Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 27 of 172
Found at i:6367960 original size:143 final size:142
Alignment explanation
Indices: 6367592--6368036 Score: 751
Period size: 143 Copynumber: 3.2 Consensus size: 142
6367582 CCCTTCGGGA
* * * * * *
6367592 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCC-TGTCACATATATAC
1 CTTATCACATATATATACACTTTC-CATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
6367654 ACTTTCACATTCATCACATCGGCCATTAGGCCTT-TCA-ATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
6367717 TCGGCCATTAGGC
130 TCGGCCATTAGGC
6367730 CTTATCACATATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTATCACATATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
6367795 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
6367860 CGGCCATTAGGC
131 CGGCCATTAGGC
*
6367872 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATACATAC
1 CTTATCACATATATATACACTTTC-CATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
6367937 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
6368002 TCGGCCATTAGGC
130 TCGGCCATTAGGC
6368015 CTTATCAC--ATATATACACTTTC
1 CTTATCACATATATATACACTTTC
6368037 ACGTATACAC
Statistics
Matches: 293, Mismatches: 8, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
138 10 0.03
139 21 0.07
140 58 0.20
141 17 0.06
142 63 0.22
143 124 0.42
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATATACACTTTCCATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:6376765 original size:48 final size:48
Alignment explanation
Indices: 6376687--6376866 Score: 173
Period size: 48 Copynumber: 3.8 Consensus size: 48
6376677 AGGTGAAAGA
* * * *
6376687 AATAGTGTCTGGTTACCTGTTTGGGTTAAACCTACATGAATAA-AAATT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAA-T
* * *
6376735 AATAGTGCCTAGTTACCCGTTAGGGCTAAACCTACACGAATAATGAAT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
* * * * * * *
6376783 AGTAGTACCTAATTACCCATTAGGGTTAAACCTACATGATTAATGAAC
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
** * * *
6376831 AATAGTGTTTGGTTACCCATTAAGGTTAAACCTACA
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACA
6376867 CGACAAATAG
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
48 107 0.98
49 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (48 bp):
AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
Found at i:6377897 original size:43 final size:43
Alignment explanation
Indices: 6377848--6377935 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
6377838 AACATTAACC
6377848 TTAATTAACACTTTTTGAGGATGATAGTTTGCTATCATCACCG
1 TTAATTAACACTTTTTGAGGATGATAGTTTGCTATCATCACCG
6377891 TTAATTAACACTTTTTGAGGATGATAGTTTGCTATCATCACCG
1 TTAATTAACACTTTTTGAGGATGATAGTTTGCTATCATCACCG
6377934 TT
1 TT
6377936 GGTCATTTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (43 bp):
TTAATTAACACTTTTTGAGGATGATAGTTTGCTATCATCACCG
Found at i:6382044 original size:161 final size:161
Alignment explanation
Indices: 6381779--6382105 Score: 498
Period size: 161 Copynumber: 2.0 Consensus size: 161
6381769 GTGTGATGGT
* * *
6381779 CACTTGAAAGATTGTAGGAGATATTCCTCAATTTTAAAAAAACACTATTATCTTAACTAACAAGA
1 CACTTGAAAGATTGTAAGAGATATTCCTCAATTTAAAAAAAACACTATTATCTCAACTAACAAGA
* *
6381844 TTTAACCACTAATTCTATCTAACTAATCAAAATTTGAATTTAACCCAATTACCATCAACATAGGC
66 TTTAACCACTAATTCTATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATAGGC
*
6381909 GGCACAAACAGGGAGTAGGAAAAATAATTCC
131 GACACAAACAGGGAGTAGGAAAAATAATTCC
*
6381940 CACTTGAAAGAATT-TAAGAGCTATTCCTCAA-TTAAAAAAAACCACTATTATCTCAACTAACAA
1 CACTTGAAAG-ATTGTAAGAGATATTCCTCAATTTAAAAAAAA-CACTATTATCTCAACTAACAA
* * * *
6382003 GATTTCACCACTAA-TCTTATCTAACAAATTAGAATTTGAATTTAACCCAATTACCAACAACATG
64 GATTTAACCACTAATTC-TATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATA
6382067 GGCGACACAAACAGGGAGTAGGAAAAATAATTCC
128 GGCGACACAAACAGGGAGTAGGAAAAATAATTCC
*
6382101 TACTT
1 CACTT
6382106 CAGCACAACA
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
160 11 0.07
161 137 0.91
162 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (161 bp):
CACTTGAAAGATTGTAAGAGATATTCCTCAATTTAAAAAAAACACTATTATCTCAACTAACAAGA
TTTAACCACTAATTCTATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATAGGC
GACACAAACAGGGAGTAGGAAAAATAATTCC
Found at i:6388453 original size:27 final size:27
Alignment explanation
Indices: 6388423--6388655 Score: 156
Period size: 27 Copynumber: 8.6 Consensus size: 27
6388413 GAAAGGTTAT
*
6388423 AAATGACTGTAATACCCTTGTAGGGTA
1 AAATGACTGTAATACCCTCGTAGGGTA
* * **
6388450 AAATGA-TCGAAATACCC-CTATAGGAAA
1 AAATGACT-GTAATACCCTC-GTAGGGTA
* *
6388477 AAATGA-TCGTAATACCCTCATAAGGTA
1 AAATGACT-GTAATACCCTCGTAGGGTA
*
6388504 AAATGACCGTAATACCC-CTGTAGGGTA
1 AAATGACTGTAATACCCTC-GTAGGGTA
* * **
6388531 AAATGACCG-AAAACCCTTATAGGGTA
1 AAATGACTGTAATACCCTCGTAGGGTA
* *
6388557 AAATGATTGTAATACCCTCGAAGGGTAA
1 AAATGACTGTAATACCCTCGTAGGGT-A
* *
6388585 AAATTA-TCG-AATTACCCTCGAAGGGTA
1 AAATGACT-GTAA-TACCCTCGTAGGGTA
* * * *
6388612 AAATAACCGAAATACCCTCGTAGGATA
1 AAATGACTGTAATACCCTCGTAGGGTA
* *
6388639 AATTGACTGTTATACCC
1 AAATGACTGTAATACCC
6388656 CTAGGAGGTG
Statistics
Matches: 163, Mismatches: 31, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
26 22 0.13
27 117 0.72
28 24 0.15
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATGACTGTAATACCCTCGTAGGGTA
Found at i:6388569 original size:53 final size:54
Alignment explanation
Indices: 6388423--6388586 Score: 179
Period size: 54 Copynumber: 3.1 Consensus size: 54
6388413 GAAAGGTTAT
* * * * * **
6388423 AAATGACTGTAATACCCTTGTAGGGTAAAATGATCGAAATACCCCTATAGGAAA
1 AAATGACCGTAAAACCCTTATAGGGTAAAATGATCGTAATACCCCTGTAGGGTA
* * * * *
6388477 AAATGATCGTAATACCCTCATAAGGTAAAATGACCGTAATACCCCTGTAGGGTA
1 AAATGACCGTAAAACCCTTATAGGGTAAAATGATCGTAATACCCCTGTAGGGTA
* *
6388531 AAATGACCG-AAAACCCTTATAGGGTAAAATGATTGTAATA-CCCTCGAAGGGTA
1 AAATGACCGTAAAACCCTTATAGGGTAAAATGATCGTAATACCCCT-GTAGGGTA
6388584 AAA
1 AAA
6388587 ATTATCGAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
52 4 0.04
53 36 0.39
54 52 0.57
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (54 bp):
AAATGACCGTAAAACCCTTATAGGGTAAAATGATCGTAATACCCCTGTAGGGTA
Found at i:6388588 original size:81 final size:81
Alignment explanation
Indices: 6388423--6388629 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
6388413 GAAAGGTTAT
* * * *
6388423 AAATGACTGTAATACCCTTGTAGGGTAAAATGATCGAAATACCCCTATAGGAAAAAATGATCGTA
1 AAATGACCGTAATACCCCTGTAGGGTAAAATGACCGAAATACCCTTATAGGAAAAAATGATCGTA
6388488 ATACCCTCATAAGGTA
66 ATACCCTCATAAGGTA
** *
6388504 AAATGACCGTAATACCCCTGTAGGGTAAAATGACCGAAA-ACCCTTATAGGGTAAAATGATTGTA
1 AAATGACCGTAATACCCCTGTAGGGTAAAATGACCGAAATACCCTTATAGGAAAAAATGATCGTA
*
6388568 ATACCCTCGA-AGGGTAA
66 ATACCCTC-ATAAGGT-A
* * * *
6388585 AAATTATCG-AATTA-CCCTCGAAGGGTAAAATAACCGAAATACCCT
1 AAATGACCGTAA-TACCCCT-GTAGGGTAAAATGACCGAAATACCCT
6388630 CGTAGGATAA
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
80 39 0.36
81 65 0.60
82 5 0.05
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (81 bp):
AAATGACCGTAATACCCCTGTAGGGTAAAATGACCGAAATACCCTTATAGGAAAAAATGATCGTA
ATACCCTCATAAGGTA
Found at i:6390859 original size:12 final size:12
Alignment explanation
Indices: 6390842--6390866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6390832 ATTTCATTCC
6390842 ACATATATATAT
1 ACATATATATAT
6390854 ACATATATATAT
1 ACATATATATAT
6390866 A
1 A
6390867 AACAGATAAC
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:6391260 original size:47 final size:47
Alignment explanation
Indices: 6391209--6391671 Score: 743
Period size: 47 Copynumber: 9.9 Consensus size: 47
6391199 ATACTTACAA
* *
6391209 AATTGGACTGGATTTATACATAAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
6391256 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * *
6391303 ATTTGGACTGCATTTGTACATCAAAAATTGACAGTATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
*
6391350 AATTGGACTGCATTTATACGTCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
6391397 AATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
6391443 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * ** *
6391490 ATTTGGACTGCATTTGTACATTTAAATTTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
6391537 AATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
*
6391583 AATTGGACTGC-CTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
6391629 AATTGGACTGCATTTGTACATCAAAATTTGACAGCATATACAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACAT
6391672 TCATTTACTC
Statistics
Matches: 384, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 128 0.33
47 256 0.67
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (47 bp):
AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
Found at i:6391316 original size:140 final size:138
Alignment explanation
Indices: 6391184--6391671 Score: 681
Period size: 140 Copynumber: 3.5 Consensus size: 138
6391174 ATTTTCACAC
* * * *
6391184 CAAAATTTGGACAGCATACTTACAAAATTGGACTGGATTTATACATAAAAAATTGACAGCATATA
1 CAAAAATT-GACAGCATACATACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATATA
* * *
6391249 CATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATATATTTGGACTGC
65 CATATATAATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGC
*
6391314 ATTTGTACAT
129 ATTTATACAT
* * * *
6391324 CAAAAATTGACAGTATATACATATATAATTGGACTGCATTTATACGTCAAAAATTGACAGCATAT
1 CAAAAATTGACAG--CATACATACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
6391389 ACATATATAATTGGACTGCCTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGC
64 ACATATATAATTGGACTGCCTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGC
6391454 ATTTATACAT
129 ATTTATACAT
* * * * ** *
6391464 CAAAAATTGACAGCATATACATATATATTTGGACTGCATTTGTACATTTAAATTTGACAGCATAT
1 CAAAAATTGACAGC--ATACATACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
6391529 ACATATATAATTGGACTGCCTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGC
64 ACATATATAATTGGACTGCCTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGC
*
6391594 -CTTATACAT
129 ATTTATACAT
* * * *
6391603 CAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGCATAT
1 CAAAAATTGACAGC--ATACATACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
6391668 ACAT
64 ACAT
6391672 TCATTTACTC
Statistics
Matches: 321, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
139 79 0.25
140 180 0.56
141 62 0.19
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.32
Consensus pattern (138 bp):
CAAAAATTGACAGCATACATACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATATAC
ATATATAATTGGACTGCCTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGCAT
TTATACAT
Found at i:6391665 original size:24 final size:23
Alignment explanation
Indices: 6391222--6391671 Score: 200
Period size: 23 Copynumber: 19.3 Consensus size: 23
6391212 TGGACTGGAT
* *
6391222 TTATACATAAAAAATTGACAGCA
1 TTATACATCAAAATTTGACAGCA
* *
6391245 -TATACAT-ATATAATTGGACTGCA
1 TTATACATCA-A-AATTTGACAGCA
*
6391268 TTTATACATCAAAAATTGACAGCA
1 -TTATACATCAAAATTTGACAGCA
* *
6391292 -TATACAT-ATATATTTGGACTGCA
1 TTATACATCA-AAATTT-GACAGCA
* * *
6391315 TTTGTACATCAAAAATTGACAGTA
1 -TTATACATCAAAATTTGACAGCA
* *
6391339 -TATACAT-ATATAATTGGACTGCA
1 TTATACATCA-A-AATTTGACAGCA
* *
6391362 TTTATACGTCAAAAATTGACAGCA
1 -TTATACATCAAAATTTGACAGCA
* * *
6391386 -TATACAT-ATATAATTGGACTGCC
1 TTATACATCA-A-AATTTGACAGCA
* *
6391409 TTATACATCAAAAATTAACAGCA
1 TTATACATCAAAATTTGACAGCA
* *
6391432 -TATACAT-ATATAATTGGACTGCA
1 TTATACATCA-A-AATTTGACAGCA
*
6391455 TTTATACATCAAAAATTGACAGCA
1 -TTATACATCAAAATTTGACAGCA
* *
6391479 -TATACAT-ATATATTTGGACTGCA
1 TTATACATCA-AAATTT-GACAGCA
* **
6391502 TTTGTACATTTAAATTTGACAGCA
1 -TTATACATCAAAATTTGACAGCA
* * *
6391526 -TATACAT-ATATAATTGGACTGCC
1 TTATACATCA-A-AATTTGACAGCA
* *
6391549 TTATACATCAAAAATTAACAGCA
1 TTATACATCAAAATTTGACAGCA
* * *
6391572 -TATACAT-ATATAATTGGACTGCC
1 TTATACATCA-A-AATTTGACAGCA
*
6391595 TTATACATCAAAAATTGACAGCA
1 TTATACATCAAAATTTGACAGCA
* *
6391618 -TATACAT-ATATAATTGGACTGCA
1 TTATACATCA-A-AATTTGACAGCA
*
6391641 TTTGTACATCAAAATTTGACAGCA
1 -TTATACATCAAAATTTGACAGCA
6391665 -TATACAT
1 TTATACAT
6391672 TCATTTACTC
Statistics
Matches: 312, Mismatches: 73, Indels: 85
0.66 0.16 0.18
Matches are distributed among these distances:
21 8 0.03
22 81 0.26
23 92 0.29
24 72 0.23
25 54 0.17
26 5 0.02
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (23 bp):
TTATACATCAAAATTTGACAGCA
Found at i:6391671 original size:93 final size:94
Alignment explanation
Indices: 6391209--6391671 Score: 734
Period size: 93 Copynumber: 5.0 Consensus size: 94
6391199 ATACTTACAA
* * *
6391209 AATTGGACTGGATTTATACATAAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
1 AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
6391274 CATCAAAAATTGACAGCATATACATATAT
66 CATCAAAAATTGACAGCATATACATATAT
* * * *
6391303 ATTTGGACTGCATTTGTACATCAAAAATTGACAGTATATACATATATAATTGGACTGCATTTATA
1 AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
*
6391368 CGTCAAAAATTGACAGCATATACATATAT
66 CATCAAAAATTGACAGCATATACATATAT
*
6391397 AATTGGACTGC-CTTATACATCAAAAATTAACAGCATATACATATATAATTGGACTGCATTTATA
1 AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
6391461 CATCAAAAATTGACAGCATATACATATAT
66 CATCAAAAATTGACAGCATATACATATAT
* * * ** * *
6391490 ATTTGGACTGCATTTGTACATTTAAATTTGACAGCATATACATATATAATTGGACTGC-CTTATA
1 AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
*
6391554 CATCAAAAATTAACAGCATATACATATAT
66 CATCAAAAATTGACAGCATATACATATAT
*
6391583 AATTGGACTGC-CTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTGTA
1 AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
*
6391647 CATCAAAATTTGACAGCATATACAT
66 CATCAAAAATTGACAGCATATACAT
6391672 TCATTTACTC
Statistics
Matches: 336, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
92 41 0.12
93 157 0.47
94 138 0.41
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (94 bp):
AATTGGACTGCACTTATACATCAAAAATTGACAGCATATACATATATAATTGGACTGCATTTATA
CATCAAAAATTGACAGCATATACATATAT
Found at i:6391949 original size:14 final size:15
Alignment explanation
Indices: 6391925--6391959 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
6391915 TATACACATT
6391925 ACCATATAAATACTA
1 ACCATATAAATACTA
6391940 ACCATA-AAATACTA
1 ACCATATAAATACTA
6391954 ATCCAT
1 A-CCAT
6391960 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:6392699 original size:43 final size:43
Alignment explanation
Indices: 6392611--6392734 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
6392601 AGCTAGTACA
* * *** * *
6392611 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA-AGTCG
6392654 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAAACACAAGTCG
1 ATGCCGAC-GTCCCAGAC-GTGGTCTTACACAAAAACACAAGTCG
6392697 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
6392735 TATCGGAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 4 0.06
43 63 0.90
44 3 0.04
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.19
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACAAGTCG
Found at i:6394810 original size:45 final size:45
Alignment explanation
Indices: 6394760--6395023 Score: 429
Period size: 45 Copynumber: 5.9 Consensus size: 45
6394750 AAGAGGTGGA
6394760 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
6394805 CAACATCGTGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
6394850 CAACATCATGCCTAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
6394895 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTAAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
6394940 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * * *
6394985 TAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
6395024 CCATGGCCGA
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 203 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:6395789 original size:18 final size:18
Alignment explanation
Indices: 6395766--6395810 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6395756 ATTCGGTATT
*
6395766 AAAAAAAAGAGAAATTCA
1 AAAAAAAAGAGAAATTAA
***
6395784 AAAAAAATTCGAAATTAA
1 AAAAAAAAGAGAAATTAA
6395802 AAAAAAAAG
1 AAAAAAAAG
6395811 TGATTGAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.13
Consensus pattern (18 bp):
AAAAAAAAGAGAAATTAA
Found at i:6395803 original size:17 final size:16
Alignment explanation
Indices: 6395763--6395807 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
6395753 TGTATTCGGT
6395763 ATTAAAAAAAAGAGAA
1 ATTAAAAAAAAGAGAA
**
6395779 ATTCAAAAAAAATTCGAA
1 ATT-AAAAAAAA-GAGAA
6395797 ATTAAAAAAAA
1 ATTAAAAAAAA
6395808 AAGTGATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 6 0.24
ACGTcount: A:0.71, C:0.04, G:0.07, T:0.18
Consensus pattern (16 bp):
ATTAAAAAAAAGAGAA
Found at i:6408460 original size:102 final size:102
Alignment explanation
Indices: 6408297--6408636 Score: 536
Period size: 102 Copynumber: 3.3 Consensus size: 102
6408287 CCAGTGATTC
* * * * * *
6408297 GGGGAATCAACACTTAGCAACCCCTTTCAGATTCAAAGATATGGTGGAATTAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
* * *
6408362 ACCAATGATTCGGGGAATCAGCACTTACCAACCCCTTG
65 ACCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
* *
6408400 GGAGAATCAGCACTTAGAAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
6408465 CCAATGAGTAGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
* *
6408502 GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTAGAATCAGCACTTAACAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
6408567 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
*
6408604 GGGGAATCAGCACTTAGCAACCCCCTTTAAATT
1 GGGGAATCAGCACTTAGCAACCCCCTTCAAATT
6408637 CAATATACTC
Statistics
Matches: 219, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
102 188 0.86
103 31 0.14
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:6417029 original size:9 final size:9
Alignment explanation
Indices: 6417013--6417047 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6417003 TTAATTGAGA
6417013 AATTAATTT
1 AATTAATTT
*
6417022 AGTTAATTT
1 AATTAATTT
*
6417031 AATTAATTA
1 AATTAATTT
6417040 AATTAATT
1 AATTAATT
6417048 GAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:6419385 original size:3 final size:3
Alignment explanation
Indices: 6419377--6419411 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6419367 ACTAAAATCC
6419377 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6419412 CACAACTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6422579 original size:3 final size:3
Alignment explanation
Indices: 6422571--6422596 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6422561 CTTTCTTTCT
6422571 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
6422597 GCCTTTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:6424618 original size:8 final size:8
Alignment explanation
Indices: 6424605--6424642 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
6424595 TCAAGTGCAG
6424605 TATTTTTT
1 TATTTTTT
6424613 TATTTTTT
1 TATTTTTT
6424621 TATTTTTTT
1 TA-TTTTTT
*
6424630 TATTTTTG
1 TATTTTTT
6424638 TATTT
1 TATTT
6424643 AGCGGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (8 bp):
TATTTTTT
Found at i:6424621 original size:9 final size:9
Alignment explanation
Indices: 6424607--6424636 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6424597 AAGTGCAGTA
6424607 TTTTTTTA-
1 TTTTTTTAT
6424615 TTTTTTTAT
1 TTTTTTTAT
6424624 TTTTTTTAT
1 TTTTTTTAT
6424633 TTTT
1 TTTT
6424637 GTATTTAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:6424629 original size:17 final size:17
Alignment explanation
Indices: 6424607--6424642 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6424597 AAGTGCAGTA
*
6424607 TTTTTTTATTTTTTTAT
1 TTTTTTTATTTTTGTAT
6424624 TTTTTTTATTTTTGTAT
1 TTTTTTTATTTTTGTAT
6424641 TT
1 TT
6424643 AGCGGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTTTATTTTTGTAT
Found at i:6426264 original size:20 final size:19
Alignment explanation
Indices: 6426241--6426285 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6426231 ATTTAATTAT
6426241 TTTTTAAAATTTTTAATAAA
1 TTTTT-AAATTTTTAATAAA
* *
6426261 TTTTGTAATTTTTTATTAAA
1 TTTT-TAAATTTTTAATAAA
6426281 TTTTT
1 TTTTT
6426286 TTTTACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAAATTTTTAATAAA
Found at i:6428642 original size:3 final size:3
Alignment explanation
Indices: 6428634--6428658 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6428624 AAAGTCATAT
6428634 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
6428659 ATATAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6434738 original size:17 final size:17
Alignment explanation
Indices: 6434701--6434755 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
6434691 CTTCGTTTAT
6434701 TATTAATT-TTATATAAGA
1 TATTAATTATTATA-AA-A
6434719 TATTAATTATTATAAAA
1 TATTAATTATTATAAAA
* *
6434736 TATTACCTTATTGTAAAA
1 TATTA-ATTATTATAAAA
6434754 TA
1 TA
6434756 AATTTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.18
18 22 0.67
19 5 0.15
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
TATTAATTATTATAAAA
Found at i:6435484 original size:22 final size:23
Alignment explanation
Indices: 6435441--6435484 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
6435431 ATTTTTCATA
**
6435441 TTTAATAATATAATTATTTATTT
1 TTTAATAATATAATTAAATATTT
*
6435464 TTTAATAA-ATTATTAAATATT
1 TTTAATAATATAATTAAATATT
6435485 ATAATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAATAATATAATTAAATATTT
Found at i:6439799 original size:28 final size:31
Alignment explanation
Indices: 6439746--6439802 Score: 93
Period size: 28 Copynumber: 1.9 Consensus size: 31
6439736 TAGTTAAAAA
6439746 TTAAAATTTTCATAAGAAATTAATTAATTTT
1 TTAAAATTTTCATAAGAAATTAATTAATTTT
6439777 TTAAAATTTT-A-AA-AAATTAATTAATT
1 TTAAAATTTTCATAAGAAATTAATTAATT
6439803 GTTGATGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 13 0.50
29 2 0.08
30 1 0.04
31 10 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
TTAAAATTTTCATAAGAAATTAATTAATTTT
Found at i:6440440 original size:21 final size:21
Alignment explanation
Indices: 6440401--6440440 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6440391 TTTAGCTTTC
* **
6440401 AAAATTCAAAATATTAACAGA
1 AAAATTCAAAAGAAAAACAGA
6440422 AAAATTCAAAAGAAAAACA
1 AAAATTCAAAAGAAAAACA
6440441 ATTTTAGCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAATTCAAAAGAAAAACAGA
Found at i:6448832 original size:168 final size:169
Alignment explanation
Indices: 6448554--6448887 Score: 562
Period size: 168 Copynumber: 2.0 Consensus size: 169
6448544 GAAATCACCA
*
6448554 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAATGAGTAATCTGATCTACTATCGAACCAAG
1 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATCTGATCTACTATCGAACCAAG
* ** * *
6448619 CCGCAATCTATCATGATTCTTGCCTCTACGTAATCCACCCAGTTGACAATGAATGGAAGGAATCT
66 CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
*
6448684 CCAAAACTATTTTTGG-AAAATACTTTGCTTTGACGATG
131 CCAAAACTATTTTTGGAAAAAAACTTTGCTTTGACGATG
*
6448722 AATCTTTATTCTGAGTAGGCAGCAACGCCTCAGCAACGAGTAATCTGATCTACTATCGAACCAAG
1 AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATCTGATCTACTATCGAACCAAG
* *
6448787 CCGCAATCTCTCGTGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
66 CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
*
6448852 CCAAAACTTTTTTTGGAAAAAAACTTTGCTTTGACG
131 CCAAAACTATTTTTGGAAAAAAACTTTGCTTTGACG
6448888 GCTGCTAGAC
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
168 136 0.88
169 18 0.12
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (169 bp):
AATCTTTATTCTGAGTAGACAGCAACGCCTCAGCAACGAGTAATCTGATCTACTATCGAACCAAG
CCGCAATCTATCATGACTCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGGAATCC
CCAAAACTATTTTTGGAAAAAAACTTTGCTTTGACGATG
Found at i:6453285 original size:17 final size:18
Alignment explanation
Indices: 6453257--6453290 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6453247 ATAAAGTGTA
6453257 TATAACAAAATTAAAATG
1 TATAACAAAATTAAAATG
6453275 TATAA-AAAATTAAAAT
1 TATAACAAAATTAAAAT
6453291 AAAATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
TATAACAAAATTAAAATG
Found at i:6464685 original size:21 final size:21
Alignment explanation
Indices: 6464661--6464700 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6464651 CTTAATGATT
* *
6464661 TAATTGCAATAAATTAAATAA
1 TAATTGAAAGAAATTAAATAA
*
6464682 TAATTTAAAGAAATTAAAT
1 TAATTGAAAGAAATTAAAT
6464701 TTATTTCTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATTGAAAGAAATTAAATAA
Found at i:6468857 original size:30 final size:29
Alignment explanation
Indices: 6468819--6468946 Score: 112
Period size: 29 Copynumber: 4.3 Consensus size: 29
6468809 ACAAAATTAG
* *
6468819 CCACAAAGGCTCACATATAATAGATAACAT
1 CCACAAAGGCTCACATATAACAGAT-ACAA
* * *
6468849 CTACAAAGGCTTCCACATATAACAGATTCAG
1 CCACAAAGGC-T-CACATATAACAGATACAA
* * * * * *
6468880 TCATAAAGCCTCGCATATAATAGATTCAA
1 CCACAAAGGCTCACATATAACAGATACAA
*
6468909 CCACAAAGGCTCACATATAACAGAGAACAA
1 CCACAAAGGCTCACATATAACAGA-TACAA
6468939 CCACAAAG
1 CCACAAAG
6468947 ACATCACTTT
Statistics
Matches: 77, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
29 34 0.44
30 21 0.27
31 9 0.12
32 13 0.17
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.19
Consensus pattern (29 bp):
CCACAAAGGCTCACATATAACAGATACAA
Found at i:6469140 original size:54 final size:54
Alignment explanation
Indices: 6469081--6469216 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
6469071 AAAGTCCTAG
* * * *
6469081 ACTAGGTCTTGCACTACGTGGTCTTCACATCCTTATATAACACCATAGTCCCAA
1 ACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCATAGTCCCAA
* * * * * *
6469135 ACTAGGTTTTACACTATGTGATTTTCACATCCTCATATGACGCCATAGTCCTAG
1 ACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCATAGTCCCAA
*
6469189 ACTAGGTTTTACACTATATGGTCTTCAC
1 ACTAGGTTTTACACTATGTGGTCTTCAC
6469217 TTGTCATGGC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (54 bp):
ACTAGGTTTTACACTATGTGGTCTTCACATCCTCATATAACACCATAGTCCCAA
Found at i:6473323 original size:31 final size:30
Alignment explanation
Indices: 6473288--6473417 Score: 122
Period size: 29 Copynumber: 4.3 Consensus size: 30
6473278 AGAGAACAAT
6473288 CACAAAGGCTTCCACATATAACAGATTCAGC
1 CACAAAGGCTT-CACATATAACAGATTCAGC
* * *
6473319 CACAAA-GATTCACATATAATAGATTTAGC
1 CACAAAGGCTTCACATATAACAGATTCAGC
* * *
6473348 CACAAATGC-TCACATATAACAGAGAAT-AAC
1 CACAAAGGCTTCACATATAAC--AGATTCAGC
* *
6473378 CAAAAAAAGCTTCCACATATAACAGATTCAGC
1 C-ACAAAGGCTT-CACATATAACAGATTCAGC
6473410 CACAAAGG
1 CACAAAGG
6473418 TGTACATATA
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
29 33 0.42
30 7 0.09
31 25 0.32
32 4 0.05
33 10 0.13
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (30 bp):
CACAAAGGCTTCACATATAACAGATTCAGC
Found at i:6473411 original size:91 final size:91
Alignment explanation
Indices: 6473256--6473432 Score: 259
Period size: 91 Copynumber: 1.9 Consensus size: 91
6473246 AAGAGAAAAA
* * * *
6473256 CCACAAAAAGCTCACATATAATAGAGAACAATCACAAAGGCTTCCACATATAACAGATTCAGCCA
1 CCACAAAAAGCTCACATATAACAGAGAACAACCAAAAAAGCTTCCACATATAACAGATTCAGCCA
6473321 CAAAGAT-TCACATATAATAGATTTAG
66 CAAAGATGT-ACATATAATAGATTTAG
* *
6473347 CCAC-AAATGCTCACATATAACAGAGAATAACCAAAAAAAGCTTCCACATATAACAGATTCAGCC
1 CCACAAAAAGCTCACATATAACAGAGAACAACC-AAAAAAGCTTCCACATATAACAGATTCAGCC
*
6473411 ACAAAGGTGTACATATAATAGA
65 ACAAAGATGTACATATAATAGA
6473433 GAATAATCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
90 24 0.31
91 52 0.68
92 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (91 bp):
CCACAAAAAGCTCACATATAACAGAGAACAACCAAAAAAGCTTCCACATATAACAGATTCAGCCA
CAAAGATGTACATATAATAGATTTAG
Found at i:6477922 original size:19 final size:19
Alignment explanation
Indices: 6477898--6477935 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6477888 AATTCCCCTC
6477898 TTTTAT-TTTTATAATTATT
1 TTTTATATTTT-TAATTATT
6477917 TTTTATATTTTTAATTATT
1 TTTTATATTTTTAATTATT
6477936 AAAAATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTAATTATT
Found at i:6483642 original size:20 final size:20
Alignment explanation
Indices: 6483617--6483654 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6483607 TGCTCAAACT
*
6483617 CCACCTGCTGCGGAGTACAC
1 CCACCTGCTGCGAAGTACAC
6483637 CCACCTGCTGCGAAGTAC
1 CCACCTGCTGCGAAGTAC
6483655 TACTCACTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (20 bp):
CCACCTGCTGCGAAGTACAC
Found at i:6485781 original size:21 final size:22
Alignment explanation
Indices: 6485752--6485798 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6485742 CAGAAGGAGT
*
6485752 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6485774 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6485795 GAGT
1 GAGT
6485799 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6496721 original size:31 final size:30
Alignment explanation
Indices: 6496675--6496803 Score: 95
Period size: 29 Copynumber: 4.2 Consensus size: 30
6496665 AGAGAACAAT
*
6496675 CACAAAGGTTCCACATATATAACAGATTCAGC
1 CACAAAGATTCCAC--ATATAACAGATTCAGC
* *
6496707 CACAAAGATT-CACATATAATAGATTTAGC
1 CACAAAGATTCCACATATAACAGATTCAGC
* ** *
6496736 CAC-AA-ATGCTCACATATAACAGAGAACAAC
1 CACAAAGATTC-CACATATAACAGA-TTCAGC
* *
6496766 CAAAAAAAGCTTCCACATATAA-AGATTCAGC
1 C--ACAAAGATTCCACATATAACAGATTCAGC
6496797 CACAAAG
1 CACAAAG
6496804 GTGTACATAT
Statistics
Matches: 74, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
27 2 0.03
28 2 0.03
29 34 0.46
30 3 0.04
31 7 0.09
32 13 0.18
33 11 0.15
34 2 0.03
ACGTcount: A:0.47, C:0.23, G:0.11, T:0.19
Consensus pattern (30 bp):
CACAAAGATTCCACATATAACAGATTCAGC
Found at i:6496760 original size:91 final size:89
Alignment explanation
Indices: 6496644--6496819 Score: 239
Period size: 91 Copynumber: 1.9 Consensus size: 89
6496634 AAGAGAAAAA
* * * *
6496644 CCACAAAAGCTCACATATAATAGAGAACAATC-ACAAAGGTTCCACATATATAACAGATTCAGCC
1 CCACAAAAGCTCACATATAACAGAGAACAACCAAAAAAGCTTCCAC--ATATAA-AGATTCAGCC
6496708 ACAAAGAT-TCACATATAATAGATTTAG
63 ACAAAGATGT-ACATATAATAGATTTAG
*
6496735 CCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCACATATAAAGATTCAGCCAC
1 CCACAAAAGCTCACATATAACAGAGAACAACC-AAAAAAGCTTCCACATATAAAGATTCAGCCAC
*
6496800 AAAGGTGTACATATAATAGA
65 AAAGATGTACATATAATAGA
6496820 GAATAATCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
90 29 0.38
91 36 0.47
93 11 0.14
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (89 bp):
CCACAAAAGCTCACATATAACAGAGAACAACCAAAAAAGCTTCCACATATAAAGATTCAGCCACA
AAGATGTACATATAATAGATTTAG
Found at i:6496831 original size:91 final size:91
Alignment explanation
Indices: 6496635--6496832 Score: 233
Period size: 91 Copynumber: 2.2 Consensus size: 91
6496625 CATATGTAAA
* * * * *
6496635 AGAGAAAAACCACAAAAGCTCACATATAATAGAGAACAATCACAAAGGTTCCACATATATAACAG
1 AGAGAATAACCACAAAAGCTCACATATAACAGAGAACAACCAAAAAGCTTCCACA-ATATAACAG
6496700 ATTCAGCCACAAAGATTCACATATAAT
65 ATTCAGCCACAAAGATTCACATATAAT
** * *
6496727 AGA-TTTAGCCACAAATGCTCACATATAACAGAGAACAACCAAAAAAAGCTTCCAC-ATATAA-A
1 AGAGAATAACCACAAAAGCTCACATATAACAGAGAACAACC--AAAAAGCTTCCACAATATAACA
*
6496789 GATTCAGCCACAAAGGTGT-ACATATAAT
64 GATTCAGCCACAAAGAT-TCACATATAAT
*
6496817 AGAGAATAATCACAAA
1 AGAGAATAACCACAAA
6496833 GGCATCACTT
Statistics
Matches: 88, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
90 29 0.33
91 45 0.51
92 3 0.03
93 11 0.12
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.19
Consensus pattern (91 bp):
AGAGAATAACCACAAAAGCTCACATATAACAGAGAACAACCAAAAAGCTTCCACAATATAACAGA
TTCAGCCACAAAGATTCACATATAAT
Found at i:6501299 original size:19 final size:19
Alignment explanation
Indices: 6501275--6501312 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6501265 AATTCCCCTC
6501275 TTTTAT-TTTTATAATTATT
1 TTTTATATTTT-TAATTATT
6501294 TTTTATATTTTTAATTATT
1 TTTTATATTTTTAATTATT
6501313 AAAAATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTATATTTTTAATTATT
Found at i:6507023 original size:20 final size:20
Alignment explanation
Indices: 6506998--6507035 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6506988 TGCTCAAACT
*
6506998 CCACCTGCTGCGGAGTACAC
1 CCACCTGCTGCGAAGTACAC
6507018 CCACCTGCTGCGAAGTAC
1 CCACCTGCTGCGAAGTAC
6507036 TACTCACTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (20 bp):
CCACCTGCTGCGAAGTACAC
Found at i:6514606 original size:18 final size:18
Alignment explanation
Indices: 6514583--6514617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6514573 ATTAGATGGC
*
6514583 GATGATGATGATGACAAT
1 GATGATAATGATGACAAT
*
6514601 GATGATAATGTTGACAA
1 GATGATAATGATGACAA
6514618 CAATTCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (18 bp):
GATGATAATGATGACAAT
Found at i:6517299 original size:18 final size:18
Alignment explanation
Indices: 6517276--6517330 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
6517266 CTGTTTTTGT
* *
6517276 TATGATTTTCTGTTGGGA
1 TATGATTTTCTATTGAGA
*
6517294 TATGATTTCCTATTGAGA
1 TATGATTTTCTATTGAGA
* *
6517312 TATGATTTTATATTAAGA
1 TATGATTTTCTATTGAGA
6517330 T
1 T
6517331 TTGTTGCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.49
Consensus pattern (18 bp):
TATGATTTTCTATTGAGA
Found at i:6518238 original size:18 final size:18
Alignment explanation
Indices: 6518217--6518273 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
6518207 AGGCCATATA
*
6518217 CAGAAGAGGTTATCGTGG
1 CAGAGGAGGTTATCGTGG
*
6518235 CAGAGGTGGTTATCGTGG
1 CAGAGGAGGTTATCGTGG
*
6518253 TAGAGGAGG---TCGTGG
1 CAGAGGAGGTTATCGTGG
6518268 CAGAGG
1 CAGAGG
6518274 TAGAAGTGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 11 0.32
18 23 0.68
ACGTcount: A:0.23, C:0.11, G:0.46, T:0.21
Consensus pattern (18 bp):
CAGAGGAGGTTATCGTGG
Found at i:6521642 original size:18 final size:18
Alignment explanation
Indices: 6521621--6521675 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
6521611 CTGTTTTTGT
* *
6521621 TATGATTTTCTGTTGGGA
1 TATGATTTTCTATTGAGA
*
6521639 TATGATTTCCTATTGAGA
1 TATGATTTTCTATTGAGA
* *
6521657 TATGATTTTATATTAAGA
1 TATGATTTTCTATTGAGA
6521675 T
1 T
6521676 TTGTTGCTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.49
Consensus pattern (18 bp):
TATGATTTTCTATTGAGA
Found at i:6524954 original size:31 final size:30
Alignment explanation
Indices: 6524885--6524958 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
6524875 CTTGTATATA
6524885 AAAACTTTAATTTGGTGCAATTATACACAT
1 AAAACTTTAATTTGGTGCAATTATACACAT
* * *
6524915 AAAACTTTAATTGTGGTTCACA-TATATACTT
1 AAAACTTTAATT-TGGTGCA-ATTATACACAT
*
6524946 GAAACTTTAATTT
1 AAAACTTTAATTT
6524959 TAATTTAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 13 0.34
31 24 0.63
32 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (30 bp):
AAAACTTTAATTTGGTGCAATTATACACAT
Found at i:6540179 original size:45 final size:45
Alignment explanation
Indices: 6540092--6540280 Score: 177
Period size: 45 Copynumber: 4.2 Consensus size: 45
6540082 TCATAGATAC
* * * *
6540092 CAGATCTTGTCTCCCCGTACTGGTGGTGGAGTAGATCGAAGAAAG
1 CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGATCAAAGAAAG
*
6540137 CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGACCAAAGAAAG
1 CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGATCAAAGAAAG
* * * ** * * * *
6540182 TAGATATTGTCTTCATGTA-T--TGGCGTAAAGTAGATCAGAGATAC
1 CAGATCTTGTCTCCCCGTACTGGTGGCG--AAGCAGATCAAAGAAAG
* * * *
6540226 CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAG
1 CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGATCAAAGAAAG
6540271 CAGATCTTGT
1 CAGATCTTGT
6540281 TTTCATGTAC
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
42 5 0.04
44 26 0.23
45 77 0.69
47 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (45 bp):
CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGATCAAAGAAAG
Found at i:6540215 original size:89 final size:89
Alignment explanation
Indices: 6540121--6540289 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 89
6540111 CTGGTGGTGG
* * * * *
6540121 AGTAGATC-GAAGAAAGCAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGACCAAAGAAAGTAG
1 AGTAGATCAG-AGAAACCAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAG
6540185 ATATTGTCTTCATGTATTGGCGTAA
65 ATATTGTCTTCATGTATTGGCGTAA
* * *
6540210 AGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGCAGA
1 AGTAGATCAGAGAAACCAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAGA
* *
6540275 TCTTGTTTTCATGTA
66 TATTGTCTTCATGTA
6540290 CCGGCGTGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
89 68 0.99
90 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (89 bp):
AGTAGATCAGAGAAACCAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAGA
TATTGTCTTCATGTATTGGCGTAA
Found at i:6540296 original size:89 final size:89
Alignment explanation
Indices: 6540137--6540313 Score: 230
Period size: 89 Copynumber: 2.0 Consensus size: 89
6540127 TCGAAGAAAG
* * * * *
6540137 CAGATCTTGTCTCCCCGTACTGGTGGCGAAGCAGACCAAAGAAAGTAGATATTGTCTTCATGTAT
1 CAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAGATATTGTCTTCATGTAC
* * *
6540202 TGGCGT-AAAGTAGATCAGAGATAC
66 CGGCGTGAAA-CAGATCAAAGATAC
* * * *
6540226 CAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGTAC
1 CAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAGATATTGTCTTCATGTAC
6540291 CGGCGTGAAACAGATCAAAGATA
66 CGGCGTGAAACAGATCAAAGATA
6540314 GTAGGTCCTG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
89 72 0.96
90 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (89 bp):
CAGATCTTGCCTCCCCATACTGGTGGCAAAGCAGACCAAAGAAAGCAGATATTGTCTTCATGTAC
CGGCGTGAAACAGATCAAAGATAC
Found at i:6545461 original size:34 final size:34
Alignment explanation
Indices: 6545409--6545475 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
6545399 GCCAAGTAAC
* *
6545409 CTTCAAGAACCTGCTTCAAAAGTCGTATAGAAAG
1 CTTCAACAACCTGATTCAAAAGTCGTATAGAAAG
* *
6545443 CTTCAACAGCCTGATTCAAAAGTCGTATGGAAA
1 CTTCAACAACCTGATTCAAAAGTCGTATAGAAA
6545476 ACAAAATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (34 bp):
CTTCAACAACCTGATTCAAAAGTCGTATAGAAAG
Found at i:6563609 original size:18 final size:18
Alignment explanation
Indices: 6563585--6563634 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6563575 TTTTTGTTAA
6563585 AAATTAACCGAATTA-CC
1 AAATTAACCGAATTATCC
* * *
6563602 TGAATTAACTGGATTATCC
1 -AAATTAACCGAATTATCC
6563621 AAATTAACCGAATT
1 AAATTAACCGAATT
6563635 GAATAACTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (18 bp):
AAATTAACCGAATTATCC
Found at i:6563736 original size:18 final size:18
Alignment explanation
Indices: 6563713--6563759 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
6563703 AATTTTTATG
*
6563713 ATTGGGTTTGGTTGGGTA
1 ATTGGGTTTGGTTGGATA
*
6563731 ATTGGGTTGGGTTGGATA
1 ATTGGGTTTGGTTGGATA
*
6563749 CTTGGGTTTGG
1 ATTGGGTTTGG
6563760 ATTGTGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.11, C:0.02, G:0.45, T:0.43
Consensus pattern (18 bp):
ATTGGGTTTGGTTGGATA
Found at i:6564242 original size:14 final size:15
Alignment explanation
Indices: 6564217--6564247 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6564207 TAATATTTAG
6564217 ATTTTTGATTATTAA
1 ATTTTTGATTATTAA
6564232 ATTTTTG-TTATTAA
1 ATTTTTGATTATTAA
6564246 AT
1 AT
6564248 ATTCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTTTTGATTATTAA
Found at i:6567258 original size:96 final size:96
Alignment explanation
Indices: 6567147--6567341 Score: 363
Period size: 96 Copynumber: 2.0 Consensus size: 96
6567137 CTATCGCTAA
6567147 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
1 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
6567212 ACTATAATTACAAATAATCAAATCACATTCC
66 ACTATAATTACAAATAATCAAATCACATTCC
* *
6567243 ATTGGGTTTCTGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
1 ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
*
6567308 ACTATAATTACACATAATCAAATCACATTCC
66 ACTATAATTACAAATAATCAAATCACATTCC
6567339 ATT
1 ATT
6567342 TATAATAAAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (96 bp):
ATTGGGGTTCCGGAGTATTACGTTTACATTTTAAACATTTAACATTACTAACTCACAAATATTCA
ACTATAATTACAAATAATCAAATCACATTCC
Found at i:6568471 original size:36 final size:36
Alignment explanation
Indices: 6568431--6568537 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 36
6568421 GCACTAGTTT
* *
6568431 AATAAATCGATAAGGATTTGTGCCTAGTGCTCGTCG
1 AATAAATCGATAAAGATTTGTGCCCAGTGCTCGTCG
** *
6568467 AATAAATCGA-AGATATTGATTGTGTGCCCAGCACTGGTCG
1 AATAAATCGATA-A-A--GATT-TGTGCCCAGTGCTCGTCG
*
6568507 AATAAATCGACAAAGATTTGTGCCCAGTGCT
1 AATAAATCGATAAAGATTTGTGCCCAGTGCT
6568538 AGTAGGATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
35 1 0.02
36 22 0.38
37 4 0.07
39 5 0.09
40 25 0.43
41 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (36 bp):
AATAAATCGATAAAGATTTGTGCCCAGTGCTCGTCG
Found at i:6568548 original size:76 final size:75
Alignment explanation
Indices: 6568356--6568625 Score: 254
Period size: 76 Copynumber: 3.6 Consensus size: 75
6568346 AGTTAGTTGG
* * * * *
6568356 ATAAATCGACAAAGATTTGCACCCAATGCTAGTCA-GATTAACTGACGATATTAATTTTATGCCC
1 ATAAATCGACAAAGATTTGCACCCAGTGCTAGT-AGGATAAAC-GAAGATATTAATTGTGTGCCC
* **
6568420 TGCACTAGTTTA
64 AGCACTAGTCGA
* * ** * * * * *
6568432 ATAAATCGATAAGGATTTGTGCCTAGTGCTCGTCGAATAAATCGAAGATATTGATTGTGTGCCCA
1 ATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAA-CGAAGATATTAATTGTGTGCCCA
*
6568497 GCACTGGTCGA
65 GCACTAGTCGA
** * * *
6568508 ATAAATCGACAAAGATTTGTGCCCAGTGCTAGTAGGATAAACTAACGATATTAACTGTGTACCCA
1 ATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAACGAA-GATATTAATTGTGTGCCCA
*
6568573 TCACTAGTCGA
65 GCACTAGTCGA
* * *
6568584 ATAAACCGACAAAGATTTACATCCAGTGCTAGTAGGATAAAC
1 ATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAAC
6568626 TGATAATCAC
Statistics
Matches: 156, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
75 3 0.02
76 152 0.97
77 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (75 bp):
ATAAATCGACAAAGATTTGCACCCAGTGCTAGTAGGATAAACGAAGATATTAATTGTGTGCCCAG
CACTAGTCGA
Found at i:6569629 original size:21 final size:22
Alignment explanation
Indices: 6569595--6569638 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6569585 TTTATTTATA
*
6569595 ATAGTTTAATATAACATATATT
1 ATAGTTTAACATAACATATATT
*
6569617 ATAG-TTAACATAATATATATT
1 ATAGTTTAACATAACATATATT
6569638 A
1 A
6569639 CATACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
ATAGTTTAACATAACATATATT
Found at i:6572741 original size:15 final size:16
Alignment explanation
Indices: 6572710--6572742 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6572700 ATATCATTTT
*
6572710 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
6572726 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
6572741 AA
1 AA
6572743 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:6582112 original size:23 final size:22
Alignment explanation
Indices: 6582061--6582112 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
6582051 CCTCGTCTTT
*
6582061 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
6582083 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
6582106 TTCTTTT
1 TTCTTTT
6582113 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:6582121 original size:12 final size:12
Alignment explanation
Indices: 6582070--6582124 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
6582060 TTTCTTTTGT
6582070 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
6582083 -TCATTTTC-TC
1 TTCTTTTTCAAC
6582093 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
6582106 TTCTTTTTCAAT
1 TTCTTTTTCAAC
6582118 TTCTTTT
1 TTCTTTT
6582125 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:6582131 original size:17 final size:18
Alignment explanation
Indices: 6582106--6582143 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6582096 TTTCTTCAAC
* *
6582106 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
6582123 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
6582141 TTC
1 TTC
6582144 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:6584925 original size:144 final size:143
Alignment explanation
Indices: 6584665--6585084 Score: 565
Period size: 144 Copynumber: 2.9 Consensus size: 143
6584655 GACTCGTATC
* * * * * * *
6584665 ATCCAGTGTAACCAAATTCGTTAGCCTACCAATTTCTTGTGGAATAGATCCATTAAGTTGGTTAT
1 ATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGGTT-T
* ** *
6584730 GCTGAAGGAGCAACGACCCCAGATTGGTTACA-TTGTTGACAGAAGATGGGATTGGACCAACAAG
65 CCTGAAGGAGCAACGATGCAAGATTGGTTA-AGTTGTTGACAGAAGATGGGATTGGACCAACAAG
6584794 CATATTAAAAGATAG
129 CATATTAAAAGATAG
6584809 ATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGGTTTC
1 ATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGGTTTC
* * * *
6584874 CATAAAGAACCAACGATGCAAGATTGGTTAAGTTGTTGACAGAAGATGGGATTGGGCCAACAAGC
66 C-TGAAGGAGCAACGATGCAAGATTGGTTAAGTTGTTGACAGAAGATGGGATTGGACCAACAAGC
6584939 ATATTAAAAGATAG
130 ATATTAAAAGATAG
* * *
6584953 ATTCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTCGTGGAATGGATCCATTAAGTTGGTTGC
1 ATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGGTTTC
* * * * * *
6585018 CTTGAAGGAGCAACGACTG-TAGATTAGTCAGGTTGCTGATAGAAGATGGGATTGGACCAACAAG
66 C-TGAAGGAGCAACGA-TGCAAGATTGGTTAAGTTGTTGACAGAAGATGGGATTGGACCAACAAG
6585082 CAT
129 CAT
6585085 GTTGCTTGAG
Statistics
Matches: 244, Mismatches: 29, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
143 3 0.01
144 239 0.98
145 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (143 bp):
ATCCAATGTAATCAAATTTGTCAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGGTTTC
CTGAAGGAGCAACGATGCAAGATTGGTTAAGTTGTTGACAGAAGATGGGATTGGACCAACAAGCA
TATTAAAAGATAG
Found at i:6595371 original size:24 final size:23
Alignment explanation
Indices: 6595337--6595381 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
6595327 ATTAGTTCCT
*
6595337 TTTAATTATTTCTATATACTATTA
1 TTTAATGATTTCTAT-TACTATTA
*
6595361 TTTAATGATTTGTATTACTAT
1 TTTAATGATTTCTATTACTAT
6595382 ATAGTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTAATGATTTCTATTACTATTA
Found at i:6611166 original size:21 final size:21
Alignment explanation
Indices: 6611140--6611180 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6611130 ATCTGCTCAA
* *
6611140 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
6611161 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
6611181 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:6628774 original size:13 final size:13
Alignment explanation
Indices: 6628756--6628813 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
6628746 AACCCAAATT
6628756 TTATTTTTATTTA
1 TTATTTTTATTTA
*
6628769 TTATTTTTCTTTA
1 TTATTTTTATTTA
6628782 CTTTATTTATTACTTTA
1 --TTATTT-TTA-TTTA
*
6628799 TT-TTATTATTTA
1 TTATTTTTATTTA
6628811 TTA
1 TTA
6628814 CTTATTTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.16
13 15 0.41
14 2 0.05
15 8 0.22
16 2 0.05
17 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:6628786 original size:22 final size:21
Alignment explanation
Indices: 6628761--6628820 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
6628751 AAATTTTATT
*
6628761 TTTATTTATTA-TTTTTCTTTA
1 TTTATTTATTACTTTAT-TTTA
6628782 CTTTATTTATTACTTTATTTTA
1 -TTTATTTATTACTTTATTTTA
6628804 -TTATTTATTAC-TTATTT
1 TTTATTTATTACTTTATTT
6628821 GGATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
22 15 0.42
23 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTTATTACTTTATTTTA
Found at i:6628794 original size:12 final size:11
Alignment explanation
Indices: 6628755--6628812 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
6628745 CAACCCAAAT
6628755 TTTATT-TTTA
1 TTTATTATTTA
6628765 TTTATTATTT-
1 TTTATTATTTA
6628775 TTCT-TTACTTTA
1 TT-TATTA-TTTA
6628787 TTTATTACTTTA
1 TTTATTA-TTTA
6628799 TTTTATTATTTA
1 -TTTATTATTTA
6628811 TT
1 TT
6628813 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 11 0.26
11 10 0.24
12 14 0.33
13 7 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:6628800 original size:8 final size:7
Alignment explanation
Indices: 6628756--6628819 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
6628746 AACCCAAATT
6628756 TTATTT-
1 TTATTTA
6628762 TTATTTA
1 TTATTTA
6628769 TTATTT-
1 TTATTTA
*
6628775 TTCTTTA
1 TTATTTA
6628782 CTTTATTTA
1 --TTATTTA
6628791 TTACTTTA
1 TTA-TTTA
6628799 -T-TTTA
1 TTATTTA
6628804 TTATTTA
1 TTATTTA
*
6628811 TTACTTA
1 TTATTTA
6628818 TT
1 TT
6628820 TGGATATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.08
6 12 0.25
7 22 0.46
8 4 0.08
9 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:6642057 original size:18 final size:19
Alignment explanation
Indices: 6642015--6642059 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
6642005 GCACGACCGG
*
6642015 CGAACTCCCTAAATTTGGT
1 CGAACTCTCTAAATTTGGT
*
6642034 -GTACTCTCTAAATTT-GT
1 CGAACTCTCTAAATTTGGT
6642051 CGAACTCTC
1 CGAACTCTC
6642060 CAGGAATGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (19 bp):
CGAACTCTCTAAATTTGGT
Found at i:6645726 original size:30 final size:27
Alignment explanation
Indices: 6645684--6645757 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
6645674 TTTTTGATGC
*
6645684 ATTTTATAATTTTTAAGAAATTTTACAAT
1 ATTTTTTAATTTTTAAGAAA-TTTA-AAT
* *
6645713 TTTTTTCTAATTTTTAATAAATTTAAAT
1 ATTTTT-TAATTTTTAAGAAATTTAAAT
6645741 ATTTTTTATATTTTTAA
1 ATTTTTTA-ATTTTTAA
6645758 ATAGGGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 2 0.05
28 16 0.41
29 8 0.21
30 13 0.33
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
ATTTTTTAATTTTTAAGAAATTTAAAT
Found at i:6645744 original size:19 final size:19
Alignment explanation
Indices: 6645722--6645760 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6645712 TTTTTTTCTA
6645722 ATTTTTAATAAATTTAAAT
1 ATTTTTAATAAATTTAAAT
* **
6645741 ATTTTTTATATTTTTAAAT
1 ATTTTTAATAAATTTAAAT
6645760 A
1 A
6645761 GGGTTATTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTAATAAATTTAAAT
Found at i:6649811 original size:17 final size:17
Alignment explanation
Indices: 6649789--6649830 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6649779 CCAAAAATGT
6649789 AAGCCAAAGTGACGAAC
1 AAGCCAAAGTGACGAAC
*
6649806 AAGCCAAAGTGGCGAAC
1 AAGCCAAAGTGACGAAC
*
6649823 AAACCAAA
1 AAGCCAAA
6649831 AGTGTAAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (17 bp):
AAGCCAAAGTGACGAAC
Found at i:6653480 original size:72 final size:72
Alignment explanation
Indices: 6652949--6653462 Score: 598
Period size: 72 Copynumber: 7.2 Consensus size: 72
6652939 TTGCCTAAGG
* *
6652949 TAGGAGGGATAGGACCACGAATTAGGTTATTGGATATGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGG-GGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
6653014 CCCCAGTC
65 CCCCAGTC
* * * * *
6653022 TAGGGGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AAGTT
1 TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTC-AAACT-CTTCATGTT
* ** *
6653085 GCCTAAG-G
64 CCCCCAGTC
*
6653093 TAGGAGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCC
1 TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCC
6653158 CCCAGTC
66 CCCAGTC
* * * * *
6653165 TA-GGGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AAGTT
1 TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTC-AAACT-CTTCATGTT
* ** *
6653227 GCCTAAG-G
64 CCCCCAGTC
6653235 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGG-GGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
*
6653300 CCCCAATC
65 CCCCAGTC
* * * * *
6653308 TAGGGGGATAGGACCACGAATTTGGTTATTGGAGAAGTCCAACTG-TTCTAAATTGGTT-AAGTT
1 TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTC-AAACT-CTTCATGTT
* ** *
6653371 GCCTAAG-G
64 CCCCCAGTC
6653379 TAGGAGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
1 TAGG-GGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTC
6653444 CCCCAGTC
65 CCCCAGTC
6653452 TAGGGGGATAG
1 TAGGGGGATAG
6653463 AACCGTAAAT
Statistics
Matches: 364, Mismatches: 59, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
70 7 0.02
71 120 0.33
72 215 0.59
73 22 0.06
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (72 bp):
TAGGGGGATAGGACCACGAATTTGGTTATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCC
CCCAGTC
Found at i:6653529 original size:144 final size:144
Alignment explanation
Indices: 6652912--6653462 Score: 1061
Period size: 144 Copynumber: 3.8 Consensus size: 144
6652902 ATTAAAGGAT
*
6652912 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTAGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
*
6652977 ATTGGATATGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
6653042 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
6653056 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGA-GGATAGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
6653120 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTA-GGGGATAGGACCACGAA
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
6653184 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
6653198 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
*
6653263 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAATCTAGGGGGATAGGACCACGAA
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
6653328 TTTGGTTATTGGAG
131 TTTGGTTATTGGAG
6653342 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
1 AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
6653407 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAG
66 ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAG
6653463 AACCGTAAAT
Statistics
Matches: 401, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
142 73 0.18
143 135 0.34
144 193 0.48
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (144 bp):
AAGTCCAACTGTTCTAAATTGGTTAAGTTGCCTAAGGTAGGAGGGATAGGACCACGAATTTGGTT
ATTGGATAGGTCCAACTGTTTCAAACTCTTCATGTTCCCCCAGTCTAGGGGGATAGGACCACGAA
TTTGGTTATTGGAG
Found at i:6654265 original size:14 final size:15
Alignment explanation
Indices: 6654238--6654268 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6654228 GAGTTTTCAT
*
6654238 TTTTTTATTAAAAAA
1 TTTTCTATTAAAAAA
6654253 TTTTCTATTAAAAAA
1 TTTTCTATTAAAAAA
6654268 T
1 T
6654269 AAAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTCTATTAAAAAA
Found at i:6655779 original size:22 final size:21
Alignment explanation
Indices: 6655735--6655777 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
6655725 CAAGGTAAAA
6655735 ATTAATTTACAATTAAATTTT
1 ATTAATTTACAATTAAATTTT
6655756 ATTAATTATACAAATTAAATTT
1 ATTAATT-TAC-AATTAAATTT
6655778 ATGATAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATTTACAATTAAATTTT
Found at i:6664675 original size:20 final size:18
Alignment explanation
Indices: 6664646--6664692 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
6664636 TCTAAAATTT
6664646 ATTA-AAAATTAGAAACAAA
1 ATTATAAAATT-GAAA-AAA
*
6664665 ATTATAAAATTGTAAAAA
1 ATTATAAAATTGAAAAAA
6664683 ATATATAAAA
1 AT-TATAAAA
6664693 AATAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 14 0.56
20 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTATAAAATTGAAAAAA
Found at i:6664693 original size:20 final size:21
Alignment explanation
Indices: 6664639--6664693 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 21
6664629 AGAAACATCT
6664639 AAAATTTATTAAAAATTAGAAAC
1 AAAA-TTA-TAAAAATTAGAAAC
*
6664662 AAAATTAT-AAAATT-GTAA-
1 AAAATTATAAAAATTAGAAAC
6664680 AAAATATATAAAAA
1 AAAAT-TATAAAAA
6664694 ATAAAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.17
19 6 0.21
20 10 0.34
21 1 0.03
22 3 0.10
23 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAAATTAGAAAC
Found at i:6664792 original size:30 final size:29
Alignment explanation
Indices: 6664752--6664826 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
6664742 TTTTGATGCA
*
6664752 TTTTATAATTTTTAAAAAAATTTACAATTT
1 TTTTATAATTTTTAAAAAAATTTA-AATAT
* *
6664782 TTTTCTAATTTTT-AATAAATTTAAATAT
1 TTTTATAATTTTTAAAAAAATTTAAATAT
6664810 TTTTAT-ATTTTTAAAAA
1 TTTTATAATTTTTAAAAA
6664827 TGTTATTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 6 0.15
28 12 0.31
29 9 0.23
30 12 0.31
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTATAATTTTTAAAAAAATTTAAATAT
Found at i:6668863 original size:17 final size:17
Alignment explanation
Indices: 6668841--6668873 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6668831 CCAAAAATGT
6668841 AAGCCAAAGTGACGAAC
1 AAGCCAAAGTGACGAAC
*
6668858 AAGCCAAAGTGGCGAA
1 AAGCCAAAGTGACGAA
6668874 TAAACCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.27, T:0.06
Consensus pattern (17 bp):
AAGCCAAAGTGACGAAC
Found at i:6668881 original size:17 final size:17
Alignment explanation
Indices: 6668844--6668882 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6668834 AAAATGTAAG
*
6668844 CCAAAGTGACGAACAAG
1 CCAAAGTGACGAACAAA
* *
6668861 CCAAAGTGGCGAATAAA
1 CCAAAGTGACGAACAAA
6668878 CCAAA
1 CCAAA
6668883 AGTGTAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (17 bp):
CCAAAGTGACGAACAAA
Found at i:6670613 original size:41 final size:41
Alignment explanation
Indices: 6670552--6670631 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
6670542 AAAAAATGCG
*
6670552 AAAATAAATTACATTGGATACGCAAGCGAAATAATAAATAC
1 AAAAAAAATTACATTGGATACGCAAGCGAAATAATAAATAC
6670593 AAAAAAAATTACATTGGATACGCAAGCGAAATAATAAAT
1 AAAAAAAATTACATTGGATACGCAAGCGAAATAATAAAT
6670632 GCGATAGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.21
Consensus pattern (41 bp):
AAAAAAAATTACATTGGATACGCAAGCGAAATAATAAATAC
Found at i:6670624 original size:23 final size:23
Alignment explanation
Indices: 6670557--6670624 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
6670547 ATGCGAAAAT
6670557 AAATTACATTGGATACGCAAGCG
1 AAATTACATTGGATACGCAAGCG
** ***
6670580 AAA-TA-A-TAAATA--CAAAAA
1 AAATTACATTGGATACGCAAGCG
6670598 AAATTACATTGGATACGCAAGCG
1 AAATTACATTGGATACGCAAGCG
6670621 AAAT
1 AAAT
6670625 AATAAATGCG
Statistics
Matches: 30, Mismatches: 10, Indels: 10
0.60 0.20 0.20
Matches are distributed among these distances:
18 6 0.20
19 2 0.07
20 5 0.17
21 5 0.17
22 2 0.07
23 10 0.33
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (23 bp):
AAATTACATTGGATACGCAAGCG
Found at i:6671091 original size:34 final size:36
Alignment explanation
Indices: 6671027--6671093 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
6671017 ATGCATGCAC
6671027 ATATATATATAGTTTATACAATATAGGTATGTATAT
1 ATATATATATAGTTTATACAATATAGGTATGTATAT
* *
6671063 ATATATGTATATGTTT-TA-AA-ATATGTATGTA
1 ATATATATATA-GTTTATACAATATAGGTATGTA
6671094 AAAACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 10 0.36
35 2 0.07
36 12 0.43
37 4 0.14
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.46
Consensus pattern (36 bp):
ATATATATATAGTTTATACAATATAGGTATGTATAT
Found at i:6671219 original size:22 final size:21
Alignment explanation
Indices: 6671182--6671222 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
6671172 AATATCAATA
6671182 ATAATATAATAATAATATTGT
1 ATAATATAATAATAATATTGT
*
6671203 ATAATGATATTAATAATATT
1 ATAAT-ATAATAATAATATT
6671223 AAAACAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAATATAATAATAATATTGT
Found at i:6674080 original size:3 final size:3
Alignment explanation
Indices: 6674072--6674105 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6674062 TTTAGCAACT
*
6674072 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6674106 CGTTACTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6674422 original size:44 final size:45
Alignment explanation
Indices: 6674327--6674422 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 45
6674317 ATATATATTT
* * * *
6674327 TGTATATATATTCTTTATATTTTATGATTCCTATATATGTACCTA
1 TGTATATATACTCTTTATATTTTATGATACCTATATACGTACATA
** ** *
6674372 AATATATATACT-TTTATATTTTATGATAGTTATATACGTATATA
1 TGTATATATACTCTTTATATTTTATGATACCTATATACGTACATA
6674416 TGTATAT
1 TGTATAT
6674423 GCTTACTTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
44 31 0.77
45 9 0.22
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (45 bp):
TGTATATATACTCTTTATATTTTATGATACCTATATACGTACATA
Found at i:6686870 original size:44 final size:43
Alignment explanation
Indices: 6686808--6687360 Score: 184
Period size: 44 Copynumber: 12.7 Consensus size: 43
6686798 AGAATTTTAG
6686808 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-TAGTA
* ** * * * *
6686852 ATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GTAGTA
* * * * * * * *
6686896 ATCTTATCTCTCTGA-AGTTACAACAGAGTAGATCG-CGTCG-G
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGTAGTA
* * * * ** **
6686937 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG--TAGTA
6686982 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-TAGTA
* ** * * * *
6687027 ATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAATGACG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGT-A-GTA
* * ** * * *
6687071 ATCTTATCTCTCTGA-AGTTATAGCATAGTAGATCG-CGTCAG--
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGT-AGTA
* * * * * * *
6687112 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG--TAG-TA
* * * * *
6687158 ATCCTATCTCCCTGAGATTACAGAGGAGCGGATTAGAATGAAG-G
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GTAGTA
* * * * *
6687202 ATCTTATCTCTCTGA-ATTTACAGCAGAGTAGATCG-CGTCAG--
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGT-AGTA
* * * * * ** * *
6687243 GTCTTATTTCCATGAGATTACAGTGGAACAGACCGAAGAATTTCA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTA-GT-A
*
6687288 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
1 -ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-TAGTA
*
6687333 AT-TCTATCTCCCTGACG-TTACAGTGGAG
1 ATCT-TATCTCCCTGA-GATTACAGCGGAG
6687361 TGGACTTAAA
Statistics
Matches: 361, Mismatches: 115, Indels: 66
0.67 0.21 0.12
Matches are distributed among these distances:
41 75 0.21
42 9 0.02
43 9 0.02
44 160 0.44
45 10 0.03
46 93 0.26
47 4 0.01
48 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTAGTA
Found at i:6686995 original size:46 final size:44
Alignment explanation
Indices: 6686938--6687053 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 44
6686928 TCGCGTCGGG
* **
6686938 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-ATAGTA-A
* * ** *
6686984 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAA
* *
6687028 TCCTATCTCCCTGAGATTACAATGGA
1 TCTTATCTCCCTGAGATTACAGTGGA
6687054 GCGGATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 24 0.41
45 3 0.05
46 32 0.54
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAA
Found at i:6687052 original size:175 final size:175
Alignment explanation
Indices: 6686759--6687191 Score: 749
Period size: 175 Copynumber: 2.5 Consensus size: 175
6686749 GTTCATTATA
*
6686759 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAAACCGAAGAATTTTAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAG
6686824 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
6686889 ATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
*
6686934 CGGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAG
6686999 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
* * * *
6687064 ATGACGGATCTTATCTCTCTGAAGTTATAGCATAGTAGATCGCGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
* ** * *
6687109 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAG
* *
6687174 ATTACAGAGGAGCGGATT
66 ATTACAGCGGAGCAGATT
6687192 AGAATGAAGG
Statistics
Matches: 244, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 244 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (175 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTTAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAA
ATGAAGGATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCGT
Found at i:6687176 original size:131 final size:131
Alignment explanation
Indices: 6686984--6687322 Score: 477
Period size: 131 Copynumber: 2.6 Consensus size: 131
6686974 GAATTTTAGA
* * * * * * *
6686984 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAG-TAATCCTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAGATTA
* * *
6687047 CA-ATGGAGCGGATTAAAATGACGGATCTTATCTCTCTGAAGTTATAGCATAGTAGATCGCGTCA
66 CAGA-GGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCA
6687111 GG
130 GG
6687113 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAGATTA
* *
6687178 CAGAGGAGCGGATTAGAATGAAGGATCTTATCTCTCTGAATTTACAGCAGAGTAGATCGCGTCAG
66 CAGAGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
6687243 G
131 G
* * * * *
6687244 TCTTATTTCCATGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAGATTA
* *
6687309 CAGCGGAGCAGATT
66 CAGAGGAGCGGATT
6687323 GAAGCCAGTA
Statistics
Matches: 188, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
129 33 0.18
130 2 0.01
131 152 0.81
132 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (131 bp):
TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTGCAAATCCTATCTCCCTGAGATTA
CAGAGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
G
Found at i:6688896 original size:3 final size:3
Alignment explanation
Indices: 6688888--6688925 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6688878 TTTAGCAACT
*
6688888 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6688926 GTTACTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6694472 original size:29 final size:30
Alignment explanation
Indices: 6694440--6694498 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
6694430 TCACCTGTAT
*
6694440 AATT-ATATCAAATTAAAATTCATATATAC
1 AATTAATATCAAATCAAAATTCATATATAC
*
6694469 AATTACATATTAAATCAAAATTCATATATA
1 AATTA-ATATCAAATCAAAATTCATATATA
6694499 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
31 22 0.85
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (30 bp):
AATTAATATCAAATCAAAATTCATATATAC
Found at i:6696310 original size:12 final size:12
Alignment explanation
Indices: 6696293--6696317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6696283 TAAGTGTTTG
6696293 TCAACTTTGCAT
1 TCAACTTTGCAT
6696305 TCAACTTTGCAT
1 TCAACTTTGCAT
6696317 T
1 T
6696318 AACGGTCATC
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:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TCAACTTTGCAT
Found at i:6699514 original size:20 final size:18
Alignment explanation
Indices: 6699489--6699528 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
6699479 ATGAAATGAA
6699489 ATATTTAATATAAATAATAT
1 ATATTT-ATAT-AATAATAT
6699509 ATATTTATATAATAATAT
1 ATATTTATATAATAATAT
6699527 AT
1 AT
6699529 GTAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTATATAATAATAT
Found at i:6704713 original size:9 final size:9
Alignment explanation
Indices: 6704680--6704705 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6704670 GTTTTTGAAT
6704680 TCGAATAAC
1 TCGAATAAC
6704689 TCGAATAAC
1 TCGAATAAC
6704698 TCGAATAA
1 TCGAATAA
6704706 TTCAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6706127 original size:19 final size:20
Alignment explanation
Indices: 6706103--6706141 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6706093 AACTTTTTTC
6706103 CTTTTACTT-TCCCTAAAAA
1 CTTTTACTTATCCCTAAAAA
6706122 CTTTTACTTATCCCTAAAAA
1 CTTTTACTTATCCCTAAAAA
6706142 ATACTTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTTTACTTATCCCTAAAAA
Found at i:6706292 original size:17 final size:18
Alignment explanation
Indices: 6706270--6706310 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6706260 TTATCTCTAC
6706270 TATTTATAT-TGTTGAAT
1 TATTTATATATGTTGAAT
6706287 TATTTA-ATCATGTTGAAT
1 TATTTATAT-ATGTTGAAT
6706305 T-TTTAT
1 TATTTAT
6706311 CAATTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (18 bp):
TATTTATATATGTTGAAT
Found at i:6706450 original size:16 final size:16
Alignment explanation
Indices: 6706414--6706447 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6706404 TTTATTAAAA
6706414 ATTT-ATATTTTTTAT
1 ATTTAATATTTTTTAT
6706429 ATTTAATATTTTTTA-
1 ATTTAATATTTTTTAT
6706444 ATTT
1 ATTT
6706448 TAAAATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTAATATTTTTTAT
Found at i:6710492 original size:24 final size:22
Alignment explanation
Indices: 6710465--6710508 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
6710455 ATTTTTTTCG
6710465 TTATTATTGTTATCGTATTATATA
1 TTATTATT-TT-TCGTATTATATA
*
6710489 TTATTATTTTTGGTATTATA
1 TTATTATTTTTCGTATTATA
6710509 GATTGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (22 bp):
TTATTATTTTTCGTATTATATA
Found at i:6713503 original size:86 final size:86
Alignment explanation
Indices: 6713330--6713796 Score: 447
Period size: 86 Copynumber: 5.4 Consensus size: 86
6713320 TTTTTACAAT
* * * **
6713330 AAACACCGCTATAGACAATGGTCTTTAGCGGCGCTTATAAAT-AAACGCCGCTATAGACCGACAT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACCGACAT
* *
6713394 CTTTCGCGGCGCTTCTGCTTC
66 CTTTAGCGGCGCTTCTGCATC
* * * *
6713415 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCAGAAAATGCCGTTATAGACCGACAT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACCGACAT
*
6713480 CTTTAGCGGTGCTTCTGCATC
66 CTTTAGCGGCGCTTCTGCATC
* * * * *
6713501 AAACGCCGCTATAGACCATGGTCTTTGGTGGCGCTTTTGCATCAAACGCCGCTATAGACCGTCAT
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACCGACAT
* * * *
6713566 TTTTCGCGGCACTTTTGCATC
66 CTTTAGCGGCGCTTCTGCATC
* * *** * *
6713587 AAAACGCTGCTATAGACCGTGGTCTTTAGCGGCGCTCACCCATCAAACGCCGCTATAGACC-ATG
1 -AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACCGA-C
* *** * *
6713651 TTCTTTAGCGGCGCTTAACCTTA
64 ATCTTTAGCGGCGCTTCTGCATC
* * *
6713674 AAACGCCGCTATAAACC-TGGTTCTTTAGCGGCGCTTTTCCATAAAACGTCGCTATAGACCTG-G
1 AAACGCCGCTATAGACCATGG-TCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACC-GAC
* * * * * *
6713737 TTCGTTAGCGGAGCTTTTCCATA
64 ATCTTTAGCGGCGCTTCTGCATC
* **
6713760 AAACGCCGCTATAGACCTTATTCTTTTAGCGGCGCTT
1 AAACGCCGCTATAGACCATGGTC-TTTAGCGGCGCTT
6713797 AAAAAAAACG
Statistics
Matches: 317, Mismatches: 57, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
85 39 0.12
86 198 0.62
87 80 0.25
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTCCATAAAACGCCGCTATAGACCGACAT
CTTTAGCGGCGCTTCTGCATC
Found at i:6713777 original size:43 final size:44
Alignment explanation
Indices: 6713330--6713839 Score: 390
Period size: 43 Copynumber: 11.9 Consensus size: 44
6713320 TTTTTACAAT
* * * **
6713330 AAACACCGCTATAGACAATGG-TCTTTAGCGGCGCTTATAAAT-
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
** * * * * *
6713372 AAACGCCGCTATAGACC--GACATCTTTCGCGGCGCTTCTGCTTC
1 AAACGCCGCTATAGACCATG-GTTCTTTAGCGGCGCTTTTCCATA
* *
6713415 AAACGCCGCTATAGACCATGG-TCTTTAGCGGCGCTTTTGCAGA
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
* * ** * * * *
6713458 AAATGCCGTTATAGACC--GACATCTTTAGCGGTGCTTCTGCATC
1 AAACGCCGCTATAGACCATG-GTTCTTTAGCGGCGCTTTTCCATA
* * * *
6713501 AAACGCCGCTATAGACCATGG-TCTTTGGTGGCGCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
* ** * * *
6713544 AAACGCCGCTATAGACCGTCATT-TTTCGCGGCACTTTTGCATCA
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCAT-A
* * *** *
6713588 AAACGCTGCTATAGACCGTGG-TCTTTAGCGGCGCTCACCCATC
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
** *
6713631 AAACGCCGCTATAGACCAT-GTTCTTTAGCGGCGCTTAACCTTA
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
*
6713674 AAACGCCGCTATAAACC-TGGTTCTTTAGCGGCGCTTTTCCATA
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
* * *
6713717 AAACGTCGCTATAGACC-TGGTTCGTTAGCGGAGCTTTTCCATA
1 AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
** ** *
6713760 AAACGCCGCTATAGACC-TTATTCTTTTAGCGGCGC--TTAAAAA
1 AAACGCCGCTATAGACCATGGTTC-TTTAGCGGCGCTTTTCCATA
*
6713802 AAACGCCGCTATA-CCTCATGGTT-TTTAGCGGCGCTTTT
1 AAACGCCGCTATAGAC-CATGGTTCTTTAGCGGCGCTTTT
6713840 ATAAAAACGC
Statistics
Matches: 379, Mismatches: 70, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.00
41 13 0.03
42 51 0.13
43 271 0.72
44 41 0.11
45 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (44 bp):
AAACGCCGCTATAGACCATGGTTCTTTAGCGGCGCTTTTCCATA
Found at i:6713940 original size:14 final size:14
Alignment explanation
Indices: 6713923--6713952 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6713913 AATCAGAAGA
6713923 AACCAAATCTAACC
1 AACCAAATCTAACC
6713937 AACCAAATCTAACC
1 AACCAAATCTAACC
6713951 AA
1 AA
6713953 ATCTATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (14 bp):
AACCAAATCTAACC
Found at i:6714207 original size:21 final size:21
Alignment explanation
Indices: 6714159--6714207 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6714149 TTAAGTTGTT
* *
6714159 CTGCTTCCCTCGTTGCAGCCT
1 CTGCTTCCCTCGCTGCAGCCG
*
6714180 CTACTTCCCTCGCTGCAGCCG
1 CTGCTTCCCTCGCTGCAGCCG
6714201 CTGCTTC
1 CTGCTTC
6714208 TCTCACTGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.45, G:0.18, T:0.31
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGCCG
Found at i:6714293 original size:21 final size:21
Alignment explanation
Indices: 6714264--6714314 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
6714254 TTTCGTTGAA
* *
6714264 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCCG
6714285 CCTCTGCTTCTCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCCG
*
6714306 CATCTGCTT
1 CCTCTGCTT
6714315 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCCG
Found at i:6714308 original size:87 final size:87
Alignment explanation
Indices: 6714183--6714380 Score: 256
Period size: 87 Copynumber: 2.3 Consensus size: 87
6714173 GCAGCCTCTA
* * * * * *
6714183 CTTCCCTCGCTGCAGCCGCTGCTTCTCTCACTGTCGCATCTTCTTTAAGCTGCT-GCTGGAGTTG
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTC
6714247 TTCATA-CTTTCGTTGAACCTCAG
65 TTCATATCTTT-GTTGAACCTCAG
* *
6714270 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCT
1 CTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
*
6714335 TCATATCTTTTTTGAACCTCAG
66 TCATATCTTTGTTGAACCTCAG
* * *
6714357 CTTCTCTCGATGTTGCCTCCGCTT
1 CTTCTCTCGCTGCTGCCTCTGCTT
6714381 TAAGTTGTGT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
86 1 0.01
87 92 0.95
88 4 0.04
ACGTcount: A:0.11, C:0.32, G:0.19, T:0.38
Consensus pattern (87 bp):
CTTCTCTCGCTGCTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCT
TCATATCTTTGTTGAACCTCAG
Found at i:6720406 original size:27 final size:27
Alignment explanation
Indices: 6720391--6720446 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
6720381 ATAATGTAAT
*
6720391 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
*
6720418 TTTTAAAAATTGTTAATACAATTAAAA
1 TTTTAAAAATTGTTAAAACAATTAAAA
6720445 TT
1 TT
6720447 ATCTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTTAAAAATTGTTAAAACAATTAAAA
Found at i:6720859 original size:17 final size:17
Alignment explanation
Indices: 6720835--6720937 Score: 72
Period size: 19 Copynumber: 6.1 Consensus size: 17
6720825 GAAAAATCAG
*
6720835 AAAA-ATTATAAAAGTA
1 AAAATATTATAAAATTA
*
6720851 AAAATA-T-TAATATTA
1 AAAATATTATAAAATTA
*
6720866 AAAATGA-TATAAACTTA
1 AAAAT-ATTATAAAATTA
*
6720883 AAAAAATTATAAAAACTTA
1 AAAATATTAT-AAAA-TTA
*
6720902 TAAATATTATAAAAATCTA
1 AAAATATTAT-AAAAT-TA
*
6720921 ATAA-ATTATAAAATTA
1 AAAATATTATAAAATTA
6720937 A
1 A
6720938 CAAACCTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
15 11 0.16
16 11 0.16
17 19 0.27
18 9 0.13
19 20 0.29
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATTATAAAATTA
Found at i:6720911 original size:9 final size:9
Alignment explanation
Indices: 6720864--6720933 Score: 61
Period size: 9 Copynumber: 7.6 Consensus size: 9
6720854 ATATTAATAT
*
6720864 TAAAAATGA
1 TAAAAATTA
*
6720873 TATAAACTTA
1 TA-AAAATTA
*
6720883 AAAAAATTA
1 TAAAAATTA
6720892 TAAAAACTTA
1 TAAAAA-TTA
*
6720902 TAAATATTA
1 TAAAAATTA
6720911 TAAAAATCTA
1 TAAAAAT-TA
*
6720921 -ATAAATTA
1 TAAAAATTA
6720929 TAAAA
1 TAAAA
6720934 TTAACAAACC
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 2 0.04
9 30 0.62
10 16 0.33
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6721743 original size:16 final size:16
Alignment explanation
Indices: 6721722--6721752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6721712 GTAAATGGAG
6721722 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
6721738 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
6721753 GAGGAAAAAT
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:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:6722542 original size:23 final size:23
Alignment explanation
Indices: 6722499--6722543 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6722489 TGGTTTTGTA
*
6722499 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
6722522 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
6722544 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:6723692 original size:786 final size:778
Alignment explanation
Indices: 6722166--6723749 Score: 2586
Period size: 786 Copynumber: 2.0 Consensus size: 778
6722156 AATAAACGCC
*
6722166 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTATGTTTTCAATTTATTTTATTT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTATGTTTTCAATTTATTTTATTT
*
6722231 GTCTTTATTTATAAGTTTAATGATTTTTAATAGATTTTTTTTTATAATTGTTATGACATTATTTT
66 GTCTTTATTTATAAGTCTAATGATTTTTAATAGATTTTTTTTTATAATTGTTATGACATTATTTT
* *
6722296 AAATTGATACATTAATATGCATTTATAAAATTATTTCAATTTTATGCAGTACTATATATATATAA
131 AAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAG------ATATATATAA
6722361 TATATAACATATATATATGCATAGATATATATCGTGGCATATATTATATATAACCCTGTCACTTA
190 TATATAACATATATATATGC------A-ATATCGTGGCATATATTATATATAACCCTGTCACTTA
6722426 TAATCCTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTTG
248 TAATCCTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTTG
*
6722491 GTTTTGTACCCTAAAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTA
313 CTTTTGTACCCTAAAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTA
* *
6722556 AACCCTAGCTAACTCGTATTCTTCATGCAAATCCAAACGCAAAAACCAAGCATTGTAACATTCAA
378 AACCCTAGCTAACTCATATTCTTCATGCAAATCCAAACACAAAAACCAAGCATTGTAACATTCAA
* * * * *
6722621 ATCAATAAGTGTGAACCATAAACCATAAACATCAAGCCGTAAAATAGTAAATTTTATCATTACAT
443 ATCAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACAT
6722686 CTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCA
508 CTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAA--CC--TCCTCA
6722751 AGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGT
569 AGCCGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGT
* *
6722816 ATCAAACCCTACAACCCCAAACCGTATGCAACAAAACTTAAATATTAATCCCAAAACCCTAAAAT
634 ATCAAACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAAT
* * *
6722881 ACATAACTTTCATTTGCGGCGTTTTTAC-AAAAACGCTACTAATACCAATAAACAGTATAAAAAC
699 ACATAACTTTCATTTACGACGTTTTTACAAAAAACGCCACTAATACCAATAAACAGTATAAAAAC
6722945 GAAGTCGTTTCGGTT
764 GAAGTCGTTTCGGTT
6722960 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAAT-TTTTCAATTTATTTTATT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCT-ATGTTTTCAATTTATTTTATT
*
6723024 TGTCTTTATTTATAAGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTA
65 TGTCTTTATTTATAAGTCTAATGATTTTTAATAGA-TTTTT-TTTT-ATAATTGTTATGACATTA
*
6723089 TTTTAAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAG-TATGTATAATA
127 TTTTAAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAGATATATATAATA
*
6723153 TATAACATATATATATGC-ATATCGTGGCATATTTTATATATATATAACCCTGTCTCTTATAATC
192 TATAACATATATATATGCAATATCGTGGCATA---TAT-TATATATAACCCTGTCACTTATAATC
6723217 CTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTAATTTTTTTTGCT
253 CTATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAA-TTT--TTTTTTTTGCT
*
6723282 TTTGTACCCTAAAACTCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAA
315 TTTGTACCCTAAAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAA
* *
6723347 CCCTAGCTACCTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAAT
380 CCCTAGCTAACTCATATTCTTCATGCAAATCCAAACACAAAAACCAAGCATTGTAACATTCAAAT
*
6723412 CAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTAATATA
445 CAATAAGGGTAAACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCA-T--TACA
*
6723477 TCTTATAAGCCGTAAACCTCGTATTAAAACTAACATGTAAACTCAAACCCTAAA-C-CCTCAAGC
507 TCTTATAAGCCGTAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCTCCTCAAGC
*
6723540 CGTAAACCTAAACCCAAAACCCTAAACATAAAATTGTAATCCTAAATTAATAAACATTATGTATC
572 CGTAAACCTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATC
* *
6723605 GAACCCTAAAACCCCAAACTGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACA
637 AAACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACA
*
6723670 TAACTTTCATTTACGACGTTTTTACAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAA
702 TAACTTTCATTTACGACGTTTTTACAAAAAACGCCACTAATACCAATAAACAGTATAAAAACGAA
6723735 GTCGTTTCGGTT
767 GTCGTTTCGGTT
6723747 ACA
1 ACA
6723750 CATTTTGCGG
Statistics
Matches: 746, Mismatches: 29, Indels: 37
0.92 0.04 0.05
Matches are distributed among these distances:
782 13 0.02
785 3 0.00
786 229 0.31
787 55 0.07
789 188 0.25
790 29 0.04
792 56 0.08
794 93 0.12
795 7 0.01
796 4 0.01
797 69 0.09
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (778 bp):
ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTATGTTTTCAATTTATTTTATTT
GTCTTTATTTATAAGTCTAATGATTTTTAATAGATTTTTTTTTATAATTGTTATGACATTATTTT
AAATTGATACATCAATATGAATTTATAAAATTATTTCAATTTTATGCAGATATATATAATATATA
ACATATATATATGCAATATCGTGGCATATATTATATATAACCCTGTCACTTATAATCCTATATAC
TAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTTGCTTTTGTACCCTA
AAACCCGAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAGCTAAC
TCATATTCTTCATGCAAATCCAAACACAAAAACCAAGCATTGTAACATTCAAATCAATAAGGGTA
AACCATAAACCATAAACATCAAGCCGTAAAACAATAAATTTGATCATTACATCTTATAAGCCGTA
AACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCTCCTCAAGCCGTAAACCTAAACC
CAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAAACCCTAAAACCC
CAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATAACTTTCATTTAC
GACGTTTTTACAAAAAACGCCACTAATACCAATAAACAGTATAAAAACGAAGTCGTTTCGGTT
Found at i:6724711 original size:113 final size:112
Alignment explanation
Indices: 6724443--6724785 Score: 533
Period size: 113 Copynumber: 3.0 Consensus size: 112
6724433 AACGCCAAAT
* * * *
6724443 GCCGCTGAAGAACGGAGTATTAGCGGCGTTTGGGCAAAAACCGCCACTAGTTTTCCCAAATATAT
1 GCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGG-AAAAACCGCCACTAATGTTCCCAAATATAT
*
6724508 GAAAACAGCGTCGTTCTGTGTTACTCTATTTGCGACGCTTTTTGTAAAAC
65 GAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCG-CGCTTTTTGTAAAAC
* *
6724558 GCCACTGAAGAACGGAGTTTTAGCGGCGCTTAGGAAAAACCGCCACTAATGTTCCCAAATATATG
1 GCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATATATG
* *
6724623 AAAACGGCGTCGTTCTGTGTTACTCCATTGCAGCGCTTTTTATAAAAC
66 AAAACGGCGTCGTTCTGTGTTACTCTATTGC-GCGCTTTTTGTAAAAC
*
6724671 GCCGCTGAAGAAAGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATATATG
1 GCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATATATG
* *
6724736 AAAACGACGTCGTTCTGTGTGACTCTATTGCGGCGCTTTTTGTAAAAC
66 AAAACGGCGTCGTTCTGTGTTACTCTATTGC-GCGCTTTTTGTAAAAC
6724784 GC
1 GC
6724786 TGCTAATGCT
Statistics
Matches: 210, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
113 125 0.60
114 55 0.26
115 30 0.14
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (112 bp):
GCCGCTGAAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAAATATATG
AAAACGGCGTCGTTCTGTGTTACTCTATTGCGCGCTTTTTGTAAAAC
Found at i:6727599 original size:29 final size:29
Alignment explanation
Indices: 6727538--6727613 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
6727528 GATGCTTTTG
*
6727538 TGGCTGAATCTGTTATATATAAGCCTATG
1 TGGCTGAATCTGTTATATATAAGCCTATA
* *
6727567 TGGCTGAATCTATTATATATAATCCT-TAA
1 TGGCTGAATCTGTTATATATAAGCCTAT-A
* *
6727596 TGGCAGAATATGTTATAT
1 TGGCTGAATCTGTTATAT
6727614 GTGGAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (29 bp):
TGGCTGAATCTGTTATATATAAGCCTATA
Found at i:6733979 original size:40 final size:40
Alignment explanation
Indices: 6733924--6733999 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
6733914 TGTATTAACT
*
6733924 ATGATCAATATATTTTAAGTCATGGTAACTTTATAAATAC
1 ATGATCAATATATTTTAAGTCATGGTAACTTAATAAATAC
6733964 ATGATCAATATATTTTAAGTCATGGTAACTTAATAA
1 ATGATCAATATATTTTAAGTCATGGTAACTTAATAA
6734000 TGTATGCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (40 bp):
ATGATCAATATATTTTAAGTCATGGTAACTTAATAAATAC
Found at i:6736910 original size:34 final size:35
Alignment explanation
Indices: 6736844--6736910 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
6736834 CAAACACCAG
*
6736844 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
* * *
6736879 AAAATATTTTCTA-AAAATTATTTTACGGAAAA
1 AAAATATTTTCCAGAAAATCATTTTACAGAAAA
6736911 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGAAAATCATTTTACAGAAAAGT
Done.