTAGGCATTAAGCCTGAA
1 CTGCTAGACATAAAGTCTGAA
44913217 AATCTTAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
CTGCTAGACATAAAGTCTGAAGTAATTCACCGACATCAAGT
Found at i:44913450 original size:64 final size:63
Alignment explanation
Indices: 44913332--44913512 Score: 246
Period size: 64 Copynumber: 2.9 Consensus size: 63
44913322 GCAAACAAAC
*
44913332 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTCAAA-AACTTTGTAACCTA
44913393 T
63 T
44913394 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
* *
44913458 ATTTGAACCACATATGTATATAAAATTCATACATTAAATAT-AGCTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAAT-TCAGCTCAAAAACTTT
44913513 AAATATATAT
Statistics
Matches: 109, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
62 18 0.17
63 2 0.02
64 79 0.72
65 10 0.09
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAAAACTTTGTAACCTAT
Found at i:44913606 original size:20 final size:21
Alignment explanation
Indices: 44913581--44913624 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
44913571 CTCAAAGAAC
44913581 TTATATCATA-CATTCA-AACT
1 TTATAT-ATATCATTCATAACT
*
44913601 TTATATATATGATTCATAACT
1 TTATATATATCATTCATAACT
44913622 TTA
1 TTA
44913625 ATTTCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATATATATCATTCATAACT
Found at i:44914608 original size:28 final size:28
Alignment explanation
Indices: 44914577--44914633 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
44914567 GTTTGTTTTT
44914577 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
44914605 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
44914633 T
1 T
44914634 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:44925397 original size:41 final size:41
Alignment explanation
Indices: 44925340--44925543 Score: 318
Period size: 41 Copynumber: 5.0 Consensus size: 41
44925330 GCATATTCGG
* * *
44925340 ATCACCAGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * * *
44925381 ATCACAGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
44925422 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
44925463 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
44925504 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
44925544 ATTCACCAAT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 147 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:44925550 original size:82 final size:83
Alignment explanation
Indices: 44925334--44925550 Score: 377
Period size: 82 Copynumber: 2.7 Consensus size: 83
44925324 AATTTAGCAT
* * * *
44925334 ATTCGGATCACCAGTACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACAGGCACTTAGCC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAATATCACCGGCACTTAGCC
44925398 TGCTAGGCTTATAGCCTG
66 TGCTAGGCTTATAGCCTG
44925416 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTC-ATATCACCGGCACTTAGCC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAATATCACCGGCACTTAGCC
44925480 TGCTAGGCTTATAGCCTG
66 TGCTAGGCTTATAGCCTG
44925498 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAATATCACC
44925551 AATTCCAAAC
Statistics
Matches: 129, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
82 127 0.98
83 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (83 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAATATCACCGGCACTTAGCC
TGCTAGGCTTATAGCCTG
Found at i:44929080 original size:6 final size:7
Alignment explanation
Indices: 44929055--44929130 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
44929045 CCATTCATAA
44929055 ATTTAAC
1 ATTTAAC
44929062 ATTTAAC
1 ATTTAAC
44929069 ATTTAA-
1 ATTTAAC
*
44929075 ATTTAAT
1 ATTTAAC
**
44929082 AAAT-AC
1 ATTTAAC
* *
44929088 ATAATACC
1 AT-TTAAC
* *
44929096 ATTCATC
1 ATTTAAC
44929103 AATTTAAC
1 -ATTTAAC
44929111 ATTTAAC
1 ATTTAAC
44929118 ATTTAA-
1 ATTTAAC
44929124 ATTTAAC
1 ATTTAAC
44929131 CACACGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
6 14 0.26
7 32 0.59
8 8 0.15
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAC
Found at i:44929083 original size:49 final size:49
Alignment explanation
Indices: 44929030--44929129 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
44929020 AAATGATATG
44929030 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
*
44929079 AATAAATACATAATACCATTCATCAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
44929128 AA
1 AA
44929130 CCACACGAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (49 bp):
AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
Found at i:44929129 original size:13 final size:14
Alignment explanation
Indices: 44929055--44929130 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 14
44929045 CCATTCATAA
44929055 ATTTAACATTTAAC
1 ATTTAACATTTAAC
*
44929069 ATTTAA-ATTTAAT
1 ATTTAACATTTAAC
** * *
44929082 AAAT-ACATAATACC
1 ATTTAACAT-TTAAC
* *
44929096 ATTCATCAATTTAAC
1 ATTTAAC-ATTTAAC
44929111 ATTTAACATTTAA-
1 ATTTAACATTTAAC
44929124 ATTTAAC
1 ATTTAAC
44929131 CACACGAACT
Statistics
Matches: 44, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
12 1 0.02
13 17 0.39
14 15 0.34
15 9 0.20
16 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAACATTTAAC
Found at i:44933877 original size:7 final size:7
Alignment explanation
Indices: 44933865--44933898 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
44933855 CCATTAATCA
44933865 ATTTAAC
1 ATTTAAC
44933872 ATTTAAC
1 ATTTAAC
44933879 ATTTAAC
1 ATTTAAC
44933886 ATTTAA-
1 ATTTAAC
44933892 ATTTAAC
1 ATTTAAC
44933899 CATACAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAC
Found at i:44937487 original size:26 final size:26
Alignment explanation
Indices: 44937457--44937513 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
44937447 AACAAACACC
44937457 TTCATACTTAGCCATTTTAACAACCA
1 TTCATACTTAGCCATTTTAACAACCA
44937483 TTCATACTTAGCCATTTTAACAACCA
1 TTCATACTTAGCCATTTTAACAACCA
44937509 TTCAT
1 TTCAT
44937514 CATCAAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (26 bp):
TTCATACTTAGCCATTTTAACAACCA
Found at i:44938797 original size:29 final size:29
Alignment explanation
Indices: 44938740--44938795 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
44938730 AAATTAATTG
44938740 ATTTTAATAATGTAATTTTTATTTTTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
* *
44938769 ATTTTCAT-ATGTAATTTTT-TTATTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
44938796 TACATATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTAATAATGTAATTTTTATTTTTATA
Found at i:44940871 original size:56 final size:50
Alignment explanation
Indices: 44940636--44940864 Score: 291
Period size: 50 Copynumber: 4.5 Consensus size: 50
44940626 ACATGTCAAA
* ** * *
44940636 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
*
44940687 GCCATGTACCAG-CATGGTCTTACGA-GGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAAT
44940736 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
44940786 GCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAT
* *
44940842 GCCATGCCCCAGACATGGACTTA
1 GCCATGTCCCAGACATGGTCTTA
44940865 TGTGGGATCT
Statistics
Matches: 158, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
49 28 0.18
50 85 0.54
51 11 0.07
53 5 0.03
55 2 0.01
56 27 0.17
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:44946948 original size:28 final size:28
Alignment explanation
Indices: 44946907--44946974 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
44946897 GTTAGCTTCT
* *
44946907 ATATATGGTCGGTTCTACCGCCTGAATG
1 ATATATGGTCGGTTCTACCACCTGAATA
* * *
44946935 TTATATGGTTGGTTCTGCCACCTGAATA
1 ATATATGGTCGGTTCTACCACCTGAATA
44946963 ATATATGGTCGG
1 ATATATGGTCGG
44946975 CACTGTCACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (28 bp):
ATATATGGTCGGTTCTACCACCTGAATA
Found at i:44946995 original size:28 final size:28
Alignment explanation
Indices: 44946908--44946995 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
44946898 TTAGCTTCTA
** * * *
44946908 TATATGGTCGGTTCTACCGCCTGAATGT
1 TATATGGTCGGCACTGCCACCTGAATAT
* ** *
44946936 TATATGGTTGGTTCTGCCACCTGAATAA
1 TATATGGTCGGCACTGCCACCTGAATAT
* *
44946964 TATATGGTCGGCACTGTCACCTGAGTAT
1 TATATGGTCGGCACTGCCACCTGAATAT
44946992 TATA
1 TATA
44946996 GTGTACTAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
TATATGGTCGGCACTGCCACCTGAATAT
Found at i:44947392 original size:15 final size:15
Alignment explanation
Indices: 44947374--44947407 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44947364 TGATAAATTG
44947374 AAATAAATTAAAAGA
1 AAATAAATTAAAAGA
*
44947389 AAATAAATTGAAAGA
1 AAATAAATTAAAAGA
44947404 AAAT
1 AAAT
44947408 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAATAAATTAAAAGA
Found at i:44950271 original size:17 final size:18
Alignment explanation
Indices: 44950240--44950278 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
44950230 CAGCTATTGT
44950240 TTTTCTTCTTCCTCTCCG
1 TTTTCTTCTTCCTCTCCG
*
44950258 TTTTCTTC-TCCTCTCTG
1 TTTTCTTCTTCCTCTCCG
44950275 TTTT
1 TTTT
44950279 TCTTTCCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTCTTCTTCCTCTCCG
Found at i:44950279 original size:18 final size:19
Alignment explanation
Indices: 44950237--44950282 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
44950227 CTTCAGCTAT
44950237 TGTTTTTCTTCTTCCTCTC
1 TGTTTTTCTTCTTCCTCTC
*
44950256 CG-TTTTCTTC-TCCTCTC
1 TGTTTTTCTTCTTCCTCTC
44950273 TGTTTTTCTT
1 TGTTTTTCTT
44950283 TCCCTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.07, T:0.63
Consensus pattern (19 bp):
TGTTTTTCTTCTTCCTCTC
Found at i:44957841 original size:2 final size:2
Alignment explanation
Indices: 44957834--44957881 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
44957824 AACGTTTTAT
44957834 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
44957876 TC TC TC
1 TC TC TC
44957882 GTTTTAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:44959473 original size:4 final size:4
Alignment explanation
Indices: 44959464--44959500 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
44959454 AACCATCAAA
44959464 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC A
1 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC A
44959501 TATTTGGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (4 bp):
ACTC
Found at i:44960737 original size:9 final size:9
Alignment explanation
Indices: 44960723--44960773 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
44960713 ATGTAGTGAT
44960723 TTAATTCGG
1 TTAATTCGG
*
44960732 TTAATTCAG
1 TTAATTCGG
44960741 TTAATTCGG
1 TTAATTCGG
* *
44960750 ATAATCCGG
1 TTAATTCGG
44960759 TTAATTCGG
1 TTAATTCGG
44960768 TTAATT
1 TTAATT
44960774 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:44965879 original size:16 final size:16
Alignment explanation
Indices: 44965808--44965890 Score: 57
Period size: 16 Copynumber: 5.2 Consensus size: 16
44965798 AATGTAATTA
44965808 AAAAATATTT--T-TT
1 AAAAATATTTAATATT
44965821 AAAAATATTTAATTAATT
1 AAAAATATTTAA-T-ATT
* **
44965839 TAAAATCGGTT-ATATT
1 AAAAAT-ATTTAATATT
* * *
44965855 AATATTATTTAATTTT
1 AAAAATATTTAATATT
44965871 AAAAATATTTAATATT
1 AAAAATATTTAATATT
44965887 AAAA
1 AAAA
44965891 TAATACAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
13 10 0.20
15 2 0.04
16 28 0.55
17 1 0.02
18 8 0.16
19 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (16 bp):
AAAAATATTTAATATT
Found at i:44967493 original size:8 final size:8
Alignment explanation
Indices: 44967480--44967514 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
44967470 CCTCGGGAGC
44967480 ACATATAT
1 ACATATAT
44967488 ACATATAT
1 ACATATAT
44967496 CACATATAT
1 -ACATATAT
44967505 ACATATAT
1 ACATATAT
44967513 AC
1 AC
44967515 TCAAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (8 bp):
ACATATAT
Found at i:44967501 original size:17 final size:17
Alignment explanation
Indices: 44967479--44967512 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44967469 GCCTCGGGAG
44967479 CACATATATACATATAT
1 CACATATATACATATAT
44967496 CACATATATACATATAT
1 CACATATATACATATAT
44967513 ACTCAAAAAC
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:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
CACATATATACATATAT
Found at i:44968333 original size:69 final size:69
Alignment explanation
Indices: 44968250--44968479 Score: 212
Period size: 69 Copynumber: 3.2 Consensus size: 69
44968240 ATTATTTATA
*
44968250 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATACTATTTATATTTGTTA
1 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
44968315 TATT
66 TATT
* ** * * * *
44968319 TATTTATTTGTTCATTATCCTTT-TACCTATTAAATATTTAAATCTAATATTGTTTATATTTGTT
1 TATTTATTTATTCATTATCCTTTAT-TTTTTTAAATACTTAAATTTAATATTATTTATATTTG--
*
44968383 TTACTGGTT
63 TTA-T-ATT
** * * * *
44968392 TATTTATACATTTATCATTCCTTTAAATTTTTTTAAATACTTAAATTTAATATTATCTATATTTA
1 TATTTATTTATTCATTA-TCCTTT--ATTTTTTTAAATACTTAAATTTAATATTATTTATATTTG
*
44968457 TCT-TATC
63 T-TATATT
*
44968464 TATTTATTTAGTCATT
1 TATTTATTTATTCATT
44968480 TATTCGTTAT
Statistics
Matches: 122, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 52 0.43
71 3 0.02
72 13 0.11
73 15 0.12
74 7 0.06
75 1 0.01
76 29 0.24
77 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (69 bp):
TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
TATT
Found at i:44968853 original size:25 final size:25
Alignment explanation
Indices: 44968807--44968854 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
44968797 TAAAAGATAG
* * *
44968807 GTCTATCTTTTGACATGTTTTCTCT
1 GTCTATCTCTTGACACGGTTTCTCT
*
44968832 GTCTGTCTCTTGACACGGTTTCT
1 GTCTATCTCTTGACACGGTTTCT
44968855 TTTTTATCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (25 bp):
GTCTATCTCTTGACACGGTTTCTCT
Found at i:44981754 original size:21 final size:21
Alignment explanation
Indices: 44981728--44981823 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 21
44981718 AACCCTAATC
44981728 CTAACCCTTAACTTAAAAACT
1 CTAACCCTTAACTTAAAAACT
* * *
44981749 CTAACCCTTAAATTCAAAACA
1 CTAACCCTTAACTTAAAAACT
* *
44981770 CTAAACCCTAAACCTAAAAAC-
1 CT-AACCCTTAACTTAAAAACT
44981791 CATAAACCCTTAAGC-T-AAAACT
1 C-T-AACCCTTAA-CTTAAAAACT
*
44981813 CTAACCTTTAA
1 CTAACCCTTAA
44981824 ACCCCAAACC
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.13
21 27 0.44
22 26 0.42
23 1 0.02
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACTTAAAAACT
Found at i:44981808 original size:22 final size:21
Alignment explanation
Indices: 44981730--44981810 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
44981720 CCCTAATCCT
44981730 AACCCTTAACTTAAAAACTC-T-
1 AACCCTTAAC-TAAAAAC-CATA
* *
44981751 AACCCTTAAATTCAAAA-CACTA
1 AACCCTT-AACTAAAAACCA-TA
*
44981773 AACCCTAAACCTAAAAACCATA
1 AACCCTTAA-CTAAAAACCATA
44981795 AACCCTTAAGCTAAAA
1 AACCCTTAA-CTAAAA
44981811 CTCTAACCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.02
21 15 0.32
22 29 0.62
23 2 0.04
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTTAACTAAAAACCATA
Found at i:44981811 original size:43 final size:44
Alignment explanation
Indices: 44981730--44982728 Score: 470
Period size: 43 Copynumber: 23.5 Consensus size: 44
44981720 CCCTAATCCT
* * ** *
44981730 AACCCTTAACTTAAAAACTCT-AACCCTTAAATTCAAAACAC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * *
44981773 AACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAACTCTAACCTTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAA--C---CC-ATA
** * * * *
44981823 AACCCCAAACCTAAAAACCCTACACACTAAACTTAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
44981866 AACCCTTCACCT-AAAACCCT-AACCCTTAACCTAAAGCCCCTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * ** *
44981908 AA-CC---A---AAAAACACT-AACCCTCAACCTAAAAATCTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
44981944 AACCCTTAACCTTAAAACCCTAAA-CC--AA---AAAACAC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
44981980 AACCATCAACCTAAAAACCCTAAACCCTTAACCTAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * * * **
44982023 AACCTTTAACTTAAAAACCATTAACTCTTAACCTAAATTCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
44982067 AACTCTTAACCTAAAAACCCT-AACTCTCAACCTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
** * * **
44982110 AACCTTTAACTTAAATTATATAAACCATAAACCCTAAATCCTAAATTCCATA
1 AACC-----CTTAACCTA-A-AAACCCTAAACCCTTAA-CCTAAAACCCATA
* *
44982162 AATCCTTAACCT-AAAACCCT-AACCCTTAACCTAAACCCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * *
44982204 AACCCTTAACCT-AAGACCGTAAACCTTTAACATAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * **
44982246 AATCCTAAACC-ATAAAACCATAAACCCTTAACCTAAATTCCATA
1 AACCCTTAACCTA-AAAACCCTAAACCCTTAACCTAAAACCCATA
* * * *
44982290 AACCCTTAACCT-AAAACCTTAAACTCTTAACATAAAA-CCTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * * *
44982332 AACCCTTAACCT-AAAACCCT-AACTCTAAACTTAAAAACC-TT
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * * * **
44982373 AACCCTCAATC-GAAAACACTAAACCTTTAACCTAAATTCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
44982416 AACCCTTAACCCT--AAACCCT-AACCATTAACCTAAAAACCTTA
1 AACCCTTAA-CCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
44982458 AA--CTT----T--AAACCCTAAA-CTTTAAACTTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTT-AACCT-AAAACCCATA
* * * *
44982494 AACCCTTAACCTAAAAACACT-AACCTTTAACCTAAAAACC-TT
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* **
44982536 AA-CCTTGAACCCT-AAAACCCTAAACCATTAACCTAAATTCCATA
1 AACCCTT-AA-CCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
** *
44982580 AACTTTTAACCT--AAACCCTAAACCCTAAACCTAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * *
44982621 AACCTTTAA-CTTAAAACCCT-AA-CCTTAAACCATAAAACTC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTT-AACC-TAAAACCCATA
* * *
44982663 AACCCTAAACCTAAAAACTCT-AACCCTCAACCTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
*
44982706 AACCCTTAACATAAAAACCCTAA
1 AACCCTTAACCTAAAAACCCTAA
44982729 CATAAAGGCT
Statistics
Matches: 740, Mismatches: 138, Indels: 155
0.72 0.13 0.15
Matches are distributed among these distances:
35 11 0.01
36 57 0.08
37 11 0.01
38 9 0.01
39 2 0.00
40 9 0.01
41 74 0.10
42 171 0.23
43 240 0.32
44 75 0.10
45 6 0.01
47 6 0.01
48 9 0.01
49 1 0.00
50 39 0.05
51 12 0.02
52 8 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (44 bp):
AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
Found at i:44981860 original size:50 final size:50
Alignment explanation
Indices: 44981771--44981866 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
44981761 TTCAAAACAC
* * * *
44981771 TAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAACTCTAACCTT
1 TAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAACCCTAACCTT
* *
44981821 TAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAACCCTAA
1 TAAACCCCAAACCTAAAAACCATAAACACTTAAAC-TAAAACCCTAA
44981867 ACCCTTCACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 4 0.10
50 35 0.90
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (50 bp):
TAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAACCCTAACCTT
Found at i:44981946 original size:36 final size:36
Alignment explanation
Indices: 44981878--44981947 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
44981868 CCCTTCACCT
* * **
44981878 AAAACCCTAACCCTTAACCTAAAGCCCCTAAACCAA
1 AAAACACTAACCCTCAACCTAAAAACCCTAAACCAA
* *
44981914 AAAACACTAACCCTCAACCTAAAAATCTTAAACC
1 AAAACACTAACCCTCAACCTAAAAACCCTAAACC
44981948 CTTAACCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.16
Consensus pattern (36 bp):
AAAACACTAACCCTCAACCTAAAAACCCTAAACCAA
Found at i:44981947 original size:22 final size:22
Alignment explanation
Indices: 44981903--44981969 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
44981893 AACCTAAAGC
* * *
44981903 CCCTAAACCAAAAAACACT-AA
1 CCCTCAACCTAAAAACCCTAAA
* *
44981924 CCCTCAACCTAAAAATCTTAAA
1 CCCTCAACCTAAAAACCCTAAA
* *
44981946 CCCTTAACCTTAAAACCCTAAA
1 CCCTCAACCTAAAAACCCTAAA
44981968 CC
1 CC
44981970 AAAAAACACT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (22 bp):
CCCTCAACCTAAAAACCCTAAA
Found at i:44981966 original size:58 final size:58
Alignment explanation
Indices: 44981874--44982024 Score: 227
Period size: 58 Copynumber: 2.6 Consensus size: 58
44981864 TAAACCCTTC
* *
44981874 ACCT-AAAACCCT-AACCCTTAACC-TAAAGCCCCTAAACCAAAAAACACTAACCCTCA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAA-ACCCTAAACCAAAAAACACTAACCATCA
* *
44981930 ACCTAAAAATCTTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
*
44981988 ACCTAAAAACCCTAAACCCTTAACCTAAAAACCCTAA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAA
44982025 CCTTTAACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 4 0.05
57 6 0.07
58 71 0.84
59 4 0.05
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.17
Consensus pattern (58 bp):
ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
Found at i:44982005 original size:22 final size:20
Alignment explanation
Indices: 44981830--44982729 Score: 300
Period size: 21 Copynumber: 42.9 Consensus size: 20
44981820 TTAAACCCCA
44981830 AACCTAAAAACCCTACACAC-T
1 AACCTAAAAACCCTA-AC-CTT
* *
44981851 AAACTTAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
44981873 CACCT-AAAACCCTAACCCTT
1 AACCTAAAAACCCTAA-CCTT
* *
44981893 AACCT--AAAGCC---CCTA
1 AACCTAAAAACCCTAACCTT
* * *
44981908 AACCAAAAAACACTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
* *
44981929 AACCTAAAAATCTTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
44981951 AACCTTAAAACCCT-A----
1 AACCTAAAAACCCTAACCTT
* * *
44981966 AACCAAAAAACACTAACCATC
1 AACCTAAAAACCCTAACC-TT
44981987 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
44982009 AACCTAAAAACCCTAACCTTT
1 AACCTAAAAACCCTAACC-TT
* *
44982030 AACTTAAAAACCATTAACTCTT
1 AACCTAAAAACC-CTAAC-CTT
** *
44982052 AACCTAAATTCCATAAACTCTT
1 AACCTAAAAACCCT-AAC-CTT
*
44982074 AACCTAAAAACCCTAACTCTC
1 AACCTAAAAACCCTAAC-CTT
44982095 AACCTAAAAACCCTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
* * *
44982117 AACTTAAATTATATAAACCATAAACCCTA
1 AAC-----CTA-A-AAACCCT-AA-CCTT
** *
44982146 AATCCTAAATTCCATAAATCCTT
1 AA-CCTAAAAACCCT-AA-CCTT
44982169 AACCT-AAAACCCTAACCCTT
1 AACCTAAAAACCCTAA-CCTT
*
44982189 AACCT-AAACCCCATAAACCCTT
1 AACCTAAAAACCC-T-AA-CCTT
* *
44982211 AACCT-AAGACCGTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
* *
44982232 AACATAAAAACCCTAATCCTA
1 AACCTAAAAACCCTAA-CCTT
*
44982253 AACC-ATAAAACCATAAACCCTT
1 AACCTA-AAAACCCT-AA-CCTT
** *
44982275 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
44982297 AACCT-AAAACCTTAAACTCTT
1 AACCTAAAAACCCT-AAC-CTT
* *
44982318 AACAT-AAAACCTTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
44982339 AACCT-AAAACCCTAACTCTA
1 AACCTAAAAACCCTAAC-CTT
* * *
44982359 AACTTAAAAACCTTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
* * *
44982380 AATC-GAAAACACTAAACCTTT
1 AACCTAAAAACCCT-AACC-TT
** *
44982401 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
44982423 AACCCT--AAACCCTAACCATT
1 AA-CCTAAAAACCCTAACC-TT
* *
44982443 AACCTAAAAACCTTAAACTT
1 AACCTAAAAACCCTAACCTT
*
44982463 ----T--AAACCCTAAACTTT
1 AACCTAAAAACCCT-AACCTT
*
44982478 AAACTTAAAAACCCTAAACCCTT
1 -AACCTAAAAACCCT-AA-CCTT
*
44982501 AACCTAAAAACACTAACCTTT
1 AACCTAAAAACCCTAACC-TT
*
44982522 AACCTAAAAACCTTAACCTT
1 AACCTAAAAACCCTAACCTT
44982542 GAACCCT-AAAACCCTAAACCATT
1 -AA-CCTAAAAACCCT-AACC-TT
** * *
44982565 AACCTAAATTCCATAAACTTTT
1 AACCTAAAAACCCT-AAC-CTT
*
44982587 AACCT--AAACCCTAAACCCTA
1 AACCTAAAAACCCT-AA-CCTT
44982607 AACCTAAAAACCCTAACCTTT
1 AACCTAAAAACCCTAACC-TT
*
44982628 AA-CTTAAAACCCTAACCTT
1 AACCTAAAAACCCTAACCTT
* *
44982647 AAACC-ATAAAACTCTAAACCCTA
1 -AACCTA-AAAACCCT-AA-CCTT
* *
44982670 AACCTAAAAACTCTAACCCTC
1 AACCTAAAAACCCTAA-CCTT
44982691 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCCT-AA-CCTT
*
44982713 AACATAAAAACCCTAAC
1 AACCTAAAAACCCTAAC
44982730 ATAAAGGCTT
Statistics
Matches: 682, Mismatches: 116, Indels: 163
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.01
15 22 0.03
16 2 0.00
17 4 0.01
19 13 0.02
20 96 0.14
21 252 0.37
22 235 0.34
23 31 0.05
24 1 0.00
25 2 0.00
27 2 0.00
28 1 0.00
29 12 0.02
30 3 0.00
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (20 bp):
AACCTAAAAACCCTAACCTT
Found at i:44982206 original size:94 final size:94
Alignment explanation
Indices: 44982037--44982213 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 94
44982027 TTTAACTTAA
* * * *
44982037 AAACCATTAACTCTTAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACTCTCAACCTAA
1 AAACCATAAACCCTAAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACCCTCAACCTAA
*
44982102 AAACCCTAAACCTTTAACTTAAATTATAT
66 AAACCCTAAACCCTTAACTTAAATTATAT
*
44982131 AAACCATAAACCCTAAATCCTAAATTCCATAAA-TCCTTAACCT-AAAACCCTAACCCTTAACCT
1 AAACCATAAACCCTAAA-CCTAAATTCCATAAACT-CTTAACCTAAAAACCCTAACCCTCAACCT
*
44982194 -AAACCCCATAAACCCTTAAC
64 AAAAACCC-TAAACCCTTAAC
44982214 CTAAGACCGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
93 6 0.08
94 44 0.60
95 23 0.32
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (94 bp):
AAACCATAAACCCTAAACCTAAATTCCATAAACTCTTAACCTAAAAACCCTAACCCTCAACCTAA
AAACCCTAAACCCTTAACTTAAATTATAT
Found at i:44982454 original size:35 final size:36
Alignment explanation
Indices: 44982415--44982508 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 36
44982405 TAAATTCCAT
*
44982415 AAACCCTTAACCCTAAACCCTAACCATT-AACCTAA
1 AAACCCTTAACCCTAAACCCTAAACATTAAACCTAA
** * *
44982450 AAA-CCTTAAACTTTAAACCCTAAACTTTAAACTTAA
1 AAACCCTT-AACCCTAAACCCTAAACATTAAACCTAA
* *
44982486 AAACCCTAAACCCTTAA-CCTAAA
1 AAACCCTTAACCCTAAACCCTAAA
44982509 AACACTAACC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
34 4 0.09
35 25 0.53
36 15 0.32
37 3 0.06
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (36 bp):
AAACCCTTAACCCTAAACCCTAAACATTAAACCTAA
Found at i:44982465 original size:21 final size:22
Alignment explanation
Indices: 44981987--44982724 Score: 363
Period size: 21 Copynumber: 34.5 Consensus size: 22
44981977 ACTAACCATC
*
44981987 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
44982009 AACCTAAAAACCCT-AACCTTT
1 AACCTAAAAACCATAAACCCTT
* * *
44982030 AACTTAAAAACCATTAACTCTT
1 AACCTAAAAACCATAAACCCTT
** *
44982052 AACCTAAATTCCATAAACTCTT
1 AACCTAAAAACCATAAACCCTT
* * *
44982074 AACCTAAAAACCCT-AACTCTC
1 AACCTAAAAACCATAAACCCTT
*
44982095 AACCTAAAAACCCTAAACCTTTAACTT
1 AACCTAAAAACCATAAACC-----CTT
** *
44982122 AAATTATATAAACCATAAACCCTA
1 AACCTA-A-AAACCATAAACCCTT
** *
44982146 AATCCTAAATTCCATAAATCCTT
1 AA-CCTAAAAACCATAAACCCTT
*
44982169 AACCT-AAAACCCT-AACCCTT
1 AACCTAAAAACCATAAACCCTT
**
44982189 AACCTAAACCCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* * *
44982211 AACCT-AAGACCGTAAACCTTT
1 AACCTAAAAACCATAAACCCTT
* * * *
44982232 AACATAAAAACCCT-AATCCTA
1 AACCTAAAAACCATAAACCCTT
44982253 AACC-ATAAAACCATAAACCCTT
1 AACCTA-AAAACCATAAACCCTT
**
44982275 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
44982297 AACCT-AAAACCTTAAACTCTT
1 AACCTAAAAACCATAAACCCTT
* *
44982318 AACAT-AAAACCTTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* * *
44982339 AACCT-AAAACCCT-AACTCTA
1 AACCTAAAAACCATAAACCCTT
* * *
44982359 AACTTAAAAACC-TTAACCCTC
1 AACCTAAAAACCATAAACCCTT
* * *
44982380 AATC-GAAAA-CACTAAACCTTT
1 AACCTAAAAACCA-TAAACCCTT
**
44982401 AACCTAAATTCCATAAACCCTT
1 AACCTAAAAACCATAAACCCTT
* *
44982423 AACCCT--AAACCCT-AACCATT
1 AA-CCTAAAAACCATAAACCCTT
* *
44982443 AACCTAAAAACCTTAAA-CTTT
1 AACCTAAAAACCATAAACCCTT
**
44982464 AAACCCT--AAACTTTAAA--C-T
1 -AA-CCTAAAAACCATAAACCCTT
*
44982483 ----TAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
*
44982501 AACCTAAAAA-CACT-AACCTTT
1 AACCTAAAAACCA-TAAACCCTT
*
44982522 AACCTAAAAACC-TTAA-CCTT
1 AACCTAAAAACCATAAACCCTT
* *
44982542 GAACCCT-AAAACCCTAAACCATT
1 -AA-CCTAAAAACCATAAACCCTT
** **
44982565 AACCTAAATTCCATAAACTTTT
1 AACCTAAAAACCATAAACCCTT
* *
44982587 AACCT--AAACCCTAAACCCTA
1 AACCTAAAAACCATAAACCCTT
* *
44982607 AACCTAAAAACCCT-AACCTTT
1 AACCTAAAAACCATAAACCCTT
* *
44982628 AA-CTTAAAACCCT-AA-CCTT
1 AACCTAAAAACCATAAACCCTT
*
44982647 AAACC-ATAAAACTC-TAAACCCTA
1 -AACCTA-AAAAC-CATAAACCCTT
*
44982670 AACCTAAAAACTC-T-AACCCTC
1 AACCTAAAAAC-CATAAACCCTT
*
44982691 AACCTAAAAACCCTAAACCCTT
1 AACCTAAAAACCATAAACCCTT
*
44982713 AACATAAAAACC
1 AACCTAAAAACC
44982725 CTAACATAAA
Statistics
Matches: 553, Mismatches: 107, Indels: 112
0.72 0.14 0.15
Matches are distributed among these distances:
13 1 0.00
15 8 0.01
17 1 0.00
18 1 0.00
19 8 0.01
20 67 0.12
21 226 0.41
22 187 0.34
23 29 0.05
24 5 0.01
25 2 0.00
27 6 0.01
28 1 0.00
29 11 0.02
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (22 bp):
AACCTAAAAACCATAAACCCTT
Found at i:44982612 original size:6 final size:7
Alignment explanation
Indices: 44982130--44982677 Score: 59
Period size: 7 Copynumber: 77.6 Consensus size: 7
44982120 TTAAATTATA
*
44982130 TAAACCA
1 TAAACCC
44982137 TAAACCC
1 TAAACCC
*
44982144 TAAATCC
1 TAAACCC
*
44982151 TAAATTCCA
1 TAAA--CCC
*
44982160 TAAATCC
1 TAAACCC
*
44982167 TTAA-CC
1 TAAACCC
44982173 TAAAACCC
1 T-AAACCC
44982181 T-AACCC
1 TAAACCC
*
44982187 TTAA-CC
1 TAAACCC
44982193 TAAACCCC
1 TAAA-CCC
44982201 ATAAACCC
1 -TAAACCC
*
44982209 TTAA-CC
1 TAAACCC
*
44982215 TAAGACCG
1 TAA-ACCC
*
44982223 TAAACCT
1 TAAACCC
* *
44982230 TTAA-CA
1 TAAACCC
44982236 TAAAAACCC
1 T--AAACCC
*
44982245 T-AATCC
1 TAAACCC
*
44982251 TAAACCA
1 TAAACCC
*
44982258 TAAAACCA
1 T-AAACCC
44982266 TAAACCC
1 TAAACCC
*
44982273 TTAA-CC
1 TAAACCC
*
44982279 TAAATTCCA
1 TAAA--CCC
44982288 TAAACCC
1 TAAACCC
*
44982295 TTAA-CC
1 TAAACCC
*
44982301 TAAAACCT
1 T-AAACCC
*
44982309 TAAACTC
1 TAAACCC
* *
44982316 TTAA-CA
1 TAAACCC
*
44982322 TAAAACCT
1 T-AAACCC
44982330 TAAACCC
1 TAAACCC
*
44982337 TTAA-CC
1 TAAACCC
44982343 TAAAACCC
1 T-AAACCC
*
44982351 T-AACTC
1 TAAACCC
*
44982357 TAAA-CT
1 TAAACCC
*
44982363 TAAAAACC
1 T-AAACCC
*
44982371 TTAACCC
1 TAAACCC
* * *
44982378 TCAATCG
1 TAAACCC
* *
44982385 AAAACAC
1 TAAACCC
*
44982392 TAAACCT
1 TAAACCC
*
44982399 TTAA-CC
1 TAAACCC
*
44982405 TAAATTCCA
1 TAAA--CCC
44982414 TAAACCC
1 TAAACCC
*
44982421 TTAACCC
1 TAAACCC
44982428 TAAACCC
1 TAAACCC
*
44982435 T-AACCA
1 TAAACCC
*
44982441 TTAA-CC
1 TAAACCC
*
44982447 TAAAAACCT
1 T--AAACCC
**
44982456 TAAACTT
1 TAAACCC
44982463 TAAACCC
1 TAAACCC
**
44982470 TAAACTT
1 TAAACCC
*
44982477 TAAA-CT
1 TAAACCC
44982483 TAAAAACCC
1 T--AAACCC
44982492 TAAACCC
1 TAAACCC
*
44982499 TTAA-CC
1 TAAACCC
*
44982505 TAAAAACAC
1 T--AAACCC
*
44982514 T-AACCT
1 TAAACCC
*
44982520 TTAA-CC
1 TAAACCC
*
44982526 TAAAAACC
1 T-AAACCC
* *
44982534 TTAACCT
1 TAAACCC
*
44982541 TGAACCC
1 TAAACCC
44982548 TAAAACCC
1 T-AAACCC
*
44982556 TAAACCA
1 TAAACCC
*
44982563 TTAA-CC
1 TAAACCC
*
44982569 TAAATTCCA
1 TAAA--CCC
**
44982578 TAAACTT
1 TAAACCC
*
44982585 TTAA-CC
1 TAAACCC
44982591 TAAACCC
1 TAAACCC
44982598 TAAACCC
1 TAAACCC
44982605 TAAA-CC
1 TAAACCC
44982611 TAAAAACCC
1 T--AAACCC
*
44982620 T-AACCT
1 TAAACCC
* *
44982626 TTAA-CT
1 TAAACCC
44982632 TAAAACCC
1 T-AAACCC
*
44982640 T-AACCT
1 TAAACCC
*
44982646 TAAACCA
1 TAAACCC
*
44982653 TAAAACTC
1 T-AAACCC
44982661 TAAACCC
1 TAAACCC
44982668 TAAA-CC
1 TAAACCC
44982674 TAAA
1 TAAA
44982678 AACTCTAACC
Statistics
Matches: 380, Mismatches: 105, Indels: 113
0.64 0.18 0.19
Matches are distributed among these distances:
6 94 0.25
7 195 0.51
8 56 0.15
9 35 0.09
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:44982623 original size:106 final size:105
Alignment explanation
Indices: 44982485--44982729 Score: 305
Period size: 106 Copynumber: 2.3 Consensus size: 105
44982475 TTTAAACTTA
* * * *
44982485 AAAACCCTAAACCCTTAACCTAAAAACACTAACCTTTAACCTAAAAACCTTAACCTTGAACCCTA
1 AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAA-CTAAAAACCCTAACCTTAAACCATA
* ** ** *
44982550 AAACCCTAAACCATTAACCTAAATTC-CATAAACTTTTAACCT
65 AAACCCTAAACCATAAACCTAAAAACTC-T-AACCCTCAACCT
* *
44982592 -AAACCCTAAACCCTAAACCTAAAAACCCTAACCTTTAACTTAAAACCCTAACCTTAAACCATAA
1 AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAACTAAAAACCCTAACCTTAAACCATAA
* *
44982656 AACTCTAAACCCTAAACCTAAAAACTCTAACCCTCAACCT
66 AACCCTAAACCATAAACCTAAAAACTCTAACCCTCAACCT
*
44982696 AAAAACCCTAAACCCTTAACATAAAAACCCTAAC
1 -AAAACCCTAAACCCTTAACCTAAAAACCCTAAC
44982730 ATAAAGGCTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
104 9 0.08
105 43 0.36
106 67 0.56
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (105 bp):
AAAACCCTAAACCCTTAACCTAAAAACCCTAACCTTTAACTAAAAACCCTAACCTTAAACCATAA
AACCCTAAACCATAAACCTAAAAACTCTAACCCTCAACCT
Found at i:44982731 original size:14 final size:15
Alignment explanation
Indices: 44982705--44982734 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44982695 TAAAAACCCT
44982705 AAACCCTTAACATAA
1 AAACCCTTAACATAA
44982720 AAACCC-TAACATAA
1 AAACCCTTAACATAA
44982734 A
1 A
44982735 GGCTTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTTAACATAA
Found at i:44986130 original size:125 final size:124
Alignment explanation
Indices: 44985891--44986255 Score: 484
Period size: 125 Copynumber: 2.9 Consensus size: 124
44985881 CATGGTACTC
* * *
44985891 TAGCAAAAGCGCATCCACGTGGGCGCGATTTCATAAATTCTTCTCATAAAGCAGT-CTGCTAGAA
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCA-TCCTGCTAGAA
* * *
44985955 GCCATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTTCAGGACCAACTG
65 GCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCAACTG
* * ** *
44986016 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCAGATCGCATCCTGCTTGAAG
1 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
* * * *
44986081 CGTTTTTTATACTATTTGCTCAGAAACGTTAACTCGAAATAATTTTTTCAGGACCTATTG
66 CG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
* * * *
44986141 TAGCAAAAACGTGTCCACGTA-GGCGCAATTTCACAAATTCTTCTCATAAAGCATCTTAG-TAGA
1 TAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT-GCTAGA
*
44986204 ATCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
64 AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAG
44986256 AACCCGAAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
124 47 0.22
125 123 0.59
126 40 0.19
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAGGACCAACTG
Found at i:44986648 original size:20 final size:20
Alignment explanation
Indices: 44986610--44986667 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
44986600 ATAATGTGTG
* **
44986610 GATTATATTTTTTTCTGATA
1 GATTATATTTTATAATGATA
*
44986630 GATTATATTTTATAATGATT
1 GATTATATTTTATAATGATA
* *
44986650 GATTTTA-ATTATAATGAT
1 GATTATATTTTATAATGAT
44986668 TTTGTTGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (20 bp):
GATTATATTTTATAATGATA
Found at i:44990345 original size:153 final size:153
Alignment explanation
Indices: 44989910--44990573 Score: 945
Period size: 153 Copynumber: 4.4 Consensus size: 153
44989900 ATTTAGTGTG
* * * *
44989910 TTTTTATTGAAAGTAAT-AAA-TCCGGAAAAAATACAAACAAAGGGCCAAAATAAGGGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAA-GGTTTTTTT
*
44989973 TAAATTTATTTACAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
44990038 ATAATAAAATTAGAAAATAGTATA
130 ATAATAAAATTAGAAAATAATATA
* * *
44990062 TTTTTA---AAAGTAATAAAATCCAAGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATAAGG-TTTTTT
* * * * *
44990124 TACTAAATTTATTTAAAAAACACAATTAATTAAAACATTTCAAACATAATGTACTAAAATAATTT
64 T--TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
44990189 AAAATAATAAAA-TACGAAAATAATATA
127 AAAATAATAAAATTA-GAAAATAATATA
* *
44990216 TTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAATAAATGGCCGAAATAAGGTTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTT
*
44990281 -AATTTATTTAAAAAAACACACTAAATGATTACATTTCAAACATAATGTACTAAAATAATGTAAA
66 AAATTTATTT-AAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
44990345 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
* * *
44990369 TTTTTATTGAAAGTAATAAAATCCAGGAAAAAGTACGAACAAATGGCAGAAATAAGAGTTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAG-GTTTTTTT
*
44990434 T-AATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
65 TAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
44990498 ATAATAAAATTAGAAAATAATATA
130 ATAATAAAATTAGAAAATAATATA
* * * *
44990522 -TTTT-TTAAAAGTAATAAAA-TCTGGGAAAAAATACGAACAAATGACCAAAATA
1 TTTTTATTGAAAGTAATAAAATTC-AGGAAAAAATACGAACAAATGGCCGAAATA
44990574 CGAACAATTG
Statistics
Matches: 461, Mismatches: 37, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
149 8 0.02
150 4 0.01
151 42 0.09
152 53 0.11
153 199 0.43
154 105 0.23
155 7 0.02
156 29 0.06
157 14 0.03
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.30
Consensus pattern (153 bp):
TTTTTATTGAAAGTAATAAAATTCAGGAAAAAATACGAACAAATGGCCGAAATAAGGTTTTTTTT
AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
TAATAAAATTAGAAAATAATATA
Found at i:44993587 original size:19 final size:19
Alignment explanation
Indices: 44993563--44993603 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
44993553 CTCATATACA
44993563 AGAAAAGCAGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
*
44993582 AGAAAAGCGGTCAATAGTC
1 AGAAAAGCAGTCAATAGTC
44993601 AGA
1 AGA
44993604 CTTAAGCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (19 bp):
AGAAAAGCAGTCAATAGTC
Found at i:44994122 original size:89 final size:89
Alignment explanation
Indices: 44994017--44994195 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 89
44994007 TGCATGATTC
*
44994017 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATGAGAAAACTAAAAACCCA
1 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
44994082 ATTTGGCAATAATGTTATCCACTT
66 ATTTGGCAATAATGTTATCCACTT
* *
44994106 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTGAAAATCCA
1 TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
*
44994171 ATTTGGCAATAATGTTATCTACTT
66 ATTTGGCAATAATGTTATCCACTT
44994195 T
1 T
44994196 TAAGCCACTG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.25
Consensus pattern (89 bp):
TCAACCAACCCAAATTCTTCTGGAAAAACCAACAACTTCCACTCGATAAGAAAACTAAAAACCCA
ATTTGGCAATAATGTTATCCACTT
Found at i:44994884 original size:57 final size:58
Alignment explanation
Indices: 44994789--44994901 Score: 210
Period size: 57 Copynumber: 1.9 Consensus size: 58
44994779 TATAGAGTTT
44994789 GGAGCCATACCTGATAAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
1 GGAGCCATACCTGAT-AAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
44994848 GGAGCCATACCTGAT-AAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
1 GGAGCCATACCTGATAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATT
44994902 GAATTTGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
57 39 0.72
59 15 0.28
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (58 bp):
GGAGCCATACCTGATAAAAAAAACCTTCTCAAGAGAAATATTATCGTTGCGAATTAAA
Found at i:44996826 original size:12 final size:12
Alignment explanation
Indices: 44996809--44996839 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44996799 GTTTAAATAT
44996809 AAAATTATAAAA
1 AAAATTATAAAA
*
44996821 AAAATTGTAAAA
1 AAAATTATAAAA
44996833 AAAATTA
1 AAAATTA
44996840 ACTCTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:44997751 original size:42 final size:42
Alignment explanation
Indices: 44997673--44997754 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
44997663 TTAGACAAGA
* *
44997673 TAAGATTTATTCAAGGAAAGAACAGCTATAATGCAACAAAAT
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
* ***
44997715 TAAGATTTATTTAAGGAAAGAGTTGCAATAACGCAACAAA
1 TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAA
44997755 TTCTTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (42 bp):
TAAGATTTATTCAAGGAAAGAACAGCAATAACGCAACAAAAT
Found at i:44998060 original size:20 final size:22
Alignment explanation
Indices: 44998032--44998074 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
44998022 AAATATAACT
44998032 TTAAGCATATT-TAAA-ACATG
1 TTAAGCATATTATAAACACATG
*
44998052 TTAATCATATTATAAACACATG
1 TTAAGCATATTATAAACACATG
44998074 T
1 T
44998075 GTACTTACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAAGCATATTATAAACACATG
Found at i:44998807 original size:2 final size:2
Alignment explanation
Indices: 44998800--44998825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44998790 TGACTAAACT
44998800 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
44998826 CAGACAGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:45002898 original size:24 final size:24
Alignment explanation
Indices: 45002870--45002922 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
45002860 TTTCTAGAAG
*
45002870 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
45002894 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
45002918 ATTTA
1 ATTTA
45002923 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:45003217 original size:34 final size:34
Alignment explanation
Indices: 45003174--45003243 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
45003164 ATTTGTGTGT
45003174 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
45003208 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
1 TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
45003242 TT
1 TT
45003244 CGTTGCTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.03, T:0.60
Consensus pattern (34 bp):
TTAACTTTTCAATTTCTTCTACTATTTTTACTTG
Found at i:45004279 original size:17 final size:17
Alignment explanation
Indices: 45004257--45004292 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45004247 AGGTATGTAC
45004257 CTGATTTACAAAAAAAT
1 CTGATTTACAAAAAAAT
* *
45004274 CTGATTTATAAAAGAAT
1 CTGATTTACAAAAAAAT
45004291 CT
1 CT
45004293 CATCCCCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (17 bp):
CTGATTTACAAAAAAAT
Found at i:45004860 original size:24 final size:24
Alignment explanation
Indices: 45004832--45004884 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
45004822 TTTCTAGAAA
*
45004832 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
45004856 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
45004880 ATTTA
1 ATTTA
45004885 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:45023571 original size:24 final size:25
Alignment explanation
Indices: 45023544--45023602 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
45023534 ATTAAATGCT
**
45023544 TTTTATA-ATTTTTATTTATATTTA
1 TTTTATATATTTTTATAAATATTTA
*
45023568 TTTT-TATATTTTTATAAATTTTTA
1 TTTTATATATTTTTATAAATATTTA
45023592 TTTTATATATT
1 TTTTATATATT
45023603 GAAAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.07
24 22 0.73
25 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATATATTTTTATAAATATTTA
Found at i:45025044 original size:33 final size:33
Alignment explanation
Indices: 45024954--45025146 Score: 163
Period size: 34 Copynumber: 5.6 Consensus size: 33
45024944 GAACTGTTAG
* *
45024954 GCGAACCCTCATGTTATGTAGTATGATATAGTAT
1 GCGAACCC-CATGTTATATAGTATGACATAGTAT
45024988 GCGAACCCAACCCTCATGTTATATAGTATGACATAGTAT
1 GCG-----AACCC-CATGTTATATAGTATGACATAGTAT
* * *
45025027 GTGAACCCCATGTTATATAATATGACATAGAAT
1 GCGAACCCCATGTTATATAGTATGACATAGTAT
* *
45025060 GCGAACCCCCACGTTATATAGAATGACATAGTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* * * * *
45025094 GCAAATCCTCATGTTCTATTGAATGACAT-GTAT
1 GCGAA-CCCCATGTTATATAGTATGACATAGTAT
* *
45025127 GCAAACACACATGTTATATA
1 GCGAAC-CCCATGTTATATA
45025147 ATATTTGATT
Statistics
Matches: 133, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
32 1 0.01
33 46 0.35
34 55 0.41
39 31 0.23
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (33 bp):
GCGAACCCCATGTTATATAGTATGACATAGTAT
Found at i:45025143 original size:67 final size:67
Alignment explanation
Indices: 45025002--45025146 Score: 159
Period size: 67 Copynumber: 2.2 Consensus size: 67
45024992 ACCCAACCCT
* ** * *
45025002 CATGTTATATAGTATGACATAGTATGTGAACCCCATGTTATATAATATGACATAGAATGCGAACC
1 CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
*
45025067 CC
66 CA
* * * * *
45025069 CACGTTATATAGAATGACATAGTATGCAAATCCTCATGTTCTATTGA-ATGACAT-GTATGCAAA
1 CATGTTATATAGAATGACATAGTATGCAAA-CCCCATGTTATA-TAATATGACATAGAATGCAAA
45025132 CACA
64 CACA
45025136 CATGTTATATA
1 CATGTTATATA
45025147 ATATTTGATT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 45 0.70
68 17 0.27
69 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (67 bp):
CATGTTATATAGAATGACATAGTATGCAAACCCCATGTTATATAATATGACATAGAATGCAAACA
CA
Found at i:45025456 original size:17 final size:17
Alignment explanation
Indices: 45025431--45025496 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 17
45025421 AATAATATTG
*
45025431 ATAAGTTTTTATATTTT
1 ATAATTTTTTATATTTT
45025448 ATAATTTTTTCA-AGTTTAT
1 ATAATTTTTT-ATA-TTT-T
*
45025467 ATAATTTTTTTTTATTTT
1 ATAA-TTTTTTATATTTT
45025485 -TAATATTTTTAT
1 ATAAT-TTTTTAT
45025497 GGGAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 19 0.47
18 5 0.12
19 8 0.20
20 7 0.17
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (17 bp):
ATAATTTTTTATATTTT
Found at i:45025915 original size:23 final size:23
Alignment explanation
Indices: 45025885--45025930 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45025875 ATTTATCTTG
* *
45025885 ACTTTTTTTATGAATAAGATTTC
1 ACTTTTTTTATCAATAACATTTC
45025908 ACTTTTTTTATCAATAACATTTC
1 ACTTTTTTTATCAATAACATTTC
45025931 TTGAGTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (23 bp):
ACTTTTTTTATCAATAACATTTC
Found at i:45026337 original size:9 final size:9
Alignment explanation
Indices: 45026325--45026370 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
45026315 TTGTTTTTTT
45026325 AATTTTAAA
1 AATTTTAAA
45026334 AATTTTAAA
1 AATTTTAAA
*
45026343 ATTTTTAAA
1 AATTTTAAA
**
45026352 AATTCAAAA
1 AATTTTAAA
*
45026361 AATTATAAA
1 AATTTTAAA
45026370 A
1 A
45026371 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
AATTTTAAA
Found at i:45029195 original size:17 final size:17
Alignment explanation
Indices: 45029173--45029206 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45029163 ATAAAACGCA
*
45029173 TTAAAGCATCAAAAAGC
1 TTAAAGAATCAAAAAGC
*
45029190 TTAAAGAATCAATAAGC
1 TTAAAGAATCAAAAAGC
45029207 ATATGAACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
TTAAAGAATCAAAAAGC
Found at i:45037235 original size:29 final size:28
Alignment explanation
Indices: 45037178--45037233 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
45037168 TTAGGGCCTT
*
45037178 GGGGAAAATGTAATTATGCAAAAGTTTA
1 GGGGAAAATGTAATTATGAAAAAGTTTA
*
45037206 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGG-AAAA-TGTAATTATGAAAAAGTT
45037234 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.41, C:0.04, G:0.25, T:0.30
Consensus pattern (28 bp):
GGGGAAAATGTAATTATGAAAAAGTTTA
Found at i:45037650 original size:50 final size:50
Alignment explanation
Indices: 45037572--45037764 Score: 271
Period size: 50 Copynumber: 3.8 Consensus size: 50
45037562 ATTTGGGTAA
45037572 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
45037622 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
45037672 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGACATGGGCACCGACATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
45037722 AGAACATCCCATGTAAGATCATGCCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45037765 TGTTATTATC
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 93 0.74
51 31 0.25
52 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:45042399 original size:23 final size:22
Alignment explanation
Indices: 45042372--45042416 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
45042362 CCTATGTTTA
45042372 TACTT-TTAGGAATTTAATATTTT
1 TACTTCTTA-GAATTTAA-ATTTT
*
45042395 TACTTCTTAGATTTTAAATTTT
1 TACTTCTTAGAATTTAAATTTT
45042417 AAATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 12 0.60
24 3 0.15
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (22 bp):
TACTTCTTAGAATTTAAATTTT
Found at i:45046144 original size:11 final size:11
Alignment explanation
Indices: 45046130--45046188 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
45046120 TAAATATATC
45046130 TAAAATAATAA
1 TAAAATAATAA
45046141 TAAAATTAATAA
1 TAAAA-TAATAA
*
45046153 TAAAATAAAAA
1 TAAAATAATAA
* *
45046164 CT-ATATAATAT
1 -TAAAATAATAA
*
45046175 TCAAATAATAA
1 TAAAATAATAA
45046186 TAA
1 TAA
45046189 TAAAATGACA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
10 1 0.03
11 25 0.66
12 12 0.32
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:45046152 original size:12 final size:12
Alignment explanation
Indices: 45046130--45046158 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45046120 TAAATATATC
45046130 TAAAA-TAATAA
1 TAAAATTAATAA
45046141 TAAAATTAATAA
1 TAAAATTAATAA
45046153 TAAAAT
1 TAAAAT
45046159 AAAAACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Done.