Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 305 of 311
Found at i:99602991 original size:8 final size:8
Alignment explanation
Indices: 99602978--99603027 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
99602968 TTTATTTTAT
*
99602978 TTTAATCA
1 TTTAATTA
99602986 TTTAATTA
1 TTTAATTA
*
99602994 -TTAATTT
1 TTTAATTA
99603001 TTTAA--A
1 TTTAATTA
99603007 TTTAATTA
1 TTTAATTA
*
99603015 TTTAATTT
1 TTTAATTA
99603023 TTTAA
1 TTTAA
99603028 AATTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 5 0.14
7 6 0.17
8 24 0.69
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTAATTA
Found at i:99603001 original size:21 final size:20
Alignment explanation
Indices: 99602969--99603023 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
99602959 ACTATAAATT
*
99602969 TTATTTTATTTTAATCATTTAA
1 TTATTTAATTTTAA--ATTTAA
99602991 TTA-TTAATTTTTTAAATTTAA
1 TTATTTAA--TTTTAAATTTAA
99603012 TTATTTAATTTT
1 TTATTTAATTTT
99603024 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.14
21 12 0.41
22 7 0.24
23 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTAATTTTAAATTTAA
Found at i:99603024 original size:22 final size:21
Alignment explanation
Indices: 99602985--99603033 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
99602975 TATTTTAATC
99602985 ATTTAATTATTAATTTTTTAA
1 ATTTAATTATTAATTTTTTAA
99603006 ATTTAATTATTTAATTTTTTAA
1 ATTTAATTA-TTAATTTTTTAA
*
99603028 AATTAA
1 ATTTAA
99603034 ATTTTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTAATTATTAATTTTTTAA
Found at i:99606287 original size:50 final size:50
Alignment explanation
Indices: 99606167--99606301 Score: 200
Period size: 50 Copynumber: 2.7 Consensus size: 50
99606157 ATCTGGTATG
* * ** *
99606167 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
* *
99606216 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
99606266 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
99606302 CACAATAGAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 32 0.42
50 45 0.58
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACA
Found at i:99610745 original size:31 final size:31
Alignment explanation
Indices: 99610710--99610786 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
99610700 ACTAATAGTT
***
99610710 GGACTTAAATTTTAAAATCTTAAAAATAGAA
1 GGACTTAAATTTTAAAAAAATAAAAATAGAA
*
99610741 GGAC-TAAATTCTTAAAAAAATAAAAATATAA
1 GGACTTAAATT-TTAAAAAAATAAAAATAGAA
*
99610772 CGA-TTAAATTTTAAA
1 GGACTTAAATTTTAAA
99610787 TTTATAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (31 bp):
GGACTTAAATTTTAAAAAAATAAAAATAGAA
Found at i:99611923 original size:22 final size:22
Alignment explanation
Indices: 99611882--99611954 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
99611872 GAATTAAATT
**
99611882 ATATAATTTTATTACATTAAAA
1 ATATAATTTTATTATTTTAAAA
*
99611904 ATATAATTTTATTATTTTAATA
1 ATATAATTTTATTATTTTAAAA
* * *
99611926 GTTTATATTTTATAATTTTTAAAA
1 ATATA-ATTTTATTA-TTTTAAAA
99611950 A-ATAA
1 ATATAA
99611955 ATTAAATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 23 0.57
23 10 0.25
24 7 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
ATATAATTTTATTATTTTAAAA
Found at i:99612026 original size:78 final size:80
Alignment explanation
Indices: 99611873--99612026 Score: 183
Period size: 78 Copynumber: 1.9 Consensus size: 80
99611863 GGAGGTTAAG
* *
99611873 AATTAAATTATATAATTTTATTACATTAAAAATATAATTTTATTATTTTAATAGTTTATATTTTA
1 AATTAAATTATATAATTTTATTACATTAAAAATATAATTTTATTATTTTAATA-TTAAAATTTTA
* *
99611938 TAATTTTTAAAAAATA
65 TAACTATTAAAAAATA
* *
99611954 AATTAAATT-T-TAATTTT-TTGAGATT-AAAGTATAATTTTATTATTGTTAAT-TTAAAATTTT
1 AATTAAATTATATAATTTTATT-ACATTAAAAATATAATTTTATTATT-TTAATATTAAAATTTT
99612014 ATAAACTATTAAA
64 AT-AACTATTAAA
99612027 GGACTTAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
77 10 0.16
78 28 0.44
79 16 0.25
80 1 0.02
81 9 0.14
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (80 bp):
AATTAAATTATATAATTTTATTACATTAAAAATATAATTTTATTATTTTAATATTAAAATTTTAT
AACTATTAAAAAATA
Found at i:99612899 original size:29 final size:29
Alignment explanation
Indices: 99612819--99612888 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
99612809 ATATTAAAAT
* * *
99612819 TATACATGAACTATGGTTTAATGTGCAATTG
1 TATACATGAACTTTAGTTT--TGTGCAATTC
*
99612850 TATATATGAACTTTAGTTTTGTGCAATTC
1 TATACATGAACTTTAGTTTTGTGCAATTC
99612879 TATACATGAA
1 TATACATGAA
99612889 TTTTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (29 bp):
TATACATGAACTTTAGTTTTGTGCAATTC
Found at i:99617156 original size:18 final size:19
Alignment explanation
Indices: 99617135--99617175 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
99617125 ATGCCTCTAA
99617135 AATAATAGCAA-AGTTA-AC
1 AATAA-AGCAAGAGTTATAC
*
99617153 AATAAAGTAAGAGTTATAC
1 AATAAAGCAAGAGTTATAC
99617172 AATA
1 AATA
99617176 TTCAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.24
Consensus pattern (19 bp):
AATAAAGCAAGAGTTATAC
Found at i:99617204 original size:11 final size:11
Alignment explanation
Indices: 99617188--99617230 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
99617178 CAAATAAAAA
99617188 TAACAAAATAG
1 TAACAAAATAG
* *
99617199 TAACAATATAA
1 TAACAAAATAG
*
99617210 TAACGAAATAG
1 TAACAAAATAG
*
99617221 TACCAAAATA
1 TAACAAAATA
99617231 TTGACAAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (11 bp):
TAACAAAATAG
Found at i:99619832 original size:5 final size:5
Alignment explanation
Indices: 99619822--99619857 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
99619812 AATAATTAAG
99619822 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
99619858 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:99619927 original size:31 final size:30
Alignment explanation
Indices: 99619892--99619952 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
99619882 GAAACAGAAT
*
99619892 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
99619923 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
99619953 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:99621526 original size:39 final size:39
Alignment explanation
Indices: 99621419--99621553 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
99621409 GACCTCGAGT
* * *
99621419 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
99621460 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
99621498 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
99621537 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
99621554 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:99626102 original size:20 final size:20
Alignment explanation
Indices: 99626031--99626103 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
99626021 GTTAAATCAA
**
99626031 AAAATTATTAATATTTATTT
1 AAAATTATTAATATTTAAAT
* *
99626051 ATAATGATTAATA-TT-AAT
1 AAAATTATTAATATTTAAAT
*
99626069 --ATTTAATT-ATATTTAAAT
1 AAAATT-ATTAATATTTAAAT
99626087 AAAATTATTAATATTTA
1 AAAATTATTAATATTTA
99626104 TTTACAAGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
16 5 0.12
17 5 0.12
18 4 0.10
19 5 0.12
20 21 0.52
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
AAAATTATTAATATTTAAAT
Found at i:99644037 original size:22 final size:24
Alignment explanation
Indices: 99644012--99644064 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
99644002 TTTTGATATT
*
99644012 TTATTATAAAT-A-TTTTAATTAA
1 TTATTATAAATCAGTTTAAATTAA
*
99644034 TTA-TAT-AATCAGTTTAAATTAT
1 TTATTATAAATCAGTTTAAATTAA
99644056 TTATTATAA
1 TTATTATAA
99644065 TTATAGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 4 0.16
22 14 0.56
23 3 0.12
24 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTATAAATCAGTTTAAATTAA
Found at i:99645210 original size:6 final size:7
Alignment explanation
Indices: 99645193--99645219 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
99645183 TCAATGTGAT
99645193 TTTTTTA
1 TTTTTTA
99645200 TTTTTTA
1 TTTTTTA
99645207 TTTTTTA
1 TTTTTTA
99645214 TTTTTT
1 TTTTTT
99645220 GTGTGCAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:99653884 original size:29 final size:31
Alignment explanation
Indices: 99653822--99653898 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
99653812 TTAAAATTTT
*
99653822 AAAAATATAAAAACTAAATTTCATCAAATT-
1 AAAAATATAAAGACTAAATTTCATCAAATTA
* *
99653852 -AAAATATAATGACTAAA-TTCAT-AACTTAA
1 AAAAATATAAAGACTAAATTTCATCAAATT-A
99653881 AAAAATGATAAAGACTAA
1 AAAAAT-ATAAAGACTAA
99653899 TAACATAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 4 0.10
28 5 0.13
29 15 0.38
30 5 0.13
31 10 0.26
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (31 bp):
AAAAATATAAAGACTAAATTTCATCAAATTA
Found at i:99655030 original size:17 final size:16
Alignment explanation
Indices: 99654991--99655030 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
99654981 AAAAAAGCTT
99654991 ATATATATTTTTTTAAA
1 ATATA-ATTTTTTTAAA
*
99655008 ATATAATTTTTTTTAA
1 ATATAATTTTTTTAAA
99655024 ATCATAA
1 AT-ATAA
99655031 ATAAGAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATAATTTTTTTAAA
Found at i:99675128 original size:14 final size:14
Alignment explanation
Indices: 99675109--99675140 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
99675099 TAAAACTGAT
99675109 TATAATTATTTTGA
1 TATAATTATTTTGA
99675123 TATAATTATTTTGA
1 TATAATTATTTTGA
99675137 TATA
1 TATA
99675141 TTCTCTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (14 bp):
TATAATTATTTTGA
Found at i:99675252 original size:22 final size:22
Alignment explanation
Indices: 99675213--99675260 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
99675203 ATGTTTCACT
99675213 TATAATTATATTAAAAT-ATAA
1 TATAATTATATTAAAATAATAA
**
99675234 TATAATTTATATTTTAATAATAA
1 TATAA-TTATATTAAAATAATAA
99675257 -ATAA
1 TATAA
99675261 AATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAATTATATTAAAATAATAA
Found at i:99675265 original size:20 final size:20
Alignment explanation
Indices: 99675242--99675279 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99675232 AATATAATTT
99675242 ATATTTTAATAA-TAAATAAA
1 ATATTTT-ATAATTAAATAAA
99675262 ATATTTTATAATTAAATA
1 ATATTTTATAATTAAATA
99675280 GATTTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTTATAATTAAATAAA
Found at i:99675279 original size:27 final size:27
Alignment explanation
Indices: 99675212--99675279 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
99675202 TATGTTTCAC
* *
99675212 TTATAATTATATTAAAATATAATATAAT
1 TTATAATTA-AATAAAATATAAAATAAT
* * *
99675240 TTATATTTTAATAATAA-ATAAAATATT
1 TTATAATTAAATAA-AATATAAAATAAT
99675267 TTATAATTAAATA
1 TTATAATTAAATA
99675280 GATTTTTGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 23 0.72
28 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATAATTAAATAAAATATAAAATAAT
Found at i:99681807 original size:130 final size:130
Alignment explanation
Indices: 99681653--99682020 Score: 504
Period size: 130 Copynumber: 2.8 Consensus size: 130
99681643 AGAGCCGAGT
* * * * * *
99681653 GAAATTTTGAAGGGATATTTGATTATTTTAAAC-AATCGGGAAATTTCTACCCAACACGTTAGGG
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTACAACCCAACACGTTAGGG
* * * * *
99681717 CACGATCCCGCGAATTGCCAAATATCACATATCGCCTTCGTTTTAGGGATTTTAAAAGACATGAG
65 CACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAA
99681782 C
130 C
* * *
99681783 GAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
* * * * * *
99681848 AAGATTCCGCGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATATGAAT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAAC
* * *
99681913 GAAATTTCGAAGGGAAATTCGATTATTTTGAGCAAATGCGAAATTACAACTCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
*
99681978 ACGATTCCGCGAATTGCCAAACATCAAATTTCGTCTTCGTTTT
66 ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTT
99682021 GGAGAATTTT
Statistics
Matches: 208, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
130 205 0.99
131 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (130 bp):
GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
ACGATTCCGCGAATTGCCAAACATCAAATATCGTCTTCGTTTTAGGGATTTTAAAAGACATGAAC
Found at i:99682684 original size:22 final size:22
Alignment explanation
Indices: 99682659--99682702 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
99682649 TTACTTTTAA
99682659 AATTATTAGAAATTAAATTACT
1 AATTATTAGAAATTAAATTACT
*
99682681 AATTATTAGGAATTAAATTACT
1 AATTATTAGAAATTAAATTACT
99682703 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
AATTATTAGAAATTAAATTACT
Found at i:99684721 original size:47 final size:47
Alignment explanation
Indices: 99684652--99684869 Score: 190
Period size: 47 Copynumber: 4.6 Consensus size: 47
99684642 CATGGCAACA
* * * *
99684652 TGTGATATGTGATTTCCATATAAGACCATAGT-TGGGCTATGGCATCGG
1 TGTGATATGTG-CTTACGTATAAGACCATA-TCTGGGATATGGCATCGG
* * *
99684700 TGTGATATGAGCTTACGTATAAGACCATATGTGAGATATGGCATCGG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* * * *
99684747 TGTGATATGTGCTTATGTGTAAGACCATATCTAGGATATGGCATCAG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* * * ** * *
99684794 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGG
1 TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
* *
99684840 TGTATGATATGTGAC-TATGTACAAGACCAT
1 TG--TGATATGTG-CTTACGTATAAGACCAT
99684870 CGTTTTACTA
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
46 29 0.21
47 80 0.58
48 19 0.14
49 11 0.08
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTTACGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:99690134 original size:20 final size:20
Alignment explanation
Indices: 99690111--99690154 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
99690101 CTATAAAAAT
99690111 TAATTATATATGTTA-AATAA
1 TAATTATATAT-TTATAATAA
*
99690131 TAATTATATATTTATATTAA
1 TAATTATATATTTATAATAA
99690151 TAAT
1 TAAT
99690155 CACTAACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTATATATTTATAATAA
Found at i:99691468 original size:17 final size:18
Alignment explanation
Indices: 99691448--99691481 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99691438 AAAACAAGCA
*
99691448 AAGC-CTGAAAATCAAAT
1 AAGCACTGAAAAACAAAT
99691465 AAGCACTGAAAAACAAA
1 AAGCACTGAAAAACAAA
99691482 AACAAAACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.18, G:0.12, T:0.12
Consensus pattern (18 bp):
AAGCACTGAAAAACAAAT
Found at i:99697889 original size:2 final size:2
Alignment explanation
Indices: 99697884--99697928 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
99697874 CTCTCCCTCT
*
99697884 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
99697926 CA C
1 CA C
99697929 TATCACTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:99699688 original size:26 final size:26
Alignment explanation
Indices: 99699659--99699711 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
99699649 ATTGGAGAAG
99699659 TACTTAGTCTACAATGTGAGGCTAAT
1 TACTTAGTCTACAATGTGAGGCTAAT
99699685 TACTTAGTCTACAATGTGAGGCTAAT
1 TACTTAGTCTACAATGTGAGGCTAAT
99699711 T
1 T
99699712 CCCATGATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (26 bp):
TACTTAGTCTACAATGTGAGGCTAAT
Found at i:99709092 original size:25 final size:26
Alignment explanation
Indices: 99709048--99709102 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
99709038 TAATCAAATC
*
99709048 TTATAATATTTTTGCTTTTTGTTGTG
1 TTATAATATTTTTGCATTTTGTTGTG
99709074 TTATAATA-TTTTGCATTTTGTTGTG
1 TTATAATATTTTTGCATTTTGTTGTG
99709099 TTAT
1 TTAT
99709103 GGTATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.18, C:0.04, G:0.15, T:0.64
Consensus pattern (26 bp):
TTATAATATTTTTGCATTTTGTTGTG
Found at i:99718028 original size:21 final size:19
Alignment explanation
Indices: 99718004--99718056 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
99717994 ATATTTGGGC
99718004 ATATAATCTTAGTTTTTTTAG
1 ATATAATCTT--TTTTTTTAG
*
99718025 ATATGAT-TTTTTTTTTAG
1 ATATAATCTTTTTTTTTAG
* *
99718043 CTATTATCTTTTTT
1 ATATAATCTTTTTT
99718057 CTTAATTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 6 0.21
20 2 0.07
21 6 0.21
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.64
Consensus pattern (19 bp):
ATATAATCTTTTTTTTTAG
Found at i:99718039 original size:18 final size:19
Alignment explanation
Indices: 99718016--99718056 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
99718006 ATAATCTTAG
99718016 TTTTTTTAGATATGAT-TT
1 TTTTTTTAGATATGATCTT
* *
99718034 TTTTTTTAGCTATTATCTT
1 TTTTTTTAGATATGATCTT
99718053 TTTT
1 TTTT
99718057 CTTAATTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTTAGATATGATCTT
Found at i:99727408 original size:153 final size:153
Alignment explanation
Indices: 99727130--99727440 Score: 622
Period size: 153 Copynumber: 2.0 Consensus size: 153
99727120 ATATTTTTTA
99727130 ATTTTAGTGTTTGATAAATAGAGGTTTAAAGGAATTTGTTGAACTAAAACTTCTAAAATAAAAAA
1 ATTTTAGTGTTTGATAAATAGAGGTTTAAAGGAATTTGTTGAACTAAAACTTCTAAAATAAAAAA
99727195 TAATAATATGGGTAACTTTTTTCACGGCTAATTAGGTATGAGATATATGAAAATGATATATCTGA
66 TAATAATATGGGTAACTTTTTTCACGGCTAATTAGGTATGAGATATATGAAAATGATATATCTGA
99727260 CCATACTTGTTCAAAAATTACTC
131 CCATACTTGTTCAAAAATTACTC
99727283 ATTTTAGTGTTTGATAAATAGAGGTTTAAAGGAATTTGTTGAACTAAAACTTCTAAAATAAAAAA
1 ATTTTAGTGTTTGATAAATAGAGGTTTAAAGGAATTTGTTGAACTAAAACTTCTAAAATAAAAAA
99727348 TAATAATATGGGTAACTTTTTTCACGGCTAATTAGGTATGAGATATATGAAAATGATATATCTGA
66 TAATAATATGGGTAACTTTTTTCACGGCTAATTAGGTATGAGATATATGAAAATGATATATCTGA
99727413 CCATACTTGTTCAAAAATTACTC
131 CCATACTTGTTCAAAAATTACTC
99727436 ATTTT
1 ATTTT
99727441 TCACATGTAT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 158 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (153 bp):
ATTTTAGTGTTTGATAAATAGAGGTTTAAAGGAATTTGTTGAACTAAAACTTCTAAAATAAAAAA
TAATAATATGGGTAACTTTTTTCACGGCTAATTAGGTATGAGATATATGAAAATGATATATCTGA
CCATACTTGTTCAAAAATTACTC
Found at i:99730248 original size:3 final size:3
Alignment explanation
Indices: 99730240--99730407 Score: 125
Period size: 3 Copynumber: 56.0 Consensus size: 3
99730230 TAGTACCATG
99730240 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
99730287 AAA ATA ACA AT- ATG TTA TTA ATA ATAA ATAA ATAA ATA ATG GTA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A ATA ATA ATA AT-A
* * *
99730335 ATA TATA A-A ATA ATA GTA ACA GTA ATA A-A ATA A-A TATA AT- ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
*
99730378 ATA A-A TATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
99730408 TTTAAAAATA
Statistics
Matches: 134, Mismatches: 19, Indels: 24
0.76 0.11 0.14
Matches are distributed among these distances:
2 12 0.09
3 103 0.77
4 19 0.14
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99732546 original size:18 final size:19
Alignment explanation
Indices: 99732523--99732565 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
99732513 ACATATATGT
99732523 ATAATAATGATGAAAAT-A
1 ATAATAATGATGAAAATAA
*
99732541 ATAATAATGGTGAAAATAA
1 ATAATAATGATGAAAATAA
99732560 ATAATA
1 ATAATA
99732566 TAATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (19 bp):
ATAATAATGATGAAAATAA
Found at i:99735236 original size:214 final size:210
Alignment explanation
Indices: 99734867--99735463 Score: 851
Period size: 214 Copynumber: 2.9 Consensus size: 210
99734857 GGCATGTGAT
99734867 CCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAACAGATTTTGAAAATACCTCGG
1 CCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAACAGATTTTGAAAATACCTCGG
*
99734932 CATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACA-AAAAATTGA
66 CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAATTG-
99734996 AAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAG
130 AAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTA-
99735061 AAATTAAAAGGTTCAACCC
194 AAATTAAAAGGTTCAA--C
99735080 ACCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAACAGATTTTGAAAATACCTCG
1 -CCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAACAGATTTTGAAAATACCTCG
99735145 GCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAATTG
65 GCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAATTG
*
99735210 AAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAT
130 AAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAA
99735275 AATTAAAAGGTTCAAC
195 AATTAAAAGGTTCAAC
* *
99735291 CCTCTCGCAATATGAGTTGA-TTTT----------TTTG--AAAGTAGAATTTGAAAATACCTCG
1 CCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAA-CAGATTTTGAAAATACCTCG
* ** *
99735343 GC--GTG-CCCGAGGCTCAACT--CCTCTCGCAATATGAGTTG-ATTTTGAA-A-ACAGAAATTG
65 GCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAATTG
* * * *
99735400 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAA
130 AAA-TACCTCAGCGTG-CCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGA-TTTTGAAAAA
99735464 CATAAATTGA
Statistics
Matches: 366, Mismatches: 12, Indels: 31
0.89 0.03 0.08
Matches are distributed among these distances:
190 12 0.03
191 13 0.04
192 37 0.10
193 29 0.08
195 14 0.04
196 3 0.01
197 3 0.01
198 20 0.05
199 4 0.01
209 4 0.01
210 20 0.05
211 1 0.00
213 15 0.04
214 183 0.50
215 8 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (210 bp):
CCTCTCGCAATATGAGTTGATTTTTGAACACAGAATTTGCCAAACAGATTTTGAAAATACCTCGG
CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACACAAAAATTGA
AATACCTCAGCGTGCCCGAGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTGAAAAAGTAAA
ATTAAAAGGTTCAAC
Found at i:99735373 original size:71 final size:72
Alignment explanation
Indices: 99735291--99736128 Score: 896
Period size: 73 Copynumber: 11.3 Consensus size: 72
99735281 AAGGTTCAAC
** * * *
99735291 CCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTG-CCCGAGG
1 CCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
99735355 CTCAACT-
65 CTCAACTA
*
99735362 CCTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
1 CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
99735425 TCAACTCA
66 TCAACT-A
* * *
99735433 CCTCTCGTAATATGAGTTGA-TTTTTGAAAAACATAAATTGAACAGGAATTGAAAATACATCAAC
1 CCTCTCGCAATATGAGTTGATTTTTTG-AAAAC----A--G---A--AATTGAAAATACCTCAGC
*
99735497 GTGTCTTGAGGCTCAACTCA
54 GTGTCCTGAGGCTCAACT-A
** *
99735517 CCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGG
1 CCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
99735581 CTCAACTCA
65 CTCAACT-A
*
99735590 CCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAAACAGAAATTGAAAATACCTCAGCATGTGA
1 CCTCTCGCAATATGAGTTGATTTTTT------GAAAACAGAAATTGAAAATACCTCAGC--GTG-
*
99735655 ACC-GAGGCTCAACTCA
57 TCCTGAGGCTCAACT-A
99735671 CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCA-CGTGT-CTGAGGC
1 CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
99735734 TCAACT-
66 TCAACTA
* * * * * *
99735740 CATTTCTGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGG
1 CCTCTC-GCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
99735804 CTCAACTCA
65 CTCAACT-A
** * *
99735813 TTTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTG-AAATACCTCAGCGTGTTCTGAGG
1 CCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
99735877 CTCAACTCA
65 CTCAACT-A
* *
99735886 CCTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGC
1 CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
99735949 TCAACTCA
66 TCAACT-A
** * * * *
99735957 TTTCTCGCAATATAAGTTGA-ATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
1 CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
99736021 TCAACTCA
66 TCAACT-A
** * * *
99736029 TTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGTGTTCTGA
1 CCTCTCGCAATATGAGTTGA--TTTTTTGAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGA
99736094 GGCTCAACTCA
63 GGCTCAACT-A
99736105 CCTCTCGCAATATGAGTTGATTTT
1 CCTCTCGCAATATGAGTTGATTTT
99736129 GAAAAACAAA
Statistics
Matches: 670, Mismatches: 56, Indels: 79
0.83 0.07 0.10
Matches are distributed among these distances:
68 29 0.04
69 45 0.07
70 36 0.05
71 108 0.16
72 87 0.13
73 111 0.17
74 27 0.04
75 31 0.05
76 60 0.09
77 1 0.00
78 1 0.00
79 21 0.03
80 5 0.01
81 42 0.06
82 2 0.00
83 4 0.01
84 60 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
CCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
TCAACTA
Found at i:99735828 original size:296 final size:286
Alignment explanation
Indices: 99735291--99736318 Score: 1021
Period size: 296 Copynumber: 3.6 Consensus size: 286
99735281 AAGGTTCAAC
* ** * * *
99735291 CCTCTCGCAATATGAGTTGATTTTTTTGAAAGTAGAATTTGAAAATACCTCGGC-GTGCCCGAGG
1 CCTCTCGCAATATGAGTTGA---TTTTAAAAACAGAAATTGAAAATACCTCAGCAGTGACCGAGG
99735355 CTCAACT--CCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
63 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
** *
99735418 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATT
128 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG-AAAAC----A--G---A--AATT
* * * *
99735483 GAAAATACATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG
181 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-
*
99735548 CAGAAATTGAAAATACCTCAATGTG-TCTTGAGGCTCAACTCA
245 CAGAAATTGAAAATACCTCAACGTGTTC-TGAGGCTCAACTCA
99735590 CCTCTCGCAATATGAGTTGATTTTTTAAAAAAAAAAACAGAAATTGAAAATACCTCAGCATGTGA
1 CCTCTCGCAATATGAGTTGA--TTTT------AAAAACAGAAATTGAAAATACCTCAGCA-GTG-
*
99735655 ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAATACCT
56 ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTGAAATTACCT
* *
99735720 CA-CGTGT-CTGAGGCTCAACTCATTTCT-GCAATATAAGTTGAATTTTGAAAACAGAAATTGAA
119 CAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAA
* ** *
99735782 ATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAAAACA
184 ATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACA
*
99735847 GAAATTG-AAATACCTCAGCGTGTTCTGAGGCTCAACTCA
247 GAAATTGAAAATACCTCAACGTGTTCTGAGGCTCAACTCA
* * * *
99735886 CCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTCAAC-GTGTCTTGAGGCT
1 CCTCTCGCAATATGAGTTGATTTTAAAAACAGAAATTGAAAATACCTCAGCAGTGAC-CGAGGCT
** * *
99735950 CAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCC
65 CAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC
*
99736015 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACC
129 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---TTTTTGAA-AACAGAAATTGAAATTACC
* *
99736080 TCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-
190 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG
99736143 ---A-A----AA-G-G--CT-----T-AACTCA
254 AAAATACCTCAACGTGTTCTGAGGCTCAACTCA
* * * ** * *
99736158 CCTCTCGCAATATGAG-TCAATTT-AAAACATAAA-CAAAAATACCTCGGC-GTGCCCCGAGGCT
1 CCTCTCGCAATATGAGTTGATTTTAAAAACAGAAATTGAAAATACCTCAGCAGTG-ACCGAGGCT
* * * * * *
99736219 CAACTCACTTCTCGCAATATGAGTTGATTTTTTAAAA-A-AAATTAAAAATACCTCAACGTGTCT
65 CAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC
*
99736282 TGAGGCTCAACTC-TCTCTCGCAATATGAGTTGATTTT
129 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
99736319 CCTTGGAAAG
Statistics
Matches: 643, Mismatches: 58, Indels: 92
0.81 0.07 0.12
Matches are distributed among these distances:
263 4 0.01
266 19 0.03
267 34 0.05
268 2 0.00
269 52 0.08
270 10 0.02
271 5 0.01
272 22 0.03
273 1 0.00
278 2 0.00
280 1 0.00
281 1 0.00
282 1 0.00
285 28 0.04
286 38 0.06
287 22 0.03
288 38 0.06
289 4 0.01
290 11 0.02
291 6 0.01
292 60 0.09
294 4 0.01
296 98 0.15
297 11 0.02
298 16 0.02
299 20 0.03
301 1 0.00
303 1 0.00
304 22 0.03
306 3 0.00
307 18 0.03
308 17 0.03
309 38 0.06
310 5 0.01
311 28 0.04
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (286 bp):
CCTCTCGCAATATGAGTTGATTTTAAAAACAGAAATTGAAAATACCTCAGCAGTGACCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTG
AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATAC
CTCAACGTGTTCTGAGGCTCAACTCA
Found at i:99735884 original size:144 final size:145
Alignment explanation
Indices: 99735473--99736128 Score: 817
Period size: 144 Copynumber: 4.5 Consensus size: 145
99735463 ACATAAATTG
* * * *
99735473 AACAGGAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
99735537 TTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
66 TTTTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATA
* *
99735602 TGAGTTGATTTTTTAAAAAAAAA
129 TGAGTTGATATTTT------GAA
*
99735625 AACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
99735689 GATTTTTTGAAAACAGAAATTGAAAATACCTCA-CGTGTCTGAGGCTCAACTCATTTCT-GCAAT
63 GATTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAAT
*
99735752 ATAAGTTGA-ATTTTGAA
128 ATGAGTTGATATTTTGAA
* * **
99735769 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
*
99735834 TTTTTTTAAAACAGAAATTG-AAATACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATA
65 TTTTTTGAAAACAGAAATTGAAAATACCTCAGCGTG-TCTGAGGCTCAACTCACCTCTCGCAATA
99735898 TGAGTTG--ATTTTGAA
129 TGAGTTGATATTTTGAA
* * ** *
99735913 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * **
99735977 ATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
66 TTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATAT
* *
99736042 GAGTTGATTTTTTTTTAA
130 GAGTTGA--TATTTTGAA
* *
99736060 CAACAGAAATTGAAATTACCTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 -AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
99736125 TTTT
65 TTTT
99736129 GAAAAACAAA
Statistics
Matches: 446, Mismatches: 41, Indels: 37
0.85 0.08 0.07
Matches are distributed among these distances:
141 2 0.00
142 60 0.13
143 69 0.15
144 111 0.25
145 12 0.03
147 6 0.01
148 57 0.13
149 2 0.00
150 4 0.01
151 13 0.03
152 38 0.09
153 5 0.01
154 56 0.13
155 11 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (145 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATATTTTGAA
Found at i:99748760 original size:18 final size:19
Alignment explanation
Indices: 99748737--99748779 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
99748727 ACATATATGT
99748737 ATAATAATGATGAAAAT-A
1 ATAATAATGATGAAAATAA
*
99748755 ATAATAATGGTGAAAATAA
1 ATAATAATGATGAAAATAA
99748774 ATAATA
1 ATAATA
99748780 TAATAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (19 bp):
ATAATAATGATGAAAATAA
Found at i:99748864 original size:9 final size:8
Alignment explanation
Indices: 99748852--99748933 Score: 51
Period size: 9 Copynumber: 9.5 Consensus size: 8
99748842 ATAAATATGC
99748852 TAATATGAA
1 TAATAT-AA
99748861 TAATGATAA
1 TAAT-ATAA
99748870 TAATACTAA
1 TAATA-TAA
99748879 TAATAATAA
1 TAAT-ATAA
*
99748888 -AATACGAA
1 TAATA-TAA
*
99748896 GAAGTATATA
1 TAA-TATA-A
99748906 TAATATAA
1 TAATATAA
99748914 TAATATTAA
1 TAATA-TAA
*
99748923 -AATACAA
1 TAATATAA
99748930 TAAT
1 TAAT
99748934 TAAAAGTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
7 3 0.05
8 19 0.32
9 30 0.50
10 8 0.13
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (8 bp):
TAATATAA
Found at i:99749638 original size:7 final size:7
Alignment explanation
Indices: 99749628--99749660 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
99749618 AAATTCTAAA
99749628 TTTTTTC
1 TTTTTTC
99749635 TTTTTTC
1 TTTTTTC
99749642 TTTTTTC
1 TTTTTTC
*
99749649 TTTTTGC
1 TTTTTTC
99749656 TTTTT
1 TTTTT
99749661 ATTATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:99756714 original size:4 final size:4
Alignment explanation
Indices: 99756705--99756747 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
99756695 TTTCATACTT
99756705 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GAT
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GAT
99756748 GCTATTACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
GATA
Found at i:99756989 original size:16 final size:16
Alignment explanation
Indices: 99756959--99756995 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
99756949 TACCCGGAGC
*
99756959 GTATTG-TGTCCCATT
1 GTATTGATGACCCATT
99756974 GTATTGATGACCCATT
1 GTATTGATGACCCATT
99756990 GT-TTGA
1 GTATTGA
99756996 ACTGGTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (16 bp):
GTATTGATGACCCATT
Found at i:99758419 original size:92 final size:93
Alignment explanation
Indices: 99758299--99758486 Score: 315
Period size: 92 Copynumber: 2.0 Consensus size: 93
99758289 TGTTTAATTT
* *
99758299 CTATACAACAGCAAAGAGATGTGCAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGT-CAGA
1 CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
99758363 AGTTTAGATTATTAAAAAAAAAAAAAAA
66 AGTTTAGATTATTAAAAAAAAAAAAAAA
* *
99758391 CTATACAACAGCGAAGAGATGGGAAGCAGCCAGTAAATGGCATTGCAACAAAAGGGATGTCCAGA
1 CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
* *
99758456 AGTTTAGATTATTTAAATAAAAAAAAAA
66 AGTTTAGATTATTAAAAAAAAAAAAAAA
99758484 CTA
1 CTA
99758487 ACTGTGAAGA
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 56 0.63
93 33 0.37
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (93 bp):
CTATACAACAGCAAAGAGATGGGAAGCAGCCAGTAAATGGCATTACAACAAAAGGGATGTCCAGA
AGTTTAGATTATTAAAAAAAAAAAAAAA
Found at i:99769217 original size:14 final size:12
Alignment explanation
Indices: 99769189--99769222 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
99769179 CAGCCTGCTC
99769189 ATATTATTTTTT
1 ATATTATTTTTT
99769201 ATATTATTTTTT
1 ATATTATTTTTT
*
99769213 ATATAATTTT
1 ATATTATTTT
99769223 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:99777603 original size:14 final size:14
Alignment explanation
Indices: 99777584--99777617 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99777574 GTTCCTTATA
*
99777584 TCATTTGATTTTTT
1 TCATTTAATTTTTT
99777598 TCATTTAATTTTTT
1 TCATTTAATTTTTT
*
99777612 TTATTT
1 TCATTT
99777618 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TCATTTAATTTTTT
Found at i:99785751 original size:47 final size:47
Alignment explanation
Indices: 99785678--99785803 Score: 225
Period size: 47 Copynumber: 2.6 Consensus size: 47
99785668 TAAAAGCATC
*
99785678 AAAATAAATATTTAAAAAAATATGTAAACTTATATTTCTCAAAATATTA
1 AAAATAAA-ATTT-AAAAAATATGTAAACTTATATTTCTCAAAAAATTA
99785727 AAAATAAAATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTA
1 AAAATAAAATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTA
99785774 AAAATAAAATTTAAAAAATATGTAAACTTA
1 AAAATAAAATTTAAAAAATATGTAAACTTA
99785804 AATAACACTA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 64 0.84
48 4 0.05
49 8 0.11
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (47 bp):
AAAATAAAATTTAAAAAATATGTAAACTTATATTTCTCAAAAAATTA
Found at i:99785805 original size:24 final size:24
Alignment explanation
Indices: 99785682--99785805 Score: 94
Period size: 24 Copynumber: 5.2 Consensus size: 24
99785672 AGCATCAAAA
99785682 TAAATATTTAAAAAAATATGTAAACT
1 TAAA-ATTT-AAAAAATATGTAAACT
* ** **
99785708 T-ATATTTCTCAAAATAT-TAAAAA
1 TAAAATTT-AAAAAATATGTAAACT
99785731 TAAAATTTAAAAAATATGTAAACT
1 TAAAATTTAAAAAATATGTAAACT
* * * **
99785755 TATATTTCTCAAAAA-AT-TAAAAA
1 TAAAATT-TAAAAAATATGTAAACT
99785778 TAAAATTTAAAAAATATGTAAACT
1 TAAAATTTAAAAAATATGTAAACT
99785802 TAAA
1 TAAA
99785806 TAACACTAAA
Statistics
Matches: 72, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
22 6 0.08
23 23 0.32
24 35 0.49
25 7 0.10
26 1 0.01
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAATTTAAAAAATATGTAAACT
Found at i:99785893 original size:30 final size:32
Alignment explanation
Indices: 99785836--99785899 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
99785826 CTTAACAAGT
*
99785836 AAATGTCTCTAAAATAATAATAAAAAATTAAC
1 AAATGCCTCTAAAATAATAATAAAAAATTAAC
*
99785868 AAATGCCTTTAAAATAAT-A-AAAAAATTAAC
1 AAATGCCTCTAAAATAATAATAAAAAATTAAC
99785898 AA
1 AA
99785900 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 13 0.43
31 1 0.03
32 16 0.53
ACGTcount: A:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (32 bp):
AAATGCCTCTAAAATAATAATAAAAAATTAAC
Found at i:99785954 original size:22 final size:22
Alignment explanation
Indices: 99785928--99785976 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
99785918 ATATCCAAAC
99785928 AATAACAACAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * * *
99785950 CATAATAATAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
99785972 AATAA
1 AATAA
99785977 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:99789475 original size:16 final size:16
Alignment explanation
Indices: 99789454--99789484 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99789444 GATATTTTAA
99789454 TATATTATATTAATAT
1 TATATTATATTAATAT
*
99789470 TATATTATGTTAATA
1 TATATTATATTAATA
99789485 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:99789581 original size:12 final size:12
Alignment explanation
Indices: 99789564--99789594 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
99789554 GAAGCAGGGG
99789564 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
99789576 AGAAAAAGGGAA
1 AGAAAAAGAGAA
99789588 AGAAAAA
1 AGAAAAA
99789595 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:99802160 original size:24 final size:24
Alignment explanation
Indices: 99802106--99802151 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
99802096 TTTCAATAAA
99802106 TTTTAAAATATTATTTTATTTTAGT
1 TTTTAAAATATTATTTTATTTTA-T
*
99802131 TTTTAAAA-ATTATTTTGTTTT
1 TTTTAAAATATTATTTTATTTT
99802152 TTAATTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTAAAATATTATTTTATTTTAT
Found at i:99802624 original size:20 final size:20
Alignment explanation
Indices: 99802585--99802626 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
99802575 ATTTTAATAA
*
99802585 AATACTAATATCATAAAAGT
1 AATACTAATATAATAAAAGT
99802605 AATAC-AATATAATAATAAGT
1 AATACTAATATAATAA-AAGT
99802625 AA
1 AA
99802627 ATAAGGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (20 bp):
AATACTAATATAATAAAAGT
Found at i:99806329 original size:4 final size:4
Alignment explanation
Indices: 99806320--99806352 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
99806310 AAGAAAAAGC
99806320 CAAA CAAA CAAA CAAA CAAA CAAA -AAA CCAAA C
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA -CAAA C
99806353 TACAATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 21 0.78
5 3 0.11
ACGTcount: A:0.73, C:0.27, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:99820246 original size:10 final size:12
Alignment explanation
Indices: 99820219--99820243 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99820209 AAATGTTTTT
99820219 TATTTTTAAATA
1 TATTTTTAAATA
99820231 TATTTTTAAATA
1 TATTTTTAAATA
99820243 T
1 T
99820244 TTTACTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTTAAATA
Found at i:99825640 original size:36 final size:35
Alignment explanation
Indices: 99825576--99825647 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
99825566 AAATTATAAC
*
99825576 AAAATAATAAAAAAACAAGAAAATAGCAAAAAAAA
1 AAAATAATAAAAAAACAAGAAAACAGCAAAAAAAA
*
99825611 AAAAGTAA-AAAAATAAGAAGAAAACAGCAAAAAAAA
1 AAAA-TAATAAAAA-AACAAGAAAACAGCAAAAAAAA
99825647 A
1 A
99825648 GCAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 9 0.27
36 24 0.73
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.07
Consensus pattern (35 bp):
AAAATAATAAAAAAACAAGAAAACAGCAAAAAAAA
Found at i:99825645 original size:11 final size:11
Alignment explanation
Indices: 99825606--99825652 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
99825596 AAATAGCAAA
*
99825606 AAAAAAAAAGT
1 AAAAAAAAAGC
99825617 AAAAAAATAAG-
1 AAAAAAA-AAGC
* *
99825628 AAGAAAACAGC
1 AAAAAAAAAGC
99825639 AAAAAAAAAGC
1 AAAAAAAAAGC
99825650 AAA
1 AAA
99825653 TTTTTTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 25 0.83
12 3 0.10
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:99828390 original size:6 final size:6
Alignment explanation
Indices: 99828379--99828407 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
99828369 GAGCCGGATG
99828379 TGGCTA TGGCTA TGGCTA TGGCTA TGGCT
1 TGGCTA TGGCTA TGGCTA TGGCTA TGGCT
99828408 CTGTCTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.17, G:0.34, T:0.34
Consensus pattern (6 bp):
TGGCTA
Found at i:99835113 original size:26 final size:25
Alignment explanation
Indices: 99835080--99835131 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
99835070 TCAATGTGTA
99835080 TTTCATGATAATTCTT-TAATTTGATT
1 TTTCATGA-AATT-TTATAATTTGATT
*
99835106 TTTCATGAACTTTTATAATTTGATT
1 TTTCATGAAATTTTATAATTTGATT
99835131 T
1 T
99835132 ATTTTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 2 0.08
25 14 0.58
26 8 0.33
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTCATGAAATTTTATAATTTGATT
Found at i:99840842 original size:21 final size:22
Alignment explanation
Indices: 99840780--99840854 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
99840770 CCTGATCAGT
** *
99840780 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
* *
99840801 AAACAACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
99840822 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
99840845 ATACGACACA
1 ATACGACACA
99840855 TAAAGTACCG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 34 0.77
23 10 0.23
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:99841046 original size:10 final size:10
Alignment explanation
Indices: 99841027--99841061 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
99841017 ATCCATTTTC
99841027 ACAA-TTCAT
1 ACAATTTCAT
99841036 ACAATTTCAT
1 ACAATTTCAT
99841046 ACAATTTCAT
1 ACAATTTCAT
*
99841056 TCAATT
1 ACAATT
99841062 CAACAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.17
10 20 0.83
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
ACAATTTCAT
Found at i:99842287 original size:5 final size:5
Alignment explanation
Indices: 99842279--99842305 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
99842269 TCTTTAGTTT
99842279 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
99842306 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:99842341 original size:8 final size:8
Alignment explanation
Indices: 99842328--99842356 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
99842318 AATATTTATT
99842328 ATATAATA
1 ATATAATA
99842336 ATATAATA
1 ATATAATA
99842344 ATATAATA
1 ATATAATA
99842352 ATATA
1 ATATA
99842357 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:99843348 original size:29 final size:30
Alignment explanation
Indices: 99843311--99843372 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
99843301 TTTAAATTTT
99843311 TTTAAATTTTAA-A-ATTGATAAAT-ATAAAA
1 TTTAAATTTTAACACATT-A-AAATGATAAAA
*
99843340 TTTATATTTTAACACATTAAAATGATAAAA
1 TTTAAATTTTAACACATTAAAATGATAAAA
99843370 TTT
1 TTT
99843373 TGATTTAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 15 0.52
30 11 0.38
31 3 0.10
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAAATTTTAACACATTAAAATGATAAAA
Found at i:99847813 original size:16 final size:16
Alignment explanation
Indices: 99847788--99847842 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
99847778 TTGGTTCGCT
*
99847788 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
99847804 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
99847820 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
99847836 GTAATGG
1 GTAATGG
99847843 TATTCTTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:99847885 original size:27 final size:27
Alignment explanation
Indices: 99847847--99847900 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
99847837 TAATGGTATT
99847847 CTTGTGTTTGGTTGAATGGAATAGAGG
1 CTTGTGTTTGGTTGAATGGAATAGAGG
99847874 CTTGTGTTTGGTTGAATGGAATAGAGG
1 CTTGTGTTTGGTTGAATGGAATAGAGG
99847901 TGTAATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.37, T:0.37
Consensus pattern (27 bp):
CTTGTGTTTGGTTGAATGGAATAGAGG
Found at i:99848060 original size:16 final size:15
Alignment explanation
Indices: 99848050--99848205 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
99848040 CATAATTGTT
99848050 ATAAAATATAATTTA
1 ATAAAATATAATTTA
99848065 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
99848082 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
99848094 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
99848106 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
99848120 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
99848139 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
99848156 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
99848167 ATTAAATATAATTTA
1 ATAAAATATAATTTA
99848182 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
99848199 ATAAAAT
1 ATAAAAT
99848206 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:99848095 original size:17 final size:17
Alignment explanation
Indices: 99848055--99848088 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99848045 TTGTTATAAA
99848055 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848072 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848089 TTTTAATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99848212 original size:17 final size:17
Alignment explanation
Indices: 99848172--99848205 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99848162 TTATTATTAA
99848172 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848189 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848206 TGTTAATAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99848304 original size:15 final size:15
Alignment explanation
Indices: 99848284--99848322 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
99848274 CATAATTGTT
99848284 ATAAAATATAATTTA
1 ATAAAATATAATTTA
99848299 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
99848316 ATAAAAT
1 ATAAAAT
99848323 TGTTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:99848311 original size:17 final size:17
Alignment explanation
Indices: 99848289--99848322 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
99848279 TTGTTATAAA
99848289 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848306 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99848323 TGTTATAAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99848393 original size:20 final size:21
Alignment explanation
Indices: 99848354--99848393 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
99848344 AATTTACTAA
*
99848354 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
99848375 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
99848394 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:99848395 original size:116 final size:117
Alignment explanation
Indices: 99848035--99848438 Score: 720
Period size: 117 Copynumber: 3.5 Consensus size: 117
99848025 TTAATCATAT
* * *
99848035 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
99848100 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
99848152 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
99848217 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
99848269 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTT-ATAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
99848333 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* *
99848385 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTACTAAAAT
1 TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAAT
99848439 CATAATATAT
Statistics
Matches: 275, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
116 108 0.39
117 167 0.61
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTTAAAATAATTATTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:99848427 original size:17 final size:17
Alignment explanation
Indices: 99848405--99848438 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99848395 TTATTATTAA
99848405 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
99848422 ATATAATTTACTAAAAT
1 ATATAATTTAATAAAAT
99848439 CATAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99848459 original size:23 final size:22
Alignment explanation
Indices: 99848414--99848503 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
99848404 AATATAATTT
* *
99848414 AATAAAATATATAATTTACTAA
1 AATATAATATATAATCTACTAA
99848436 AATCATAATATATAATACTA-TAA
1 AAT-ATAATATATAAT-CTACTAA
* *
99848459 AATATAATTTAAATAAT-TATTATTA
1 AATATAA--TATATAATCTACTA--A
*
99848484 AATATAATTTATAATCTACT
1 AATATAATATATAATCTACT
99848504 TTATTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
22 9 0.17
23 25 0.46
24 12 0.22
25 8 0.15
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATATATAATCTACTAA
Found at i:99848490 original size:32 final size:32
Alignment explanation
Indices: 99848454--99848517 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
99848444 TATATAATAC
*
99848454 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
99848486 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
99848518 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:99850959 original size:29 final size:29
Alignment explanation
Indices: 99850938--99850996 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
99850928 CATTTTGATG
*
99850938 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTAATGTATTTCAATCATTATCGAT
99850967 TATTTTAATGTATTTCAATCATTATCGAT
1 TATTTTAATGTATTTCAATCATTATCGAT
99850996 T
1 T
99850997 TATATAGTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.53
Consensus pattern (29 bp):
TATTTTAATGTATTTCAATCATTATCGAT
Found at i:99857891 original size:24 final size:24
Alignment explanation
Indices: 99857857--99857902 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99857847 TATATGAAAT
* *
99857857 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
99857881 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
99857903 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:99857985 original size:20 final size:21
Alignment explanation
Indices: 99857956--99857995 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
99857946 AACCATTAAA
99857956 TATTTGTAATTAAT-ATTTTT
1 TATTTGTAATTAATGATTTTT
*
99857976 TATTTTTAATTAATGATTTT
1 TATTTGTAATTAATGATTTT
99857996 AACACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TATTTGTAATTAATGATTTTT
Found at i:99883157 original size:19 final size:19
Alignment explanation
Indices: 99883135--99883173 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99883125 AAAAAACATG
*
99883135 TAATAAATTATTAATAATA
1 TAATAAATTAATAATAATA
* *
99883154 TAATATATTAATATTAATA
1 TAATAAATTAATAATAATA
99883173 T
1 T
99883174 TGAAACCATG
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATAAATTAATAATAATA
Found at i:99883259 original size:30 final size:31
Alignment explanation
Indices: 99883202--99883260 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
99883192 TTGTATTATT
*
99883202 TTAATATTAAATATTTTAAAATAAATTAACA
1 TTAATATTAAATATTCTAAAATAAATTAACA
99883233 TTAATA-TAAATTATTCTAAAAT-AATTAA
1 TTAATATTAAA-TATTCTAAAATAAATTAA
99883261 TATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAATATTAAATATTCTAAAATAAATTAACA
Found at i:99883264 original size:17 final size:17
Alignment explanation
Indices: 99883244--99883280 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
99883234 TAATATAAAT
*
99883244 TATTCTAAAATAATTAA
1 TATTCTAAAAAAATTAA
*
99883261 TATTTTAAAAAAATTAA
1 TATTCTAAAAAAATTAA
99883278 TAT
1 TAT
99883281 CAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTCTAAAAAAATTAA
Found at i:99883847 original size:23 final size:23
Alignment explanation
Indices: 99883817--99883872 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
99883807 CCTTTTGTCG
99883817 TAATCAAAGACCAAAGAACACTT
1 TAATCAAAGACCAAAGAACACTT
99883840 TAATCAAAGACCAAAGAACACTT
1 TAATCAAAGACCAAAGAACACTT
99883863 TAATCAAAGA
1 TAATCAAAGA
99883873 AGAGGCCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.54, C:0.20, G:0.09, T:0.18
Consensus pattern (23 bp):
TAATCAAAGACCAAAGAACACTT
Found at i:99889427 original size:24 final size:25
Alignment explanation
Indices: 99889381--99889427 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
99889371 AACAGATCGG
* * *
99889381 TTTTTATGTTTAAAATTTTGTTCAT
1 TTTTTACGTTTAAAAATTAGTTCAT
99889406 TTTTTACG-TTAAAAATTAGTTC
1 TTTTTACGTTTAAAAATTAGTTC
99889428 TATAAGCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (25 bp):
TTTTTACGTTTAAAAATTAGTTCAT
Found at i:99889574 original size:26 final size:26
Alignment explanation
Indices: 99889538--99889590 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
99889528 AAAAAAACCA
99889538 ATTTTCTCTTTGATTTAATGTATAGG
1 ATTTTCTCTTTGATTTAATGTATAGG
99889564 ATTTTCTCTTTGATTTAATGTATAGG
1 ATTTTCTCTTTGATTTAATGTATAGG
99889590 A
1 A
99889591 CTAATTTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (26 bp):
ATTTTCTCTTTGATTTAATGTATAGG
Found at i:99890033 original size:31 final size:31
Alignment explanation
Indices: 99889964--99890033 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
99889954 CTAAATTCAA
* *
99889964 ATATTAAATAAAAAAATTAAATATCAAATTT
1 ATATTAAATAAAAAAATTAAATACCAAATAT
* *
99889995 ATCATTAAA-ATAAAAATTAGATACCAAATAAT
1 AT-ATTAAATAAAAAAATTAAATACCAAAT-AT
99890027 ATATTAA
1 ATATTAA
99890034 TTTTTGACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (31 bp):
ATATTAAATAAAAAAATTAAATACCAAATAT
Found at i:99891591 original size:17 final size:17
Alignment explanation
Indices: 99891550--99891592 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
99891540 TACATGTTAA
*
99891550 AATTACATAATATATAT
1 AATTACAAAATATATAT
*
99891567 AATAACAAAATATA-AT
1 AATTACAAAATATATAT
99891583 ATATTACAAA
1 A-ATTACAAA
99891593 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTACAAAATATATAT
Found at i:99896340 original size:21 final size:20
Alignment explanation
Indices: 99896315--99896357 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
99896305 ATTTCATAAT
99896315 AATAACATCATAAAAATAGAA
1 AATAACAT-ATAAAAATAGAA
* *
99896336 AATAACATGTTAAAATAGAA
1 AATAACATATAAAAATAGAA
99896356 AA
1 AA
99896358 CATGGGCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (20 bp):
AATAACATATAAAAATAGAA
Found at i:99899168 original size:22 final size:22
Alignment explanation
Indices: 99899125--99899173 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
99899115 TTAATATTTT
* *
99899125 ATATTTTAATTGTGTTTGAAAA
1 ATATTTTAATTATGTTTAAAAA
*
99899147 TTATTTTAATTAT-TTTCAAAAA
1 ATATTTTAATTATGTTT-AAAAA
99899169 ATATT
1 ATATT
99899174 AAATAAGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
ATATTTTAATTATGTTTAAAAA
Found at i:99899378 original size:17 final size:18
Alignment explanation
Indices: 99899356--99899390 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99899346 TAAAATTAAC
99899356 AATTAATAATC-TTTTTA
1 AATTAATAATCATTTTTA
*
99899373 AATTAATATTCATTTTTA
1 AATTAATAATCATTTTTA
99899391 TTAAACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTAATAATCATTTTTA
Found at i:99901596 original size:52 final size:47
Alignment explanation
Indices: 99901577--99901870 Score: 429
Period size: 46 Copynumber: 6.3 Consensus size: 47
99901567 TGACAAGTGG
* *
99901577 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA-T
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
99901623 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
*
99901669 AAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-A
99901717 GTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTG--A
1 ----AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
*
99901766 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
** * *
99901812 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
99901858 AAAGTGATAAGTG
1 AAAGTGATAAGTG
99901871 GCTACACTTA
Statistics
Matches: 232, Mismatches: 7, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
45 43 0.19
46 145 0.62
49 1 0.00
52 43 0.19
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (47 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACA
Found at i:99901631 original size:98 final size:93
Alignment explanation
Indices: 99901511--99901870 Score: 485
Period size: 98 Copynumber: 3.8 Consensus size: 93
99901501 TTTGAGTACT
* *
99901511 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-A---
*
99901576 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
62 -AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
99901609 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAAG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
*
99901673 TGATAAGTGATAGCTTCAGCTATACTTA
66 TGATAAGTGATAGCTTCGGCTATACTTA
* *
99901701 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTG-
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
99901765 -AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
99901798 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-AAAG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
99901862 TGATAAGTG
66 TGATAAGTG
99901871 GCTACACTTA
Statistics
Matches: 240, Mismatches: 13, Indels: 24
0.87 0.05 0.09
Matches are distributed among these distances:
91 40 0.17
92 55 0.23
94 1 0.00
95 1 0.00
96 1 0.00
97 42 0.17
98 100 0.42
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (93 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAAG
TGATAAGTGATAGCTTCGGCTATACTTA
Found at i:99901870 original size:144 final size:144
Alignment explanation
Indices: 99901511--99901859 Score: 628
Period size: 144 Copynumber: 2.4 Consensus size: 144
99901501 TTTGAGTACT
* *
99901511 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
99901576 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
99901641 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
99901655 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
99901720 GAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA-AAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
99901784 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
99901798 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
99901860 AGTGATAAGT
Statistics
Matches: 196, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
143 90 0.46
144 106 0.54
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:99901878 original size:37 final size:37
Alignment explanation
Indices: 99901834--99901942 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
99901824 GATAGCTTTA
99901834 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
99901871 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
99901908 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
99901943 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:99903259 original size:49 final size:49
Alignment explanation
Indices: 99903198--99903341 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
99903188 ATGTGAACAT
*
99903198 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
99903248 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
99903297 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
99903342 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:99906642 original size:51 final size:46
Alignment explanation
Indices: 99906468--99906760 Score: 408
Period size: 46 Copynumber: 6.3 Consensus size: 46
99906458 TGACAAGTGG
* * * * *
99906468 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
* * *
99906514 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
* *
99906560 AAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
* *
99906606 AAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 -----AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
99906657 AAAGTGATAAGTGATAGCTTC-GCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
*
99906702 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
99906748 AAAGTGATAAGTG
1 AAAGTGATAAGTG
99906761 GCTACACTTA
Statistics
Matches: 232, Mismatches: 9, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
45 42 0.18
46 146 0.63
51 44 0.19
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:99906774 original size:37 final size:37
Alignment explanation
Indices: 99906724--99906832 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
99906714 GATAGCTTTA
99906724 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
99906761 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
99906798 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
99906833 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:99908634 original size:53 final size:52
Alignment explanation
Indices: 99908509--99908703 Score: 239
Period size: 53 Copynumber: 3.7 Consensus size: 52
99908499 ATTTTTTTTT
** *
99908509 GTGCTGGTTTGTCAATGGCCAGCACCAAAATACGAGTTTTTTTTAAAAAAAAATTTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAG----TTTT-AAAAAAAATTTG
** *
99908566 GTGCCAGCCTGTCAATGGCCGGCACCAAAATACGAGTTTTCAAAAAAAATTTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTT-AAAAAAAATTTG
* * *
99908619 GTGTTGGCATGTCAATGGCCGGCATCAAAATACAAGTTTTAAAAAAAA-TTG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTTAAAAAAAATTTG
*
99908670 GTGCTGGCATGTCAATGGTCGGCACCAAAATACG
1 GTGCTGGCATGTCAATGGCCGGCACCAAAATACG
99908704 TGCCGGCCAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
51 33 0.27
52 8 0.07
53 50 0.41
57 31 0.25
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (52 bp):
GTGCTGGCATGTCAATGGCCGGCACCAAAATACGAGTTTTAAAAAAAATTTG
Found at i:99909987 original size:46 final size:46
Alignment explanation
Indices: 99909934--99910161 Score: 294
Period size: 46 Copynumber: 5.0 Consensus size: 46
99909924 GCTCTCTGAA
*
99909934 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
99909980 ATGAAATGTGTAAAACTATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
99910026 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
99910072 ATGAAATGAATAAGACTATGGTTGAAAGATACCATAGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * * *
99910118 AAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
99910162 TCAAATATAA
Statistics
Matches: 158, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 158 1.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:99914840 original size:53 final size:53
Alignment explanation
Indices: 99914774--99914914 Score: 203
Period size: 53 Copynumber: 2.7 Consensus size: 53
99914764 ATAAGTGCGC
* *
99914774 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* * *
99914827 CCGTATAAGACCATAGCTGGGCTATGGCATCAGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
99914880 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
99914915 TGATATGTGA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 78 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:99919466 original size:21 final size:21
Alignment explanation
Indices: 99919440--99919525 Score: 109
Period size: 21 Copynumber: 4.1 Consensus size: 21
99919430 GGCTTTATCG
99919440 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
*
99919461 ATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACCTCGTGTGTCGT
*
99919482 ATCAGGCACTTCGTGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
* * * **
99919503 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
99919524 AT
1 AT
99919526 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (21 bp):
ATCAGGCACCTCGTGTGTCGT
Found at i:99920625 original size:13 final size:13
Alignment explanation
Indices: 99920607--99920631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99920597 TTTGGGGTTA
99920607 GGGGGTGTTACAT
1 GGGGGTGTTACAT
99920620 GGGGGTGTTACA
1 GGGGGTGTTACA
99920632 GTACTACAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.48, T:0.28
Consensus pattern (13 bp):
GGGGGTGTTACAT
Found at i:99921758 original size:22 final size:23
Alignment explanation
Indices: 99921708--99921764 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 23
99921698 ATATTTTAAC
*
99921708 AATTTTTAATAACTTTAAATAAA
1 AATTTTAAATAACTTTAAATAAA
99921731 AGATTTTAAATAA-TTT-AATAAA
1 A-ATTTTAAATAACTTTAAATAAA
99921753 TAATTTATAAAT
1 -AATTT-TAAAT
99921765 TTTTAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 10 0.33
23 10 0.33
24 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
AATTTTAAATAACTTTAAATAAA
Found at i:99921764 original size:23 final size:24
Alignment explanation
Indices: 99921709--99921752 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99921699 TATTTTAACA
*
99921709 ATTTTTAATAACTTTAAATAAAAG
1 ATTTTAAATAACTTTAAATAAAAG
99921733 ATTTTAAATAA-TTT-AATAAA
1 ATTTTAAATAACTTTAAATAAA
99921753 TAATTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTTTAAATAACTTTAAATAAAAG
Found at i:99926530 original size:31 final size:31
Alignment explanation
Indices: 99926494--99926552 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
99926484 ACAACCTAGC
* * *
99926494 GACTTAAGTAAAACATTTCGAATAGTTTTGG
1 GACTTAAATAAAAAATTTCAAATAGTTTTGG
*
99926525 GACTTAAATAAAAAATTTTAAATAGTTT
1 GACTTAAATAAAAAATTTCAAATAGTTT
99926553 AACGATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (31 bp):
GACTTAAATAAAAAATTTCAAATAGTTTTGG
Found at i:99928174 original size:82 final size:84
Alignment explanation
Indices: 99928086--99928253 Score: 202
Period size: 82 Copynumber: 2.0 Consensus size: 84
99928076 AATAGAATTT
* * * *
99928086 TTTTTTATTTAGATTATTTATAATTTATAAA-ATTTTAAATTAGTAAAGATAA-AATTATATTTT
1 TTTTTAATTTA-ATTATTTAAAAATTATAAAGA-TATAAATTAGTAAA-ATAATAATTATATTTT
99928149 TATCT-TTA-AAAAATA-ATAAA
63 TA-CTATTATAAAAATATATAAA
*
99928169 TTTTTAATTTAATTATTTAAAAATTATAAAGATATAAATTATTAAAATAATGTAATTATATTTTT
1 TTTTTAATTTAATTATTTAAAAATTATAAAGATATAAATTAGTAAAATAA--TAATTATATTTTT
99928234 ACTATTATAAAAATATATAA
64 ACTATTATAAAAATATATAA
99928254 TTTAATTCTG
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
81 4 0.05
82 29 0.40
83 13 0.18
84 16 0.22
85 7 0.10
86 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (84 bp):
TTTTTAATTTAATTATTTAAAAATTATAAAGATATAAATTAGTAAAATAATAATTATATTTTTAC
TATTATAAAAATATATAAA
Found at i:99928442 original size:30 final size:30
Alignment explanation
Indices: 99928380--99928444 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
99928370 TATAATCTAT
* *
99928380 ATTTTTATAATTTTTAAAGTATTAAATTTA
1 ATTTTTATAATTTTTAAAGTATAAAATATA
99928410 ATTTTTATAA-TTTTAAGAGGTA-AAAATATA
1 ATTTTTATAATTTTTAA-A-GTATAAAATATA
99928440 ATTTT
1 ATTTT
99928445 ATTTTTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.19
30 22 0.71
31 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAGTATAAAATATA
Found at i:99931102 original size:24 final size:24
Alignment explanation
Indices: 99931074--99931122 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
99931064 AGATGTCTTG
99931074 GGTGTTTTTTTTATAAGGGGTCGT
1 GGTGTTTTTTTTATAAGGGGTCGT
99931098 GGTGTTTTTTTTATAAGGGGTCGT
1 GGTGTTTTTTTTATAAGGGGTCGT
99931122 G
1 G
99931123 TAGGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.04, G:0.35, T:0.49
Consensus pattern (24 bp):
GGTGTTTTTTTTATAAGGGGTCGT
Found at i:99931130 original size:24 final size:24
Alignment explanation
Indices: 99931074--99931132 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
99931064 AGATGTCTTG
*
99931074 GGTGTTTTTTTTATAAGGGGTCGT
1 GGTGGTTTTTTTATAAGGGGTCGT
*
99931098 GGTGTTTTTTTTATAAGGGGTCGT
1 GGTGGTTTTTTTATAAGGGGTCGT
99931122 -GTAGGTTTTTT
1 GGT-GGTTTTTT
99931133 CTTTAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.12, C:0.03, G:0.32, T:0.53
Consensus pattern (24 bp):
GGTGGTTTTTTTATAAGGGGTCGT
Found at i:99968112 original size:14 final size:15
Alignment explanation
Indices: 99968088--99968116 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99968078 TGCAGGTTGG
99968088 TTTAGTTTTTATTTA
1 TTTAGTTTTTATTTA
99968103 TTTA-TTTTTATTTA
1 TTTAGTTTTTATTTA
99968117 ACTGTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTAGTTTTTATTTA
Found at i:99985125 original size:13 final size:13
Alignment explanation
Indices: 99985109--99985134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99985099 ATGTCTCCTG
99985109 GAAATAAGGTTGT
1 GAAATAAGGTTGT
99985122 GAAATAAGGTTGT
1 GAAATAAGGTTGT
99985135 TCCAACAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GAAATAAGGTTGT
Found at i:99988121 original size:6 final size:6
Alignment explanation
Indices: 99988110--99988139 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
99988100 AATTATTATA
99988110 TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT
99988140 AAATTACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:99988517 original size:12 final size:12
Alignment explanation
Indices: 99988500--99988525 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99988490 GCTTGAAAAA
99988500 TTAGCCAATACC
1 TTAGCCAATACC
99988512 TTAGCCAATACC
1 TTAGCCAATACC
99988524 TT
1 TT
99988526 GCATGGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (12 bp):
TTAGCCAATACC
Found at i:99989294 original size:16 final size:17
Alignment explanation
Indices: 99989273--99989307 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
99989263 TCTTTCACTA
*
99989273 TCCAATTATCTTCT-TT
1 TCCAATCATCTTCTATT
99989289 TCCAATCATCTTCTATT
1 TCCAATCATCTTCTATT
99989306 TC
1 TC
99989308 TATATGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (17 bp):
TCCAATCATCTTCTATT
Found at i:99990284 original size:2 final size:2
Alignment explanation
Indices: 99990279--99990303 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99990269 ATATATATAT
99990279 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
99990304 TACCTAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:100003938 original size:21 final size:21
Alignment explanation
Indices: 100003909--100003952 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
100003899 GGCTAAACAG
*
100003909 AAGGCCTCCAATTTTGACCAA
1 AAGGACTCCAATTTTGACCAA
100003930 AAGGACTCCAATTTTGACCAA
1 AAGGACTCCAATTTTGACCAA
100003951 AA
1 AA
100003953 CAAGTTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
AAGGACTCCAATTTTGACCAA
Found at i:100005938 original size:78 final size:78
Alignment explanation
Indices: 100005850--100006009 Score: 320
Period size: 78 Copynumber: 2.1 Consensus size: 78
100005840 TAAATTATAC
100005850 ATAATAAGATTTTTTTAAAACTTTTATAATTATCCTTATTATCAATTTGATTTACACACACAAAA
1 ATAATAAGATTTTTTTAAAACTTTTATAATTATCCTTATTATCAATTTGATTTACACACACAAAA
100005915 TAAAGTTACAATT
66 TAAAGTTACAATT
100005928 ATAATAAGATTTTTTTAAAACTTTTATAATTATCCTTATTATCAATTTGATTTACACACACAAAA
1 ATAATAAGATTTTTTTAAAACTTTTATAATTATCCTTATTATCAATTTGATTTACACACACAAAA
100005993 TAAAGTTACAATT
66 TAAAGTTACAATT
100006006 ATAA
1 ATAA
100006010 AGGCTTTAGA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (78 bp):
ATAATAAGATTTTTTTAAAACTTTTATAATTATCCTTATTATCAATTTGATTTACACACACAAAA
TAAAGTTACAATT
Found at i:100012000 original size:3 final size:3
Alignment explanation
Indices: 100011992--100012030 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
100011982 TAAGTGAAGG
100011992 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
100012031 AAGATTTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Done.