Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 117 of 253
Found at i:36816259 original size:16 final size:16
Alignment explanation
Indices: 36816238--36816270 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36816228 AAAAACTCAA
*
36816238 GATTTCAGGATTTTTG
1 GATTTCAGAATTTTTG
36816254 GATTTCAGAATTTTTG
1 GATTTCAGAATTTTTG
36816270 G
1 G
36816271 GGAGTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (16 bp):
GATTTCAGAATTTTTG
Found at i:36819209 original size:29 final size:30
Alignment explanation
Indices: 36819143--36819261 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 30
36819133 TACATACATG
* *
36819143 CATATGGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGACCCAATTCATATT
* * *
36819171 CAAATGGCCCATC-CGACCCAGTTCATATT
1 CATATGGCCCATCTAGACCCAATTCATATT
* *
36819200 CTTATGGCCCA-CTAGGCCCAATTCATATT
1 CATATGGCCCATCTAGACCCAATTCATATT
* *
36819229 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGACCCAATTCATATT
36819258 -ATAT
1 CATAT
36819262 TCATGCTCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 20 0.27
29 55 0.73
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGACCCAATTCATATT
Found at i:36819255 original size:58 final size:57
Alignment explanation
Indices: 36819145--36819257 Score: 154
Period size: 58 Copynumber: 2.0 Consensus size: 57
36819135 CATACATGCA
* * **
36819145 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCCGACCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCATATTCAAATGGCCCATCAGACCCAAATCATATTCT
* * *
36819202 TATGGCCCACTAGGCCCAATTCATATTCATATGGCCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCATATTCAAATGGCCCATCAGACCCAAATCATATT
36819258 ATATTCATGC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 19 0.40
58 29 0.60
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCATATTCAAATGGCCCATCAGACCCAAATCATATTCT
Found at i:36820757 original size:16 final size:16
Alignment explanation
Indices: 36820736--36820766 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36820726 AAAAATTCAA
*
36820736 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
36820752 GATTTCAGGATTTTT
1 GATTTCAGGATTTTT
36820767 ATGGCGTTAC
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:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:36825164 original size:37 final size:37
Alignment explanation
Indices: 36825114--36825192 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36825104 TTATTACGAA
* * *
36825114 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36825151 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36825188 GTCTT
1 GTCTT
36825193 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36825389 original size:47 final size:47
Alignment explanation
Indices: 36825311--36825865 Score: 869
Period size: 47 Copynumber: 11.7 Consensus size: 47
36825301 CCCTTCGGGA
* * * * * *
36825311 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36825358 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36825405 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36825452 CTTATCACATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36825499 CTTATCACATATATACACTTTCACATTCCTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36825546 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36825593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** ***
36825640 CTTATCACATATATACACTTTCACATTTATCACATATGTACACTTTCAC
1 CTTATCACATATATACACTTTCACATTCATCACAT-CGGCCA-TTAGGC
*
36825689 ATTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36825737 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36825784 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36825831 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
36825866 AGAATCCTAA
Statistics
Matches: 472, Mismatches: 32, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 426 0.90
48 6 0.01
49 6 0.01
50 33 0.07
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36825674 original size:9 final size:9
Alignment explanation
Indices: 36825641--36825724 Score: 54
Period size: 8 Copynumber: 10.0 Consensus size: 9
36825631 CCATTAGGCC
36825641 TTATCACAT
1 TTATCACAT
* *
36825650 ATAT-ACAC
1 TTATCACAT
36825658 TT-TCACAT
1 TTATCACAT
36825666 TTATCACAT
1 TTATCACAT
* * *
36825675 ATGT-ACAC
1 TTATCACAT
36825683 TT-TCACAT
1 TTATCACAT
36825691 TTATCACAT
1 TTATCACAT
* *
36825700 ATAT-ACAC
1 TTATCACAT
36825708 TT-TCACAT
1 TTATCACAT
*
36825716 TCATCACAT
1 TTATCACAT
36825725 CGGCCATTAG
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 3 0.05
8 26 0.47
9 26 0.47
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (9 bp):
TTATCACAT
Found at i:36825675 original size:25 final size:25
Alignment explanation
Indices: 36825641--36825724 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
36825631 CCATTAGGCC
36825641 TTATCACATATATACACTTTCACAT
1 TTATCACATATATACACTTTCACAT
*
36825666 TTATCACATATGTACACTTTCACAT
1 TTATCACATATATACACTTTCACAT
36825691 TTATCACATATATACACTTTCACAT
1 TTATCACATATATACACTTTCACAT
*
36825716 TCATCACAT
1 TTATCACAT
36825725 CGGCCATTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.39
Consensus pattern (25 bp):
TTATCACATATATACACTTTCACAT
Found at i:36828831 original size:18 final size:19
Alignment explanation
Indices: 36828791--36828831 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
36828781 GTGAAAATGG
36828791 GCCCATGTGGGCCCACACA
1 GCCCATGTGGGCCCACACA
*
36828810 -CCCATGT-GGCCCACATA
1 GCCCATGTGGGCCCACACA
36828827 GCCCA
1 GCCCA
36828832 AAAATGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.12
Consensus pattern (19 bp):
GCCCATGTGGGCCCACACA
Found at i:36832480 original size:13 final size:13
Alignment explanation
Indices: 36832459--36832488 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36832449 CACACAATTG
*
36832459 AAAATAAAAACAT
1 AAAAGAAAAACAT
36832472 AAAAGAAAAACAT
1 AAAAGAAAAACAT
36832485 AAAA
1 AAAA
36832489 ATGGAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (13 bp):
AAAAGAAAAACAT
Found at i:36835997 original size:6 final size:6
Alignment explanation
Indices: 36835975--36836053 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
36835965 TTTATCTACG
* *
36835975 ATATAA ATATTA A-ATTA ATATTA ATATTAA GATAGTCA AT-TTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATT-A -ATA-TTA ATATTA ATATTA
36836024 A-ATTA AGTATTA A-ATTTA AT-TTA ATATTA A
1 ATATTA A-TATTA ATA-TTA ATATTA ATATTA A
36836054 AAAATTAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
5 20 0.33
6 27 0.45
7 8 0.13
8 4 0.07
9 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (6 bp):
ATATTA
Found at i:36836034 original size:12 final size:11
Alignment explanation
Indices: 36835980--36836069 Score: 65
Period size: 11 Copynumber: 7.5 Consensus size: 11
36835970 CTACGATATA
36835980 AATATTAAATT
1 AATATTAAATT
36835991 AATATTAATATT
1 AATATTAA-ATT
* *
36836003 AAGATAGTCAATTT
1 -A-ATA-TTAAATT
36836017 AATATTAAATT
1 AATATTAAATT
36836028 AAGTATTAAATTT
1 AA-TATTAAA-TT
36836041 AAT-TTAATATT
1 AATATTAA-ATT
*
36836052 AAAAAATTAAATT
1 --AATATTAAATT
36836065 AATAT
1 AATAT
36836070 AATTTTTCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
11 25 0.40
12 15 0.24
13 11 0.17
14 9 0.14
15 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (11 bp):
AATATTAAATT
Found at i:36841832 original size:39 final size:38
Alignment explanation
Indices: 36841789--36841904 Score: 160
Period size: 39 Copynumber: 3.0 Consensus size: 38
36841779 CCGGACATAT
* * *
36841789 TTCCAGCACGTGGCCTGCGGATCTTAAGTCCGATTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGA-TATAA
36841828 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCC-GATATAA
* *
36841867 TTCCATCACATAGCCTACGGACCTTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCC-GATATA
36841905 CTTCATCACT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 69 0.97
40 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (38 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGATATAA
Found at i:36850017 original size:39 final size:39
Alignment explanation
Indices: 36849964--36850114 Score: 257
Period size: 39 Copynumber: 3.9 Consensus size: 39
36849954 GACATATTTT
* * *
36849964 AGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCT
1 AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
36850003 AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
*
36850042 AGCACATAGCTTGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
*
36850081 AGCACATATCCTGCGGACCTTAAGTCCGGATATA
1 AGCACATAGCCTGCGGACCTTAAGTCCGGATATA
36850115 CTTCATCACT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
Found at i:36852610 original size:31 final size:31
Alignment explanation
Indices: 36852572--36852676 Score: 192
Period size: 31 Copynumber: 3.4 Consensus size: 31
36852562 ACGGTTACTA
*
36852572 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
36852603 GGCCGAAGCCTTATCATAAATCATATCACTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
*
36852634 GGCCGAAGCCTTATCATAAATCATATCCCTG
1 GGCCGAAGCCTTATCATAAATCATATCACTG
36852665 GGCCGAAGCCTT
1 GGCCGAAGCCTT
36852677 TATTGTAAAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
GGCCGAAGCCTTATCATAAATCATATCACTG
Found at i:36852922 original size:25 final size:25
Alignment explanation
Indices: 36852894--36852964 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
36852884 CCTCTTTAAT
**
36852894 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATA
36852919 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCAATA
36852944 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
36852965 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 33 0.77
26 10 0.23
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAATA
Found at i:36853885 original size:27 final size:27
Alignment explanation
Indices: 36853855--36854191 Score: 159
Period size: 27 Copynumber: 12.4 Consensus size: 27
36853845 GTAAATCTAC
*
36853855 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
36853882 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTT-TAGTAATTTTGT
*
36853908 AGAAAGTCAAGGGTATTTCTA-TAATTTTGT
1 --AAA-CCAAGGGTATTT-TAGTAATTTTGT
** * *
36853938 AAATTAGGGGTATTTTGGTAATTTTAG-
1 AAACCAAGGGTATTTTAGTAATTTT-GT
** * ***
36853965 AAATTAAGGGTA-TTTCGATAATTTCAC
1 AAACCAAGGGTATTTTAG-TAATTTTGT
* * * **
36853992 AAACC-AGTGTTATTTTGGTAACTTTAC
1 AAACCAAG-GGTATTTTAGTAATTTTGT
* * * **
36854019 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * **
36854046 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * * *
36854073 AGACC-AGTGTATTTTGGTAATTTTACT
1 AAACCAAGGGTATTTTAGTAATTTT-GT
* * *
36854100 -AATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
36854126 AAACCAAGGGTATTTTACTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
* * *** *
36854153 AAATCGAGGGTAAAATAGTAATTCTGT
1 AAACCAAGGGTATTTTAGTAATTTTGT
*
36854180 AAATCAAGGGTA
1 AAACCAAGGGTA
36854192 AAGTAGTAAT
Statistics
Matches: 248, Mismatches: 47, Indels: 30
0.76 0.14 0.09
Matches are distributed among these distances:
26 26 0.10
27 188 0.76
28 13 0.05
29 20 0.08
30 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTGT
Found at i:36853950 original size:56 final size:53
Alignment explanation
Indices: 36853832--36853988 Score: 145
Period size: 56 Copynumber: 2.9 Consensus size: 53
36853822 TTCCACCCTA
* * * * * *
36853832 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTAGAAATCAAGGGTATTTCA-TAATTTTGTAAAC
* *
36853886 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTAGAAA-TCAAGGGTATTTC-ATAATTTTGTAAAC
* * * *
36853942 TAGGGGTATTTTGGTAATTTTAGAAATTAAGGGTATTTCGATAATTT
1 CAAGGGTATTTTGATAATTTTAGAAATCAAGGGTATTTC-ATAATTT
36853989 CACAAACCAG
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
54 31 0.37
55 17 0.20
56 35 0.42
57 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (53 bp):
CAAGGGTATTTTGATAATTTTAGAAATCAAGGGTATTTCATAATTTTGTAAAC
Found at i:36854040 original size:81 final size:79
Alignment explanation
Indices: 36853942--36854140 Score: 240
Period size: 80 Copynumber: 2.5 Consensus size: 79
36853932 TTTTGTAAAT
** *
36853942 TAGGGGTATTTTGGTAATTTTAGAAATTAAGGGTATTTCGA-TAATTTCACAAACCAGTGTTATT
1 TAGGGGTATTTTGGTAATTTTAGAAACCAAGGGTATTT-GAGCAATTTCACAAACCAGTG-TATT
36854006 TTGGTAACTTTACAAA
64 TTGGTAACTTTACAAA
* * * * *
36854022 CTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACCAGTGTATTT
1 -TAGGGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTGAGCAATTTCACAAACCAGTGTATTT
* *
36854087 TGGTAATTTTACTAA
65 TGGTAACTTTACAAA
*
36854102 TCGAGGGTATTTTGGTAATTTT-GTAAACCAAGGGTATTT
1 TAG-GGGTATTTTGGTAATTTTAG-AAACCAAGGGTATTT
36854141 TACTAATTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 51 0.50
81 49 0.48
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (79 bp):
TAGGGGTATTTTGGTAATTTTAGAAACCAAGGGTATTTGAGCAATTTCACAAACCAGTGTATTTT
GGTAACTTTACAAA
Found at i:36854158 original size:54 final size:54
Alignment explanation
Indices: 36853855--36854272 Score: 181
Period size: 54 Copynumber: 7.7 Consensus size: 54
36853845 GTAAATCTAC
* * * * * *
36853855 AAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT-T
1 AAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTT-TGGTAATTTTGT
* * *
36853908 AGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAAT-TAGGGGTATTTTGGTAATTTTAG-
1 --AAA-CCAAGGGTATTT-TAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTT-GT
** * * * * * * **
36853965 AAATTAAGGGTA-TTTCGATAATTTCACAAA-CCAGTGTTATTTTGGTAACTTTAC
1 AAACCAAGGGTATTTTAG-TAATTTTATAAATCGAG-GGTATTTTGGTAATTTTGT
* * * * * * * **
36854019 AAACTAGGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTAGCAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTGT
* * *
36854073 AGACC-AGTGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTA-TAAATCGAGGGTATTTTGGTAATTTTGT
* * *** * *
36854126 AAACCAAGGGTATTTTACTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 AAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGT
* *** * **** * *
36854180 AAATCAAGGGTAAAGTAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGT
1 AAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGT
* *** *
36854234 AAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
1 AAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTA
36854273 AAACAGTAAT
Statistics
Matches: 292, Mismatches: 54, Indels: 35
0.77 0.14 0.09
Matches are distributed among these distances:
52 1 0.00
53 44 0.15
54 196 0.67
55 13 0.04
56 37 0.13
57 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (54 bp):
AAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTGT
Found at i:36854192 original size:27 final size:27
Alignment explanation
Indices: 36854116--36854292 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
36854106 GGGTATTTTG
* * ***
36854116 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* * *
36854143 CTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
*
36854170 GTAATTCTGTAAATCAAGGGTAAAGTA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* * *
36854197 GTAATTCTATAAATCGAGGGTAAAA-C
1 GTAATTCTGTAAATCAAGGGTAAAATA
36854223 GATAATTCTGTAAATCAAGGGTAAAATA
1 G-TAATTCTGTAAATCAAGGGTAAAATA
* * *
36854251 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAATA
36854278 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
36854293 GGGGGTACTT
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATA
Found at i:36854217 original size:81 final size:80
Alignment explanation
Indices: 36854132--36854322 Score: 213
Period size: 81 Copynumber: 2.4 Consensus size: 80
36854122 TTGTAAACCA
* **
36854132 AGGGTATTTTACTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAGTA
1 AGGGTA-TTTACTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACA
36854197 GTAATTCTATAAATCG
65 GTAATTCTATAAATCG
** * * *
36854213 AGGGTA-AAACGATAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAAC
1 AGGGTATTTAC--TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAC
*
36854277 AGTAATTCTGTAAATCG
64 AGTAATTCTATAAATCG
* ** * *
36854294 GGGGTACTTTGGTAATTTTATAAGTCGAG
1 AGGGTA-TTTACTAATTTTGTAAATCGAG
36854323 AGTATTTCAA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.02
81 86 0.98
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.32
Consensus pattern (80 bp):
AGGGTATTTACTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAG
TAATTCTATAAATCG
Found at i:36854293 original size:27 final size:27
Alignment explanation
Indices: 36854144--36854299 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
36854134 GGTATTTTAC
*
36854144 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* *
36854171 TAATTCTGTAAATCAAGGGTAAAGTAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
* *
36854198 TAATTCTATAAATCGAGGGTAAAA-CG
1 TAATTCTGTAAATCGAGGGTAAAATAG
*
36854224 ATAATTCTGTAAATCAAGGGTAAAATAG
1 -TAATTCTGTAAATCGAGGGTAAAATAG
* *
36854252 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATAG
*
36854279 TAATTCTGTAAATCGGGGGTA
1 TAATTCTGTAAATCGAGGGTA
36854300 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 110 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATAG
Found at i:36854322 original size:54 final size:54
Alignment explanation
Indices: 36854116--36854292 Score: 248
Period size: 54 Copynumber: 3.3 Consensus size: 54
36854106 GGGTATTTTG
* * *** * * * *
36854116 GTAATTTTGTAAACCAAGGGTATTTTACTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
*
36854170 GTAATTCTGTAAATCAAGGGTAAAGTAGTAATTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
36854223 GATAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
1 G-TAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
36854278 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
36854293 GGGGGTACTT
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:36874852 original size:49 final size:49
Alignment explanation
Indices: 36874795--36874904 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 49
36874785 TGTCTTAGAT
* *
36874795 AGGTCTTACACTGACTTTCATATATCGAG-G-CTGATGCGATATCCCAAAC
1 AGGTCTTACACTGACTCTCATATATC-AGTGTC-GATGCCATATCCCAAAC
* * * *
36874844 AGGTCTTACACTGGCTCTCATTTATCAGTGTCGATGCCATGTCCCAGAC
1 AGGTCTTACACTGACTCTCATATATCAGTGTCGATGCCATATCCCAAAC
*
36874893 ATGTCTTACACT
1 AGGTCTTACACT
36874905 AGCTCTCGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.04
49 49 0.94
50 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
AGGTCTTACACTGACTCTCATATATCAGTGTCGATGCCATATCCCAAAC
Found at i:36874942 original size:46 final size:46
Alignment explanation
Indices: 36874827--36875001 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
36874817 TATCGAGGCT
* * * * *
36874827 GATGCGATATCCCAAACAGGTCTTACACTGGCTCTCAT-TTATCAGTGTC
1 GATGC-ATGTCCCAGACATGTCTTACACTGGCTCTCATCTAAT--G-GCC
* *
36874876 GATGCCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GCC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCT-AATGGCC
* * **
36874923 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATGTTGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTAATGGCC
*
36874969 GATGCATGTCCTAGACATGTCTTACACTGGCTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC
36875002 ACATACCACC
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 65 0.61
47 6 0.06
49 31 0.29
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTAATGGCC
Found at i:36882450 original size:93 final size:96
Alignment explanation
Indices: 36882287--36882460 Score: 230
Period size: 93 Copynumber: 1.8 Consensus size: 96
36882277 TGGATCAAAT
* * * * * *
36882287 GCCGATGCCATGTCCCAGACATGGTCTTGCACTAACTAGCACATTAAAGTTGATGTCGTGTCCTA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAACTAGCACA-TAAAGCTGATGCCATGTCCCA
36882352 GACAGGTCTTACACTAACTTTCATATATTGAG
65 GACAGGTCTTACACTAACTTTCATATATTGAG
* *
36882384 GCCGATGGCATGTCCCAAACA-GGTCTTACACTAAC-ATC-CA-ACAAGCTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAACTAGCACATA-AAGCTGATGCCATGTCCCA
36882445 GACAGGTCTTACACTA
65 GACAGGTCTTACACTA
36882461 GCTCTTGTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 1 0.01
93 31 0.46
94 2 0.03
95 2 0.03
96 13 0.19
97 19 0.28
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAACTAGCACATAAAGCTGATGCCATGTCCCAG
ACAGGTCTTACACTAACTTTCATATATTGAG
Found at i:36882455 original size:44 final size:44
Alignment explanation
Indices: 36882290--36882460 Score: 146
Period size: 44 Copynumber: 3.7 Consensus size: 44
36882280 ATCAAATGCC
* * *
36882290 GATGCCATGTCCCAGACATGGTCTTGCACTAACTAGCACATTAAAGTT
1 GATGCCATGTCCCAGACA-GGTCTTACACTAAC-ATC-CA-TAAAGCT
* * * * * *
36882338 GATGTCGTGTCCTAGACAGGTCTTACACTAACTTTCATATATTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAACATCCATA-A---A-GCT
* *
36882387 GATGGCATGTCCCAAACAGGTCTTACACTAACATCCA-ACAAGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAACATCCATA-AAGCT
36882431 GATGCCATGTCCCAGACAGGTCTTACACTA
1 GATGCCATGTCCCAGACAGGTCTTACACTA
36882461 GCTCTTGTCT
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
44 32 0.32
45 4 0.04
47 13 0.13
48 18 0.18
49 32 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAACATCCATAAAGCT
Found at i:36901599 original size:54 final size:53
Alignment explanation
Indices: 36901517--36901651 Score: 243
Period size: 54 Copynumber: 2.5 Consensus size: 53
36901507 TCTTATAGTG
*
36901517 GGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGGGTATTTTC
1 GGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGGGTATTGTC
36901570 AGGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGGGTATTGTC
1 -GGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGGGTATTGTC
36901624 GAGATTACCAGTCCAGGCTAAATCCCCT
1 G-GATTACCAGTCCAGGCTAAATCCCCT
36901652 ACAACGACAT
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
53 1 0.01
54 78 0.99
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (53 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGTAACATAAACTCATAGGGTATTGTC
Found at i:36902518 original size:16 final size:16
Alignment explanation
Indices: 36902497--36902528 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36902487 TACCCCTAGG
36902497 CTCGTAAAGTGATTTT
1 CTCGTAAAGTGATTTT
36902513 CTCGTAAAGTGATTTT
1 CTCGTAAAGTGATTTT
36902529 TATTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (16 bp):
CTCGTAAAGTGATTTT
Found at i:36907443 original size:27 final size:27
Alignment explanation
Indices: 36907405--36907457 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
36907395 ATAACTGAGT
36907405 TAGTTTATTTTAAGCTTTAGTTGTAGG
1 TAGTTTATTTTAAGCTTTAGTTGTAGG
36907432 TAGTTTATTTTAAGCTTTAGTTGTAG
1 TAGTTTATTTTAAGCTTTAGTTGTAG
36907458 TATTCATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.53
Consensus pattern (27 bp):
TAGTTTATTTTAAGCTTTAGTTGTAGG
Found at i:36912089 original size:20 final size:20
Alignment explanation
Indices: 36912066--36912105 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36912056 TGTATTAAGC
*
36912066 ATTTTA-AATATTATTTAAAT
1 ATTTTATAATAAT-TTTAAAT
36912086 ATTTTATAATAATTTTAAAT
1 ATTTTATAATAATTTTAAAT
36912106 TAAATATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTATAATAATTTTAAAT
Found at i:36917208 original size:50 final size:49
Alignment explanation
Indices: 36917090--36917265 Score: 183
Period size: 50 Copynumber: 3.5 Consensus size: 49
36917080 CTGGTACGCA
* * **
36917090 TAGTAGCCTGTACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAGTACACG
* *
36917139 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCAG-TACACG
**** ** * *
36917189 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCAGTACACG
36917240 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
36917266 TGCGATCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 33 0.31
50 40 0.37
51 32 0.30
52 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCAGTACACG
Found at i:36919314 original size:28 final size:28
Alignment explanation
Indices: 36919274--36919343 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
36919264 ATAGTAAGTC
*
36919274 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
36919302 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
36919330 CGCACACTTAGTGC
1 CGCACACTTAGTGC
36919344 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:36926138 original size:13 final size:13
Alignment explanation
Indices: 36926120--36926144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36926110 TTTGGGTGCA
36926120 CACGGCCGTGTCG
1 CACGGCCGTGTCG
36926133 CACGGCCGTGTC
1 CACGGCCGTGTC
36926145 TATCTTCGTT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:36937414 original size:9 final size:9
Alignment explanation
Indices: 36937400--36937424 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36937390 TGGATTAAAT
36937400 TGAATGAAA
1 TGAATGAAA
36937409 TGAATGAAA
1 TGAATGAAA
36937418 TGAATGA
1 TGAATGA
36937425 TTGAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGAATGAAA
Found at i:36939248 original size:19 final size:19
Alignment explanation
Indices: 36939211--36939248 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
36939201 ACCTATCAGA
*
36939211 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
36939230 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
36939249 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:36942119 original size:9 final size:9
Alignment explanation
Indices: 36942105--36942129 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36942095 TGGGTCTTAT
36942105 TGAATTTTG
1 TGAATTTTG
36942114 TGAATTTTG
1 TGAATTTTG
36942123 TGAATTT
1 TGAATTT
36942130 GATGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (9 bp):
TGAATTTTG
Found at i:36950410 original size:143 final size:142
Alignment explanation
Indices: 36950152--36950436 Score: 543
Period size: 143 Copynumber: 2.0 Consensus size: 142
36950142 GAAAGAATAA
36950152 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
1 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
36950217 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAAAATGTTCATCTT
66 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAG-AAAAAAAATGTTCATCTT
36950282 CTTCTCCTACCTC
130 CTTCTCCTACCTC
* *
36950295 AATAAGAGGTTAGTAATAAAGTAATGAAAAGAGTGGGGTGATGAAAACAAAGTTGTCTCATCCAT
1 AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
36950360 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAAATGTTCATCTTC
66 GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAAATGTTCATCTTC
36950425 TTCTCCTACCTC
131 TTCTCCTACCTC
36950437 TCTCAAGCCG
Statistics
Matches: 140, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
142 31 0.22
143 109 0.78
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (142 bp):
AATAAGAGGTTAGCAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCAT
GCCCCCCTCCATTGCCGTGAATTGAAGGAAGAAAACAAAAGAAAAGAAAAAAAATGTTCATCTTC
TTCTCCTACCTC
Found at i:36952648 original size:47 final size:46
Alignment explanation
Indices: 36952595--36952779 Score: 208
Period size: 47 Copynumber: 3.9 Consensus size: 46
36952585 TTTTATCTGT
* * *
36952595 TGAATGTGAAAGTGTATATATGAGATAAGGCCGAATGGCCAATGCGA
1 TGAATGTGAAA-TGCATATATGTGATAAGGCCGAATGGCCAATGAGA
* * *
36952642 TGAATGTGGACATGCGTATATGTGATAAGGCCGAATGGCCAATGTGA
1 TGAATGT-GAAATGCATATATGTGATAAGGCCGAATGGCCAATGAGA
* * * *
36952689 TGAATGTGAGCATTCATATGTGTGATAAGGCCGAATGGCCAATGAGG
1 TGAATGTGA-AATGCATATATGTGATAAGGCCGAATGGCCAATGAGA
* * * *
36952736 TGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATG
1 TGAATGTGAA-ATGCATATATGTGATAAGGCCGAATGGCCAATG
36952780 TGAAATATGT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.02
47 113 0.96
48 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (46 bp):
TGAATGTGAAATGCATATATGTGATAAGGCCGAATGGCCAATGAGA
Found at i:36952809 original size:48 final size:48
Alignment explanation
Indices: 36952752--36952977 Score: 333
Period size: 48 Copynumber: 4.8 Consensus size: 48
36952742 TGAACATGCA
36952752 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
36952800 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
36952848 CATATGTGG---A----AATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
36952889 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
36952939 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
36952978 GGCGATGTGC
Statistics
Matches: 162, Mismatches: 5, Indels: 22
0.86 0.03 0.12
Matches are distributed among these distances:
41 40 0.25
44 1 0.01
45 1 0.01
47 1 0.01
48 73 0.45
49 4 0.02
50 41 0.25
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:36952865 original size:41 final size:41
Alignment explanation
Indices: 36952817--36952897 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
36952807 GGTAAAGCCG
36952817 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGA
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGA
36952858 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGG
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGG
36952898 TAAAGCCGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (41 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGA
Found at i:36952868 original size:89 final size:91
Alignment explanation
Indices: 36952769--36952947 Score: 301
Period size: 89 Copynumber: 2.0 Consensus size: 91
36952759 GGTAAAGCCG
*
36952769 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AA
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAA
*
36952832 -ATATGTATGAGATATGCATATGTGGA
65 TATATATATGAGATATGCATATGTGGA
36952858 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
1 AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
*
36952923 ATATATATGAGATATGTATATGTGG
66 ATATATATGAGATATGCATATGTGG
36952948 TAAAGCCGAA
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 58 0.69
90 3 0.04
91 23 0.27
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (91 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAAT
ATATATATGAGATATGCATATGTGGA
Found at i:36952945 original size:50 final size:50
Alignment explanation
Indices: 36952858--36952974 Score: 177
Period size: 50 Copynumber: 2.4 Consensus size: 50
36952848 CATATGTGGA
*
36952858 AATGGCTAATGTG-AA-ATATGTATGAGATATGCATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
*
36952906 AATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCT-AATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
*
36952956 AATGGCTAGTGTGAAATAT
1 AATGGCTAATGTGAAATAT
36952975 GTAGGCGATG
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
47 1 0.02
48 11 0.18
49 2 0.03
50 47 0.76
51 1 0.02
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (50 bp):
AATGGCTAATGTGAAATATATATATGAGATATGCATATGTGGTAAAGCCG
Found at i:36952992 original size:50 final size:50
Alignment explanation
Indices: 36952858--36952998 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 50
36952848 CATATGTGGA
36952858 AATGGCTAATGTGAAATATGTATGAGATATGC--ATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGCGTATATGTGGTAAAGCCG
*
36952906 AATGG-TCAATGTGAAATATATATATGAGATAT--GTATATGTGGTAAAGCCG
1 AATGGCT-AATGTG-AA-ATATGTATGAGATATGCGTATATGTGGTAAAGCCG
* * * *
36952956 AATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATATTGTGG
1 AATGGCTAATGTGAAATATGTATGAGATATGCGTATA-TGTGG
36952999 CCGAACGACC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
47 1 0.01
48 22 0.28
49 4 0.05
50 45 0.58
51 6 0.08
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (50 bp):
AATGGCTAATGTGAAATATGTATGAGATATGCGTATATGTGGTAAAGCCG
Found at i:36953186 original size:37 final size:37
Alignment explanation
Indices: 36953123--36953194 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
36953113 GGAAATATAT
* *
36953123 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
*
36953160 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
36953195 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:36954521 original size:40 final size:40
Alignment explanation
Indices: 36954462--36954661 Score: 348
Period size: 40 Copynumber: 5.0 Consensus size: 40
36954452 GAGAATTGAG
* *
36954462 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
36954502 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
36954542 AGTGATGTATCCGGACTAAG-CCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCC-CGAAGAGCATTCGTGCT
*
36954582 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
36954622 AGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
36954662 GCATTCGTGG
Statistics
Matches: 153, Mismatches: 5, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:36954693 original size:51 final size:51
Alignment explanation
Indices: 36954611--36954713 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
36954601 GTCCCGAAGA
*
36954611 GCATTCGTGCTAGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCGTGCT
1 GCATTCGTGCTAGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCATGCT
* ** *
36954662 GCATTCGTGGTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCT
1 GCATTCGTGCTAGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCATGCT
36954713 G
1 G
36954714 GTGTTATATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (51 bp):
GCATTCGTGCTAGTGATGTATCCGGAATAAGTCCCGAAGAGCATTCATGCT
Found at i:36954724 original size:40 final size:40
Alignment explanation
Indices: 36954680--36954756 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
36954670 GGTAGTGATG
* *
36954680 TATCCGGGCTAAGTTCCGAAGAGCATTCATGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
*
36954720 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTG
36954757 ACGTGTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCAATCATGCTGGTGTTA
Found at i:36954726 original size:91 final size:91
Alignment explanation
Indices: 36954571--36954753 Score: 267
Period size: 91 Copynumber: 2.0 Consensus size: 91
36954561 GCCTCGAAGA
* *
36954571 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGG
* *
36954636 AATAAGTCCCGAAGAGCATTCGTGCT
66 AATAAGTCCCGAAGAGCAATCATGCT
* * * *
36954662 GCATTCGTGGTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTGGTGTTATATCCGG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGG
** *
36954727 GCTAGGTCCCGAAGAGCAATCATGCT
66 AATAAGTCCCGAAGAGCAATCATGCT
36954753 G
1 G
36954754 GTGACGTGTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (91 bp):
GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGG
AATAAGTCCCGAAGAGCAATCATGCT
Found at i:36958832 original size:47 final size:47
Alignment explanation
Indices: 36958778--36958971 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
36958768 TTAGGATTTT
** * *
36958778 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
36958825 ATGTGATGAATCTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
36958872 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
36958919 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
36958966 ATGTGA
1 ATGTGA
36958972 AATATGTATA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:36958878 original size:22 final size:22
Alignment explanation
Indices: 36958807--36958878 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
36958797 GTATATATGA
36958807 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
36958829 GATGAA-TCTGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
36958854 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
36958876 GAT
1 GAT
36958879 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 12 0.32
23 8 0.22
24 8 0.22
25 9 0.24
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:36958927 original size:25 final size:25
Alignment explanation
Indices: 36958852--36958927 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
36958842 ATGCATATAT
36958852 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
36958877 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
36958899 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
36958924 GTGA
1 GTGA
36958928 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:36959004 original size:48 final size:48
Alignment explanation
Indices: 36958941--36959173 Score: 387
Period size: 48 Copynumber: 4.8 Consensus size: 48
36958931 TGAACATGCA
36958941 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
*
36958989 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
*
36959037 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
* *
36959085 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATA--AGATATG
*
36959135 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
36959174 GGCGATGTGC
Statistics
Matches: 174, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 1 0.01
48 131 0.75
50 41 0.24
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATG
Found at i:36959199 original size:96 final size:95
Alignment explanation
Indices: 36958941--36959192 Score: 339
Period size: 98 Copynumber: 2.6 Consensus size: 95
36958931 TGAACATGCA
*
36958941 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATAT--GTATATGTGGTAAAGC
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATAT-T-GT-AAGC
*
36959004 CGAATGGCTAATGTG-AAATATGTATGAGATATG
63 CGAATGGC-AATGTGAAAATATATATGAGATATG
* * *
36959037 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT-AAGCCG
36959102 AATGGTCAATGTGAAATATATATATGAGATATG
65 AATGG-CAATGTGAAA-ATATATATGAGATATG
* * * *
36959135 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATATTGT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT
36959193 GGCCGAACGA
Statistics
Matches: 139, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
96 66 0.47
97 3 0.02
98 70 0.50
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (95 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGTAAGCCGA
ATGGCAATGTGAAAATATATATGAGATATG
Found at i:36964900 original size:12 final size:12
Alignment explanation
Indices: 36964885--36964968 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 12
36964875 TACCCTTTTC
36964885 TTTATTTTATTA
1 TTTATTTTATTA
36964897 TTTA-TTTATTTA
1 TTTATTTTA-TTA
*
36964909 TTTATTATTTGTTA
1 TTTA-T-TTTATTA
36964923 TATTATTTT-TTA
1 T-TTATTTTATTA
* * *
36964935 TCTGTTTTCTTA
1 TTTATTTTATTA
*
36964947 TTT-TTTTCTTA
1 TTTATTTTATTA
*
36964958 TTTGTTTTATT
1 TTTATTTTATT
36964969 TTTCTTCTGC
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
11 20 0.33
12 26 0.43
13 3 0.05
14 5 0.08
15 6 0.10
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:36964928 original size:19 final size:19
Alignment explanation
Indices: 36964885--36964941 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
36964875 TACCCTTTTC
*
36964885 TTTATTTTATTATTTATTTA
1 TTTA-TTTATTATTTGTTTA
36964905 TTTATTTATTATTTG-TTA
1 TTTATTTATTATTTGTTTA
* *
36964923 TATTATTTTTTATCTGTTT
1 T-TTATTTATTATTTGTTT
36964942 TCTTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.12
19 22 0.69
20 6 0.19
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTATTATTTGTTTA
Found at i:36964947 original size:19 final size:19
Alignment explanation
Indices: 36964902--36964952 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
36964892 TATTATTTAT
* *
36964902 TTAT-TTATTTATTATTTG
1 TTATATTATTTTTTATCTG
36964920 TTATATTATTTTTTATCTG
1 TTATATTATTTTTTATCTG
* *
36964939 TTTTCTTATTTTTT
1 TTATATTATTTTTT
36964953 TCTTATTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATATTATTTTTTATCTG
Found at i:36964953 original size:11 final size:12
Alignment explanation
Indices: 36964928--36964965 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
36964918 TGTTATATTA
*
36964928 TTTT-TTATCTG
1 TTTTCTTATTTG
36964939 TTTTCTTATTT-
1 TTTTCTTATTTG
36964950 TTTTCTTATTTG
1 TTTTCTTATTTG
36964962 TTTT
1 TTTT
36964966 ATTTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTCTTATTTG
Found at i:36964963 original size:23 final size:22
Alignment explanation
Indices: 36964923--36964965 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
36964913 TTATTTGTTA
36964923 TATTATTTTTTATCTGTTTTCT
1 TATTATTTTTTATCTGTTTTCT
* *
36964945 TATTTTTTTCTTATTTGTTTT
1 TATTATTTT-TTATCTGTTTT
36964966 ATTTTTCTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.77
Consensus pattern (22 bp):
TATTATTTTTTATCTGTTTTCT
Found at i:36964970 original size:19 final size:18
Alignment explanation
Indices: 36964901--36964971 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 18
36964891 TTATTATTTA
36964901 TTTATTTATTTATTATTTGT
1 TTTATTT-TTT-TTATTTGT
* *
36964921 TATATTATTTTTTATCTGTTT
1 TTTATT-TTTTTTAT-T-TGT
36964942 TCTTATTTTTTTCTTATTTGT
1 T-TTA-TTTTTT-TTATTTGT
36964963 TTTATTTTT
1 TTTATTTTT
36964972 CTTCTGCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
19 9 0.22
20 12 0.29
21 7 0.17
22 7 0.17
23 6 0.15
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATTTTTTTTATTTGT
Found at i:36965042 original size:11 final size:12
Alignment explanation
Indices: 36965018--36965063 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
36965008 ATGCTATTTC
*
36965018 TATTATTTTCAG
1 TATTATTTTTAG
36965030 TATT-TTTTTAG
1 TATTATTTTTAG
*
36965041 TATTATTTTTAC
1 TATTATTTTTAG
*
36965053 TATTATCTTTA
1 TATTATTTTTA
36965064 ATTTTATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (12 bp):
TATTATTTTTAG
Found at i:36965119 original size:7 final size:6
Alignment explanation
Indices: 36965104--36965181 Score: 68
Period size: 6 Copynumber: 12.5 Consensus size: 6
36965094 TTCTTTTTCG
* * * *
36965104 TTTTAT TTTTATT TTTTAT TTTTA- TTTTAG CTTTAG CTTTAT TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
36965152 TTTTAT TTTTAGT TGCTTTAT ATTTAT TTT
1 TTTTAT TTTTA-T T--TTTAT TTTTAT TTT
36965182 CTTAGACTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.08
6 44 0.71
7 8 0.13
8 1 0.02
9 4 0.06
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:36965120 original size:13 final size:13
Alignment explanation
Indices: 36965104--36965131 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36965094 TTCTTTTTCG
36965104 TTTTATTTTTATT
1 TTTTATTTTTATT
36965117 TTTTATTTTTATT
1 TTTTATTTTTATT
36965130 TT
1 TT
36965132 AGCTTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:36965154 original size:29 final size:27
Alignment explanation
Indices: 36965111--36965181 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 27
36965101 TCGTTTTATT
36965111 TTTATTTTTTATTTTTA-TTTTAGCTTTAGC
1 TTTA-TTTTTATTTTTATTTTTAG--TT-GC
36965141 TTTATTTTTATTTTTATTTTTAGTTGC
1 TTTATTTTTATTTTTATTTTTAGTTGC
*
36965168 TTTATATTTATTTT
1 TTTATTTTTATTTT
36965182 CTTAGACTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 15 0.38
28 2 0.05
29 12 0.31
30 10 0.26
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (27 bp):
TTTATTTTTATTTTTATTTTTAGTTGC
Found at i:36967265 original size:29 final size:29
Alignment explanation
Indices: 36967231--36967423 Score: 185
Period size: 29 Copynumber: 6.7 Consensus size: 29
36967221 TGTATAAGTG
*
36967231 AGCCTTTGTGGCTATCTCTATTATAA-GGA
1 AGCCTTTGTGGCGATCTCTATTA-AATGGA
* * * ** *
36967260 AACCTTTGTAGTGATCAT-TGCTAAAAGGA
1 AGCCTTTGTGGCGATC-TCTATTAAATGGA
*
36967289 AGCCTTTGTGGCAATCTCTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
*
36967318 AGCCTTTGTGGCGATCTTTATTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
* * *
36967347 AGTCTTTGTGGCGATCTTTGTTAAATGGA
1 AGCCTTTGTGGCGATCTCTATTAAATGGA
* * *
36967376 AGCC-TTGTTGACGATATCTATTAAAAGGA
1 AGCCTTTG-TGGCGATCTCTATTAAATGGA
* *
36967405 AGCTTTTGTGGCCATCTCT
1 AGCCTTTGTGGCGATCTCT
36967424 GTAAAAAAAA
Statistics
Matches: 132, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
28 6 0.05
29 122 0.92
30 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCCTTTGTGGCGATCTCTATTAAATGGA
Found at i:36967381 original size:87 final size:87
Alignment explanation
Indices: 36967231--36967423 Score: 219
Period size: 87 Copynumber: 2.2 Consensus size: 87
36967221 TGTATAAGTG
* *
36967231 AGCCTTTGTGGCTATCTCTATTATAAGGAAACCTTTGTAGTGATCATTGCTAAAAGGAAGCCTT-
1 AGCCTTTGTGGCCATCTCTATTATAAGGAAACCTTTGTAGCGATCATTGCTAAAAGGAAGCCTTG
* * *
36967295 TGTGGCAATCTCTATTAAATGGA
66 T-TGACAATATCTATTAAAAGGA
* * ** * * * *
36967318 AGCCTTTGTGGCGATCTTTATTA-AATGGAAGTCTTTGTGGCGATCTTTGTTAAATGGAAGCCTT
1 AGCCTTTGTGGCCATCTCTATTATAA-GGAAACCTTTGTAGCGATCATTGCTAAAAGGAAGCCTT
*
36967382 GTTGACGATATCTATTAAAAGGA
65 GTTGACAATATCTATTAAAAGGA
*
36967405 AGCTTTTGTGGCCATCTCT
1 AGCCTTTGTGGCCATCTCT
36967424 GTAAAAAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 2 0.02
87 85 0.97
88 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (87 bp):
AGCCTTTGTGGCCATCTCTATTATAAGGAAACCTTTGTAGCGATCATTGCTAAAAGGAAGCCTTG
TTGACAATATCTATTAAAAGGA
Found at i:36968114 original size:21 final size:21
Alignment explanation
Indices: 36968088--36968137 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
36968078 TATAAACAAG
* *
36968088 GGTCACATGCCCGTGTAGGCA
1 GGTCACACGCCCATGTAGGCA
*
36968109 GGTCACACGCCCATGTGGGCA
1 GGTCACACGCCCATGTAGGCA
36968130 GGTCACAC
1 GGTCACAC
36968138 ATGTCTGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (21 bp):
GGTCACACGCCCATGTAGGCA
Found at i:36974307 original size:20 final size:19
Alignment explanation
Indices: 36974263--36974307 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
36974253 AGCACATGTA
*
36974263 TTCATAAAATTTTAGAATT
1 TTCATAAAATTTTACAATT
*
36974282 TCTCATCAAATTTTACAACTT
1 T-TCATAAAATTTTACAA-TT
36974303 TTCAT
1 TTCAT
36974308 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.47
Consensus pattern (19 bp):
TTCATAAAATTTTACAATT
Found at i:36984798 original size:22 final size:22
Alignment explanation
Indices: 36984731--36984800 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
36984721 CTTGCGCTGA
*
36984731 TGAACAGTAAGCTCTTT-TAAGC
1 TGAACAGTAAGC-CTTTACAAGC
* * *
36984753 TAAAACAGTAAG-CTCATACGAGC
1 T-GAACAGTAAGCCT-TTACAAGC
36984776 TGAACAGTAAGCCTTTACAAGC
1 TGAACAGTAAGCCTTTACAAGC
36984798 TGA
1 TGA
36984801 TATATTTGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
21 2 0.05
22 20 0.54
23 15 0.41
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCCTTTACAAGC
Found at i:36992588 original size:20 final size:20
Alignment explanation
Indices: 36992563--36992604 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
36992553 AGCACATGTA
*
36992563 TTCATAAAACTTCAGCATTT
1 TTCATAAAACTTCAACATTT
*
36992583 TTCATAAAATTTCAACATTT
1 TTCATAAAACTTCAACATTT
36992603 TT
1 TT
36992605 TGTCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (20 bp):
TTCATAAAACTTCAACATTT
Found at i:36992994 original size:35 final size:35
Alignment explanation
Indices: 36992949--36993018 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
36992939 TATCATCTTT
36992949 TTAATTAATATATTTCCACGGATGAATCACCAAGA
1 TTAATTAATATATTTCCACGGATGAATCACCAAGA
* *
36992984 TTAATTAATATATTTCCATGGATGAATCACTAAGA
1 TTAATTAATATATTTCCACGGATGAATCACCAAGA
36993019 AAAATCTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (35 bp):
TTAATTAATATATTTCCACGGATGAATCACCAAGA
Found at i:36999462 original size:18 final size:19
Alignment explanation
Indices: 36999441--36999485 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
36999431 CTTAGTATAC
36999441 TTTTTTT-AATTCTCG-ATT
1 TTTTTTTAAATT-TCGTATT
36999459 TTTTTTTAAATTTCGTATT
1 TTTTTTTAAATTTCGTATT
36999478 TCTTTTTT
1 T-TTTTTT
36999486 TTCACTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.42
19 8 0.33
20 6 0.25
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTTTTAAATTTCGTATT
Found at i:36999463 original size:19 final size:20
Alignment explanation
Indices: 36999421--36999486 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 20
36999411 CAACACTTCA
* * *
36999421 CTTTTTTTAACTTAGTA-TA
1 CTTTTTTTAATTTCGTATTT
36999440 CTTTTTTTAATTCTCG-ATTT
1 CTTTTTTTAATT-TCGTATTT
*
36999460 -TTTTTTAAATTTCGTATTT
1 CTTTTTTTAATTTCGTATTT
36999479 CTTTTTTT
1 CTTTTTTT
36999487 TCACTAGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.08
19 26 0.68
20 9 0.24
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.67
Consensus pattern (20 bp):
CTTTTTTTAATTTCGTATTT
Found at i:37003069 original size:26 final size:26
Alignment explanation
Indices: 37003030--37003099 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
37003020 GTATAAGTGA
* * *
37003030 GCCTTTTTAGCTATCTTTGAATCGAT
1 GCCTTTATGGCTATCTCTGAATCGAT
*
37003056 G-CTTTAGTGGCTATCTCTGAATGGAT
1 GCCTTTA-TGGCTATCTCTGAATCGAT
*
37003082 GCCTTTATGGATATCTCT
1 GCCTTTATGGCTATCTCT
37003100 ATTGTAAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.11
26 28 0.76
27 5 0.14
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.43
Consensus pattern (26 bp):
GCCTTTATGGCTATCTCTGAATCGAT
Found at i:37003257 original size:29 final size:29
Alignment explanation
Indices: 37003191--37003258 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
37003181 ATCTTTGTAG
37003191 AAAATGATGCTTTTGTGGCTATATCAGTT
1 AAAATGATGCTTTTGTGGCTATATCAGTT
*
37003220 -AAATGGATG-TCTTTGTGGCTATCTCTA-TT
1 AAAAT-GATGCT-TTTGTGGCTATATC-AGTT
37003249 AAAATGATGC
1 AAAATGATGC
37003259 CCTCATGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 5 0.15
29 23 0.70
30 5 0.15
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (29 bp):
AAAATGATGCTTTTGTGGCTATATCAGTT
Found at i:37005710 original size:27 final size:26
Alignment explanation
Indices: 37005693--37005762 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
37005683 ATATTAAGTC
37005693 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
37005720 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
37005748 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
37005763 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:37005756 original size:28 final size:28
Alignment explanation
Indices: 37005693--37005790 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
37005683 ATATTAAGTC
*
37005693 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
37005720 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37005748 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
37005777 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37005791 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37006256 original size:12 final size:12
Alignment explanation
Indices: 37006239--37006265 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37006229 TGGGCATACT
37006239 TATGTATATATA
1 TATGTATATATA
37006251 TATGTATATATA
1 TATGTATATATA
37006263 TAT
1 TAT
37006266 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:37013655 original size:27 final size:26
Alignment explanation
Indices: 37013638--37013707 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
37013628 ATATTAAGTC
37013638 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
37013665 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
37013693 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
37013708 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:37013701 original size:28 final size:28
Alignment explanation
Indices: 37013638--37013735 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
37013628 ATATTAAGTC
*
37013638 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
37013665 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37013693 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
37013722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37013736 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37019526 original size:17 final size:17
Alignment explanation
Indices: 37019501--37019538 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
37019491 CTAGACATAA
*
37019501 TATTTTAAT-ATTATATT
1 TATTCTAATAATT-TATT
37019518 TATTCTAATAATTTATT
1 TATTCTAATAATTTATT
37019535 TATT
1 TATT
37019539 GGTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTCTAATAATTTATT
Found at i:37023536 original size:47 final size:47
Alignment explanation
Indices: 37023463--37023681 Score: 180
Period size: 47 Copynumber: 4.7 Consensus size: 47
37023453 TGATTTGTGC
* * *
37023463 GCCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACAG-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
* * *
37023509 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACAGAGATGAGA
* * * * *
37023557 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCTC-GACAAAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGA-GATGAGA
* * * * * * * * *
37023604 GCCAGAGTAAGACGTTTCTTGGACACGCATCGGCTA-AAAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
*
37023648 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
37023682 ACGCGTATAT
Statistics
Matches: 133, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
44 28 0.21
46 19 0.14
47 66 0.50
48 20 0.15
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGATGAGA
Found at i:37027911 original size:40 final size:40
Alignment explanation
Indices: 37027867--37028051 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
37027857 GCTACTAGCT
*
37027867 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
37027907 CAAATGCCTTCGGGACTTCGCCCGGTGATAGGAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
37027947 CAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
37027987 CAAATGCCATCGGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
37028027 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
37028052 GTATCAATCC
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 128 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:37028000 original size:80 final size:80
Alignment explanation
Indices: 37027844--37028051 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 80
37027834 CCTTTGGAGT
** * * *
37027844 TTAG-CCGGATATAGCTACTAGCTCAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAGGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
*
37027908 AAATGCCTTCGGGAC
66 AAATGCCATCGGGAC
* * *
37027923 TTCGCCCGG-TGATAGGAACTCGCACAAATACCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 TTAGCCCGGAT-ATAGGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
37027987 CAAATGCCATCGGGAC
65 CAAATGCCATCGGGAC
* **
37028003 TTAGCCCGGATTTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAGGAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
37028052 GTATCAATCC
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.04
80 106 0.95
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATAGGAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
AAATGCCATCGGGAC
Found at i:37035346 original size:42 final size:42
Alignment explanation
Indices: 37035283--37035364 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37035273 GACATTAGGG
* *
37035283 TTATGAGTTTACGTGTAAGACCATATCTGGGATATGGTATTA
1 TTATGAGTTTACATGTAAGACCATATCTGGGACATGGTATTA
* *
37035325 TTATGAGATTT-CATGTCAGACCATGTCTGGGACATGGTAT
1 TTATGAG-TTTACATGTAAGACCATATCTGGGACATGGTAT
37035365 CGATATGAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.91
43 3 0.09
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (42 bp):
TTATGAGTTTACATGTAAGACCATATCTGGGACATGGTATTA
Found at i:37037807 original size:50 final size:48
Alignment explanation
Indices: 37037722--37037816 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
37037712 TATATCCACA
* * *
37037722 TATTCTGGCATCATATCTGTGATTCTGGTGGCTTGTCCACATATTTGTC
1 TATTCTGGCAGCATATCTGGGATTCCGGTGGCTTGTCCACA-ATTTGTC
* *
37037771 TATTCTGGCAGCTTGTCTGGGATATCCGGTGGCTTGTCCACAATTT
1 TATTCTGGCAGCATATCTGGGAT-TCCGGTGGCTTGTCCACAATTT
37037817 TGGTGTGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 23 0.57
50 17 0.43
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (48 bp):
TATTCTGGCAGCATATCTGGGATTCCGGTGGCTTGTCCACAATTTGTC
Found at i:37040042 original size:12 final size:12
Alignment explanation
Indices: 37040025--37040050 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37040015 AGCTTGTGAA
37040025 AATACTAATAAT
1 AATACTAATAAT
37040037 AATACTAATAAT
1 AATACTAATAAT
37040049 AA
1 AA
37040051 ATAAAAATGT
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATACTAATAAT
Found at i:37043605 original size:20 final size:20
Alignment explanation
Indices: 37043544--37043607 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
37043534 TCAAAATATC
* * **
37043544 AAAATCTTAGAAATATAGGC
1 AAAATTTTAGAAATATTGAT
*
37043564 AAAATTCTT-GAATATTTTGAT
1 AAAATT-TTAGAA-ATATTGAT
37043585 AAAATTTTAGAAATATTGAT
1 AAAATTTTAGAAATATTGAT
37043605 AAA
1 AAA
37043608 TCTTTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (20 bp):
AAAATTTTAGAAATATTGAT
Found at i:37044660 original size:18 final size:20
Alignment explanation
Indices: 37044639--37044679 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37044629 TCAACAATTT
37044639 AAAAAAAT-AT-GAAATATA
1 AAAAAAATCATAGAAATATA
*
37044657 AAAAAAATCATAGAAATTTA
1 AAAAAAATCATAGAAATATA
37044677 AAA
1 AAA
37044680 CATGACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAAAATCATAGAAATATA
Found at i:37048929 original size:40 final size:40
Alignment explanation
Indices: 37048793--37049011 Score: 239
Period size: 40 Copynumber: 5.5 Consensus size: 40
37048783 TGGATGATAA
* **
37048793 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTACAT
* * *
37048834 TCGGGCTAAGTCCCGAAGGCAGTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-T
* *
37048875 CCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* *
37048915 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
37048955 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
37048994 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37049012 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 63 0.40
41 59 0.38
42 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:37048941 original size:81 final size:80
Alignment explanation
Indices: 37048793--37048977 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 80
37048783 TGGATGATAA
** *
37048793 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTTCGGGCTAAGTCCCGAAGGCAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTACATCCGGGCTAAGTCCCGAAGGCAGTT
*
37048858 GTGCGAGTTATTACATT
65 GTGCGAGTTACTACA-T
* * * *
37048875 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-ATTTATTACATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCAGTT
* *
37048939 GTGTGAGTTACTATAT
65 GTGCGAGTTACTACAT
*
37048955 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
37048978 GAGCGAGTAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 23 0.25
81 40 0.44
82 24 0.26
83 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTACATCCGGGCTAAGTCCCGAAGGCAGTTG
TGCGAGTTACTACAT
Found at i:37055546 original size:12 final size:12
Alignment explanation
Indices: 37055529--37055553 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37055519 GACATTCAAG
37055529 CATTATGGTAAA
1 CATTATGGTAAA
37055541 CATTATGGTAAA
1 CATTATGGTAAA
37055553 C
1 C
37055554 GCCATCTCGG
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:0.12, G:0.16, T:0.32
Consensus pattern (12 bp):
CATTATGGTAAA
Found at i:37062596 original size:47 final size:47
Alignment explanation
Indices: 37062525--37063162 Score: 1150
Period size: 47 Copynumber: 13.6 Consensus size: 47
37062515 CCCTTCGGGA
* * * * * *
37062525 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
37062572 CCTATCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37062619 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062666 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062713 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37062760 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062807 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37062854 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062901 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062948 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37062995 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37063042 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37063089 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37063136 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
37063163 TATTCAAATA
Statistics
Matches: 575, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 575 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37062603 original size:25 final size:25
Alignment explanation
Indices: 37062575--37062653 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
37062565 ACTCGGCCCT
37062575 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* * *
37062600 ATCACAT-TGGT-CA--TTCGGCCTT-
1 ATCACATAT-ATACACTTTC-ACATTC
37062622 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
37062647 ATCACAT
1 ATCACAT
37062654 CGGTCATTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:37076312 original size:39 final size:39
Alignment explanation
Indices: 37076269--37076348 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
37076259 CTATTGCATG
*
37076269 AATAATATATAAATGAACAAATAATCAACTAAGAATGCT
1 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
37076308 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
1 AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
37076347 AA
1 AA
37076349 GGCAAAGACA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.24
Consensus pattern (39 bp):
AATAATATATAAATGAACAAACAATCAACTAAGAATGCT
Found at i:37077386 original size:17 final size:17
Alignment explanation
Indices: 37077364--37077397 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37077354 CTAAAATGCA
37077364 ACAAAATATACCTAAGT
1 ACAAAATATACCTAAGT
37077381 ACAAAATATACCTAAGT
1 ACAAAATATACCTAAGT
37077398 TATTACTTGT
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:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ACAAAATATACCTAAGT
Found at i:37083937 original size:38 final size:38
Alignment explanation
Indices: 37083861--37083946 Score: 95
Period size: 42 Copynumber: 2.2 Consensus size: 38
37083851 CATCTTTTAA
37083861 TTAATTAATTATTTCAATTTCCAATTTAGACCCTACTCTT-T
1 TTAATTAATTATTTCAATTTCCAATTT--A--CTACTCTTCT
*
37083902 TCTAATTAATTATTTTAATTTCCAATTT-CTAACTCTTCT
1 T-TAATTAATTATTTCAATTTCCAATTTACT-ACTCTTCT
37083941 TTAATT
1 TTAATT
37083947 GTCTAATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
37 2 0.05
38 11 0.27
39 2 0.05
41 1 0.02
42 25 0.61
ACGTcount: A:0.29, C:0.17, G:0.01, T:0.52
Consensus pattern (38 bp):
TTAATTAATTATTTCAATTTCCAATTTACTACTCTTCT
Found at i:37086600 original size:64 final size:64
Alignment explanation
Indices: 37086520--37086704 Score: 178
Period size: 67 Copynumber: 2.9 Consensus size: 64
37086510 AGACATTATG
* * *
37086520 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGGCAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
37086584 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
37086649 AA
63 AA
* * * * *
37086651 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAAAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCT
37086705 GAACTATATG
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:37095600 original size:16 final size:17
Alignment explanation
Indices: 37095576--37095610 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
37095566 TGGCTGATGA
37095576 TATGCATGTTTAA-TAG
1 TATGCATGTTTAAGTAG
*
37095592 TATGTATGTTTAAGTAG
1 TATGCATGTTTAAGTAG
37095609 TA
1 TA
37095611 ACTATCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (17 bp):
TATGCATGTTTAAGTAG
Found at i:37098798 original size:33 final size:33
Alignment explanation
Indices: 37098750--37098812 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
37098740 TACAGTAATG
* * *
37098750 GTCTAGGCCTGAGCCCTATTCATTAACAGTACA
1 GTCTAGGCCTAAGCCCTATGCAGTAACAGTACA
*
37098783 GTCTGGGCCTAAGCCCTATGCAGTAACAGT
1 GTCTAGGCCTAAGCCCTATGCAGTAACAGT
37098813 GTGAGCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (33 bp):
GTCTAGGCCTAAGCCCTATGCAGTAACAGTACA
Found at i:37100682 original size:47 final size:46
Alignment explanation
Indices: 37100566--37100687 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 46
37100556 TCATTTGTGT
*
37100566 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATAGACCACATTATGA
* * * * *
37100612 GAGCCAATGTAAGACCATTTCTGGGACATGGA-AG-CGACATTGA-GAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATAGACCACATT-ATG-A
37100658 GAGTGCTAGTGTAAGACATGTCTGGGACAT
1 GA--GCTAGTGTAAGACATGTCTGGGACAT
37100688 CCATCAGCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
45 7 0.11
46 17 0.27
47 28 0.45
48 10 0.16
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATAGACCACATTATGA
Found at i:37104415 original size:19 final size:19
Alignment explanation
Indices: 37104391--37104436 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
37104381 AGACTCACAC
37104391 GCCCGTGTGCTTGGGACAT
1 GCCCGTGTGCTTGGGACAT
37104410 GCCCGTGTGCTTGGGACAT
1 GCCCGTGTGCTTGGGACAT
37104429 GCCCGTGT
1 GCCCGTGT
37104437 CCCTTACCCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.09, C:0.28, G:0.37, T:0.26
Consensus pattern (19 bp):
GCCCGTGTGCTTGGGACAT
Found at i:37110927 original size:38 final size:38
Alignment explanation
Indices: 37110856--37110930 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
37110846 GGCACGAAGG
* * **
37110856 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTAT
37110894 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTA
1 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTA
37110931 ACCCAGATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTAT
Found at i:37116212 original size:38 final size:38
Alignment explanation
Indices: 37116141--37116215 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
37116131 GGCACGAAGG
* * **
37116141 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTAT
37116179 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTA
1 CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTA
37116216 ACCCAGATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACAAAGCCTCCGGGATTTAT
Found at i:37117330 original size:10 final size:10
Alignment explanation
Indices: 37117315--37117339 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37117305 AAGTGCCGTT
37117315 AATTTTCAAA
1 AATTTTCAAA
37117325 AATTTTCAAA
1 AATTTTCAAA
37117335 AATTT
1 AATTT
37117340 GCCTATAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTTCAAA
Found at i:37127715 original size:29 final size:29
Alignment explanation
Indices: 37127683--37127741 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
37127673 CCTTAACTCA
37127683 AACTTTGGAAAAATTACAATTTTGCCCCT
1 AACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
37127712 AACTTTTGCATATTTACACTTTTGCCCCT
1 AACTTTGGAAAAATTACAATTTTGCCCCT
37127741 A
1 A
37127742 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (29 bp):
AACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:37129960 original size:15 final size:15
Alignment explanation
Indices: 37129937--37129979 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37129927 GTATCGTATT
37129937 TTGGATTTCTTTAT-
1 TTGGATTTCTTTATC
* *
37129951 TCTGGGTTTCTCTATC
1 T-TGGATTTCTTTATC
37129967 TTGGATTTCTTTA
1 TTGGATTTCTTTA
37129980 CTCGGTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:37147999 original size:120 final size:120
Alignment explanation
Indices: 37147784--37148016 Score: 301
Period size: 120 Copynumber: 1.9 Consensus size: 120
37147774 TCGAATGATG
** *
37147784 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* * *
37147849 GTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGCGATGTA
** * *
37147904 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTGAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * *
37147967 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCATGCTAG
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAG
37148017 TGACGTGTAT
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
120 71 0.73
121 20 0.21
122 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATGCTAGCGATGTA
Found at i:37148003 original size:40 final size:40
Alignment explanation
Indices: 37147784--37148019 Score: 255
Period size: 40 Copynumber: 5.9 Consensus size: 40
37147774 TCGAATGATG
** *
37147784 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTGAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
37147824 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
37147864 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
37147904 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
37147944 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
37147984 TCCGTGCTAAATCCCGAAGAGCAATCATGCTAGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
37148020 CGTGTATTCG
Statistics
Matches: 169, Mismatches: 23, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 150 0.89
41 18 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:37151781 original size:47 final size:47
Alignment explanation
Indices: 37151712--37152090 Score: 625
Period size: 47 Copynumber: 8.1 Consensus size: 47
37151702 TGAAATGTAG
37151712 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37151759 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37151806 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37151853 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
37151900 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37151947 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37151993 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
37152040 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37152087 TAAG
1 TAAG
37152091 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 46 0.15
47 268 0.85
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37152265 original size:37 final size:36
Alignment explanation
Indices: 37152209--37152286 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
37152199 CCGAGCTCTA
* *
37152209 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGT-CGGGT
*
37152246 AAGACCCGATAACTTCGTGTGGAGATTATGTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
37152282 AAGAC
1 AAGAC
37152287 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 10 0.27
37 26 0.70
38 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCGGGT
Found at i:37162712 original size:14 final size:14
Alignment explanation
Indices: 37162695--37162722 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37162685 TCGGCAGAGA
37162695 TTCAAGTATAGTGT
1 TTCAAGTATAGTGT
37162709 TTCAAGTATAGTGT
1 TTCAAGTATAGTGT
37162723 CTACGATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TTCAAGTATAGTGT
Found at i:37164707 original size:33 final size:33
Alignment explanation
Indices: 37164660--37164731 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
37164650 TTCTTTTTAC
* *
37164660 TATTCAAATGATCATAGTTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
37164693 TATTTAAATGATCATAATTTCAATCATCAAATA
1 TATTTAAATGATCATAATTTCAATCATCAAATA
37164726 TATTTA
1 TATTTA
37164732 CACAAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.40
Consensus pattern (33 bp):
TATTTAAATGATCATAATTTCAATCATCAAATA
Found at i:37164721 original size:15 final size:15
Alignment explanation
Indices: 37164670--37164721 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
37164660 TATTCAAATG
*
37164670 ATCATAGTTTCAATC
1 ATCATAATTTCAATC
* *
37164685 ATCAAATATATTTAAATG
1 ATC--ATA-ATTTCAATC
37164703 ATCATAATTTCAATC
1 ATCATAATTTCAATC
37164718 ATCA
1 ATCA
37164722 AATATATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 3 0.10
18 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (15 bp):
ATCATAATTTCAATC
Found at i:37168154 original size:48 final size:47
Alignment explanation
Indices: 37167935--37168302 Score: 258
Period size: 46 Copynumber: 7.8 Consensus size: 47
37167925 ATAGGGTATA
* * * * *
37167935 ATGCCGACGCCATGTCCCAGACATGGTTTTACACTGGCTCATCCATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
* * * * *
37167982 AAGTCAATGCCATGTCCCAGACATGGTCTTACATTGAC-CATCAAAATC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--TATC
* * * * *
37168030 GAGGCCGACGTCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TA-TC
* * *
37168081 GTGCCGATGCCATGTCCCAGCCATGGTCTTACACAT-ACACCTCTATAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC-TGACACATCTAT-C
*
37168129 ATGCCGATGCCATGTCCCAGACATGGTTTTACACTGACACATC--TC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
* * * *
37168174 GTAGCCAATG-CATGACCCAGACAT-GTCTTACACTGGCTTACATC--TC
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTATC
* * * *
37168220 GAGGCCGATG-CATGTCCCAAACAT-GTCTTACACT-AGC-CCTCGTCTC
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC-TATC
37168266 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 -ATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
37168303 GCTCTCATAA
Statistics
Matches: 256, Mismatches: 43, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.01
44 11 0.04
45 15 0.06
46 57 0.22
47 46 0.18
48 55 0.21
49 30 0.12
50 32 0.12
51 5 0.02
52 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATC
Found at i:37168161 original size:98 final size:94
Alignment explanation
Indices: 37167931--37168163 Score: 249
Period size: 96 Copynumber: 2.4 Consensus size: 94
37167921 AAACATAGGG
*
37167931 TATA-ATGCCGACGCCATGTCCCAGACATGGTTTTACACTGGCTCATCCATCAAGTCAATGCCAT
1 TATACATGCCGACGCCATGTCCCAGACATGGTTTTACACTAGCTCATCCATCAAGTCAATGCCAT
*
37167995 GTCCCAGACATGGTCTTACATTGACCATC
66 GTCCCAGACATGGTCTTACAATGACCATC
* * * * * * *
37168024 AAAATCGAGGCCGACGTCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAT-ATTCGTGCCG
1 TATA-C-ATGCCGACGCCATGTCCCAGACATGGTTTTACACTAGCTCATC-CATCA--AGT--CA
* *
37168087 ATGCCATGTCCCAGCCATGGTCTTACACAT-ACACCTC
59 ATGCCATGTCCCAGACATGGTCTTACA-ATGAC-CATC
*
37168124 TATACATGCCGATGCCATGTCCCAGACATGGTTTTACACT
1 TATACATGCCGACGCCATGTCCCAGACATGGTTTTACACT
37168164 GACACATCTC
Statistics
Matches: 113, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
93 2 0.02
95 3 0.03
96 39 0.35
97 2 0.02
98 31 0.27
99 30 0.27
100 6 0.05
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
TATACATGCCGACGCCATGTCCCAGACATGGTTTTACACTAGCTCATCCATCAAGTCAATGCCAT
GTCCCAGACATGGTCTTACAATGACCATC
Found at i:37168231 original size:46 final size:45
Alignment explanation
Indices: 37167945--37168350 Score: 198
Period size: 46 Copynumber: 8.6 Consensus size: 45
37167935 ATGCCGACGC
* * * *
37167945 CATGTCCCAGACATGGTTTTACACTGGC-TCATCCATC-AAGTCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCAT-C-TCGAGGCCGATG
* * * ** *
37167991 CCATGTCCCAGACATGGTCTTACATTGACCATCAAAATCGAGGCCGACG
1 -CATGTCCCAGACAT-GTCTTACACTG-GCTTC-ATCTCGAGGCCGATG
* * *
37168040 TCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG-TGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-T--CAT-CTCGAGGCCGATG
* ** * * *
37168090 CCATGTCCCAGCCATGGTCTTACACATACACCTCTAT-AC-ATGCCGATG
1 -CATGTCCCAGACAT-GTCTTACAC-T-GGCTTC-ATCTCGAGGCCGATG
* * * *
37168138 CCATGTCCCAGACATGGTTTTACACTGAC-ACATCTCGTA-GCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATG
*
37168184 CATGACCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
* * * * * *
37168230 CATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGAGGCCGATG
* * *
37168276 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
* *
37168324 TATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
37168351 ACACAAATAA
Statistics
Matches: 283, Mismatches: 53, Indels: 47
0.74 0.14 0.12
Matches are distributed among these distances:
44 13 0.05
45 16 0.06
46 69 0.24
47 56 0.20
48 55 0.19
49 34 0.12
50 33 0.12
51 6 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:37168273 original size:138 final size:144
Alignment explanation
Indices: 37167988--37168302 Score: 366
Period size: 138 Copynumber: 2.2 Consensus size: 144
37167978 CATCAAGTCA
* * *
37167988 ATGCCATGTCCCAGACATGGTCTTACATTGACCATCAAAATCGAGGCCGACGTCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACCATC---ATCGAGGCCAACGTCATGACCCAGAC
* * **
37168053 ATGGTCTTACACTAGCTCTCACATATTCGTGCCGATGCCATGTCCCAGCCATGGTCTTACACATA
63 ATGGTCTTACACTAGCTCTCACATACTCGGGCCGATGCCATGTCCCAAACATGGTCTTACACATA
37168118 CACCTCTATACATGCCG
128 CACCTCTATACATGCCG
* *
37168135 ATGCCATGTCCCAGACATGGTTTTACACTGACACATC-TCGTA-GCCAATG-CATGACCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-CATCATCG-AGGCCAACGTCATGACCCAGACA
*
37168197 T-GTCTTACACTGGCT-T-ACAT-CTCGAGGCCGATG-CATGTCCCAAACAT-GTCTTACAC-TA
64 TGGTCTTACACTAGCTCTCACATACTCG-GGCCGATGCCATGTCCCAAACATGGTCTTACACATA
*
37168255 GC-CCTCGTCT-CAATGCCG
128 -CACCTC-TATAC-ATGCCG
37168273 ATGCCATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
37168303 GCTCTCATAA
Statistics
Matches: 150, Mismatches: 12, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
137 7 0.05
138 47 0.31
139 15 0.10
140 11 0.07
141 1 0.01
142 13 0.09
143 13 0.09
144 8 0.05
145 1 0.01
147 30 0.20
148 4 0.03
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACCATCATCGAGGCCAACGTCATGACCCAGACATG
GTCTTACACTAGCTCTCACATACTCGGGCCGATGCCATGTCCCAAACATGGTCTTACACATACAC
CTCTATACATGCCG
Found at i:37174448 original size:15 final size:14
Alignment explanation
Indices: 37174412--37174449 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
37174402 ATACATAACC
37174412 TTTAATATATATTT
1 TTTAATATATATTT
37174426 TTTAAATATATATATT
1 TTT-AATATATAT-TT
37174442 TTTAATAT
1 TTTAATAT
37174450 TTTACTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 14 0.64
16 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAATATATATTT
Done.